Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000417.1 Hibiscus syriacus cultivar Beakdansim tig00000764_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: 2005044
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 9
Found at i:625825 original size:19 final size:19
Alignment explanation
Indices: 625735--625817 Score: 113
Period size: 20 Copynumber: 4.6 Consensus size: 19
625725 AAATTATAAA
625735 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
625754 CCGCATTGCGATTTTCATTT
1 -CGCATTGCGATTTTCATTT
*
625774 CGCATTGCGA--TTC-TCT
1 CGCATTGCGATTTTCATTT
625790 CG--TTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
625807 CGCATTGCGAT
1 CGCATTGCGAT
625818 AGTCATTTTT
Statistics
Matches: 56, Mismatches: 2, Indels: 11
0.81 0.03 0.16
Matches are distributed among these distances:
14 6 0.11
16 7 0.12
17 7 0.12
19 17 0.30
20 19 0.34
ACGTcount: A:0.14, C:0.24, G:0.18, T:0.43
Consensus pattern (19 bp):
CGCATTGCGATTTTCATTT
Found at i:625943 original size:14 final size:14
Alignment explanation
Indices: 625924--625960 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
625914 CATCAATTAC
625924 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
625938 ACAAATCATCTTTT
1 ACAAATCAACTTTT
625952 ACAAATCAA
1 ACAAATCAA
625961 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:627932 original size:14 final size:14
Alignment explanation
Indices: 627913--627969 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
627903 GCGAAATGAA
*
627913 AATCGCAACGACAG
1 AATCGCAACGAAAG
627927 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
627944 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
627960 AATCGCAACG
1 AATCGCAACG
627970 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:627940 original size:33 final size:33
Alignment explanation
Indices: 627894--627986 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
627884 GCGAAACCAA
*
627894 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
627927 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
627960 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
627987 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:627951 original size:19 final size:19
Alignment explanation
Indices: 627857--627991 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
627847 TAGTTTACTT
* *
627857 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
627877 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
627896 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
627915 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
627929 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
627948 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
627962 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
627981 TCGCAATGCGA
1 TCGCAACGCGA
627992 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:628009 original size:19 final size:19
Alignment explanation
Indices: 627987--628115 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
627977 AAAATCGCAA
627987 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
628006 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
628020 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
628039 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
628053 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
628072 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
628091 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
628111 TGCGA
1 TGCGA
628116 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:628029 original size:33 final size:33
Alignment explanation
Indices: 627987--628078 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
627977 AAAATCGCAA
627987 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
628020 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
628053 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
628079 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:628329 original size:92 final size:93
Alignment explanation
Indices: 628159--628537 Score: 735
Period size: 92 Copynumber: 4.1 Consensus size: 93
628149 TTGAATGGAT
628159 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
628224 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
628252 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
628316 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
628344 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
628408 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
628436 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
*
628501 AGTTTAGCAGAATTGGCAGCAACCGAAT
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
628529 AAATTTACT
1 AAATTTACT
628538 AAGCAATCTA
Statistics
Matches: 284, Mismatches: 1, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
92 184 0.65
93 100 0.35
ACGTcount: A:0.46, C:0.18, G:0.13, T:0.22
Consensus pattern (93 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:628488 original size:185 final size:185
Alignment explanation
Indices: 628159--628537 Score: 733
Period size: 185 Copynumber: 2.0 Consensus size: 185
628149 TTGAATGGAT
628159 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
628224 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
628289 TATATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
131 TATATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
628344 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
628408 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
*
628473 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAT
131 TA-TATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
628529 AAATTTACT
1 AAATTTACT
628538 AAGCAATCTA
Statistics
Matches: 192, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
184 92 0.48
185 100 0.52
ACGTcount: A:0.46, C:0.18, G:0.13, T:0.22
Consensus pattern (185 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
TATATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:630261 original size:14 final size:14
Alignment explanation
Indices: 630242--630331 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
630232 TTGAAATGAA
630242 AATCGCAACGAGAG
1 AATCGCAACGAGAG
630256 AATCGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
630273 ACAATCGCAACGAGAG
1 --AATCGCAACGAGAG
*
630289 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
630308 AATCGCAACGAGAG
1 AATCGCAACGAGAG
630322 AATCGCAACG
1 AATCGCAACG
630332 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:630279 original size:33 final size:33
Alignment explanation
Indices: 630234--630348 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
630224 TCTTTTGGTT
630234 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
630267 GAGATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
630300 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
630333 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
630349 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:630280 original size:19 final size:18
Alignment explanation
Indices: 630241--630353 Score: 88
Period size: 19 Copynumber: 6.8 Consensus size: 18
630231 GTTGAAATGA
630241 AAATCGCAA--CGAGA-G
1 AAATCGCAACGCGAGATG
630256 -AATCGCAACGCGAGATG
1 AAATCGCAACGCGAGATG
630273 ACAATCGCAA--CGAGA-G
1 A-AATCGCAACGCGAGATG
*
630289 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
630306 AAAATCGCAA--CGAGA-G
1 -AAATCGCAACGCGAGATG
*
630322 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
*
630339 AAAATCGCAATGCGA
1 -AAATCGCAACGCGA
630354 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:630384 original size:14 final size:14
Alignment explanation
Indices: 630365--630419 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
630355 TTTGGTTTCG
630365 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
630379 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
630398 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
630412 CGTTGCGA
1 CGTTGCGA
630420 CAGTCATTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
16 3 0.09
17 3 0.09
19 10 0.29
ACGTcount: A:0.09, C:0.25, G:0.24, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:630397 original size:33 final size:33
