Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007961.1 Hibiscus syriacus cultivar Beakdansim tig00110388_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: 2700559
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 9 of 12
Found at i:1827518 original size:12 final size:12
Alignment explanation
Indices: 1827501--1827573 Score: 53
Period size: 12 Copynumber: 6.0 Consensus size: 12
1827491 CATCTTTACA
1827501 AATCAATTAAAC
1 AATCAATTAAAC
*
1827513 AATCAA--AAATTG
1 AATCAATTAAA--C
**
1827525 AATCAACTTTTAC
1 AATCAA-TTAAAC
1827538 AAATCAATTAAAC
1 A-ATCAATTAAAC
*
1827551 AATCAA-AAAAC
1 AATCAATTAAAC
1827562 AATCAATTAAAC
1 AATCAATTAAAC
1827574 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:1829443 original size:14 final size:14
Alignment explanation
Indices: 1829424--1829480 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
1829414 GCGAAATGAA
*
1829424 AATCGCAACGACAG
1 AATCGCAACGAAAG
1829438 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
1829455 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
1829471 AATCGCAACG
1 AATCGCAACG
1829481 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:1829451 original size:33 final size:33
Alignment explanation
Indices: 1829405--1829497 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
1829395 GAGAAACCAA
*
1829405 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
1829438 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
1829471 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
1829498 TGCGATTTTG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:1829462 original size:19 final size:19
Alignment explanation
Indices: 1829368--1829502 Score: 119
Period size: 19 Copynumber: 7.6 Consensus size: 19
1829358 TAGTTTACTT
* *
1829368 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
* **
1829388 TCGCAACGAGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
1829407 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
1829426 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
1829440 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
1829459 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
1829473 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
1829492 TCGCAATGCGA
1 TCGCAACGCGA
1829503 TTTTGGTTTC
Statistics
Matches: 95, Mismatches: 10, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 16 0.17
16 11 0.12
17 11 0.12
19 46 0.48
20 11 0.12
ACGTcount: A:0.47, C:0.23, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:1829520 original size:19 final size:19
Alignment explanation
Indices: 1829498--1829626 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
1829488 AAAATCGCAA
1829498 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
1829517 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
1829531 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
1829550 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
1829564 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
1829583 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
1829602 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
1829622 TGCGA
1 TGCGA
1829627 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:1829540 original size:33 final size:33
Alignment explanation
Indices: 1829498--1829589 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
1829488 AAAATCGCAA
1829498 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
1829531 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
1829564 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
1829590 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:1829959 original size:92 final size:93
Alignment explanation
Indices: 1829670--1830048 Score: 744
Period size: 93 Copynumber: 4.1 Consensus size: 93
1829660 TTGAATGGAT
1829670 AAATTTACTTTCAACCAAAAGAC-AAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1829734 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
1829762 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1829827 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
1829855 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1829919 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
1829947 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1830012 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
1830040 AAATTTACT
1 AAATTTACT
1830049 AAGCAATCTA
Statistics
Matches: 285, Mismatches: 0, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
92 115 0.40
93 170 0.60
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:1829982 original size:185 final size:185
Alignment explanation
Indices: 1829670--1830048 Score: 742
Period size: 185 Copynumber: 2.0 Consensus size: 185
1829660 TTGAATGGAT
1829670 AAATTTACTTTCAACCAAAAGACAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACA
1 AAATTTACTTTCAACCAAAAGACAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACA
1829735 GTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAAT
66 GTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAAT
1829800 ACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
131 ACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
1829855 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGAC-AAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1829919 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
65 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
1829984 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
130 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
1830040 AAATTTACT
1 AAATTTACT
1830049 AAGCAATCTA
Statistics
Matches: 193, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
185 178 0.92
186 15 0.08
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (185 bp):
AAATTTACTTTCAACCAAAAGACAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACA
GTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAAT
ACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:1831784 original size:19 final size:18
Alignment explanation
Indices: 1831760--1831857 Score: 86
Period size: 19 Copynumber: 5.7 Consensus size: 18
1831750 TCGCAACGAG
1831760 AATCGCAACGCGAGATGA
1 AATCGCAACGCGAGATGA
1831778 CAATCGCAA--CGAGA-G-
1 -AATCGCAACGCGAGATGA
*
1831793 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAGATG-A
1831812 AATCGCAA--CGAGA-G-
1 AATCGCAACGCGAGATGA
*
1831826 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAGATG-A
*
1831845 AATCGCAATGCGA
1 AATCGCAACGCGA
1831858 TTTTGGTTTC
Statistics
Matches: 65, Mismatches: 4, Indels: 20
0.73 0.04 0.22
Matches are distributed among these distances:
14 16 0.25
16 10 0.15
17 11 0.17
19 28 0.43
ACGTcount: A:0.43, C:0.22, G:0.24, T:0.10
Consensus pattern (18 bp):
AATCGCAACGCGAGATGA
Found at i:1831798 original size:14 final size:14
Alignment explanation
Indices: 1831748--1831835 Score: 63
Period size: 14 Copynumber: 5.7 Consensus size: 14
1831738 GTTGAAATGA
1831748 AATCGCAAC--GAG
1 AATCGCAACGAGAG
1831760 AATCGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
1831777 ACAATCGCAACGAGAG
1 --AATCGCAACGAGAG
*
1831793 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
1831812 AATCGCAACGAGAG
1 AATCGCAACGAGAG
1831826 AATCGCAACG
1 AATCGCAACG
1831836 CGAAATGAAA
Statistics
Matches: 62, Mismatches: 2, Indels: 22
0.72 0.02 0.26
Matches are distributed among these distances:
12 8 0.13
14 21 0.34
15 1 0.02
16 5 0.08
17 8 0.13
18 1 0.02
19 18 0.29
ACGTcount: A:0.42, C:0.24, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:1831799 original size:33 final size:33
Alignment explanation
Indices: 1831741--1831852 Score: 185
Period size: 33 Copynumber: 3.5 Consensus size: 33
1831731 TCTTTTGGTT
1831741 GAAATG-AAATCGCAAC--GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
1831771 GAGATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1831804 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1831837 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
1831853 TGCGATTTTG
Statistics
Matches: 75, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
30 5 0.07
31 9 0.12
33 61 0.81
ACGTcount: A:0.45, C:0.21, G:0.24, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:1831888 original size:14 final size:14
Alignment explanation
Indices: 1831869--1831923 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
1831859 TTTGGTTTCG
1831869 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
1831883 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
1831902 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
1831916 CGTTGCGA
1 CGTTGCGA
1831924 CAGTCATTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
16 3 0.09
17 3 0.09
19 10 0.29
ACGTcount: A:0.09, C:0.25, G:0.24, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:1831901 original size:33 final size:33
Alignment explanation
Indices: 1831853--1831923 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
1831843 AAAATCGCAA
**
1831853 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1831886 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1831919 TGCGA
1 TGCGA
1831924 CAGTCATTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.08, C:0.23, G:0.25, T:0.44
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:1831931 original size:33 final size:33
Alignment explanation
Indices: 1831864--1831943 Score: 117
Period size: 33 Copynumber: 2.5 Consensus size: 33
1831854 GCGATTTTGG
***
1831864 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
1831897 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
*
1831930 -TTCTCGTTGCGATT
1 TTTCGCGTTGCGATT
1831944 TTCATTTATC
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
32 13 0.30
33 30 0.70
ACGTcount: A:0.10, C:0.25, G:0.23, T:0.42
Consensus pattern (33 bp):
TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
Found at i:1831948 original size:18 final size:18
Alignment explanation
Indices: 1831880--1831949 Score: 67
Period size: 18 Copynumber: 4.1 Consensus size: 18
1831870 GTTGCGATTC
1831880 TCTCGTTGCGATTTTCATT
1 TCTCGTTGCGATTTTCA-T
*
1831899 TCGCGTTGCGA--TTC--
