Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001465.1 Hibiscus syriacus cultivar Beakdansim tig00002840_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: 11160956
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 34 of 55
Found at i:6771338 original size:24 final size:24
Alignment explanation
Indices: 6771299--6771345 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
6771289 AAATTTGGTC
6771299 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
6771323 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
6771346 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:6773868 original size:19 final size:19
Alignment explanation
Indices: 6773846--6774176 Score: 441
Period size: 19 Copynumber: 18.4 Consensus size: 19
6773836 CGGAAAATAC
*
6773846 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
6773865 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
6773879 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
6773899 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
6773913 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
6773932 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
6773951 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
6773965 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
6773984 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
6774003 AATCGCAA--CG--AT-AG
1 AATCGCAATGCGAAATGAA
6774017 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
6774036 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
6774055 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
6774074 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
*
6774093 AATCGCAATACGAAATGAA
1 AATCGCAATGCGAAATGAA
6774112 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
6774131 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
6774150 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
6774169 AATCGCAA
1 AATCGCAA
6774177 CGAGATAATC
Statistics
Matches: 277, Mismatches: 14, Indels: 42
0.83 0.04 0.13
Matches are distributed among these distances:
14 41 0.15
15 4 0.01
16 7 0.03
17 6 0.02
18 5 0.02
19 201 0.73
20 13 0.05
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.15
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:6774214 original size:52 final size:52
Alignment explanation
Indices: 6773874--6774198 Score: 488
Period size: 52 Copynumber: 6.0 Consensus size: 52
6773864 AAATCCCAAC
6773874 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
6773927 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
*
6773979 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGATAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
* *
6774031 ATGAAAATCGCAATGCGAAATTAAAATCGCAATGCGAAATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAGAATCGCAATGCGAA
* * *
6774088 ATTAAAATCGCAATACGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAGAATCGCAATGCGAA
*
6774145 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGATAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
6774197 AT
1 AT
6774199 TATAAACGCA
Statistics
Matches: 257, Mismatches: 10, Indels: 11
0.92 0.04 0.04
Matches are distributed among these distances:
52 136 0.53
53 17 0.07
54 2 0.01
55 2 0.01
56 1 0.00
57 99 0.39
ACGTcount: A:0.47, C:0.17, G:0.21, T:0.16
Consensus pattern (52 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
Found at i:6774314 original size:19 final size:19
Alignment explanation
Indices: 6774205--6774306 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
6774195 AAATTATAAA
6774205 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
6774224 CCGCATTGCGATTTTCATTT
1 -CGCATTGCGATTTTCATTT
*
6774244 CGCATTGCGA--TTC-TCT
1 CGCATTGCGATTTTCATTT
6774260 CG--TTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
6774277 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
6774296 CGCATTGCGAT
1 CGCATTGCGAT
6774307 AGTCATTTTG
Statistics
Matches: 75, Mismatches: 2, Indels: 11
0.85 0.02 0.12
Matches are distributed among these distances:
14 6 0.08
16 7 0.09
17 7 0.09
19 36 0.48
20 19 0.25
ACGTcount: A:0.15, C:0.24, G:0.18, T:0.44
Consensus pattern (19 bp):
CGCATTGCGATTTTCATTT
Found at i:6774431 original size:14 final size:14
Alignment explanation
Indices: 6774412--6774448 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
6774402 CATCAATTAC
6774412 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
6774426 ACAAATCATCTTTT
1 ACAAATCAACTTTT
6774440 ACAAATCAA
1 ACAAATCAA
6774449 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:6774460 original size:12 final size:12
Alignment explanation
Indices: 6774443--6774515 Score: 53
Period size: 12 Copynumber: 6.0 Consensus size: 12
6774433 ATCTTTTACA
6774443 AATCAATTAAAC
1 AATCAATTAAAC
*
6774455 AATCAA--AAATTG
1 AATCAATTAAA--C
**
6774467 AATCAACTTTTAC
1 AATCAA-TTAAAC
6774480 AAATCAATTAAAC
1 A-ATCAATTAAAC
*
6774493 AATCAA-AAAAC
1 AATCAATTAAAC
6774504 AATCAATTAAAC
1 AATCAATTAAAC
6774516 TATTGAATCA
Statistics
Matches: 46, Mismatches: 8, Indels: 14
0.68 0.12 0.21
Matches are distributed among these distances:
10 3 0.07
11 10 0.22
12 21 0.46
13 6 0.13
14 5 0.11
15 1 0.02
ACGTcount: A:0.58, C:0.16, G:0.01, T:0.25
Consensus pattern (12 bp):
AATCAATTAAAC
Found at i:6774477 original size:38 final size:38
Alignment explanation
Indices: 6774429--6774501 Score: 137
Period size: 38 Copynumber: 1.9 Consensus size: 38
6774419 AACTTTTACA
*
6774429 AATCATCTTTTACAAATCAATTAAACAATCAAAAATTG
1 AATCAACTTTTACAAATCAATTAAACAATCAAAAATTG
6774467 AATCAACTTTTACAAATCAATTAAACAATCAAAAA
1 AATCAACTTTTACAAATCAATTAAACAATCAAAAA
6774502 ACAATCAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.53, C:0.16, G:0.01, T:0.29
Consensus pattern (38 bp):
AATCAACTTTTACAAATCAATTAAACAATCAAAAATTG
Found at i:6776353 original size:19 final size:19
Alignment explanation
Indices: 6776313--6776447 Score: 110
Period size: 19 Copynumber: 7.6 Consensus size: 19
6776303 TAGTTTACTT
* *
6776313 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
6776333 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
6776352 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
6776371 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
6776385 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
6776404 TCGCAA--CG-AA--AGAA
1 TCGCAACGCGAAACCAAAA
**
6776418 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
6776437 TCGCAATGCGA
1 TCGCAACGCGA
6776448 TTTTGGTTTC
Statistics
Matches: 95, Mismatches: 10, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 18 0.19
15 1 0.01
16 6 0.06
17 6 0.06
18 1 0.01
19 50 0.53
20 13 0.14
ACGTcount: A:0.46, C:0.26, G:0.19, T:0.10
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:6776388 original size:14 final size:14
Alignment explanation
Indices: 6776369--6776425 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
6776359 GCGAAATGAA
6776369 AATCGCAACGACAG
1 AATCGCAACGACAG
*
6776383 AATCGCAACGCGAAACCAA
1 AATCGCAA--CG--A-CAG
*
6776402 AATCGCAACGAAAG
1 AATCGCAACGACAG
6776416 AATCGCAACG
1 AATCGCAACG
6776426 CGAAATGAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 19 0.54
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.46, C:0.28, G:0.19, T:0.07
Consensus pattern (14 bp):
AATCGCAACGACAG
Found at i:6776392 original size:33 final size:33
Alignment explanation
Indices: 6776350--6776442 Score: 159
Period size: 33 Copynumber: 2.8 Consensus size: 33
6776340 GCGAAACCAA
*
6776350 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
**
6776383 AATCGCAACGCGAAACCAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
6776416 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
6776443 TGCGATTTTG
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 55 1.00
ACGTcount: A:0.47, C:0.25, G:0.19, T:0.09
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:6776439 original size:52 final size:54
Alignment explanation
Indices: 6776313--6776447 Score: 149
Period size: 52 Copynumber: 2.5 Consensus size: 54
6776303 TAGTTTACTT
*
6776313 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAATGAAAA
1 TCGCAAC-CGAAA-TGAAAATCGCAACGCGAAACCAAAATCGCAAC-CGAAATG-AAA
*
6776371 TCGCAA-CGACA-G--AATCGCAACGCGAAACCAAAATCGCAA-CGAAA-G-AA
1 TCGCAACCGAAATGAAAATCGCAACGCGAAACCAAAATCGCAACCGAAATGAAA
*
6776418 TCGCAACGCGAAATGAAAATCGCAATGCGA
1 TCGCAAC-CGAAATGAAAATCGCAACGCGA
6776448 TTTTGGTTTC
Statistics
Matches: 68, Mismatches: 4, Indels: 16
0.77 0.05 0.18
Matches are distributed among these distances:
47 8 0.12
49 5 0.07
50 6 0.09
52 39 0.57
56 4 0.06
58 6 0.09
ACGTcount: A:0.46, C:0.26, G:0.19, T:0.10
Consensus pattern (54 bp):
TCGCAACCGAAATGAAAATCGCAACGCGAAACCAAAATCGCAACCGAAATGAAA
Found at i:6776465 original size:19 final size:19
Alignment explanation
Indices: 6776443--6776571 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
6776433 AAAATCGCAA
6776443 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
6776462 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
6776476 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
6776495 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
6776509 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
6776528 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
6776547 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
6776567 TGCGA
1 TGCGA
6776572 AAGTAAACTA
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 22 0.24
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 48 0.53
20 13 0.14
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:6776485 original size:33 final size:33
Alignment explanation
Indices: 6776443--6776534 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
6776433 AAAATCGCAA
6776443 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
6776476 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
6776509 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
6776535 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:6776774 original size:93 final size:93
Alignment explanation
Indices: 6776615--6776994 Score: 744
Period size: 93 Copynumber: 4.1 Consensus size: 93
6776605 TTGAATGGAT
6776615 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
6776680 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
6776708 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
6776773 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
6776801 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
6776865 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
6776893 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
*
6776958 AGTTTAGCAGAATTGGCAGCAACCGAAT
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
6776986 AAATTTACT
1 AAATTTACT
6776995 AAGCAATCTA
Statistics
Matches: 285, Mismatches: 1, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
92 92 0.32
93 193 0.68
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:6776928 original size:185 final size:186
Alignment explanation
Indices: 6776615--6776994 Score: 744
Period size: 185 Copynumber: 2.0 Consensus size: 186
6776605 TTGAATGGAT
6776615 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
6776680 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
6776745 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
131 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
6776801 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
6776865 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
