Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007754.1 Hibiscus syriacus cultivar Beakdansim tig00110020_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: 3698414
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 8 of 15
Found at i:1863990 original size:19 final size:19
Alignment explanation
Indices: 1863900--1863982 Score: 113
Period size: 20 Copynumber: 4.6 Consensus size: 19
1863890 AAATTATAAA
1863900 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
1863919 CCGCATTGCGATTTTCATTT
1 -CGCATTGCGATTTTCATTT
*
1863939 CGCATTGCGA--TTC-TCT
1 CGCATTGCGATTTTCATTT
1863955 CG--TTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
1863972 CGCATTGCGAT
1 CGCATTGCGAT
1863983 AGTCATTTTT
Statistics
Matches: 56, Mismatches: 2, Indels: 11
0.81 0.03 0.16
Matches are distributed among these distances:
14 6 0.11
16 7 0.12
17 7 0.12
19 17 0.30
20 19 0.34
ACGTcount: A:0.14, C:0.24, G:0.18, T:0.43
Consensus pattern (19 bp):
CGCATTGCGATTTTCATTT
Found at i:1864108 original size:14 final size:14
Alignment explanation
Indices: 1864089--1864125 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
1864079 CATCAATTAC
1864089 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
1864103 ACAAATCATCTTTT
1 ACAAATCAACTTTT
1864117 ACAAATCAA
1 ACAAATCAA
1864126 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:1864137 original size:12 final size:12
Alignment explanation
Indices: 1864120--1864191 Score: 53
Period size: 12 Copynumber: 6.0 Consensus size: 12
1864110 ATCTTTTACA
1864120 AATCAATTAAAC
1 AATCAATTAAAC
*
1864132 AATCAA--AAATTG
1 AATCAATTAAA--C
**
1864144 AATCAACTTTTAC
1 AATCAA-TTAAAC
1864157 AAATCAATTAAAC
1 A-ATCAATTAAAC
1864170 AATCAA--AAAC
1 AATCAATTAAAC
1864180 AATCAATTAAAC
1 AATCAATTAAAC
1864192 TATTGAATCA
Statistics
Matches: 46, Mismatches: 6, Indels: 16
0.68 0.09 0.24
Matches are distributed among these distances:
10 13 0.28
12 21 0.46
13 6 0.13
14 5 0.11
15 1 0.02
ACGTcount: A:0.57, C:0.17, G:0.01, T:0.25
Consensus pattern (12 bp):
AATCAATTAAAC
Found at i:1864154 original size:38 final size:38
Alignment explanation
Indices: 1864106--1864178 Score: 137
Period size: 38 Copynumber: 1.9 Consensus size: 38
1864096 AACTTTTACA
*
1864106 AATCATCTTTTACAAATCAATTAAACAATCAAAAATTG
1 AATCAACTTTTACAAATCAATTAAACAATCAAAAATTG
1864144 AATCAACTTTTACAAATCAATTAAACAATCAAAAA
1 AATCAACTTTTACAAATCAATTAAACAATCAAAAA
1864179 CAATCAATTA
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:1866033 original size:19 final size:19
Alignment explanation
Indices: 1865993--1866127 Score: 137
Period size: 19 Copynumber: 7.6 Consensus size: 19
1865983 TAGTTTACTT
* *
1865993 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
1866013 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
1866032 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
1866051 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
1866065 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
1866084 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
1866098 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
1866117 TCGCAATGCGA
1 TCGCAACGCGA
1866128 TTTTGGTTTC
Statistics
Matches: 97, Mismatches: 8, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
14 16 0.16
16 11 0.11
17 11 0.11
19 47 0.48
20 12 0.12
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.10
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:1866068 original size:14 final size:14
Alignment explanation
Indices: 1866049--1866105 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
1866039 GCGAAATGAA
*
1866049 AATCGCAACGACAG
1 AATCGCAACGAAAG
1866063 AATCGCAACGCGAAATG
1 AATCGCAA--CGAAA-G
1866080 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
1866096 AATCGCAACG
1 AATCGCAACG
1866106 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.25, G:0.21, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:1866072 original size:33 final size:33
Alignment explanation
Indices: 1866030--1866122 Score: 177
Period size: 33 Copynumber: 2.8 Consensus size: 33
1866020 GCGAAACCAA
*
1866030 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
1866063 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
1866096 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
1866123 TGCGATTTTG
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 59 1.00
ACGTcount: A:0.47, C:0.23, G:0.20, T:0.10
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:1866119 original size:52 final size:54
Alignment explanation
Indices: 1865993--1866127 Score: 131
Period size: 52 Copynumber: 2.5 Consensus size: 54
1865983 TAGTTTACTT
*
1865993 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAATGAAAA
1 TCGCAAC-CGAAA-TGAAAATCGCAACGCGAAACCAAAATCGCAAC-CGAAATG-AAA
* **
1866051 TCGCAA-CGACA-G--AATCGCAACGCGAAATGAAAATCGCAA-CGAAA-G-AA
1 TCGCAACCGAAATGAAAATCGCAACGCGAAACCAAAATCGCAACCGAAATGAAA
*
1866098 TCGCAACGCGAAATGAAAATCGCAATGCGA
1 TCGCAAC-CGAAATGAAAATCGCAACGCGA
1866128 TTTTGGTTTC
Statistics
Matches: 66, Mismatches: 6, Indels: 16
0.75 0.07 0.18
Matches are distributed among these distances:
47 8 0.12
49 5 0.08
50 6 0.09
52 37 0.56
56 4 0.06
58 6 0.09
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.10
Consensus pattern (54 bp):
TCGCAACCGAAATGAAAATCGCAACGCGAAACCAAAATCGCAACCGAAATGAAA
Found at i:1866145 original size:19 final size:19
Alignment explanation
Indices: 1866123--1866251 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
1866113 AAAATCGCAA
1866123 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
1866142 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
1866156 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
1866175 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
1866189 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
1866208 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
1866227 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
1866247 TGCGA
1 TGCGA
1866252 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:1866165 original size:33 final size:33
Alignment explanation
Indices: 1866123--1866214 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
1866113 AAAATCGCAA
1866123 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
1866156 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
1866189 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
1866215 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:1866454 original size:93 final size:93
Alignment explanation
Indices: 1866295--1866674 Score: 744
Period size: 93 Copynumber: 4.1 Consensus size: 93
1866285 TTGAATGGAT
1866295 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1866360 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
1866388 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1866453 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
1866481 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1866545 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
1866573 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
*
1866638 AGTTTAGCAGAATTGGCAGCAACCGAAT
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
1866666 AAATTTACT
1 AAATTTACT
1866675 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:1866608 original size:185 final size:186
Alignment explanation
Indices: 1866295--1866674 Score: 744
Period size: 185 Copynumber: 2.0 Consensus size: 186
1866285 TTGAATGGAT
1866295 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1866360 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
1866425 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
131 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
1866481 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1866545 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
*
1866610 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAT
131 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
1866666 AAATTTACT
1 AAATTTACT
1866675 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:1868392 original size:14 final size:14
Alignment explanation
Indices: 1868373--1868429 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
1868363 TTGAAATGAA
1868373 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
1868387 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
1868406 AATCGCAACGAGAG
1 AATCGCAACGAGAG
1868420 AATCGCAACG
1 AATCGCAACG
1868430 CGAAATGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:1868405 original size:33 final size:33
Alignment explanation
Indices: 1868365--1868446 Score: 164
Period size: 33 Copynumber: 2.5 Consensus size: 33
1868355 TCTTTTGGTT
1868365 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1868398 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1868431 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
1868447 TGCGATTTTG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 49 1.00
ACGTcount: A:0.48, C:0.20, G:0.23, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:1868411 original size:19 final size:19
Alignment explanation
Indices: 1868387--1868451 Score: 77
Period size: 19 Copynumber: 3.7 Consensus size: 19
1868377 GCAACGAGAG
1868387 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
1868406 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
1868420 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
1868439 AATCGCAATGCGA
1 AATCGCAACGCGA
1868452 TTTTGGTTTC
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
14 10 0.26
15 1 0.03
16 2 0.05
17 2 0.05
18 1 0.03
19 22 0.58
ACGTcount: A:0.45, C:0.22, G:0.23, T:0.11
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:1868482 original size:14 final size:14
Alignment explanation
Indices: 1868463--1868517 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
1868453 TTTGGTTTCG
1868463 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
1868477 CGTTGCGATTTCCATTTCG
1 CGTTGCGA-TT-C---TCT
1868496 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
1868510 CGTTGCGA
1 CGTTGCGA
1868518 CAGTCATTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
15 2 0.06
16 1 0.03
17 1 0.03
18 2 0.06
19 10 0.29
ACGTcount: A:0.09, C:0.27, G:0.24, T:0.40
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:1868680 original size:33 final size:33
Alignment explanation
Indices: 1868638--1868708 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
1868628 AATACTAACT
*
1868638 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
1868671 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
1868704 TGAAA
1 TGAAA
1868709 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:1868942 original size:22 final size:22
Alignment explanation
Indices: 1868890--1868944 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
1868880 TGGTTGTGAG
**
1868890 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
1868912 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
1868934 GGATTTCTTCG
1 GGATTTCTTCG
1868945 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:1869115 original size:20 final size:20
Alignment explanation
Indices: 1869090--1869263 Score: 217
Period size: 20 Copynumber: 8.7 Consensus size: 20
1869080 CTTTAAATAT
1869090 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
1869110 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