1 TCTCGTTGCGATTTTCAT
***
1831913 TCTCGTTGCGACAGTCAT
1 TCTCGTTGCGATTTTCAT
1831931 TCTCGTTGCGATTTTCAT
1 TCTCGTTGCGATTTTCAT
1831949 T
1 T
1831950 TATCTCGTTG
Statistics
Matches: 41, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
14 10 0.24
16 2 0.05
17 3 0.07
18 16 0.39
19 10 0.24
ACGTcount: A:0.11, C:0.24, G:0.20, T:0.44
Consensus pattern (18 bp):
TCTCGTTGCGATTTTCAT
Found at i:1832083 original size:33 final size:33
Alignment explanation
Indices: 1832044--1832111 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 33
1832034 TACTAACTTG
*
1832044 AAATCGCAACGAGAGAATAGCAACGCGAAATGA
1 AAATCGCAACGACAGAATAGCAACGCGAAATGA
* *
1832077 AAATCGCAACGACAGAATCGTAACGCGAAATGA
1 AAATCGCAACGACAGAATAGCAACGCGAAATGA
1832110 AA
1 AA
1832112 TCTAAGTGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.49, C:0.19, G:0.22, T:0.10
Consensus pattern (33 bp):
AAATCGCAACGACAGAATAGCAACGCGAAATGA
Found at i:1832345 original size:22 final size:22
Alignment explanation
Indices: 1832293--1832347 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
1832283 TGGTTGTGAG
**
1832293 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
1832315 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
1832337 GGATTTCTTCG
1 GGATTTCTTCG
1832348 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:1832518 original size:20 final size:20
Alignment explanation
Indices: 1832493--1832686 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
1832483 CTTTAAATAT
1832493 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
1832513 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
1832535 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
1832554 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
1832574 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
1832594 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
1832614 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
1832634 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
1832654 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
1832674 CGCGTTGCGATTT
1 CGCGTTGCGATTT
1832687 TTGAAAATCG
Statistics
Matches: 147, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 128 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:1832680 original size:60 final size:60
Alignment explanation
Indices: 1832493--1832686 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
1832483 CTTTAAATAT
**
1832493 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
1832554 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
1832614 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
1832674 CGCGTTGCGATTT
1 CGCGTTGCGATTT
1832687 TTGAAAATCG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 84 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:1832697 original size:21 final size:20
Alignment explanation
Indices: 1832653--1832751 Score: 72
Period size: 21 Copynumber: 4.8 Consensus size: 20
1832643 ATTTATGTGT
* * *
1832653 TCGCGTTGCGATTTTCATAT
1 TCGCGTTGCGATTTTGAAAA
1832673 TCGCGTTGCGATTTTTGAAAA
1 TCGCGTTGCGA-TTTTGAAAA
** * **
1832694 TCGCAATGCGAATTTGTACTA
1 TCGCGTTGCGATTTTG-AAAA
* * *
1832715 TCGCATCGCGATTTTCAAGAA
1 TCGCGTTGCGATTTTGAA-AA
1832736 TCGCGTTGCGATTTTG
1 TCGCGTTGCGATTTTG
1832752 GAAACTGATT
Statistics
Matches: 59, Mismatches: 17, Indels: 5
0.73 0.21 0.06
Matches are distributed among these distances:
20 16 0.27
21 43 0.73
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.37
Consensus pattern (20 bp):
TCGCGTTGCGATTTTGAAAA
Found at i:1832766 original size:20 final size:20
Alignment explanation
Indices: 1832741--1832792 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
1832731 AAGAATCGCG
*
1832741 TTGCGATTTTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
1832761 TTGCGATTCTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
1832781 TTGCGATTCTGG
1 TTGCGATTCTGG
1832793 GGATCGCGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.21, C:0.13, G:0.27, T:0.38
Consensus pattern (20 bp):
TTGCGATTCTGGAAACTGAT
Found at i:1833853 original size:30 final size:30
Alignment explanation
Indices: 1833819--1833877 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 30
1833809 CAAACAAATG
*
1833819 TAATTCAAATCAAATTTC-ATAAAATCTTTT
1 TAATTCAAA-CAAAATTCAATAAAATCTTTT
*
1833849 TAATTTAAACAAAATTCAAATAAAATCTT
1 TAATTCAAACAAAATTC-AATAAAATCTT
1833878 AATAATAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 7 0.28
30 8 0.32
31 10 0.40
ACGTcount: A:0.49, C:0.12, G:0.00, T:0.39
Consensus pattern (30 bp):
TAATTCAAACAAAATTCAATAAAATCTTTT
Found at i:1834578 original size:22 final size:22
Alignment explanation
Indices: 1834548--1834598 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
1834538 GGCATGTGAA
1834548 ATTTGTCCCGAAGGACCTATGT
1 ATTTGTCCCGAAGGACCTATGT
* *
1834570 ATTTTTCCCGAAGGACCTTTGT
1 ATTTGTCCCGAAGGACCTATGT
1834592 ATATTGT
1 AT-TTGT
1834599 ATATGTCCCG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
22 22 0.88
23 3 0.12
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.39
Consensus pattern (22 bp):
ATTTGTCCCGAAGGACCTATGT
Found at i:1835323 original size:22 final size:22
Alignment explanation
Indices: 1835281--1835323 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
1835271 ACTATACGAT
*
1835281 ATGAATAGTACCGTGACCAGTA
1 ATGAATAGTACCGTGAACAGTA
*
1835303 ATGAATAGTACCGTTAACAGT
1 ATGAATAGTACCGTGAACAGT
1835324 GCTACGATGT
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:0.37, C:0.16, G:0.21, T:0.26
Consensus pattern (22 bp):
ATGAATAGTACCGTGAACAGTA
Found at i:1835737 original size:20 final size:20
Alignment explanation
Indices: 1835703--1835753 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
1835693 ATTCTACATA
1835703 ACTTAT-CACACTAACATGT
1 ACTTATGCACACTAACATGT
*
1835722 ACTTATGCATACTAACATGT
1 ACTTATGCACACTAACATGT
1835742 ACTTATGCACAC
1 ACTTATGCACAC
1835754 ATATAAATCA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 6 0.21
20 23 0.79
ACGTcount: A:0.35, C:0.25, G:0.08, T:0.31
Consensus pattern (20 bp):
ACTTATGCACACTAACATGT
Found at i:1839647 original size:22 final size:22
Alignment explanation
Indices: 1839619--1839669 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
1839609 GGCATGTGAA
1839619 ATTTGTCCCGAA-AGACCTATGT
1 ATTTGTCCCGAATA-ACCTATGT
*
1839641 ATTTGTCCCGAATAACCTCTGT
1 ATTTGTCCCGAATAACCTATGT
1839663 ATATTGT
1 AT-TTGT
1839670 ATATATCCCG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 21 0.81
23 5 0.19
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (22 bp):
ATTTGTCCCGAATAACCTATGT
Found at i:1848003 original size:15 final size:15
Alignment explanation
Indices: 1847979--1848021 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
1847969 ACAATATTAA
*
1847979 ATTAATTTATAAAAT
1 ATTAAATTATAAAAT
*
1847994 GTTAAATTATAAAAT
1 ATTAAATTATAAAAT
1848009 ATTAAATGTATAA
1 ATTAAAT-TATAA
1848022 TTATAAATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
15 19 0.79
16 5 0.21
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (15 bp):
ATTAAATTATAAAAT
Found at i:1848023 original size:22 final size:23
Alignment explanation
Indices: 1847990--1848037 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 23
1847980 TTAATTTATA
1847990 AAATGTTAAATTATAAAATA-TT
1 AAATGTTAAATTATAAAATAGTT
*
1848012 AAATG-TATAATTATAAATTAGTT
1 AAATGTTA-AATTATAAAATAGTT
1848035 AAA
1 AAA
1848038 AAAATTAAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 2 0.09
22 16 0.70
23 5 0.22
ACGTcount: A:0.54, C:0.00, G:0.06, T:0.40
Consensus pattern (23 bp):
AAATGTTAAATTATAAAATAGTT
Found at i:1849835 original size:15 final size:16
Alignment explanation
Indices: 1849812--1849844 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
1849802 TAATTATATG
*
1849812 TTTAGTATTTTAT-AA
1 TTTAATATTTTATGAA
1849827 TTTAATATTTTATGAA
1 TTTAATATTTTATGAA
1849843 TT
1 TT
1849845 AATTTAATGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (16 bp):
TTTAATATTTTATGAA
Found at i:1857423 original size:3 final size:3
Alignment explanation
Indices: 1857415--1857440 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
1857405 AACCCTACTT
1857415 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
1857441 TAATAAGTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:1862312 original size:20 final size:20
Alignment explanation
Indices: 1862218--1862586 Score: 442
Period size: 20 Copynumber: 18.4 Consensus size: 20
1862208 GATTTTCCAT
* ** *
1862218 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
1862238 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
1862258 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
1862278 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
**
1862298 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGTATCCGTA
*
1862318 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
1862338 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
1862358 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
1862378 AACCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
1862398 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
1862418 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
1862438 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
1862458 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
1862478 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
1862498 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
1862518 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
1862538 AATCGCAACG-ATAAT-CGTAA
1 AATCGCAACGCGT-ATCCGT-A
* * *
1862558 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
1862578 AATCACAAC
1 AATCGCAAC
1862587 ACTGAAATTT
Statistics
Matches: 303, Mismatches: 36, Indels: 20
0.84 0.10 0.06
Matches are distributed among these distances:
19 5 0.02
20 293 0.97
21 5 0.02
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:1863290 original size:24 final size:23
Alignment explanation
Indices: 1863251--1863296 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
1863241 AAATTTGGTC
1863251 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGA-TTTGATA
1863275 TTGGTCAATA-CACGGATTTGAT