*
6776930 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAT
131 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
6776986 AAATTTACT
1 AAATTTACT
6776995 AAGCAATCTA
Statistics
Matches: 193, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
185 154 0.80
186 39 0.20
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (186 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:6778717 original size:14 final size:14
Alignment explanation
Indices: 6778698--6778787 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
6778688 TTGAAATGAA
6778698 AATCGCAACGAGAG
1 AATCGCAACGAGAG
6778712 AATCGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
6778729 ACAATCGCAACGAGAG
1 --AATCGCAACGAGAG
*
6778745 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
6778764 AATCGCAACGAGAG
1 AATCGCAACGAGAG
6778778 AATCGCAACG
1 AATCGCAACG
6778788 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:0.42, C:0.23, G:0.26, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:6778735 original size:33 final size:33
Alignment explanation
Indices: 6778690--6778804 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
6778680 TCTTTTGGTT
6778690 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
6778723 GAGATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
6778756 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
6778789 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
6778805 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:0.45, C:0.21, G:0.24, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:6778736 original size:19 final size:18
Alignment explanation
Indices: 6778697--6778809 Score: 88
Period size: 19 Copynumber: 6.8 Consensus size: 18
6778687 GTTGAAATGA
6778697 AAATCGCAA--CGAGA-G
1 AAATCGCAACGCGAGATG
6778712 -AATCGCAACGCGAGATG
1 AAATCGCAACGCGAGATG
6778729 ACAATCGCAA--CGAGA-G
1 A-AATCGCAACGCGAGATG
*
6778745 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
6778762 AAAATCGCAA--CGAGA-G
1 -AAATCGCAACGCGAGATG
*
6778778 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
*
6778795 AAAATCGCAATGCGA
1 -AAATCGCAACGCGA
6778810 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:0.43, C:0.22, G:0.25, T:0.10
Consensus pattern (18 bp):
AAATCGCAACGCGAGATG
Found at i:6778853 original size:33 final size:33
Alignment explanation
Indices: 6778805--6778875 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
6778795 AAAATCGCAA
**
6778805 TGCGATTTTGGTTTCGCGTTGCGATTCTATCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTATCGT
*
6778838 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTATCGT
6778871 TGCGA
1 TGCGA
6778876 CAGTCATTCT
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:0.10, C:0.21, G:0.25, T:0.44
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTATCGT
Found at i:6778883 original size:33 final size:33
Alignment explanation
Indices: 6778816--6778897 Score: 110
Period size: 33 Copynumber: 2.5 Consensus size: 33
6778806 GCGATTTTGG
***
6778816 TTTCGCGTTGCGATTCTATCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTCTATCGTTGCGACAGTCA
*
6778849 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
1 TTTCGCGTTGCGATTCTATCGTTGCGACAGTCA
*
6778882 TTCTCTCGTTGCGATT
1 TT-TCGCGTTGCGATT
6778898 TTCATTTATC
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
33 31 0.72
34 12 0.28
ACGTcount: A:0.11, C:0.24, G:0.22, T:0.43
Consensus pattern (33 bp):
TTTCGCGTTGCGATTCTATCGTTGCGACAGTCA
Found at i:6779038 original size:33 final size:33
Alignment explanation
Indices: 6778996--6779066 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
6778986 AATACTAACT
*
6778996 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
6779029 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
6779062 TGAAA
1 TGAAA
6779067 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:6779300 original size:22 final size:22
Alignment explanation
Indices: 6779248--6779302 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
6779238 TGGTTGTGAG
**
6779248 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
6779270 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
6779292 GGATTTCTTCG
1 GGATTTCTTCG
6779303 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:6779474 original size:20 final size:20
Alignment explanation
Indices: 6779448--6779641 Score: 203
Period size: 20 Copynumber: 9.7 Consensus size: 20
6779438 CTTTAAATAT
6779448 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* * *
6779468 TGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
6779490 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
6779509 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* * **
6779529 CACATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
6779549 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
6779569 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
6779589 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
6779609 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
6779629 CGCGTTGCGATTT
1 CGCGTTGCGATTT
6779642 TGGAAAATCG
Statistics
Matches: 144, Mismatches: 25, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
19 2 0.01
20 125 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.20, C:0.19, G:0.25, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:6779635 original size:60 final size:60
Alignment explanation
Indices: 6779448--6779641 Score: 235
Period size: 60 Copynumber: 3.2 Consensus size: 60
6779438 CTTTAAATAT
* **
6779448 CGCGTTGCGATTTACGGATATGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * * *** *
6779509 CGCGTTGCGATATACGGATACACATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
6779569 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
6779629 CGCGTTGCGATTT
1 CGCGTTGCGATTT
6779642 TGGAAAATCG
Statistics
Matches: 109, Mismatches: 24, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
60 83 0.76
61 26 0.24
ACGTcount: A:0.20, C:0.19, G:0.25, T:0.36
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:6779658 original size:21 final size:20
Alignment explanation
Indices: 6779634--6779710 Score: 57
Period size: 21 Copynumber: 3.7 Consensus size: 20
6779624 ATATTCGCGT
6779634 TGCGATTTTGGAAAATCGCAA
1 TGCGATTTTGGAAAATCGC-A
* * **
6779655 TGCGAATTTGTACTATCGCA
1 TGCGATTTTGGAAAATCGCA
* *
6779675 TCGCGATTTT-CAAGAATCGCGT
1 T-GCGATTTTGGAA-AATCGC-A
6779697 TGCGATTTTGGAAA
1 TGCGATTTTGGAAA
6779711 CTGATTTGCG
Statistics
Matches: 42, Mismatches: 10, Indels: 8
0.70 0.17 0.13
Matches are distributed among these distances:
20 3 0.07
21 36 0.86
22 3 0.07
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.32
Consensus pattern (20 bp):
TGCGATTTTGGAAAATCGCA
Found at i:6779721 original size:20 final size:20
Alignment explanation
Indices: 6779696--6779747 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
6779686 AAGAATCGCG
*
6779696 TTGCGATTTTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
6779716 TTGCGATTCTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
6779736 TTGCGATTCTGG
1 TTGCGATTCTGG
6779748 GGATCGCGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.21, C:0.13, G:0.27, T:0.38
Consensus pattern (20 bp):
TTGCGATTCTGGAAACTGAT
Found at i:6783539 original size:13 final size:13
Alignment explanation
Indices: 6783521--6783545 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6783511 TAGACATTTA
6783521 ATTTGAATTTGGG
1 ATTTGAATTTGGG
6783534 ATTTGAATTTGG
1 ATTTGAATTTGG
6783546 CCTTCAATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.00, G:0.28, T:0.48
Consensus pattern (13 bp):
ATTTGAATTTGGG
Found at i:6784175 original size:20 final size:20
Alignment explanation
Indices: 6784147--6784207 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 20
6784137 TCATCATGCT
6784147 CGAAAGACTTACTGATGGCC
1 CGAAAGACTTACTGATGGCC
* * *
6784167 CGAAGGACTTCATCATCAT-GCT
1 CGAAAGACTT-A-C-TGATGGCC
6784189 CGAAAGACTTACTGATGGC
1 CGAAAGACTTACTGATGGC
6784208 ACTTACTGAT
Statistics
Matches: 32, Mismatches: 5, Indels: 8
0.71 0.11 0.18
Matches are distributed among these distances:
19 3 0.09
20 12 0.38
21 2 0.06
22 12 0.38
23 3 0.09
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.23
Consensus pattern (20 bp):
CGAAAGACTTACTGATGGCC
Found at i:6784197 original size:22 final size:21
Alignment explanation
Indices: 6784092--6784199 Score: 82
Period size: 20 Copynumber: 5.1 Consensus size: 21
6784082 CCCGAAGGAT
*
6784092 TTATCATCTTGCTCGAAAGAC
1 TTATCATCATGCTCGAAAGAC
* *
6784113 TTA-CA-AATGACTCG-AAGAAT
1 TTATCATCATG-CTCGAAAG-AC
6784133 TTAATCATCATGCTCGAAAGAC
1 TT-ATCATCATGCTCGAAAGAC
* * *
6784155 TTA-C-TGATGGCCCGAAGGAC
1 TTATCATCAT-GCTCGAAAGAC
6784175 TTCATCATCATGCTCGAAAGAC
1 TT-ATCATCATGCTCGAAAGAC
6784197 TTA
1 TTA
6784200 CTGATGGCAC
Statistics
Matches: 66, Mismatches: 11, Indels: 20
0.68 0.11 0.21
Matches are distributed among these distances:
19 8 0.12
20 21 0.32
21 7 0.11
22 21 0.32
23 9 0.14
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (21 bp):
TTATCATCATGCTCGAAAGAC
Found at i:6784207 original size:42 final size:41
Alignment explanation
Indices: 6784077--6784205 Score: 168
Period size: 42 Copynumber: 3.1 Consensus size: 41
6784067 AAGTCTTATG
* * *
6784077 GATGACCCGAAGGATTTATCATCTTGCTCGAAAGACTTACA
1 GATGACCCGAAGGATTAATCATCATGCTCGAAAGACTTACT
* * *
6784118 AATGACTCGAAGAATTTAATCATCATGCTCGAAAGACTTACT
1 GATGACCCGAAGGA-TTAATCATCATGCTCGAAAGACTTACT
* *
6784160 GATGGCCCGAAGGACTTCATCATCATGCTCGAAAGACTTACT
1 GATGACCCGAAGGA-TTAATCATCATGCTCGAAAGACTTACT
6784202 GATG
1 GATG
6784206 GCACTTACTG
Statistics
Matches: 75, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
41 11 0.15
42 64 0.85
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.26
Consensus pattern (41 bp):
GATGACCCGAAGGATTAATCATCATGCTCGAAAGACTTACT
Found at i:6784555 original size:36 final size:36
Alignment explanation
Indices: 6784451--6784896 Score: 568
Period size: 36 Copynumber: 12.3 Consensus size: 36
6784441 TCTTGCTCTA
*
6784451 AAGGCTTACAGATGAATTTGCTTCACTACTCTTCGGTG
1 AAGGCTTA-AGATG-GTTTGCTTCACTACTCTTCGGTG
* * *
6784489 AAGGCTTAAAATGGATTTGCTTCACCACTCTTTGGTG
1 AAGGCTTAAGATGG-TTTGCTTCACTACTCTTCGGTG
* *
6784526 AAGGCTTAAGATGGTTTGCTTCACTACTCTCCAGTG
1 AAGGCTTAAGATGGTTTGCTTCACTACTCTTCGGTG
* * *
6784562 AAGGCTTAAGATTGATTGCTTCACTACTCTCCGGTG
1 AAGGCTTAAGATGGTTTGCTTCACTACTCTTCGGTG
* ** * * *
6784598 AAGGCTCAAGATGAATTCCTTCACTATTCTTTGGTG
1 AAGGCTTAAGATGGTTTGCTTCACTACTCTTCGGTG
* *
6784634 AATGCTTAGGATGGTTTGCTTCACTACTCTTCGGTG
1 AAGGCTTAAGATGGTTTGCTTCACTACTCTTCGGTG
* * *
6784670 AAGGCTTAAGATGGTTTGCTTCACAACTCTTTTGTTG
1 AAGGCTTAAGATGGTTTGCTTCACTACTC-TTCGGTG
* * *
6784707 AAGGCTTAAAATGATTTGCTTCACTACTCTTTGGTG
1 AAGGCTTAAGATGGTTTGCTTCACTACTCTTCGGTG
* *
6784743 AAGGATTAAGATGGTTTGCTTCACTACTCTTCGATG
1 AAGGCTTAAGATGGTTTGCTTCACTACTCTTCGGTG
* *
6784779 AAGGCTTAGGATGGTTTGCTTCACTACTCTTCGATG
1 AAGGCTTAAGATGGTTTGCTTCACTACTCTTCGGTG
* * *
6784815 AAGGCTTAGGATGGTTTGCTTTACTCCTCTTCGGTG
1 AAGGCTTAAGATGGTTTGCTTCACTACTCTTCGGTG
* *
6784851 AAGGCTTAAGATTGATTGCTTCACTACTCTTCGGTG
1 AAGGCTTAAGATGGTTTGCTTCACTACTCTTCGGTG
6784887 AAGGCTTAAG
1 AAGGCTTAAG
6784897 GTTGACTTGC
Statistics
Matches: 355, Mismatches: 51, Indels: 6
0.86 0.12 0.01
Matches are distributed among these distances:
36 279 0.79
37 68 0.19
38 8 0.02
ACGTcount: A:0.22, C:0.19, G:0.23, T:0.36
Consensus pattern (36 bp):
AAGGCTTAAGATGGTTTGCTTCACTACTCTTCGGTG
Found at i:6784771 original size:181 final size:180
Alignment explanation
Indices: 6784467--6784895 Score: 588
