Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008685.1 Hibiscus syriacus cultivar Beakdansim tig00111708_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: 3669133
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 12 of 19
Found at i:2220985 original size:19 final size:19
Alignment explanation
Indices: 2220876--2220977 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
2220866 AAATTATAAA
2220876 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
2220895 CCGCATTGCGATTTTCATTT
1 -CGCATTGCGATTTTCATTT
*
2220915 CGCATTGCGA--TTC-TCT
1 CGCATTGCGATTTTCATTT
2220931 CG--TTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
2220948 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
2220967 CGCATTGCGAT
1 CGCATTGCGAT
2220978 AGTCATTTTT
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:2221103 original size:14 final size:14
Alignment explanation
Indices: 2221084--2221120 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
2221074 CATCAATTAC
2221084 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
2221098 ACAAATCATCTTTT
1 ACAAATCAACTTTT
2221112 ACAAATCAA
1 ACAAATCAA
2221121 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:2221132 original size:12 final size:12
Alignment explanation
Indices: 2221115--2221187 Score: 53
Period size: 12 Copynumber: 6.0 Consensus size: 12
2221105 ATCTTTTACA
2221115 AATCAATTAAAC
1 AATCAATTAAAC
*
2221127 AATCAA--AAATTG
1 AATCAATTAAA--C
**
2221139 AATCAACTTTTAC
1 AATCAA-TTAAAC
2221152 AAATCAATTAAAC
1 A-ATCAATTAAAC
*
2221165 AATCAA-AAAAC
1 AATCAATTAAAC
2221176 AATCAATTAAAC
1 AATCAATTAAAC
2221188 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:2221149 original size:38 final size:38
Alignment explanation
Indices: 2221101--2221173 Score: 137
Period size: 38 Copynumber: 1.9 Consensus size: 38
2221091 AACTTTTACA
*
2221101 AATCATCTTTTACAAATCAATTAAACAATCAAAAATTG
1 AATCAACTTTTACAAATCAATTAAACAATCAAAAATTG
2221139 AATCAACTTTTACAAATCAATTAAACAATCAAAAA
1 AATCAACTTTTACAAATCAATTAAACAATCAAAAA
2221174 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:2223064 original size:14 final size:14
Alignment explanation
Indices: 2223045--2223101 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
2223035 GCGAAATGAA
*
2223045 AATCGCAACGACAG
1 AATCGCAACGAAAG
2223059 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
2223076 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
2223092 AATCGCAACG
1 AATCGCAACG
2223102 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:2223072 original size:33 final size:33
Alignment explanation
Indices: 2223026--2223118 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
2223016 GCGAAACCAA
*
2223026 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
2223059 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
2223092 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
2223119 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:2223083 original size:19 final size:19
Alignment explanation
Indices: 2222989--2223123 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
2222979 TAGTTTACTT
* *
2222989 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
2223009 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
2223028 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
2223047 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
2223061 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
2223080 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
2223094 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
2223113 TCGCAATGCGA
1 TCGCAACGCGA
2223124 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:2223141 original size:19 final size:19
Alignment explanation
Indices: 2223119--2223247 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
2223109 AAAATCGCAA
2223119 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
2223138 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
2223152 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
2223171 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
2223185 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
2223204 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
2223223 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
2223243 TGCGA
1 TGCGA
2223248 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:2223161 original size:33 final size:33
Alignment explanation
Indices: 2223119--2223210 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
2223109 AAAATCGCAA
2223119 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
2223152 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
2223185 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
2223211 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:2223450 original size:93 final size:93
Alignment explanation
Indices: 2223291--2223670 Score: 753
Period size: 93 Copynumber: 4.1 Consensus size: 93
2223281 TTGAATGGAT
2223291 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
2223356 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
2223384 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
2223449 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
2223477 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
2223541 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
2223569 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
2223634 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
2223662 AAATTTACT
1 AAATTTACT
2223671 AAGCAATCTA
Statistics
Matches: 286, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
92 92 0.32
93 194 0.68
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:2223604 original size:185 final size:186
Alignment explanation
Indices: 2223291--2223670 Score: 753
Period size: 185 Copynumber: 2.0 Consensus size: 186
2223281 TTGAATGGAT
2223291 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
2223356 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
2223421 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
131 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
2223477 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
2223541 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
2223606 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
131 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
2223662 AAATTTACT
1 AAATTTACT
2223671 AAGCAATCTA
Statistics
Matches: 194, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
185 155 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:2225396 original size:14 final size:14
Alignment explanation
Indices: 2225377--2225466 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
2225367 TTGAAATGAA
2225377 AATCGCAACGAGAG
1 AATCGCAACGAGAG
2225391 AATCGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
2225408 ACAATCGCAACGAGAG
1 --AATCGCAACGAGAG
*
2225424 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
2225443 AATCGCAACGAGAG
1 AATCGCAACGAGAG
2225457 AATCGCAACG
1 AATCGCAACG
2225467 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:2225414 original size:33 final size:33
Alignment explanation
Indices: 2225369--2225483 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
2225359 TCTTTTGGTT
2225369 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
2225402 GAGATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
2225435 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
2225468 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
2225484 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:2225415 original size:19 final size:18
Alignment explanation
Indices: 2225376--2225488 Score: 88
Period size: 19 Copynumber: 6.8 Consensus size: 18
2225366 GTTGAAATGA
2225376 AAATCGCAA--CGAGA-G
1 AAATCGCAACGCGAGATG
2225391 -AATCGCAACGCGAGATG
1 AAATCGCAACGCGAGATG
2225408 ACAATCGCAA--CGAGA-G
1 A-AATCGCAACGCGAGATG
*
2225424 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
2225441 AAAATCGCAA--CGAGA-G
1 -AAATCGCAACGCGAGATG
*
2225457 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
*
2225474 AAAATCGCAATGCGA
1 -AAATCGCAACGCGA
2225489 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:2225519 original size:14 final size:14
Alignment explanation
Indices: 2225500--2225554 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
2225490 TTTGGTTTCG
2225500 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
2225514 CGTTGCGATTTCCATTTCG
1 CGTTGCGA-TT-C---TCT
2225533 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
2225547 CGTTGCGA
1 CGTTGCGA
2225555 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:2225717 original size:33 final size:33
Alignment explanation
Indices: 2225675--2225745 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
2225665 AATACTAACT
2225675 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
* *
2225708 TGAAAATCGCAACGAGAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
2225741 TGAAA
1 TGAAA
2225746 TCTAAGTGAA
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:0.48, C:0.17, G:0.24, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
Found at i:2225978 original size:22 final size:22
Alignment explanation
Indices: 2225926--2225980 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
2225916 TGGTTGTGAG
**
2225926 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
2225948 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
2225970 GGATTTCTTCG
1 GGATTTCTTCG
2225981 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:2226151 original size:20 final size:20
Alignment explanation
Indices: 2226126--2226319 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
2226116 CTTTAAATAT
2226126 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
2226146 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
2226168 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
2226187 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
2226207 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
2226227 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
2226247 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
2226267 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
2226287 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
2226307 CGCGTTGCGATTT
1 CGCGTTGCGATTT
2226320 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:2226313 original size:60 final size:60
Alignment explanation
Indices: 2226126--2226319 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
2226116 CTTTAAATAT
**
2226126 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
2226187 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
2226247 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
2226307 CGCGTTGCGATTT
1 CGCGTTGCGATTT
2226320 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:2226336 original size:21 final size:20
Alignment explanation
Indices: 2226312--2226388 Score: 57
Period size: 21 Copynumber: 3.7 Consensus size: 20
2226302 ATATTCGCGT
2226312 TGCGATTTTGGAAAATCGCAA
1 TGCGATTTTGGAAAATCGC-A
* * **
2226333 TGCGAATTTGTACTATCGCA
1 TGCGATTTTGGAAAATCGCA
* *
2226353 TCGCGATTTT-CAAGAATCGCGT
1 T-GCGATTTTGGAA-AATCGC-A
2226375 TGCGATTTTGGAAA
1 TGCGATTTTGGAAA
2226389 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:2226399 original size:20 final size:20
Alignment explanation
Indices: 2226374--2226425 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
2226364 AAGAATCGCG
*
2226374 TTGCGATTTTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
2226394 TTGCGATTCTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
2226414 TTGCGATTCTGG
1 TTGCGATTCTGG
2226426 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:2228345 original size:3 final size:3