Alignment explanation
Indices: 630349--630419 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
630339 AAAATCGCAA
**
630349 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
630382 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
630415 TGCGA
1 TGCGA
630420 CAGTCATTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.08, C:0.23, G:0.25, T:0.44
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:630427 original size:33 final size:33
Alignment explanation
Indices: 630360--630441 Score: 119
Period size: 33 Copynumber: 2.5 Consensus size: 33
630350 GCGATTTTGG
***
630360 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
630393 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
*
630426 TTCTCTCGTTGCGATT
1 TT-TCGCGTTGCGATT
630442 TTCATTTATC
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
33 32 0.73
34 12 0.27
ACGTcount: A:0.10, C:0.26, G:0.22, T:0.43
Consensus pattern (33 bp):
TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
Found at i:630446 original size:20 final size:20
Alignment explanation
Indices: 630372--630460 Score: 75
Period size: 20 Copynumber: 4.8 Consensus size: 20
630362 TCGCGTTGCG
630372 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
630392 ATT-TCGCGTTGCG------
1 ATTCTCTCGTTGCGATTTTC
***
630405 ATTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTC
630425 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
630445 ATTTATCTCGTTGCGA
1 A-TTCTCTCGTTGCGA
630461 CTCTTCTGCA
Statistics
Matches: 55, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
13 3 0.05
14 9 0.16
19 9 0.16
20 21 0.38
21 13 0.24
ACGTcount: A:0.12, C:0.25, G:0.19, T:0.44
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATTTTC
Found at i:630582 original size:33 final size:33
Alignment explanation
Indices: 630540--630610 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
630530 AATACTAACT
*
630540 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
630573 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
630606 TGAAA
1 TGAAA
630611 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:630844 original size:22 final size:22
Alignment explanation
Indices: 630792--630846 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
630782 TGGTTGTGAG
**
630792 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
630814 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
630836 GGATTTCTTCG
1 GGATTTCTTCG
630847 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:631017 original size:20 final size:20
Alignment explanation
Indices: 630992--631184 Score: 219
Period size: 20 Copynumber: 9.6 Consensus size: 20
630982 CTTTAAATAT
630992 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
631012 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
631034 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
631053 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
631073 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
631093 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
631113 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
631133 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
631153 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
631173 CGCGTTGCGATT
1 CGCGTTGCGATT
631185 ATTGAAAATC
Statistics
Matches: 146, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 127 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:631179 original size:60 final size:60
Alignment explanation
Indices: 630992--631184 Score: 251
Period size: 60 Copynumber: 3.2 Consensus size: 60
630982 CTTTAAATAT
**
630992 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
631053 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
631113 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
631173 CGCGTTGCGATT
1 CGCGTTGCGATT
631185 ATTGAAAATC
Statistics
Matches: 111, Mismatches: 21, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
60 83 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:634014 original size:17 final size:17
Alignment explanation
Indices: 633992--634025 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
633982 CATTAATGTA
633992 TATGTTTATTACAAAGG
1 TATGTTTATTACAAAGG
634009 TATGTTTATTACAAAGG
1 TATGTTTATTACAAAGG
634026 AAATGAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.06, G:0.18, T:0.41
Consensus pattern (17 bp):
TATGTTTATTACAAAGG
Found at i:640640 original size:3 final size:3
Alignment explanation
Indices: 640632--640657 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
640622 CAAGTCAATT
640632 TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TT
640658 ATTATTATAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:641737 original size:69 final size:69
Alignment explanation
Indices: 641626--641761 Score: 254
Period size: 69 Copynumber: 2.0 Consensus size: 69
641616 TATGTGAAAC
*
641626 ATTCTACTTGATGCTACACATTTGCTTGTACACCGAGTGGCGATCCAAGTTGCTATAGATGGATG
1 ATTCTACTTGATGCTACACATTTGCTTGTACACCAAGTGGCGATCCAAGTTGCTATAGATGGATG
641691 ATGA
66 ATGA
*
641695 ATTCTACTTGATGCTACACATTTTCTTGTACACCAAGTGGCGATCCAAGTTGCTATAGATGGATG
1 ATTCTACTTGATGCTACACATTTGCTTGTACACCAAGTGGCGATCCAAGTTGCTATAGATGGATG
641760 AT
66 AT
641762 TGTCATCTTA
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
69 65 1.00
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.33
Consensus pattern (69 bp):
ATTCTACTTGATGCTACACATTTGCTTGTACACCAAGTGGCGATCCAAGTTGCTATAGATGGATG
ATGA
Found at i:654917 original size:6 final size:6
Alignment explanation
Indices: 654906--654932 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
654896 TGCAATATTC
654906 TCATTT TCATTT TCATTT TCATTT TCA
1 TCATTT TCATTT TCATTT TCATTT TCA
654933 ACAAAAACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.00, T:0.63
Consensus pattern (6 bp):
TCATTT
Found at i:664363 original size:99 final size:95
Alignment explanation
Indices: 664253--664446 Score: 334
Period size: 99 Copynumber: 2.0 Consensus size: 95
664243 ATTAGTGAAC
*
664253 TTCTTTATATATATAATATTTTAGTTTTAAAAGGCCTATTTTACTGTTATGGCATAGGATCACCA
1 TTCTTTATATATATAATATTTTAGTTTTAAAAGGCCTATTTTACTGTTATGGCATAGGACCACCA
664318 AAATTTACAGGACGCCATTGGGGATTAATAATGG
66 AAATTTACAGGACG-CA---GGGATTAATAATGG
*
664352 TTCTTTATATATATAATATTTTAGTTTTAAAAGGCTTATTTTACTGTTATGGCATAGGACCACCA
1 TTCTTTATATATATAATATTTTAGTTTTAAAAGGCCTATTTTACTGTTATGGCATAGGACCACCA
664417 AAATTTACAGGACGCAGGGATTAATAATGG
66 AAATTTACAGGACGCAGGGATTAATAATGG
664447 AGCAGGATGG
Statistics
Matches: 93, Mismatches: 2, Indels: 4
0.94 0.02 0.04
Matches are distributed among these distances:
95 14 0.15
98 2 0.02
99 77 0.83
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (95 bp):
TTCTTTATATATATAATATTTTAGTTTTAAAAGGCCTATTTTACTGTTATGGCATAGGACCACCA
AAATTTACAGGACGCAGGGATTAATAATGG
Found at i:665976 original size:3 final size:3
Alignment explanation
Indices: 665968--666003 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
665958 ATCAAGTAGC
*
665968 CTT CTT CTT CTT TTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
666004 GGGTTTTGGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
CTT
Found at i:667545 original size:12 final size:13
Alignment explanation
Indices: 667528--667556 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
667518 CACGTTCAGA
667528 TTTAAAA-AATAT
1 TTTAAAATAATAT
667540 TTTAAAATAATAT
1 TTTAAAATAATAT
667553 TTTA
1 TTTA
667557 TTTTTAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.44
13 9 0.56
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
TTTAAAATAATAT
Found at i:680653 original size:9 final size:9
Alignment explanation
Indices: 680641--680692 Score: 56
Period size: 9 Copynumber: 6.1 Consensus size: 9
680631 TAATATTTTG
680641 TATTTAATT
1 TATTTAATT
*
680650 TATTTAA-G
1 TATTTAATT
680658 TATTTAATT
1 TATTTAATT
680667 TATTTAA--
1 TATTTAATT
*
680674 TATTTTATT
1 TATTTAATT
*
680683 TAATTAATT
1 TATTTAATT
680692 T
1 T
680693 TTTTGCAGAT
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
7 6 0.17
8 7 0.20
9 22 0.63
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (9 bp):
TATTTAATT
Found at i:680662 original size:17 final size:17
Alignment explanation
Indices: 680640--680689 Score: 75
Period size: 17 Copynumber: 3.0 Consensus size: 17