Period size: 181 Copynumber: 2.4 Consensus size: 180
6784457 TACAGATGAA
* *
6784467 TTTGCTTCACTACTCTTCGGTGAAGGCTTAAAATGGATTTGCTTCACCACTCTTTGGTGAAGGCT
1 TTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATGG-TTTGCTTCACAACTCTTTGGTGAAGGCT
* * * * *
6784532 TAAGATGGTTTGCTTCACTACTCTCCAGTGAAGGCTTAAGATTGATTGCTTCACTACTCTCCGGT
65 TAAAATGATTTGCTTCACTACTCTCCAGTGAAGGATTAAGATGGATTGCTTCACTACTCTCCGAT
* * * *
6784597 GAAGGCTCAAGATGAATTCCTTCACTATTCTTTGGTGAATGCTTAGGATGG
130 GAAGGCTCAAGATGAATTCCTTCACTACTCTTCGATGAAGGCTTAGGATGG
*
6784648 TTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATGGTTTGCTTCACAACTCTTTTGTTGAAGGCT
1 TTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATGGTTTGCTTCACAACTC-TTTGGTGAAGGCT
*** * *
6784713 TAAAATGATTTGCTTCACTACTCTTTGGTGAAGGATTAAGATGGTTTGCTTCACTACTCTTCGAT
65 TAAAATGATTTGCTTCACTACTCTCCAGTGAAGGATTAAGATGGATTGCTTCACTACTCTCCGAT
* * ** *
6784778 GAAGGCTTAGGATGGTTTGCTTCACTACTCTTCGATGAAGGCTTAGGATGG
130 GAAGGCTCAAGATGAATTCCTTCACTACTCTTCGATGAAGGCTTAGGATGG
* * * * * *
6784829 TTTGCTTTACTCCTCTTCGGTGAAGGCTTAAGATTGATTGCTTCACTACTCTTCGGTGAAGGCTT
1 TTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATGGTTTGCTTCACAACTCTTTGGTGAAGGCTT
6784894 AA
66 AA
6784896 GGTTGACTTG
Statistics
Matches: 218, Mismatches: 29, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
180 28 0.13
181 190 0.87
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.37
Consensus pattern (180 bp):
TTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATGGTTTGCTTCACAACTCTTTGGTGAAGGCTT
AAAATGATTTGCTTCACTACTCTCCAGTGAAGGATTAAGATGGATTGCTTCACTACTCTCCGATG
AAGGCTCAAGATGAATTCCTTCACTACTCTTCGATGAAGGCTTAGGATGG
Found at i:6786404 original size:125 final size:125
Alignment explanation
Indices: 6786177--6786425 Score: 390
Period size: 125 Copynumber: 2.0 Consensus size: 125
6786167 TAGTGTTGCA
* *
6786177 ACATTATCTTATACTGGTACGAGCCTTCAAAATTCCCCAACACCTCAAATTCTAAGGCTCATTCT
1 ACATTATCTTATACTGGTACGAGCCTTCAAAATGCCCCAACACCTCAAATTCTAAAGCTCATTCT
* * * *
6786242 TAATGCCTTCTTGGTCTGAATCTTGTCATCTCGACATGATGTGGGTTCAGTCGTGCCCCG
66 TAATGCCTCCTTGGTCTGAATATTGTCATCTCAACATGATGTGGATTCAGTCGTGCCCCG
* * * * *
6786302 ACATTATCTTATACTGGTACGGGCCTTCAAAATGCCTCATCACCTCAATTTGTAAAGCTCATTCT
1 ACATTATCTTATACTGGTACGAGCCTTCAAAATGCCCCAACACCTCAAATTCTAAAGCTCATTCT
*
6786367 TCATGCCTCCTTGGTCTGAATATTGTCATCTCAACATGATGTGGATTCAGTCGTGCCCC
66 TAATGCCTCCTTGGTCTGAATATTGTCATCTCAACATGATGTGGATTCAGTCGTGCCCC
6786426 AAAGTGGGTA
Statistics
Matches: 112, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
125 112 1.00
ACGTcount: A:0.23, C:0.27, G:0.16, T:0.33
Consensus pattern (125 bp):
ACATTATCTTATACTGGTACGAGCCTTCAAAATGCCCCAACACCTCAAATTCTAAAGCTCATTCT
TAATGCCTCCTTGGTCTGAATATTGTCATCTCAACATGATGTGGATTCAGTCGTGCCCCG
Found at i:6789331 original size:20 final size:20
Alignment explanation
Indices: 6789308--6789351 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
6789298 CTCTGGCTTC
6789308 TAACTCCTTGTGAGTGGCAT
1 TAACTCCTTGTGAGTGGCAT
6789328 TAACTCCTTGTGAGTGGCAT
1 TAACTCCTTGTGAGTGGCAT
6789348 TAAC
1 TAAC
6789352 AACCTTCACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.34
Consensus pattern (20 bp):
TAACTCCTTGTGAGTGGCAT
Found at i:6789816 original size:13 final size:13
Alignment explanation
Indices: 6789800--6789836 Score: 74
Period size: 13 Copynumber: 2.8 Consensus size: 13
6789790 GAATATATGC
6789800 AATGCAAATGCTA
1 AATGCAAATGCTA
6789813 AATGCAAATGCTA
1 AATGCAAATGCTA
6789826 AATGCAAATGC
1 AATGCAAATGC
6789837 AAAAGGTGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.46, C:0.16, G:0.16, T:0.22
Consensus pattern (13 bp):
AATGCAAATGCTA
Found at i:6789821 original size:6 final size:6
Alignment explanation
Indices: 6789796--6789839 Score: 63
Period size: 6 Copynumber: 7.2 Consensus size: 6
6789786 AAATGAATAT
6789796 ATGC-A ATGCAA ATGCTAA ATGCAA ATGCTAA ATGCAA ATGCAA A
1 ATGCAA ATGCAA ATGC-AA ATGCAA ATGC-AA ATGCAA ATGCAA A
6789840 AGGTGTTAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
5 4 0.11
6 20 0.56
7 12 0.33
ACGTcount: A:0.48, C:0.16, G:0.16, T:0.20
Consensus pattern (6 bp):
ATGCAA
Found at i:6789822 original size:19 final size:19
Alignment explanation
Indices: 6789796--6789839 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
6789786 AAATGAATAT
6789796 ATGC-AATGCAAATGCTAA
1 ATGCAAATGCAAATGCTAA
6789814 ATGCAAATGCTAAATGC-AA
1 ATGCAAATGC-AAATGCTAA
6789833 ATGCAAA
1 ATGCAAA
6789840 AGGTGTTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.17
19 14 0.58
20 6 0.25
ACGTcount: A:0.48, C:0.16, G:0.16, T:0.20
Consensus pattern (19 bp):
ATGCAAATGCAAATGCTAA
Found at i:6800859 original size:2 final size:2
Alignment explanation
Indices: 6800852--6800879 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
6800842 GAGGTTTTTA
6800852 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6800880 TGAATTATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6803022 original size:14 final size:14
Alignment explanation
Indices: 6803003--6803038 Score: 72
Period size: 14 Copynumber: 2.6 Consensus size: 14
6802993 CACACATATA
6803003 TCATATCATGCAAT
1 TCATATCATGCAAT
6803017 TCATATCATGCAAT
1 TCATATCATGCAAT
6803031 TCATATCA
1 TCATATCA
6803039 CACATCATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.36, C:0.22, G:0.06, T:0.36
Consensus pattern (14 bp):
TCATATCATGCAAT
Found at i:6803410 original size:23 final size:23
Alignment explanation
Indices: 6803384--6803444 Score: 95
Period size: 23 Copynumber: 2.7 Consensus size: 23
6803374 CACCAGAGCT
*
6803384 CGTATAATTGCACCGAAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
* *
6803407 CGTAGAATTGCACCGGAGTGCCG
1 CGTAGAATTGCACCGAAGTGCCA
6803430 CGTAGAATTGCACCG
1 CGTAGAATTGCACCG
6803445 TAGTTCCATA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.26, C:0.26, G:0.28, T:0.20
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCA
Found at i:6803639 original size:103 final size:103
Alignment explanation
Indices: 6803468--6803685 Score: 400
Period size: 103 Copynumber: 2.1 Consensus size: 103
6803458 TAATGTCCAT
* *
6803468 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
6803533 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
* *
6803571 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAATGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
6803636 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
6803674 AAGGACCACATA
1 AAGGACCACATA
6803686 GACCCTCGAC
Statistics
Matches: 111, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 111 1.00
ACGTcount: A:0.37, C:0.24, G:0.13, T:0.26
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:6808908 original size:42 final size:41
Alignment explanation
Indices: 6808861--6809015 Score: 145
Period size: 42 Copynumber: 3.7 Consensus size: 41
6808851 ATTGATATTT
** *
6808861 TAGCGGCGTTTGTTGTAAAAACGCTGCAATAGAGTTGACATA
1 TAGCGGCGTTT-TTACAAAAACGCCGCAATAGAGTTGACATA
* *
6808903 TAGCGGCGTTTTTACAACAAACGCCGCAATAGAG-TGATAAA
1 TAGCGGCGTTTTTACAA-AAACGCCGCAATAGAGTTGACATA
* * *
6808944 TTAGCGGCGTTTATACCAAAAACGCCGCAATATA-TTAACATA
1 -TAGCGGCGTTTTTA-CAAAAACGCCGCAATAGAGTTGACATA
* * *
6808986 TAGTGGCG-TTTTAGCCAAAACGCCACAATA
1 TAGCGGCGTTTTTA-CAAAAACGCCGCAATA
6809016 AATCGGTAAA
Statistics
Matches: 94, Mismatches: 15, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
40 18 0.19
41 16 0.17
42 57 0.61
43 3 0.03
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (41 bp):
TAGCGGCGTTTTTACAAAAACGCCGCAATAGAGTTGACATA
Found at i:6809005 original size:41 final size:40
Alignment explanation
Indices: 6808877--6809209 Score: 146
Period size: 42 Copynumber: 7.9 Consensus size: 40
6808867 CGTTTGTTGT
* * * *
6808877 AAAAACGCTGCAATAGAGTTGACATATAGCGGCGTTTTTA-C
1 AAAAACGCCGCAATATA-TTAACATATAGTGGCG-TTTTACC
* *
6808918 AACAAACGCCGCAATAGAGTGATAA-AT-TAGCGGCGTTTATACC
1 AA-AAACGCCGCAATATA-T--TAACATATAGTGGCGTTT-TACC
6808961 AAAAACGCCGCAATATATTAACATATAGTGGCGTTTTAGCC
1 AAAAACGCCGCAATATATTAACATATAGTGGCGTTTTA-CC
* * *
6809002 -AAAACGCCACAATAAATCGGTAA-AT-TAGCGGCGTTGCGTTTATACC
1 AAAAACGCCGCAATATAT---TAACATATA-----GTGGCGTTT-TACC
* * * * *
6809048 ATAAACGCCGCAATAGATTACACATATAGTGGCATTTATTCT
1 AAAAACGCCGCAATATATTA-ACATATAGTGGCGTTT-TACC
* * * * *
6809090 TAAAACGCCGCAATATTTATAATAAATAGTGGCGTTTTTA-G
1 AAAAACGCCGCAATATAT-TAACATATAGTGGCG-TTTTACC
* * *
6809131 ACAAACGCCGCAATAGTGTTAATCA-ATAGTGGCATTTTTA-C
1 AAAAACGCCGCAATA-TATTAA-CATATAGTGGC-GTTTTACC
* *
6809172 AAAAACACCGCAATAGTTTTAATCA-ATAGTGGCGTTTT
1 AAAAACGCCGCAATA-TATTAA-CATATAGTGGCGTTTT
6809210 TTTAACAAAC
Statistics
Matches: 233, Mismatches: 33, Indels: 53
0.73 0.10 0.17
Matches are distributed among these distances:
39 3 0.01
40 23 0.10
41 79 0.34
42 80 0.34
43 13 0.06
44 4 0.02
45 1 0.00
46 12 0.05
47 18 0.08
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (40 bp):
AAAAACGCCGCAATATATTAACATATAGTGGCGTTTTACC
Found at i:6809030 original size:82 final size:85
Alignment explanation
Indices: 6808877--6809080 Score: 229
Period size: 87 Copynumber: 2.4 Consensus size: 85
6808867 CGTTTGTTGT
* * * * *
6808877 AAAAACGCTGCAATAGAGTTGACATATAGCGGCGTTTTTACAACAAACGCCGCAATAGAGTGATA
1 AAAAACGCCGCAATAGA-TTAACATATAGTGGCGTTTTTACAACAAACGCCACAATAGAATGATA
6808942 AATTA-GCG-GCGTTTATACC
65 AATTAGGCGTGCGTTTATACC
* * *
6808961 AAAAACGCCGCAATATATTAACATATAGTGGCG-TTTTAGCCA-AAACGCCACAATA-AATCGGT
1 AAAAACGCCGCAATAGATTAACATATAGTGGCGTTTTTA-CAACAAACGCCACAATAGAAT-GAT
6809023 AAATTAGCGGCGTTGCGTTTATACC
64 AAATTA--GGCG-TGCGTTTATACC
*
6809048 ATAAACGCCGCAATAGATTACACATATAGTGGC
1 AAAAACGCCGCAATAGATTA-ACATATAGTGGC
6809081 ATTTATTCTT
Statistics
Matches: 102, Mismatches: 10, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
81 2 0.02
82 25 0.25
83 16 0.16
84 15 0.15
85 3 0.03
87 29 0.28
88 12 0.12
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (85 bp):
AAAAACGCCGCAATAGATTAACATATAGTGGCGTTTTTACAACAAACGCCACAATAGAATGATAA
ATTAGGCGTGCGTTTATACC
Found at i:6809208 original size:82 final size:82
Alignment explanation
Indices: 6809050--6809251 Score: 236
Period size: 82 Copynumber: 2.5 Consensus size: 82
6809040 TTTATACCAT
* * *
6809050 AAACGCCGCAATAG-ATTACA-CATATAGTGGCATTTATTCTTAAAACGCCGCAATATTTATAAT
1 AAACGCCGCAATAGTGTTA-ATCA-ATAGTGGCATTT-TTCTAAAAACACCGCAATATTTATAAT
6809113 AAATAGTGGCG-TTTTTAGAC
63 AAATAGTGGCGTTTTTTA-AC
*
6809133 AAACGCCGCAATAGTGTTAATCAATAGTGGCATTTTTAC-AAAAACACCGCAATAGTTT-TAATC
1 AAACGCCGCAATAGTGTTAATCAATAGTGGCATTTTT-CTAAAAACACCGCAATA-TTTATAATA
6809196 AATAGTGGCGTTTTTTTAAC
64 AATAGTGGCG-TTTTTTAAC
* * *
6809216 AAACGCCACAATAATG-TAATCAATAGTGGCCTTTTT
1 AAACGCCGCAATAGTGTTAATCAATAGTGGCATTTTT
6809252 TTGTATAAAC
Statistics
Matches: 106, Mismatches: 7, Indels: 13
0.84 0.06 0.10
Matches are distributed among these distances:
82 48 0.45
83 47 0.44
84 11 0.10
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.32
Consensus pattern (82 bp):
AAACGCCGCAATAGTGTTAATCAATAGTGGCATTTTTCTAAAAACACCGCAATATTTATAATAAA
TAGTGGCGTTTTTTAAC
Found at i:6809210 original size:41 final size:40
Alignment explanation
Indices: 6809091--6809251 Score: 178
Period size: 41 Copynumber: 3.9 Consensus size: 40
6809081 ATTTATTCTT
* *
6809091 AAAACGCCGCAATATTTATAATAAATAGTGGCGTTTTTAGA
1 AAAACGCCGCAATATTT-TAATCAATAGTGGCGTTTTTACA
* * *
6809132 CAAACGCCGCAATAGTGTTAATCAATAGTGGCATTTTTACA
1 AAAACGCCGCAATA-TTTTAATCAATAGTGGCGTTTTTACA
* **
6809173 AAAACACCGCAATAGTTTTAATCAATAGTGGCGTTTTTTTA
1 AAAACGCCGCAATA-TTTTAATCAATAGTGGCGTTTTTACA
* * * *
6809214 ACAAACGCCACAATAATGTAATCAATAGTGGCCTTTTT