1869132 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
1869151 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
1869171 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
1869191 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
1869211 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
1869231 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
1869251 CGCGTTGCGATTT
1 CGCGTTGCGATTT
1869264 TTCATATTCG
Statistics
Matches: 132, Mismatches: 18, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
19 2 0.02
20 113 0.86
21 15 0.11
22 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.26, T:0.34
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:1869255 original size:60 final size:60
Alignment explanation
Indices: 1869092--1869263 Score: 245
Period size: 60 Copynumber: 2.9 Consensus size: 60
1869082 TTAAATATCG
** *
1869092 CGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATACG
1 CGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATACA
* * *** *
1869153 CGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATACA
1 CGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATACA
*
1869213 CGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTT
1869264 TTCATATTCG
Statistics
Matches: 95, Mismatches: 16, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
60 69 0.73
61 26 0.27
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.35
Consensus pattern (60 bp):
CGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATACA
Found at i:1869275 original size:21 final size:20
Alignment explanation
Indices: 1869231--1869285 Score: 74
Period size: 21 Copynumber: 2.7 Consensus size: 20
1869221 TTTACGGATA
* * *
1869231 CGCGTTGCGATTTATGTGTT
1 CGCGTTGCGATTTTTATATT
1869251 CGCGTTGCGATTTTTCATATT
1 CGCGTTGCGATTTTT-ATATT
1869272 CGCGTTGCGATTTT
1 CGCGTTGCGATTTT
1869286 GGAAAATCGC
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
20 14 0.45
21 17 0.55
ACGTcount: A:0.11, C:0.18, G:0.25, T:0.45
Consensus pattern (20 bp):
CGCGTTGCGATTTTTATATT
Found at i:1869295 original size:21 final size:21
Alignment explanation
Indices: 1869250--1869388 Score: 68
Period size: 21 Copynumber: 6.7 Consensus size: 21
1869240 ATTTATGTGT
** * *
1869250 TCGCGTTGCGATTTTTCATAT
1 TCGCGTTGCGATTTTGGAAAA
1869271 TCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGATTTTGGAAAA
** * * **
1869292 TCGCAATGCGAATTTGTACTA
1 TCGCGTTGCGATTTTGGAAAA
* * *
1869313 TCGCATCGCGATTTT-CAAGAA
1 TCGCGTTGCGATTTTGGAA-AA
* *
1869334 TCGCGTTGCGATTCTGGAAAC
1 TCGCGTTGCGATTTTGGAAAA
** * **
1869355 T-GATTTGCGATTCTGG-GGA
1 TCGCGTTGCGATTTTGGAAAA
1869374 TCGCGTTGCGATTTT
1 TCGCGTTGCGATTTT
1869389 TATTTCGCGT
Statistics
Matches: 86, Mismatches: 29, Indels: 7
0.70 0.24 0.06
Matches are distributed among these distances:
19 1 0.01
20 24 0.28
21 59 0.69
22 2 0.02
ACGTcount: A:0.20, C:0.19, G:0.25, T:0.36
Consensus pattern (21 bp):
TCGCGTTGCGATTTTGGAAAA
Found at i:1880692 original size:60 final size:60
Alignment explanation
Indices: 1880612--1880739 Score: 154
Period size: 60 Copynumber: 2.1 Consensus size: 60
1880602 GTCATTTAAA
* * * *
1880612 AGTTTAGGGATGAATTTGAAAAT-TTTAAAAGTTTATAAA-TTAATTTAGAATGAA-AATTAT
1 AGTTTAAGGATCAAATTG-AAATGTTTAAAAGTTTA-AAATTTAATTTAAAAT-AAGAATTAT
* *
1880672 AGTTTAAGGATCAAATTGAAATGTTTTAAAGTTTAAAATTTAATTTAAAATAAGAGTTAT
1 AGTTTAAGGATCAAATTGAAATGTTTAAAAGTTTAAAATTTAATTTAAAATAAGAATTAT
1880732 AGTTTAAG
1 AGTTTAAG
1880740 AATGTATGAT
Statistics
Matches: 59, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
59 9 0.15
60 50 0.85
ACGTcount: A:0.45, C:0.01, G:0.15, T:0.40
Consensus pattern (60 bp):
AGTTTAAGGATCAAATTGAAATGTTTAAAAGTTTAAAATTTAATTTAAAATAAGAATTAT
Found at i:1881476 original size:36 final size:36
Alignment explanation
Indices: 1881402--1881476 Score: 98
Period size: 36 Copynumber: 2.1 Consensus size: 36
1881392 TTTTTATATT
* *
1881402 TTTAATTTTGTAAAAATATTATATAAATATTATGAA
1 TTTAATTTTGTAAAAATAATATATAAATATTATCAA
* *
1881438 TTTAATTTTTTAAAAA-AATATATAAATATTTTACAA
1 TTTAATTTTGTAAAAATAATATATAAATATTAT-CAA
1881474 TTT
1 TTT
1881477 GTAATATTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
35 14 0.41
36 20 0.59
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.49
Consensus pattern (36 bp):
TTTAATTTTGTAAAAATAATATATAAATATTATCAA
Found at i:1882239 original size:20 final size:20
Alignment explanation
Indices: 1882154--1882384 Score: 187
Period size: 20 Copynumber: 11.5 Consensus size: 20
1882144 GATTTTCCAT
**
1882154 AATCGCAACGCGAA-CATATA
1 AATCGCAACGCGAATC-CGTA
* *
1882174 AATCGCAACGCGATTCTG-A
1 AATCGCAACGCGAATCCGTA
* * * *
1882193 CTATCGGAACGAGTATCCGTAA
1 -AATCGCAACGCGAATCCGT-A
*
1882215 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATCCGTA
* *
1882235 AATCGCAACGTGAATACGTA
1 AATCGCAACGCGAATCCGTA
* **
1882255 AATCGCAACGCGTATATGTA
1 AATCGCAACGCGAATCCGTA
* *
1882275 AATCGCAACGAGAATACGTA
1 AATCGCAACGCGAATCCGTA
* *
1882295 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGAATCCGTA
* * **
1882315 AATCGTAATGCGAAAACGTA
1 AATCGCAACGCGAATCCGTA
* *
1882335 AATCGCAATGCGAATCTGTA
1 AATCGCAACGCGAATCCGTA
* *
1882355 AATCGCAATGCGAATCTGTA
1 AATCGCAACGCGAATCCGTA
1882375 AATCGCAACG
1 AATCGCAACG
1882385 AGATTCTGAC
Statistics
Matches: 174, Mismatches: 33, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
19 1 0.01
20 155 0.89
21 17 0.10
22 1 0.01
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.21
Consensus pattern (20 bp):
AATCGCAACGCGAATCCGTA
Found at i:1882267 original size:40 final size:40
Alignment explanation
Indices: 1882214--1882384 Score: 218
Period size: 40 Copynumber: 4.3 Consensus size: 40
1882204 AGTATCCGTA
*
1882214 AAATCGCAACGCGTATCCGTAAATCGCAACGTGAATACGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACGT
** *
1882254 AAATCGCAACGCGTATATGTAAATCGCAACGAGAATACGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACGT
* * * *
1882294 AAATCGCAATGCGTATCCGTAAATCGTAATGCGAAAACGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACGT
* * * *
1882334 AAATCGCAATGCGAATCTGTAAATCGCAATGCGAAT-CTGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATAC-GT
1882374 AAATCGCAACG
1 AAATCGCAACG
1882385 AGATTCTGAC
Statistics
Matches: 115, Mismatches: 15, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
39 1 0.01
40 114 0.99
ACGTcount: A:0.37, C:0.22, G:0.20, T:0.21
Consensus pattern (40 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACGT
Found at i:1883230 original size:20 final size:20
Alignment explanation
Indices: 1883205--1883315 Score: 96
Period size: 19 Copynumber: 6.0 Consensus size: 20
1883195 TTTTGATTGA
*
1883205 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGCGAG
1883225 AATGAAAATCGCAACGCG-G
1 AATGAAAATCGCAACGCGAG
** *
1883244 AAATGACTATCGCAA--TGAG
1 -AATGAAAATCGCAACGCGAG
*
1883263 -A-G--AATCGCAAGGCGA-
1 AATGAAAATCGCAACGCGAG
1883278 AATGAAAATCGCAACGCGA-
1 AATGAAAATCGCAACGCGAG
*
1883297 AATGAAAATCGCAATGCGA
1 AATGAAAATCGCAACGCGA
1883316 TTTTGGTTTC
Statistics
Matches: 75, Mismatches: 8, Indels: 17
0.75 0.08 0.17
Matches are distributed among these distances:
14 7 0.09
16 4 0.05
17 2 0.03
18 1 0.01
19 32 0.43
20 29 0.39
ACGTcount: A:0.45, C:0.18, G:0.24, T:0.13
Consensus pattern (20 bp):
AATGAAAATCGCAACGCGAG
Found at i:1883247 original size:40 final size:39
Alignment explanation
Indices: 1883203--1883315 Score: 114
Period size: 38 Copynumber: 3.1 Consensus size: 39
1883193 TCTTTTGATT
1883203 GAAATGAAAATCGCAACGAGAGAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATGAAAATCGCAACGC
** * *
1883242 GGAAATGACTATCGCAA--TGAG-A-G--AATCGCAAGGC
1 -GAAATGAAAATCGCAACGAGAGAATGAAAATCGCAACGC
* *
1883276 GAAATGAAAATCGCAACGCGA-AATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGAGAGAATGAAAATCGCAACGC
1883314 GA
1 GA
1883316 TTTTGGTTTC
Statistics
Matches: 59, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
33 14 0.24
34 10 0.17
35 3 0.05
36 2 0.03
37 1 0.02
38 15 0.25
40 14 0.24
ACGTcount: A:0.45, C:0.18, G:0.25, T:0.12
Consensus pattern (39 bp):
GAAATGAAAATCGCAACGAGAGAATGAAAATCGCAACGC
Found at i:1883391 original size:20 final size:20
Alignment explanation
Indices: 1883342--1883392 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
1883332 CAATTATCTC
* *
1883342 GTTGCGATTGTCATTTTCGT
1 GTTGCGATTTTCATTTTCAT
1883362 GTTGCGATTTTCATTTTCAT
1 GTTGCGATTTTCATTTTCAT
*
1883382 GTTGTGATTTT
1 GTTGCGATTTT
1883393 AAGTTTAGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.12, C:0.12, G:0.22, T:0.55
Consensus pattern (20 bp):
GTTGCGATTTTCATTTTCAT
Found at i:1884023 original size:40 final size:40
Alignment explanation
Indices: 1883939--1884063 Score: 189
Period size: 40 Copynumber: 3.1 Consensus size: 40
1883929 TTAAAAATCG
*
1883939 CGTTGCGATTTACGGA-ATCGCGTTGCGATTTTACGTATTGT
1 CGTTGCGATTTACGGATA-CGCGTTGCGA-TTTACGTATTCT
* *
1883980 CGTTGAGATTTACGGATACGCATTGCGATTTACGTATTCT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTACGTATTCT
*
1884020 CGTTGCGATTTACAGATACGCGTTGCGATTTACGTATTCT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTACGTATTCT
1884060 CGTT
1 CGTT
1884064 TGTAGATGCT
Statistics
Matches: 77, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
40 52 0.68
41 24 0.31
42 1 0.01
ACGTcount: A:0.19, C:0.18, G:0.24, T:0.38
Consensus pattern (40 bp):
CGTTGCGATTTACGGATACGCGTTGCGATTTACGTATTCT
Found at i:1884063 original size:20 final size:20
Alignment explanation
Indices: 1883936--1884063 Score: 134
Period size: 20 Copynumber: 6.3 Consensus size: 20
1883926 GCTTTAAAAA
* *
1883936 TCGCGTTGCGATTTACGGAA
1 TCGCGTTGCGATTTACGTAT
1883956 TCGCGTTGCGATTTTACGTAT
1 TCGCGTTGCGA-TTTACGTAT
* *
1883977 T-GTCGTTGAGATTTACGGAT
1 TCG-CGTTGCGATTTACGTAT
* *
1883997 ACGCATTGCGATTTACGTAT
1 TCGCGTTGCGATTTACGTAT
*
1884017 TCTCGTTGCGATTTACAG-AT
1 TCGCGTTGCGATTTAC-GTAT
*
1884037 ACGCGTTGCGATTTACGTAT
1 TCGCGTTGCGATTTACGTAT
*
1884057 TCTCGTT
1 TCGCGTT
1884064 TGTAGATGCT
Statistics
Matches: 88, Mismatches: 15, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
19 1 0.01
20 70 0.80
21 17 0.19
ACGTcount: A:0.19, C:0.19, G:0.24, T:0.38
Consensus pattern (20 bp):
TCGCGTTGCGATTTACGTAT
Found at i:1886644 original size:21 final size:21
Alignment explanation
Indices: 1886610--1886700 Score: 116
Period size: 21 Copynumber: 4.4 Consensus size: 21
1886600 GTTTCGACAT
*
1886610 CGTTGCGA-TTTACGGATAAG
1 CGTTGCGATTTTACGGATACG
* *
1886630 CGTTGCGATTTTACGTAT-TG
1 CGTTGCGATTTTACGGATACG
1886650 TCGTTGCGA-TTTACGGATACG
1 -CGTTGCGATTTTACGGATACG
*
1886671 CGTTGCGATTTTACGGATACT
1 CGTTGCGATTTTACGGATACG
1886692 CGTTGCGAT
1 CGTTGCGAT
1886701 AGTCAGAATC
Statistics
Matches: 62, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
20 25 0.40
21 37 0.60
ACGTcount: A:0.19, C:0.18, G:0.27, T:0.36
Consensus pattern (21 bp):
CGTTGCGATTTTACGGATACG
Found at i:1886666 original size:41 final size:41
Alignment explanation
Indices: 1886609--1886700 Score: 148
Period size: 41 Copynumber: 2.2 Consensus size: 41
1886599 CGTTTCGACA
* **
1886609 TCGTTGCGATTTACGGATAAGCGTTGCGATTTTACGTATTG
1 TCGTTGCGATTTACGGATAAGCGTTGCGATTTTACGGATAC
*
1886650 TCGTTGCGATTTACGGATACGCGTTGCGATTTTACGGATAC
1 TCGTTGCGATTTACGGATAAGCGTTGCGATTTTACGGATAC
1886691 TCGTTGCGAT
1 TCGTTGCGAT
1886701 AGTCAGAATC
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 47 1.00
ACGTcount: A:0.18, C:0.17, G:0.27, T:0.37