680630 TTAATATTTT
680640 GTATTTAATTTATTTAA
1 GTATTTAATTTATTTAA
680657 GTATTTAATTTATTTAA
1 GTATTTAATTTATTTAA
* *
680674 -TATTTTATTTAATTAA
1 GTATTTAATTTATTTAA
680690 TTTTTTTGCA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
16 14 0.45
17 17 0.55
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (17 bp):
GTATTTAATTTATTTAA
Found at i:694916 original size:14 final size:16
Alignment explanation
Indices: 694880--694924 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 16
694870 AATTCTATTT
694880 TATTCATAATATATAAC
1 TATT-ATAATATATAAC
694897 TATTATAATAT-TAA-
1 TATTATAATATATAAC
*
694911 TTTTATAA-ATATAA
1 TATTATAATATATAA
694925 AATAAAACAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
13 2 0.08
14 10 0.38
15 3 0.12
16 7 0.27
17 4 0.15
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (16 bp):
TATTATAATATATAAC
Found at i:702831 original size:17 final size:18
Alignment explanation
Indices: 702811--702849 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
702801 ATTATATTAA
702811 TAAAAT-ATTAAATAAAG
1 TAAAATGATTAAATAAAG
* *
702828 TAAAATGTTTAAATAAAT
1 TAAAATGATTAAATAAAG
702846 TAAA
1 TAAA
702850 TACATAATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (18 bp):
TAAAATGATTAAATAAAG
Found at i:704125 original size:30 final size:30
Alignment explanation
Indices: 704089--704162 Score: 130
Period size: 30 Copynumber: 2.5 Consensus size: 30
704079 TCTTAAGTCG
704089 GAGGGTCACATTGAGAGAAAAAAATAATAT
1 GAGGGTCACATTGAGAGAAAAAAATAATAT
*
704119 GAGGGTCATATTGAGAGAAAAAAATAATAT
1 GAGGGTCACATTGAGAGAAAAAAATAATAT
*
704149 GAGGATCACATTGA
1 GAGGGTCACATTGA
704163 TTTTTTTAAG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.47, C:0.07, G:0.24, T:0.22
Consensus pattern (30 bp):
GAGGGTCACATTGAGAGAAAAAAATAATAT
Found at i:713965 original size:2 final size:2
Alignment explanation
Indices: 713958--714008 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
713948 TGTTTGTTTA
713958 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
714000 AT AT AT AT A
1 AT AT AT AT A
714009 GTTTTGAAGA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:720023 original size:13 final size:13
Alignment explanation
Indices: 719994--720046 Score: 61
Period size: 13 Copynumber: 4.0 Consensus size: 13
719984 AATGATAAAT
*
719994 AATAAAAATATTAC
1 AATAAAAA-AGTAC
*
720008 AATAAAAAAGTCC
1 AATAAAAAAGTAC
* *
720021 AATAAACAACTAC
1 AATAAAAAAGTAC
720034 AATAAAAAAGTAC
1 AATAAAAAAGTAC
720047 TAAATACAAG
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
13 24 0.75
14 8 0.25
ACGTcount: A:0.64, C:0.13, G:0.04, T:0.19
Consensus pattern (13 bp):
AATAAAAAAGTAC
Found at i:720981 original size:23 final size:23
Alignment explanation
Indices: 720955--720999 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
720945 CACCACAGCT
*
720955 CGTATAAATGCACCGAAGTGCCC
1 CGTAGAAATGCACCGAAGTGCCC
* *
720978 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
721000 ATAATGATGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.29, G:0.24, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCC
Found at i:721274 original size:149 final size:146
Alignment explanation
Indices: 720978--721278 Score: 521
Period size: 149 Copynumber: 2.0 Consensus size: 146
720968 CGAAGTGCCC
* * *
720978 CGTAGAATTGCACCGTAGTGCCATAATGATGTCCATAAGGACCACATAGAATTCTTTAAGAATCA
1 CGTAGAATTGCACCGTAGTCCCATAATAATGTCCATAAGGACCACATAGAATTCCTTAAGAATCA
* * *
721043 TATACATATACTATGGATCAGTATGTGTCTTTCAAGACTTCACACATGTTCCAAAGAATATACAT
66 TATACATATACTAAGGATCAGTATGTGTCTTTCAAAACCTCACACATGTTCCAAAGAATATACAT
721108 ATGTCCCAAAGAACCG
131 ATGTCCCAAAGAACCG
721124 CGTAGAATTGCACCGTAGTACCCTATAATAATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
1 CGTAGAATTGCACCGTAGT-CCC-ATAATAATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
721189 CATATACATATACTAAGGATCAAGTATGTGTCTTTCAAAACCTCACACATGTTCCAAAGAATATA
64 CATATACATATACTAAGGATC-AGTATGTGTCTTTCAAAACCTCACACATGTTCCAAAGAATATA
721254 CATATGTCCCAAAGAACCG
128 CATATGTCCCAAAGAACCG
721273 CGTAGA
1 CGTAGA
721279 CCCTCTACCC
Statistics
Matches: 146, Mismatches: 6, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
146 19 0.13
147 2 0.01
148 59 0.40
149 66 0.45
ACGTcount: A:0.37, C:0.21, G:0.15, T:0.27
Consensus pattern (146 bp):
CGTAGAATTGCACCGTAGTCCCATAATAATGTCCATAAGGACCACATAGAATTCCTTAAGAATCA
TATACATATACTAAGGATCAGTATGTGTCTTTCAAAACCTCACACATGTTCCAAAGAATATACAT
ATGTCCCAAAGAACCG
Found at i:728197 original size:149 final size:149
Alignment explanation
Indices: 727927--728230 Score: 554
Period size: 149 Copynumber: 2.0 Consensus size: 149
727917 TGAAGTGCCC
* *
727927 CGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
* * *
727992 CATATACATATACTATGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCAAAGAATATA
66 CATATACATATACTAAGGATCAAGTATGTGTCTTTCAAAACCTCACACATGTTCCAAAGAATATA
728057 CATATGTCCCAAAGAACCG
131 CATATGTCCCAAAGAACCG
*
728076 CGTAGAATTGCACCGTAGTGCCCTATAATAATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
728141 CATATACATATACTAAGGATCAAGTATGTGTCTTTCAAAACCTCACACATGTTCCAAAGAATATA
66 CATATACATATACTAAGGATCAAGTATGTGTCTTTCAAAACCTCACACATGTTCCAAAGAATATA
728206 CATATGTCCCAAAGAACCG
131 CATATGTCCCAAAGAACCG
728225 CGTAGA
1 CGTAGA
728231 CCCTCTACCC
Statistics
Matches: 149, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
149 149 1.00
ACGTcount: A:0.37, C:0.21, G:0.15, T:0.27
Consensus pattern (149 bp):
CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
CATATACATATACTAAGGATCAAGTATGTGTCTTTCAAAACCTCACACATGTTCCAAAGAATATA
CATATGTCCCAAAGAACCG
Found at i:747168 original size:14 final size:14
Alignment explanation
Indices: 747149--747183 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
747139 ACTCAAAGAT
747149 AACTTTCGATAATA
1 AACTTTCGATAATA
*
747163 AACTTTCGATATTA
1 AACTTTCGATAATA
747177 AACTTTC
1 AACTTTC
747184 ATTTTCTGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.37, C:0.17, G:0.06, T:0.40
Consensus pattern (14 bp):
AACTTTCGATAATA
Found at i:754381 original size:12 final size:10
Alignment explanation
Indices: 754341--754380 Score: 55
Period size: 10 Copynumber: 4.0 Consensus size: 10
754331 TTATCACACA
754341 AAATTCTCTC
1 AAATTCTCTC
754351 AAATTCTCT-
1 AAATTCTCTC
754360 AAATTTCTCTC
1 AAA-TTCTCTC
*
754371 AAATACTCTC
1 AAATTCTCTC
754381 TTTTTTTTAC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
9 3 0.11
10 21 0.78
11 3 0.11
ACGTcount: A:0.33, C:0.28, G:0.00, T:0.40
Consensus pattern (10 bp):
AAATTCTCTC
Found at i:754622 original size:111 final size:111
Alignment explanation
Indices: 754491--754704 Score: 392
Period size: 111 Copynumber: 1.9 Consensus size: 111
754481 GTATATATCT
*
754491 ACACTTTGCTGATACGGTAACATTTTAACATTTTAATTTAATTTAAATTATTAGTAATATTTAGT
1 ACACTTTGCTGATACGGTAACATTTTAACATTTTAATTTAATTTAAATTATTAGTAATAATTAGT
* *
754556 TGATTTATTTAATGCATGATTATTAAATTAATAATTAAATATCTCG
66 TGATTCATTTAATGCATGATTATTAAATTAAGAATTAAATATCTCG
754602 ACACTTTGCTGATACGGTAACATTTTAACATTTTAATTTAATTTAAATTATTAGTAATAATTAGT
1 ACACTTTGCTGATACGGTAACATTTTAACATTTTAATTTAATTTAAATTATTAGTAATAATTAGT
*
754667 TGATTCATTTAATGCATGATTATTAGATTAAGAATTAA
66 TGATTCATTTAATGCATGATTATTAAATTAAGAATTAA
754705 TTTTTGTAAT
Statistics
Matches: 99, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
111 99 1.00
ACGTcount: A:0.37, C:0.08, G:0.10, T:0.45
Consensus pattern (111 bp):
ACACTTTGCTGATACGGTAACATTTTAACATTTTAATTTAATTTAAATTATTAGTAATAATTAGT
TGATTCATTTAATGCATGATTATTAAATTAAGAATTAAATATCTCG
Found at i:756606 original size:21 final size:21
Alignment explanation
Indices: 756582--756621 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
756572 ACCTGCTCAG
756582 GACGAAGACGATGACGATGGT
1 GACGAAGACGATGACGATGGT
*
756603 GACGACGACGATGACGATG
1 GACGAAGACGATGACGATG
756622 ACAGCGAGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.17, G:0.38, T:0.12
Consensus pattern (21 bp):
GACGAAGACGATGACGATGGT
Found at i:756870 original size:35 final size:33
Alignment explanation
Indices: 756831--756915 Score: 91
Period size: 35 Copynumber: 2.5 Consensus size: 33
756821 ATATTTTAGT
756831 TAATTTTGTT-TATTACCATTTAATATCAATTATTG
1 TAATTTTGTTATATTACCATTTAAT-TC--TTATTG
*
756866 TAATTTGGTTATCATTTACCATTTAATTCTTATTG