1 TTGGTCAATATC-CGGATTTGAT
1863297 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 7 0.33
24 14 0.67
ACGTcount: A:0.26, C:0.15, G:0.22, T:0.37
Consensus pattern (23 bp):
TTGGTCAATATCCGGATTTGATA
Found at i:1865286 original size:19 final size:19
Alignment explanation
Indices: 1865264--1865611 Score: 353
Period size: 19 Copynumber: 19.8 Consensus size: 19
1865254 CGGAAAATAC
*
1865264 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
1865283 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
1865297 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
1865317 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
*
1865331 AATCGTAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
1865350 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
1865369 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
1865383 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
1865402 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
* *
1865421 AATCG-AA-CCGACAT---
1 AATCGCAATGCGAAATGAA
*
1865435 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
*
1865454 AATCGCAATACGAAATGAA
1 AATCGCAATGCGAAATGAA
1865473 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
1865492 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
1865511 AATCGCAA--CGAAA-G--
1 AATCGCAATGCGAAATGAA
*
1865525 AATCGCAATGCGAAATGTA
1 AATCGCAATGCGAAATGAA
1865544 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
1865563 AATCGCAA--CG--A-GAT
1 AATCGCAATGCGAAATGAA
*
1865577 AATCGCAATGCGAAATTATA
1 AATCGCAATGCGAAATGA-A
1865597 AA-CGCAATGCGAAAT
1 AATCGCAATGCGAAAT
1865612 CAACAAAATC
Statistics
Matches: 278, Mismatches: 19, Indels: 64
0.77 0.05 0.18
Matches are distributed among these distances:
14 54 0.19
15 5 0.02
16 18 0.06
17 17 0.06
18 6 0.02
19 163 0.59
20 15 0.05
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.16
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:1865379 original size:52 final size:53
Alignment explanation
Indices: 1865292--1865570 Score: 349
Period size: 52 Copynumber: 5.2 Consensus size: 53
1865282 AAATCCCAAC
*
1865292 ATGAAAATCGCAATGCGGAAATGAAAATCGCAA-CGAGAGAATCGTAATGCGAA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAAGCGAGAGAATCGCAATGCGAA
1865345 ATGAAAATCGCAATGCGAAATGAAAATCGCAA-CGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAAGCGAGAGAATCGCAATGCGAA
* * *
1865397 ATGAAAATCGCAATGCGAAATGAAAATCG-AACCGACATAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAAGCGAGAGAATCGCAATGCGAA
* * *
1865449 ATTAAAATCGCAATACGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA-GCG--A-GAGAATCGCAATGCGAA
*
1865506 ATGAAAATCGCAA--CGAAA-G--AATCGCAATGCGAAATGTAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA-GCGAGA-G--AATCGCAATGCGAA
1865558 ATGAAAATCGCAA
1 ATGAAAATCGCAA
1865571 CGAGATAATC
Statistics
Matches: 206, Mismatches: 11, Indels: 19
0.87 0.05 0.08
Matches are distributed among these distances:
49 1 0.00
50 1 0.00
51 2 0.01
52 148 0.72
53 18 0.09
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):
ATGAAAATCGCAATGCGAAATGAAAATCGCAAGCGAGAGAATCGCAATGCGAA
Found at i:1865416 original size:71 final size:71
Alignment explanation
Indices: 1865331--1865570 Score: 337
Period size: 71 Copynumber: 3.4 Consensus size: 71
1865321 GCAACGAGAG
* *
1865331 AATCGTAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGA
1865396 AATGAA
66 AATGAA
* * *
1865402 AATCGCAATGCGAAATGAAAATCG-AA-CCGACAT---AATCGCAATGCGAAATTAAAATCGCAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA--CG-AA--AGAATCGCAA
*
1865462 TACGAAATGAA
61 TGCGAAATGAA
1865473 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGA
*
1865538 AATGTA
66 AATGAA
1865544 AATCGCAATGCGAAATGAAAATCGCAA
1 AATCGCAATGCGAAATGAAAATCGCAA
1865571 CGAGATAATC
Statistics
Matches: 148, Mismatches: 11, Indels: 20
0.83 0.06 0.11
Matches are distributed among these distances:
66 8 0.05
68 2 0.01
69 6 0.04
70 2 0.01
71 111 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:0.16
Consensus pattern (71 bp):
AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGA
AATGAA
Found at i:1865516 original size:142 final size:141
Alignment explanation
Indices: 1865264--1865611 Score: 496
Period size: 142 Copynumber: 2.5 Consensus size: 141
1865254 CGGAAAATAC
* * * *
1865264 AATCGCAACGCGAAATGAAAATCCCAACATGAA-AATCGCAATGCGGAAATGAAAATCGC-A-AC
1 AATCGCAATGCGAAATGAAAAT-CGAAC-CGAATAATCGCAATGC-GAAATTAAAATCGCAATAC
* * *
1865326 G--A-GAGAATCGTAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCG
63 GAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCG
1865388 CAATGCGAAATGAA
128 CAATGCGAAATGAA
1865402 AATCGCAATGCGAAATGAAAATCGAACCGACATAATCGCAATGCGAAATTAAAATCGCAATACGA
1 AATCGCAATGCGAAATGAAAATCGAACCGA-ATAATCGCAATGCGAAATTAAAATCGCAATACGA
1865467 AATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCA
65 AATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCA
*
1865532 ATGCGAAATGTA
130 ATGCGAAATGAA
*
1865544 AATCGCAATGCGAAATGAAAATCGCAA-CGAGATAATCGCAATGCGAAATTATAAA-CGCAATGC
1 AATCGCAATGCGAAATGAAAATCG-AACCGA-ATAATCGCAATGCGAAATTA-AAATCGCAATAC
1865607 GAAAT
63 GAAAT
1865612 CAACAAAATC
Statistics
Matches: 191, Mismatches: 10, Indels: 14
0.89 0.05 0.07
Matches are distributed among these distances:
136 2 0.01
137 18 0.09
138 33 0.17
139 3 0.02
141 1 0.01
142 129 0.68
143 5 0.03
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.16
Consensus pattern (141 bp):
AATCGCAATGCGAAATGAAAATCGAACCGAATAATCGCAATGCGAAATTAAAATCGCAATACGAA
ATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAA
TGCGAAATGAA
Found at i:1865571 original size:52 final size:54
Alignment explanation
Indices: 1865331--1865611 Score: 295
Period size: 52 Copynumber: 5.3 Consensus size: 54
1865321 GCAACGAGAG
* *
1865331 AATCGTAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA--CGAGA-G--
1 AATCGCAATGCGAAATGAAAATCGCAA--CGAAATG-AAATCGCAATGCGAAATGTA
* *
1865383 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCG-AA-CCGACA--T-
1 AATCGCAATGCGAAATGAAAATCGCAA--CGAAATG-AAATCGCAATGCGAAATGTA
* *
1865435 AATCGCAATGCGAAATTAAAATCGCAATACGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGC-A-ACGAAATG-AAATCGCAATGCGAAATGTA
1865492 AATCGCAATGCGAAATGAAAATCGCAACGAAA-G-AATCGCAATGCGAAATGTA
1 AATCGCAATGCGAAATGAAAATCGCAACGAAATGAAATCGCAATGCGAAATGTA
*
1865544 AATCGCAATGCGAAATGAAAATCGCAACGAGAT--AATCGCAATGCGAAAT-TA
1 AATCGCAATGCGAAATGAAAATCGCAACGAAATGAAATCGCAATGCGAAATGTA
*
1865595 TAAACGCAATGCGAAAT
1 -AATCGCAATGCGAAAT
1865612 CAACAAAATC
Statistics
Matches: 208, Mismatches: 10, Indels: 22
0.87 0.04 0.09
Matches are distributed among these distances:
51 4 0.02
52 164 0.79
53 3 0.01
54 6 0.03
55 6 0.03
56 1 0.00
57 24 0.12
ACGTcount: A:0.47, C:0.17, G:0.20, T:0.16
Consensus pattern (54 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAAATGAAATCGCAATGCGAAATGTA
Found at i:1865701 original size:14 final size:14
Alignment explanation
Indices: 1865682--1865718 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
1865672 CATCAATTAC
1865682 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
1865696 ACAAATCATCTTTT
1 ACAAATCAACTTTT
1865710 ACAAATCAA
1 ACAAATCAA
1865719 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:1867692 original size:14 final size:14
Alignment explanation
Indices: 1867673--1867729 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
1867663 GCGAAATGAA
*
1867673 AATCGCAACGACAG
1 AATCGCAACGAAAG
1867687 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
1867704 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
1867720 AATCGCAACG
1 AATCGCAACG
1867730 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:1867700 original size:33 final size:33
Alignment explanation
Indices: 1867654--1867746 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
1867644 GCGAAACCAA
*
1867654 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
1867687 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
1867720 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
1867747 TGCGATTTTG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:1867711 original size:19 final size:19
Alignment explanation
Indices: 1867617--1867751 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
1867607 TAGTTTACTT
* *
1867617 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
1867637 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
1867656 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
1867675 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
1867689 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
1867708 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
1867722 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
1867741 TCGCAATGCGA
1 TCGCAACGCGA
1867752 TTTTGGTTTC
Statistics
Matches: 97, Mismatches: 8, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
14 16 0.16
16 11 0.11
17 11 0.11
19 47 0.48
20 12 0.12
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:1867769 original size:19 final size:19
Alignment explanation
Indices: 1867747--1867875 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
1867737 AAAATCGCAA
1867747 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
1867766 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
1867780 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
1867799 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
1867813 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
1867832 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
1867851 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
1867871 TGCGA
1 TGCGA
1867876 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:1867789 original size:33 final size:33
Alignment explanation
Indices: 1867747--1867838 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
1867737 AAAATCGCAA
1867747 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
1867780 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
1867813 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
1867839 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:1868161 original size:91 final size:93