Consensus pattern (41 bp):
TCGTTGCGATTTACGGATAAGCGTTGCGATTTTACGGATAC
Found at i:1886714 original size:41 final size:41
Alignment explanation
Indices: 1886609--1886722 Score: 124
Period size: 41 Copynumber: 2.8 Consensus size: 41
1886599 CGTTTCGACA
* * * * **
1886609 TCGTTGCGATTTACGGATAAGCGTTGCGATTTTACGTATTG
1 TCGTTGCGATTCACGAATACGCGTTGCGATTTTACGGATAC
* *
1886650 TCGTTGCGATTTACGGATACGCGTTGCGATTTTACGGATAC
1 TCGTTGCGATTCACGAATACGCGTTGCGATTTTACGGATAC
1886691 TCGTTGCGATAGTCA-GAAT-CGCGTTGCGATTT
1 TCGTTGCGAT--TCACGAATACGCGTTGCGATTT
1886723 ATATGTTCGC
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
41 60 0.92
42 3 0.05
43 2 0.03
ACGTcount: A:0.19, C:0.18, G:0.27, T:0.36
Consensus pattern (41 bp):
TCGTTGCGATTCACGAATACGCGTTGCGATTTTACGGATAC
Found at i:1886732 original size:20 final size:20
Alignment explanation
Indices: 1886709--1886761 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
1886699 ATAGTCAGAA
*
1886709 TCGCGTTGCGATTTAT-ATGT
1 TCGCGTTGCGATTT-TCATAT
1886729 TCGCGTTGCGATTTTCATAT
1 TCGCGTTGCGATTTTCATAT
1886749 TCGCGTTGCGATT
1 TCGCGTTGCGATT
1886762 ATGGAAAATC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 1 0.03
20 30 0.97
ACGTcount: A:0.13, C:0.19, G:0.25, T:0.43
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCATAT
Found at i:1886793 original size:21 final size:20
Alignment explanation
Indices: 1886769--1886826 Score: 64
Period size: 19 Copynumber: 2.9 Consensus size: 20
1886759 ATTATGGAAA
*
1886769 ATCGCAATGCGAATTTGTACT
1 ATCGCATTGCGAATTTGTA-T
*
1886790 ATCGCATTGCG-ATTTTTAT
1 ATCGCATTGCGAATTTGTAT
* *
1886809 TTCGCATTGCGATTTTGT
1 ATCGCATTGCGAATTTGT
1886827 TGGTATTTTG
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
19 11 0.35
20 10 0.32
21 10 0.32
ACGTcount: A:0.21, C:0.17, G:0.19, T:0.43
Consensus pattern (20 bp):
ATCGCATTGCGAATTTGTAT
Found at i:1894830 original size:23 final size:23
Alignment explanation
Indices: 1894804--1894850 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
1894794 GCGCTTCCCC
1894804 CTCGCCTGGCCTTAGCGCCTAGG
1 CTCGCCTGGCCTTAGCGCCTAGG
1894827 CTCGCCTGGCCTTAGCGCCTAGG
1 CTCGCCTGGCCTTAGCGCCTAGG
1894850 C
1 C
1894851 GCGTCTCAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.09, C:0.40, G:0.30, T:0.21
Consensus pattern (23 bp):
CTCGCCTGGCCTTAGCGCCTAGG
Found at i:1897061 original size:5 final size:5
Alignment explanation
Indices: 1897040--1897075 Score: 54
Period size: 5 Copynumber: 7.2 Consensus size: 5
1897030 TCTCAAAAGT
* *
1897040 ATAAA ATGAA GTAAA ATAAA ATAAA ATAAA ATAAA A
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA A
1897076 ACTATTAATC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.75, C:0.00, G:0.06, T:0.19
Consensus pattern (5 bp):
ATAAA
Found at i:1902544 original size:24 final size:24
Alignment explanation
Indices: 1902499--1902544 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
1902489 GTATGATTAA
**
1902499 TTATGTCTTTATAACATGTTTTTT
1 TTATGTCTTTATAACACATTTTTT
*
1902523 TTATGTCTTTATGACACATTTT
1 TTATGTCTTTATAACACATTTT
1902545 ATCAACCTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.22, C:0.11, G:0.09, T:0.59
Consensus pattern (24 bp):
TTATGTCTTTATAACACATTTTTT
Found at i:1920727 original size:6 final size:6
Alignment explanation
Indices: 1920712--1920740 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
1920702 GAGCAAGGAG
1920712 ACTG-A ACTGCA ACTGCA ACTGCA ACTGCA
1 ACTGCA ACTGCA ACTGCA ACTGCA ACTGCA
1920741 GAAGGGATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 4 0.17
6 19 0.83
ACGTcount: A:0.34, C:0.31, G:0.17, T:0.17
Consensus pattern (6 bp):
ACTGCA
Found at i:1926498 original size:15 final size:16
Alignment explanation
Indices: 1926467--1926507 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
1926457 CATAAACTCA
1926467 TTTAATATTACTAAAT
1 TTTAATATTACTAAAT
*
1926483 TTTAATATTA-TCAAT
1 TTTAATATTACTAAAT
*
1926498 TATAATATTA
1 TTTAATATTA
1926508 AATTCTAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 13 0.57
16 10 0.43
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (16 bp):
TTTAATATTACTAAAT
Found at i:1927987 original size:60 final size:59
Alignment explanation
Indices: 1927883--1928037 Score: 170
Period size: 60 Copynumber: 2.6 Consensus size: 59
1927873 CTATATACGT
* **
1927883 ATAATTT-GAGATAAAATTAAAATGTTCAAAAAGTTTGAGGACTAATTTAGAATGAAAGTC
1 ATAATTTAG-GATAAAATTGAAATGTTC-AAAAGTTTGAGGACTAACGTAGAATGAAAGTC
* * *
1927943 ATAATTTAAGGATAAAATTGACATGTTCAAAAGTTTGAGTACTAACGTAGAATGATAGTC
1 ATAATTT-AGGATAAAATTGAAATGTTCAAAAGTTTGAGGACTAACGTAGAATGAAAGTC
* * * *
1928003 GT-ATTTAGATATAAAATTGAAATATTTAAAAGTTT
1 ATAATTTAG-GATAAAATTGAAATGTTCAAAAGTTT
1928038 AGAGATCAAT
Statistics
Matches: 81, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
58 2 0.02
59 26 0.32
60 36 0.44
61 16 0.20
62 1 0.01
ACGTcount: A:0.45, C:0.05, G:0.16, T:0.34
Consensus pattern (59 bp):
ATAATTTAGGATAAAATTGAAATGTTCAAAAGTTTGAGGACTAACGTAGAATGAAAGTC
Found at i:1928067 original size:20 final size:20
Alignment explanation
Indices: 1928026--1928070 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
1928016 AAATTGAAAT
*
1928026 ATTTAAAAGTTTAGAGATCA
1 ATTTAAAAGTTTAGAGACCA
*
1928046 ATTTAAAATTTTA-AGGACCA
1 ATTTAAAAGTTTAGA-GACCA
1928066 ATTTA
1 ATTTA
1928071 CAGTAAGGGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 1 0.05
20 21 0.95
ACGTcount: A:0.44, C:0.07, G:0.11, T:0.38
Consensus pattern (20 bp):
ATTTAAAAGTTTAGAGACCA
Found at i:1930238 original size:14 final size:15
Alignment explanation
Indices: 1930217--1930246 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
1930207 TATTCTTGAC
1930217 ATTTTTTTAAAAATA
1 ATTTTTTTAAAAATA
1930232 ATTTTTTTAAAAATA
1 ATTTTTTTAAAAATA
1930247 TATAAATGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
ATTTTTTTAAAAATA
Found at i:1932024 original size:31 final size:31
Alignment explanation
Indices: 1931952--1932104 Score: 102
Period size: 31 Copynumber: 5.0 Consensus size: 31
1931942 TCTCAATGGG
* * * ** *
1931952 CAAAACGTTATAAATCTATAGCGCAAATGAC
1 CAAAACATTATAAATCAATAACATAAGTGAC
*
1931983 CAAAATATTATAAATCAATAACATAAGTGA-
1 CAAAACATTATAAATCAATAACATAAGTGAC
1932013 CAAAAGCATTATTTAAA--AA-AA-ATTCAA-TGAC
1 CAAAA-CATTA--TAAATCAATAACA-T-AAGTGAC
* * * *
1932044 CAAAACTTTATAAATCGATAACAAAAATGAC
1 CAAAACATTATAAATCAATAACATAAGTGAC
* *
1932075 CAAAATATTATAAATCAATAATATAAGTGA
1 CAAAACATTATAAATCAATAACATAAGTGA
1932105 GAAAAGCATT
Statistics
Matches: 94, Mismatches: 17, Indels: 22
0.71 0.13 0.17
Matches are distributed among these distances:
28 4 0.04
29 1 0.01
30 18 0.19
31 66 0.70
32 1 0.01
33 4 0.04
ACGTcount: A:0.54, C:0.13, G:0.08, T:0.25
Consensus pattern (31 bp):
CAAAACATTATAAATCAATAACATAAGTGAC
Found at i:1932056 original size:92 final size:93
Alignment explanation
Indices: 1931952--1932143 Score: 278
Period size: 92 Copynumber: 2.1 Consensus size: 93
1931942 TCTCAATGGG
* * **
1931952 CAAAACGTTATAAATCTATAGCGCAAATGACCAAAATATTATAAATCAATAACATAAGTGACAAA
1 CAAAACGTTATAAATCGATAACAAAAATGACCAAAATATTATAAATCAATAACATAAGTGACAAA
1932017 AGCATTA-TTTAAAAAAAATTCAATGAC
66 AGCATTATTTTAAAAAAAATTCAATGAC
* * *
1932044 CAAAACTTTATAAATCGATAACAAAAATGACCAAAATATTATAAATCAATAATATAAGTGAGAAA
1 CAAAACGTTATAAATCGATAACAAAAATGACCAAAATATTATAAATCAATAACATAAGTGACAAA
**
1932109 AGCATTACTTTTTTTAAAAAATTCAATGAC
66 AGCATTA--TTTTAAAAAAAATTCAATGAC
1932139 CAAAA
1 CAAAA
1932144 GTAAACACCT
Statistics
Matches: 88, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
92 65 0.74
95 23 0.26
ACGTcount: A:0.53, C:0.13, G:0.08, T:0.27
Consensus pattern (93 bp):
CAAAACGTTATAAATCGATAACAAAAATGACCAAAATATTATAAATCAATAACATAAGTGACAAA
AGCATTATTTTAAAAAAAATTCAATGAC
Found at i:1935689 original size:13 final size:15
Alignment explanation
Indices: 1935664--1935695 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
1935654 TGATAATAAA
1935664 AAAATATTTAAA-TT
1 AAAATATTTAAATTT
1935678 AAAATA-TTAAATTT
1 AAAATATTTAAATTT
1935692 AAAA
1 AAAA
1935696 AGAGAACTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 5 0.29
14 12 0.71
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
AAAATATTTAAATTT
Found at i:1938041 original size:12 final size:13
Alignment explanation
Indices: 1938012--1938052 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 13
1938002 AAGATCTTCA
1938012 ATAAAAAATATAT
1 ATAAAAAATATAT
1938025 ATAAAAAATA-AT
1 ATAAAAAATATAT
* *
1938037 CTAAAATATATA-
1 ATAAAAAATATAT
1938049 ATAA
1 ATAA
1938053 TTTTAAATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
12 13 0.54
13 11 0.46
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.29
Consensus pattern (13 bp):
ATAAAAAATATAT
Found at i:1942083 original size:49 final size:49
Alignment explanation
Indices: 1941986--1942133 Score: 253
Period size: 49 Copynumber: 3.0 Consensus size: 49
1941976 AGTCGGGAGA
* *
1941986 CTCAACAAAGTAATACCCTATAGTCGA-TGACCATTTATGTACTTTACC
1 CTCAACAAAGTAATATCCTATAGTCGAGGGACCATTTATGTACTTTACC
* *
1942034 CTCAACAAAGTAACATCCTATAGTGGAGGGACCATTTATGTACTTTACC
1 CTCAACAAAGTAATATCCTATAGTCGAGGGACCATTTATGTACTTTACC
1942083 CTCAACAAAGTAATATCCTATAGTCGAGGGACCATTTATGTACTTTACC
1 CTCAACAAAGTAATATCCTATAGTCGAGGGACCATTTATGTACTTTACC
1942132 CT
1 CT
1942134 AAAATCTATA
Statistics
Matches: 93, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
48 24 0.26
49 69 0.74
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.30
Consensus pattern (49 bp):
CTCAACAAAGTAATATCCTATAGTCGAGGGACCATTTATGTACTTTACC
Found at i:1946731 original size:22 final size:21
Alignment explanation
Indices: 1946681--1946738 Score: 80
Period size: 22 Copynumber: 2.7 Consensus size: 21
1946671 GGGTCTACGC
*
1946681 GGTCCTTCGGGACAACTCATA
1 GGTCCTTCGGGACAACTCACA
* *
1946702 TGTCCTTCGGGACATATTCACA
1 GGTCCTTCGGGACA-ACTCACA
1946724 GGTCCTTCGGGACAA
1 GGTCCTTCGGGACAA
1946739 AATTTCATAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
21 14 0.44
22 18 0.56
ACGTcount: A:0.22, C:0.28, G:0.24, T:0.26
Consensus pattern (21 bp):
GGTCCTTCGGGACAACTCACA
Found at i:1947594 original size:22 final size:22
Alignment explanation
Indices: 1947569--1947611 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
1947559 AGCATTTGGC
*
1947569 ATTGTTTATGGTACTGTTCATT
1 ATTGTTCATGGTACTGTTCATT
*
1947591 ATTGTTCATGGTATTGTTCAT
1 ATTGTTCATGGTACTGTTCAT
1947612 ACCATATAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.19, C:0.09, G:0.19, T:0.53
Consensus pattern (22 bp):
ATTGTTCATGGTACTGTTCATT
Found at i:1947605 original size:12 final size:12
Alignment explanation
Indices: 1947569--1947611 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
1947559 AGCATTTGGC
*
1947569 ATTGTTTATGGT
1 ATTGTTCATGGT
*
1947581 ACTGTTCAT--T
1 ATTGTTCATGGT
1947591 ATTGTTCATGGT
1 ATTGTTCATGGT
1947603 ATTGTTCAT
1 ATTGTTCAT
1947612 ACCATATAGT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
10 9 0.35
12 17 0.65
ACGTcount: A:0.19, C:0.09, G:0.19, T:0.53
Consensus pattern (12 bp):
ATTGTTCATGGT
Found at i:1952404 original size:2 final size:2
Alignment explanation
Indices: 1952397--1952421 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1952387 TTTATTCCTT
1952397 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
1952422 TCATTGAACC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1957395 original size:42 final size:42
Alignment explanation
Indices: 1957348--1957448 Score: 168