Alignment explanation
Indices: 2228337--2228437 Score: 166
Period size: 3 Copynumber: 33.7 Consensus size: 3
2228327 ATATTATAAA
* *
2228337 TAT TAT TAT TAT TGT TAT TAT AAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
2228385 TAT CAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
2228433 TAT TA
1 TAT TA
2228438 AATATATATT
Statistics
Matches: 90, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 90 1.00
ACGTcount: A:0.34, C:0.02, G:0.01, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:2228449 original size:11 final size:10
Alignment explanation
Indices: 2228433--2228473 Score: 55
Period size: 11 Copynumber: 3.8 Consensus size: 10
2228423 TTATTATTAT
2228433 TATTAAATATA
1 TATTAAATA-A
2228444 TATTAAATACA
1 TATTAAATA-A
2228455 TATATAAATAA
1 TAT-TAAATAA
2228466 TATTAAAT
1 TATTAAAT
2228474 TACAAAGCCC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
10 5 0.18
11 17 0.61
12 6 0.21
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (10 bp):
TATTAAATAA
Found at i:2228703 original size:18 final size:18
Alignment explanation
Indices: 2228680--2228719 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
2228670 GCCACACGGT
2228680 CGCCGTTGCTGCTCCAGC
1 CGCCGTTGCTGCTCCAGC
*
2228698 CGCCGTTGCTGCTTCAGC
1 CGCCGTTGCTGCTCCAGC
2228716 CGCC
1 CGCC
2228720 TCCGCCGTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.05, C:0.45, G:0.28, T:0.23
Consensus pattern (18 bp):
CGCCGTTGCTGCTCCAGC
Found at i:2241272 original size:1 final size:1
Alignment explanation
Indices: 2241268--2241312 Score: 54
Period size: 1 Copynumber: 45.0 Consensus size: 1
2241258 AAAAATGAAG
* * * *
2241268 AAAAAAAAACAAAAAAAAAAAAAAAAAAAAGAGAAAAAAGAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
2241313 GGAGGGTCAA
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
1 36 1.00
ACGTcount: A:0.91, C:0.02, G:0.07, T:0.00
Consensus pattern (1 bp):
A
Found at i:2241304 original size:11 final size:10
Alignment explanation
Indices: 2241254--2241312 Score: 59
Period size: 11 Copynumber: 5.8 Consensus size: 10
2241244 ATTATGCTTG
*
2241254 AAGAAAAAATG
1 AAGAAAAAA-A
2241265 AAGAAAAAAA
1 AAGAAAAAAA
*
2241275 AACAAAAAAA
1 AAGAAAAAAA
2241285 AA-AAAAAAA
1 AAGAAAAAAA
2241294 AA-AAGAGAAAA
1 AAGAA-A-AAAA
2241305 AAGAAAAA
1 AAGAAAAA
2241313 GGAGGGTCAA
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
9 11 0.26
10 14 0.33
11 16 0.37
12 2 0.05
ACGTcount: A:0.86, C:0.02, G:0.10, T:0.02
Consensus pattern (10 bp):
AAGAAAAAAA
Found at i:2243545 original size:113 final size:112
Alignment explanation
Indices: 2243347--2243985 Score: 906
Period size: 113 Copynumber: 5.6 Consensus size: 112
2243337 GATTCAAATC
* * *
2243347 CATCATTTGATGGATCAGCTTTTCCA-AAGAAAGTTCATAATAAGAAGAACTCATCTGAAGAATG
1 CATCATTTGATGGATCAGCATTTCCAGAA-AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGG
*
2243411 AAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACATGAATT
65 AAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGC-TGAATT
*
2243460 CATCAATTGATGGATCAGCATTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCATTTGATGGATCAGCATTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* * * *
2243525 AGAAAAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGCTCAAATC
66 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCT-GAATT
2243573 CATCATTTGATGGATCAG-ATTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGG
1 CATCATTTGATGGATCAGCA-TTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGG
*
2243637 AAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACATGAATT
65 AAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGC-TGAATT
* * * *
2243686 CGTCAATTGATGGATCATCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCATTTGATGGATCAGCATTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* *
2243751 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTGAATT
66 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTG-CTGAATT
* * ** *
2243799 CATCATTTGATGGATCAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAA
1 CATCATTTGATGGATCAGCATTTCCAGAAAAAGTTCATAATGAGAAGAA--C-TCATCTGAAGAA
* * * *
2243864 GGAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAACCTTTTGCTCAAATC
63 GGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCT-GAATT
* * * *
2243915 CATCACTTGATGGAGCAGCTTTTCCAG-AGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCATTTGATGGATCAGCATTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
2243979 AGAAGAA
66 AGAAGAA
2243986 TTTGTTCAAC
Statistics
Matches: 472, Mismatches: 44, Indels: 21
0.88 0.08 0.04
Matches are distributed among these distances:
112 24 0.05
113 348 0.74
114 3 0.01
115 20 0.04
116 77 0.16
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.28
Consensus pattern (112 bp):
CATCATTTGATGGATCAGCATTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTGAATT
Found at i:2244337 original size:3 final size:3
Alignment explanation
Indices: 2244329--2244423 Score: 154
Period size: 3 Copynumber: 31.7 Consensus size: 3
2244319 ATATTATAAA
* *
2244329 TAT TAT TAT TAT TGT TAT TAT AAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
2244377 CAT TAT TAT TAT TAT TAT TAT TAT TAT CAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
2244424 AATATATATT
Statistics
Matches: 84, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 84 1.00
ACGTcount: A:0.34, C:0.02, G:0.01, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:2244435 original size:11 final size:10
Alignment explanation
Indices: 2244419--2244459 Score: 55
Period size: 11 Copynumber: 3.8 Consensus size: 10
2244409 TTATTATTAT
2244419 TATTAAATATA
1 TATTAAATA-A
2244430 TATTAAATACA
1 TATTAAATA-A
2244441 TATATAAATAA
1 TAT-TAAATAA
2244452 TATTAAAT
1 TATTAAAT
2244460 TACAAAGCCC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
10 5 0.18
11 17 0.61
12 6 0.21
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (10 bp):
TATTAAATAA
Found at i:2247206 original size:37 final size:36
Alignment explanation
Indices: 2247140--2247217 Score: 102
Period size: 37 Copynumber: 2.1 Consensus size: 36
2247130 TAGTATTTAC
* *
2247140 TAAAACAAATAAAAATAATAAATATATAATACTAAG
1 TAAAACAAATAAAAATAAGAAATACATAATACTAAG
* *
2247176 TAAAACAAATAAAAAATAAGATATACATAATATTAAG
1 TAAAACAAAT-AAAAATAAGAAATACATAATACTAAG
*
2247213 GAAAA
1 TAAAA
2247218 AATAATAGAA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
36 10 0.28
37 26 0.72
ACGTcount: A:0.67, C:0.05, G:0.05, T:0.23
Consensus pattern (36 bp):
TAAAACAAATAAAAATAAGAAATACATAATACTAAG
Found at i:2247236 original size:17 final size:17
Alignment explanation
Indices: 2247216--2247271 Score: 51
Period size: 16 Copynumber: 3.2 Consensus size: 17
2247206 TATTAAGGAA
2247216 AAAATAATAGAAAAAAT
1 AAAATAATAGAAAAAAT
* *
2247233 AAAATGA-AGTAAAAAT
1 AAAATAATAGAAAAAAT
* *
2247249 ATAATATATATAAATAAAT
1 AAAATA-ATAGAAA-AAAT
2247268 AAAA
1 AAAA
2247272 ACAAAAATAG
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
16 12 0.41
17 7 0.24
18 3 0.10
19 7 0.24
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.23
Consensus pattern (17 bp):
AAAATAATAGAAAAAAT
Found at i:2247379 original size:25 final size:27
Alignment explanation
Indices: 2247332--2247381 Score: 68
Period size: 25 Copynumber: 1.9 Consensus size: 27
2247322 TTAATACATC
* *
2247332 TATATATATATATATAATGATATAAGA
1 TATATATATATATAAAATAATATAAGA
2247359 TATATATA-ATA-AAAATAATATAA
1 TATATATATATATAAAATAATATAA
2247382 TATAAATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 10 0.48
26 3 0.14
27 8 0.38
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (27 bp):
TATATATATATATAAAATAATATAAGA
Found at i:2247437 original size:15 final size:15
Alignment explanation
Indices: 2247400--2247437 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
2247390 AAAAAAGAGG
2247400 AATATAT-TAAATAA
1 AATATATATAAATAA
*
2247414 AA-ATATATAATTAA
1 AATATATATAAATAA
2247428 AATATATATA
1 AATATATATA
2247438 TATGGGATGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 4 0.19
14 10 0.48
15 7 0.33
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
AATATATATAAATAA
Found at i:2247438 original size:19 final size:19
Alignment explanation
Indices: 2247339--2247440 Score: 61
Period size: 19 Copynumber: 5.4 Consensus size: 19
2247329 ATCTATATAT
* *
2247339 ATATATATAA-TGATATAA
1 ATATATATAATTAAAATAA
*
2247357 GATATATATAATAAAAAT-A
1 -ATATATATAATTAAAATAA
*
2247376 ATATAATATAAATAAAA-AA
1 ATAT-ATATAATTAAAATAA
* *
2247395 AGAGGA-ATATATT-AAATAA
1 ATA-TATATA-ATTAAAATAA
* *
2247414 AAATATATAATTAAAATAT
1 ATATATATAATTAAAATAA
2247433 ATATATAT
1 ATATATAT
2247441 GGGATGAAAT
Statistics
Matches: 63, Mismatches: 12, Indels: 16
0.69 0.13 0.18
Matches are distributed among these distances:
18 14 0.22
19 46 0.73
20 3 0.05
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (19 bp):
ATATATATAATTAAAATAA
Found at i:2248647 original size:83 final size:84
Alignment explanation
Indices: 2248461--2248648 Score: 238
Period size: 83 Copynumber: 2.2 Consensus size: 84
2248451 GACAATTTTC
* * * * * *
2248461 GTTGACATATAACCCTTCTTGCCTTGAGCTATGCTGTAAATTTGATTTACCTCTGAGTTGAATGT
1 GTTGACAGATAACCCTTCTTGCCTTGAGATATGCTGCAAATTTGATGTA-CTCTGAGCTGAACGT
2248526 AATCGAACTCGAAGGTCTTT
65 AATCGAACTCGAAGGTCTTT
* * *
2248546 GATGATAGATAACCCTTCTTGCCTTGAGATATGCTGCAAATTATG-TGT-CT-TGGAGCTGAGCG
1 GTTGACAGATAACCCTTCTTGCCTTGAGATATGCTGCAAATT-TGATGTACTCT-GAGCTGAACG
*
2248608 TAGTCGAACTCGAAGGTCTTT
64 TAATCGAACTCGAAGGTCTTT
2248629 GTTGACAGATAACCCTTCTT
1 GTTGACAGATAACCCTTCTT
2248649 TGAGTTGGAT
Statistics
Matches: 89, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
82 1 0.01
83 47 0.53
85 39 0.44
86 2 0.02
ACGTcount: A:0.24, C:0.19, G:0.21, T:0.35
Consensus pattern (84 bp):
GTTGACAGATAACCCTTCTTGCCTTGAGATATGCTGCAAATTTGATGTACTCTGAGCTGAACGTA
ATCGAACTCGAAGGTCTTT
Found at i:2249121 original size:106 final size:102
Alignment explanation
Indices: 2248870--2249162 Score: 385
Period size: 100 Copynumber: 2.9 Consensus size: 102
2248860 TGGATCTGGA
* * * *
2248870 AATTGTTTGTTGACAGTCAGTCGCCCCTTCACTGTGAAGTTGAGCTTGTGTTGTCTCGAGTCTAA
1 AATTGTTTGTTGACAGTCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTTGAGTCCAA
*
2248935 TATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAT-G
66 TATCCTTCGTTGTGAAGTTGAAATTGACCCTGAATGG
* * * * *
2248971 AAAT-TTTGTTGACAATCAGCCTCCCCTTCG-TCGTGAAGTTGAGCTTGTGTTATCTTGGGTCCA
1 AATTGTTTGTTGACAGTCAGCCGCCCCTTCGCT-GTGAAGTTGAGCTTGTGTTGTCTTGAGTCCA
* *
2249034 ATATCCTTCGTTGGGAAGTTGAAATTGGCCCTGAAATTGGG
65 ATATCCTTCGTTGTGAAGTTGAAATTGACCCTG-AA-T-GG
* *
2249075 AAGTTGTTTGTTGATAGTCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTTGAGTCCA
1 AA-TTGTTTGTTGACAGTCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTTGAGTCCA
*
2249140 ATATCCTTCGCTGTGAAGTTGAA
65 ATATCCTTCGTTGTGAAGTTGAA
2249163 CTTGTGTTGT
Statistics
Matches: 163, Mismatches: 21, Indels: 11
0.84 0.11 0.06
Matches are distributed among these distances:
99 1 0.01
100 79 0.48
101 5 0.03
102 1 0.01
104 3 0.02
105 1 0.01
106 72 0.44
107 1 0.01
ACGTcount: A:0.20, C:0.19, G:0.25, T:0.36
Consensus pattern (102 bp):
AATTGTTTGTTGACAGTCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTTGAGTCCAA
TATCCTTCGTTGTGAAGTTGAAATTGACCCTGAATGG
Found at i:2249167 original size:43 final size:43
Alignment explanation
Indices: 2249101--2249205 Score: 165
Period size: 43 Copynumber: 2.4 Consensus size: 43
2249091 GTCAGCCGCC
* * *
2249101 CCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTTGAGTCCAATAT
1 CCTTCGCTGTGAAGTTGAACTTGTGCTGTCTCGAATCCAATAT
*
2249144 CCTTCGCTGTGAAGTTGAACTTGTGTTGTCTCGAATCCAATAT
1 CCTTCGCTGTGAAGTTGAACTTGTGCTGTCTCGAATCCAATAT
*
2249187 CCTTCACTGTGAAGTTGAA
1 CCTTCGCTGTGAAGTTGAA
2249206 ATTGGTTCTG