Alignment explanation
Indices: 1867919--1868203 Score: 549
Period size: 91 Copynumber: 3.1 Consensus size: 93
1867909 TTGAATGGAT
1867919 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1867984 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
1868012 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1868076 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
1868104 -AATTTACTTTCAACCAAAAGACAAAACAAAGAC-AATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1868167 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
1868195 AAATTTACT
1 AAATTTACT
1868204 AAGCAATCTA
Statistics
Matches: 190, Mismatches: 0, Indels: 5
0.97 0.00 0.03
Matches are distributed among these distances:
90 4 0.02
91 86 0.45
92 61 0.32
93 39 0.21
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:1869919 original size:14 final size:14
Alignment explanation
Indices: 1869900--1869989 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
1869890 TTGAAATGAA
1869900 AATCGCAACGAGAG
1 AATCGCAACGAGAG
1869914 AATCGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
1869931 ACAATCGCAACGAGAG
1 --AATCGCAACGAGAG
*
1869947 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
1869966 AATCGCAACGAGAG
1 AATCGCAACGAGAG
1869980 AATCGCAACG
1 AATCGCAACG
1869990 CGAAATGAAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.42, C:0.23, G:0.26, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:1869937 original size:33 final size:33
Alignment explanation
Indices: 1869892--1870006 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
1869882 TCTTTTGGTT
1869892 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
1869925 GAGATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1869958 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1869991 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
1870007 TGCGATTTTG
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.45, C:0.21, G:0.24, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:1869938 original size:19 final size:18
Alignment explanation
Indices: 1869899--1870011 Score: 88
Period size: 19 Copynumber: 6.8 Consensus size: 18
1869889 GTTGAAATGA
1869899 AAATCGCAA--CGAGA-G
1 AAATCGCAACGCGAGATG
1869914 -AATCGCAACGCGAGATG
1 AAATCGCAACGCGAGATG
1869931 ACAATCGCAA--CGAGA-G
1 A-AATCGCAACGCGAGATG
*
1869947 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
1869964 AAAATCGCAA--CGAGA-G
1 -AAATCGCAACGCGAGATG
*
1869980 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
*
1869997 AAAATCGCAATGCGA
1 -AAATCGCAACGCGA
1870012 TTTTGGTTTC
Statistics
Matches: 79, Mismatches: 4, Indels: 26
0.72 0.04 0.24
Matches are distributed among these distances:
14 24 0.30
16 15 0.19
17 12 0.15
19 28 0.35
ACGTcount: A:0.43, C:0.22, G:0.25, T:0.10
Consensus pattern (18 bp):
AAATCGCAACGCGAGATG
Found at i:1870042 original size:14 final size:14
Alignment explanation
Indices: 1870023--1870077 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
1870013 TTTGGTTTCG
1870023 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
1870037 CGTTGCGATTTCCATTTCG
1 CGTTGCGA-TT-C---TCT
1870056 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
1870070 CGTTGCGA
1 CGTTGCGA
1870078 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:1870240 original size:33 final size:33
Alignment explanation
Indices: 1870198--1870268 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
1870188 AATACTAACT
*
1870198 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
1870231 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
1870264 TGAAA
1 TGAAA
1870269 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:1870500 original size:22 final size:22
Alignment explanation
Indices: 1870448--1870502 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
1870438 TGGTTGTGAG
**
1870448 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
1870470 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
1870492 GGATTTCTTCG
1 GGATTTCTTCG
1870503 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:1870670 original size:20 final size:20
Alignment explanation
Indices: 1870645--1870838 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
1870635 CTTTAAATAT
1870645 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
1870665 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
1870687 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
1870706 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
1870726 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
1870746 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
1870766 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
1870786 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
1870806 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
1870826 CGCGTTGCGATTT
1 CGCGTTGCGATTT
1870839 TGGAAAATCG
Statistics
Matches: 147, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 128 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:1870832 original size:60 final size:60
Alignment explanation
Indices: 1870645--1870838 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
1870635 CTTTAAATAT
**
1870645 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
1870706 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
1870766 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
1870826 CGCGTTGCGATTT
1 CGCGTTGCGATTT
1870839 TGGAAAATCG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 84 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:1870855 original size:21 final size:20
Alignment explanation
Indices: 1870831--1870907 Score: 57
Period size: 21 Copynumber: 3.7 Consensus size: 20
1870821 ATATTCGCGT
1870831 TGCGATTTTGGAAAATCGCAA
1 TGCGATTTTGGAAAATCGC-A
* * **
1870852 TGCGAATTTGTACTATCGCA
1 TGCGATTTTGGAAAATCGCA
* *
1870872 TCGCGATTTT-CAAGAATCGCGT
1 T-GCGATTTTGGAA-AATCGC-A
1870894 TGCGATTTTGGAAA
1 TGCGATTTTGGAAA
1870908 CTGATTTGCG
Statistics
Matches: 42, Mismatches: 10, Indels: 8
0.70 0.17 0.13
Matches are distributed among these distances:
20 3 0.07
21 36 0.86
22 3 0.07
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.32
Consensus pattern (20 bp):
TGCGATTTTGGAAAATCGCA
Found at i:1870918 original size:20 final size:20
Alignment explanation
Indices: 1870893--1870944 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
1870883 AAGAATCGCG
*
1870893 TTGCGATTTTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
1870913 TTGCGATTCTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
1870933 TTGCGATTCTGG
1 TTGCGATTCTGG
1870945 GGATCGCGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.21, C:0.13, G:0.27, T:0.38
Consensus pattern (20 bp):
TTGCGATTCTGGAAACTGAT
Found at i:1874791 original size:35 final size:37
Alignment explanation
Indices: 1874736--1874810 Score: 118
Period size: 35 Copynumber: 2.1 Consensus size: 37
1874726 ATAATATTAC
*
1874736 AAATTGTAAAATATTTATATATTTTTTTTA-AAAATT
1 AAATTGTAAAATATTTATATAATTTTTTTACAAAATT
*
1874772 AAATT-TATAATATTTATATAATTTTTTTACAAAATT
1 AAATTGTAAAATATTTATATAATTTTTTTACAAAATT
1874808 AAA
1 AAA
1874811 AATATAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
35 22 0.61
36 14 0.39
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (37 bp):
AAATTGTAAAATATTTATATAATTTTTTTACAAAATT
Found at i:1878302 original size:20 final size:20
Alignment explanation
Indices: 1878261--1878314 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
1878251 ACTGAATATT
*
1878261 TGTCCCGAAAGACCAC--TA
1 TGTCCCGAAGGACCACGATA
*
1878279 TGTCCTGAAGGACCACGATA
1 TGTCCCGAAGGACCACGATA
*
1878299 TGTCCCGAATGACCAC
1 TGTCCCGAAGGACCAC
1878315 TGCTAATCCC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
18 14 0.47
20 16 0.53
ACGTcount: A:0.30, C:0.31, G:0.20, T:0.19
Consensus pattern (20 bp):
TGTCCCGAAGGACCACGATA
Found at i:1878974 original size:19 final size:19
Alignment explanation
Indices: 1878950--1879001 Score: 95
Period size: 19 Copynumber: 2.7 Consensus size: 19
1878940 TTTAAGCAGG
1878950 TGCATCGATGCACTCCTTA
1 TGCATCGATGCACTCCTTA
*
1878969 TGCATCGATGAACTCCTTA
1 TGCATCGATGCACTCCTTA
1878988 TGCATCGATGCACT
1 TGCATCGATGCACT
1879002 AATGACATTC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.23, C:0.29, G:0.17, T:0.31
Consensus pattern (19 bp):
TGCATCGATGCACTCCTTA
Found at i:1882512 original size:21 final size:21
Alignment explanation
Indices: 1882486--1882539 Score: 99
Period size: 21 Copynumber: 2.6 Consensus size: 21
1882476 CTTTGTCCAG
1882486 TAATTCTTGTAATTAGATCTT
1 TAATTCTTGTAATTAGATCTT
1882507 TAATTCTTGTAATTAGATCTT
1 TAATTCTTGTAATTAGATCTT
*
1882528 TAACTCTTGTAA
1 TAATTCTTGTAA
1882540 CTCTTTTGGG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.30, C:0.11, G:0.09, T:0.50
Consensus pattern (21 bp):
TAATTCTTGTAATTAGATCTT
Found at i:1885196 original size:21 final size:21
Alignment explanation
Indices: 1885150--1885206 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 21
1885140 ACTGAATATT
*
1885150 TGTCCCGAATGACCACT-ATA
1 TGTCCCGAAAGACCACTGATA
*
1885170 --TCCCGAAGGACCACTGATA
1 TGTCCCGAAAGACCACTGATA
1885189 TGTCCCGAAAGACCACTG
1 TGTCCCGAAAGACCACTG
1885207 CTAATCCCTC
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
18 14 0.44
19 3 0.09
21 15 0.47
ACGTcount: A:0.30, C:0.32, G:0.19, T:0.19
Consensus pattern (21 bp):
TGTCCCGAAAGACCACTGATA
Found at i:1891961 original size:20 final size:20
Alignment explanation
Indices: 1891936--1891975 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
1891926 AGCAACAGAA
*
1891936 TAAAAATGATTCTATCTAAT
1 TAAAAATGATCCTATCTAAT
1891956 TAAAAATGATCCTATCTAAT
1 TAAAAATGATCCTATCTAAT
1891976 AACTAATAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.45, C:0.12, G:0.05, T:0.38
Consensus pattern (20 bp):
TAAAAATGATCCTATCTAAT
Found at i:1892003 original size:53 final size:51
Alignment explanation
Indices: 1891932--1892081 Score: 264
Period size: 53 Copynumber: 2.9 Consensus size: 51
1891922 AATTAGCAAC
1891932 AGAATAAAAATGATTCTATCTAATTAAAAATGATCCTATCTAATAACTAAT
1 AGAATAAAAATGATTCTATCTAATTAAAAATGATCCTATCTAATAACTAAT