Period size: 42 Copynumber: 2.4 Consensus size: 42
1957338 CCAACGCTCA
*
1957348 TCCACGCCAGCAGCT-GCTACCAACAAGCCCCAGAAGCTCCCT
1 TCCACGCGAGCAG-TAGCTACCAACAAGCCCCAGAAGCTCCCT
*
1957390 TCCACGCGAGCAGTATCTACCAACAAGCCCCAGAAGCTCCCT
1 TCCACGCGAGCAGTAGCTACCAACAAGCCCCAGAAGCTCCCT
1957432 TCCACGCGAGCAGTAGC
1 TCCACGCGAGCAGTAGC
1957449 CCCAAGCCAA
Statistics
Matches: 55, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
41 1 0.02
42 54 0.98
ACGTcount: A:0.27, C:0.42, G:0.19, T:0.13
Consensus pattern (42 bp):
TCCACGCGAGCAGTAGCTACCAACAAGCCCCAGAAGCTCCCT
Found at i:1958556 original size:11 final size:11
Alignment explanation
Indices: 1958540--1958573 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
1958530 TTTAAGTAAT
*
1958540 ATATATATGTG
1 ATATATATATG
1958551 ATATATATATG
1 ATATATATATG
1958562 ATATTATATATG
1 ATA-TATATATG
1958574 GATGAAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 13 0.62
12 8 0.38
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.47
Consensus pattern (11 bp):
ATATATATATG
Found at i:1959305 original size:106 final size:106
Alignment explanation
Indices: 1959150--1960386 Score: 2067
Period size: 106 Copynumber: 11.7 Consensus size: 106
1959140 TGAAAGTTAT
* * *
1959150 GTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTAAAATTGGCTCTGAAATTGGGAAATTGTTT
1 GTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTT
* *
1959215 GTTGACAACCAGTC-GTCCCTTCGTTGTGAAGTTGAACTTGT
66 GTTGACAACCAG-CGGTCCCTTCGTCGTGAAGTTGAACTTGC
* * * *
1959256 GTTGTCTCGAGTCCAATATCCTTTGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTT
1 GTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTT
1959321 GTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGC
66 GTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGC
* * *
1959362 GTTGTCTTGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTG-TT
1 GTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTT
*
1959426 GTTGACAACCAGTGGTCCCTTCGTCGTGAAGTTGAACTTGC
66 GTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGC
*
1959467 GTTGTCTTGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAA-TGTTT
1 GTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTT
1959531 GTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGC
66 GTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGC
* * *
1959572 ATTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGA-AAAATGTTT
1 GTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTT
1959636 GTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGC
66 GTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGC
*
1959677 GTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAA-TATTT
1 GTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTT
1959741 GTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGC
66 GTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGC
*
1959782 GTTGTCTTGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAA-TGTTT
1 GTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTT
1959846 GTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGC
66 GTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGC
* * * *
1959887 GCTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTAAAATTGGCTCTGAAATT-AGGAAGTTGTT
1 GTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGA-GAAATTGTT
* *
1959951 TGTTGACAACCAACGGTCCCTTCGTCGTGAGGTTGAACTTGC
65 TGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGC
*
1959993 GTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGA-AAAGTTGTT
1 GTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAA-TTGTT
*
1960057 TATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGC
65 TGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGC
* *
1960099 GTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGCTGAAATTGGCTCTGAAATTGAGAAGTTGTTT
1 GTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTT
1960164 GTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGC
66 GTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGC
* * *
1960205 GTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTAAAATTGAGAAGTTGTTT
1 GTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTT
*
1960270 GTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATGC
66 GTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGC
* *
1960311 GTTGTCTGGAGTCCAATATCCTTCACTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTT
1 GTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTT
*
1960376 ATTGACAACCA
66 GTTGACAACCA
1960387 ACTTTTCTTG
Statistics
Matches: 1076, Mismatches: 46, Indels: 18
0.94 0.04 0.02
Matches are distributed among these distances:
104 6 0.01
105 495 0.46
106 572 0.53
107 3 0.00
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (106 bp):
GTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTT
GTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGC
Found at i:1959624 original size:210 final size:212
Alignment explanation
Indices: 1959150--1960386 Score: 2049
Period size: 210 Copynumber: 5.9 Consensus size: 212
1959140 TGAAAGTTAT
* * * *
1959150 GTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTAAAATTGGCTCTGAAATTGGGAAATTGTTT
1 GTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTT
* * *
1959215 GTTGACAACCAGTC-GTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTT
66 GTTGACAACCAG-CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTT
* * *
1959279 TGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAA-ATTGTTTGTTGACAACCAGCGGTCCCTTC
130 CGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGA-TGTTTGTTGACAACCAGCGGTCCCTTC
1959343 GTCGTGAAGTTGAACTTGC
194 GTCGTGAAGTTGAACTTGC
* *
1959362 GTTGTCTTGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTG-TT
1 GTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTT
* *
1959426 GTTGACAACCAGTGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTGAGTCCAATATCCTTC
66 GTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTC
1959491 GCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAA-ATGTTTGTTGACAACCAGCGGTCCCTTCGT
131 GCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGATGTTTGTTGACAACCAGCGGTCCCTTCGT
1959555 CGTGAAGTTGAACTTGC
196 CGTGAAGTTGAACTTGC
* * **
1959572 ATTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGA-AAAATGTTT
1 GTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTT
1959636 GTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTC
66 GTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTC
*
1959701 GCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAA-ATATTTGTTGACAACCAGCGGTCCCTTCGT
131 GCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGATGTTTGTTGACAACCAGCGGTCCCTTCGT
1959765 CGTGAAGTTGAACTTGC
196 CGTGAAGTTGAACTTGC
* *
1959782 GTTGTCTTGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAA-ATGTTT
1 GTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTT
*
1959846 GTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGCTGTCTGGAGTCCAATATCCTTC
66 GTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTC
* * * *
1959911 GTTGTGAAGTTAAAATTGGCTCTGAAATT-AGGAAGTTGTTTGTTGACAACCAACGGTCCCTTCG
131 GCTGTGAAGTTGAAATTGGCTCTGAAATTGA-GAAGATGTTTGTTGACAACCAGCGGTCCCTTCG
*
1959975 TCGTGAGGTTGAACTTGC
195 TCGTGAAGTTGAACTTGC
* *
1959993 GTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAAAAGTTGTTT
1 GTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTT
*
1960058 ATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTC
66 GTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTC
* *
1960123 GCTGTGAAGCTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGT
131 GCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGATGTTTGTTGACAACCAGCGGTCCCTTCGT
1960188 CGTGAAGTTGAACTTGC
196 CGTGAAGTTGAACTTGC
* *
1960205 GTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTAAAATTGAGAAGTTGTTT
1 GTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTT
*
1960270 GTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTCCAATATCCTTC
66 GTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTC
* * *
1960335 ACTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAACCA
131 GCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGATGTTTGTTGACAACCA
1960387 ACTTTTCTTG
Statistics
Matches: 971, Mismatches: 47, Indels: 14
0.94 0.05 0.01
Matches are distributed among these distances:
209 5 0.01
210 394 0.41
211 194 0.20
212 377 0.39
213 1 0.00
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (212 bp):
GTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTT
GTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTC
GCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGATGTTTGTTGACAACCAGCGGTCCCTTCGT
CGTGAAGTTGAACTTGC
Found at i:1964555 original size:42 final size:42
Alignment explanation
Indices: 1964508--1964608 Score: 168
Period size: 42 Copynumber: 2.4 Consensus size: 42
1964498 CCAACGCTCA
*
1964508 TCCACGCCAGCAGCT-GCTACCAACAAGCCCCAGAAGCTCCCT
1 TCCACGCGAGCAG-TAGCTACCAACAAGCCCCAGAAGCTCCCT
*
1964550 TCCACGCGAGCAGTATCTACCAACAAGCCCCAGAAGCTCCCT
1 TCCACGCGAGCAGTAGCTACCAACAAGCCCCAGAAGCTCCCT
1964592 TCCACGCGAGCAGTAGC
1 TCCACGCGAGCAGTAGC
1964609 CCCAAGCCAA
Statistics
Matches: 55, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
41 1 0.02
42 54 0.98
ACGTcount: A:0.27, C:0.42, G:0.19, T:0.13
Consensus pattern (42 bp):
TCCACGCGAGCAGTAGCTACCAACAAGCCCCAGAAGCTCCCT
Found at i:1965715 original size:11 final size:11
Alignment explanation
Indices: 1965699--1965732 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
1965689 TTTAAGTAAT
*
1965699 ATATATATGTG
1 ATATATATATG
1965710 ATATATATATG
1 ATATATATATG
1965721 ATATTATATATG
1 ATA-TATATATG
1965733 GATGAAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 13 0.62
12 8 0.38
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.47
Consensus pattern (11 bp):
ATATATATATG
Found at i:1972370 original size:60 final size:60
Alignment explanation
Indices: 1972276--1972463 Score: 200
Period size: 60 Copynumber: 3.1 Consensus size: 60
1972266 TTGCATCATG
* * * *
1972276 TCCCCAGACTATAATCCTCATT-TAAAATTGGTCCTTAAACTTTTAAGTATTCTAATTTAA
1 TCCCCAAACTATGACCCTCATTCT-AAATTGGTCCTTAAACTTTTAAGTATTCTAATTTCA
* * *
1972336 TCCCCAAACTATGACTCTCATTCTAAATTAGTCCTTAAACTTTTGAA-CATTCTAATTTCA
1 TCCCCAAACTATGACCCTCATTCTAAATTGGTCCTTAAACTTTT-AAGTATTCTAATTTCA
* * * ** * * *
1972396 TCTCTAAACTATGACCCTCTTTCTAAATTGGTCCCAAAACTTTTGAGTGTTCCAATTTCA
1 TCCCCAAACTATGACCCTCATTCTAAATTGGTCCTTAAACTTTTAAGTATTCTAATTTCA
*
1972456 TCCTCAAA
1 TCCCCAAA
1972464 TTCATCCAAA
Statistics
Matches: 104, Mismatches: 21, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
59 1 0.01
60 100 0.96
61 3 0.03
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (60 bp):
TCCCCAAACTATGACCCTCATTCTAAATTGGTCCTTAAACTTTTAAGTATTCTAATTTCA
Found at i:1972908 original size:31 final size:31
Alignment explanation
Indices: 1972865--1972937 Score: 128
Period size: 31 Copynumber: 2.4 Consensus size: 31
1972855 AATAGAGTGA
*
1972865 AATTTAGTGACACATTTGTAATTTTACTAAC
1 AATTGAGTGACACATTTGTAATTTTACTAAC
*
1972896 AATTGAGTGACACATTTGTAGTTTTACTAAC
1 AATTGAGTGACACATTTGTAATTTTACTAAC
1972927 AATTGAGTGAC
1 AATTGAGTGAC
1972938 GTGTAATAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.34, C:0.12, G:0.15, T:0.38
Consensus pattern (31 bp):
AATTGAGTGACACATTTGTAATTTTACTAAC