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 57 1.00
ACGTcount: A:0.20, C:0.21, G:0.23, T:0.36
Consensus pattern (43 bp):
CCTTCGCTGTGAAGTTGAACTTGTGCTGTCTCGAATCCAATAT
Found at i:2249265 original size:149 final size:149
Alignment explanation
Indices: 2248995--2249285 Score: 377
Period size: 149 Copynumber: 2.0 Consensus size: 149
2248985 ATCAGCCTCC
* * ** **
2248995 CCTTCGTCGTGAAGTTGAGCTTGTGTTATCTTGGGTCCAATATCCTTCGTTGGGAAGTTGAAATT
1 CCTTCGTCGTGAAGTTGAACTTGTGTTATCTCGAATCCAATATCCTTCACTGGGAAGTTGAAATT
* * * ** * *
2249060 GGCCCTGAAATTGGGAAGTTGTTTGTTGATAGTCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGT
66 GGCCCTGAAACTGGGAAATTGTTTGTTGACAACCAGCCGCCCCTTCGATGTGAAGTTGAACTTGT
*
2249125 GCTGTCTTGAGTCCAATAT
131 GCTGTCTCGAGTCCAATAT
* *
2249144 CCTTCG-CTGTGAAGTTGAACTTGTGTTGTCTCGAATCCAATATCCTTCACTGTGAAGTTGAAAT
1 CCTTCGTC-GTGAAGTTGAACTTGTGTTATCTCGAATCCAATATCCTTCACTGGGAAGTTGAAAT
** * *
2249208 TGGTTCTGAAACTGGGAAATTGTTTGTTGACAACCAGTCGTCCCTTCGATGTGAAGTTGAACTTG
65 TGGCCCTGAAACTGGGAAATTGTTTGTTGACAACCAGCCGCCCCTTCGATGTGAAGTTGAACTTG
*
2249273 TGTTGTCTCGAGT
130 TGCTGTCTCGAGT
2249286 GACACGATAT
Statistics
Matches: 120, Mismatches: 21, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
148 1 0.01
149 119 0.99
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.36
Consensus pattern (149 bp):
CCTTCGTCGTGAAGTTGAACTTGTGTTATCTCGAATCCAATATCCTTCACTGGGAAGTTGAAATT
GGCCCTGAAACTGGGAAATTGTTTGTTGACAACCAGCCGCCCCTTCGATGTGAAGTTGAACTTGT
GCTGTCTCGAGTCCAATAT
Found at i:2250065 original size:67 final size:65
Alignment explanation
Indices: 2249958--2250278 Score: 238
Period size: 65 Copynumber: 4.8 Consensus size: 65
2249948 AAGATATCTG
* * * **
2249958 TTGTTTCATGA-AAACAGTCTCAAGGGAAACAAAAATTTGTTTTAAGAGAAATAAATTTGAAGAT
1 TTGTTTCAAGAGAAACTGTCTCAAGGGAGAC-AAAATTTGTTTTAAGAGAAATAAATTCAAAGA-
2250022 TT
64 TT
* *
2250024 TGTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAGGGGAAATAAATTCAAAGAT
1 T-TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAAGAGAAATAAATTCAAAGAT
2250089 T
65 T
* * * * *
2250090 TTGTTTCAAGGGAAACTGTCTCAAGAGAGACGAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAG
1 TTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAAGAGAAA-----T--A-A-AT
* *
2250155 ACAAA-ACT
57 TCAAAGATT
* * * * * * *
2250163 TAGTTCCAAAAGAAACTGTCTCAAGGGAGACGAAATTTGTTTCAA-ATAAA-ACATATTCAAATA
1 TTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAAGAGAAATA-A-ATTCAAA-G
2250226 ATT
63 ATT
* * * * *
2250229 TT-TTTTAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAA
1 TTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAAGAGAAA
2250279 CTGTCTCAAG
Statistics
Matches: 205, Mismatches: 36, Indels: 28
0.76 0.13 0.10
Matches are distributed among these distances:
64 7 0.03
65 80 0.39
66 10 0.05
67 37 0.18
68 17 0.08
70 1 0.00
72 5 0.02
73 43 0.21
74 5 0.02
ACGTcount: A:0.40, C:0.11, G:0.19, T:0.29
Consensus pattern (65 bp):
TTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAAGAGAAATAAATTCAAAGATT
Found at i:2250141 original size:36 final size:36
Alignment explanation
Indices: 2250089--2250503 Score: 279
Period size: 36 Copynumber: 12.0 Consensus size: 36
2250079 ATTCAAAGAT
*
2250089 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACGAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
*
2250125 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
* * ** * *
2250161 CTTAGTTCCAAAAGAAACTGTCTCAAGGGAGACGAAA
1 -TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
*** * *
2250198 TTTGTTTCAAATAAAACATAT-TC-----A-A-ATAA
1 TTTGTTTCAAGGGAAAC-TGTCTCAAGAGAGACAAAA
* *
2250227 TTTTTTTTAAGGGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
*
2250263 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACGAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
* * * *
2250299 TTTATTTCAAGGGAAA-TGTTTTC-A-A-TG-----T
1 TTTGTTTCAAGGGAAACTG-TCTCAAGAGAGACAAAA
* *
2250327 TTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAA
1 TT-TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
* *
2250364 TTTCGTTTCAAGGGAAACTATCTCAAGAGAGGCAAAA
1 TTT-GTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
* * *
2250401 TTTGTTTCAAGGGAAA-TGTTTTC-A-A-TG-----T
1 TTTGTTTCAAGGGAAACTG-TCTCAAGAGAGACAAAA
* * *
2250429 TTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAATAT
1 TT-TGTTTCAAGGGAAACTGTCTCAAGAGAGACAA-AA
* * *
2250467 TTTGTTTCAAGGGAAACTATCTCAAGCGAGATAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
2250503 T
1 T
2250504 CTTCTTTTTA
Statistics
Matches: 294, Mismatches: 51, Indels: 68
0.71 0.12 0.16
Matches are distributed among these distances:
28 6 0.02
29 47 0.16
30 7 0.02
31 1 0.00
32 2 0.01
33 2 0.01
34 3 0.01
35 6 0.02
36 122 0.41
37 95 0.32
38 3 0.01
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.29
Consensus pattern (36 bp):
TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
Found at i:2250199 original size:138 final size:138
Alignment explanation
Indices: 2250035--2250294 Score: 396
Period size: 138 Copynumber: 1.9 Consensus size: 138
2250025 GTGTTTCAAG
* ** * * *
2250035 AGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAGGGGAAATAAATTCAAA-GATTTTGTTTCAA
1 AGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAAGAAAACAAATTCAAATAATTTT-TTTCAA
*
2250099 GGGAAACTGTCTCAAGAGAGACGAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTT
65 GGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTT
2250164 AGTTCCAAA
130 AGTTCCAAA
* * * *
2250173 AGAAACTGTCTCAAGGGAGACGAAATTTGTTTCAAATAAAACATATTCAAATAATTTTTTTTAAG
1 AGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAAGAAAACAAATTCAAATAATTTTTTTCAAG
*
2250238 GGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGAC
66 GGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGAC
2250295 GAAATTTATT
Statistics
Matches: 109, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
138 104 0.95
139 5 0.05
ACGTcount: A:0.40, C:0.13, G:0.20, T:0.27
Consensus pattern (138 bp):
AGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAAGAAAACAAATTCAAATAATTTTTTTCAAG
GGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTA
GTTCCAAA
Found at i:2250381 original size:37 final size:37
Alignment explanation
Indices: 2250330--2250503 Score: 145
Period size: 37 Copynumber: 4.9 Consensus size: 37
2250320 TCAATGTTTA
*
2250330 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
1 TGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATTT
* * * *
2250367 CGTTTCAAGGGAAACTATCTCAAGAGAGGCAAAA-TT
1 TGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATTT
* *
2250403 TGTTTCAAGGGAAA-TGTTTTCAA---TG------TTT
1 TGTTTCAAGGGAAACTG-TCTCAAGGGAGACAAAATTT
* *
2250431 ATGTTTCAAGAGAAACTGTCTCAAGGGAGACAATATTT
1 -TGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATTT
* * *
2250469 TGTTTCAAGGGAAACTATCTCAAGCGAGATAAAAT
1 TGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAAT
2250504 CTTCTTTTTA
Statistics
Matches: 107, Mismatches: 17, Indels: 26
0.71 0.11 0.17
Matches are distributed among these distances:
28 2 0.02
29 18 0.17
30 2 0.02
32 1 0.01
33 1 0.01
35 1 0.01
36 20 0.19
37 59 0.55
38 3 0.03
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.29
Consensus pattern (37 bp):
TGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATTT
Found at i:2250390 original size:203 final size:204
Alignment explanation
Indices: 2250127--2250497 Score: 496
Period size: 203 Copynumber: 1.8 Consensus size: 204
2250117 AGACGAAATT
* *
2250127 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTGTCTCAAGGGAG
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTATCTCAAGAGAG
* * * *
2250192 ACGAAATTTGTTTCAAATAAAACATATTCAAATAATTT-T-TTTTAAGGGAAACTGTCTCAAGAG
66 ACAAAATTTGTTTCAAAGAAAACATATTC-AAT-ATTTATGTTTCAAGAGAAACTGTCTCAAGAG
*
2250255 AGACAA-AATTTGTTTCAAGGGAAACTGTCTCAAGAGAGACGAAATTTATTTCAAGGGAAATGTT
129 AGACAATAATTTGTTTCAAGGGAAACTATCTCAAGAGAGACGAAATTTATTTCAAGGGAAATGTT
2250319 TTCAATGTTTA
194 TTCAATGTTTA
* * * * **
2250330 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTCGTTTCAAGGGAAACTATCTCAAGAGAG
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTATCTCAAGAGAG
* * * ** * * *
2250395 GCAAAATTTGTTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAG
66 ACAAAATTTGTTTCAAAGAAAACATATTCAATATTTATGTTTCAAGAGAAACTGTCTCAAGAGAG
* *
2250460 ACAATATTTTGTTTCAAGGGAAACTATCTCAAGCGAGA
131 ACAATAATTTGTTTCAAGGGAAACTATCTCAAGAGAGA
2250498 TAAAATCTTC
Statistics
Matches: 142, Mismatches: 23, Indels: 5
0.84 0.14 0.03
Matches are distributed among these distances:
201 3 0.02
202 4 0.03
203 105 0.74
204 30 0.21
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.29
Consensus pattern (204 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTATCTCAAGAGAG
ACAAAATTTGTTTCAAAGAAAACATATTCAATATTTATGTTTCAAGAGAAACTGTCTCAAGAGAG
ACAATAATTTGTTTCAAGGGAAACTATCTCAAGAGAGACGAAATTTATTTCAAGGGAAATGTTTT
CAATGTTTA
Found at i:2250503 original size:102 final size:102
Alignment explanation
Indices: 2250127--2250503 Score: 472
Period size: 102 Copynumber: 3.7 Consensus size: 102
2250117 AGACGAAATT
* * * ** * *
2250127 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTGTCTCAAGGGAG
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAG
* *** ** * *
2250192 ACGAAATTTGTTTCAAATAAAACATATTCAAATAATTT-
66 ACAAAATTTGTTTCAAGGGAAATGTTTTC-AAT-GTTTA
* * *
2250230 T-TTTTAAGGGAAACTGTCTCAAGAGAGACAAAA-TTTGTTTCAAGGGAAACTGTCTCAAGAGAG
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAG
* *
2250293 ACGAAATTTATTTCAAGGGAAATGTTTTCAATGTTTA
66 ACAAAATTTGTTTCAAGGGAAATGTTTTCAATGTTTA
* *
2250330 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTCGTTTCAAGGGAAACTATCTCAAGAGAG
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAG
*
2250395 GCAAAATTTGTTTCAAGGGAAATGTTTTCAATGTTTA
66 ACAAAATTTGTTTCAAGGGAAATGTTTTCAATGTTTA
* * *
2250432 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAATATTTTGTTTCAAGGGAAACTATCTCAAGCGAG
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAG
*
2250497 ATAAAAT
66 ACAAAAT
2250504 CTTCTTTTTA
Statistics
Matches: 243, Mismatches: 28, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
99 3 0.01
100 4 0.02
101 76 0.31
102 159 0.65
103 1 0.00
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.29
Consensus pattern (102 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAG
ACAAAATTTGTTTCAAGGGAAATGTTTTCAATGTTTA
Found at i:2252069 original size:69 final size:69
Alignment explanation
Indices: 2251954--2252091 Score: 233
Period size: 69 Copynumber: 2.0 Consensus size: 69
2251944 TCTCTATCTC
*
2251954 TTGATACTCTATGATCTTCGAGTGGAGTGATTCAGTGATTCAGAAATGATTGTGCTTGATCAATC
1 TTGATACTCTATGATCTTCGAGTGAAGTGATTCAGTGATTCAGAAATGATTGTGCTTGATCAATC
2252019 TCAT
66 TCAT
* *
2252023 TTGATGCTCTATGATCTTCGAGTGAAGT-AGTTCAGTGATTCGGAAATGATTGTGCTTGATCAAT
1 TTGATACTCTATGATCTTCGAGTGAAGTGA-TTCAGTGATTCAGAAATGATTGTGCTTGATCAAT
2252087 CTCAT
65 CTCAT
2252092 AGTTTGAATC
Statistics
Matches: 65, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
68 1 0.02
69 64 0.98
ACGTcount: A:0.25, C:0.14, G:0.22, T:0.38
Consensus pattern (69 bp):
TTGATACTCTATGATCTTCGAGTGAAGTGATTCAGTGATTCAGAAATGATTGTGCTTGATCAATC
TCAT
Found at i:2252193 original size:14 final size:14
Alignment explanation
Indices: 2252164--2252204 Score: 68
Period size: 14 Copynumber: 3.1 Consensus size: 14
2252154 TTTTCTTCAA
2252164 TTTTC-CTTTG-TT
1 TTTTCTCTTTGTTT
2252176 TTTTCTCTTTGTTT
1 TTTTCTCTTTGTTT
2252190 TTTTCTCTTTGTTT
1 TTTTCTCTTTGTTT
2252204 T
1 T
2252205 CTCTTTTTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
12 5 0.19
13 5 0.19
14 17 0.63
ACGTcount: A:0.00, C:0.15, G:0.07, T:0.78
Consensus pattern (14 bp):
TTTTCTCTTTGTTT
Found at i:2252215 original size:9 final size:9
Alignment explanation
Indices: 2252188--2252221 Score: 50