1891983 AGAATAAAAGACTGATTCTATCTAATTAAAAATGATCCTATCTAATAACTAAT
1 AGAATAAAA-A-TGATTCTATCTAATTAAAAATGATCCTATCTAATAACTAAT
*
1892036 AGAATAAAAATTGATTCTATCTAATTAAAACTGATCCTATCTAATA
1 AGAATAAAAA-TGATTCTATCTAATTAAAAATGATCCTATCTAATA
1892082 TTTAATTTAG
Statistics
Matches: 95, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
51 9 0.09
52 36 0.38
53 50 0.53
ACGTcount: A:0.47, C:0.13, G:0.07, T:0.33
Consensus pattern (51 bp):
AGAATAAAAATGATTCTATCTAATTAAAAATGATCCTATCTAATAACTAAT
Found at i:1892070 original size:20 final size:20
Alignment explanation
Indices: 1892042--1892080 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1892032 TAATAGAATA
* *
1892042 AAAATTGATTCTATCTAATT
1 AAAACTGATCCTATCTAATT
1892062 AAAACTGATCCTATCTAAT
1 AAAACTGATCCTATCTAAT
1892081 ATTTAATTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.41, C:0.15, G:0.05, T:0.38
Consensus pattern (20 bp):
AAAACTGATCCTATCTAATT
Found at i:1896948 original size:12 final size:13
Alignment explanation
Indices: 1896927--1896959 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
1896917 TAATGATAGA
*
1896927 GAGAAGAGAA-AG
1 GAGAAAAGAACAG
1896939 GAGAAAAGAACAG
1 GAGAAAAGAACAG
1896952 GAGAAAAG
1 GAGAAAAG
1896960 TCTCAATTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 9 0.47
13 10 0.53
ACGTcount: A:0.61, C:0.03, G:0.36, T:0.00
Consensus pattern (13 bp):
GAGAAAAGAACAG
Found at i:1921975 original size:23 final size:23
Alignment explanation
Indices: 1921931--1921977 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
1921921 AACATATTAG
**
1921931 GTAGCGCTTATATAATGTAATAT
1 GTAGCGCTTATATAATAAAATAT
*
1921954 GTAGCGTTTATATAATAAAATAT
1 GTAGCGCTTATATAATAAAATAT
1921977 G
1 G
1921978 CATTTAACCG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.38, C:0.06, G:0.17, T:0.38
Consensus pattern (23 bp):
GTAGCGCTTATATAATAAAATAT
Found at i:1922037 original size:87 final size:87
Alignment explanation
Indices: 1921887--1922117 Score: 342
Period size: 87 Copynumber: 2.7 Consensus size: 87
1921877 CGATTATGTT
*
1921887 ATAT-CATTTAACCGAAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAA
1 ATATGCATTTAACCGAAAATATTATCAAGTACAATAACATATTAGGTAGAGCTTATATAATGTAA
* *
1921951 TATG-TAGCGTTTATATAATAAA
66 TA-GACAGCGCTTATATAATAAA
1921973 ATATGCATTTAACCGAAAATATTATCAAGTACAATAACATATTAGGTAGAGCTTATATAATGTAA
1 ATATGCATTTAACCGAAAATATTATCAAGTACAATAACATATTAGGTAGAGCTTATATAATGTAA
*
1922038 TAGACATCGCTTATATAATAAA
66 TAGACAGCGCTTATATAATAAA
* ** * *
1922060 ATAAGCATTTAGTCGGAAATATTATCAAGTACAATAATATATTAGGTA-ATGCTTATAT
1 ATATGCATTTAACCGAAAATATTATCAAGTACAATAACATATTAGGTAGA-GCTTATAT
1922118 TGACATAACT
Statistics
Matches: 133, Mismatches: 9, Indels: 5
0.90 0.06 0.03
Matches are distributed among these distances:
86 6 0.05
87 127 0.95
ACGTcount: A:0.43, C:0.10, G:0.12, T:0.34
Consensus pattern (87 bp):
ATATGCATTTAACCGAAAATATTATCAAGTACAATAACATATTAGGTAGAGCTTATATAATGTAA
TAGACAGCGCTTATATAATAAA
Found at i:1922713 original size:21 final size:21
Alignment explanation
Indices: 1922675--1922715 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1922665 TAAAAATTAC
*
1922675 CTAAAACATTATTATTTTTAT
1 CTAAAACATAATTATTTTTAT
1922696 CTAAAACATCAATT-TTTTTA
1 CTAAAACAT-AATTATTTTTA
1922716 ACATTTTCGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.39, C:0.12, G:0.00, T:0.49
Consensus pattern (21 bp):
CTAAAACATAATTATTTTTAT
Found at i:1935577 original size:2 final size:2
Alignment explanation
Indices: 1935572--1935602 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1935562 TAATACATTA
1935572 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1935603 ATACCTACCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1939582 original size:3 final size:3
Alignment explanation
Indices: 1939574--1939618 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
1939564 GGAAGCTTTG
1939574 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1939619 CTTTAATGTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:1944878 original size:20 final size:20
Alignment explanation
Indices: 1944837--1944878 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
1944827 CAGTAAAAAA
*
1944837 TTATTTAAAATATTATTATT
1 TTATTTAAAATATTAATATT
*
1944857 TTATTTAAAATATTAATGTT
1 TTATTTAAAATATTAATATT
1944877 TT
1 TT
1944879 TTAATATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (20 bp):
TTATTTAAAATATTAATATT
Found at i:1945103 original size:90 final size:90
Alignment explanation
Indices: 1944960--1945150 Score: 323
Period size: 90 Copynumber: 2.1 Consensus size: 90
1944950 TCGGATATAT
* * *
1944960 TAACAAAATCGGTAAAGTGCCAAATAATAACAAAAATGATAGAAATAATAATGTTTTTGATAATT
1 TAACAAAACCGGAAAAGTGCCAAATAATAACAAAAACGATAGAAATAATAATGTTTTTGATAATT
1945025 TTTTATTAGTTTTGTTAAAAAAATAA
66 TTTTATTAGTTTTGTT-AAAAAATAA
1945051 TAACAAAACCGGAAAAGTGTCC-AATAATAA-AAAAACGATAGAAATAATAATGTTTTTGATAAT
1 TAACAAAACCGGAAAAGTG-CCAAATAATAACAAAAACGATAGAAATAATAATGTTTTTGATAAT
1945114 TTTTTATTAGTTTTGTTAAAAAATAA
65 TTTTTATTAGTTTTGTTAAAAAATAA
1945140 TAACAAAACCG
1 TAACAAAACCG
1945151 ATAGCATCTT
Statistics
Matches: 96, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
89 20 0.21
90 49 0.51
91 25 0.26
92 2 0.02
ACGTcount: A:0.49, C:0.07, G:0.11, T:0.33
Consensus pattern (90 bp):
TAACAAAACCGGAAAAGTGCCAAATAATAACAAAAACGATAGAAATAATAATGTTTTTGATAATT
TTTTATTAGTTTTGTTAAAAAATAA
Found at i:1945578 original size:16 final size:15
Alignment explanation
Indices: 1945557--1945587 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
1945547 AGCATTGATA
1945557 TTATAATATAATTAAT
1 TTATAATA-AATTAAT
1945573 TTATAATAAATTAAT
1 TTATAATAAATTAAT
1945588 CACTCGACGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
TTATAATAAATTAAT
Found at i:1947846 original size:16 final size:18
Alignment explanation
Indices: 1947814--1947852 Score: 55
Period size: 16 Copynumber: 2.3 Consensus size: 18
1947804 ATTCAAATGG
1947814 GAAAAAAACAATGTTAAA
1 GAAAAAAACAATGTTAAA
*
1947832 TAAAAAAA-AAT-TTAAA
1 GAAAAAAACAATGTTAAA
1947848 GAAAA
1 GAAAA
1947853 TAAATTAAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
16 9 0.47
17 3 0.16
18 7 0.37
ACGTcount: A:0.72, C:0.03, G:0.08, T:0.18
Consensus pattern (18 bp):
GAAAAAAACAATGTTAAA
Found at i:1949466 original size:13 final size:13
Alignment explanation
Indices: 1949449--1949485 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
1949439 CCGTTGACCC
1949449 GACCCGACCCGTT
1 GACCCGACCCGTT
*
1949462 TACCCGACCCGTT
1 GACCCGACCCGTT
1949475 GACCCGACCCG
1 GACCCGACCCG
1949486 ACCTGTCATC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.16, C:0.49, G:0.22, T:0.14
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:1949488 original size:18 final size:18
Alignment explanation
Indices: 1949427--1949472 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
1949417 ACCGGTCACA
*
1949427 ACCCGACCCGATCCGTTG
1 ACCCGACCCGACCCGTTG
*
1949445 ACCCGACCCGACCCGTTT
1 ACCCGACCCGACCCGTTG
1949463 ACCCGACCCG
1 ACCCGACCCG
1949473 TTGACCCGAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.17, C:0.50, G:0.20, T:0.13
Consensus pattern (18 bp):
ACCCGACCCGACCCGTTG
Found at i:1950871 original size:39 final size:39
Alignment explanation
Indices: 1950817--1950895 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
1950807 TGATGAATTA
1950817 TAAGCTCCTCCCCGTGCGCAGGTTTCATATTTTCCAGAT
1 TAAGCTCCTCCCCGTGCGCAGGTTTCATATTTTCCAGAT
1950856 TAAGCTCCTCCCCGTGCGCAGGTTTCATATTTTCCAGAT
1 TAAGCTCCTCCCCGTGCGCAGGTTTCATATTTTCCAGAT
1950895 T
1 T
1950896 TCCCTTCTCC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.18, C:0.30, G:0.18, T:0.34
Consensus pattern (39 bp):
TAAGCTCCTCCCCGTGCGCAGGTTTCATATTTTCCAGAT
Found at i:1951486 original size:18 final size:18
Alignment explanation
Indices: 1951439--1951486 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
1951429 ACCGTTCACA
*
1951439 ACCCGACCCGAACCATTG
1 ACCCGACCCGACCCATTG
* *
1951457 ACCCGACCCGACCCGTTT
1 ACCCGACCCGACCCATTG
1951475 ACCCGACCCGAC
1 ACCCGACCCGAC
1951487 ATGTTGACTC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.23, C:0.50, G:0.17, T:0.10
Consensus pattern (18 bp):
ACCCGACCCGACCCATTG
Found at i:1951499 original size:18 final size:18
Alignment explanation
Indices: 1951439--1951502 Score: 67
Period size: 18 Copynumber: 3.6 Consensus size: 18
1951429 ACCGTTCACA
*
1951439 ACCCGACCCGA-ACCATTG
1 ACCCGACCCGACA-CGTTG
* *
1951457 ACCCGACCCGACCCGTTT
1 ACCCGACCCGACACGTTG
*
1951475 ACCCGACCCGACATGTTG
1 ACCCGACCCGACACGTTG
*
1951493 ACTCGACCCG
1 ACCCGACCCG
1951503 TTGACCCGTT
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
18 38 1.00
ACGTcount: A:0.22, C:0.45, G:0.19, T:0.14
Consensus pattern (18 bp):
ACCCGACCCGACACGTTG
Found at i:1955676 original size:37 final size:36
Alignment explanation
Indices: 1955628--1955851 Score: 189
Period size: 37 Copynumber: 6.3 Consensus size: 36
1955618 TTTTTTTGTC
* *
1955628 TTTCAAGAGAAACTGTCCCAAGGGAGACAAAATTTTG
1 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TTTG
*
1955665 TTTCAAGAGAAACATAT-TC-A-A-AG-----ATTGGTG
1 TTTCAAGAGAAAC-TGTCTCAAGAGAGACAAAATT--TG
1955695 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTG
1 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TTTG
* * * *
1955732 TTTCAAGGGAAACTGTCTCAAGAGAAATAAGATTTG
1 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTG
* * *
1955768 TTTCAATAAAAACTGTCTCAAGAGAGACAAAACTTAG
1 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TTTG
* * * * *
1955805 TTCCAAAAGAAACTGCCTCAAGGGAGACGAAATTTG
1 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTG
1955841 TTTCAAG-GAAA
1 TTTCAAGAGAAA
1955852 ACAGATTTAA
Statistics
Matches: 149, Mismatches: 24, Indels: 30
0.73 0.12 0.15
Matches are distributed among these distances:
28 2 0.01
29 3 0.02
30 17 0.11
31 1 0.01
32 1 0.01
33 2 0.01
34 2 0.01
35 4 0.03
36 39 0.26
37 73 0.49
38 3 0.02
39 2 0.01
ACGTcount: A:0.41, C:0.15, G:0.20, T:0.25
Consensus pattern (36 bp):
TTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTG
Found at i:1955736 original size:67 final size:71
Alignment explanation
Indices: 1955628--1955818 Score: 212
Period size: 67 Copynumber: 2.7 Consensus size: 71
1955618 TTTTTTTGTC