1 TAATTTTGTTAT-A-TTACCATTTAATTCTTATTG
* *
756901 TAAGTTTGTTGTATT
1 TAATTTTGTTATATT
756916 TAAATATCAA
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
33 2 0.05
34 1 0.02
35 24 0.56
36 1 0.02
37 3 0.07
38 12 0.28
ACGTcount: A:0.27, C:0.08, G:0.09, T:0.55
Consensus pattern (33 bp):
TAATTTTGTTATATTACCATTTAATTCTTATTG
Found at i:771288 original size:53 final size:53
Alignment explanation
Indices: 771222--771328 Score: 189
Period size: 53 Copynumber: 2.0 Consensus size: 53
771212 ATTATTTTTT
*
771222 AGGATAAAATATACTCTAAATTATTTAATAAATGATTTTTTAAATACTACACAA
1 AGGATAAAATATACTCTAAATTATTTAATAAATGA-TTTTAAAATACTACACAA
771276 AGGAT-AAATATACTCTAAATTATTTAATAAATGATTTTAAAATACTACACAA
1 AGGATAAAATATACTCTAAATTATTTAATAAATGATTTTAAAATACTACACAA
771328 A
1 A
771329 AAGTAATTCA
Statistics
Matches: 52, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
52 18 0.35
53 29 0.56
54 5 0.10
ACGTcount: A:0.50, C:0.09, G:0.06, T:0.36
Consensus pattern (53 bp):
AGGATAAAATATACTCTAAATTATTTAATAAATGATTTTAAAATACTACACAA
Found at i:772117 original size:20 final size:20
Alignment explanation
Indices: 772092--772130 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
772082 TGAAACGTGT
772092 TGTTGCGATAGTGAAAAATG
1 TGTTGCGATAGTGAAAAATG
772112 TGTTGCGATAGTGAAAAAT
1 TGTTGCGATAGTGAAAAAT
772131 CCAAAAGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.36, C:0.05, G:0.28, T:0.31
Consensus pattern (20 bp):
TGTTGCGATAGTGAAAAATG
Found at i:772680 original size:19 final size:19
Alignment explanation
Indices: 772645--772681 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
772635 TGTGATACTG
*
772645 AAGATCGCATTATGATTTA
1 AAGATCGCATTACGATTTA
*
772664 AAGATCGCATTGCGATTT
1 AAGATCGCATTACGATTT
772682 TGTTGGTCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.32, C:0.14, G:0.19, T:0.35
Consensus pattern (19 bp):
AAGATCGCATTACGATTTA
Found at i:776454 original size:31 final size:31
Alignment explanation
Indices: 776419--776480 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
776409 CATGGCGCAT
*
776419 GCAAAGCTTCATCCTCTCACCACAGCTCGTA
1 GCAAAGCTTCATCCTCTCACCACAGATCGTA
* *
776450 GCAAAGCTTCATCTTCTCGCCACAGATCGTA
1 GCAAAGCTTCATCCTCTCACCACAGATCGTA
776481 TAGAACACTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.26, C:0.35, G:0.15, T:0.24
Consensus pattern (31 bp):
GCAAAGCTTCATCCTCTCACCACAGATCGTA
Found at i:781701 original size:79 final size:80
Alignment explanation
Indices: 781612--781761 Score: 194
Period size: 79 Copynumber: 1.9 Consensus size: 80
781602 TTAATATTTT
* * *
781612 TTTAATATTTTTGATAAATTATTATCTAAAATATTAATTTTGT-TACAAAAAATATTAATATTAA
1 TTTAACATTTTCGATAAAATATTATCTAAAATATTAATTTTGTCTACAAAAAATATTAATATTAA
*
781676 GTGCTAACTATAATA
66 ATGCTAACTATAATA
* * * * ***
781691 TTTAACATTTTCGGTAAAATATTATTTAAAATATTATTTTTTTCTATTGAAAATATTAATATTAA
1 TTTAACATTTTCGATAAAATATTATCTAAAATATTAATTTTGTCTACAAAAAATATTAATATTAA
781756 ATGCTA
66 ATGCTA
781762 CTTAAATTAT
Statistics
Matches: 59, Mismatches: 11, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
79 36 0.61
80 23 0.39
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.47
Consensus pattern (80 bp):
TTTAACATTTTCGATAAAATATTATCTAAAATATTAATTTTGTCTACAAAAAATATTAATATTAA
ATGCTAACTATAATA
Found at i:781722 original size:12 final size:12
Alignment explanation
Indices: 781705--781729 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
781695 ACATTTTCGG
781705 TAAAATATTATT
1 TAAAATATTATT
781717 TAAAATATTATT
1 TAAAATATTATT
781729 T
1 T
781730 TTTTCTATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TAAAATATTATT
Found at i:781835 original size:12 final size:12
Alignment explanation
Indices: 781818--781842 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
781808 TTTTAATAAA
781818 AAATAATATTTT
1 AAATAATATTTT
781830 AAATAATATTTT
1 AAATAATATTTT
781842 A
1 A
781843 CCAAAAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
AAATAATATTTT
Found at i:794789 original size:23 final size:23
Alignment explanation
Indices: 794771--794824 Score: 63
Period size: 26 Copynumber: 2.2 Consensus size: 23
794761 AATAAAATAT
*
794771 ATTTATTTCTTTTATTAAAAGAG
1 ATTTATTGCTTTTATTAAAAGAG
*
794794 ATTTATTGCTTTTTTATTTAAAAGAA
1 ATTTATTGC--TTTTA-TTAAAAGAG
794820 ATTTA
1 ATTTA
794825 ATAGCTCTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 8 0.31
25 5 0.19
26 13 0.50
ACGTcount: A:0.35, C:0.04, G:0.07, T:0.54
Consensus pattern (23 bp):
ATTTATTGCTTTTATTAAAAGAG
Found at i:794823 original size:26 final size:27
Alignment explanation
Indices: 794778--794838 Score: 81
Period size: 26 Copynumber: 2.3 Consensus size: 27
794768 TATATTTATT
* *
794778 TCTTTTA-TTAAAAGAGATTT-ATTGC
1 TCTTTTATTTAAAAGAAATTTAATAGC
*
794803 TTTTTTATTTAAAAGAAATTTAATAGC
1 TCTTTTATTTAAAAGAAATTTAATAGC
794830 TCTTTTATT
1 TCTTTTATT
794839 GGAATTAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 6 0.20
26 12 0.40
27 12 0.40
ACGTcount: A:0.33, C:0.07, G:0.08, T:0.52
Consensus pattern (27 bp):
TCTTTTATTTAAAAGAAATTTAATAGC
Found at i:798627 original size:7 final size:7
Alignment explanation
Indices: 798615--798640 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
798605 ATTGTTGAAT
798615 TTTTTCC
1 TTTTTCC
798622 TTTTTCC
1 TTTTTCC
798629 TTTTTCC
1 TTTTTCC
798636 TTTTT
1 TTTTT
798641 ATTTTATTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (7 bp):
TTTTTCC
Found at i:800269 original size:27 final size:27
Alignment explanation
Indices: 800223--800284 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
800213 GAGATTTATT
*
800223 TCTTTTA-TTAAAAGAGATTTATTACC
1 TCTTTTATTTAAAAGAGATTTAATACC
* *
800249 TCTTTTATTTAAAA-ACTATTTAATAGC
1 TCTTTTATTTAAAAGA-GATTTAATACC
800276 TCTTTTATT
1 TCTTTTATT
800285 AGAATTAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
26 8 0.26
27 23 0.74
ACGTcount: A:0.32, C:0.11, G:0.05, T:0.52
Consensus pattern (27 bp):
TCTTTTATTTAAAAGAGATTTAATACC
Found at i:802711 original size:33 final size:36
Alignment explanation
Indices: 802647--802715 Score: 90
Period size: 38 Copynumber: 1.9 Consensus size: 36
802637 AAAAGTCCAT
*
802647 AATTAAATAAAAACTTTATAATTGATGGTAAACAACCA
1 AATTAAATAAAAAC--TATAATTGATAGTAAACAACCA
802685 AATTAAATAAAAAC-ATAA-TGA-AGTAAACAAC
1 AATTAAATAAAAACTATAATTGATAGTAAACAAC
802716 TCTATCGATA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
33 9 0.30
34 3 0.10
35 4 0.13
38 14 0.47
ACGTcount: A:0.58, C:0.10, G:0.07, T:0.25
Consensus pattern (36 bp):
AATTAAATAAAAACTATAATTGATAGTAAACAACCA
Found at i:808300 original size:30 final size:30
Alignment explanation
Indices: 808266--808338 Score: 146
Period size: 30 Copynumber: 2.4 Consensus size: 30
808256 ACAACTTGAT
808266 GGGTCAGCACTCAGTAGGCAGCAGCAACTA
1 GGGTCAGCACTCAGTAGGCAGCAGCAACTA
808296 GGGTCAGCACTCAGTAGGCAGCAGCAACTA
1 GGGTCAGCACTCAGTAGGCAGCAGCAACTA
808326 GGGTCAGCACTCA
1 GGGTCAGCACTCA
808339 CTCGCCAGAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 43 1.00
ACGTcount: A:0.29, C:0.27, G:0.30, T:0.14
Consensus pattern (30 bp):
GGGTCAGCACTCAGTAGGCAGCAGCAACTA
Found at i:811315 original size:19 final size:19
Alignment explanation
Indices: 811291--811352 Score: 63
Period size: 19 Copynumber: 3.3 Consensus size: 19
811281 ATTCTAAAGC
811291 ATGTGTGATGACTTAATTG
1 ATGTGTGATGACTTAATTG
* * * *
811310 ATGTGTAATGTCAT-GTTG
1 ATGTGTGATGACTTAATTG
* *
811328 TTGTGTGATGAATTAATTG
1 ATGTGTGATGACTTAATTG
811347 ATGTGT
1 ATGTGT
811353 AATGTCATGT
Statistics
Matches: 31, Mismatches: 11, Indels: 2
0.70 0.25 0.05
Matches are distributed among these distances:
18 12 0.39
19 19 0.61
ACGTcount: A:0.24, C:0.03, G:0.27, T:0.45
Consensus pattern (19 bp):
ATGTGTGATGACTTAATTG
Found at i:811344 original size:37 final size:37
Alignment explanation
Indices: 811292--811367 Score: 143
Period size: 37 Copynumber: 2.1 Consensus size: 37
811282 TTCTAAAGCA
*
811292 TGTGTGATGACTTAATTGATGTGTAATGTCATGTTGT
1 TGTGTGATGAATTAATTGATGTGTAATGTCATGTTGT
811329 TGTGTGATGAATTAATTGATGTGTAATGTCATGTTGT
1 TGTGTGATGAATTAATTGATGTGTAATGTCATGTTGT
811366 TG
1 TG
811368 GTTCGTCCAT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.22, C:0.04, G:0.28, T:0.46
Consensus pattern (37 bp):
TGTGTGATGAATTAATTGATGTGTAATGTCATGTTGT
Found at i:818215 original size:3 final size:3
Alignment explanation