Period size: 9 Copynumber: 3.6 Consensus size: 9
2252178 TTCTCTTTGT
2252188 TTTTTTCTC
1 TTTTTTCTC
2252197 TTTGTTTTCTC
1 -TT-TTTTCTC
2252208 TTTTTTCTC
1 TTTTTTCTC
2252217 TTTTT
1 TTTTT
2252222 GTTCTGATTG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 12 0.52
10 4 0.17
11 7 0.30
ACGTcount: A:0.00, C:0.18, G:0.03, T:0.79
Consensus pattern (9 bp):
TTTTTTCTC
Found at i:2252226 original size:11 final size:10
Alignment explanation
Indices: 2252187--2252226 Score: 55
Period size: 11 Copynumber: 3.9 Consensus size: 10
2252177 TTTCTCTTTG
2252187 TTTTTTTCTC
1 TTTTTTTCTC
2252197 TTTGTTTTCTC
1 TTT-TTTTCTC
2252208 -TTTTTTCTC
1 TTTTTTTCTC
2252217 TTTTTGTTCT
1 TTTTT-TTCT
2252227 GATTGAATCT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
9 7 0.26
10 9 0.33
11 11 0.41
ACGTcount: A:0.00, C:0.17, G:0.05, T:0.78
Consensus pattern (10 bp):
TTTTTTTCTC
Found at i:2259615 original size:18 final size:19
Alignment explanation
Indices: 2259574--2259615 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
2259564 CCCTCTTTAA
*
2259574 AGGGGAACCGATTCCCCCT
1 AGGGGAACCGATACCCCCT
*
2259593 AGGGGAATCGATACCCCCT
1 AGGGGAACCGATACCCCCT
2259612 -GGGG
1 AGGGG
2259616 TTCTAGATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 4 0.19
19 17 0.81
ACGTcount: A:0.21, C:0.31, G:0.33, T:0.14
Consensus pattern (19 bp):
AGGGGAACCGATACCCCCT
Found at i:2265169 original size:22 final size:22
Alignment explanation
Indices: 2265123--2265170 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
2265113 TTAATACATC
*
2265123 TATACATATATATATATAATGA
1 TATACATATATATATATAATAA
*
2265145 TATAGATATATATA-ATAAATAA
1 TATACATATATATATAT-AATAA
2265167 TATA
1 TATA
2265171 ATAAAATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 2 0.09
22 21 0.91
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.40
Consensus pattern (22 bp):
TATACATATATATATATAATAA
Found at i:2265927 original size:131 final size:131
Alignment explanation
Indices: 2265693--2265955 Score: 526
Period size: 131 Copynumber: 2.0 Consensus size: 131
2265683 TGGATGTTGC
2265693 TTTAAAAAATATGGTGGTAGAAGAGTCCTCTTATGAGATGATCTCTTATTAGTTCTATCTTTTAA
1 TTTAAAAAATATGGTGGTAGAAGAGTCCTCTTATGAGATGATCTCTTATTAGTTCTATCTTTTAA
2265758 GAAAATGAGTGTCTACAAATATATAGATGCCTGCATCCCACTTTCTGTCAACTAAAACCTGGGTG
66 GAAAATGAGTGTCTACAAATATATAGATGCCTGCATCCCACTTTCTGTCAACTAAAACCTGGGTG
2265823 A
131 A
2265824 TTTAAAAAATATGGTGGTAGAAGAGTCCTCTTATGAGATGATCTCTTATTAGTTCTATCTTTTAA
1 TTTAAAAAATATGGTGGTAGAAGAGTCCTCTTATGAGATGATCTCTTATTAGTTCTATCTTTTAA
2265889 GAAAATGAGTGTCTACAAATATATAGATGCCTGCATCCCACTTTCTGTCAACTAAAACCTGGGTG
66 GAAAATGAGTGTCTACAAATATATAGATGCCTGCATCCCACTTTCTGTCAACTAAAACCTGGGTG
2265954 A
131 A
2265955 T
1 T
2265956 ATTTTCTCGA
Statistics
Matches: 132, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
131 132 1.00
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.35
Consensus pattern (131 bp):
TTTAAAAAATATGGTGGTAGAAGAGTCCTCTTATGAGATGATCTCTTATTAGTTCTATCTTTTAA
GAAAATGAGTGTCTACAAATATATAGATGCCTGCATCCCACTTTCTGTCAACTAAAACCTGGGTG
A
Found at i:2268755 original size:4 final size:4
Alignment explanation
Indices: 2268746--2269821 Score: 1429
Period size: 4 Copynumber: 269.8 Consensus size: 4
2268736 TATTTTTACC
2268746 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
* *
2268794 GTA- -TAT GTAT GTAT GTAT GCAT GTAT GTAT GCAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
* * * *
2268840 GTAT GTAT GTAT GCAT GTAT GTAT GCAT GTAT GCAT GTAT GTAT GCAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
* * * * *
2268888 GTAT GCAT GTAT GTAT GCAT GTAT GCAT GTAT GCAT GTAT GTAT GCAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
2268936 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
2268984 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
2269032 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
*
2269080 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAC
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
* * * * * * * *
2269128 GTAC GTAC GTAC GTAC GTAC GTAT GTAT GTAT GTAT GTAC GTAC GTAC
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
* *
2269176 GTAC GTAC GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
* * * * * * * * *
2269224 GTAC GTAC GTAC GTAC GTAC GTAC GTAT GTAT GTAT GTAC GTAC GTAC
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
* *
2269272 GTAC GTAC GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
2269320 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
* * * *
2269368 GTAT GTAT GTAC GTA- GTAT GTAT GTAT GTAT GTAC GTAC GTAC GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
2269415 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
* *
2269463 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAC GTAC GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
* * * * *
2269511 GTAT GTAT GTAT GTAT ATAC GTAT GTAT GTAT GTAC GTAC GTAC GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
2269559 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
* * * * *
2269607 GTAT GTAT GTAC GTAC GTAT GTAT GTAT GTAT GTAT ATAC GTAC GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
* * * * * * * * * *
2269655 GTAG GTAC GTAG GTAC GTAC GTAC GTAT GTAT GTAC ATAC GTAT GTAG
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
* * * * * * * * * *
2269703 GTAC GTAG GTAC GTAC ATAC GTAT GTAT GTAC GTAT GTAT GTAC ATAC
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
* * * * * *
2269751 GTAT GTAT GTAC GTAT GTAT GTAT ATAT ATAT GTAC GTAT GTAC GTAC
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
* * *
2269799 GTAC GTAC GTAT GTAC GTAT GTA
1 GTAT GTAT GTAT GTAT GTAT GTA
2269822 CGTCTATAGG
Statistics
Matches: 990, Mismatches: 79, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
2 2 0.00
3 3 0.00
4 985 0.99
ACGTcount: A:0.26, C:0.06, G:0.25, T:0.43
Consensus pattern (4 bp):
GTAT
Found at i:2271791 original size:14 final size:14
Alignment explanation
Indices: 2271772--2271804 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
2271762 TGACCTCCTT
2271772 GACATAAGACCATA
1 GACATAAGACCATA
2271786 GACATAAGACCATA
1 GACATAAGACCATA
2271800 GACAT
1 GACAT
2271805 TTAGATTCGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.48, C:0.21, G:0.15, T:0.15
Consensus pattern (14 bp):
GACATAAGACCATA
Found at i:2279375 original size:2 final size:2
Alignment explanation
Indices: 2279370--2279425 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
2279360 ACACACACAC
2279370 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
2279412 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
2279426 GAATTTTGCA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2279549 original size:29 final size:30
Alignment explanation
Indices: 2279517--2279577 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 30
2279507 GTATTGAGTA
*
2279517 TTATAAGA-TTAAAATATT-ATTTTATTATT
1 TTATAA-ATTTAAAATATTAATTTTATCATT
*
2279546 TTATAAATTTAAAATTTTAATTTTATCATT
1 TTATAAATTTAAAATATTAATTTTATCATT
2279576 TT
1 TT
2279578 TGGGACAAGC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 1 0.04
29 15 0.54
30 12 0.43
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (30 bp):
TTATAAATTTAAAATATTAATTTTATCATT
Found at i:2286315 original size:21 final size:21
Alignment explanation
Indices: 2286256--2286315 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 21
2286246 TGTCTGAGTT
2286256 ACCCGCGACGGCCGCAATAGC
1 ACCCGCGACGGCCGCAATAGC
** * * *
2286277 GTCCGTGATGGCCACAATAGC
1 ACCCGCGACGGCCGCAATAGC
*
2286298 ACCCGCGACGGACGCAAT
1 ACCCGCGACGGCCGCAAT
2286316 CACGATAAAT
Statistics
Matches: 28, Mismatches: 11, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.25, C:0.37, G:0.28, T:0.10
Consensus pattern (21 bp):
ACCCGCGACGGCCGCAATAGC
Found at i:2287994 original size:29 final size:29
Alignment explanation
Indices: 2287952--2288011 Score: 104
Period size: 29 Copynumber: 2.1 Consensus size: 29
2287942 TTGTGTTGCG
2287952 AGTTTTAAAAGTT-GGAGGACCTAAATGCA
1 AGTTTTAAAAGTTGGGA-GACCTAAATGCA
2287981 AGTTTTAAAAGTTGGGAGACCTAAATGCA
1 AGTTTTAAAAGTTGGGAGACCTAAATGCA
2288010 AG
1 AG
2288012 CACCTGAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 27 0.90
30 3 0.10
ACGTcount: A:0.38, C:0.10, G:0.25, T:0.27
Consensus pattern (29 bp):
AGTTTTAAAAGTTGGGAGACCTAAATGCA
Found at i:2288961 original size:17 final size:17
Alignment explanation
Indices: 2288939--2288979 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
2288929 TCCGTATCCG
2288939 ATCCGAAAAAATCAGAT
1 ATCCGAAAAAATCAGAT
* *
2288956 ATCCG-AAAATTCGGAT
1 ATCCGAAAAAATCAGAT
2288972 ATCCGAAA
1 ATCCGAAA
2288980 TTTTGGATCG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
16 14 0.67
17 7 0.33
ACGTcount: A:0.46, C:0.20, G:0.15, T:0.20
Consensus pattern (17 bp):
ATCCGAAAAAATCAGAT
Found at i:2289008 original size:21 final size:21
Alignment explanation
Indices: 2288966--2289009 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
2288956 ATCCGAAAAT
**
2288966 TCGGATATCCGAAATTTTGGA
1 TCGGATATCCGAAATTACGGA
2288987 TCGGATATCCG-AATATACGGA
1 TCGGATATCCGAAAT-TACGGA
2289008 TC
1 TC
2289010 CGAATTCGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 3 0.15
21 17 0.85
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.30
Consensus pattern (21 bp):
TCGGATATCCGAAATTACGGA
Found at i:2289224 original size:26 final size:26
Alignment explanation
Indices: 2289195--2289244 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
2289185 AAAAGATGAC
*
2289195 ATATTCTGTAAACAAACAATAAAAAT
1 ATATTCAGTAAACAAACAATAAAAAT
*
2289221 ATATTCAGTAAACAAGCAATAAAA
1 ATATTCAGTAAACAAACAATAAAA
2289245 TAACCGATAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.58, C:0.12, G:0.06, T:0.24
Consensus pattern (26 bp):
ATATTCAGTAAACAAACAATAAAAAT
Found at i:2292584 original size:16 final size:15
Alignment explanation
Indices: 2292512--2292695 Score: 65
Period size: 17 Copynumber: 11.5 Consensus size: 15
2292502 TAAATCAAAG
*
2292512 AAAAATATAAAAAT-
1 AAAAAAATAAAAATA
*
2292526 -AAGAAATAAGAAATA
1 AAAAAAATAA-AAATA
* * *
2292541 ATAATAATAATAATA
1 AAAAAAATAAAAATA
2292556 AATCAAAAGATAAAACATA
1 AA--AAAA-ATAAAA-ATA
2292575 AAAAAAAT--AAATA
1 AAAAAAATAAAAATA
*
2292588 AAATAAATAAAAAATGA
1 AAAAAAAT-AAAAAT-A
*
2292605 ATAAAATAAAAAATGAATA
1 A-AAAA-AATAAA--AATA
* *
2292624 AAAAAGATAAATCAATG
1 AAAAAAATAAA--AATA
*
2292641 AAAAAAAT-GAAATA
1 AAAAAAATAAAAATA
2292655 AAATAAAA-AAATAATA
1 AAA-AAAATAAA-AATA
*
2292671 ATAAAAAATATTAAATA
1 A-AAAAAATA-AAAATA
2292688 AAAGAAAA
1 AAA-AAAA
2292696 AATGTTAGAT
Statistics
Matches: 127, Mismatches: 21, Indels: 41
0.67 0.11 0.22
Matches are distributed among these distances:
13 17 0.13
14 12 0.09
15 10 0.08
16 24 0.19
17 36 0.28
18 16 0.13
19 9 0.07
20 3 0.02
ACGTcount: A:0.74, C:0.02, G:0.05, T:0.19
Consensus pattern (15 bp):
AAAAAAATAAAAATA
Found at i:2292584 original size:37 final size:38
Alignment explanation
Indices: 2292546--2292695 Score: 109
Period size: 36 Copynumber: 3.9 Consensus size: 38
2292536 AAATAATAAT
* *
2292546 AATAATAATAAATCAAAAGAT-AA-AACATAAAAAAAATA
1 AATAA-AATAAAT-AAAAAATGAATAAAATAAAAAAAATA
*
2292584 AATAAAATAAATAAAAAATGAATAAAAT--AAAAAATG
1 AATAAAATAAATAAAAAATGAATAAAATAAAAAAAATA
* * *
2292620 AATAAAA-AAGATAAATCAATGAAAAAAATGAAATAAAATA
1 AATAAAATAA-ATAAA-AAATGAATAAAAT-AAAAAAAATA
*
2292660 AA-AAAATAATAATAAAAAAT--ATTAAATAAAAGAAAA
1 AATAAAAT-A-AATAAAAAATGAATAAAATAAAA-AAAA
2292696 AATGTTAGAT
Statistics
Matches: 90, Mismatches: 11, Indels: 22
0.73 0.09 0.18
Matches are distributed among these distances:
35 2 0.02
36 25 0.28
37 23 0.26
38 18 0.20
39 4 0.04
40 11 0.12
41 6 0.07
42 1 0.01
ACGTcount: A:0.75, C:0.02, G:0.05, T:0.19
Consensus pattern (38 bp):