1 A-AAACGCCGCAATATTTTAATCAATAGTGGCGTTTTT
6809252 TTGTATAAAC
Statistics
Matches: 102, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
41 89 0.87
42 13 0.13
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.32
Consensus pattern (40 bp):
AAAACGCCGCAATATTTTAATCAATAGTGGCGTTTTTACA
Found at i:6809252 original size:42 final size:41
Alignment explanation
Indices: 6809073--6809268 Score: 141
Period size: 41 Copynumber: 4.7 Consensus size: 41
6809063 GATTACACAT
* * * *
6809073 ATAGTGGCATTTATTCTT-A-AAACGCCGCAATATTTATAATAA
1 ATAGTGGCATTT-TT-TTAACAAACGCCACAATA-ATGTAATCA
* * *
6809115 ATAGTGGC--GTTTTTAGACAAACGCCGCAATAGTGTTAATCA
1 ATAGTGGCATTTTTTTA-ACAAACGCCACAATAATG-TAATCA
** * * * *
6809156 ATAGTGGCATTTTTACAA-AAACACCGCAATAGTTTTAATCA
1 ATAGTGGCATTTTTTTAACAAACGCCACAATA-ATGTAATCA
*
6809197 ATAGTGGCGTTTTTTTAACAAACGCCACAATAATGTAATCA
1 ATAGTGGCATTTTTTTAACAAACGCCACAATAATGTAATCA
* * *
6809238 ATAGTGGCCTTTTTTTGTATAAACGCCACAA
1 ATAGTGGCATTTTTTT-AACAAACGCCACAA
6809269 AATATTAAAT
Statistics
Matches: 125, Mismatches: 20, Indels: 18
0.77 0.12 0.11
Matches are distributed among these distances:
38 2 0.02
39 2 0.02
40 3 0.02
41 81 0.65
42 33 0.26
43 4 0.03
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (41 bp):
ATAGTGGCATTTTTTTAACAAACGCCACAATAATGTAATCA
Found at i:6809884 original size:42 final size:42
Alignment explanation
Indices: 6809820--6810186 Score: 431
Period size: 42 Copynumber: 8.8 Consensus size: 42
6809810 TTGTATCCAA
*
6809820 AAACGCCGCTATAA-ACTC-TACTTTAGTGGCGTTTTGAATGC
1 AAACGCCGCTA-AAGACTCGTACTTTAGTGGCGTTTTGAATAC
* * * * * * *
6809861 AAACGACTCTAAAGACACGTACTTTAGTAGCATTTT-TATAT
1 AAACGCCGCTAAAGACTCGTACTTTAGTGGCGTTTTGAATAC
* *
6809902 AAACGCCGCTATAA-ACTAGTACTTTAGTGGCGTTTT-TATAC
1 AAACGCCGCTA-AAGACTCGTACTTTAGTGGCGTTTTGAATAC
* * *
6809943 AAACGCCGCTATAGACTCTTACTTTAGTGGCGTTTTGAATGC
1 AAACGCCGCTAAAGACTCGTACTTTAGTGGCGTTTTGAATAC
* *
6809985 AAACGCCGCTATAGACTCGTAATTTAGTGGCGTTTTGAATAC
1 AAACGCCGCTAAAGACTCGTACTTTAGTGGCGTTTTGAATAC
* * *
6810027 AAACGCTGCTAATGACTCGTACTTTAGTGGCGTTTT-TATAC
1 AAACGCCGCTAAAGACTCGTACTTTAGTGGCGTTTTGAATAC
* * * *
6810068 AAACGCCGCTATAGACTCGTACTTTAGTGGCATTTTTAATGC
1 AAACGCCGCTAAAGACTCGTACTTTAGTGGCGTTTTGAATAC
* * *
6810110 AAACGTCTCTATAGACTCGTACTTTAGTGGCGTTTTGAATAC
1 AAACGCCGCTAAAGACTCGTACTTTAGTGGCGTTTTGAATAC
* *
6810152 AAACGCTGCTAATGACTCGTACTTTAGTGGCGTTT
1 AAACGCCGCTAAAGACTCGTACTTTAGTGGCGTTT
6810187 GTATTTACAA
Statistics
Matches: 276, Mismatches: 44, Indels: 11
0.83 0.13 0.03
Matches are distributed among these distances:
40 3 0.01
41 112 0.41
42 161 0.58
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (42 bp):
AAACGCCGCTAAAGACTCGTACTTTAGTGGCGTTTTGAATAC
Found at i:6809937 original size:83 final size:82
Alignment explanation
Indices: 6809820--6810186 Score: 452
Period size: 83 Copynumber: 4.4 Consensus size: 82
6809810 TTGTATCCAA
* * *
6809820 AAACGCCGCTATAAACTC-TACTTTAGTGGCGTTTTGAATGCAAACGACTCTAAAGACACGTACT
1 AAACGCCGCTATAGACTCGTACTTTAGTGGCGTTTTGAATACAAACG-CTCTAAAGACTCGTACT
* * *
6809884 TTAGTAGCATTTTTATAT
65 TTAGTGGCGTTTTTATAC
* * * * * *
6809902 AAACGCCGCTATAAACTAGTACTTTAGTGGCGTTTT-TATACAAACGCCGCTATAGACTCTTACT
1 AAACGCCGCTATAGACTCGTACTTTAGTGGCGTTTTGAATACAAACG-CTCTAAAGACTCGTACT
* *
6809966 TTAGTGGCGTTTTGAATGC
65 TTAGTGGCGTTTT-TATAC
* *
6809985 AAACGCCGCTATAGACTCGTAATTTAGTGGCGTTTTGAATACAAACGCTGCTAATGACTCGTACT
1 AAACGCCGCTATAGACTCGTACTTTAGTGGCGTTTTGAATACAAACGCT-CTAAAGACTCGTACT
6810050 TTAGTGGCGTTTTTATAC
65 TTAGTGGCGTTTTTATAC
* * * *
6810068 AAACGCCGCTATAGACTCGTACTTTAGTGGCATTTTTAATGCAAACGTCTCTATAGACTCGTACT
1 AAACGCCGCTATAGACTCGTACTTTAGTGGCGTTTTGAATACAAACG-CTCTAAAGACTCGTACT
*
6810133 TTAGTGGCGTTTTGAATAC
65 TTAGTGGCGTTTT-TATAC
*
6810152 AAACGCTGCTA-ATGACTCGTACTTTAGTGGCGTTT
1 AAACGCCGCTATA-GACTCGTACTTTAGTGGCGTTT
6810187 GTATTTACAA
Statistics
Matches: 246, Mismatches: 32, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
82 49 0.20
83 126 0.51
84 71 0.29
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (82 bp):
AAACGCCGCTATAGACTCGTACTTTAGTGGCGTTTTGAATACAAACGCTCTAAAGACTCGTACTT
TAGTGGCGTTTTTATAC
Found at i:6810072 original size:125 final size:124
Alignment explanation
Indices: 6809820--6810186 Score: 549
Period size: 125 Copynumber: 3.0 Consensus size: 124
6809810 TTGTATCCAA
* * *
6809820 AAACGCCGCTATAAACTCTACTTTAGTGGCGTTTTGAATGCAAACGACTCTAAAGACACGTACTT
1 AAACGCCGCTATAGACTCTACTTTAGTGGCGTTTTGAATGCAAACGACTCTATAGACTCGTACTT
* * * * * * *
6809885 TAGTAGCATTTT-TATATAAACGCCGCT-ATAAACTAGTACTTTAGTGGCGTTTTTATAC
66 TAGTGGCGTTTTGAATACAAACGCTGCTAAT-GACTCGTACTTTAGTGGCGTTTTTATAC
* * *
6809943 AAACGCCGCTATAGACTCTTACTTTAGTGGCGTTTTGAATGCAAACGCCGCTATAGACTCGTAAT
1 AAACGCCGCTATAGACTC-TACTTTAGTGGCGTTTTGAATGCAAACGACTCTATAGACTCGTACT
6810008 TTAGTGGCGTTTTGAATACAAACGCTGCTAATGACTCGTACTTTAGTGGCGTTTTTATAC
65 TTAGTGGCGTTTTGAATACAAACGCTGCTAATGACTCGTACTTTAGTGGCGTTTTTATAC
* * *
6810068 AAACGCCGCTATAGACTCGTACTTTAGTGGCATTTTTAATGCAAACGTCTCTATAGACTCGTACT
1 AAACGCCGCTATAGACTC-TACTTTAGTGGCGTTTTGAATGCAAACGACTCTATAGACTCGTACT
6810133 TTAGTGGCGTTTTGAATACAAACGCTGCTAATGACTCGTACTTTAGTGGCGTTT
65 TTAGTGGCGTTTTGAATACAAACGCTGCTAATGACTCGTACTTTAGTGGCGTTT
6810187 GTATTTACAA
Statistics
Matches: 222, Mismatches: 19, Indels: 4
0.91 0.08 0.02
Matches are distributed among these distances:
123 17 0.08
124 52 0.23
125 151 0.68
126 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (124 bp):
AAACGCCGCTATAGACTCTACTTTAGTGGCGTTTTGAATGCAAACGACTCTATAGACTCGTACTT
TAGTGGCGTTTTGAATACAAACGCTGCTAATGACTCGTACTTTAGTGGCGTTTTTATAC
Found at i:6813073 original size:3 final size:3
Alignment explanation
Indices: 6813065--6813120 Score: 112
Period size: 3 Copynumber: 18.7 Consensus size: 3
6813055 TATAGCTTTC
6813065 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
6813113 ATA ATA AT
1 ATA ATA AT
6813121 GATGATGATG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:6815156 original size:43 final size:43
Alignment explanation
Indices: 6815067--6815319 Score: 229
Period size: 43 Copynumber: 5.9 Consensus size: 43
6815057 CGTTTTCGAT
* * * * **
6815067 AAAAACGCCGCTAAATC-TCAACGCGTATTGCGGCGCTTGTTTG
1 AAAAACGCCGCTAAA-CAACAACACCTATTGCGGCGTTTGTAAG
* * * **
6815110 AAAAACACCGCTAAACAACAACACCTATTACGACGTTTGTGGG
1 AAAAACGCCGCTAAACAACAACACCTATTGCGGCGTTTGTAAG
* * * *
6815153 AAAAACACCGCTAAACAACGATATCTATTGCGGCGTTTGTAAG
1 AAAAACGCCGCTAAACAACAACACCTATTGCGGCGTTTGTAAG
** * * * * **
6815196 CCAAACGCCGCTAAATAGCAATACCTACTGCGGCGTTTGTGGG
1 AAAAACGCCGCTAAACAACAACACCTATTGCGGCGTTTGTAAG
* *
6815239 AAAAACGCCGCTAAACAACAACACCTATTGCGGCATTTTTAAG
1 AAAAACGCCGCTAAACAACAACACCTATTGCGGCGTTTGTAAG
* * * *
6815282 ACAAACGCCGCTAAATAGCAACACCTATTACGGCGTTT
1 AAAAACGCCGCTAAACAACAACACCTATTGCGGCGTTT
6815320 TTTCAACAAA
Statistics
Matches: 168, Mismatches: 41, Indels: 2
0.80 0.19 0.01
Matches are distributed among these distances:
42 1 0.01
43 167 0.99
ACGTcount: A:0.34, C:0.26, G:0.19, T:0.22
Consensus pattern (43 bp):
AAAAACGCCGCTAAACAACAACACCTATTGCGGCGTTTGTAAG
Found at i:6815321 original size:43 final size:43
Alignment explanation
Indices: 6815026--6815364 Score: 227
Period size: 43 Copynumber: 7.9 Consensus size: 43
6815016 TTTTTACCAC
* * * * ** *
6815026 AAACGCCGCTAAATATCATA-ACATGTAGCGGCGTTTTCGATAA
1 AAACGCCGCTAAATAACA-ACACCTATTGCGGCGTTTTTAAGAA
** * *
6815069 AAACGCCGCTAAATCTCAACGCGTATTGCGGCGCTTGTTT--GAA
1 AAACGCCGCTAAATAACAACACCTATTGCGGCG-TT-TTTAAGAA
* * * * * **
6815112 AAACACCGCTAAACAACAACACCTATTACGACGTTTGTGGGAA
1 AAACGCCGCTAAATAACAACACCTATTGCGGCGTTTTTAAGAA
* * * * * * **
6815155 AAACACCGCTAAACAACGATATCTATTGCGGCGTTTGTAAGCC
1 AAACGCCGCTAAATAACAACACCTATTGCGGCGTTTTTAAGAA
* * * * **
6815198 AAACGCCGCTAAATAGCAATACCTACTGCGGCGTTTGTGGGAA
1 AAACGCCGCTAAATAACAACACCTATTGCGGCGTTTTTAAGAA
* * *
6815241 AAACGCCGCTAAACAACAACACCTATTGCGGCATTTTTAAGAC
1 AAACGCCGCTAAATAACAACACCTATTGCGGCGTTTTTAAGAA
* * * *
6815284 AAACGCCGCTAAATAGCAACACCTATTACGGCGTTTTTTCA-AC
1 AAACGCCGCTAAATAACAACACCTATTGCGGCG-TTTTTAAGAA
* * **
6815327 AAACGCCGCTATATATCGTCACCTATTGCGGCGTTTTT
1 AAACGCCGCTAAATAACAACACCTATTGCGGCGTTTTT
6815365 CATTAACAAA
Statistics
Matches: 236, Mismatches: 54, Indels: 13
0.78 0.18 0.04
Matches are distributed among these distances:
41 2 0.01
42 8 0.03
43 216 0.92
44 8 0.03
45 2 0.01
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.24
Consensus pattern (43 bp):
AAACGCCGCTAAATAACAACACCTATTGCGGCGTTTTTAAGAA
Found at i:6815331 original size:86 final size:86
Alignment explanation
Indices: 6815112--6815364 Score: 301
Period size: 86 Copynumber: 2.9 Consensus size: 86
6815102 CTTGTTTGAA
* * * * * * *
6815112 AAACACCGCTAAACAACAACACCTATTACGACGTTTGTGGGAAAAACACCGCTAAACAACGATAT
1 AAACGCCGCTAAATAGCAACACCTATTACGGCGTTTGTGGGAAAAACGCCGCTAAACAACGACAC
* *
6815177 CTATTGCGGCGTTTGTAAGCC
66 CTATTGCGGCGTTTTTAAGAC
* * * *
6815198 AAACGCCGCTAAATAGCAATACCTACTGCGGCGTTTGTGGGAAAAACGCCGCTAAACAACAACAC
1 AAACGCCGCTAAATAGCAACACCTATTACGGCGTTTGTGGGAAAAACGCCGCTAAACAACGACAC
*
6815263 CTATTGCGGCATTTTTAAGAC
66 CTATTGCGGCGTTTTTAAGAC
*** * * * *
6815284 AAACGCCGCTAAATAGCAACACCTATTACGGCGTTT-TTTCAACAAACGCCGCTATATATCGTCA
1 AAACGCCGCTAAATAGCAACACCTATTACGGCGTTTGTGGGAA-AAACGCCGCTAAACAACGACA
6815348 CCTATTGCGGCGTTTTT
65 CCTATTGCGGCGTTTTT
6815365 CATTAACAAA
Statistics
Matches: 140, Mismatches: 26, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
85 3 0.02
86 137 0.98
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (86 bp):
AAACGCCGCTAAATAGCAACACCTATTACGGCGTTTGTGGGAAAAACGCCGCTAAACAACGACAC
CTATTGCGGCGTTTTTAAGAC
Found at i:6815357 original size:129 final size:128
Alignment explanation
Indices: 6815069--6815362 Score: 286
Period size: 129 Copynumber: 2.3 Consensus size: 128
6815059 TTTTCGATAA
** ** * * **
6815069 AAACGCCGCTAAATCTCAACGCGTATTGCGGCGCTTGTTTGAAAAACACCGCTAAACAACAACAC
1 AAACGCCGCTAAATAGCAATACCTATTGCGGCGTTTGTGGGAAAAACACCGCTAAACAACAACAC
* ** * * * *
6815134 CTATTACGACGTTTGTGGGAAAAACACCGCTAAACAACGATATCTATTGCGGCGTTTGTAAGCC
66 CTATTACGACATTTGTAAGAAAAACACCGCTAAACAACAACACCTATTACGGCGTTTGTAA-CC
* *
6815198 AAACGCCGCTAAATAGCAATACCTACTGCGGCGTTTGTGGGAAAAACGCCGCTAAACAACAACAC
1 AAACGCCGCTAAATAGCAATACCTATTGCGGCGTTTGTGGGAAAAACACCGCTAAACAACAACAC
* * * * * * * *
6815263 CTATTGCGGCATTTTTAAGACAAACGCCGCTAAATAGCAACACCTATTACGGCGTTTTTTCAA-C
66 CTATTACGACATTTGTAAGAAAAACACCGCTAAACAACAACACCTATTACGGCG-TTTGT-AACC
* * *
6815327 AAACGCCGCTATATATC-GTCACCTATTGCGGCGTTT
1 AAACGCCGCTAAATAGCAAT-ACCTATTGCGGCGTTT
6815363 TTCATTAACA
Statistics
Matches: 133, Mismatches: 29, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
128 1 0.01
129 126 0.95
130 4 0.03
131 2 0.02
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.23
Consensus pattern (128 bp):
AAACGCCGCTAAATAGCAATACCTATTGCGGCGTTTGTGGGAAAAACACCGCTAAACAACAACAC
CTATTACGACATTTGTAAGAAAAACACCGCTAAACAACAACACCTATTACGGCGTTTGTAACC
Found at i:6833632 original size:5 final size:5
Alignment explanation
Indices: 6833622--6833655 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
6833612 GACGTGTTTC
* *
6833622 TTTTA TTTTA TTTTA TTTTA TTTTC TTTTC TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
6833656 TAAAAAAAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.12, C:0.06, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTA
Found at i:6834347 original size:21 final size:20
Alignment explanation
Indices: 6834285--6834436 Score: 121
Period size: 20 Copynumber: 7.5 Consensus size: 20
6834275 CTCAATTTTT
*
6834285 AAATTCGCAACGCGAATAT-
1 AAATTCGCAACGCGAATGTC
* * *