Indices: 818207--818232 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
818197 GAATTAGGTT
818207 TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TT
818233 AGAGTGAGAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:831405 original size:21 final size:21
Alignment explanation
Indices: 831381--831422 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
831371 GTAGTTATTT
831381 TAAACTTTATTTCAATTATCG
1 TAAACTTTATTTCAATTATCG
*
831402 TAAACTTTGTTTCAATTATCG
1 TAAACTTTATTTCAATTATCG
831423 AACTTGAAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.31, C:0.14, G:0.07, T:0.48
Consensus pattern (21 bp):
TAAACTTTATTTCAATTATCG
Found at i:831473 original size:32 final size:32
Alignment explanation
Indices: 831417--831509 Score: 115
Period size: 32 Copynumber: 3.0 Consensus size: 32
831407 TTTGTTTCAA
831417 TTATCGAACTT-GAAGTTTTAAGTATTTG-AT
1 TTATCGAACTTGGAAGTTTTAAGTATTTGAAT
831447 TTATCGAACTTGGAAGTTTTTAAGTA-TTGAAT
1 TTATCGAACTTGGAAG-TTTTAAGTATTTGAAT
** *
831479 TTATAAAACTTGGAA--TTTAAGTATTTCAAT
1 TTATCGAACTTGGAAGTTTTAAGTATTTGAAT
831509 T
1 T
831510 ATGTTGAGTT
Statistics
Matches: 56, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
29 8 0.14
30 17 0.30
31 7 0.12
32 24 0.43
ACGTcount: A:0.33, C:0.06, G:0.15, T:0.45
Consensus pattern (32 bp):
TTATCGAACTTGGAAGTTTTAAGTATTTGAAT
Found at i:835536 original size:21 final size:21
Alignment explanation
Indices: 835511--835558 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
835501 CCTAATATTG
835511 CAATGTCAAAATTAGGTGCAA
1 CAATGTCAAAATTAGGTGCAA
835532 CAATGTCAAAATTAGGTGCAA
1 CAATGTCAAAATTAGGTGCAA
*
835553 TAATGT
1 CAATGT
835559 TTGAAAATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.42, C:0.12, G:0.19, T:0.27
Consensus pattern (21 bp):
CAATGTCAAAATTAGGTGCAA
Found at i:849824 original size:38 final size:36
Alignment explanation
Indices: 849780--850073 Score: 195
Period size: 38 Copynumber: 8.2 Consensus size: 36
849770 ATATATTTTA
* *
849780 ATATAGTATAATTTTTAAAATACTTTTGAAAATATA-
1 ATATA-TATAGTTTTGAAAATACTTTTGAAAATATAT
* * ** *
849816 ATATATAGT-TTTTTTAAAATAACGGTTGTTAAATATAT
1 ATATATA-TAGTTTTGAAAAT-ACTTTTG-AAAATATAT
* *
849854 ATATAATATAGTTTTGAAAATACGATTT-AAAAAATAT
1 ATAT-ATATAGTTTTGAAAATAC-TTTTGAAAATATAT
* * *
849891 AT-TATATAATTTTGAAAACAGTTTTTGAAAATATAT
1 ATATATATAGTTTTGAAAATA-CTTTTGAAAATATAT
* *
849927 ATAATATATAGTTTTGAAAACGATTTTTGAAAATATAT
1 AT-ATATATAGTTTTGAAAA-TACTTTTGAAAATATAT
849965 ATATTATATAGTTTTGAAAATA----T----ATATA-
1 ATA-TATATAGTTTTGAAAATACTTTTGAAAATATAT
* * *
849993 ATATATA-ATTTTTGAAAACAATTTTTGAAAATATAT
1 ATATATATAGTTTTGAAAA-TACTTTTGAAAATATAT
* * *
850029 ATATTATATAGTTTTGAAAACA-TGTTAAAAATATAT
1 ATA-TATATAGTTTTGAAAATACTTTTGAAAATATAT
850065 ATATATATA
1 ATATATATA
850074 TATATAGTTT
Statistics
Matches: 209, Mismatches: 24, Indels: 51
0.74 0.08 0.18
Matches are distributed among these distances:
26 10 0.05
27 5 0.02
28 3 0.01
29 5 0.02
31 1 0.00
33 1 0.00
35 41 0.20
36 40 0.19
37 23 0.11
38 65 0.31
39 15 0.07
ACGTcount: A:0.46, C:0.02, G:0.08, T:0.44
Consensus pattern (36 bp):
ATATATATAGTTTTGAAAATACTTTTGAAAATATAT
Found at i:849874 original size:74 final size:70
Alignment explanation
Indices: 849780--849968 Score: 166
Period size: 74 Copynumber: 2.6 Consensus size: 70
849770 ATATATTTTA
* * * ** *
849780 ATATAGTATAATTTTTAAAATACTTTTGAAAATATAATATATAGTTTTTTTAAAATAACGGTTGT
1 ATATAATATAGTTTTGAAAATACTTTTGAAAATAT-ATATATA-TAATTTT-AAA-AACAGTTGT
849845 T-AAATATAT
62 TGAAA-ATAT
* * * *
849854 ATATAATATAGTTTTGAAAATACGATTT-AAAAAATATATTATATAATTTTGAAAACAGTTTTTG
1 ATATAATATAGTTTTGAAAATAC-TTTTGAAAATATATA-TATATAATTTTAAAAACAGTTGTTG
849918 AAAATAT
64 AAAATAT
* *
849925 ATATAATATATAGTTTTGAAAACGATTTTTGAAAATATATATAT
1 ATAT-A-ATATAGTTTTGAAAA-TACTTTTGAAAATATATATAT
849969 TATATAGTTT
Statistics
Matches: 94, Mismatches: 14, Indels: 15
0.76 0.11 0.12
Matches are distributed among these distances:
71 16 0.17
72 6 0.06
73 29 0.31
74 40 0.43
75 3 0.03
ACGTcount: A:0.46, C:0.03, G:0.08, T:0.43
Consensus pattern (70 bp):
ATATAATATAGTTTTGAAAATACTTTTGAAAATATATATATATAATTTTAAAAACAGTTGTTGAA
AATAT
Found at i:849941 original size:73 final size:75
Alignment explanation
Indices: 849846--850140 Score: 234
Period size: 64 Copynumber: 4.0 Consensus size: 75
849836 AACGGTTGTT
849846 AAATATATATATAATATAGTTTTGAAAATACGA-TTT-AAAA-A-ATATATTATATAATTTTGAA
1 AAATATATATATAATATAGTTTTG-AAA-ACGATTTTGAAAATATATATATTATATAATTTTGAA
849907 AACAGTTTTTGA
64 AACAGTTTTTGA
*
849919 AAATATATATA-ATATATAGTTTTGAAAACGATTTTTGAAAATATATATATTATATAGTTTTG-A
1 AAATATATATATA-ATATAGTTTTGAAAACGA-TTTTGAAAATATATATATTATATAATTTTGAA
849982 AA-A-----T--
64 AACAGTTTTTGA
* * * *
849986 ATATATA-ATAT-ATA-ATTTTTGAAAACAATTTTTGAAAATATATATATTATATAGTTTTGAAA
1 AAATATATATATAATATAGTTTTGAAAACGA-TTTTGAAAATATATATATTATATAATTTTGAAA
***
850048 ACA-TGTTAAAA
65 ACAGT-TTTTGA
* * *
850059 ATATATATATATATATATATAGTTTTTTTGAAAAC-ATTTTCAAAAATATATATAATATATTATT
1 A-A-ATATATATATA-ATATAG---TTTTGAAAACGATTTT-GAAAATATATATATTATATAATT
850123 TTGAAAAC-GTTTTTGA
59 TTGAAAACAGTTTTTGA
850139 AA
1 AA
850141 TATTATTTTG
Statistics
Matches: 181, Mismatches: 14, Indels: 48
0.74 0.06 0.20
Matches are distributed among these distances:
64 43 0.24
65 6 0.03
66 4 0.02
67 6 0.03
69 1 0.01
71 4 0.02
72 4 0.02
73 26 0.14
74 5 0.03
75 9 0.05
76 21 0.12
78 3 0.02
79 2 0.01
80 8 0.04
81 29 0.16
82 10 0.06
ACGTcount: A:0.46, C:0.03, G:0.07, T:0.43
Consensus pattern (75 bp):
AAATATATATATAATATAGTTTTGAAAACGATTTTGAAAATATATATATTATATAATTTTGAAAA
CAGTTTTTGA
Found at i:849980 original size:25 final size:26
Alignment explanation
Indices: 849951--850010 Score: 95
Period size: 25 Copynumber: 2.3 Consensus size: 26
849941 TGAAAACGAT
*
849951 TTTTGAAAATATATATATTATAT-AG
1 TTTTGAAAATATATATAATATATAAG
*
849976 TTTTGAAAATATATATAATATATAAT
1 TTTTGAAAATATATATAATATATAAG
850002 TTTTGAAAA
1 TTTTGAAAA
850011 CAATTTTTGA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 22 0.69
26 10 0.31
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (26 bp):
TTTTGAAAATATATATAATATATAAG
Found at i:850012 original size:102 final size:100
Alignment explanation
Indices: 849887--850075 Score: 299
Period size: 102 Copynumber: 1.9 Consensus size: 100
849877 GATTTAAAAA
* *
849887 ATATATTATATAATTTTGAAAACAGTTTTTGAAAATATATATAATATATAGTTTTGAAAACGATT
1 ATATAATATATAATTTTGAAAACAATTTTTGAAAATATATATAATATATAGTTTTGAAAAC-A-T
* *
849952 TTTGAAAATATATATAT-TATATAGTTTTGAAAATAT
64 GTTAAAAATATATATATATATATAGTTTTGAAAATAT
*
849988 ATATAATATATAATTTTTGAAAACAATTTTTGAAAATATATATATTATATAGTTTTGAAAACATG
1 ATATAATATATAA-TTTTGAAAACAATTTTTGAAAATATATATAATATATAGTTTTGAAAACATG
850053 TTAAAAATATATATATATATATA
65 TTAAAAATATATATATATATATA
850076 TATAGTTTTT
Statistics
Matches: 81, Mismatches: 5, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
100 16 0.20
101 19 0.23
102 46 0.57
ACGTcount: A:0.47, C:0.02, G:0.07, T:0.44
Consensus pattern (100 bp):
ATATAATATATAATTTTGAAAACAATTTTTGAAAATATATATAATATATAGTTTTGAAAACATGT
TAAAAATATATATATATATATAGTTTTGAAAATAT
Found at i:850017 original size:13 final size:13
Alignment explanation
Indices: 849999--850023 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
849989 TATAATATAT
849999 AATTTTTGAAAAC
1 AATTTTTGAAAAC
850012 AATTTTTGAAAA
1 AATTTTTGAAAA
850024 TATATATATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.04, G:0.08, T:0.40
Consensus pattern (13 bp):
AATTTTTGAAAAC
Found at i:850017 original size:64 final size:63
Alignment explanation
Indices: 849913--850048 Score: 245
Period size: 64 Copynumber: 2.1 Consensus size: 63
849903 TGAAAACAGT
*
849913 TTTTGAAAATATATATAATATATAGTTTTGAAAACGATTTTTGAAAATATATATATTATATAG
1 TTTTGAAAATATATATAATATATAGTTTTGAAAACAATTTTTGAAAATATATATATTATATAG
*
849976 TTTTGAAAATATATATAATATATAATTTTTGAAAACAATTTTTGAAAATATATATATTATATAG
1 TTTTGAAAATATATATAATATAT-AGTTTTGAAAACAATTTTTGAAAATATATATATTATATAG
850040 TTTTGAAAA
1 TTTTGAAAA
850049 CATGTTAAAA
Statistics
Matches: 70, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
63 23 0.33
64 47 0.67
ACGTcount: A:0.46, C:0.01, G:0.08, T:0.45
Consensus pattern (63 bp):
TTTTGAAAATATATATAATATATAGTTTTGAAAACAATTTTTGAAAATATATATATTATATAG
Found at i:850022 original size:39 final size:38