AATAAAATAAATAAAAAATGAATAAAATAAAAAAAATA
Found at i:2292590 original size:20 final size:20
Alignment explanation
Indices: 2292565--2292680 Score: 76
Period size: 22 Copynumber: 5.5 Consensus size: 20
2292555 AAATCAAAAG
*
2292565 ATAAAACATAAAAAAAATAA
1 ATAAAAAATAAAAAAAATAA
2292585 ATAAAATAAATAAAAAATGAATAAA
1 AT-AAA-AAATAAAAAA--AAT-AA
* *
2292610 ATAAAAAATGAATAAAAA-AG
1 ATAAAAAAT-AAAAAAAATAA
* *
2292630 ATAAATCAATGAAAAAAATGAA
1 ATAAA-AAATAAAAAAAAT-AA
*
2292652 ATAAAATAA-AAAAATAAT-A
1 ATAAAA-AATAAAAAAAATAA
2292671 ATAAAAAATA
1 ATAAAAAATA
2292681 TTAAATAAAA
Statistics
Matches: 75, Mismatches: 10, Indels: 23
0.69 0.09 0.21
Matches are distributed among these distances:
18 2 0.03
19 8 0.11
20 14 0.19
21 13 0.17
22 19 0.25
23 4 0.05
24 11 0.15
25 4 0.05
ACGTcount: A:0.76, C:0.02, G:0.04, T:0.18
Consensus pattern (20 bp):
ATAAAAAATAAAAAAAATAA
Found at i:2292592 original size:52 final size:52
Alignment explanation
Indices: 2292485--2292609 Score: 132
Period size: 52 Copynumber: 2.4 Consensus size: 52
2292475 AGATAAAAAC
* * * * *
2292485 AATAAATAAATATTAAATAAATCAAAGAAAAATATAAAAATAAGAAATAAGA
1 AATAAATAAAAAATGAATAAATCAAAGAAAAACATAAAAAAAAGAAATAAGA
*
2292537 AAT-AATAATAATAAT-AATAAATCAAAAGATAAAACATAAAAAAAATAAAT-A-A
1 AATAAATAA-AA-AATGAATAAATC-AAAGA-AAAACATAAAAAAAAGAAATAAGA
2292589 AATAAATAAAAAATGAATAAA
1 AATAAATAAAAAATGAATAAA
2292610 ATAAAAAATG
Statistics
Matches: 62, Mismatches: 5, Indels: 12
0.78 0.06 0.15
Matches are distributed among these distances:
51 8 0.13
52 24 0.39
53 13 0.21
54 17 0.27
ACGTcount: A:0.73, C:0.02, G:0.04, T:0.21
Consensus pattern (52 bp):
AATAAATAAAAAATGAATAAATCAAAGAAAAACATAAAAAAAAGAAATAAGA
Found at i:2292627 original size:47 final size:45
Alignment explanation
Indices: 2292480--2292699 Score: 121
Period size: 47 Copynumber: 4.6 Consensus size: 45
2292470 ATGTTAGATA
*
2292480 AAAACAATAAATAAATATTAAATAAATCAAA-G-AAAAATATAAAAATAAG
1 AAAA-AATAAATAAA-A-TAAATAAA--AAATGAAAAAATA-AAAAATAAT
* * * * * *
2292529 AAATAAGAAATAATAATAATAATAATAAATCAAAAGATAAAACATAA-
1 AAAAAATAAATAA-AAT-A-AATAAAAAATGAAAAAATAAAAAATAAT
2292576 AAAAAATAAATAAAATAAATAAAAAATGAATAAAATAAAAAATGAAT
1 AAAAAATAAATAAAATAAATAAAAAATGAA-AAAATAAAAAAT-AAT
* *
2292623 -AAAAA-AGAT-AAATCAATGAAAAAAATGAAATAAAATAAAAAAATAAT
1 AAAAAATAAATAAAATAAAT--AAAAAATG-AA-AAAAT-AAAAAATAAT
* *
2292670 AATAAAA-AATATTAAATAAAAGAAAAAATG
1 AA-AAAATAA-ATAAAAT-AAATAAAAAATG
2292700 TTAGATTCTA
Statistics
Matches: 137, Mismatches: 17, Indels: 33
0.73 0.09 0.18
Matches are distributed among these distances:
44 18 0.13
45 14 0.10
46 18 0.13
47 26 0.19
48 25 0.18
49 20 0.15
50 10 0.07
51 4 0.03
52 2 0.01
ACGTcount: A:0.73, C:0.02, G:0.05, T:0.20
Consensus pattern (45 bp):
AAAAAATAAATAAAATAAATAAAAAATGAAAAAATAAAAAATAAT
Found at i:2292690 original size:13 final size:13
Alignment explanation
Indices: 2292513--2292690 Score: 69
Period size: 14 Copynumber: 12.7 Consensus size: 13
2292503 AAATCAAAGA
*
2292513 AAAATATAAAAAT
1 AAAATAAAAAAAT
2292526 AAGAAATAAGAAATAAT
1 -A-AAATAA-AAA-AAT
2292543 AATAATAATAATAAAT
1 AA-AATAA-AA-AAAT
* *
2292559 CAAAAGATAAAACAT
1 -AAAATA-AAAAAAT
2292574 AAAA-AAAATAAAT
1 AAAATAAAA-AAAT
2292587 AAAATAAATAAAA-
1 AAAATAAA-AAAAT
*
2292600 AATGAATAAAATAA-
1 AA--AATAAAAAAAT
*
2292614 AAAATGAATAAAA-
1 AAAAT-AAAAAAAT
* **
2292627 AAGATAAATCAAT
1 AAAATAAAAAAAT
*
2292640 GAAAA-AAATGAAAT
1 -AAAATAAA-AAAAT
2292654 AAAATAAAAAAAT
1 AAAATAAAAAAAT
2292667 AATAATAAAAAATAT
1 AA-AATAAAAAA-AT
*
2292682 TAAATAAAA
1 AAAATAAAA
2292691 GAAAAAATGT
Statistics
Matches: 128, Mismatches: 17, Indels: 38
0.70 0.09 0.21
Matches are distributed among these distances:
12 10 0.08
13 32 0.25
14 41 0.32
15 19 0.15
16 19 0.15
17 7 0.05
ACGTcount: A:0.74, C:0.02, G:0.04, T:0.20
Consensus pattern (13 bp):
AAAATAAAAAAAT
Found at i:2293915 original size:18 final size:18
Alignment explanation
Indices: 2293888--2293932 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
2293878 CTAGACCAAA
2293888 AAAT-AATAAAGAAAAAT
1 AAATAAATAAAGAAAAAT
* * *
2293905 AAGTAAATAAATAAAATT
1 AAATAAATAAAGAAAAAT
2293923 AAATAAATAA
1 AAATAAATAA
2293933 TAATATAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
17 3 0.13
18 20 0.87
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.22
Consensus pattern (18 bp):
AAATAAATAAAGAAAAAT
Found at i:2293926 original size:22 final size:22
Alignment explanation
Indices: 2293901--2293942 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
2293891 TAATAAAGAA
*
2293901 AAATAAGTAAATAA-ATAAAATT
1 AAATAAAT-AATAATATAAAATT
2293923 AAATAAATAATAATATAAAA
1 AAATAAATAATAATATAAAA
2293943 AAATTAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.26
Consensus pattern (22 bp):
AAATAAATAATAATATAAAATT
Found at i:2293955 original size:25 final size:26
Alignment explanation
Indices: 2293899--2293955 Score: 82
Period size: 25 Copynumber: 2.2 Consensus size: 26
2293889 AATAATAAAG
2293899 AAAAATAAGTAAATAAATAAAATTAA
1 AAAAATAAGTAAATAAATAAAATTAA
*
2293925 ATAAATAA-TAATATAAA-AAAATTAA
1 AAAAATAAGTAA-ATAAATAAAATTAA
2293950 AAAAAT
1 AAAAAT
2293956 TATATATCAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 16 0.57
26 12 0.43
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.25
Consensus pattern (26 bp):
AAAAATAAGTAAATAAATAAAATTAA
Found at i:2294039 original size:36 final size:36
Alignment explanation
Indices: 2293988--2294390 Score: 522
Period size: 36 Copynumber: 10.9 Consensus size: 36
2293978 AAAATAATTA
* * * *
2293988 TTTTCAAAACCATATAATATAATATATTTTCAAAATA
1 TTTTAAAAACTATATATTAT-ATATATTTTCAAAATG
*
2294025 TTTT-AAAACTATATATTATATATATTTTTCAAAATA
1 TTTTAAAAACTATATATTATATATA-TTTTCAAAATG
* *
2294061 TTTTTAAAACTATATATTATATATATTTTCTAAATG
1 TTTTAAAAACTATATATTATATATATTTTCAAAATG
** *
2294097 TTTCGAAAATTATATATTATATATATTTTTTTCAAAATG
1 TTTTAAAAACTATATATTATATATA---TTTTCAAAATG
*
2294136 TTTTAAAAACTAATATATTATATATATATTCAAAATG
1 TTTTAAAAACT-ATATATTATATATATTTTCAAAATG
* * *
2294173 TTTTGAAAACTATATATTATATATATTTTTAAAATC
1 TTTTAAAAACTATATATTATATATATTTTCAAAATG
*
2294209 TTTTAAAAATTATATATTATATATATTTTTTCAAAATG
1 TTTTAAAAACTATATATTATATATA--TTTTCAAAATG
* *
2294247 TTTTAAAAACTATATATTATTTATATTTTTAAAATG
1 TTTTAAAAACTATATATTATATATATTTTCAAAATG
*
2294283 TTTTAAAAACTATATATTATATATATATTTTCAAAATA
1 TTTTAAAAACTATATA-T-TATATATATTTTCAAAATG
2294321 TTTTAAAAACTATATATTATATA-AGTTTTCAAAATG
1 TTTTAAAAACTATATATTATATATA-TTTTCAAAATG
*
2294357 TTTTAAAAATTATATATTATATATATTTTCAAAA
1 TTTTAAAAACTATATATTATATATATTTTCAAAA
2294391 ATTATACTAA
Statistics
Matches: 326, Mismatches: 28, Indels: 25
0.86 0.07 0.07
Matches are distributed among these distances:
35 6 0.02
36 177 0.54
37 47 0.14
38 64 0.20
39 18 0.06
40 14 0.04
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.49
Consensus pattern (36 bp):
TTTTAAAAACTATATATTATATATATTTTCAAAATG
Found at i:2294192 original size:112 final size:110
Alignment explanation
Indices: 2293999--2294390 Score: 542
Period size: 112 Copynumber: 3.6 Consensus size: 110
2293989 TTTCAAAACC
* * * *
2293999 ATATAATATA-ATATATTTTCAAAATATTTT-AAAACTATATATTATATATATTTTTCAAAATAT
1 ATATATTATATATATTTTTTCAAAATGTTTTAAAAACTATATATTATATATA-TTTTCAAAATGT
* * **
2294062 TTTTAAAACTATATATTATATATATTTTCTAAATGTTTCGAAAATT
65 TTTAAAAACTATATATTATATATATTTTCTAAATATTTTAAAAATT
*
2294108 ATATATTATATATATTTTTTTCAAAATGTTTTAAAAACTAATATATTATATATATATTCAAAATG
1 ATATATTATATATA-TTTTTTCAAAATGTTTTAAAAACT-ATATATTATATATATTTTCAAAATG
* *
2294173 TTTTGAAAACTATATATTATATATATTTT-TAAAATCTTTTAAAAATT
64 TTTTAAAAACTATATATTATATATATTTTCT-AAATATTTTAAAAATT
* *
2294220 ATATATTATATATATTTTTTCAAAATGTTTTAAAAACTATATATTATTTATATTTTTAAAATGTT
1 ATATATTATATATATTTTTTCAAAATGTTTTAAAAACTATATATTATATATATTTTCAAAATGTT
* *
2294285 TTAAAAACTATATATTATATATATATTTTCAAAATATTTTAAAAACT
66 TTAAAAACTATATA-T-TATATATATTTTCTAAATATTTTAAAAATT
* *
2294332 ATATATTATATA-A-GTTTTCAAAATGTTTTAAAAATTATATATTATATATATTTTCAAAA
1 ATATATTATATATATTTTTTCAAAATGTTTTAAAAACTATATATTATATATATTTTCAAAA
2294391 ATTATACTAA
Statistics
Matches: 255, Mismatches: 20, Indels: 15
0.88 0.07 0.05
Matches are distributed among these distances:
109 9 0.04
110 82 0.32
111 42 0.16
112 108 0.42
113 14 0.05
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.49
Consensus pattern (110 bp):
ATATATTATATATATTTTTTCAAAATGTTTTAAAAACTATATATTATATATATTTTCAAAATGTT
TTAAAAACTATATATTATATATATTTTCTAAATATTTTAAAAATT
Found at i:2294194 original size:74 final size:73
Alignment explanation
Indices: 2293988--2294390 Score: 544
Period size: 74 Copynumber: 5.5 Consensus size: 73
2293978 AAAATAATTA
* * * *
2293988 TTTTCAAAACCATATAATATAATATATTTTCAAAATATTTT-AAAACTATATATTATATATATTT
1 TTTTAAAAACTATATATTAT-ATATATTTTCAAAATGTTTTAAAAACTATATATTATATATATTT
*
2294052 TTCAAAATA
65 TTCAAAATG
* * ** *
2294061 TTTTTAAAACTATATATTATATATATTTTCTAAATGTTTCGAAAATTATATATTATATATATTTT
1 TTTTAAAAACTATATATTATATATATTTTCAAAATGTTTTAAAAACTATATATTATATATA--TT
2294126 TTTCAAAATG
64 TTTCAAAATG
* *
2294136 TTTTAAAAACTAATATATTATATATATATTCAAAATGTTTTGAAAACTATATATTATATATATTT
1 TTTTAAAAACT-ATATATTATATATATTTTCAAAATGTTTTAAAAACTATATATTATATATATTT
*
2294201 TT-AAAATC
65 TTCAAAATG
* *
2294209 TTTTAAAAATTATATATTATATATATTTTTTCAAAATGTTTTAAAAACTATATATTATTTATATT
1 TTTTAAAAACTATATATTATATATA--TTTTCAAAATGTTTTAAAAACTATATATTATATATATT
2294274 TTT-AAAATG
64 TTTCAAAATG
* *
2294283 TTTTAAAAACTATATATTATATATATATTTTCAAAATATTTTAAAAACTATATATTATATA-AGT
1 TTTTAAAAACTATATA-T-TATATATATTTTCAAAATGTTTTAAAAACTATATATTATATATATT
2294347 TTTCAAAATG
64 TTTCAAAATG
*
2294357 TTTTAAAAATTATATATTATATATATTTTCAAAA
1 TTTTAAAAACTATATATTATATATATTTTCAAAA
2294391 ATTATACTAA
Statistics
Matches: 297, Mismatches: 24, Indels: 19
0.87 0.07 0.06
Matches are distributed among these distances:
72 48 0.16
73 57 0.19
74 116 0.39
75 22 0.07
76 54 0.18
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.49
Consensus pattern (73 bp):
TTTTAAAAACTATATATTATATATATTTTCAAAATGTTTTAAAAACTATATATTATATATATTTT
TCAAAATG
Found at i:2298472 original size:44 final size:44
Alignment explanation
Indices: 2298409--2298492 Score: 141
Period size: 44 Copynumber: 1.9 Consensus size: 44
2298399 GGAATCTGTA
* *
2298409 GGAATTGGAATCCAATTCCATATTTTGTTTGGTTGGCAGAAAAT
1 GGAATTGGAATCCAATTCCATATTATGTTTGGTTCGCAGAAAAT
*
2298453 GGAATTGGAATTCAATTCCATATTATGTTTGGTTCGCAGA
1 GGAATTGGAATCCAATTCCATATTATGTTTGGTTCGCAGA
2298493 CATGTCAGAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.29, C:0.12, G:0.23, T:0.37
Consensus pattern (44 bp):
GGAATTGGAATCCAATTCCATATTATGTTTGGTTCGCAGAAAAT
Found at i:2299283 original size:37 final size:38
Alignment explanation
Indices: 2299205--2299285 Score: 146
Period size: 38 Copynumber: 2.2 Consensus size: 38
2299195 CTAAACCTGA
2299205 ACCCGACCAGACCCGAATATCACACTTAAAAAAACCCG
1 ACCCGACCAGACCCGAATATCACACTTAAAAAAACCCG
*
2299243 ACCCGACCCGACCCGAATATCACACTT-AAAAAACCCG
1 ACCCGACCAGACCCGAATATCACACTTAAAAAAACCCG
2299280 ACCCGA
1 ACCCGA
2299286 ACAAAATAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
37 16 0.38
38 26 0.62
ACGTcount: A:0.40, C:0.40, G:0.11, T:0.10
Consensus pattern (38 bp):
ACCCGACCAGACCCGAATATCACACTTAAAAAAACCCG
Found at i:2299307 original size:254 final size:256
Alignment explanation
Indices: 2299001--2299498 Score: 867
Period size: 254 Copynumber: 2.0 Consensus size: 256
2298991 CGAACTGACT
* *
2299001 CGAATATTACACTTAAAAAAACCCGACCCGAACAAAATAAAGTTTCATCCGACCCGACCCTAATA
1 CGAATATCACACTTAAAAAAACCCGACCCGAACAAAATAAAGTTTCATCCGACCCGACCCGAATA
* *
2299066 TATGAATTAGAAATCCGACCCGACCCGACCTGAAATAATAAAAAATTATTTGTATTTAATAAAAA
66 TATGAATTAGAAATCCAACCCGACCCGACCCGAAATAATAAAAAATTATTTGTATTTAATAAAAA
2299131 CAGTGACTTAATCCGACCCGACCCGAA-T-TATATATATTTTCGGGTCGGTCCGGTTTTTTTCAC
131 CAGTGACTTAATCCGACCCGACCCGAATTATATATATATTTTCGGGTCGGTCCGGTTTTTTT-AC
**
2299194 CCTAAACCTGAACCCGACCAGACCCGAATATCACACTTAAAAAAACCCGACCCGACCCGACC