Found at i:1974571 original size:2 final size:2
Alignment explanation
Indices: 1974564--1974606 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
1974554 CACTTACATA
1974564 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
1974606 A
1 A
1974607 CACGTATAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1985622 original size:14 final size:16
Alignment explanation
Indices: 1985603--1985634 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
1985593 CTAAGTAAGG
1985603 TTACCA-GTGAG-GCA
1 TTACCATGTGAGTGCA
1985617 TTACCATGTGAGTGCA
1 TTACCATGTGAGTGCA
1985633 TT
1 TT
1985635 TTACTTACAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.38
15 5 0.31
16 5 0.31
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (16 bp):
TTACCATGTGAGTGCA
Found at i:1986192 original size:82 final size:82
Alignment explanation
Indices: 1986043--1986207 Score: 267
Period size: 82 Copynumber: 2.0 Consensus size: 82
1986033 ACTTAGAACG
* * *
1986043 TCTAATGTTACTTATGTGACAGTGGTGCTAATGTACATTCCGAATACATTTATGGCACATATTTG
1 TCTAACGTTACTTATGTGACAGTGGTGCTAATGTACATTCCGAATACATTTATGACACATATGTG
*
1986108 ATATTGGTACTCGCACA
66 ATATTGGTACCCGCACA
** *
1986125 TCTAACGTTACTTATGTGATGGTGGTGCTAATGTACATTCCGAATACATTTATGACACGTATGTG
1 TCTAACGTTACTTATGTGACAGTGGTGCTAATGTACATTCCGAATACATTTATGACACATATGTG
1986190 ATATTGGTACCCGCACA
66 ATATTGGTACCCGCACA
1986207 T
1 T
1986208 ATGTGATGTT
Statistics
Matches: 76, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
82 76 1.00
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (82 bp):
TCTAACGTTACTTATGTGACAGTGGTGCTAATGTACATTCCGAATACATTTATGACACATATGTG
ATATTGGTACCCGCACA
Found at i:1986415 original size:26 final size:27
Alignment explanation
Indices: 1986386--1986436 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
1986376 AGGCACAAGT
1986386 TTGAAATGAAAT-GAAAAGTACAAGAA
1 TTGAAATGAAATGGAAAAGTACAAGAA
* *
1986412 TTGAAGTGAGATGGAAAAGTACAAG
1 TTGAAATGAAATGGAAAAGTACAAG
1986437 TTTGATCTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 10 0.45
27 12 0.55
ACGTcount: A:0.51, C:0.04, G:0.25, T:0.20
Consensus pattern (27 bp):
TTGAAATGAAATGGAAAAGTACAAGAA
Found at i:1986441 original size:26 final size:25
Alignment explanation
Indices: 1986380--1986441 Score: 79
Period size: 26 Copynumber: 2.4 Consensus size: 25
1986370 AGTGAAAGGC
1986380 ACAAGTTTGAAATGAAATGAAAAGT
1 ACAAGTTTGAAATGAAATGAAAAGT
* * *
1986405 ACAAGAATTGAAGTGAGATGGAAAAGT
1 ACAAG-TTTGAAATGAAAT-GAAAAGT
1986432 ACAAGTTTGA
1 ACAAGTTTGA
1986442 TCTACTTACG
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
25 5 0.16
26 14 0.45
27 12 0.39
ACGTcount: A:0.48, C:0.05, G:0.24, T:0.23
Consensus pattern (25 bp):
ACAAGTTTGAAATGAAATGAAAAGT
Found at i:1989156 original size:37 final size:38
Alignment explanation
Indices: 1989115--1989188 Score: 105
Period size: 38 Copynumber: 2.0 Consensus size: 38
1989105 TCAATAATCG
*
1989115 TTTTTAATTTT-TAAAGTTTAATGATCAAAACAATCAA
1 TTTTTAATTTTCAAAAGTTTAATGATCAAAACAATCAA
* * *
1989152 TTTTTAATTTTCAAAAGTTTAATTATTAAAATAATCA
1 TTTTTAATTTTCAAAAGTTTAATGATCAAAACAATCA
1989189 TTTGAATATA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
37 11 0.34
38 21 0.66
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.46
Consensus pattern (38 bp):
TTTTTAATTTTCAAAAGTTTAATGATCAAAACAATCAA
Found at i:1989737 original size:2 final size:2
Alignment explanation
Indices: 1989730--1989761 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1989720 TAAAGGAACT
1989730 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1989762 AAGAAATGAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:1989871 original size:168 final size:168
Alignment explanation
Indices: 1989593--1989929 Score: 674
Period size: 168 Copynumber: 2.0 Consensus size: 168
1989583 GAAATCAAAA
1989593 GAAGAAATGAGTAAAAACAAGAGCATTATATGTATGATCTGAGAATTTGTTTGATCCTGGCAAAA
1 GAAGAAATGAGTAAAAACAAGAGCATTATATGTATGATCTGAGAATTTGTTTGATCCTGGCAAAA
1989658 TAAACAATCAAGATCATTGTTTGTTTGATCTGAGAATTTGAACAGTTTTACTTCTAATTAGTTAA
66 TAAACAATCAAGATCATTGTTTGTTTGATCTGAGAATTTGAACAGTTTTACTTCTAATTAGTTAA
1989723 AGGAACTTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGT
131 AGGAACTTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGT
1989761 GAAGAAATGAGTAAAAACAAGAGCATTATATGTATGATCTGAGAATTTGTTTGATCCTGGCAAAA
1 GAAGAAATGAGTAAAAACAAGAGCATTATATGTATGATCTGAGAATTTGTTTGATCCTGGCAAAA
1989826 TAAACAATCAAGATCATTGTTTGTTTGATCTGAGAATTTGAACAGTTTTACTTCTAATTAGTTAA
66 TAAACAATCAAGATCATTGTTTGTTTGATCTGAGAATTTGAACAGTTTTACTTCTAATTAGTTAA
1989891 AGGAACTTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGT
131 AGGAACTTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGT
1989929 G
1 G
1989930 TGTGTGTGTG
Statistics
Matches: 169, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
168 169 1.00
ACGTcount: A:0.31, C:0.08, G:0.24, T:0.37
Consensus pattern (168 bp):
GAAGAAATGAGTAAAAACAAGAGCATTATATGTATGATCTGAGAATTTGTTTGATCCTGGCAAAA
TAAACAATCAAGATCATTGTTTGTTTGATCTGAGAATTTGAACAGTTTTACTTCTAATTAGTTAA
AGGAACTTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGT
Found at i:1989905 original size:2 final size:2
Alignment explanation
Indices: 1989898--1989963 Score: 132
Period size: 2 Copynumber: 33.0 Consensus size: 2
1989888 TAAAGGAACT
1989898 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1989940 TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG
1989964 GAAGAGTATA
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 64 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:1990104 original size:2 final size:2
Alignment explanation
Indices: 1990097--1990133 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
1990087 CTCGGTCCGA
1990097 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT G
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT G
1990134 GAAGAGTATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.00, G:0.51, T:0.49
Consensus pattern (2 bp):
GT
Found at i:1990271 original size:2 final size:2
Alignment explanation
Indices: 1990264--1990306 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
1990254 CTCGGTCCGA
1990264 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
1990306 G
1 G
1990307 AAGAGTATAC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.00, C:0.00, G:0.51, T:0.49
Consensus pattern (2 bp):
GT
Found at i:1990378 original size:173 final size:174
Alignment explanation
Indices: 1989921--1990437 Score: 967
Period size: 168 Copynumber: 3.0 Consensus size: 174
1989911 GTGTGTGTGT
1989921 GTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGGAAGAGTATACTATAATTATTT
1 GTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGT-GAAGAGTATACTATAATTA-TT
1989986 TTTTTTAATCCTTAGAAGTTTTTGGATCATATTACTAATTTTTTTGGTTTGAATGTGGATTGCAG
64 TTTTTTAATCCTTAGAAGTTTTTGGATCATATTACTAATTTTTTTGGTTTGAATGTGGATTGCAG
1990051 AGTTTCTTTCCTGCAATGACAAAAATTGTGGGGACACTCGGTCCGA
129 AGTTTCTTTCCTGCAATGACAAAAATTGTGGGGACACTCGGTCCGA
1990097 ----GTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTG-GAAGAGTATACTATAATTA-TTT
1 GTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGAAGAGTATACTATAATTATTTT
1990156 TTTTAATCCTTAGAAGTTTTTGGATCATATTACTAATTTTTTTGGTTTGAATGTGGATTGCAGAG
66 TTTTAATCCTTAGAAGTTTTTGGATCATATTACTAATTTTTTTGGTTTGAATGTGGATTGCAGAG
1990221 TTTCTTTCCTGCAATGAC-AAAATTGTGGGGACACTCGGTCCGA
131 TTTCTTTCCTGCAATGACAAAAATTGTGGGGACACTCGGTCCGA
1990264 GTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGAAGAGTATACTATAATTATTTT
1 GTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGAAGAGTATACTATAATTATTTT
1990329 TTTTAATCCTTAGAAGTTTTTGGATCATATTACTAATTTTTTTGGTTTGAATGTGGATTGCAGAG
66 TTTTAATCCTTAGAAGTTTTTGGATCATATTACTAATTTTTTTGGTTTGAATGTGGATTGCAGAG
1990394 TTTCTTTCCTGCAATGACAAAAATTGTGGGGACACTCGGTCCGA
131 TTTCTTTCCTGCAATGACAAAAATTGTGGGGACACTCGGTCCGA
1990438 ATTCGCAATC
Statistics
Matches: 334, Mismatches: 0, Indels: 16
0.95 0.00 0.05
Matches are distributed among these distances:
167 25 0.07
168 86 0.26
170 19 0.06
171 37 0.11
172 56 0.17
173 86 0.26
174 25 0.07
ACGTcount: A:0.21, C:0.09, G:0.27, T:0.43
Consensus pattern (174 bp):
GTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGAAGAGTATACTATAATTATTTT
TTTTAATCCTTAGAAGTTTTTGGATCATATTACTAATTTTTTTGGTTTGAATGTGGATTGCAGAG
TTTCTTTCCTGCAATGACAAAAATTGTGGGGACACTCGGTCCGA
Found at i:1997419 original size:60 final size:59
Alignment explanation
Indices: 1997355--1997500 Score: 150
Period size: 60 Copynumber: 2.4 Consensus size: 59
1997345 ATTATGATCC
* * *
1997355 TCATTTTAAATTGGTCACTAAACTTTTAAACATTATAAATTCATCCCTAAAATATGATAA
1 TCATTCTAAATT-GTCACTAAACTTTTAAACATTATAAATTCATCCCCAAAATATGACAA
* * * *** * *
1997415 TCATTCTAAATTAATC-CTTAAACTTTTAAATATTTTTGTTTCATCCCCAAGATATGACAT
1 TCATTCTAAATT-GTCAC-TAAACTTTTAAACATTATAAATTCATCCCCAAAATATGACAA
*
1997475 TCATTCTAAATTGCCACTAAACTTTT
1 TCATTCTAAATTGTCACTAAACTTTT
1997501 TAAATTTTCA
Statistics
Matches: 70, Mismatches: 14, Indels: 5
0.79 0.16 0.06
Matches are distributed among these distances:
59 11 0.16
60 59 0.84
ACGTcount: A:0.36, C:0.18, G:0.05, T:0.41
Consensus pattern (59 bp):
TCATTCTAAATTGTCACTAAACTTTTAAACATTATAAATTCATCCCCAAAATATGACAA
Found at i:1997815 original size:60 final size:61
Alignment explanation
Indices: 1997659--1997805 Score: 161
Period size: 61 Copynumber: 2.4 Consensus size: 61
1997649 AATTTATGGG
* * *
1997659 TGAAATTGGAAGATTCAAAAGTTTAGGGACAAATTTAGAATAAAACTCATAGTGTGGGGGA
1 TGAAATTGGAAGATTCAAAAGTTTAAGGACAAATTTAGAATAAAACTCATAATGTGGAGGA
* * * ** * * * * * *
1997720 TAAAATTTGAATATTCAAAAAATTAAGGACTAATTTAGAATGAGAGTCATAAT-TTGAGTA
1 TGAAATTGGAAGATTCAAAAGTTTAAGGACAAATTTAGAATAAAACTCATAATGTGGAGGA
1997780 TGAAATTGGAAGATTCAAAAGTTTAA
1 TGAAATTGGAAGATTCAAAAGTTTAA
1997806 TAACCAATTT
Statistics
Matches: 67, Mismatches: 19, Indels: 1
0.77 0.22 0.01
Matches are distributed among these distances:
60 25 0.37
61 42 0.63
ACGTcount: A:0.44, C:0.05, G:0.20, T:0.30
Consensus pattern (61 bp):
TGAAATTGGAAGATTCAAAAGTTTAAGGACAAATTTAGAATAAAACTCATAATGTGGAGGA
Found at i:2002853 original size:24 final size:24
Alignment explanation
Indices: 2002815--2002864 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
2002805 TTCTTGTTAT
*
2002815 ATAGTTTAAGCATTACAAAGCGAA
1 ATAGTTTAAGCATTACAAAGCAAA
* *
2002839 ATAGTTTGAGTATTACAAAGCAAA
1 ATAGTTTAAGCATTACAAAGCAAA
2002863 AT
1 AT
2002865 TTTACGGCCT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.46, C:0.10, G:0.16, T:0.28
Consensus pattern (24 bp):
ATAGTTTAAGCATTACAAAGCAAA
Found at i:2004248 original size:58 final size:59
Alignment explanation
Indices: 2004143--2004255 Score: 210
Period size: 58 Copynumber: 1.9 Consensus size: 59
2004133 ACTCGAAATT
2004143 AGTCTTTTCATCACTCTTTCTCTCCTTTGAACTGTTGTAGGCAAGGCAATCCCTCTGAC
1 AGTCTTTTCATCACTCTTTCTCTCCTTTGAACTGTTGTAGGCAAGGCAATCCCTCTGAC
*
2004202 AGTCTTTTCATCACTCTTTCTCT-TTTTGAACTGTTGTAGGCAAGGCAATCCCTC
1 AGTCTTTTCATCACTCTTTCTCTCCTTTGAACTGTTGTAGGCAAGGCAATCCCTC
2004256 ATTGTCAGAG
Statistics
Matches: 53, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
58 30 0.57
59 23 0.43
ACGTcount: A:0.19, C:0.27, G:0.15, T:0.39
Consensus pattern (59 bp):
AGTCTTTTCATCACTCTTTCTCTCCTTTGAACTGTTGTAGGCAAGGCAATCCCTCTGAC
Found at i:2007977 original size:60 final size:60
Alignment explanation
Indices: 2007881--2008006 Score: 164
Period size: 60 Copynumber: 2.1 Consensus size: 60
2007871 AATGATCCTC