6834304 ATAAATCGTAACACAGAA-GTC
1 A-AATTCGCAACGC-GAATGTC
*
6834325 AAATTCGCAACGCTGAATTTC
1 AAATTCGCAACGC-GAATGTC
*
6834346 AAATTTGCAACGCG-ATAGTC
1 AAATTCGCAACGCGAAT-GTC
* *
6834366 AAATTCGCAACACTGAATTTC
1 AAATTCGCAACGC-GAATGTC
* * *
6834387 AAATTCGCAACACAAAAGTC
1 AAATTCGCAACGCGAATGTC
* *
6834407 AAATTCGCAACGCGAAAGCC
1 AAATTCGCAACGCGAATGTC
6834427 AAATTCGCAA
1 AAATTCGCAA
6834437 AGCGCGTTTA
Statistics
Matches: 106, Mismatches: 20, Indels: 13
0.76 0.14 0.09
Matches are distributed among these distances:
19 3 0.03
20 67 0.63
21 34 0.32
22 2 0.02
ACGTcount: A:0.41, C:0.23, G:0.14, T:0.21
Consensus pattern (20 bp):
AAATTCGCAACGCGAATGTC
Found at i:6834374 original size:41 final size:41
Alignment explanation
Indices: 6834285--6834436 Score: 168
Period size: 41 Copynumber: 3.8 Consensus size: 41
6834275 CTCAATTTTT
* *
6834285 AAATTCGCAACGC-GAATATAT-AAA-TCGTAACACAGAAGTC
1 AAATTCGCAACGCTGAAT-T-TCAAATTCGCAACACAAAAGTC
* * * *
6834325 AAATTCGCAACGCTGAATTTCAAATTTGCAACGCGATAGTC
1 AAATTCGCAACGCTGAATTTCAAATTCGCAACACAAAAGTC
*
6834366 AAATTCGCAACACTGAATTTCAAATTCGCAACACAAAAGTC
1 AAATTCGCAACGCTGAATTTCAAATTCGCAACACAAAAGTC
***
6834407 AAATTCGCAACGC-GAAAGCCAAATTCGCAA
1 AAATTCGCAACGCTGAATTTCAAATTCGCAA
6834437 AGCGCGTTTA
Statistics
Matches: 94, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
39 1 0.01
40 31 0.33
41 62 0.66
ACGTcount: A:0.41, C:0.23, G:0.14, T:0.21
Consensus pattern (41 bp):
AAATTCGCAACGCTGAATTTCAAATTCGCAACACAAAAGTC
Found at i:6834378 original size:61 final size:61
Alignment explanation
Indices: 6834285--6834436 Score: 155
Period size: 61 Copynumber: 2.5 Consensus size: 61
6834275 CTCAATTTTT
*** * * * **
6834285 AAATTCGCAACGCGAATATATAAA-TCGTAACACAGAA-GTCAAATTCGCAACGCTGAATTTC
1 AAATTCGCAACGCGAA-AGCCAAATTCGCAACACAGAATGTCAAATTCGCAACAC-AAAAGTC
* * * * *
6834346 AAATTTGCAACGCGATAGTCAAATTCGCAACACTGAATTTCAAATTCGCAACACAAAAGTC
1 AAATTCGCAACGCGAAAGCCAAATTCGCAACACAGAATGTCAAATTCGCAACACAAAAGTC
6834407 AAATTCGCAACGCGAAAGCCAAATTCGCAA
1 AAATTCGCAACGCGAAAGCCAAATTCGCAA
6834437 AGCGCGTTTA
Statistics
Matches: 74, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
60 4 0.05
61 56 0.76
62 14 0.19
ACGTcount: A:0.41, C:0.23, G:0.14, T:0.21
Consensus pattern (61 bp):
AAATTCGCAACGCGAAAGCCAAATTCGCAACACAGAATGTCAAATTCGCAACACAAAAGTC
Found at i:6834652 original size:26 final size:22
Alignment explanation
Indices: 6834584--6834641 Score: 98
Period size: 22 Copynumber: 2.6 Consensus size: 22
6834574 TCACTCTCTA
* *
6834584 CGACGACATCCATCCCCATCTC
1 CGACGAAATCCGTCCCCATCTC
6834606 CGACGAAATCCGTCCCCATCTC
1 CGACGAAATCCGTCCCCATCTC
6834628 CGACGAAATCCGTC
1 CGACGAAATCCGTC
6834642 TATCTCCATC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.24, C:0.45, G:0.14, T:0.17
Consensus pattern (22 bp):
CGACGAAATCCGTCCCCATCTC
Found at i:6835003 original size:20 final size:20
Alignment explanation
Indices: 6834980--6835025 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
6834970 AAACTTAAAT
*
6834980 TCGCAACACGAAAATGAAAA
1 TCGCAACACCAAAATGAAAA
6835000 TCGCAACACCAAAATGAAAA
1 TCGCAACACCAAAATGAAAA
6835020 TCGCAA
1 TCGCAA
6835026 TGCTATTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.52, C:0.24, G:0.13, T:0.11
Consensus pattern (20 bp):
TCGCAACACCAAAATGAAAA
Found at i:6835060 original size:20 final size:20
Alignment explanation
Indices: 6835031--6835085 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
6835021 CGCAATGCTA
*
6835031 TTTTAGTTTCGCGTTGCGAT
1 TTTTATTTTCGCGTTGCGAT
* *
6835051 TTTTATTTTCGCATTGTGAT
1 TTTTATTTTCGCGTTGCGAT
*
6835071 TTTCATTTTCGCGTT
1 TTTTATTTTCGCGTT
6835086 ACGAATTTAA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.11, C:0.15, G:0.18, T:0.56
Consensus pattern (20 bp):
TTTTATTTTCGCGTTGCGAT
Found at i:6837206 original size:21 final size:21
Alignment explanation
Indices: 6837179--6837260 Score: 101
Period size: 21 Copynumber: 3.9 Consensus size: 21
6837169 TTCACCTGTC
6837179 ATCGTTCAAGAGGCACCTCCT
1 ATCGTTCAAGAGGCACCTCCT
* **
6837200 ATTGTTCAAGAGGTGCCTCCT
1 ATCGTTCAAGAGGCACCTCCT
* * *
6837221 ATCATTCAAGAGGCTCCTCCC
1 ATCGTTCAAGAGGCACCTCCT
*
6837242 ATCGTTCAAGAGGCCCCTC
1 ATCGTTCAAGAGGCACCTC
6837261 ACACCGTTCA
Statistics
Matches: 51, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 51 1.00
ACGTcount: A:0.22, C:0.33, G:0.20, T:0.26
Consensus pattern (21 bp):
ATCGTTCAAGAGGCACCTCCT
Found at i:6837268 original size:21 final size:21
Alignment explanation
Indices: 6837225--6837295 Score: 72
Period size: 21 Copynumber: 3.4 Consensus size: 21
6837215 CCTCCTATCA
* * *
6837225 TTCAAGAGGCTCCTCCCATCG
1 TTCAAGAGGCCCCTCACACCG
6837246 TTCAAGAGGCCCCTCACACCG
1 TTCAAGAGGCCCCTCACACCG
* **
6837267 TTCAATG-GGTCCCTTTCACCG
1 TTCAA-GAGGCCCCTCACACCG
6837288 TTCAAGAG
1 TTCAAGAG
6837296 CCCGATTCAC
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
20 1 0.02
21 40 0.95
22 1 0.02
ACGTcount: A:0.21, C:0.35, G:0.20, T:0.24
Consensus pattern (21 bp):
TTCAAGAGGCCCCTCACACCG
Found at i:6837271 original size:42 final size:42
Alignment explanation
Indices: 6837181--6837271 Score: 103
Period size: 42 Copynumber: 2.2 Consensus size: 42
6837171 CACCTGTCAT
* * ** *
6837181 CGTTCAAGAGGCACCTCCTATTGTTCAAGAGGTGCCTCCTAT
1 CGTTCAAGAGGCACCTCCCATCGTTCAAGAGGCCCCTCCTAC
* *
6837223 CATTCAAGAGGCTCCTCCCATCGTTCAAGAGGCCCCTCAC-AC
1 CGTTCAAGAGGCACCTCCCATCGTTCAAGAGGCCCCTC-CTAC
6837265 CGTTCAA
1 CGTTCAA
6837272 TGGGTCCCTT
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
42 39 0.98
43 1 0.03
ACGTcount: A:0.23, C:0.34, G:0.19, T:0.24
Consensus pattern (42 bp):
CGTTCAAGAGGCACCTCCCATCGTTCAAGAGGCCCCTCCTAC
Found at i:6838749 original size:28 final size:28
Alignment explanation
Indices: 6838704--6838757 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
6838694 CTTGTTTAAT
*
6838704 TTGATTTGTAAAAGTTGATTTGTAAAAG
1 TTGATTTGTAAAAGTTGATGTGTAAAAG
** *
6838732 TTGATTTGTTTAATTTGATGTGTAAA
1 TTGATTTGTAAAAGTTGATGTGTAAA
6838758 TAAGAATTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.31, C:0.00, G:0.20, T:0.48
Consensus pattern (28 bp):
TTGATTTGTAAAAGTTGATGTGTAAAAG
Found at i:6838750 original size:14 final size:14
Alignment explanation
Indices: 6838704--6838740 Score: 74
Period size: 14 Copynumber: 2.6 Consensus size: 14
6838694 CTTGTTTAAT
6838704 TTGATTTGTAAAAG
1 TTGATTTGTAAAAG
6838718 TTGATTTGTAAAAG
1 TTGATTTGTAAAAG
6838732 TTGATTTGT
1 TTGATTTGT
6838741 TTAATTTGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.30, C:0.00, G:0.22, T:0.49
Consensus pattern (14 bp):
TTGATTTGTAAAAG
Found at i:6838767 original size:80 final size:79
Alignment explanation
Indices: 6838649--6838806 Score: 264
Period size: 80 Copynumber: 2.0 Consensus size: 79
6838639 TTTTACATTG
*
6838649 AAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTA-TTTTTTGCTTGTTTAATTTGATTTGT
1 AAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTATTTTTTTGCTTGGTTAA-TTGATTTGT
6838713 AAAAGTTGATTTGTA
65 AAAAGTTGATTTGTA
* *
6838728 AAAGTTGATTTGTTTAATTTGATGTGTAAATAAGAATTATTTTTTTGCTTGGTTAATTGATTTGT
1 AAAGTTGATTTGTTTAA-TTGATGAGGAAATAAGAATTATTTTTTTGCTTGGTTAATTGATTTGT
6838793 AAAAGTTGATTTGT
65 AAAAGTTGATTTGT
6838807 TGTTTTAAAT
Statistics
Matches: 74, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
79 17 0.23
80 42 0.57
81 15 0.20
ACGTcount: A:0.30, C:0.01, G:0.19, T:0.49
Consensus pattern (79 bp):
AAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTATTTTTTTGCTTGGTTAATTGATTTGTA
AAAGTTGATTTGTA
Found at i:6838921 original size:13 final size:14
Alignment explanation
Indices: 6838885--6838923 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
6838875 GAAAGTCAAA
6838885 TTCGCGTTGCGATT
1 TTCGCGTTGCGATT
6838899 TTCG-GTTTGCGA-T
1 TTCGCG-TTGCGATT
6838912 TTCGCGTTGCGA
1 TTCGCGTTGCGA
6838924 ATTTGACTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
13 12 0.52
14 11 0.48
ACGTcount: A:0.08, C:0.21, G:0.31, T:0.41
Consensus pattern (14 bp):
TTCGCGTTGCGATT
Found at i:6838927 original size:14 final size:14
Alignment explanation
Indices: 6838885--6838927 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
6838875 GAAAGTCAAA
*
6838885 TTCGCGTTGCGATT
1 TTCGCGTTGCGAAT
6838899 TTCG-GTTTGCG-AT
1 TTCGCG-TTGCGAAT
6838912 TTCGCGTTGCGAAT
1 TTCGCGTTGCGAAT
6838926 TT
1 TT
6838928 GACTTTCGCA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
13 11 0.44
14 14 0.56
ACGTcount: A:0.09, C:0.19, G:0.28, T:0.44
Consensus pattern (14 bp):
TTCGCGTTGCGAAT
Found at i:6841421 original size:24 final size:24
Alignment explanation
Indices: 6841384--6841437 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
6841374 CTGAAACATC
* *
6841384 ATCAAAATCTGAGTATTGACCAAT
1 ATCAAAATCCGAGTATTGACCAAG
*
6841408 ATCAAAGTCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
6841432 ATCAAA
1 ATCAAA
6841438 TTTCTAATAC
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:0.43, C:0.19, G:0.15, T:0.24
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:6842402 original size:19 final size:20
Alignment explanation
Indices: 6842375--6842412 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
6842365 AACTAAAACC
*
6842375 TGTTGCGAAATT-AAATTCG
1 TGTTACGAAATTGAAATTCG
*
6842394 TGTTACGAATTTGAAATTC
1 TGTTACGAAATTGAAATTC
6842413 AATTGCGGAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 10 0.62
20 6 0.38
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.39
Consensus pattern (20 bp):
TGTTACGAAATTGAAATTCG
Found at i:6842466 original size:20 final size:20
Alignment explanation
Indices: 6842440--6842525 Score: 106
Period size: 20 Copynumber: 4.3 Consensus size: 20
6842430 TCAGCTTTGT
6842440 GAATTTGACTATCGTGTTGC
1 GAATTTGACTATCGTGTTGC
*
6842460 AAATTTGACTATC-TCGTTGC
1 GAATTTGACTATCGT-GTTGC
6842480 GAATTTGACT-TCTGTGTTGC
1 GAATTTGACTATC-GTGTTGC
*
6842500 GAATTTGACT-TCCGTGTTAC
1 GAATTTGACTAT-CGTGTTGC
6842520 GAATTT
1 GAATTT
6842526 ACAAATTCGC
Statistics
Matches: 59, Mismatches: 3, Indels: 8
0.84 0.04 0.11
Matches are distributed among these distances:
19 3 0.05
20 54 0.92
21 2 0.03
ACGTcount: A:0.21, C:0.16, G:0.21, T:0.42
Consensus pattern (20 bp):
GAATTTGACTATCGTGTTGC
Found at i:6842546 original size:19 final size:20
Alignment explanation
Indices: 6842522--6842561 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
6842512 CGTGTTACGA
6842522 ATTTACAAATTCGCG-TGCG
1 ATTTACAAATTCGCGTTGCG
*
6842541 ATTTACAGATTCGCGTTGCG
1 ATTTACAAATTCGCGTTGCG
6842561 A
1 A
6842562 ATTTGGAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.33
Consensus pattern (20 bp):
ATTTACAAATTCGCGTTGCG
Found at i:6854949 original size:15 final size:15
Alignment explanation
Indices: 6854929--6854960 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
6854919 CGGATTTGGA
6854929 TCGGGTCATTTCAAG
1 TCGGGTCATTTCAAG
*
6854944 TCGGGTTATTTCAAG
1 TCGGGTCATTTCAAG
6854959 TC
1 TC
6854961 TAGATTATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.19, G:0.25, T:0.38
Consensus pattern (15 bp):
TCGGGTCATTTCAAG
Found at i:6855111 original size:32 final size:32
Alignment explanation
Indices: 6855075--6855146 Score: 83
Period size: 32 Copynumber: 2.2 Consensus size: 32
6855065 GATTGGTTAT
* *
6855075 TTTTTTATTC-AGATAAATATCAGATCAATTGA
1 TTTTTTAGTCGAG-TAAATATCAAATCAATTGA
* * *
6855107 TTTTTTGGTCGAGTTAATATCAAATCAGTTGA
1 TTTTTTAGTCGAGTAAATATCAAATCAATTGA
6855139 TTTTTTAG
1 TTTTTTAG
6855147 GTTGGGTTAA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
32 31 0.94
33 2 0.06
ACGTcount: A:0.31, C:0.08, G:0.14, T:0.47
Consensus pattern (32 bp):