195 CCTAAACCCAAACCCGACCAGACCCGAATATCACACTTAAAAAAACCCGACCCGACCCGACC
2299256 CGAATATCACACTT-AAAAAACCCGACCCGAACAAAATAAAGTTTCATCCGACCCGACCCGAATA
1 CGAATATCACACTTAAAAAAACCCGACCCGAACAAAATAAAGTTTCATCCGACCCGACCCGAATA
*
2299320 TATGAATTAGAAATCCAACCCGACCCGACCCGAAATAATAAAAAATTATTTTTATTTAATAAAAA
66 TATGAATTAGAAATCCAACCCGACCCGACCCGAAATAATAAAAAATTATTTGTATTTAATAAAAA
* **
2299385 TAGTGACTTAATCCGACCCGACCTTAATTATATATATATTTTCGGGTCGGTCCGGTTTTTTTACC
131 CAGTGACTTAATCCGACCCGACCCGAATTATATATATATTTTCGGGTCGGTCCGGTTTTTTTACC
*
2299450 CTAAACCCAAACCCGACCCGACCCGAATATCACACTTAAAAAAACCCGA
196 CTAAACCCAAACCCGACCAGACCCGAATATCACACTTAAAAAAACCCGA
2299499 TCTGACCTGA
Statistics
Matches: 230, Mismatches: 11, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
254 135 0.59
255 63 0.27
256 32 0.14
ACGTcount: A:0.38, C:0.27, G:0.12, T:0.23
Consensus pattern (256 bp):
CGAATATCACACTTAAAAAAACCCGACCCGAACAAAATAAAGTTTCATCCGACCCGACCCGAATA
TATGAATTAGAAATCCAACCCGACCCGACCCGAAATAATAAAAAATTATTTGTATTTAATAAAAA
CAGTGACTTAATCCGACCCGACCCGAATTATATATATATTTTCGGGTCGGTCCGGTTTTTTTACC
CTAAACCCAAACCCGACCAGACCCGAATATCACACTTAAAAAAACCCGACCCGACCCGACC
Found at i:2300436 original size:32 final size:34
Alignment explanation
Indices: 2300395--2300474 Score: 101
Period size: 35 Copynumber: 2.4 Consensus size: 34
2300385 TTTAAATAGT
*
2300395 TATTATTTTTTATATT-AAT-ATATTTATGTAAA
1 TATTATTTTTTATATTAAATAATATTTATATAAA
* *
2300427 TATTATTTTTTTTATTAAAATAATATTTATATAAT
1 TATTATTTTTTATATT-AAATAATATTTATATAAA
2300462 TATTATTTATTTA
1 TATTATTT-TTTA
2300475 GAATTATTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
32 15 0.38
34 3 0.08
35 19 0.47
36 3 0.08
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (34 bp):
TATTATTTTTTATATTAAATAATATTTATATAAA
Found at i:2300438 original size:34 final size:33
Alignment explanation
Indices: 2300362--2300469 Score: 94
Period size: 35 Copynumber: 3.1 Consensus size: 33
2300352 GTGGTAAGAA
* *
2300362 ATTTATTTTTATGTTAGTAT-TTT-TTTAAATAGTT
1 ATTT-TTTTTAT-TTAATATATTTATATAAATA-TT
*
2300396 ATTATTTTTTATATTAATATATTTATGTAAATATT
1 ATT-TTTTTTAT-TTAATATATTTATATAAATATT
* *
2300431 ATTTTTTTTATTAAAATAATATTTATATAATTATT
1 ATTTTTTTTATT-TAAT-ATATTTATATAAATATT
2300466 ATTT
1 ATTT
2300470 ATTTAGAATT
Statistics
Matches: 63, Mismatches: 6, Indels: 9
0.81 0.08 0.12
Matches are distributed among these distances:
33 1 0.02
34 27 0.43
35 28 0.44
36 7 0.11
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (33 bp):
ATTTTTTTTATTTAATATATTTATATAAATATT
Found at i:2302278 original size:21 final size:21
Alignment explanation
Indices: 2302250--2302343 Score: 136
Period size: 21 Copynumber: 4.5 Consensus size: 21
2302240 TATGCCATCT
2302250 CCGCAGGGTTACATTCCGAGC
1 CCGCAGGGTTACATTCCGAGC
*
2302271 CTGCAGGGTTACATTCCGAGC
1 CCGCAGGGTTACATTCCGAGC
*
2302292 CCGCAGGGTTACATTCCTAGC
1 CCGCAGGGTTACATTCCGAGC
* *
2302313 CCGCCA-GGTTACATGCCTAGC
1 CCG-CAGGGTTACATTCCGAGC
2302334 CCGCAGGGTT
1 CCGCAGGGTT
2302344 TTATACCATA
Statistics
Matches: 67, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
20 2 0.03
21 63 0.94
22 2 0.03
ACGTcount: A:0.18, C:0.33, G:0.28, T:0.21
Consensus pattern (21 bp):
CCGCAGGGTTACATTCCGAGC
Found at i:2302915 original size:34 final size:34
Alignment explanation
Indices: 2302865--2302962 Score: 142
Period size: 34 Copynumber: 2.9 Consensus size: 34
2302855 AAATGTTTTT
*
2302865 AAAATATAAATTATATTATTCAAAATTTAAAATA
1 AAAATATAAATTATATTATTCGAAATTTAAAATA
* * * *
2302899 AAAATAAAAATAATATTATTCGAAATTTAAATTT
1 AAAATATAAATTATATTATTCGAAATTTAAAATA
*
2302933 AAAATATAAATTATAGTATTCGAAATTTAA
1 AAAATATAAATTATATTATTCGAAATTTAA
2302963 CATTAAATTT
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 56 1.00
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (34 bp):
AAAATATAAATTATATTATTCGAAATTTAAAATA
Found at i:2304817 original size:37 final size:37
Alignment explanation
Indices: 2304776--2304883 Score: 189
Period size: 37 Copynumber: 2.9 Consensus size: 37
2304766 AGCATAGCGT
*
2304776 TAGAGTTTTACTAGGATTCAAACTCTTAAAAATATGA
1 TAGAGTTTTACTATGATTCAAACTCTTAAAAATATGA
2304813 TAGAGTTTTACTATGATTCAAACTCTTAAAAATATGA
1 TAGAGTTTTACTATGATTCAAACTCTTAAAAATATGA
* *
2304850 TAGAGTTCTACTATGATTCAAACTCCTAAAAATA
1 TAGAGTTTTACTATGATTCAAACTCTTAAAAATA
2304884 GGATCCATAA
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.41, C:0.13, G:0.11, T:0.35
Consensus pattern (37 bp):
TAGAGTTTTACTATGATTCAAACTCTTAAAAATATGA
Found at i:2305531 original size:28 final size:27
Alignment explanation
Indices: 2305443--2305540 Score: 69
Period size: 28 Copynumber: 3.5 Consensus size: 27
2305433 AGATTACATA
*
2305443 TATATATATATATATATTATTT-TTAATTTT
1 TATATATAT-TTTAT-TTATTTCTT--TTTT
* *
2305473 TAT-TATTATTTTATTTATTTGTTTTAAT
1 TATATA-TATTTTATTTATTTCTTTT-TT
*
2305501 TATATATATTTTATTCTTTTTCTTTTTT
1 TATATATATTTTATT-TATTTCTTTTTT
2305529 TATAT-T-TTTTAT
1 TATATATATTTTAT
2305541 ATTACTTACT
Statistics
Matches: 58, Mismatches: 5, Indels: 14
0.75 0.06 0.18
Matches are distributed among these distances:
26 6 0.10
27 3 0.05
28 25 0.43
29 18 0.31
30 6 0.10
ACGTcount: A:0.27, C:0.02, G:0.01, T:0.70
Consensus pattern (27 bp):
TATATATATTTTATTTATTTCTTTTTT
Found at i:2305612 original size:26 final size:27
Alignment explanation
Indices: 2305572--2305635 Score: 105
Period size: 26 Copynumber: 2.4 Consensus size: 27
2305562 GCTTTCTTTA
2305572 TCTTACATTTTATTTAATTTATTT-TT
1 TCTTACATTTTATTTAATTTATTTATT
2305598 TCTT-CATTTTAATTTAATTTATTTATT
1 TCTTACATTTT-ATTTAATTTATTTATT
2305625 TCTTACATTTT
1 TCTTACATTTT
2305636 TATCTAACAT
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
25 6 0.17
26 17 0.49
27 6 0.17
28 6 0.17
ACGTcount: A:0.23, C:0.09, G:0.00, T:0.67
Consensus pattern (27 bp):
TCTTACATTTTATTTAATTTATTTATT
Found at i:2308428 original size:11 final size:11
Alignment explanation
Indices: 2308409--2308463 Score: 65
Period size: 12 Copynumber: 4.7 Consensus size: 11
2308399 AGATTCAATC
*
2308409 AGAACAAAAAG
1 AGAAAAAAAAG
2308420 AGAAAAAAAGAG
1 AGAAAAAAA-AG
*
2308432 AAAAAAAAAAG
1 AGAAAAAAAAG
2308443 AGAAAATAAAAAG
1 AG-AAA-AAAAAG
2308456 AGAAAAAA
1 AGAAAAAA
2308464 CAAAGGAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
11 14 0.37
12 16 0.42
13 8 0.21
ACGTcount: A:0.80, C:0.02, G:0.16, T:0.02
Consensus pattern (11 bp):
AGAAAAAAAAG
Found at i:2308440 original size:13 final size:13
Alignment explanation
Indices: 2308422--2308473 Score: 79
Period size: 13 Copynumber: 4.1 Consensus size: 13
2308412 ACAAAAAGAG
2308422 AAAAAAAGAGAAA
1 AAAAAAAGAGAAA
2308435 AAAAAAAGAGAAA
1 AAAAAAAGAGAAA
*
2308448 ATAAAAAGAGAAA
1 AAAAAAAGAGAAA
*
2308461 AAACAAAG-GAAA
1 AAAAAAAGAGAAA
2308473 A
1 A
2308474 TTGAAGAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
12 5 0.14
13 31 0.86
ACGTcount: A:0.81, C:0.02, G:0.15, T:0.02
Consensus pattern (13 bp):
AAAAAAAGAGAAA
Found at i:2308463 original size:10 final size:10
Alignment explanation
Indices: 2308409--2308438 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
2308399 AGATTCAATC
2308409 AGAACAAAAAG
1 AGAA-AAAAAG
2308420 AGAAAAAAAG
1 AGAAAAAAAG
2308430 AGAAAAAAA
1 AGAAAAAAA
2308439 AAAGAGAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 15 0.79
11 4 0.21
ACGTcount: A:0.80, C:0.03, G:0.17, T:0.00
Consensus pattern (10 bp):
AGAAAAAAAG
Found at i:2308629 original size:69 final size:69
Alignment explanation
Indices: 2308546--2308683 Score: 231
Period size: 69 Copynumber: 2.0 Consensus size: 69
2308536 AATTCAAACT
*
2308546 ATGAGATTAATCAAGCACAATCATTTCCGAATCAATGAACCACTTCACTCGAAGATCATAGAGCA
1 ATGAGATTAATCAAGCACAATCATTTCCGAATCAATGAACCACTCCACTCGAAGATCATAGAGCA
2308611 TCAA
66 TCAA
* * * *
2308615 ATGAGATTGATCAAGCACAATCATTTCTGAATCACTGAATCACTCCACTCGAAGATCATAGAGCA
1 ATGAGATTAATCAAGCACAATCATTTCCGAATCAATGAACCACTCCACTCGAAGATCATAGAGCA
2308680 TCAA
66 TCAA
2308684 GAGAGACACA
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
69 64 1.00
ACGTcount: A:0.39, C:0.23, G:0.14, T:0.24
Consensus pattern (69 bp):
ATGAGATTAATCAAGCACAATCATTTCCGAATCAATGAACCACTCCACTCGAAGATCATAGAGCA
TCAA
Found at i:2311052 original size:36 final size:36
Alignment explanation
Indices: 2310954--2311070 Score: 148
Period size: 36 Copynumber: 3.2 Consensus size: 36
2310944 TATCTTTTCC
*
2310954 TTGAAACAAATTTCGTCTCC-CTTGAGACAGTTTCTT
1 TTGAAACAAATTTTGTC-CCTCTTGAGACAGTTTCTT
*
2310990 TT-AGAACTAAATTTTGTCTCTCTTGAGACAGTTTCTT
1 TTGA-AAC-AAATTTTGTCCCTCTTGAGACAGTTTCTT
* * *
2311027 TTGAAACAAATTTTGTCCCTATTGAGACAATTTCTC
1 TTGAAACAAATTTTGTCCCTCTTGAGACAGTTTCTT
2311063 TTGAAACA
1 TTGAAACA
2311071 CAAAAAACCC
Statistics
Matches: 71, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
35 1 0.01
36 39 0.55
37 30 0.42
38 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.13, T:0.40
Consensus pattern (36 bp):
TTGAAACAAATTTTGTCCCTCTTGAGACAGTTTCTT
Found at i:2311273 original size:83 final size:83
Alignment explanation
Indices: 2311133--2311404 Score: 282
Period size: 83 Copynumber: 3.3 Consensus size: 83
2311123 CTCTTGAAAC
* * * * *
2311133 ACAAAG-CCTTCGAGTTGGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTCAAGG
1 ACAAAGACCTTCGAGTTCGATTACACTCAAC-TCCAAGGCACATCATTTACAGCATAACTCAAGG
** *
2311197 CTGGAAGGGTTATCTGTTA
65 CAAGAAGGGTTATCTGTCA
* * *
2311216 ACAAAGACCTTCGAGTTCGACTACGCTCAACTCCAAGGCACATCATTTACAGTATAACTCAAGGC
1 ACAAAGACCTTCGAGTTCGATTACACTCAACTCCAAGGCACATCATTTACAGCATAACTCAAGGC
*
2311281 AAGAAGGGTTATCAGTCA
66 AAGAAGGGTTATCTGTCA
* * * * * *
2311299 TCAAAGACCTTCAAGTTCGATTACATTCAACT-CAGAGGCAAATCAAATTTACAACATAGCTCAA
1 ACAAAGACCTTCGAGTTCGATTACACTCAACTCCA-AGGCACATC--ATTTACAGCATAACTCAA
**
2311363 GGCAAGAAGGGTTATCTACCA
63 GGCAAGAAGGGTTATCTGTCA
*
2311384 ACAAA-A-TTATCGAGTTCGATT
1 ACAAAGACCT-TCGAGTTCGATT
2311405 TCATTCAGCT
Statistics
Matches: 157, Mismatches: 27, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
82 2 0.01
83 86 0.55
84 32 0.20
85 37 0.24
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.25
Consensus pattern (83 bp):
ACAAAGACCTTCGAGTTCGATTACACTCAACTCCAAGGCACATCATTTACAGCATAACTCAAGGC
AAGAAGGGTTATCTGTCA
Found at i:2311933 original size:37 final size:37
Alignment explanation
Indices: 2311887--2311998 Score: 188
Period size: 37 Copynumber: 3.0 Consensus size: 37
2311877 AACATAGCGT
*
2311887 TAGAGTTTTACTAGGATTCAAACTCTTAAAAATATGA
1 TAGAGTTTTACTAGGATTCAAACTCCTAAAAATATGA
*
2311924 TAGAATTTTACTAGGATTCAAACTCCTAAAAATATGA
1 TAGAGTTTTACTAGGATTCAAACTCCTAAAAATATGA
* *
2311961 TAGAGTTCTACTATGATTCAAACTCCTAAAAATATGA
1 TAGAGTTTTACTAGGATTCAAACTCCTAAAAATATGA
2311998 T
1 T
2311999 CAAGAAGCAT
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 70 1.00
ACGTcount: A:0.41, C:0.13, G:0.12, T:0.34
Consensus pattern (37 bp):
TAGAGTTTTACTAGGATTCAAACTCCTAAAAATATGA
Found at i:2312537 original size:20 final size:19
Alignment explanation
Indices: 2312493--2312539 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 19
2312483 TTTTCGTGTA
2312493 ATATTTTTTTACATTTTAT
1 ATATTTTTTTACATTTTAT
*
2312512 ACATTTTTTTAC-TTTAGTAT
1 ATATTTTTTTACATTT--TAT
2312532 ATATTTTT
1 ATATTTTT
2312540 ATTTTTTTAG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 3 0.12
19 11 0.46
20 10 0.42
ACGTcount: A:0.26, C:0.06, G:0.02, T:0.66
Consensus pattern (19 bp):
ATATTTTTTTACATTTTAT
Found at i:2312605 original size:9 final size:9
Alignment explanation
Indices: 2312591--2312740 Score: 50
Period size: 9 Copynumber: 16.7 Consensus size: 9
2312581 CTTTTTATTA
2312591 TTATTTTAT
1 TTATTTTAT
2312600 TTATTTGT-T
1 TTATTT-TAT
2312609 TTA-TTTAT
1 TTATTTTAT
*
2312617 ATATTTT-T
1 TTATTTTAT
*
2312625 CTTCTTTT-T
1 -TTATTTTAT
*
2312634 CTTTTTTTAT
1 -TTATTTTAT
*
2312644 ATATTTTAT
1 TTATTTTAT
*
2312653 ATATTACTTA-
1 TTATT--TTAT
2312663 TTATTTTAT
1 TTATTTTAT
2312672 TT-TTGTT-T