* * ** * * *
2007881 GATTATAGGATGTTGTTTTGTTGAGTCTTCTGATTATTAAAAGTTATGAAAT-ATTTCTTT
1 GATTATAGGATATTATTTTGTTGAGTCCCCTAATTATTAAAAGTTATAAAATAATTAC-TT
*
2007941 GATTATAGGGTATTATTTTGTTGAGTCCCCTAATTATTAAAAGTTATAAAATAATTACTT
1 GATTATAGGATATTATTTTGTTGAGTCCCCTAATTATTAAAAGTTATAAAATAATTACTT
2008001 GATTAT
1 GATTAT
2008007 TCATGTCTTA
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
60 53 0.93
61 4 0.07
ACGTcount: A:0.31, C:0.06, G:0.16, T:0.47
Consensus pattern (60 bp):
GATTATAGGATATTATTTTGTTGAGTCCCCTAATTATTAAAAGTTATAAAATAATTACTT
Found at i:2012230 original size:21 final size:19
Alignment explanation
Indices: 2012190--2012227 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
2012180 GAACCATGTA
*
2012190 GCACATTCTCATCATATAT
1 GCACATTCACATCATATAT
2012209 GCACATTCACATCATATAT
1 GCACATTCACATCATATAT
2012228 ATGTACAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.34, C:0.26, G:0.05, T:0.34
Consensus pattern (19 bp):
GCACATTCACATCATATAT
Found at i:2021420 original size:41 final size:41
Alignment explanation
Indices: 2021375--2021683 Score: 258
Period size: 41 Copynumber: 7.6 Consensus size: 41
2021365 ATTCACGTTG
* *
2021375 CATTTCGCATTGCGATAGTTGAAAATCGCGTTGCGTTTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
* *
2021416 CATTTCGCGTTGCGATAGTTGGAGATCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
*** *
2021457 CATTTCGCGTTGCGATAGTTG-AAATCGCAACGCGA-TCTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
* * * ** * *
2021496 CATCATCGCAAATT-CG-T-GTTGCATTTCGCGTTGCGATAGTTG
1 CAT-TTCGC--GTTGCGATAGTTGAAAATCGCGTTGCGAT-TTTC
* ** * ** **
2021538 AAAATCGCGTTGCGAT-TTTCCATTTCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
2021578 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
* *
2021619 CATTTCGCGTTGCGATAGTCT-ACAGTCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGT-TGAAAATCGCGTTGCGATTTTC
* *
2021660 CAAATT--CGTTGCGATAGTTAAAAA
1 C-ATTTCGCGTTGCGATAGTTGAAAA
2021684 AAATAATATC
Statistics
Matches: 217, Mismatches: 39, Indels: 25
0.77 0.14 0.09
Matches are distributed among these distances:
39 13 0.06
40 55 0.25
41 141 0.65
42 8 0.04
ACGTcount: A:0.20, C:0.21, G:0.23, T:0.36
Consensus pattern (41 bp):
CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
Found at i:2021471 original size:20 final size:20
Alignment explanation
Indices: 2021400--2021472 Score: 83
Period size: 20 Copynumber: 3.6 Consensus size: 20
2021390 TAGTTGAAAA
*
2021400 TCGCGTTGCGTTTTTCCATT
1 TCGCGTTGCGATTTTCCATT
* ** **
2021420 TCGCGTTGCGATAGTTGGAGA
1 TCGCGTTGCGAT-TTTCCATT
2021441 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
2021461 TCGCGTTGCGAT
1 TCGCGTTGCGAT
2021473 AGTTGAAATC
Statistics
Matches: 41, Mismatches: 11, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
20 26 0.63
21 15 0.37
ACGTcount: A:0.11, C:0.22, G:0.27, T:0.40
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCCATT
Found at i:2021484 original size:20 final size:21
Alignment explanation
Indices: 2021379--2021484 Score: 67
Period size: 20 Copynumber: 5.2 Consensus size: 21
2021369 ACGTTGCATT
*
2021379 TCGCATTGCGATAGTT-GAAAA
1 TCGCGTTGCGATAGTTCG-AAA
** * **
2021400 TCGCGTTGCG-TTTTTCCATT
1 TCGCGTTGCGATAGTTCGAAA
* *
2021420 TCGCGTTGCGATAGTTGGAGA
1 TCGCGTTGCGATAGTTCGAAA
* * **
2021441 TCGCGTTGCGAT-TTTCCATT
1 TCGCGTTGCGATAGTTCGAAA
2021461 TCGCGTTGCGATAGTT-GAAA
1 TCGCGTTGCGATAGTTCGAAA
2021481 TCGC
1 TCGC
2021485 AACGCGATCT
Statistics
Matches: 61, Mismatches: 21, Indels: 7
0.69 0.24 0.08
Matches are distributed among these distances:
20 34 0.56
21 27 0.44
ACGTcount: A:0.18, C:0.20, G:0.26, T:0.36
Consensus pattern (21 bp):
TCGCGTTGCGATAGTTCGAAA
Found at i:2021492 original size:61 final size:60
Alignment explanation
Indices: 2021440--2021634 Score: 198
Period size: 61 Copynumber: 3.2 Consensus size: 60
2021430 ATAGTTGGAG
*
2021440 ATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTG-AAATCGCAACGCGATCTCCATC
1 ATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAATCGCAACGCGATTTCCA-C
* * * *** *
2021500 ATCGCAAATT-CG-TGTTGCATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCAT
1 ATCGC--GTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAATCGCAACGCGA-TTTCCAC
* *** *
2021561 TTCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCAT
1 ATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAATCGCAACGCGA-TTTCCAC
*
2021622 TTCGCGTTGCGAT
1 ATCGCGTTGCGAT
2021635 AGTCTACAGT
Statistics
Matches: 117, Mismatches: 12, Indels: 11
0.84 0.09 0.08
Matches are distributed among these distances:
59 2 0.02
60 31 0.26
61 77 0.66
62 7 0.06
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.36
Consensus pattern (60 bp):
ATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAATCGCAACGCGATTTCCAC
Found at i:2021567 original size:20 final size:20
Alignment explanation
Indices: 2021542--2021661 Score: 134
Period size: 20 Copynumber: 5.9 Consensus size: 20
2021532 TAGTTGAAAA
2021542 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
2021562 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
* ** **
2021582 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGAT-TTTCCATT
2021603 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
* * *
2021623 TCGCGTTGCGATAGTCTACA-G
1 TCGCGTTGCGAT--TTTCCATT
2021644 TCGCGTTGCGATTTTCCA
1 TCGCGTTGCGATTTTCCA
2021662 AATTCGTTGC
Statistics
Matches: 82, Mismatches: 15, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
19 4 0.05
20 47 0.57
21 27 0.33
22 4 0.05
ACGTcount: A:0.15, C:0.23, G:0.23, T:0.38
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCCATT
Found at i:2021607 original size:142 final size:142
Alignment explanation
Indices: 2021346--2021614 Score: 380
Period size: 142 Copynumber: 1.9 Consensus size: 142
2021336 AATTTGCATT
*
2021346 GCGATCTCCACTATCGCAAATTCACGTTGCATTTCGCATTGCGATAGTTGAAAATCGCGTTGCGT
1 GCGATCTCCACTATCGCAAATTCACGTTGCATTTCGCATTGCGATAGTTGAAAATCGCGTTGCGA
** * * **
2021411 TTTTCCATTTCGCGTTGCGATAGTTGGAGATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGT
66 TTTTCCATTTCGCGTTGCGATAGTTCCAGATCGCGTTGCGATGTTCAAAATCGCGTTGCGATAGT
2021476 TGAAATCGCAAC
131 TGAAATCGCAAC
** *
2021488 GCGATCTCCA-TCATCGCAAATTCGTGTTGCATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCG
1 GCGATCTCCACT-ATCGCAAATTCACGTTGCATTTCGCATTGCGATAGTTGAAAATCGCGTTGCG
* ** *
2021552 ATTTTCCATTTCGCGTTGCGAT-TTTCCATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGAT
65 ATTTTCCATTTCGCGTTGCGATAGTTCCAGATCGCGTTGCGAT-GTTCAAAATCGCGTTGCGAT
2021615 TTTCCATTTC
Statistics
Matches: 111, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
141 16 0.14
142 95 0.86
ACGTcount: A:0.20, C:0.22, G:0.23, T:0.35
Consensus pattern (142 bp):
GCGATCTCCACTATCGCAAATTCACGTTGCATTTCGCATTGCGATAGTTGAAAATCGCGTTGCGA
TTTTCCATTTCGCGTTGCGATAGTTCCAGATCGCGTTGCGATGTTCAAAATCGCGTTGCGATAGT
TGAAATCGCAAC
Found at i:2022081 original size:41 final size:41
Alignment explanation
Indices: 2021960--2022120 Score: 204
Period size: 41 Copynumber: 4.0 Consensus size: 41
2021950 TATCGCAATT
*
2021960 TGGAAAATCGCAACGACAACTGTAGACTAT---AACGCGAAA
1 TGGAAAATCGCAACG-CGACTGTAGACTATCGCAACGCGAAA
* * * *
2021999 CGGAAAATCGCGATCGCAACTGTATACTATCGCAACGCGAAA
1 TGGAAAATCGC-AACGCGACTGTAGACTATCGCAACGCGAAA
* *
2022041 TGGAAAATCGCAACGCGATTTTCA-ACTATCGCAACGCGAAA
1 TGGAAAATCGCAACGCGACTGT-AGACTATCGCAACGCGAAA
2022082 TGGAAAATCGCAACGCGACTGTAGACTATCGCAACGCGA
1 TGGAAAATCGCAACGCGACTGTAGACTATCGCAACGCGA
2022121 TTTTCAACTA
Statistics
Matches: 106, Mismatches: 10, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
39 23 0.22
40 4 0.04
41 59 0.56
42 20 0.19
ACGTcount: A:0.37, C:0.24, G:0.22, T:0.17
Consensus pattern (41 bp):
TGGAAAATCGCAACGCGACTGTAGACTATCGCAACGCGAAA
Found at i:2022113 original size:62 final size:62
Alignment explanation
Indices: 2022047--2022182 Score: 272
Period size: 62 Copynumber: 2.2 Consensus size: 62
2022037 GAAATGGAAA
2022047 ATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAAATCGCAACGCGACTGTAGACT
1 ATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAAATCGCAACGCGACTGTAGACT
2022109 ATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAAATCGCAACGCGACTGTAGACT
1 ATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAAATCGCAACGCGACTGTAGACT
2022171 ATCGCAACGCGA
1 ATCGCAACGCGA
2022183 AATGGAAAAT
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 74 1.00
ACGTcount: A:0.34, C:0.26, G:0.21, T:0.18
Consensus pattern (62 bp):
ATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAAATCGCAACGCGACTGTAGACT
Found at i:2022135 original size:103 final size:103
Alignment explanation
Indices: 2022024--2022223 Score: 323
Period size: 103 Copynumber: 1.9 Consensus size: 103
2022014 GCAACTGTAT
* *
2022024 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA-ACTATCGCAACGCGAAATGGAAA
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGACTGT-AGACTATCGCAACGCGAAATGGAAA
*
2022088 ATCGCAACGCGACTGT-AGACTATCGCAACGCGATTTTCA
65 ATCACAACGCGACTGTCA-ACTATCGCAACGCGATTTTCA
2022127 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGACTGTAGACTATCGCAACGCGAAATGGAAAA
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGACTGTAGACTATCGCAACGCGAAATGGAAAA
* *
2022192 TCACAACGCGATTTTCAACTATCGCAACGCGA
66 TCACAACGCGACTGTCAACTATCGCAACGCGA
2022224 AATGCAACGC
Statistics
Matches: 90, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
102 1 0.01
103 88 0.98
104 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.18
Consensus pattern (103 bp):
ACTATCGCAACGCGAAATGGAAAATCGCAACGCGACTGTAGACTATCGCAACGCGAAATGGAAAA
TCACAACGCGACTGTCAACTATCGCAACGCGATTTTCA
Found at i:2022154 original size:41 final size:41
Alignment explanation
Indices: 2022109--2022227 Score: 195
Period size: 41 Copynumber: 2.9 Consensus size: 41
2022099 ACTGTAGACT
2022109 ATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAA
* *
2022150 ATCGCAACGCGACTGT-AGACTATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGATTTTCA-ACTATCGCAACGCGAAATGGAAA
*
2022191 ATCACAACGCGATTTTCAACTATCGCAACGCGAAATG
1 ATCGCAACGCGATTTTCAACTATCGCAACGCGAAATG
2022228 CAACGCGAAT
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
40 1 0.01
41 69 0.97
42 1 0.01
ACGTcount: A:0.36, C:0.25, G:0.20, T:0.18
Consensus pattern (41 bp):
ATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAA
Found at i:2022223 original size:62 final size:62
Alignment explanation
Indices: 2022047--2022202 Score: 188
Period size: 62 Copynumber: 2.5 Consensus size: 62
2022037 GAAATGGAAA
** * * * *
2022047 ATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAAATCGCAACGCGACTGTAGACT
1 ATCGCAACGCGAAATGCAACAATCACAACGCGAAATGCAAAATCGCAACGCGACTGTAGACT
** * * * *
2022109 ATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAAATCGCAACGCGACTGTAGACT
1 ATCGCAACGCGAAATGCAACAATCACAACGCGAAATGCAAAATCGCAACGCGACTGTAGACT
*
2022171 ATCGCAACGCGAAATGGAA-AATCACAACGCGA
1 ATCGCAACGCGAAATGCAACAATCACAACGCGA
2022203 TTTTCAACTA
Statistics
Matches: 88, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
61 11 0.12
62 77 0.88
ACGTcount: A:0.36, C:0.26, G:0.21, T:0.17
Consensus pattern (62 bp):
ATCGCAACGCGAAATGCAACAATCACAACGCGAAATGCAAAATCGCAACGCGACTGTAGACT
Found at i:2024152 original size:33 final size:33
Alignment explanation
Indices: 2024115--2024186 Score: 144
Period size: 33 Copynumber: 2.2 Consensus size: 33