* * *
1955628 TTTCAAGAGAAACTGTCCCAAGGGAGACAAAATTTTGTTTCAAGAGAAACATAT-TCAA-AG-AT
1 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGAGAAAC-TATCTCAAGAGAAT
*
1955690 -TG-GTG
65 AAGAGTG
* *
1955695 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGGAAACTGTCTCAAGAGAAAT
1 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGAGAAACTATCTCAAGAG-AAT
*
1955760 AAGATTTG
65 AAGA-GTG
* * * * *
1955768 TTTCAATAAAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACT
1 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGAGAAACT
1955819 GCCTCAAGGG
Statistics
Matches: 104, Mismatches: 13, Indels: 8
0.83 0.10 0.06
Matches are distributed among these distances:
66 2 0.02
67 50 0.48
68 2 0.02
70 2 0.02
71 1 0.01
73 47 0.45
ACGTcount: A:0.41, C:0.15, G:0.18, T:0.26
Consensus pattern (71 bp):
TTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGAGAAACTATCTCAAGAGAATA
AGAGTG
Found at i:1955840 original size:73 final size:73
Alignment explanation
Indices: 1955693--1955853 Score: 207
Period size: 73 Copynumber: 2.2 Consensus size: 73
1955683 CAAAGATTGG
* * * ** *
1955693 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGGAAACTGTCTCAAGAGAA
1 TGTTTCAAGAAAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTGCCTCAAGAGAA
*
1955758 ATAAGATT
66 AGAAGATT
* *
1955766 TGTTTCAATAAAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTGCCTCAAGGGAG
1 TGTTTCAAGAAAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTGCCTCAAGAGA-
*
1955831 ACGAA-ATT
65 AAGAAGATT
*
1955839 TGTTTCAAGGAAAAC
1 TGTTTCAAGAAAAAC
1955854 AGATTTAAAG
Statistics
Matches: 75, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
73 72 0.96
74 3 0.04
ACGTcount: A:0.41, C:0.16, G:0.19, T:0.24
Consensus pattern (73 bp):
TGTTTCAAGAAAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTGCCTCAAGAGAA
AGAAGATT
Found at i:1956575 original size:32 final size:32
Alignment explanation
Indices: 1956516--1956578 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
1956506 TTCATATCAG
*
1956516 GATGTTGAATCCCCAAAGATGTCCCAATATTC
1 GATGTTGAATCCCCAAAAATGTCCCAATATTC
* *
1956548 GATGTTGAATCTCTAAAAATG-CTCCAATATT
1 GATGTTGAATCCCCAAAAATGTC-CCAATATT
1956579 TTATATTGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 1 0.04
32 26 0.96
ACGTcount: A:0.33, C:0.21, G:0.14, T:0.32
Consensus pattern (32 bp):
GATGTTGAATCCCCAAAAATGTCCCAATATTC
Found at i:1957683 original size:25 final size:24
Alignment explanation
Indices: 1957632--1957688 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 24
1957622 TTTTTGTTTC
1957632 TCTCTTTTTTATTTTCTCTTTACTT
1 TCTCTTTTTTATTTTCTCTTTA-TT
*
1957657 TCTCTTGTTTTTTTTTGCTCTTT-TT
1 TCTCTT-TTTTATTTT-CTCTTTATT
1957682 TCT-TTTT
1 TCTCTTTT
1957689 GTTCTGATTG
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
23 2 0.07
24 2 0.07
25 11 0.38
26 8 0.28
27 6 0.21
ACGTcount: A:0.04, C:0.18, G:0.04, T:0.75
Consensus pattern (24 bp):
TCTCTTTTTTATTTTCTCTTTATT
Found at i:1960781 original size:13 final size:13
Alignment explanation
Indices: 1960765--1960789 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1960755 ATAAAATAAA
1960765 AATAATAAATCAT
1 AATAATAAATCAT
1960778 AATAATAAATCA
1 AATAATAAATCA
1960790 AATGGGAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (13 bp):
AATAATAAATCAT
Found at i:1967186 original size:17 final size:18
Alignment explanation
Indices: 1967144--1967186 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
1967134 AAGAGAAGAA
*
1967144 AATATTTTATTTAAAAAT
1 AATATTTTATTGAAAAAT
*
1967162 AATCTTTT-TTGAAAAAT
1 AATATTTTATTGAAAAAT
*
1967179 TATATTTT
1 AATATTTT
1967187 GAGTCTAATA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 14 0.67
18 7 0.33
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.53
Consensus pattern (18 bp):
AATATTTTATTGAAAAAT
Found at i:1976690 original size:9 final size:9
Alignment explanation
Indices: 1976676--1976709 Score: 68
Period size: 9 Copynumber: 3.8 Consensus size: 9
1976666 TAAAGGCCTA
1976676 CTGGAACTT
1 CTGGAACTT
1976685 CTGGAACTT
1 CTGGAACTT
1976694 CTGGAACTT
1 CTGGAACTT
1976703 CTGGAAC
1 CTGGAAC
1976710 ATGAAATTCG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.29
Consensus pattern (9 bp):
CTGGAACTT
Found at i:1979779 original size:2 final size:2
Alignment explanation
Indices: 1979772--1979847 Score: 152
Period size: 2 Copynumber: 38.0 Consensus size: 2
1979762 ATTTGTTCTG
1979772 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
1979814 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
1979848 GACTAAAAAA
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 74 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1995710 original size:21 final size:21
Alignment explanation
Indices: 1995684--1995727 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
1995674 ATTTCTGGGT
* *
1995684 AAGGGGAATCGGTACCCATTC
1 AAGGGGAACCGATACCCATTC
*
1995705 AAGGGGAACCGATACCCCTTC
1 AAGGGGAACCGATACCCATTC
1995726 AA
1 AA
1995728 ACGACAGAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.32, C:0.27, G:0.25, T:0.16
Consensus pattern (21 bp):
AAGGGGAACCGATACCCATTC
Found at i:1996284 original size:23 final size:24
Alignment explanation
Indices: 1996241--1996287 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
1996231 ATATGGCCTG
*
1996241 TGATATGAAAGTGTATATGTGAAA
1 TGATATGAAAGTATATATGTGAAA
1996265 TGATATGAAA-TATATATGTGAAA
1 TGATATGAAAGTATATATGTGAAA
1996288 ACAGTATATG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 12 0.55
24 10 0.45
ACGTcount: A:0.45, C:0.00, G:0.21, T:0.34
Consensus pattern (24 bp):
TGATATGAAAGTATATATGTGAAA
Found at i:1996501 original size:31 final size:31
Alignment explanation
Indices: 1996463--1996617 Score: 251
Period size: 31 Copynumber: 5.0 Consensus size: 31
1996453 AGGGTCGAGG
1996463 GTTTACCTATGTTCTTCGGAACATATGGACT
1 GTTTACCTATGTTCTTCGGAACATATGGACT
*
1996494 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGAACATATGGACT
1996525 GTTTACCTATGTTCTTCGGAACATATGGACT
1 GTTTACCTATGTTCTTCGGAACATATGGACT
*
1996556 GTTTACCTATGTCCTTCGG-ACATATGGACT
1 GTTTACCTATGTTCTTCGGAACATATGGACT
* *
1996586 GATTACCTAGGTTCTTCGGAATC-TATGGACT
1 GTTTACCTATGTTCTTCGGAA-CATATGGACT
1996617 G
1 G
1996618 GTCCTTCGGG
Statistics
Matches: 116, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
30 27 0.23
31 88 0.76
32 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.21, T:0.37
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGAACATATGGACT
Found at i:1999638 original size:21 final size:21
Alignment explanation
Indices: 1999612--1999655 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
1999602 ATTTCTGGGT
* *
1999612 AAGGGGAATCGGTACCCATTC
1 AAGGGGAACCGATACCCATTC
*
1999633 AAGGGGAACCGATACCCCTTC
1 AAGGGGAACCGATACCCATTC
1999654 AA
1 AA
1999656 ACGACAGAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.32, C:0.27, G:0.25, T:0.16
Consensus pattern (21 bp):
AAGGGGAACCGATACCCATTC
Found at i:2000427 original size:31 final size:31
Alignment explanation
Indices: 2000389--2000544 Score: 251
Period size: 31 Copynumber: 5.0 Consensus size: 31
2000379 AGGGTCGAGG
2000389 GTTTACCTATGTTCTTCGGAACATATGGACT
1 GTTTACCTATGTTCTTCGGAACATATGGACT
*
2000420 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGAACATATGGACT
2000451 GTTTACCTATGTTCTTCGGAACATATGGACT
1 GTTTACCTATGTTCTTCGGAACATATGGACT
* *
2000482 GTTTACCTATGTCCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGAACATATGGACT
* *
2000513 GATTACCTAGGTTCTTCGGAATC-TATGGACT
1 GTTTACCTATGTTCTTCGGAA-CATATGGACT
2000544 G
1 G
2000545 GTCCTTCGGG
Statistics
Matches: 116, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
31 115 0.99
32 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.22, T:0.37
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGAACATATGGACT
Found at i:2001615 original size:16 final size:17
Alignment explanation
Indices: 2001583--2001622 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
2001573 TGACCACAAC
*
2001583 AAAAAATTATAGCATAA
1 AAAAAATGATAGCATAA
*
2001600 TAAAAATGATAG-ATAA
1 AAAAAATGATAGCATAA
2001616 AAAAAAT
1 AAAAAAT
2001623 AGAAATCACA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 10 0.50
17 10 0.50
ACGTcount: A:0.68, C:0.03, G:0.07, T:0.23
Consensus pattern (17 bp):
AAAAAATGATAGCATAA
Found at i:2003710 original size:15 final size:15
Alignment explanation
Indices: 2003690--2003721 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
2003680 ATTGGATATG
2003690 GGGTCAAATGATCAA
1 GGGTCAAATGATCAA
2003705 GGGTCAAATGATCAA
1 GGGTCAAATGATCAA
2003720 GG
1 GG
2003722 CGTGTCTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.38, C:0.12, G:0.31, T:0.19
Consensus pattern (15 bp):
GGGTCAAATGATCAA
Found at i:2005953 original size:18 final size:18
Alignment explanation
Indices: 2005930--2005969 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 18
2005920 AATAAATACT
2005930 AAAT-AATTAAAGAGAAAA
1 AAATAAATT-AAGAGAAAA
2005948 AAATAAATTAAGAGAAAA
1 AAATAAATTAAGAGAAAA
2005966 AAAT
1 AAAT
2005970 GTTAAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 17 0.81
19 4 0.19
ACGTcount: A:0.72, C:0.00, G:0.10, T:0.17
Consensus pattern (18 bp):
AAATAAATTAAGAGAAAA
Found at i:2011344 original size:60 final size:60
Alignment explanation
Indices: 2011223--2011352 Score: 158
Period size: 60 Copynumber: 2.1 Consensus size: 60
2011213 GTCATATGAT
** *
2011223 CATTTTGTAACTTTTAATGGTCAAGGGACTCAACAAAATAGCTTCTTATAATTGGGAGAC
1 CATTTTGTAACTTTTAATAATCAAGGGACTCAACAAAATAGCTTCTTATAATCGGGAGAC
* *
2011283 CATTTTGTAACTTTTAATAATC-GGAGGACTCAACAAAATAG-TATCTTATACTCGAGG-GAC
1 CATTTTGTAACTTTTAATAATCAAG-GGACTCAACAAAATAGCT-TCTTATAATCG-GGAGAC
2011343 CATTTGTGTA
1 CATTT-TGTA
2011353 TTTTATCCTA
Statistics
Matches: 61, Mismatches: 5, Indels: 7
0.84 0.07 0.10
Matches are distributed among these distances:
59 2 0.03
60 53 0.87
61 6 0.10
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.34
Consensus pattern (60 bp):
CATTTTGTAACTTTTAATAATCAAGGGACTCAACAAAATAGCTTCTTATAATCGGGAGAC
Found at i:2020854 original size:20 final size:20
Alignment explanation
Indices: 2020831--2020882 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