1 TTATT-TTAT
*
2312680 TT-CTTTAT
1 TTATTTTAT
2312688 CTTATCTTTTAT
1 -TTA--TTTTAT
*
2312700 TTAATTTA-
1 TTATTTTAT
*
2312708 TT-TTTTCT
1 TTATTTTAT
*
2312716 TCATTTTAAT
1 TTATTTT-AT
*
2312726 TTAATTTAT
1 TTATTTTAT
2312735 TTATTT
1 TTATTT
2312741 CTTACCTTTT
Statistics
Matches: 107, Mismatches: 17, Indels: 34
0.68 0.11 0.22
Matches are distributed among these distances:
7 6 0.06
8 19 0.18
9 59 0.55
10 12 0.11
11 6 0.06
12 5 0.05
ACGTcount: A:0.20, C:0.06, G:0.01, T:0.73
Consensus pattern (9 bp):
TTATTTTAT
Found at i:2312624 original size:27 final size:28
Alignment explanation
Indices: 2312583--2312650 Score: 74
Period size: 27 Copynumber: 2.6 Consensus size: 28
2312573 TATTTTTACT
*
2312583 TTTTA-TTAT-TA-TTTTATT-TATTTG
1 TTTTATTTATATATTTTTATTCTATTTC
* *
2312607 TTTTATTTATATATTTTTCTTCTTTTTC
1 TTTTATTTATATATTTTTATTCTATTTC
2312635 TTTT-TTTATATATTTT
1 TTTTATTTATATATTTT
2312651 ATATATTACT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
24 5 0.14
25 4 0.11
26 2 0.05
27 18 0.49
28 8 0.22
ACGTcount: A:0.18, C:0.04, G:0.01, T:0.76
Consensus pattern (28 bp):
TTTTATTTATATATTTTTATTCTATTTC
Found at i:2312667 original size:54 final size:52
Alignment explanation
Indices: 2312575--2312700 Score: 128
Period size: 53 Copynumber: 2.3 Consensus size: 52
2312565 ATATATATTA
* **
2312575 TTTTTACTTTTTATTATTATTTTATTTATTTGTTTTATTTATATATTT-TTCTTC
1 TTTTT-CTTTTT-TTATTATTTTATATATTACTTTTATTT-TATATTTGTTCTTC
* *
2312629 TTTTTCTTTTTTTATATATTTTATATATTACTTATTATTTTATTTTTGTTTTTC
1 TTTTTCTTTTTTTAT-TATTTTATATATTACTT-TTATTTTATATTTGTTCTTC
*
2312683 TTTATCTTATCTTTTATT
1 TTTTTCTT-T-TTTTATT
2312701 TAATTTATTT
Statistics
Matches: 61, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
52 4 0.07
53 26 0.43
54 23 0.38
55 2 0.03
56 6 0.10
ACGTcount: A:0.18, C:0.06, G:0.02, T:0.74
Consensus pattern (52 bp):
TTTTTCTTTTTTTATTATTTTATATATTACTTTTATTTTATATTTGTTCTTC
Found at i:2312716 original size:26 final size:27
Alignment explanation
Indices: 2312687--2312750 Score: 87
Period size: 26 Copynumber: 2.4 Consensus size: 27
2312677 TTTTTCTTTA
2312687 TCTTATCTTTTATTTAATTTATTT-TT
1 TCTTATCTTTTATTTAATTTATTTATT
*
2312713 TCTTCAT-TTTAATTTAATTTATTTATT
1 TCTT-ATCTTTTATTTAATTTATTTATT
*
2312740 TCTTACCTTTT
1 TCTTATCTTTT
2312751 TATCTAACAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
26 21 0.66
27 11 0.34
ACGTcount: A:0.20, C:0.11, G:0.00, T:0.69
Consensus pattern (27 bp):
TCTTATCTTTTATTTAATTTATTTATT
Found at i:2314353 original size:16 final size:16
Alignment explanation
Indices: 2314332--2314364 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
2314322 ATTTGATTTT
2314332 TTTTAAAATAAAAATA
1 TTTTAAAATAAAAATA
*
2314348 TTTTAAATTAAAAATA
1 TTTTAAAATAAAAATA
2314364 T
1 T
2314365 AAAATATCCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
TTTTAAAATAAAAATA
Found at i:2315188 original size:24 final size:23
Alignment explanation
Indices: 2315150--2315199 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 23
2315140 TAATTTTTAG
2315150 TTTTGGTATTATTATATTTAAAA
1 TTTTGGTATTATTATATTTAAAA
* *
2315173 TTTTGGATATTTTTATATTTTAAA
1 TTTTGG-TATTATTATATTTAAAA
2315197 TTT
1 TTT
2315200 AAAATATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 6 0.25
24 18 0.75
ACGTcount: A:0.30, C:0.00, G:0.08, T:0.62
Consensus pattern (23 bp):
TTTTGGTATTATTATATTTAAAA
Found at i:2315206 original size:24 final size:24
Alignment explanation
Indices: 2315156--2315217 Score: 70
Period size: 24 Copynumber: 2.6 Consensus size: 24
2315146 TTAGTTTTGG
* * ***
2315156 TATTATTATATTTAAAATTTTGGA
1 TATTTTTATATTTTAAATTTAAAA
2315180 TATTTTTATATTTTAAATTTAAAA
1 TATTTTTATATTTTAAATTTAAAA
*
2315204 TATTTTTATTTTTT
1 TATTTTTATATTTT
2315218 TTAAAATCAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (24 bp):
TATTTTTATATTTTAAATTTAAAA
Found at i:2322095 original size:41 final size:41
Alignment explanation
Indices: 2322050--2322135 Score: 145
Period size: 41 Copynumber: 2.1 Consensus size: 41
2322040 AAACTAGGAT
* *
2322050 AAATTCGAACATGAATCTAATATTAGAAGAATGTAATATCA
1 AAATTCGAACAGGAATCTAATATTAGAAGAACGTAATATCA
*
2322091 AAATTCGAATAGGAATCTAATATTAGAAGAACGTAATATCA
1 AAATTCGAACAGGAATCTAATATTAGAAGAACGTAATATCA
2322132 AAAT
1 AAAT
2322136 CAAACCAGCT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.50, C:0.09, G:0.13, T:0.28
Consensus pattern (41 bp):
AAATTCGAACAGGAATCTAATATTAGAAGAACGTAATATCA
Found at i:2337940 original size:2 final size:2
Alignment explanation
Indices: 2337933--2337987 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
2337923 TTTGTTATTC
2337933 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
2337975 AT AT AT AT AT AT A
1 AT AT AT AT AT AT A
2337988 AAATTCATTA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2338509 original size:9 final size:9
Alignment explanation
Indices: 2338495--2338527 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
2338485 TATCTTATGC
2338495 TAATTAATT
1 TAATTAATT
2338504 TAATTAATT
1 TAATTAATT
*
2338513 TTA-TAATT
1 TAATTAATT
2338521 TAATTAA
1 TAATTAA
2338528 AGAATAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
8 7 0.33
9 14 0.67
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (9 bp):
TAATTAATT
Found at i:2342027 original size:131 final size:132
Alignment explanation
Indices: 2341849--2342100 Score: 402
Period size: 131 Copynumber: 1.9 Consensus size: 132
2341839 TTCATATATA
* **
2341849 AATATAAGAGATATTTACTTATTTAGAAATATCAGAAAAGGGCTTCTAGGTGCCTTAAGACAGCT
1 AATATAAAAGATATTTACTTATTTAGAAATATCAGAAAAGAACTTCTAGGTGCCTTAAGACAGCT
2341914 CTTCTCTTTGATATTAAAAAATAAATAAATAT-AAAACA-TTTTCTTAAAAAATAAAAAATTATT
66 CTTCTCTTTGATATTAAAAAATAAATAAATATAAAAACATTTTTCTTAAAAAATAAAAAATTATT
2341977 TT
131 TT
* * *
2341979 AATATAATAAGATATTTATTTATTT-GAAAATATCAGAAAAGAACTTCTAGGTGCTTTAAGATAG
1 AATATAA-AAGATATTTACTTATTTAG-AAATATCAGAAAAGAACTTCTAGGTGCCTTAAGACAG
*
2342043 CTCTTCTCTTTGATATTAAAAAATAAATAAATATAAAAATATTTTTCTTAAAAAATAA
64 CTCTTCTCTTTGATATTAAAAAATAAATAAATATAAAAACATTTTTCTTAAAAAATAA
2342101 TAATAATAAA
Statistics
Matches: 111, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
130 8 0.07
131 82 0.74
132 5 0.05
133 16 0.14
ACGTcount: A:0.46, C:0.09, G:0.09, T:0.37
Consensus pattern (132 bp):
AATATAAAAGATATTTACTTATTTAGAAATATCAGAAAAGAACTTCTAGGTGCCTTAAGACAGCT
CTTCTCTTTGATATTAAAAAATAAATAAATATAAAAACATTTTTCTTAAAAAATAAAAAATTATT
TT
Found at i:2342494 original size:21 final size:20
Alignment explanation
Indices: 2342460--2342499 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
2342450 AATATAAAAA
*
2342460 AAATTAAAACATTATAATTT
1 AAATTAAAACATTAAAATTT
*
2342480 AAATGTAAAATATTAAAATT
1 AAAT-TAAAACATTAAAATT
2342500 CAAGGGCCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.38
Consensus pattern (20 bp):
AAATTAAAACATTAAAATTT
Found at i:2343646 original size:3 final size:3
Alignment explanation
Indices: 2343638--2343682 Score: 72
Period size: 3 Copynumber: 14.7 Consensus size: 3
2343628 TTTATTTATT
*
2343638 TAA TAA TAA TAA TATA TAA TAA TAA TAA TAA TAA TAA TAA AAA TA
1 TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
2343683 GTAAGGAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
3 36 0.92
4 3 0.08
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:2343963 original size:76 final size:76
Alignment explanation
Indices: 2343856--2344452 Score: 1104
Period size: 76 Copynumber: 7.8 Consensus size: 76
2343846 AGGGTTTGAA
*
2343856 AACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCG
1 AACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCG
*
2343921 AAAGCTTTAAG
66 AAGGCTTTAAG
2343932 AACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCG
1 AACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCG
**
2343997 AAGGCTTTTTGG
66 AAGGC-TTTAAG
2344009 AAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCC
1 -AACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCC
2344074 GAAGGCTTTAAG
65 GAAGGCTTTAAG
2344086 AACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCG
1 AACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCG
2344151 AAGGCTTTAAG
66 AAGGCTTTAAG
2344162 AACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCG
1 AACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCG
**
2344227 AAGGCTTTTTGG
66 AAGGC-TTTAAG
2344239 AAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCC
1 -AACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCC
2344304 GAAGGCTTTAAG
65 GAAGGCTTTAAG
2344316 AACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCG
1 AACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCG
2344381 AAGGCTTTAAG
66 AAGGCTTTAAG
2344392 AACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGA
1 AACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGA
2344453 GGGAAATAGT
Statistics
Matches: 507, Mismatches: 10, Indels: 8
0.97 0.02 0.02
Matches are distributed among these distances:
76 351 0.69
77 16 0.03
78 140 0.28
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.22
Consensus pattern (76 bp):
AACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCG
AAGGCTTTAAG
Found at i:2344135 original size:154 final size:152
Alignment explanation
Indices: 2343856--2344452 Score: 1104
Period size: 154 Copynumber: 3.9 Consensus size: 152
2343846 AGGGTTTGAA
*
2343856 AACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCG
1 AACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCG
*
2343921 AAAGCTTTAAGAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTA
66 AAGGCTTTAAGAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTA
**
2343986 CAGATGACCCGAAGGCTTTTTGG
131 CAGATGACCCGAAGGC-TTTAAG
2344009 AAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCC
1 -AACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCC
2344074 GAAGGCTTTAAGAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTT
65 GAAGGCTTTAAGAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTT
2344139 ACAGATGACCCGAAGGCTTTAAG
130 ACAGATGACCCGAAGGCTTTAAG
2344162 AACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCG
1 AACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCG
**
2344227 AAGGCTTTTTGGAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACT
66 AAGGC-TTTAAG-AACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACT
2344292 TACAGATGACCCGAAGGCTTTAAG
129 TACAGATGACCCGAAGGCTTTAAG
2344316 AACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCG
1 AACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCG
2344381 AAGGCTTTAAGAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTA
66 AAGGCTTTAAGAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTA
2344446 CAGATGA
131 CAGATGA
2344453 GGGAAATAGT
Statistics
Matches: 433, Mismatches: 8, Indels: 6
0.97 0.02 0.01
Matches are distributed among these distances:
152 131 0.30
153 12 0.03
154 290 0.67
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.22
Consensus pattern (152 bp):
AACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCG
AAGGCTTTAAGAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTA
CAGATGACCCGAAGGCTTTAAG
Found at i:2344240 original size:230 final size:230
Alignment explanation
Indices: 2343856--2344452 Score: 1176
Period size: 230 Copynumber: 2.6 Consensus size: 230
2343846 AGGGTTTGAA
*
2343856 AACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCG
1 AACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCG
*
2343921 AAAGCTTTAAGAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTA
66 AAGGCTTTAAGAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTA
2343986 CAGATGACCCGAAGGCTTTTTGGAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGC
131 CAGATGACCCGAAGGCTTTTTGGAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGC
2344051 ACTGAAGGACTTACAGATGACCCGAAGGCTTTAAG