2024105 ATTGTAAGAC
2024115 TTATGTCTCTAATTGAGGGACAAACACATGAGT
1 TTATGTCTCTAATTGAGGGACAAACACATGAGT
2024148 TTATGTCTCTAATTGAGGGACAAACACATGAGT
1 TTATGTCTCTAATTGAGGGACAAACACATGAGT
2024181 TTATGT
1 TTATGT
2024187 TAAAGGGGTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.32, C:0.14, G:0.21, T:0.33
Consensus pattern (33 bp):
TTATGTCTCTAATTGAGGGACAAACACATGAGT
Found at i:2026659 original size:31 final size:31
Alignment explanation
Indices: 2026569--2026661 Score: 77
Period size: 31 Copynumber: 3.1 Consensus size: 31
2026559 TGAACGGTTC
* *
2026569 AATTTCATCCCGAAACTATGACTCTCATTCT
1 AATTTCATCCCTAAACTATGACTCTCATTTT
* * * **
2026600 AAATT-AGT-CCTCAAACTTTTA-AAT-ATTTT
1 AATTTCA-TCCCT-AAACTATGACTCTCATTTT
2026629 AATTTCATCCCTAAACTATGACTCTCATTTT
1 AATTTCATCCCTAAACTATGACTCTCATTTT
2026660 AA
1 AA
2026662 ATTAGTCATC
Statistics
Matches: 44, Mismatches: 12, Indels: 12
0.65 0.18 0.18
Matches are distributed among these distances:
29 16 0.36
30 9 0.20
31 19 0.43
ACGTcount: A:0.33, C:0.23, G:0.04, T:0.40
Consensus pattern (31 bp):
AATTTCATCCCTAAACTATGACTCTCATTTT
Found at i:2026663 original size:60 final size:60
Alignment explanation
Indices: 2026569--2026697 Score: 222
Period size: 60 Copynumber: 2.1 Consensus size: 60
2026559 TGAACGGTTC
*
2026569 AATTTCATCCCGAAACTATGACTCTCATTCTAAATTAGTCCTCAAACTTTTAAATATTTT
1 AATTTCATCCCGAAACTATGACTCTCATTCTAAATTAGTCATCAAACTTTTAAATATTTT
* * *
2026629 AATTTCATCCCTAAACTATGACTCTCATTTTAAATTAGTCATCACACTTTTAAATATTTT
1 AATTTCATCCCGAAACTATGACTCTCATTCTAAATTAGTCATCAAACTTTTAAATATTTT
2026689 AATTTCATC
1 AATTTCATC
2026698 TCAAATGATC
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
60 65 1.00
ACGTcount: A:0.33, C:0.21, G:0.04, T:0.42
Consensus pattern (60 bp):
AATTTCATCCCGAAACTATGACTCTCATTCTAAATTAGTCATCAAACTTTTAAATATTTT
Found at i:2028579 original size:315 final size:315
Alignment explanation
Indices: 2028007--2028637 Score: 1201
Period size: 315 Copynumber: 2.0 Consensus size: 315
2027997 ACGAGATGGC
2028007 ATAGGTTGACTTTCTTGTTATCCGACTCTAAATAAAAAATTGAAGCTTTTACCTAATTTTAATCA
1 ATAGGTTGACTTTCTTGTTATCCGACTCTAAATAAAAAATTGAAGCTTTTACCTAATTTTAATCA
2028072 TCCCGACATTTGGTGATATTCTATCAACCTCGAATCTATCTTAATTTTAGAATAAAACTAACTTT
66 TCCCGACATTTGGTGATATTCTATCAACCTCGAATCTATCTTAATTTTAGAATAAAACTAACTTT
2028137 GACCCACCTGACATGAATATTTTCTTTTATTTTTTTTATTCGGCAAGATAAGGAGATATTAAAAA
131 GACCCACCTGACATGAATATTTTCTTTTATTTTTTTTATTCGGCAAGATAAGGAGATATTAAAAA
*
2028202 TATAGAGAAAAAGAAAGAAAAAAAACACCCCCAACAACTTATTACGATAAATGAATTTAACTTAA
196 TATAGAAAAAAAGAAAGAAAAAAAACACCCCCAACAACTTATTACGATAAATGAATTTAACTTAA
*
2028267 ATAATTAACGACGCTAACTCTTTCGACTAACAAATGATATTATAAAGAAAGAAAA
261 ATAATTAACAACGCTAACTCTTTCGACTAACAAATGATATTATAAAGAAAGAAAA
2028322 ATAGGTTGACTTTCTTGTTATCCGACTCTAAATAAAAAATTGAAGCTTTTACCTAATTTTAATCA
1 ATAGGTTGACTTTCTTGTTATCCGACTCTAAATAAAAAATTGAAGCTTTTACCTAATTTTAATCA
2028387 TCCCGACATTTGGTGATATTCTATCAACCTCGAATCTATCTTAAATTTTAGAATAAAACTAACTT
66 TCCCGACATTTGGTGATATTCTATCAACCTCGAATCTATCTT-AATTTTAGAATAAAACTAACTT
2028452 TGACCCACCTGACATGAATATTTTCTTTTATTTTTTTTATTCGGCAAGATAAGGAGATATTAAAA
130 TGACCCACCTGACATGAATATTTTCTTTTATTTTTTTTATTCGGCAAGATAAGGAGATATTAAAA
* * *
2028517 ATATAGAAAAAAATAAAG-AAAAAAACGCTCCCAACAACTTATTACGATAAATGAATTTAACTTA
195 ATATAGAAAAAAAGAAAGAAAAAAAACACCCCCAACAACTTATTACGATAAATGAATTTAACTTA
2028581 AATAATTAACAACGCTAACTCTTTCGACTAACAAATGATATTATAAAGAAAGAAAA
260 AATAATTAACAACGCTAACTCTTTCGACTAACAAATGATATTATAAAGAAAGAAAA
2028637 A
1 A
2028638 AAATAATGTC
Statistics
Matches: 310, Mismatches: 5, Indels: 2
0.98 0.02 0.01
Matches are distributed among these distances:
315 207 0.67
316 103 0.33
ACGTcount: A:0.41, C:0.16, G:0.10, T:0.33
Consensus pattern (315 bp):
ATAGGTTGACTTTCTTGTTATCCGACTCTAAATAAAAAATTGAAGCTTTTACCTAATTTTAATCA
TCCCGACATTTGGTGATATTCTATCAACCTCGAATCTATCTTAATTTTAGAATAAAACTAACTTT
GACCCACCTGACATGAATATTTTCTTTTATTTTTTTTATTCGGCAAGATAAGGAGATATTAAAAA
TATAGAAAAAAAGAAAGAAAAAAAACACCCCCAACAACTTATTACGATAAATGAATTTAACTTAA
ATAATTAACAACGCTAACTCTTTCGACTAACAAATGATATTATAAAGAAAGAAAA
Found at i:2029554 original size:30 final size:31
Alignment explanation
Indices: 2029488--2029559 Score: 110
Period size: 31 Copynumber: 2.4 Consensus size: 31
2029478 GTTAACAATC
* *
2029488 ATTTTGTAATAGTTCCATAAGTTTAATGATT
1 ATTTTATAATAGTTCAATAAGTTTAATGATT
*
2029519 ATTTTATAATAGTTTAATAAGTTTAATGA-T
1 ATTTTATAATAGTTCAATAAGTTTAATGATT
2029549 ATTTTATAATA
1 ATTTTATAATA
2029560 TAATGAACAT
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
30 12 0.32
31 26 0.68
ACGTcount: A:0.38, C:0.03, G:0.10, T:0.50
Consensus pattern (31 bp):
ATTTTATAATAGTTCAATAAGTTTAATGATT
Found at i:2031114 original size:51 final size:51
Alignment explanation
Indices: 2031037--2031133 Score: 122
Period size: 51 Copynumber: 1.9 Consensus size: 51
2031027 CCTTTGCAGG
* * * *
2031037 AAGGCGCTCCCCCTGCAGCGCACTTTACGCTAATATGGCGTCACGTAGGGT
1 AAGGCGCACCCCCTGCAACACACTTTACGCTAATATGGCGACACGTAGGGT
* * * *
2031088 AAGGCGCACCCCCTGCAACACGCTTTATGCTGATCTGGCGACACGT
1 AAGGCGCACCCCCTGCAACACACTTTACGCTAATATGGCGACACGT
2031134 GGGATATAGC
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
51 38 1.00
ACGTcount: A:0.21, C:0.33, G:0.26, T:0.21
Consensus pattern (51 bp):
AAGGCGCACCCCCTGCAACACACTTTACGCTAATATGGCGACACGTAGGGT
Found at i:2039100 original size:6 final size:6
Alignment explanation
Indices: 2039069--2039108 Score: 50
Period size: 6 Copynumber: 7.2 Consensus size: 6
2039059 TCTCGTCTCG
*
2039069 GGTCG- GGTCG- GGTCG- GGTCGT TGTCGT GGTCGT GGTCGT G
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT G
2039109 TCTTTTTAGA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
5 15 0.47
6 17 0.53
ACGTcount: A:0.00, C:0.17, G:0.53, T:0.30
Consensus pattern (6 bp):
GGTCGT
Found at i:2039319 original size:29 final size:29
Alignment explanation
Indices: 2039286--2039342 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
2039276 TGGTTAAAAT
2039286 CGTATATTATAAGGCATTTTTGGTCACTG
1 CGTATATTATAAGGCATTTTTGGTCACTG
*
2039315 CGTATATTATAAGGCATTTTTTGTCACT
1 CGTATATTATAAGGCATTTTTGGTCACT
2039343 AATGTTATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.25, C:0.14, G:0.18, T:0.44
Consensus pattern (29 bp):
CGTATATTATAAGGCATTTTTGGTCACTG
Found at i:2039673 original size:32 final size:32
Alignment explanation
Indices: 2039557--2039673 Score: 108
Period size: 32 Copynumber: 3.7 Consensus size: 32
2039547 ACGTGGTATG
* * * *
2039557 TGTCATATCATCATTTATGAACATGTGATATC
1 TGTCATGTCATCATTTATGTACATGTGACATA
* * *
2039589 TGTTATGTCATCATTTACGTACATGTGACATG
1 TGTCATGTCATCATTTATGTACATGTGACATA
* * * * * *
2039621 TATCTTGTCATTACTAATGTACATATGACATA
1 TGTCATGTCATCATTTATGTACATGTGACATA
*
2039653 TGTCATGTCATTATTTATGTA
1 TGTCATGTCATCATTTATGTA
2039674 TACGTAACAT
Statistics
Matches: 66, Mismatches: 19, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
32 66 1.00
ACGTcount: A:0.29, C:0.15, G:0.14, T:0.43
Consensus pattern (32 bp):
TGTCATGTCATCATTTATGTACATGTGACATA
Found at i:2040023 original size:32 final size:32
Alignment explanation
Indices: 2039969--2040093 Score: 106
Period size: 32 Copynumber: 3.9 Consensus size: 32
2039959 CATAACATAA
* * * * *
2039969 TCACATATACATAAATAATGACATGACATATG
1 TCACATGTACGTAAATGATGACATAACACATG
* * *
2040001 TCACGTGTACGTAAGTGATGACATAATACATG
1 TCACATGTACGTAAATGATGACATAACACATG
* * * *
2040033 TTACATGTACGTAAATGATAACATAATACATA
1 TCACATGTACGTAAATGATGACATAACACATG
* * * *
2040065 TCACATATTCATAAATGATGACATGACAC
1 TCACATGTACGTAAATGATGACATAACAC
2040094 CTTATTACGT
Statistics
Matches: 73, Mismatches: 20, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
32 73 1.00
ACGTcount: A:0.42, C:0.16, G:0.13, T:0.29
Consensus pattern (32 bp):
TCACATGTACGTAAATGATGACATAACACATG
Found at i:2043531 original size:26 final size:26
Alignment explanation
Indices: 2043495--2043544 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
2043485 ATTCCCCATC
*
2043495 TTCTTTTTCTTCACTTTTCTTCTTCT
1 TTCTTTCTCTTCACTTTTCTTCTTCT
2043521 TTCTTTCTCTTCACTTTTCTTCTT
1 TTCTTTCTCTTCACTTTTCTTCTT
2043545 TTCCAATGAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.04, C:0.28, G:0.00, T:0.68
Consensus pattern (26 bp):
TTCTTTCTCTTCACTTTTCTTCTTCT
Found at i:2058997 original size:20 final size:20
Alignment explanation
Indices: 2058903--2059271 Score: 458
Period size: 20 Copynumber: 18.4 Consensus size: 20
2058893 GATTTTCCAT
* ** *
2058903 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
2058923 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
2058943 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
2058963 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
**
2058983 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGTATCCGTA
*
2059003 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
2059023 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
2059043 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
2059063 AACCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
2059083 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
2059103 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
2059123 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
2059143 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
2059163 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
2059183 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
2059203 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
2059223 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
2059243 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
2059263 AATCACAAC
1 AATCGCAAC
2059272 ACTGAAATTT
Statistics
Matches: 305, Mismatches: 36, Indels: 16
0.85 0.10 0.04
Matches are distributed among these distances:
19 3 0.01
20 299 0.98
21 3 0.01
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:2059984 original size:24 final size:24
Alignment explanation
Indices: 2059945--2059991 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
2059935 AAATTTGGTC
2059945 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
2059969 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
2059992 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:2060183 original size:12 final size:12
Alignment explanation
Indices: 2060166--2060190 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2060156 ATATAATCCT
2060166 GAAGAAGAAAAA
1 GAAGAAGAAAAA
2060178 GAAGAAGAAAAA
1 GAAGAAGAAAAA
2060190 G
1 G
2060191 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:2062516 original size:19 final size:19
Alignment explanation
Indices: 2062494--2062800 Score: 358
Period size: 19 Copynumber: 17.4 Consensus size: 19
2062484 CGGAAAATAC
*
2062494 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
2062513 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
2062527 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
2062547 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
2062561 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
2062580 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
2062599 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
2062613 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
2062632 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
* *
2062651 AATCG-AA-CCGACAT---
1 AATCGCAATGCGAAATGAA
*
2062665 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
*
2062684 AATCGCAATACGAAATGAA