Alignment explanation
Indices: 849976--850140 Score: 172
Period size: 39 Copynumber: 4.2 Consensus size: 38
849966 TATTATATAG
849976 TTTTGAAAATATATATAATATATAATTTTTGAAAACAAT
1 TTTTGAAAATATATATAATATATAATTTTTGAAAAC-AT
* *
850015 TTTTGAAAATATATATATTATAT-AGTTTTGAAAACAT
1 TTTTGAAAATATATATAATATATAATTTTTGAAAACAT
* **
850052 GTTAAAAATATATATATATATATATATAGTTTTTTTGAAAACAT
1 TTTTGAAA-ATATATATA-ATATATA-A---TTTTTGAAAACAT
** * *
850096 TTTCAAAAATATATATAATATATTA-TTTTGAAAACGT
1 TTTTGAAAATATATATAATATATAATTTTTGAAAACAT
850133 TTTTGAAA
1 TTTTGAAA
850141 TATTATTTTG
Statistics
Matches: 106, Mismatches: 13, Indels: 16
0.79 0.10 0.12
Matches are distributed among these distances:
37 24 0.23
38 20 0.19
39 27 0.25
41 2 0.02
42 6 0.06
43 9 0.08
44 18 0.17
ACGTcount: A:0.45, C:0.03, G:0.07, T:0.45
Consensus pattern (38 bp):
TTTTGAAAATATATATAATATATAATTTTTGAAAACAT
Found at i:850088 original size:44 final size:42
Alignment explanation
Indices: 850023--850118 Score: 135
Period size: 44 Copynumber: 2.3 Consensus size: 42
850013 ATTTTTGAAA
850023 ATATATATAT-TATATAGTTTTGAAAACATGTT-AAAAATAT
1 ATATATATATATATATAGTTTTGAAAACATGTTCAAAAATAT
*
850063 ATATATATATATATATAGTTTTTTTGAAAACATTTTCAAAAATAT
1 ATATATATATATATATAG---TTTTGAAAACATGTTCAAAAATAT
850108 ATATA-ATATAT
1 ATATATATATAT
850119 TATTTTGAAA
Statistics
Matches: 50, Mismatches: 1, Indels: 6
0.88 0.02 0.11
Matches are distributed among these distances:
40 10 0.20
41 7 0.14
44 20 0.40
45 13 0.26
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (42 bp):
ATATATATATATATATAGTTTTGAAAACATGTTCAAAAATAT
Found at i:850142 original size:81 final size:77
Alignment explanation
Indices: 849976--850143 Score: 198
Period size: 81 Copynumber: 2.1 Consensus size: 77
849966 TATTATATAG
** *
849976 TTTTGAAA-ATATATATAATATATAATTTTTGAAAACAATTTTTGAAAATATATATATTATATAG
1 TTTTGAAATATATATATAATATATAATTTTTGAAAACAATTTTCAAAAATATATATAATATATAG
850040 TTTTGAAAACAT
66 TTTTGAAAACAT
* **
850052 GTTAAAAATATATATATATATATATATAGTTTTTTTGAAAAC-ATTTTCAAAAATATATATAATA
1 TTTTGAAATATATATATA-ATATATA-A---TTTTTGAAAACAATTTTCAAAAATATATATAATA
*
850116 TATTA-TTTTGAAAACGT
61 TA-TAGTTTTGAAAACAT
850133 TTTTGAAATAT
1 TTTTGAAATAT
850144 TATTTTGAAA
Statistics
Matches: 75, Mismatches: 10, Indels: 9
0.80 0.11 0.10
Matches are distributed among these distances:
76 5 0.07
77 9 0.12
78 7 0.09
79 1 0.01
81 40 0.53
82 13 0.17
ACGTcount: A:0.45, C:0.03, G:0.07, T:0.45
Consensus pattern (77 bp):
TTTTGAAATATATATATAATATATAATTTTTGAAAACAATTTTCAAAAATATATATAATATATAG
TTTTGAAAACAT
Found at i:850274 original size:12 final size:12
Alignment explanation
Indices: 850244--850309 Score: 51
Period size: 12 Copynumber: 5.1 Consensus size: 12
850234 TTTTCGAAAA
850244 TTATTATATTATTT
1 TTATTAT-TT-TTT
*
850258 ATATTATTTTTT
1 TTATTATTTTTT
*
850270 TTATTCTTTTTT
1 TTATTATTTTTT
*
850282 CCTTATTCTTTTTT
1 --TTATTATTTTTT
*
850296 TAATTATTATTTT
1 TTATTATT-TTTT
850309 T
1 T
850310 CCTTTTTTCA
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
12 19 0.43
13 7 0.16
14 18 0.41
ACGTcount: A:0.20, C:0.06, G:0.00, T:0.74
Consensus pattern (12 bp):
TTATTATTTTTT
Found at i:850281 original size:14 final size:14
Alignment explanation
Indices: 850264--850296 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
850254 ATTTATATTA
850264 TTTTTT-TTATTCT
1 TTTTTTCTTATTCT
*
850277 TTTTTCCTTATTCT
1 TTTTTTCTTATTCT
850291 TTTTTT
1 TTTTTT
850297 AATTATTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
13 5 0.29
14 12 0.71
ACGTcount: A:0.06, C:0.12, G:0.00, T:0.82
Consensus pattern (14 bp):
TTTTTTCTTATTCT
Found at i:851395 original size:17 final size:17
Alignment explanation
Indices: 851375--851407 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
851365 AGTTTTTTTT
851375 ATTTCTTTCTTTTTCTA
1 ATTTCTTTCTTTTTCTA
*
851392 ATTTTTTTCTTTTTCT
1 ATTTCTTTCTTTTTCT
851408 TATATTTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.09, C:0.15, G:0.00, T:0.76
Consensus pattern (17 bp):
ATTTCTTTCTTTTTCTA
Found at i:851682 original size:12 final size:12
Alignment explanation
Indices: 851665--851691 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
851655 GAATCAAGTT
851665 TTTAAATTTCAA
1 TTTAAATTTCAA
851677 TTTAAATTTCAA
1 TTTAAATTTCAA
851689 TTT
1 TTT
851692 TCGCGATTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.56
Consensus pattern (12 bp):
TTTAAATTTCAA
Found at i:857800 original size:2 final size:2
Alignment explanation
Indices: 857793--857843 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
857783 TTATTAATAC
857793 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
857835 TA TA TA TA T
1 TA TA TA TA T
857844 GCTGATTTAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:866620 original size:20 final size:20
Alignment explanation
Indices: 866595--866654 Score: 59
Period size: 20 Copynumber: 2.9 Consensus size: 20
866585 TCTAAATCAT
866595 TTTTCAAACAATCATTTTGC
1 TTTTCAAACAATCATTTTGC
* *
866615 TTTTCAAA-AGTAACTTTTGC
1 TTTTCAAACAATCA-TTTTGC
*
866635 TTTTAAAACCATATCATTTT
1 TTTTCAAA-CA-ATCATTTT
866655 CAACTATAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
19 3 0.10
20 21 0.68
22 5 0.16
23 2 0.06
ACGTcount: A:0.32, C:0.17, G:0.05, T:0.47
Consensus pattern (20 bp):
TTTTCAAACAATCATTTTGC
Found at i:884319 original size:15 final size:15
Alignment explanation
Indices: 884301--884330 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
884291 TGGAGAGGGC
884301 GGATGCGGGGCGGGT
1 GGATGCGGGGCGGGT
884316 GGATGCGGGGCGGGT
1 GGATGCGGGGCGGGT
884331 AAGATCTCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.07, C:0.13, G:0.67, T:0.13
Consensus pattern (15 bp):
GGATGCGGGGCGGGT
Found at i:890699 original size:12 final size:12
Alignment explanation
Indices: 890660--890706 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
890650 AACTTTATAA
890660 AATTAAAATTTT
1 AATTAAAATTTT
* *
890672 TATTAATAA-TTG
1 AATTAA-AATTTT
890684 AATTAAAATTTT
1 AATTAAAATTTT
*
890696 AATTATAATTT
1 AATTAAAATTT
890707 GAGAATTATA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
11 2 0.07
12 24 0.86
13 2 0.07
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (12 bp):
AATTAAAATTTT
Found at i:890708 original size:24 final size:24
Alignment explanation
Indices: 890660--890705 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
890650 AACTTTATAA
*
890660 AATTAAAATTTTTATTAATAATTG
1 AATTAAAATTTTAATTAATAATTG
890684 AATTAAAATTTTAATT-ATAATT
1 AATTAAAATTTTAATTAATAATT
890706 TGAGAATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 6 0.29
24 15 0.71
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (24 bp):
AATTAAAATTTTAATTAATAATTG
Found at i:894947 original size:10 final size:10
Alignment explanation
Indices: 894932--894956 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
894922 TTTATCACAC
894932 CAAATTTTCT
1 CAAATTTTCT
894942 CAAATTTTCT
1 CAAATTTTCT
894952 CAAAT
1 CAAAT
894957 ACTCTATCTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.36, C:0.20, G:0.00, T:0.44
Consensus pattern (10 bp):
CAAATTTTCT
Found at i:895041 original size:17 final size:18
Alignment explanation
Indices: 895004--895044 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
894994 ATATTATGTA
*
895004 TTTAATTTATTTAAGTAT
1 TTTACTTTATTTAAGTAT
895022 TTTACTTTATTTAA-TAT
1 TTTACTTTATTTAAGTAT
895039 TTTACT
1 TTTACT
895045 AATATAATTC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.63
Consensus pattern (18 bp):
TTTACTTTATTTAAGTAT
Found at i:900325 original size:19 final size:19
Alignment explanation
Indices: 900272--900338 Score: 57
Period size: 19 Copynumber: 3.5 Consensus size: 19
900262 ATATAATCGG
* *
900272 AAAATCTTATATAATTTTA-
1 AAAATTTTA-ATATTTTTAT
* *
900291 AATATTTTGAAAATTTTTAT
1 AAAATTTT-AATATTTTTAT
900311 AAAATTTTAATATTTTT-T
1 AAAATTTTAATATTTTTAT
900329 ATAAATTTTA
1 A-AAATTTTA
900339 TCTTATTTTT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
18 2 0.05
19 29 0.74
20 8 0.21
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (19 bp):
AAAATTTTAATATTTTTAT
Found at i:900327 original size:29 final size:30
Alignment explanation
Indices: 900278--900337 Score: 79
Period size: 29 Copynumber: 2.0 Consensus size: 30
900268 TCGGAAAATC
*
900278 TTATATAATTTTAAATATTTTGA-AAATTT