2020821 AACGCGATCC
2020831 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
2020851 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
*
2020871 CCAAAATCGCAA
1 CCAGAATCGCAA
2020883 CGCGATTCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.38, C:0.27, G:0.13, T:0.21
Consensus pattern (20 bp):
CCAGAATCGCAAATCAGTTT
Found at i:2020899 original size:21 final size:20
Alignment explanation
Indices: 2020873--2020970 Score: 70
Period size: 21 Copynumber: 4.8 Consensus size: 20
2020863 ATCAGTTTCC
2020873 AAAATCGCAACGCGATTCTTG
1 AAAATCGCAACGCGATT-TTG
* * * *
2020894 AAAATCGCGATGCGATAGTAG
1 AAAATCGCAACGCGAT-TTTG
* ** *
2020915 AAATTCGCATTGCGATTTTCC
1 AAAATCGCAACGCGATTTT-G
* * *
2020936 ATAATCGCAACGCGAATATG
1 AAAATCGCAACGCGATTTTG
2020956 AAAATCGCAACGCGA
1 AAAATCGCAACGCGA
2020971 ACACATAAAT
Statistics
Matches: 57, Mismatches: 18, Indels: 5
0.71 0.22 0.06
Matches are distributed among these distances:
20 15 0.26
21 42 0.74
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.22
Consensus pattern (20 bp):
AAAATCGCAACGCGATTTTG
Found at i:2021021 original size:60 final size:60
Alignment explanation
Indices: 2020938--2021130 Score: 242
Period size: 60 Copynumber: 3.2 Consensus size: 60
2020928 GATTTTCCAT
* ** * *
2020938 AATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTA
* * *** *
2020998 AATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTA
* * **
2021058 TATCGCAACGCGTATCCGTAAATCGCAATGATAATACATAAAATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGTA
2021119 AATCGCAACGCG
1 AATCGCAACGCG
2021131 ATATTTAAAG
Statistics
Matches: 110, Mismatches: 22, Indels: 1
0.83 0.17 0.01
Matches are distributed among these distances:
60 79 0.72
61 31 0.28
ACGTcount: A:0.35, C:0.25, G:0.20, T:0.20
Consensus pattern (60 bp):
AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTA
Found at i:2021032 original size:20 final size:20
Alignment explanation
Indices: 2020938--2021130 Score: 210
Period size: 20 Copynumber: 9.6 Consensus size: 20
2020928 GATTTTCCAT
* ** *
2020938 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
2020958 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
2020978 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
2020998 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
**
2021018 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGTATCCGTA
*
2021038 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
2021058 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* * * *
2021078 AATCGCAATG-ATAATACATAA
1 AATCGCAACGCGT-ATCCGT-A
2021099 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
2021119 AATCGCAACGCG
1 AATCGCAACGCG
2021131 ATATTTAAAG
Statistics
Matches: 143, Mismatches: 25, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
19 2 0.01
20 124 0.87
21 16 0.11
22 1 0.01
ACGTcount: A:0.35, C:0.25, G:0.20, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:2021551 original size:33 final size:33
Alignment explanation
Indices: 2021512--2021582 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
2021502 TTCACTTAGA
*
2021512 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
2021545 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
2021578 TTTCA
1 TTTCA
2021583 AGTTAGTATT
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:0.11, C:0.23, G:0.18, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:2021722 original size:14 final size:14
Alignment explanation
Indices: 2021703--2021757 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
2021693 AGAATGACTG
2021703 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
*
2021717 TCGCAACGCGAAATGAAAA
1 TCGCAA--CG--A-GAGAA
2021736 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
2021750 TCGCAACG
1 TCGCAACG
2021758 CGAAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.42, C:0.24, G:0.25, T:0.09
Consensus pattern (14 bp):
TCGCAACGAGAGAA
Found at i:2021740 original size:33 final size:33
Alignment explanation
Indices: 2021703--2021773 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
2021693 AGAATGACTG
**
2021703 TCGCAACGAGAGAATCGCAACGCGAAATGAAAA
1 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
2021736 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
1 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
2021769 TCGCA
1 TCGCA
2021774 TTGCGATTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.44, C:0.25, G:0.23, T:0.08
Consensus pattern (33 bp):
TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
Found at i:2021791 original size:19 final size:19
Alignment explanation
Indices: 2021769--2021866 Score: 81
Period size: 19 Copynumber: 5.7 Consensus size: 19
2021759 GAAACCAAAA
*
2021769 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
2021788 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
2021802 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
2021821 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* * *
2021835 TCTCGTTGCGATTGTCATC
1 TCGCGTTGCGATTTTCATT
2021854 TCGCGTTGCGATT
1 TCGCGTTGCGATT
2021867 CTCTCGTTGC
Statistics
Matches: 63, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
14 20 0.32
16 5 0.08
17 6 0.10
19 32 0.51
ACGTcount: A:0.10, C:0.24, G:0.22, T:0.43
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:2021810 original size:14 final size:14
Alignment explanation
Indices: 2021791--2021880 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
2021781 TTTCATTTCG
2021791 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
2021805 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
2021824 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
2021838 CGTTGCGATTGTCATCT
1 CGTTGCGA-T-TC-TCT
2021855 CGCGTTGCGATTCTCT
1 --CGTTGCGATTCTCT
2021871 CGTTGCGATT
1 CGTTGCGATT
2021881 TTCATTTCAA
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:0.09, C:0.26, G:0.23, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:2021816 original size:33 final size:33
Alignment explanation
Indices: 2021774--2021888 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
2021764 CAAAATCGCA
2021774 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
2021807 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* *
2021840 TTGCGATTGTCATCTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
2021873 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
2021889 AACCAAAAGA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.10, C:0.24, G:0.21, T:0.45
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:2023817 original size:185 final size:186
Alignment explanation
Indices: 2023587--2024151 Score: 1107
Period size: 185 Copynumber: 3.0 Consensus size: 186
2023577 TAGATTGCTT
*
2023587 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
2023652 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
2023717 GTGTATTCTTTAACACTGTGAAATA-TATTTGTCTTTGTTTTGTCTTTTGGTTGAA
131 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
2023772 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATA-TA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
2023836 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
2023901 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
131 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
2023957 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
2024022 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
2024087 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
131 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
2024143 AGTAAATTT
1 AGTAAATTT
2024152 ATCCATTCAA
Statistics
Matches: 377, Mismatches: 1, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
184 92 0.24
185 153 0.41
186 132 0.35
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (186 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:2023993 original size:93 final size:93
Alignment explanation
Indices: 2023587--2024151 Score: 1107
Period size: 93 Copynumber: 6.1 Consensus size: 93
2023577 TAGATTGCTT
*
2023587 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
2023652 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
2023680 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATA-TA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
2023744 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
2023772 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATA-TA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
2023836 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
2023864 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
2023929 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
2023957 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
2024022 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
2024050 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
2024115 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
2024143 AGTAAATTT
1 AGTAAATTT
2024152 ATCCATTCAA
Statistics
Matches: 470, Mismatches: 1, Indels: 2
0.99 0.00 0.00
Matches are distributed among these distances:
92 184 0.39
93 286 0.61
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:2024235 original size:19 final size:19
Alignment explanation
Indices: 2024195--2024323 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
2024185 TAGTTTACTT
* *
2024195 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
2024215 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
2024234 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
2024253 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
2024267 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
2024286 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
2024300 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
2024319 TCGCA
1 TCGCA
2024324 TTACGATTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 19 0.21
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 46 0.51
20 13 0.14
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:2024274 original size:33 final size:32
Alignment explanation