TTTTTTAGTCGAGTAAATATCAAATCAATTGA
Found at i:6855144 original size:33 final size:33
Alignment explanation
Indices: 6855090--6855175 Score: 111
Period size: 32 Copynumber: 2.6 Consensus size: 33
6855080 TATTCAGATA
*
6855090 AATATCAGATCAATTGATTTTTT-GGTCGAGTT
1 AATATCAGATCAGTTGATTTTTTAGGTCGAGTT
* * *
6855122 AATATCAAATCAGTTGATTTTTTAGGTTGGGTT
1 AATATCAGATCAGTTGATTTTTTAGGTCGAGTT
*
6855155 AATACCAGATCAGTTAGATTT
1 AATATCAGATCAGTT-GATTT
6855176 CGGGTCGGGT
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
32 21 0.46
33 20 0.43
34 5 0.11
ACGTcount: A:0.30, C:0.09, G:0.19, T:0.42
Consensus pattern (33 bp):
AATATCAGATCAGTTGATTTTTTAGGTCGAGTT
Found at i:6855946 original size:16 final size:16
Alignment explanation
Indices: 6855925--6856021 Score: 70
Period size: 16 Copynumber: 6.1 Consensus size: 16
6855915 GTTAAAATTA
*
6855925 GGTTCGAGTTTCTTTC
1 GGTTCGAGTTACTTTC
*
6855941 GGTTCGAGTTGCTTTC
1 GGTTCGAGTTACTTTC
* * *
6855957 TGTTCAAGTTAATTTC
1 GGTTCGAGTTACTTTC
* * *
6855973 AGTTCGGGTTACTTTT
1 GGTTCGAGTTACTTTC
*
6855989 GGTTCG-GATTAATTTC
1 GGTTCGAG-TTACTTTC
* * *
6856005 GGGTCGGGTTGCTTTC
1 GGTTCGAGTTACTTTC
6856021 G
1 G
6856022 ATTTCGCTAA
Statistics
Matches: 63, Mismatches: 16, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
15 1 0.02
16 61 0.97
17 1 0.02
ACGTcount: A:0.11, C:0.15, G:0.28, T:0.45
Consensus pattern (16 bp):
GGTTCGAGTTACTTTC
Found at i:6856272 original size:2 final size:2
Alignment explanation
Indices: 6856265--6856350 Score: 172
Period size: 2 Copynumber: 43.0 Consensus size: 2
6856255 CATGAAGAAG
6856265 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6856307 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6856349 AT
1 AT
6856351 TTAGCAAAGG
Statistics
Matches: 84, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 84 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6859283 original size:23 final size:22
Alignment explanation
Indices: 6859233--6859291 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
6859223 CGTCATAACC
*
6859233 ATTTT-TTTTAAAACCAATTAA
1 ATTTTATTTTAAAAACAATTAA
* *
6859254 ATATTATTTTAAAAACAATTATG
1 ATTTTATTTTAAAAACAATTA-A
*
6859277 ATTTTATTTTGAAAA
1 ATTTTATTTTAAAAA
6859292 TTTGATGTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
21 4 0.13
22 14 0.45
23 13 0.42
ACGTcount: A:0.44, C:0.05, G:0.03, T:0.47
Consensus pattern (22 bp):
ATTTTATTTTAAAAACAATTAA
Found at i:6861927 original size:61 final size:60
Alignment explanation
Indices: 6861833--6861978 Score: 175
Period size: 61 Copynumber: 2.4 Consensus size: 60
6861823 ATCATATTTG
* * * * *
6861833 ATTTAAAGGACCAAAATAACAAAAAAAGAAACTTAAAGGATTAAAATAGCGAAAACAAAA
1 ATTTAAAGGACTAAAATAGCAAAAAAAGAAACTTAAAGGACTAAAATAACAAAAACAAAA
* * * * *
6861893 ATTTAAGGGACTAATATAGCAAAAAATAGAAACTTAAGGGACTAAAATAACAAAAATAGAA
1 ATTTAAAGGACTAAAATAGCAAAAAA-AGAAACTTAAAGGACTAAAATAACAAAAACAAAA
* *
6861954 ACTTAAAGGACTAAAATAGTAAAAA
1 ATTTAAAGGACTAAAATAGCAAAAA
6861979 CAAAAATCTA
Statistics
Matches: 71, Mismatches: 14, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
60 22 0.31
61 49 0.69
ACGTcount: A:0.60, C:0.09, G:0.13, T:0.18
Consensus pattern (60 bp):
ATTTAAAGGACTAAAATAGCAAAAAAAGAAACTTAAAGGACTAAAATAACAAAAACAAAA
Found at i:6861978 original size:30 final size:30
Alignment explanation
Indices: 6861835--6861978 Score: 162
Period size: 30 Copynumber: 4.8 Consensus size: 30
6861825 CATATTTGAT
* * *
6861835 TTAAAGGACCAAAATAACAAAAAAAGAAAC
1 TTAAAGGACTAAAATAGCAAAAATAGAAAC
* * * * *
6861865 TTAAAGGATTAAAATAGCGAAAACAAAAAT
1 TTAAAGGACTAAAATAGCAAAAATAGAAAC
* *
6861895 TTAAGGGACTAATATAGCAAAAAATAGAAAC
1 TTAAAGGACTAAAATAGC-AAAAATAGAAAC
* *
6861926 TTAAGGGACTAAAATAACAAAAATAGAAAC
1 TTAAAGGACTAAAATAGCAAAAATAGAAAC
*
6861956 TTAAAGGACTAAAATAGTAAAAA
1 TTAAAGGACTAAAATAGCAAAAA
6861979 CAAAAATCTA
Statistics
Matches: 94, Mismatches: 19, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
30 70 0.74
31 24 0.26
ACGTcount: A:0.60, C:0.09, G:0.13, T:0.17
Consensus pattern (30 bp):
TTAAAGGACTAAAATAGCAAAAATAGAAAC
Found at i:6861991 original size:30 final size:29
Alignment explanation
Indices: 6861835--6861998 Score: 150
Period size: 30 Copynumber: 5.4 Consensus size: 29
6861825 CATATTTGAT
* *
6861835 TTAAAGGACCAAAATAACAAAAAAAGAAAC
1 TTAAAGGACTAAAATAGCAAAAAAA-AAAC
* * *
6861865 TTAAAGGATTAAAATAGCGAAAACAAAAAT
1 TTAAAGGACTAAAATAGC-AAAAAAAAAAC
* *
6861895 TTAAGGGACTAATATAGCAAAAAATAGAAAC
1 TTAAAGGACTAAAATAGCAAAAAA-A-AAAC
* * *
6861926 TTAAGGGACTAAAATAACAAAAATAGAAAC
1 TTAAAGGACTAAAATAGCAAAAA-AAAAAC
*
6861956 TTAAAGGACTAAAATAGTAAAAACAAAAA-
1 TTAAAGGACTAAAATAGCAAAAA-AAAAAC
*
6861985 TCTAAAGGGCTAAA
1 T-TAAAGGACTAAA
6861999 CAGTAATTAC
Statistics
Matches: 110, Mismatches: 19, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
29 6 0.05
30 73 0.66
31 30 0.27
32 1 0.01
ACGTcount: A:0.60, C:0.10, G:0.13, T:0.17
Consensus pattern (29 bp):
TTAAAGGACTAAAATAGCAAAAAAAAAAC
Found at i:6863476 original size:3 final size:3
Alignment explanation
Indices: 6863464--6863547 Score: 154
Period size: 3 Copynumber: 28.7 Consensus size: 3
6863454 CAAACTGTAT
6863464 TAA T-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
6863511 TAA TAA TAA TAA TAA TAA TAA TAA TAA -AA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
6863548 TTTTTGTAGA
Statistics
Matches: 79, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
2 4 0.05
3 75 0.95
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:6863984 original size:83 final size:84
Alignment explanation
Indices: 6863839--6864030 Score: 246
Period size: 83 Copynumber: 2.3 Consensus size: 84
6863829 GAGGGTGATA
* * * * *
6863839 ACATGGTTCCTACGCGATGAGGGC-AGCTGGTTATCTAAGGGTGACACGACTCCTACGTGATGAG
1 ACATAGTTCCTACGCGATGAGGACGAGCAGGTTATATAAGGGTGACACGACTCCTACGCGATGAG
*
6863903 GAGGTCTGGTCGGTGGATG
66 GAGGTCTGGTCGGGGGATG
* * * *
6863922 ACATAGTTCCTACGTGATGAGGACGAG-AGGTTATATAAGGTTGACTC-ATCTCCTATGCGATGA
1 ACATAGTTCCTACGCGATGAGGACGAGCAGGTTATATAAGGGTGACACGA-CTCCTACGCGATGA
6863985 GGAGGTCTGGTCGGGGGATG
65 GGAGGTCTGGTCGGGGGATG
* *
6864005 ACACAGTTCCTACACGATGAGGACGA
1 ACATAGTTCCTACGCGATGAGGACGA
6864031 CATACCATCT
Statistics
Matches: 94, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
82 1 0.01
83 91 0.97
84 2 0.02
ACGTcount: A:0.24, C:0.19, G:0.33, T:0.24
Consensus pattern (84 bp):
ACATAGTTCCTACGCGATGAGGACGAGCAGGTTATATAAGGGTGACACGACTCCTACGCGATGAG
GAGGTCTGGTCGGGGGATG
Found at i:6864219 original size:66 final size:66
Alignment explanation
Indices: 6864053--6864392 Score: 389
Period size: 66 Copynumber: 5.2 Consensus size: 66
6864043 AGGGATAATA
* ** * * * *
6864053 GTTTCAAGAGAAACCAACTCAAAGATGATGCTTCAAGAGAAGCTATCTCAAGAGAGACAAAA-TT
1 GTTTCAAGAGAAACAAACTCAAAGATTTTTCTTCAAAAGAAACTGTCTCAAGAGAGACAAAACTT
6864117 CT
66 -T
* * * ** * * * **
6864119 -TTTCAAGGGAAACGATCTCAAAGATGGTGCTTCAAGATAAGTTGTCTCAAGAGAGACAAAACTT
1 GTTTCAAGAGAAACAAACTCAAAGATTTTTCTTCAAAAGAAACTGTCTCAAGAGAGACAAAACTT
6864183 T
66 T
6864184 GTTTCAAGAGAAACAAACTCAAAGATTTTTCTTCAAAAGAAACTGTCTCAAGAGAGAC-AAACTT
1 GTTTCAAGAGAAACAAACTCAAAGATTTTTCTTCAAAAGAAACTGTCTCAAGAGAGACAAAACTT
6864248 T
66 T
* * * * * *
6864249 ATTTCCAGAGAAACATACTCAAAGATTTTTCTTCAAAAGAAACTGTCTCTAGACAGACAAAATTT
1 GTTTCAAGAGAAACAAACTCAAAGATTTTTCTTCAAAAGAAACTGTCTCAAGAGAGACAAAACTT
6864314 T
66 T
* * * **
6864315 GTTTCCAGAGAAACATACACAAAGATTTTTCTTCAAAAGAAACAATCTCAAGAGAGACAAAACTT
1 GTTTCAAGAGAAACAAACTCAAAGATTTTTCTTCAAAAGAAACTGTCTCAAGAGAGACAAAACTT
6864380 T
66 T
*
6864381 GTTTCCAGAGAA
1 GTTTCAAGAGAA
6864393 CTGTATCAAG
Statistics
Matches: 241, Mismatches: 30, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
65 115 0.48
66 126 0.52
ACGTcount: A:0.41, C:0.17, G:0.16, T:0.26
Consensus pattern (66 bp):
GTTTCAAGAGAAACAAACTCAAAGATTTTTCTTCAAAAGAAACTGTCTCAAGAGAGACAAAACTT
T
Found at i:6864296 original size:131 final size:130
Alignment explanation
Indices: 6864053--6864392 Score: 412
Period size: 131 Copynumber: 2.6 Consensus size: 130
6864043 AGGGATAATA
* ** * * * *
6864053 GTTTCAAGAGAAACCAACTCAAAGATGATGCTTCAAGAGAAGCTATCTCAAGAGAGACAAAATTC
1 GTTTCAAGAGAAACAAACTCAAAGATTTTTCTTCAAAAGAAACTATCTCAAGAGAGACAAACTT-
* * * * ** *
6864118 TTTTCAAGGGAAACGATCTCAAAGATGGTGCTTCAAGATAAGTTGTCTCAAGAGAGACAAAACTT
65 TTTTCCAGAGAAACGATCTCAAAGATGGTGCTTCAAAAGAAACTGTCTCAAGACAGACAAAACTT
6864183 T
130 T
*
6864184 GTTTCAAGAGAAACAAACTCAAAGATTTTTCTTCAAAAGAAACTGTCTCAAGAGAGACAAACTTT
1 GTTTCAAGAGAAACAAACTCAAAGATTTTTCTTCAAAAGAAACTATCTCAAGAGAGACAAACTTT
** * * *
6864249 ATTTCCAGAGAAAC-ATACTCAAAGATTTTTCTTCAAAAGAAACTGTCTCTAGACAGACAAAATT
66 -TTTCCAGAGAAACGAT-CTCAAAGATGGTGCTTCAAAAGAAACTGTCTCAAGACAGACAAAACT
6864313 TT
129 TT
* * * *
6864315 GTTTCCAGAGAAACATACACAAAGATTTTTCTTCAAAAGAAACAATCTCAAGAGAGACAAAACTT
1 GTTTCAAGAGAAACAAACTCAAAGATTTTTCTTCAAAAGAAACTATCTCAAGAGAGAC-AAACTT
6864380 TGTTTCCAGAGAA
65 T-TTTCCAGAGAA
6864393 CTGTATCAAG
Statistics
Matches: 180, Mismatches: 26, Indels: 5
0.85 0.12 0.02
Matches are distributed among these distances:
130 3 0.02
131 159 0.88
132 18 0.10
ACGTcount: A:0.41, C:0.17, G:0.16, T:0.26
Consensus pattern (130 bp):
GTTTCAAGAGAAACAAACTCAAAGATTTTTCTTCAAAAGAAACTATCTCAAGAGAGACAAACTTT
TTTCCAGAGAAACGATCTCAAAGATGGTGCTTCAAAAGAAACTGTCTCAAGACAGACAAAACTTT
Found at i:6865652 original size:19 final size:19
Alignment explanation
Indices: 6865617--6865672 Score: 55
Period size: 19 Copynumber: 2.9 Consensus size: 19
6865607 TTCTTTTTCT
6865617 TATTTTCTCTTTG--CTTTA
1 TATTTT-TCTTTGCTCTTTA
*
6865635 TATTTTTCTTTGCTCTTTG
1 TATTTTTCTTTGCTCTTTA
6865654 T-TTCTTTCTTTGCTTCTTT
1 TATT-TTTCTTTGC-TCTTT
6865673 TCTCTTTGTT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
17 6 0.18
18 8 0.24
19 14 0.42
20 5 0.15
ACGTcount: A:0.05, C:0.18, G:0.07, T:0.70
Consensus pattern (19 bp):
TATTTTTCTTTGCTCTTTA
Found at i:6865660 original size:32 final size:31
Alignment explanation
Indices: 6865599--6865664 Score: 73
Period size: 33 Copynumber: 2.1 Consensus size: 31
6865589 TCCCTTTTTA
* *
6865599 TTTATTTTTTCTTTTTCTTATTTTCTCTTTGC
1 TTTATTTTTTCTTTCTCTTATGTTCTCTTT-C
6865631 TTTATATTTTTCTTTGCTCTT-TGTT-TCTTTC
1 TTTAT-TTTTTCTTT-CTCTTATGTTCTCTTTC
6865662 TTT
1 TTT
6865665 GCTTCTTTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
31 4 0.13
32 10 0.33
33 12 0.40
34 4 0.13
ACGTcount: A:0.06, C:0.15, G:0.05, T:0.74
Consensus pattern (31 bp):
TTTATTTTTTCTTTCTCTTATGTTCTCTTTC
Found at i:6865678 original size:19 final size:19
Alignment explanation
Indices: 6865639--6865679 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
6865629 GCTTTATATT
*
6865639 TTTCTTTGCTCTTTGTTTC
1 TTTCTTTGCTCTTTGTCTC
6865658 TTTCTTTGCTTCTTT-TCTC
1 TTTCTTTGC-TCTTTGTCTC
6865677 TTT
1 TTT
6865680 GTTTTGATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.00, C:0.22, G:0.07, T:0.71
Consensus pattern (19 bp):
TTTCTTTGCTCTTTGTCTC
Found at i:6867308 original size:21 final size:21
Alignment explanation
Indices: 6867282--6867323 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
6867272 CCATAATGGG
*
6867282 GGGAATCGGTACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
6867303 GGGAATCGATACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
6867324 ATATTCAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (21 bp):
GGGAATCGATACCCCTTCATA
Found at i:6867458 original size:15 final size:15
Alignment explanation
Indices: 6867438--6867493 Score: 60
Period size: 15 Copynumber: 3.5 Consensus size: 15
6867428 ACCATGCAGG
6867438 GGGGAATCTGTACCC
1 GGGGAATCTGTACCC
6867453 GGGGAATC-GATACCCC
1 GGGGAATCTG-TA-CCC