1 TTATAAAATTTTAAATATTTTGATAAATTT
*
900307 TTATAAAATTTT-AATATTTTTTATAAATTT
1 TTATAAAATTTTAAATA-TTTTGATAAATTT
900337 T
1 T
900338 ATCTTATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
28 4 0.15
29 16 0.59
30 7 0.26
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (30 bp):
TTATAAAATTTTAAATATTTTGATAAATTT
Found at i:900339 original size:29 final size:28
Alignment explanation
Indices: 900271--900326 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
900261 GATATAATCG
* *
900271 GAAAATCTTATATAATTTTAAATATTTT
1 GAAAATTTTATAAAATTTTAAATATTTT
900299 GAAAATTTTTATAAAATTTT-AATATTTT
1 GAAAA-TTTTATAAAATTTTAAATATTTT
900327 TTATAAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 13 0.52
29 12 0.48
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.52
Consensus pattern (28 bp):
GAAAATTTTATAAAATTTTAAATATTTT
Found at i:903914 original size:38 final size:38
Alignment explanation
Indices: 903867--903982 Score: 205
Period size: 38 Copynumber: 3.1 Consensus size: 38
903857 GTGGAAACAC
* * *
903867 GGTCGTTCCTCTGTAATGCTATCAACTCCCGCAGTGGT
1 GGTCGTTCCTCTGTAATGGTATCAGCTCCTGCAGTGGT
903905 GGTCGTTCCTCTGTAATGGTATCAGCTCCTGCAGTGGT
1 GGTCGTTCCTCTGTAATGGTATCAGCTCCTGCAGTGGT
903943 GGTCGTTCCTCTGTAATGGTATCAGCTCCTGCAGTGGT
1 GGTCGTTCCTCTGTAATGGTATCAGCTCCTGCAGTGGT
903981 GG
1 GG
903983 AAACACGGTC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
38 75 1.00
ACGTcount: A:0.14, C:0.25, G:0.28, T:0.33
Consensus pattern (38 bp):
GGTCGTTCCTCTGTAATGGTATCAGCTCCTGCAGTGGT
Found at i:903934 original size:20 final size:20
Alignment explanation
Indices: 903911--903972 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 20
903901 TGGTGGTCGT
903911 TCCTCTGTAATGGTATCAGC
1 TCCTCTGTAATGGTATCAGC
* * * *
903931 T-C-CTGCAGTGGTGGTC-GT
1 TCCTCTGTAATGGT-ATCAGC
903949 TCCTCTGTAATGGTATCAGC
1 TCCTCTGTAATGGTATCAGC
903969 TCCT
1 TCCT
903973 GCAGTGGTGG
Statistics
Matches: 30, Mismatches: 8, Indels: 8
0.65 0.17 0.17
Matches are distributed among these distances:
18 10 0.33
19 6 0.20
20 14 0.47
ACGTcount: A:0.15, C:0.26, G:0.24, T:0.35
Consensus pattern (20 bp):
TCCTCTGTAATGGTATCAGC
Found at i:906557 original size:14 final size:14
Alignment explanation
Indices: 906523--906555 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
906513 AAACCCTACA
*
906523 TTAGGGTTTATAAT
1 TTAGGGTTTATAAG
906537 TTAGGGTTT-TAAG
1 TTAGGGTTTATAAG
906550 TTAGGG
1 TTAGGG
906556 GTAATTTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 9 0.50
14 9 0.50
ACGTcount: A:0.24, C:0.00, G:0.30, T:0.45
Consensus pattern (14 bp):
TTAGGGTTTATAAG
Found at i:907186 original size:19 final size:19
Alignment explanation
Indices: 907170--907268 Score: 90
Period size: 19 Copynumber: 4.9 Consensus size: 19
907160 TTTGAAAAAA
907170 TGTTGCGATAGTTAAAATG
1 TGTTGCGATAGTTAAAATG
*
907189 TGTTGTGATAGTTAAAATG
1 TGTTGCGATAGTTAAAATG
*
907208 TGTTGCGAGAGTTTGAAAAACGTG
1 TGTTGCGATAG-TT--AAAA--TG
** *
907232 TTGTTGCGATAGCGAAAAAG
1 -TGTTGCGATAGTTAAAATG
*
907252 TGTTGCGATAGTGAAAA
1 TGTTGCGATAGTTAAAA
907269 ATCCAAAATA
Statistics
Matches: 66, Mismatches: 8, Indels: 12
0.77 0.09 0.14
Matches are distributed among these distances:
19 43 0.65
20 3 0.05
22 8 0.12
24 2 0.03
25 10 0.15
ACGTcount: A:0.32, C:0.06, G:0.29, T:0.32
Consensus pattern (19 bp):
TGTTGCGATAGTTAAAATG
Found at i:907574 original size:6 final size:6
Alignment explanation
Indices: 907563--907587 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
907553 TCGTCCCATC
907563 TCGTGG TCGTGG TCGTGG TCGTGG T
1 TCGTGG TCGTGG TCGTGG TCGTGG T
907588 AATACGTGTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.16, G:0.48, T:0.36
Consensus pattern (6 bp):
TCGTGG
Found at i:907662 original size:40 final size:40
Alignment explanation
Indices: 907618--907949 Score: 165
Period size: 40 Copynumber: 8.3 Consensus size: 40
907608 CCGCGCGGAT
* *
907618 ATCGCGTTGCGATAGT-CAGAATCACGTTGCGATAGTCATA
1 ATCGCGTTGCGAT-GTACAGAATCACATTGCGATAGTCAAA
* * * *
907658 ATCGCGTTGCGATTTACATATTCGCATTGCGATAGTCAAA
1 ATCGCGTTGCGATGTACAGAATCACATTGCGATAGTCAAA
* ** * * * ** *
907698 ATCGCGTTGCGAATCTGGA-AACTGA-TTTGCGATACTGGAG
1 ATCGCGTTGCG-ATGTACAGAA-TCACATTGCGATAGTCAAA
* * *
907738 ATCGCGTTGCGATTTACATATTCACATTGCGATAGTCAAA
1 ATCGCGTTGCGATGTACAGAATCACATTGCGATAGTCAAA
* ** * * * ** *
907778 ATCGCGTTGCGAATCTGGA-AACTGA-TTTGCGATACTGGAG
1 ATCGCGTTGCG-ATGTACAGAA-TCACATTGCGATAGTCAAA
* * *
907818 ATCGCGTTGCGATTTACATATTCACATTGCGATAGTCAAA
1 ATCGCGTTGCGATGTACAGAATCACATTGCGATAGTCAAA
* ** * * * ** *
907858 ATCGCGTTGCGAATCTGGA-AATTGA-TTTGCGATACTGGAG
1 ATCGCGTTGCG-ATGTACAGAA-TCACATTGCGATAGTCAAA
* * * *
907898 ATCGCGTTGCGATTTACATATTCGCATTGCGATAGTCAAA
1 ATCGCGTTGCGATGTACAGAATCACATTGCGATAGTCAAA
907938 ATCGCGTTGCGA
1 ATCGCGTTGCGA
907950 AACTGGAAAC
Statistics
Matches: 211, Mismatches: 68, Indels: 26
0.69 0.22 0.09
Matches are distributed among these distances:
39 18 0.09
40 176 0.83
41 17 0.08
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (40 bp):
ATCGCGTTGCGATGTACAGAATCACATTGCGATAGTCAAA
Found at i:907677 original size:20 final size:20
Alignment explanation
Indices: 907618--907709 Score: 114
Period size: 20 Copynumber: 4.6 Consensus size: 20
907608 CCGCGCGGAT
*
907618 ATCGCGTTGCGATAGTCAGA
1 ATCGCGTTGCGATAGTCATA
*
907638 ATCACGTTGCGATAGTCATA
1 ATCGCGTTGCGATAGTCATA
*
907658 ATCGCGTTGCGAT-TTACATA
1 ATCGCGTTGCGATAGT-CATA
* * *
907678 TTCGCATTGCGATAGTCAAA
1 ATCGCGTTGCGATAGTCATA
907698 ATCGCGTTGCGA
1 ATCGCGTTGCGA
907710 ATCTGGAAAC
Statistics
Matches: 60, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
19 1 0.02
20 58 0.97
21 1 0.02
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (20 bp):
ATCGCGTTGCGATAGTCATA
Found at i:907751 original size:80 final size:80
Alignment explanation
Indices: 907658--907993 Score: 636
Period size: 80 Copynumber: 4.2 Consensus size: 80
907648 GATAGTCATA
*
907658 ATCGCGTTGCGATTTACATATTCGCATTGCGATAGTCAAAATCGCGTTGCGAATCTGGAAACTGA
1 ATCGCGTTGCGATTTACATATTCACATTGCGATAGTCAAAATCGCGTTGCGAATCTGGAAACTGA
907723 TTTGCGATACTGGAG
66 TTTGCGATACTGGAG
907738 ATCGCGTTGCGATTTACATATTCACATTGCGATAGTCAAAATCGCGTTGCGAATCTGGAAACTGA
1 ATCGCGTTGCGATTTACATATTCACATTGCGATAGTCAAAATCGCGTTGCGAATCTGGAAACTGA
907803 TTTGCGATACTGGAG
66 TTTGCGATACTGGAG
*
907818 ATCGCGTTGCGATTTACATATTCACATTGCGATAGTCAAAATCGCGTTGCGAATCTGGAAATTGA
1 ATCGCGTTGCGATTTACATATTCACATTGCGATAGTCAAAATCGCGTTGCGAATCTGGAAACTGA
907883 TTTGCGATACTGGAG
66 TTTGCGATACTGGAG
* *
907898 ATCGCGTTGCGATTTACATATTCGCATTGCGATAGTCAAAATCGCGTTGCGAAACTGGAAACTGA
1 ATCGCGTTGCGATTTACATATTCACATTGCGATAGTCAAAATCGCGTTGCGAATCTGGAAACTGA
907963 TTTGCGATACTGGAG
66 TTTGCGATACTGGAG
907978 ATCGCGTTGCGATTTA
1 ATCGCGTTGCGATTTA
907994 GAGATCGCAT
Statistics
Matches: 251, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
80 251 1.00
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.30
Consensus pattern (80 bp):
ATCGCGTTGCGATTTACATATTCACATTGCGATAGTCAAAATCGCGTTGCGAATCTGGAAACTGA
TTTGCGATACTGGAG
Found at i:907827 original size:20 final size:20
Alignment explanation
Indices: 907776--907990 Score: 82
Period size: 20 Copynumber: 10.8 Consensus size: 20
907766 GCGATAGTCA
907776 AAATCGCGTTGCGA-ATCTGG
1 AAATCGCGTTGCGATA-CTGG
**
907796 AAA-CTGATTTGCGATACTGG
1 AAATC-GCGTTGCGATACTGG
* * **
907816 AGATCGCGTTGCGAT-TTAC
1 AAATCGCGTTGCGATACTGG
* * * * **
907835 ATATTCACATTGCGATAGTCA
1 A-AATCGCGTTGCGATACTGG
907856 AAATCGCGTTGCGA-ATCTGG
1 AAATCGCGTTGCGATA-CTGG
* **
907876 AAATTGATTTGCGATACTGG
1 AAATCGCGTTGCGATACTGG
* * **
907896 AGATCGCGTTGCGAT-TTAC
1 AAATCGCGTTGCGATACTGG
* * * **
907915 ATATTCGCATTGCGATAGTCA
1 A-AATCGCGTTGCGATACTGG
*
907936 AAATCGCGTTGCGAAACTGG
1 AAATCGCGTTGCGATACTGG
**
907956 AAA-CTGATTTGCGATACTGG
1 AAATC-GCGTTGCGATACTGG
*
907976 AGATCGCGTTGCGAT
1 AAATCGCGTTGCGAT
907991 TTAGAGATCG
Statistics
Matches: 135, Mismatches: 49, Indels: 22
0.66 0.24 0.11
Matches are distributed among these distances:
19 7 0.05
20 120 0.89
21 8 0.06
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (20 bp):
AAATCGCGTTGCGATACTGG
Found at i:907968 original size:40 final size:40
Alignment explanation
Indices: 907684--907989 Score: 224
Period size: 40 Copynumber: 7.7 Consensus size: 40
907674 CATATTCGCA