196 ACTGAAGGACTTACAGATGACCCGAAGGCTTTAAG
2344086 AACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCG
1 AACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCG
2344151 AAGGCTTTAAGAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTA
66 AAGGCTTTAAGAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTA
2344216 CAGATGACCCGAAGGCTTTTTGGAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGC
131 CAGATGACCCGAAGGCTTTTTGGAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGC
2344281 ACTGAAGGACTTACAGATGACCCGAAGGCTTTAAG
196 ACTGAAGGACTTACAGATGACCCGAAGGCTTTAAG
2344316 AACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCG
1 AACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCG
2344381 AAGGCTTTAAGAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTA
66 AAGGCTTTAAGAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTA
2344446 CAGATGA
131 CAGATGA
2344453 GGGAAATAGT
Statistics
Matches: 365, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
230 365 1.00
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.22
Consensus pattern (230 bp):
AACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCG
AAGGCTTTAAGAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTA
CAGATGACCCGAAGGCTTTTTGGAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGC
ACTGAAGGACTTACAGATGACCCGAAGGCTTTAAG
Found at i:2345154 original size:22 final size:22
Alignment explanation
Indices: 2345129--2345183 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
2345119 CATAAAGCTT
2345129 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
*
2345151 TCATCTTTAAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
2345173 TCATCTTTGAA
1 TCATCTTTGAA
2345184 GAGTGTAGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:2345633 original size:54 final size:54
Alignment explanation
Indices: 2345544--2345770 Score: 325
Period size: 54 Copynumber: 4.3 Consensus size: 54
2345534 AGAATAGCAG
* *** * *
2345544 GTTCGTAAAACATTTGATAGTGCATTTATCCTTTCCTGTGGCTTCTGCTCAGAT
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGTTTCTGCTCAGAT
* *
2345598 GTTCGTAAAACATTTGACAACACATTCATCATTTCCTGTGGTTTCTGTTCAGAT
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGTTTCTGCTCAGAT
*
2345652 GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGTTTCTGTTCAGAT
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGTTTCTGCTCAGAT
**
2345706 GTTCGTAAAACATTTGACAACACATTCAT--TTTTTTGTGGTTTCTGCTCAGAT
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGTTTCTGCTCAGAT
*
2345758 GTTC-TCAAACATT
1 GTTCGTAAAACATT
2345771 GAATCTCTTT
Statistics
Matches: 160, Mismatches: 13, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
51 8 0.05
52 24 0.15
54 128 0.80
ACGTcount: A:0.24, C:0.20, G:0.15, T:0.40
Consensus pattern (54 bp):
GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGTTTCTGCTCAGAT
Found at i:2347751 original size:83 final size:83
Alignment explanation
Indices: 2347645--2348115 Score: 793
Period size: 83 Copynumber: 5.7 Consensus size: 83
2347635 GGTTTTATAT
* * * * *
2347645 CAAACCAAATCAGATAACTCAAAGAACACTTCCAGAAGATGTTATTAGCAAATTCCTCTTCCAAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAA
* * *
2347710 TTCAATGATTGGTTTTAC
66 TTCACTGATTGGTTCTGC
*
2347728 CAAACCAGATCTGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAA
* *
2347793 CTCAATGATT-GTTCTGTC
66 TTCACTGATTGGTTCTG-C
* *
2347811 C-AACCAGATCAGATAACTCAAAGAATACTTCCAGAAGATGCTATTGACAAATTCATCTTCTAAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAA
2347875 TTCACTGATTGGTTCTGC
66 TTCACTGATTGGTTCTGC
2347893 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAA
2347958 TTCACTGATTGGTTCTGC
66 TTCACTGATTGGTTCTGC
*
2347976 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGACAAATTCATCTTCTAAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAA
2348041 TTCACTGATTGGTTCTGC
66 TTCACTGATTGGTTCTGC
2348059 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCAT
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCAT
2348116 TTGTTCTATT
Statistics
Matches: 367, Mismatches: 18, Indels: 6
0.94 0.05 0.02
Matches are distributed among these distances:
82 74 0.20
83 293 0.80
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.28
Consensus pattern (83 bp):
CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAA
TTCACTGATTGGTTCTGC
Found at i:2348052 original size:166 final size:166
Alignment explanation
Indices: 2347645--2348115 Score: 804
Period size: 165 Copynumber: 2.8 Consensus size: 166
2347635 GGTTTTATAT
* * * *
2347645 CAAACCAAATCAGATAACTCAAAGAACACTTCCAGAAGATGTTATT-AGCAAATTCCTCTTCCAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGA-CAAATTCATCTTCTAA
* * * *
2347709 ATTCAATGATTGGTTTTACCAAACCAGATCTGATAACTCAAAGAACACTTCCAGAAGATGCTATT
65 ATTCACTGATTGGTTCTGCCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATT
2347774 GGCAAATTCATCTTCTAAACTCAATGATTGTTCTGTC
130 GGCAAATTCATCTTCTAAACTCAATGATTGTTCTGTC
*
2347811 C-AACCAGATCAGATAACTCAAAGAATACTTCCAGAAGATGCTATTGACAAATTCATCTTCTAAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGACAAATTCATCTTCTAAA
2347875 TTCACTGATTGGTTCTGCCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTG
66 TTCACTGATTGGTTCTGCCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTG
* *
2347940 GCAAATTCATCTTCTAAATTCACTGATTGGTTCTG-C
131 GCAAATTCATCTTCTAAACTCAATGATT-GTTCTGTC
2347976 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGACAAATTCATCTTCTAAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGACAAATTCATCTTCTAAA
2348041 TTCACTGATTGGTTCTGCCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTG
66 TTCACTGATTGGTTCTGCCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTG
2348106 GCAAATTCAT
131 GCAAATTCAT
2348116 TTGTTCTATT
Statistics
Matches: 290, Mismatches: 12, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
165 145 0.50
166 145 0.50
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.28
Consensus pattern (166 bp):
CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGACAAATTCATCTTCTAAA
TTCACTGATTGGTTCTGCCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTG
GCAAATTCATCTTCTAAACTCAATGATTGTTCTGTC
Found at i:2350380 original size:13 final size:13
Alignment explanation
Indices: 2350362--2350398 Score: 53
Period size: 12 Copynumber: 3.1 Consensus size: 13
2350352 TCAATTTTCC
2350362 TTTTTCTC-TTTT
1 TTTTTCTCTTTTT
2350374 TTTTT-TCTTTTT
1 TTTTTCTCTTTTT
2350386 TTTTTCT-TTTTT
1 TTTTTCTCTTTTT
2350398 T
1 T
2350399 CTTTGCTGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 2 0.09
12 20 0.87
13 1 0.04
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (13 bp):
TTTTTCTCTTTTT
Found at i:2350382 original size:11 final size:11
Alignment explanation
Indices: 2350362--2350398 Score: 65
Period size: 11 Copynumber: 3.4 Consensus size: 11
2350352 TCAATTTTCC
*
2350362 TTTTTCTCTTT
1 TTTTTTTCTTT
2350373 TTTTTTTCTTT
1 TTTTTTTCTTT
2350384 TTTTTTTCTTT
1 TTTTTTTCTTT
2350395 TTTT
1 TTTT
2350399 CTTTGCTGGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (11 bp):
TTTTTTTCTTT
Found at i:2350383 original size:19 final size:19
Alignment explanation
Indices: 2350356--2350402 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
2350346 CTTGATTCAA
*
2350356 TTTTCCTTTTTCTCTTT-TT
1 TTTTTCTTTTT-TCTTTCTT
*
2350375 TTTTTCTTTTTTTTTTCTT
1 TTTTTCTTTTTTCTTTCTT
2350394 TTTTTCTTT
1 TTTTTCTTT
2350403 GCTGGATGAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 4 0.16
19 21 0.84
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (19 bp):
TTTTTCTTTTTTCTTTCTT
Found at i:2355724 original size:20 final size:21
Alignment explanation
Indices: 2355681--2355743 Score: 58
Period size: 20 Copynumber: 3.0 Consensus size: 21
2355671 TTAAAAAATA
*
2355681 AATAAATATAAAACATTT-TCTT
1 AATAAA-ATAAAA-ATTTATTTT
2355703 AA-AAAATAAAAATTTATTTT
1 AATAAAATAAAAATTTATTTT
* *
2355723 AATATAATAAGATATTTATTT
1 AATAAAATAA-AAATTTATTT
2355744 ATTTGAAAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
19 4 0.11
20 11 0.31
21 9 0.26
22 11 0.31
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.43
Consensus pattern (21 bp):
AATAAAATAAAAATTTATTTT
Found at i:2355771 original size:131 final size:132
Alignment explanation
Indices: 2355593--2355844 Score: 411
Period size: 131 Copynumber: 1.9 Consensus size: 132
2355583 TTCATATATA
* *
2355593 AATATAAGAGATATTTACTTATTTAGAAATATCAGAAAAGGGCTTCTAGGTGCCTTAAGACAGCT
1 AATATAAAAGATATTTACTTATTTAGAAATATCAGAAAAGGACTTCTAGGTGCCTTAAGACAGCT
2355658 CTTCTCTTTGATATTAAAAAATAAATAAATAT-AAAACA-TTTTCTTAAAAAATAAAAATTTATT
66 CTTCTCTTTGATATTAAAAAATAAATAAATATAAAAACATTTTTCTTAAAAAATAAAAATTTATT
2355721 TT
131 TT
* * *
2355723 AATATAATAAGATATTTATTTATTT-GAAAATATCAGAAAAGGACTTCTAGGTGCTTTAAGATAG
1 AATATAA-AAGATATTTACTTATTTAG-AAATATCAGAAAAGGACTTCTAGGTGCCTTAAGACAG
*
2355787 CTCTTCTCTTTGATATTAAAAAATAAATAAATATAAAAATATTTTTCTTAAAAAATAA
64 CTCTTCTCTTTGATATTAAAAAATAAATAAATATAAAAACATTTTTCTTAAAAAATAA
2355845 TAATAATAAA
Statistics
Matches: 112, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
130 8 0.07
131 83 0.74
132 5 0.04
133 16 0.14
ACGTcount: A:0.45, C:0.09, G:0.10, T:0.37
Consensus pattern (132 bp):
AATATAAAAGATATTTACTTATTTAGAAATATCAGAAAAGGACTTCTAGGTGCCTTAAGACAGCT
CTTCTCTTTGATATTAAAAAATAAATAAATATAAAAACATTTTTCTTAAAAAATAAAAATTTATT
TT
Found at i:2356233 original size:21 final size:20
Alignment explanation
Indices: 2356205--2356244 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
2356195 ATATAAAAAA
*
2356205 AAATTAAAACATTATAATTT
1 AAATTAAAACATTAAAATTT
*
2356225 AAATGTAAAATATTAAAATT
1 AAAT-TAAAACATTAAAATT
2356245 CAAGGGCCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.38
Consensus pattern (20 bp):
AAATTAAAACATTAAAATTT
Found at i:2357390 original size:3 final size:3
Alignment explanation
Indices: 2357382--2357426 Score: 72
Period size: 3 Copynumber: 14.7 Consensus size: 3
2357372 TATATTTATT
*
2357382 TAA TAA TAA TAA TATA TAA TAA TAA TAA TAA TAA TAA TAA AAA TA
1 TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
2357427 GTAAGGAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
3 36 0.92
4 3 0.08
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:2358133 original size:15 final size:15
Alignment explanation
Indices: 2358113--2358142 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
2358103 ATATCAATAC
2358113 CATTTTGCATACATT
1 CATTTTGCATACATT
*
2358128 CATTTTTCATACATT
1 CATTTTGCATACATT
2358143 ACTCATAAGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.20, G:0.03, T:0.50
Consensus pattern (15 bp):
CATTTTGCATACATT
Found at i:2365731 original size:13 final size:13
Alignment explanation
Indices: 2365715--2365776 Score: 50
Period size: 13 Copynumber: 5.4 Consensus size: 13
2365705 TATTCCAAGT
2365715 ATTCATTTTCGAA
1 ATTCATTTTCGAA
*
2365728 ATTCAATTT----
1 ATTCATTTTCGAA
2365737 ATTCATTTTCGAA
1 ATTCATTTTCGAA
*
2365750 ATTCAATTT----
1 ATTCATTTTCGAA
2365759 ATTCATTTTCGAA
1 ATTCATTTTCGAA
2365772 ATTCA
1 ATTCA
2365777 ATTTATTCAT
Statistics
Matches: 37, Mismatches: 4, Indels: 16
0.65 0.07 0.28
Matches are distributed among these distances:
9 16 0.43
13 21 0.57
ACGTcount: A:0.32, C:0.15, G:0.05, T:0.48
Consensus pattern (13 bp):
ATTCATTTTCGAA
Found at i:2365731 original size:22 final size:22
Alignment explanation
Indices: 2365714--2365787 Score: 148
Period size: 22 Copynumber: 3.4 Consensus size: 22
2365704 TTATTCCAAG
2365714 TATTCATTTTCGAAATTCAATT
1 TATTCATTTTCGAAATTCAATT
2365736 TATTCATTTTCGAAATTCAATT
1 TATTCATTTTCGAAATTCAATT
2365758 TATTCATTTTCGAAATTCAATT
1 TATTCATTTTCGAAATTCAATT
2365780 TATTCATT
1 TATTCATT
2365788 CATATAAACA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 52 1.00
ACGTcount: A:0.31, C:0.14, G:0.04, T:0.51
Consensus pattern (22 bp):
TATTCATTTTCGAAATTCAATT
Done.