*
6867469 TGGGGGAATCTGTTCCC
1 --GGGGAATCTGTACCC
6867486 GGGGAATC
1 GGGGAATC
6867494 GATACCCCCT
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
14 1 0.03
15 18 0.51
16 3 0.09
17 3 0.09
18 9 0.26
19 1 0.03
ACGTcount: A:0.20, C:0.25, G:0.36, T:0.20
Consensus pattern (15 bp):
GGGGAATCTGTACCC
Found at i:6867516 original size:35 final size:34
Alignment explanation
Indices: 6867436--6867520 Score: 145
Period size: 33 Copynumber: 2.5 Consensus size: 34
6867426 AAACCATGCA
*
6867436 GGGGGGAATCTGTACCCGGGGAATCGATACCCCT
1 GGGGGGAATCTGTTCCCGGGGAATCGATACCCCT
6867470 -GGGGGAATCTGTTCCCGGGGAATCGATACCCCCT
1 GGGGGGAATCTGTTCCCGGGGAATCGATA-CCCCT
6867504 GGGGGGAATCTGTTCCC
1 GGGGGGAATCTGTTCCC
6867521 CCTGGGGGGG
Statistics
Matches: 48, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
33 27 0.56
34 5 0.10
35 16 0.33
ACGTcount: A:0.18, C:0.27, G:0.35, T:0.20
Consensus pattern (34 bp):
GGGGGGAATCTGTTCCCGGGGAATCGATACCCCT
Found at i:6867528 original size:21 final size:21
Alignment explanation
Indices: 6867486--6867546 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
6867476 ATCTGTTCCC
6867486 GGGGAATC-GATACCCCCT-GG
1 GGGGAATCTG-TACCCCCTGGG
*
6867506 GGGGAATCTGTTCCCCCTGGG
1 GGGGAATCTGTACCCCCTGGG
6867527 GGGGAATCTGTACCCCCTGG
1 GGGGAATCTGTACCCCCTGG
6867547 ACAATCTGAT
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
20 15 0.41
21 22 0.59
ACGTcount: A:0.15, C:0.30, G:0.36, T:0.20
Consensus pattern (21 bp):
GGGGAATCTGTACCCCCTGGG
Found at i:6870543 original size:30 final size:30
Alignment explanation
Indices: 6870499--6870647 Score: 129
Period size: 30 Copynumber: 5.0 Consensus size: 30
6870489 CATATTCGAT
* *
6870499 TTAAAGGACCAAAATAACAAAAACAAAAAC
1 TTAAAGGACTAAAATAGCAAAAACAAAAAC
* * * * *
6870529 TTAAATGACTAAAATAGCAAAAATATATAT
1 TTAAAGGACTAAAATAGCAAAAACAAAAAC
* * *
6870559 TTAAGGGACTAAAATAG-TAAAACTAGAAAC
1 TTAAAGGACTAAAATAGCAAAAAC-AAAAAC
* * * *
6870589 TTAAGGGACTAAAATAGTAAAAATAGAAAC
1 TTAAAGGACTAAAATAGCAAAAACAAAAAC
** *
6870619 TTAAATTACTAAAATAGTAAAAACAAAAA
1 TTAAAGGACTAAAATAGCAAAAACAAAAA
6870648 TTTGAAGGGC
Statistics
Matches: 96, Mismatches: 21, Indels: 4
0.79 0.17 0.03
Matches are distributed among these distances:
29 4 0.04
30 88 0.92
31 4 0.04
ACGTcount: A:0.60, C:0.09, G:0.10, T:0.21
Consensus pattern (30 bp):
TTAAAGGACTAAAATAGCAAAAACAAAAAC
Found at i:6870589 original size:60 final size:60
Alignment explanation
Indices: 6870499--6870640 Score: 151
Period size: 60 Copynumber: 2.4 Consensus size: 60
6870489 CATATTCGAT
* ** * * * * *
6870499 TTAAAGGACCAAAATAACAAAAAC-AAAAACTTAAATGACTAAAATAGCAAAAATATATAT
1 TTAAAGGACTAAAAT-AGTAAAACTAGAAACTTAAAGGACTAAAATAGCAAAAATAGAAAC
* * *
6870559 TTAAGGGACTAAAATAGTAAAACTAGAAACTTAAGGGACTAAAATAGTAAAAATAGAAAC
1 TTAAAGGACTAAAATAGTAAAACTAGAAACTTAAAGGACTAAAATAGCAAAAATAGAAAC
**
6870619 TTAAATTACTAAAATAGTAAAA
1 TTAAAGGACTAAAATAGTAAAA
6870641 ACAAAAATTT
Statistics
Matches: 67, Mismatches: 14, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
59 6 0.09
60 61 0.91
ACGTcount: A:0.58, C:0.09, G:0.11, T:0.22
Consensus pattern (60 bp):
TTAAAGGACTAAAATAGTAAAACTAGAAACTTAAAGGACTAAAATAGCAAAAATAGAAAC
Found at i:6870825 original size:23 final size:23
Alignment explanation
Indices: 6870781--6870825 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
6870771 ACATAAAGGC
* *
6870781 CCAAACCATAATTAAACCAAATG
1 CCAAACAATAATTAAAACAAATG
* *
6870804 CCAAACAATGATTAAAATAAAT
1 CCAAACAATAATTAAAACAAAT
6870826 ACTCATAAAC
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.56, C:0.20, G:0.04, T:0.20
Consensus pattern (23 bp):
CCAAACAATAATTAAAACAAATG
Found at i:6872267 original size:22 final size:22
Alignment explanation
Indices: 6872240--6872285 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
6872230 GGGCTTTGAA
*
6872240 ATTTGTCCCGAATGACCTATGT
1 ATTTGTCCCGAAGGACCTATGT
*
6872262 ATTTGTCCCGAAGGACCTCTGT
1 ATTTGTCCCGAAGGACCTATGT
6872284 AT
1 AT
6872286 ACTGTATATG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.35
Consensus pattern (22 bp):
ATTTGTCCCGAAGGACCTATGT
Found at i:6876899 original size:22 final size:22
Alignment explanation
Indices: 6876865--6876910 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
6876855 GGGCTGTGAA
6876865 ATTTATCCCGAAGGACCTATGT
1 ATTTATCCCGAAGGACCTATGT
* * *
6876887 ATTTGTCCTGAAGGACCTCTGT
1 ATTTATCCCGAAGGACCTATGT
6876909 AT
1 AT
6876911 ACTGTATATG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.35
Consensus pattern (22 bp):
ATTTATCCCGAAGGACCTATGT
Found at i:6878752 original size:21 final size:21
Alignment explanation
Indices: 6878726--6878781 Score: 112
Period size: 21 Copynumber: 2.7 Consensus size: 21
6878716 GGAGCGTGGG
6878726 GGGAATCGGTTCCCCCTCATA
1 GGGAATCGGTTCCCCCTCATA
6878747 GGGAATCGGTTCCCCCTCATA
1 GGGAATCGGTTCCCCCTCATA
6878768 GGGAATCGGTTCCC
1 GGGAATCGGTTCCC
6878782 TAAGTGTAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.18, C:0.32, G:0.27, T:0.23
Consensus pattern (21 bp):
GGGAATCGGTTCCCCCTCATA
Found at i:6890292 original size:21 final size:21
Alignment explanation
Indices: 6890266--6890318 Score: 106
Period size: 21 Copynumber: 2.5 Consensus size: 21
6890256 CAACTCTCAT
6890266 TTCCTTCATCACTTAATACAA
1 TTCCTTCATCACTTAATACAA
6890287 TTCCTTCATCACTTAATACAA
1 TTCCTTCATCACTTAATACAA
6890308 TTCCTTCATCA
1 TTCCTTCATCA
6890319 GATTCTGTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.30, C:0.30, G:0.00, T:0.40
Consensus pattern (21 bp):
TTCCTTCATCACTTAATACAA
Found at i:6893491 original size:34 final size:32
Alignment explanation
Indices: 6893425--6893494 Score: 86
Period size: 34 Copynumber: 2.1 Consensus size: 32
6893415 CCTTACAAAC
* * *
6893425 TCCCTAGTTTTTCCGGGCTAAACTATAACCTT
1 TCCCTAGTTTTACCGGGATAAACTAGAACCTT
*
6893457 TCCCTAGCTTTTACACGGGATAAGCTAGAACCTT
1 TCCCTAG-TTTTAC-CGGGATAAACTAGAACCTT
6893491 TCCC
1 TCCC
6893495 CTTTACAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 7 0.22
33 5 0.16
34 20 0.62
ACGTcount: A:0.23, C:0.30, G:0.14, T:0.33
Consensus pattern (32 bp):
TCCCTAGTTTTACCGGGATAAACTAGAACCTT
Found at i:6893803 original size:21 final size:21
Alignment explanation
Indices: 6893777--6893818 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
6893767 CCAGAATGGG
*
6893777 GGGAATCGGTACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
6893798 GGGAATCGATACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
6893819 ATATTCAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (21 bp):
GGGAATCGATACCCCTTCATA
Found at i:6893948 original size:19 final size:19
Alignment explanation
Indices: 6893924--6893979 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
6893914 GAGCCTCGGG
*
6893924 TTACTGTTCAAACAGTGAT
1 TTACTGTTCAAACAGTAAT
* *
6893943 TTACTGTTTAAATAGTAAT
1 TTACTGTTCAAACAGTAAT
*
6893962 TTACTGTTCAAATAGTAA
1 TTACTGTTCAAACAGTAA
6893980 ATTCTATTCA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.36, C:0.11, G:0.12, T:0.41
Consensus pattern (19 bp):
TTACTGTTCAAACAGTAAT
Found at i:6894101 original size:30 final size:31
Alignment explanation
Indices: 6894054--6894144 Score: 159
Period size: 31 Copynumber: 3.0 Consensus size: 31
6894044 AAATTTTGAA
6894054 TAAATTCAATT-AAGTCCAAAAA-CATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
6894083 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
*
6894114 TAAATTCAATTCAAGTCTAAAAACCATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
6894145 CCTTAAATTG
Statistics
Matches: 59, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
29 11 0.19
30 11 0.19
31 37 0.63
ACGTcount: A:0.43, C:0.16, G:0.07, T:0.34
Consensus pattern (31 bp):
TAAATTCAATTCAAGTCCAAAAACCATTTTG
Found at i:6896537 original size:22 final size:22
Alignment explanation
Indices: 6896471--6896537 Score: 89
Period size: 22 Copynumber: 3.0 Consensus size: 22
6896461 TGAGTGTGAA
* *
6896471 ATATGTCCCGAAGGACCTATGC
1 ATATATCCCGAAGGACCTATGT
* **
6896493 ATATATCCCGAAAGACCCGTGT
1 ATATATCCCGAAGGACCTATGT
6896515 ATATATCCCGAAGGACCTATGT
1 ATATATCCCGAAGGACCTATGT
6896537 A
1 A
6896538 ACCCTCGACT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 37 1.00
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.24
Consensus pattern (22 bp):
ATATATCCCGAAGGACCTATGT
Found at i:6899351 original size:30 final size:30
Alignment explanation
Indices: 6899314--6899378 Score: 112
Period size: 30 Copynumber: 2.2 Consensus size: 30
6899304 TGATTGCTAT
*
6899314 AGCGATCTCCATAGGTCTCCAGGAGCACAC
1 AGCGATCTCCATAAGTCTCCAGGAGCACAC
*
6899344 GGCGATCTCCATAAGTCTCCAGGAGCACAC
1 AGCGATCTCCATAAGTCTCCAGGAGCACAC
6899374 AGCGA
1 AGCGA
6899379 CCTATGGAGC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.28, C:0.32, G:0.25, T:0.15
Consensus pattern (30 bp):
AGCGATCTCCATAAGTCTCCAGGAGCACAC
Found at i:6907434 original size:2 final size:2
Alignment explanation
Indices: 6907427--6907461 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
6907417 TTAGTTTTAA
6907427 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6907462 AGTTTATTTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6910320 original size:2 final size:2
Alignment explanation
Indices: 6910313--6910341 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
6910303 CAATCAAACA
6910313 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6910342 ATTTCCATTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6912550 original size:2 final size:2
Alignment explanation
Indices: 6912545--6912882 Score: 258
Period size: 2 Copynumber: 177.5 Consensus size: 2
6912535 GATTTTTTAT
* * *
6912545 TA TA TA TA TA TA TA TA TA TA TG T- TA TA -A TA T- TA TT TA TT
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
6912584 TA T- TA TG TA T- TA TA GTG TA TT TA TA T- TA TA TA GTA TA TA CA
1 TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA -TA TA TA TA
*
6912625 TA TA TA T- TA TA T- TA TA TA GTA TA TA CA TA TA TA T- TA TA T-
1 TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA
* *
6912664 TA TA TA -A TA TA TA TA T- TA TA T- TA TA T- TA T- TA TT TG T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
6912700 TA TA GTA TA TT TA TA T- TA TA TA GTA TA TA TA TA TA T- 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
* * *
6912742 GTA TA TA TA TA TA TA T- TA TT TA T- TT TA TA T- TA TA GTA TA TC
1 -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA
* *
6912783 TA TA TA TA TA GTA TA TA TA TA TA TT TA T- TA TC TA T- TA TA -A
1 TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
6912823 TT TA TT TA TA -A CA 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
6912864 TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA T
6912883 TTGTTTTTAG
Statistics
Matches: 270, Mismatches: 33, Indels: 66
0.73 0.09 0.18
Matches are distributed among these distances:
1 25 0.09
2 230 0.85
3 15 0.06
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.54
Consensus pattern (2 bp):
TA
Found at i:6914166 original size:21 final size:22
Alignment explanation
Indices: 6914142--6914189 Score: 80
Period size: 21 Copynumber: 2.2 Consensus size: 22
6914132 AAAATTTTAA
6914142 TTTTAAATTTCTTCATTCTTT-
1 TTTTAAATTTCTTCATTCTTTC
*
6914163 TTTTTAATTTCTTCATTCTTTC
1 TTTTAAATTTCTTCATTCTTTC
6914185 TTTTA
1 TTTTA
6914190 TCTTTCTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.17, C:0.15, G:0.00, T:0.69
Consensus pattern (22 bp):
TTTTAAATTTCTTCATTCTTTC
Found at i:6914250 original size:4 final size:4
Alignment explanation
Indices: 6914234--6914275 Score: 68
Period size: 4 Copynumber: 10.8 Consensus size: 4