Indices: 2024231--2024323 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 32
2024221 CGCGAAACCA
**
2024231 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
2024263 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
2024296 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
2024324 TTACGATTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 2 0.04
33 55 0.96
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:2024321 original size:52 final size:52
Alignment explanation
Indices: 2024195--2024323 Score: 140
Period size: 52 Copynumber: 2.5 Consensus size: 52
2024185 TAGTTTACTT
**
2024195 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
* * *
2024247 T-G-AAAATCGCAACGACAGAATCGCAACGCGAAACCAAAATCGCAACGAC-AAGA
1 TCGCAACA-CGAAAC-ACAAAATCGCAACGCGAAACCAAAATCGCAACG-CGAA-A
*
2024300 TCGCAACGCGAAAC-CAAAATCGCA
1 TCGCAACACGAAACACAAAATCGCA
2024324 TTACGATTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 42 0.68
53 3 0.05
54 6 0.10
55 2 0.03
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (52 bp):
TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
Found at i:2024341 original size:19 final size:19
Alignment explanation
Indices: 2024319--2024437 Score: 96
Period size: 19 Copynumber: 6.8 Consensus size: 19
2024309 GAAACCAAAA
*
2024319 TCGCATTACGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
2024338 TCGCGTTGCGA--TTC-TT
1 TCGCATTGCGATTTTCATT
2024354 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
2024371 TCGCATTGCGA--TTC-TG
1 TCGCATTGCGATTTTCATT
*
2024387 TCG--TTGCGATTTTAATT
1 TCGCATTGCGATTTTCATT
* **
2024404 TCGCGTTGCGATTTTGGTT
1 TCGCATTGCGATTTTCATT
*
2024423 TCGCGTTGCGATTTT
1 TCGCATTGCGATTTT
2024438 AAGTTTCGTG
Statistics
Matches: 83, Mismatches: 7, Indels: 20
0.75 0.06 0.18
Matches are distributed among these distances:
14 12 0.14
16 14 0.17
17 15 0.18
19 42 0.51
ACGTcount: A:0.12, C:0.19, G:0.22, T:0.47
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:2024360 original size:14 final size:14
Alignment explanation
Indices: 2024341--2024397 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
2024331 TTTCATTTCG
2024341 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
2024355 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
2024372 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
2024388 CGTTGCGATT
1 CGTTGCGATT
2024398 TTAATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 16 0.43
16 7 0.19
17 8 0.22
19 6 0.16
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:2024369 original size:33 final size:33
Alignment explanation
Indices: 2024327--2024416 Score: 153
Period size: 33 Copynumber: 2.7 Consensus size: 33
2024317 AATCGCATTA
*
2024327 CGATTTTCATTTCGCGTTGCGATTCTTTCGTTG
1 CGATTTTCATTTCGCGTTGCGATTCTGTCGTTG
*
2024360 CGATTTTCATTTCGCATTGCGATTCTGTCGTTG
1 CGATTTTCATTTCGCGTTGCGATTCTGTCGTTG
*
2024393 CGATTTTAATTTCGCGTTGCGATT
1 CGATTTTCATTTCGCGTTGCGATT
2024417 TTGGTTTCGC
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 53 1.00
ACGTcount: A:0.12, C:0.20, G:0.21, T:0.47
Consensus pattern (33 bp):
CGATTTTCATTTCGCGTTGCGATTCTGTCGTTG
Found at i:2024445 original size:20 final size:20
Alignment explanation
Indices: 2024388--2024453 Score: 100
Period size: 19 Copynumber: 3.4 Consensus size: 20
2024378 GCGATTCTGT
2024388 CGTTGCGATTTTAA-TTTCG
1 CGTTGCGATTTTAAGTTTCG
*
2024407 CGTTGCGATTTT-GGTTTCG
1 CGTTGCGATTTTAAGTTTCG
2024426 CGTTGCGATTTTAAGTTTCG
1 CGTTGCGATTTTAAGTTTCG
*
2024446 TGTTGCGA
1 CGTTGCGA
2024454 AAGTAAACTA
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:0.12, C:0.15, G:0.27, T:0.45
Consensus pattern (20 bp):
CGTTGCGATTTTAAGTTTCG
Found at i:2026395 original size:14 final size:14
Alignment explanation
Indices: 2026376--2026411 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
2026366 ATTGTTTAAT
2026376 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
2026390 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
2026404 TGATTTGT
1 TGATTTGT
2026412 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:2026533 original size:19 final size:19
Alignment explanation
Indices: 2026517--2026618 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
2026507 CAAAATGACT
2026517 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
2026536 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
2026555 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
2026569 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
2026588 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
2026608 ATCGCAATGCG
1 ATCGCAATGCG
2026619 TTTATAATTT
Statistics
Matches: 75, Mismatches: 2, Indels: 12
0.84 0.02 0.13
Matches are distributed among these distances:
14 10 0.13
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 40 0.53
20 19 0.25
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:2026671 original size:19 final size:19
Alignment explanation
Indices: 2026647--2026886 Score: 348
Period size: 19 Copynumber: 13.4 Consensus size: 19
2026637 GATTATCTCG
2026647 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
2026666 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
2026685 TTGCGA--TTC-TTTCG--
1 TTGCGATTTTCATTTCGCA
2026699 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
2026718 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
2026737 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
2026756 TTGCGATTTTAATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
2026775 TTGCGA--TTC-TGTCG--
1 TTGCGATTTTCATTTCGCA
2026789 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
2026808 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
2026827 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
2026841 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
2026860 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
2026879 TTGCGATT
1 TTGCGATT
2026887 CTCTCGTTGC
Statistics
Matches: 200, Mismatches: 6, Indels: 30
0.85 0.03 0.13
Matches are distributed among these distances:
14 18 0.09
16 22 0.11
17 21 0.10
19 139 0.69
ACGTcount: A:0.15, C:0.21, G:0.17, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:2026687 original size:52 final size:50
Alignment explanation
Indices: 2026625--2026933 Score: 263
Period size: 52 Copynumber: 5.9 Consensus size: 50
2026615 TGCGTTTATA
2026625 ATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCG-ATTGCGATT-TCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
*
2026677 ATTTCGCATTGCGATTCTTTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCG-ATTGCGATT-TCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
*
2026729 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTAATTTCGCATTGCGATTCTGTC
1 ATTTCG-ATTGCGA-TTTC---TCG--TTGCGATTTTCATTTCGCATTGCGATT-T-TC
* * * * *
2026788 GTTGCGATTTTC-ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTC
1 ATTTCGA-TTGCGATTTCTCGTTGCGATTTTCATTTCGCATTGCGATT-T-TC
* * * * *
2026840 GTTGCGATTTTC-ATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TTC
1 ATTTCGA-TTGCGATTTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
* * *
2026888 -TCTCG-TTGCGATTT-TCATGTTGGGATTTTCATTTCGCGTTGCGATT
1 ATTTCGATTGCGATTTCTC--GTTGCGATTTTCATTTCGCATTGCGATT
2026934 GTATTTTCCG
Statistics
Matches: 225, Mismatches: 18, Indels: 31
0.82 0.07 0.11
Matches are distributed among these distances:
45 4 0.02
46 4 0.02
47 26 0.12
48 2 0.01
49 1 0.00
52 140 0.62
53 2 0.01
54 1 0.00
55 3 0.01
57 30 0.13
58 3 0.01
59 9 0.04
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (50 bp):
ATTTCGATTGCGATTTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
Found at i:2026722 original size:71 final size:71
Alignment explanation
Indices: 2026647--2026933 Score: 373
Period size: 71 Copynumber: 4.1 Consensus size: 71
2026637 GATTATCTCG
2026647 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATTTTCAT
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATTTTCAT
2026712 TTCGCA
66 TTCGCA
*
2026718 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTAATTTCGCATTGCGA--
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TT-CTTTCG--TTGCGATT
*
2026781 TTC-TGTCG--
61 TTCATTTCGCA
*
2026789 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCAT
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATTTTCAT
2026854 TTCGCA
66 TTCGCA
* *
2026860 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG--TTGCGA-T-TTTCATGTTGGGATTTTC
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTC--GTTGCGATTTTC
*
2026918 ATTTCGCG
64 ATTTCGCA
2026926 TTGCGATT
1 TTGCGATT
2026934 GTATTTTCCG
Statistics
Matches: 195, Mismatches: 9, Indels: 29
0.84 0.04 0.12
Matches are distributed among these distances:
64 3 0.02
65 1 0.01
66 38 0.19
68 11 0.06
69 9 0.05
71 113 0.58
73 6 0.03
74 8 0.04
76 6 0.03
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (71 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATTTTCAT
TTCGCA
Found at i:2026797 original size:142 final size:142
Alignment explanation
Indices: 2026609--2026886 Score: 504
Period size: 142 Copynumber: 2.0 Consensus size: 142
2026599 GAAATGAAAA
2026609 TCGCAATGCGTTTATAATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATT
1 TCGCAATGCGTTTATAATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATT
*
2026674 TTCATTTCGCATTGCGATTCTTTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATT
66 TTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATT
2026739 GCGATTTTCATT
131 GCGATTTTCATT
* * *
2026751 TCGCATTGCGATTT-TAATTTCGCATTGCGATTCTGTCGTTGCGATTTTCATTTCGCATTGCGAT
1 TCGCAATGCG-TTTATAATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGAT
2026815 TTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCAT
65 TTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCAT
2026880 TGCGATT
130 TGCGATT
2026887 CTCTCGTTGC
Statistics
Matches: 131, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
142 128 0.98
143 3 0.02
ACGTcount: A:0.15, C:0.21, G:0.18, T:0.46
Consensus pattern (142 bp):
TCGCAATGCGTTTATAATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATT
TTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATT
GCGATTTTCATT
Done.