1 AATCGCAATGCGAAATGAA
2062703 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
2062722 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
2062741 AATCGCAA--CGAAA-G--
1 AATCGCAATGCGAAATGAA
2062755 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
2062774 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
2062793 AATCGCAA
1 AATCGCAA
2062801 CGAGATAATC
Statistics
Matches: 249, Mismatches: 13, Indels: 52
0.79 0.04 0.17
Matches are distributed among these distances:
14 45 0.18
15 4 0.02
16 16 0.06
17 15 0.06
18 5 0.02
19 151 0.61
20 13 0.05
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:2062609 original size:52 final size:53
Alignment explanation
Indices: 2062522--2062800 Score: 358
Period size: 52 Copynumber: 5.2 Consensus size: 53
2062512 AAATCCCAAC
*
2062522 ATGAAAATCGCAATGCGGAAATGAAAATCGCAA-CGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAAGCGAGAAAATCGCAATGCGAA
*
2062575 ATGAAAATCGCAATGCGAAATGAAAATCGCAA-CGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAAGCGAGAAAATCGCAATGCGAA
* * *
2062627 ATGAAAATCGCAATGCGAAATGAAAATCG-AACCGACATAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAAGCGAGAAAATCGCAATGCGAA
* *
2062679 ATTAAAATCGCAATACGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA-GCG--A-GAAAATCGCAATGCGAA
2062736 ATGAAAATCGCAA--CGAAA-G--AATCGCAATGCGAAATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA-GCG--A-GAAAATCGCAATGCGAA
2062788 ATGAAAATCGCAA
1 ATGAAAATCGCAA
2062801 CGAGATAATC
Statistics
Matches: 212, Mismatches: 8, Indels: 13
0.91 0.03 0.06
Matches are distributed among these distances:
51 2 0.01
52 156 0.74
53 18 0.08
54 3 0.01
55 5 0.02
56 1 0.00
57 27 0.13
ACGTcount: A:0.47, C:0.17, G:0.21, T:0.15
Consensus pattern (53 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAAGCGAGAAAATCGCAATGCGAA
Found at i:2062645 original size:71 final size:71
Alignment explanation
Indices: 2062561--2062800 Score: 355
Period size: 71 Copynumber: 3.4 Consensus size: 71
2062551 GCAACGAGAG
*
2062561 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGA
2062626 AATGAA
66 AATGAA
* * *
2062632 AATCGCAATGCGAAATGAAAATCG-AA-CCGACAT---AATCGCAATGCGAAATTAAAATCGCAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA--CG-AA--AGAATCGCAA
*
2062692 TACGAAATGAA
61 TGCGAAATGAA
2062703 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGA
2062768 AATGAA
66 AATGAA
2062774 AATCGCAATGCGAAATGAAAATCGCAA
1 AATCGCAATGCGAAATGAAAATCGCAA
2062801 CGAGATAATC
Statistics
Matches: 150, Mismatches: 9, Indels: 20
0.84 0.05 0.11
Matches are distributed among these distances:
66 8 0.05
68 2 0.01
69 6 0.04
70 2 0.01
71 113 0.75
72 2 0.01
73 7 0.05
74 2 0.01
76 8 0.05
ACGTcount: A:0.47, C:0.17, G:0.20, T:0.15
Consensus pattern (71 bp):
AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGA
AATGAA
Found at i:2062746 original size:142 final size:137
Alignment explanation
Indices: 2062494--2062832 Score: 497
Period size: 142 Copynumber: 2.4 Consensus size: 137
2062484 CGGAAAATAC
* * * *
2062494 AATCGCAACGCGAAATGAAAATCCCAACATGAA-AATCGCAATGCGGAAATGAAAATCGC-AACG
1 AATCGCAATGCGAAATGAAAAT-CGAAC-CGAATAATCGCAATGC-GAAATTAAAATCGCAAACG
* *
2062557 AGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAAT
63 AGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAAT
2062622 GCGAAATGAA
128 GCGAAATGAA
2062632 AATCGCAATGCGAAATGAAAATCGAACCGACATAATCGCAATGCGAAATTAAAATCGCAATACGA
1 AATCGCAATGCGAAATGAAAATCGAACCGA-ATAATCGCAATGCGAAATTAAAATCGCAA-ACG-
2062697 AATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCA
63 -A-GAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCA
2062762 ATGCGAAATGAA
126 ATGCGAAATGAA
2062774 AATCGCAATGCGAAATGAAAATCGCAA-CGAGATAATCGCAATGCGAAATTATAAA-CGCA
1 AATCGCAATGCGAAATGAAAATCG-AACCGA-ATAATCGCAATGCGAAATTA-AAATCGCA
2062833 TTGCGATTTT
Statistics
Matches: 185, Mismatches: 7, Indels: 14
0.90 0.03 0.07
Matches are distributed among these distances:
136 2 0.01
137 18 0.10
138 33 0.18
139 3 0.02
141 1 0.01
142 123 0.66
143 5 0.03
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.15
Consensus pattern (137 bp):
AATCGCAATGCGAAATGAAAATCGAACCGAATAATCGCAATGCGAAATTAAAATCGCAAACGAGA
AAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCG
AAATGAA
Found at i:2062938 original size:19 final size:19
Alignment explanation
Indices: 2062829--2062930 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
2062819 AAATTATAAA
2062829 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
2062848 CCGCATTGCGATTTTCATTT
1 -CGCATTGCGATTTTCATTT
*
2062868 CGCATTGCGA--TTC-TCT
1 CGCATTGCGATTTTCATTT
2062884 CG--TTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
2062901 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
2062920 CGCATTGCGAT
1 CGCATTGCGAT
2062931 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:2063055 original size:14 final size:14
Alignment explanation
Indices: 2063036--2063072 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
2063026 CATCAATTAC
2063036 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
2063050 ACAAATCATCTTTT
1 ACAAATCAACTTTT
2063064 ACAAATCAA
1 ACAAATCAA
2063073 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:2063084 original size:12 final size:12
Alignment explanation
Indices: 2063067--2063139 Score: 53
Period size: 12 Copynumber: 6.0 Consensus size: 12
2063057 ATCTTTTACA
2063067 AATCAATTAAAC
1 AATCAATTAAAC
*
2063079 AATCAA--AAATTG
1 AATCAATTAAA--C
**
2063091 AATCAACTTTTAC
1 AATCAA-TTAAAC
2063104 AAATCAATTAAAC
1 A-ATCAATTAAAC
*
2063117 AATCAA-AAAAC
1 AATCAATTAAAC
2063128 AATCAATTAAAC
1 AATCAATTAAAC
2063140 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:2063101 original size:38 final size:38
Alignment explanation
Indices: 2063053--2063125 Score: 137
Period size: 38 Copynumber: 1.9 Consensus size: 38
2063043 AACTTTTACA
*
2063053 AATCATCTTTTACAAATCAATTAAACAATCAAAAATTG
1 AATCAACTTTTACAAATCAATTAAACAATCAAAAATTG
2063091 AATCAACTTTTACAAATCAATTAAACAATCAAAAA
1 AATCAACTTTTACAAATCAATTAAACAATCAAAAA
2063126 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:2064588 original size:20 final size:20
Alignment explanation
Indices: 2064563--2064628 Score: 91
Period size: 19 Copynumber: 3.4 Consensus size: 20
2064553 TAGTTTACTT
* *
2064563 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAACTCAAAA
2064583 TCGCAACGCGAAAC-CAAAA
1 TCGCAACGCGAAACTCAAAA
*
2064602 TCGCAACGCGAAA-TGAAAA
1 TCGCAACGCGAAACTCAAAA
2064621 TCGCAACG
1 TCGCAACG
2064629 ACAGAATCGC
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
19 29 0.69
20 13 0.31
ACGTcount: A:0.45, C:0.27, G:0.17, T:0.11
Consensus pattern (20 bp):
TCGCAACGCGAAACTCAAAA
Found at i:2064638 original size:14 final size:14
Alignment explanation
Indices: 2064619--2064675 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
2064609 GCGAAATGAA
*
2064619 AATCGCAACGACAG
1 AATCGCAACGAAAG
2064633 AATCGCAATGCGAAAAG
1 AATCGCAA--CG-AAAG
2064650 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
2064666 AATCGCAACG
1 AATCGCAACG
2064676 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 6 0.16
17 5 0.14
19 8 0.22
ACGTcount: A:0.47, C:0.23, G:0.21, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:2064646 original size:33 final size:33
Alignment explanation
Indices: 2064600--2064692 Score: 159
Period size: 33 Copynumber: 2.8 Consensus size: 33
2064590 GCGAAACCAA
*
2064600 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
* *
2064633 AATCGCAATGCGAAAAGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
2064666 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
2064693 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:0.48, C:0.22, G:0.20, T:0.10
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:2064657 original size:19 final size:19
Alignment explanation
Indices: 2064579--2064697 Score: 105
Period size: 19 Copynumber: 6.8 Consensus size: 19
2064569 CACGAAACTT
**
2064579 AAAATCGCAACGCGAAACC
1 AAAATCGCAACGCGAAAAG
*
2064598 AAAATCGCAACGCGAAATG
1 AAAATCGCAACGCGAAAAG
*
2064617 AAAATCGCAA--CG-ACAG
1 AAAATCGCAACGCGAAAAG
*
2064633 --AATCGCAATGCGAAAAG
1 AAAATCGCAACGCGAAAAG
2064650 AAAATCGCAA--CG-AAAG
1 AAAATCGCAACGCGAAAAG
*
2064666 --AATCGCAACGCGAAATG
1 AAAATCGCAACGCGAAAAG
*
2064683 AAAATCGCAATGCGA
1 AAAATCGCAACGCGA
2064698 TTTTGGTTTC
Statistics
Matches: 83, Mismatches: 7, Indels: 20
0.75 0.06 0.18
Matches are distributed among these distances:
14 16 0.19
16 10 0.12
17 10 0.12
19 47 0.57
ACGTcount: A:0.48, C:0.23, G:0.20, T:0.09
Consensus pattern (19 bp):
AAAATCGCAACGCGAAAAG
Found at i:2064715 original size:19 final size:19
Alignment explanation
Indices: 2064693--2064821 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
2064683 AAAATCGCAA
2064693 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
2064712 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
2064726 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
2064745 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
2064759 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
2064778 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
2064797 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
2064817 TGCGA
1 TGCGA
2064822 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:2064735 original size:33 final size:33
Alignment explanation
Indices: 2064693--2064784 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
2064683 AAAATCGCAA
2064693 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
2064726 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
2064759 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
2064785 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:2065024 original size:93 final size:93
Alignment explanation
Indices: 2064865--2065335 Score: 921
Period size: 93 Copynumber: 5.1 Consensus size: 93
2064855 TTGAATGGAT
2064865 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
2064930 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
2064958 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
2065023 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
2065051 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
2065115 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
2065143 AAATTTACTTTCAACC-AAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
2065206 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
2065234 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
2065299 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
2065327 AAATTTACT
1 AAATTTACT
2065336 AAGCAATCTA
Statistics
Matches: 376, Mismatches: 0, Indels: 4
0.99 0.00 0.01
Matches are distributed among these distances:
91 91 0.24
92 91 0.24
93 194 0.52
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:2067060 original size:14 final size:14
Alignment explanation
Indices: 2067041--2067130 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
2067031 TTGAAATGAA
2067041 AATCGCAACGAGAG
1 AATCGCAACGAGAG
2067055 AATCGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
2067072 ACAATCGCAACGAGAG
1 --AATCGCAACGAGAG
*
2067088 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
2067107 AATCGCAACGAGAG
1 AATCGCAACGAGAG
2067121 AATCGCAACG
1 AATCGCAACG
2067131 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
Done.