6914224 TTTTTTCCTT
*
6914234 TTTA TTTA -ATA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
6914276 TACAATCTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
3 2 0.06
4 33 0.94
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:6915156 original size:26 final size:24
Alignment explanation
Indices: 6915091--6915153 Score: 76
Period size: 23 Copynumber: 2.6 Consensus size: 24
6915081 AACAATTTTA
* *
6915091 ATTTTTT-AAAATGATTTCATATC
1 ATTTTTTAAAAATAATTCCATATC
6915114 ATTTTTTAAAAATAATTCCATAT-
1 ATTTTTTAAAAATAATTCCATATC
6915137 ATTTTTAATAAAAATAA
1 ATTTTT--TAAAAATAA
6915154 ATTAATTTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
23 13 0.37
24 13 0.37
25 9 0.26
ACGTcount: A:0.44, C:0.06, G:0.02, T:0.48
Consensus pattern (24 bp):
ATTTTTTAAAAATAATTCCATATC
Found at i:6930712 original size:18 final size:20
Alignment explanation
Indices: 6930684--6930728 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
6930674 ATTTTTTAGC
6930684 TTTATA-TTTTTTATTGAAT
1 TTTATATTTTTTTATTGAAT
*
6930703 TTTA-ATTTTTTTATTGCAT
1 TTTATATTTTTTTATTGAAT
6930722 TTT-TATT
1 TTTATATT
6930729 GATTTTTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
18 1 0.04
19 22 0.96
ACGTcount: A:0.22, C:0.02, G:0.04, T:0.71
Consensus pattern (20 bp):
TTTATATTTTTTTATTGAAT
Found at i:6937137 original size:91 final size:91
Alignment explanation
Indices: 6936995--6937628 Score: 1115
Period size: 91 Copynumber: 7.0 Consensus size: 91
6936985 ATTTTGATCT
* *
6936995 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCCTCTCCCTCGTTGGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATTGGATGAGTTCTTCTCATTAT
6937060 GAACTCTCCACTGGAAATGTTGAGCC
66 GAACTCTCCACTGGAAATGTTGAGCC
6937086 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATTGGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATTGGATGAGTTCTTCTCATTAT
* * *
6937151 GAACTCTCTACTGGAAATGATGAGCA
66 GAACTCTCCACTGGAAATGTTGAGCC
6937177 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATTGGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATTGGATGAGTTCTTCTCATTAT
* *
6937242 GAACTCTCCACTAGAAATGCTGAGCC
66 GAACTCTCCACTGGAAATGTTGAGCC
*
6937268 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATTGGATGAGTTCTTCTCATTAT
*
6937333 GAACTCTCCACTGGAAACGTTGAGCC
66 GAACTCTCCACTGGAAATGTTGAGCC
*
6937359 AAGGTTGAACAAGTTCTTCTCATTATAAACTTCTTCTCCCTCATTGGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATTGGATGAGTTCTTCTCATTAT
*
6937424 GAACTCTCCACTGGAAATGTTAAGCC
66 GAACTCTCCACTGGAAATGTTGAGCC
* * *
6937450 AAGGTTGAACAAGTTCTTCTCATTATGAATTTTTTCTCCCTCATTGAATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATTGGATGAGTTCTTCTCATTAT
6937515 GAACTCTCCACTGGAAATGTTGAGCC
66 GAACTCTCCACTGGAAATGTTGAGCC
* *
6937541 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCTTCATTGGAGGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATTGGATGAGTTCTTCTCATTAT
*
6937606 GAACTCTCCACTGGCAATGTTGA
66 GAACTCTCCACTGGAAATGTTGA
6937629 TCTGTTTATC
Statistics
Matches: 515, Mismatches: 28, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
91 515 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (91 bp):
AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATTGGATGAGTTCTTCTCATTAT
GAACTCTCCACTGGAAATGTTGAGCC
Found at i:6938086 original size:67 final size:66
Alignment explanation
Indices: 6937996--6938210 Score: 247
Period size: 67 Copynumber: 3.2 Consensus size: 66
6937986 AAAATTTATT
* * * * *
6937996 GTTTCAAAGGAAAGCACAATCAAAGTTTTTGTGTTTCAAGAGAAACTGTCTCTAGGGAGACAAAA
1 GTTTCAAGGGAAA-CATATTCAAAG-TTTTGTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
6938061 TTC
64 TTC
* ** * *
6938064 AG-TTCAAGGGAAACA-ATCTCAAAGATCGGTGTTTCAAGTGAAACTATCTCAAGAGAGACAAAA
1 -GTTTCAAGGGAAACATAT-TCAAAGTTTTGTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
6938127 TTC
64 TTC
*
6938130 GTTTCAAGAGAAACATATTCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCAAGCA-AGACAAAA
1 GTTTCAAGGGAAACATATTCAAAG-TTTTGTGTTTCAAGAGAAACTGTCTCAAG-AGAGACAAAA
*
6938194 TTT
64 TTC
6938197 GTTTCAAGGGAAAC
1 GTTTCAAGGGAAAC
6938211 TGTCTCAAGA
Statistics
Matches: 124, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
65 1 0.01
66 54 0.44
67 57 0.46
68 11 0.09
69 1 0.01
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.27
Consensus pattern (66 bp):
GTTTCAAGGGAAACATATTCAAAGTTTTGTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
C
Found at i:6938101 original size:66 final size:67
Alignment explanation
Indices: 6938026--6938426 Score: 258
Period size: 72 Copynumber: 5.8 Consensus size: 67
6938016 CAAAGTTTTT
* *
6938026 GTGTTTCAAGAGAAACTGTCTCTAGGGAGACAAAATTCAG-TTCAAGGGAAACA-ATCTCAAAGA
1 GTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTC-GTTTCAAGGGAAACATAT-TCAAAGA
6938089 -TCG
64 TTCG
* * *
6938092 GTGTTTCAAGTGAAACTATCTCAAGAGAGACAAAATTCGTTTCAAGAGAAACATATTCAAAGATT
1 GTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTCGTTTCAAGGGAAACATATTCAAAGATT
**
6938157 TT
66 CG
* *
6938159 GTGTTTCAAGAGAAACTGTCTCAAGCA-AGACAAAATTTGTTTCAAGGGAAAC-TGTCTCAAGAG
1 GTGTTTCAAGAGAAACTGTCTCAAG-AGAGACAAAATTCGTTTCAAGGGAAACATAT-TCAA-AG
** *
6938222 AGACAAAA
63 ATTC---G
* * * * *
6938230 CTCGTTTCAAGGGAAATTGTCTCAAGAGAGACAATACTCGTTTCAAGGGAAAC-TATCTCAAGAG
1 GT-GTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTCGTTTCAAGGGAAACATAT-TCAA-AG
** *
6938294 AGACAAAA
63 ATTC---G
* * * * * *
6938302 CTCGTTTCAAGGGAATCTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAAC-TGTCTCAAGAG
1 GT-GTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTCGTTTCAAGGGAAACATAT-TCAA-AG
** *
6938366 AGACAAAA
63 ATTC---G
* * * * *
6938374 CTCGTTTCAAGGGAAACTGCCTCAAGAAAGACAAAACTCGTTTCAAGGGAAAC
1 GT-GTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTCGTTTCAAGGGAAAC
6938427 TGTCTCAAGT
Statistics
Matches: 288, Mismatches: 36, Indels: 16
0.85 0.11 0.05
Matches are distributed among these distances:
65 1 0.00
66 55 0.19
67 53 0.18
68 4 0.01
71 2 0.01
72 173 0.60
ACGTcount: A:0.39, C:0.17, G:0.21, T:0.23
Consensus pattern (67 bp):
GTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTCGTTTCAAGGGAAACATATTCAAAGATT
CG
Found at i:6938143 original size:36 final size:36
Alignment explanation
Indices: 6938094--6938707 Score: 653
Period size: 36 Copynumber: 17.2 Consensus size: 36
6938084 AAAGATCGGT
* *
6938094 GTTTCAAGTGAAACTATCTCAAGAGAGACAAAATTC
1 GTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTC
* * ** *
6938130 GTTTCAAGAGAAACATAT-TC-A-A-AG---ATTTTGT
1 GTTTCAAGGGAAAC-TGTCTCAAGAGAGACAAAATT-C
* *
6938161 GTTTCAAGAGAAACTGTCTCAAGCA-AGACAAAATTT
1 GTTTCAAGGGAAACTGTCTCAAG-AGAGACAAAATTC
*
6938197 GTTTCAAGGGAAACTGTCTCAAGAGAGACAAAACTC
1 GTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTC
* * *
6938233 GTTTCAAGGGAAATTGTCTCAAGAGAGACAATACTC
1 GTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTC
* *
6938269 GTTTCAAGGGAAACTATCTCAAGAGAGACAAAACTC
1 GTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTC
* * *
6938305 GTTTCAAGGGAATCTGTCTCAAGGGAGACAAAATTT
1 GTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTC
*
6938341 GTTTCAAGGGAAACTGTCTCAAGAGAGACAAAACTC
1 GTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTC
* * *
6938377 GTTTCAAGGGAAACTGCCTCAAGAAAGACAAAACTC
1 GTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTC
* *
6938413 GTTTCAAGGGAAACTGTCTCAAGTGAGACAAAATTT
1 GTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTC
** ** *
6938449 GTTTCAAGGGAAACAATCTC-A-A-AG--ATTAGT-
1 GTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTC
* *
6938479 GTTTCAAGGGAAATTGCCTCAAGAGAGACAAAATCTTC
1 GTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA--TTC
* * * *
6938517 TGTTTCGAGGGAAACTATCTCAAGCGAGATAAAATCTTC
1 -GTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA--TTC
* * *
6938556 TGTTTCAAGGGAAACTATCTCAAGGGAGACAAAATTT
1 -GTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTC
*
6938593 GTTTCAAGGGAAACTGTCTCAAGAGAGACAAAACTC
1 GTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTC
* * *
6938629 GTTTCAAGGGAAACTGTCTTAAGAAAGACAAAACTC
1 GTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTC
* *
6938665 GTTTCAAGGGAAACTGTCTCAAGTGAGACAAAATTT
1 GTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTC
6938701 GTTTCAA
1 GTTTCAA
6938708 AGAAAACAAT
Statistics
Matches: 494, Mismatches: 65, Indels: 38
0.83 0.11 0.06
Matches are distributed among these distances:
30 21 0.04
31 20 0.04
32 2 0.00
33 6 0.01
34 4 0.01
35 5 0.01
36 364 0.74
37 9 0.02
39 63 0.13
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.25
Consensus pattern (36 bp):
GTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTC
Found at i:6938636 original size:21 final size:20
Alignment explanation
Indices: 6938603--6938672 Score: 53
Period size: 20 Copynumber: 3.6 Consensus size: 20
6938593 GTTTCAAGGG
*
6938603 AAACTGTCTCAAGAGAGACA
1 AAACTGTTTCAAGAGAGACA
6938623 AAACTCGTTTCAAG-G-G---
1 AAACT-GTTTCAAGAGAGACA
*
6938639 AAACTGTCTT-AAGAAAGACA
1 AAACTGT-TTCAAGAGAGACA
6938659 AAACTCGTTTCAAG
1 AAACT-GTTTCAAG
6938673 GGAAACTGTC
Statistics
Matches: 39, Mismatches: 2, Indels: 17
0.67 0.03 0.29
Matches are distributed among these distances:
15 5 0.13
16 7 0.18
17 1 0.03
19 1 0.03
20 13 0.33
21 12 0.31
ACGTcount: A:0.41, C:0.19, G:0.19, T:0.21
Consensus pattern (20 bp):
AAACTGTTTCAAGAGAGACA
Found at i:6938790 original size:252 final size:248
Alignment explanation
Indices: 6938250--6938809 Score: 779
Period size: 252 Copynumber: 2.2 Consensus size: 248
6938240 GGGAAATTGT
* * ** *
6938250 CTCAAGAGAGACAATAC-TC-GTTTCAAGGGAAACTATCTCAAGAGAGACAAAACTCGTTTCAAG
1 CTCAAGAGAGACAAAACTTCTGTTTCGAGAAAAAATATCTCAAGAGAGACAAAACTCGTTTCAAG
* *
6938313 GGAATCTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAACTCG
66 GGAAACTATCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAACTCG
6938378 TTTCAAGGGAAACTGCCTCAAGAAAGACAAAACTCGTTTCAAGGGAAACTGTCTCAAGTGAGACA
131 TTTCAAGGGAAACTGCCTCAAGAAAGACAAAACTCGTTTCAAGGGAAACTGTCTCAAGTGAGACA
* * ** *
6938443 AAATTTGTTTCAAGGGAAACAATCTCAAAGATTAGTGTTTCAAGGGAAATTGC
196 AAATTTGTTTCAAAGAAAACAATCTCAAAGATTAGTGTTTCAAGAAAAATTAC
** * * *
6938496 CTCAAGAGAGACAAAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGATAAAATCTTCTGTTT
1 CTCAAGAGAGACAAAA-CTTCTGTTTCGAGAAAAAATATCTCAAGAGAGACAAAA-C-TC-GTTT
6938561 CAAGGGAAACTATCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
62 CAAGGGAAACTATCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
* *
6938626 CTCGTTTCAAGGGAAACTGTCTTAAGAAAGACAAAACTCGTTTCAAGGGAAACTGTCTCAAGTGA
127 CTCGTTTCAAGGGAAACTGCCTCAAGAAAGACAAAACTCGTTTCAAGGGAAACTGTCTCAAGTGA
* *
6938691 GACAAAATTTGTTTCAAAGAAAACAATCTCAAAGATTGGTGTTTCAAGTAAAAATAATAT
192 GACAAAATTTGTTTCAAAGAAAACAATCTCAAAGATTAGTGTTTCAAG-AAAAAT--TAC
* * * * *
6938751 CTCAA-ATGATACGAAA-TT-TGTTTTGAGAAAAAATATCTCAAAAGAGACAAAACTTGTTT
1 CTCAAGA-GAGACAAAACTTCTGTTTCGAGAAAAAATATCTCAAGAGAGACAAAACTCGTTT
6938810 TGAGTAAAAA
Statistics
Matches: 279, Mismatches: 25, Indels: 17
0.87 0.08 0.05
Matches are distributed among these distances:
246 15 0.05
247 1 0.00
248 2 0.01
249 34 0.12
250 2 0.01
251 3 0.01
252 202 0.72
253 6 0.02
254 1 0.00
255 13 0.05
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.25
Consensus pattern (248 bp):
CTCAAGAGAGACAAAACTTCTGTTTCGAGAAAAAATATCTCAAGAGAGACAAAACTCGTTTCAAG
GGAAACTATCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAACTCG
TTTCAAGGGAAACTGCCTCAAGAAAGACAAAACTCGTTTCAAGGGAAACTGTCTCAAGTGAGACA
AAATTTGTTTCAAAGAAAACAATCTCAAAGATTAGTGTTTCAAGAAAAATTAC
Done.