* *
907684 TTGCGATAGTCAAAATCGCGTTGCGAATCTGGAAACTGAT
1 TTGCGATACTCAAAATCGCGTTGCGAATCTGGAAATTGAT
** * * ** * * *
907724 TTGCGATACTGGAGATCGCGTTGCG-ATTTACATATTCACA
1 TTGCGATACTCAAAATCGCGTTGCGAATCTGGAAATTGA-T
* *
907764 TTGCGATAGTCAAAATCGCGTTGCGAATCTGGAAACTGAT
1 TTGCGATACTCAAAATCGCGTTGCGAATCTGGAAATTGAT
** * * ** * * *
907804 TTGCGATACTGGAGATCGCGTTGCG-ATTTACATATTCACA
1 TTGCGATACTCAAAATCGCGTTGCGAATCTGGAAATTGA-T
*
907844 TTGCGATAGTCAAAATCGCGTTGCGAATCTGGAAATTGAT
1 TTGCGATACTCAAAATCGCGTTGCGAATCTGGAAATTGAT
** * * ** *
907884 TTGCGATACTGGAGATCGCGTTGCG-ATTTACATATTCGCA-
1 TTGCGATACTCAAAATCGCGTTGCGAATCTGGAAATT-G-AT
* * *
907924 TTGCGATAGTCAAAATCGCGTTGCGAAACTGGAAACTGAT
1 TTGCGATACTCAAAATCGCGTTGCGAATCTGGAAATTGAT
** *
907964 TTGCGATACTGGAGATCGCGTTGCGA
1 TTGCGATACTCAAAATCGCGTTGCGA
907990 TTTAGAGATC
Statistics
Matches: 193, Mismatches: 65, Indels: 16
0.70 0.24 0.06
Matches are distributed among these distances:
39 22 0.11
40 150 0.78
41 21 0.11
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.29
Consensus pattern (40 bp):
TTGCGATACTCAAAATCGCGTTGCGAATCTGGAAATTGAT
Found at i:907999 original size:19 final size:19
Alignment explanation
Indices: 907975--908011 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
907965 TGCGATACTG
* *
907975 GAGATCGCGTTGCGATTTA
1 GAGATCGCATTACGATTTA
907994 GAGATCGCATTACGATTT
1 GAGATCGCATTACGATTT
908012 TGTTGGTCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.32
Consensus pattern (19 bp):
GAGATCGCATTACGATTTA
Found at i:908194 original size:2 final size:2
Alignment explanation
Indices: 908189--908213 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
908179 ATTATTAATG
908189 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
908214 AGAATTTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:914334 original size:42 final size:42
Alignment explanation
Indices: 914275--914407 Score: 248
Period size: 42 Copynumber: 3.2 Consensus size: 42
914265 CCAAAAAAGT
*
914275 ACAATATACAGCATGATAATTAGATATTCACCGCGGCATTCA
1 ACAATATACAGCATGATAATTAGATATTCACTGCGGCATTCA
914317 ACAATATACAGCATGATAATTAGATATTCACTGCGGCATTCA
1 ACAATATACAGCATGATAATTAGATATTCACTGCGGCATTCA
*
914359 ACAATATACAGCATGATAATTGGATATTCACTGCGGCATTCA
1 ACAATATACAGCATGATAATTAGATATTCACTGCGGCATTCA
914401 ACAATAT
1 ACAATAT
914408 GATTGATTAC
Statistics
Matches: 89, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 89 1.00
ACGTcount: A:0.38, C:0.20, G:0.14, T:0.28
Consensus pattern (42 bp):
ACAATATACAGCATGATAATTAGATATTCACTGCGGCATTCA
Found at i:927929 original size:94 final size:94
Alignment explanation
Indices: 927763--927943 Score: 292
Period size: 94 Copynumber: 1.9 Consensus size: 94
927753 CACTAATATA
* *
927763 TGATCTATTGATCGACTAATTCAGATAATGTACTATAGAGGCGAGGGCGACCATTCCGACCTAAT
1 TGATCTATTGACCGACTAATTCAGATAATGTACTATAGAGGCGAGGGCGACCATTCAGACCTAAT
927828 TTGCTCCATTCGCAAACATCAAGATTATT
66 TTGCTCCATTCGCAAACATCAAGATTATT
* * * *
927857 TGATTTATTGACCTACTAATTCAGATCATGTACTATAGAGGCGAGGGCGATCATTCAGATCC-AA
1 TGATCTATTGACCGACTAATTCAGATAATGTACTATAGAGGCGAGGGCGACCATTCAGA-CCTAA
927921 TTTGCTCCATTCGCAAACATCAA
65 TTTGCTCCATTCGCAAACATCAA
927944 TATTTGAACC
Statistics
Matches: 80, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
94 78 0.98
95 2 0.03
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.30
Consensus pattern (94 bp):
TGATCTATTGACCGACTAATTCAGATAATGTACTATAGAGGCGAGGGCGACCATTCAGACCTAAT
TTGCTCCATTCGCAAACATCAAGATTATT
Found at i:941658 original size:19 final size:21
Alignment explanation
Indices: 941619--941659 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
941609 TTCTTCCTTT
*
941619 TGTTTTTTTTTTCGGTATCAC
1 TGTTTTTTTTTTCGCTATCAC
941640 TGTTTTTTTTTT-GCT-TCAC
1 TGTTTTTTTTTTCGCTATCAC
941659 T
1 T
941660 TCGAATATCC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 5 0.26
20 2 0.11
21 12 0.63
ACGTcount: A:0.07, C:0.15, G:0.12, T:0.66
Consensus pattern (21 bp):
TGTTTTTTTTTTCGCTATCAC
Found at i:942333 original size:3 final size:3
Alignment explanation
Indices: 942327--942359 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
942317 TAAGATGACG
942327 ATA ATA ATA ATA ATA ATA ATA ATA ATA A-A ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
942360 CAAAAAAACC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:942739 original size:128 final size:125
Alignment explanation
Indices: 942514--942788 Score: 433
Period size: 128 Copynumber: 2.2 Consensus size: 125
942504 TGGTGGGGAC
* ** * * * *
942514 GACACTGCTCATACGCAATAAAGAGGTCTGGTCATCTAAGGGTGACACGGCTCTTACGTGATGAG
1 GACACGGCTCATACGTGATGAAGAGGTCTGGCCATCTAAGGGTAACACGGCTCCTACGTGATGAG
942579 GACGGCTGGTTATCTAGGGTGACACGGCTCATACGTGATGAAGAGATCTGGTCGGGGAAT
66 GACGGCTGGTTATCTAGGGTGACACGGCTCATACGTGATGAAGAGATCTGGTCGGGGAAT
* *
942639 GACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGAT
1 GACACGGCTCATACGTGATGAAGAGGTCTGGCCATCT-AAGG-G-TAACACGGCTCCTACGTGAT
*
942704 GAGGACGGCTGGTTATCTAGGGTGACACGGTTCATACGTGATGAAGAGATCTGGTCGGGGAAT
63 GAGGACGGCTGGTTATCTAGGGTGACACGGCTCATACGTGATGAAGAGATCTGGTCGGGGAAT
942767 GACACGGCTCATACGTGATGAA
1 GACACGGCTCATACGTGATGAA
942789 AAAAACTGGT
Statistics
Matches: 137, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
125 31 0.23
126 4 0.03
127 1 0.01
128 101 0.74
ACGTcount: A:0.26, C:0.19, G:0.32, T:0.23
Consensus pattern (125 bp):
GACACGGCTCATACGTGATGAAGAGGTCTGGCCATCTAAGGGTAACACGGCTCCTACGTGATGAG
GACGGCTGGTTATCTAGGGTGACACGGCTCATACGTGATGAAGAGATCTGGTCGGGGAAT
Found at i:942840 original size:168 final size:169
Alignment explanation
Indices: 942541--942956 Score: 545
Period size: 168 Copynumber: 2.5 Consensus size: 169
942531 ATAAAGAGGT
* * * * * *
942541 CTGGTCATCTAAGGGTGACACGGCTCTTACGTGATGAGGACG-GCTGGTTATCTAGGG-TGACAC
1 CTGGTTATCTAGGGGTGACACGGCTCATACGTGATGAAGA-GATCTGG---TCGAGGGATGACAC
* * * *
942604 GGCTCATACGTGATGAAGAGATCTGGTCGGGGAATGACACGGCTCATACGTGATGAAGAGTTCTG
62 GGCTCATACGTGATGAAAAAAACTGGTCGGGGAATGACACGGCTCATACGTGATGAAGAGTACTG
942669 GCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGG
127 GCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGG
*
942712 CTGGTTATCTA-GGGTGACACGGTTCATACGTGATGAAGAGATCTGGTCG-GGGAATGACACGGC
1 CTGGTTATCTAGGGGTGACACGGCTCATACGTGATGAAGAGATCTGGTCGAGGG-ATGACACGGC
* * * *
942775 TCATACGTGATGAAAAAAACTGGTCGGGGGATGACACGGTTCCTACGTGATGAGGACG-ACTGGC
65 TCATACGTGATGAAAAAAACTGGTCGGGGAATGACACGGCTCATACGTGATGAAGA-GTACTGGC
**
942839 CATCTTTAGGTGATAACACGGTTCCTACGTGATGAGGACGG
129 CATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGG
* * * *
942880 TTGGTTATCTAGGGGTGACACGGCTCCTACGTGATGAAGAGATCTGGTCGAGGGATGGCACGGTT
1 CTGGTTATCTAGGGGTGACACGGCTCATACGTGATGAAGAGATCTGGTCGAGGGATGACACGGCT
*
942945 CCTACGTGATGA
66 CATACGTGATGA
942957 GGACGGCTGG
Statistics
Matches: 217, Mismatches: 22, Indels: 14
0.86 0.09 0.06
Matches are distributed among these distances:
166 3 0.01
167 2 0.01
168 112 0.52
169 58 0.27
170 32 0.15
171 10 0.05
ACGTcount: A:0.24, C:0.19, G:0.33, T:0.24
Consensus pattern (169 bp):
CTGGTTATCTAGGGGTGACACGGCTCATACGTGATGAAGAGATCTGGTCGAGGGATGACACGGCT
CATACGTGATGAAAAAAACTGGTCGGGGAATGACACGGCTCATACGTGATGAAGAGTACTGGCCA
TCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGG
Found at i:942875 original size:46 final size:43
Alignment explanation
Indices: 942541--943012 Score: 230
Period size: 40 Copynumber: 11.1 Consensus size: 43
942531 ATAAAGAGGT
* * * *
942541 CTGGTCATCTAAGGG-TGACACGGCTCTTACGTGATGAGGACGG
1 CTGGCCATCT-AGGGATAACACGGTTCCTACGTGATGAGGACGG
** * * * * *
942584 CTGGTTATCTAGGG-TGACACGGCTCATACGTGATGAAGA-GAT
1 CTGGCCATCTAGGGATAACACGGTTCCTACGTGATGAGGACG-G
* * * * * *
942626 CTGG---TC-GGGGAATGACACGGCTCATACGTGATGAAGA-GTT
1 CTGGCCATCTAGGG-ATAACACGGTTCCTACGTGATGAGGACG-G
942666 CTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGG
1 CTGGCCATCT--AGG-GATAACACGGTTCCTACGTGATGAGGACGG
** * * * *
942712 CTGGTTATCTAGGG-TGACACGGTTCATACGTGATGAAGA-GAT
1 CTGGCCATCTAGGGATAACACGGTTCCTACGTGATGAGGACG-G
* * * * ** ***
942754 CTGG---TC-GGGGAATGACACGGCTCATACGTGATGAAAAAAA
1 CTGGCCATCTAGGG-ATAACACGGTTCCTACGTGATGAGGACGG
** * *
942794 CTGG---TCGGGGGATGACACGGTTCCTACGTGATGAGGACGA
1 CTGGCCATCTAGGGATAACACGGTTCCTACGTGATGAGGACGG
942834 CTGGCCATCTTTAGGTGATAACACGGTTCCTACGTGATGAGGACGG
1 CTGGCCATC--TAGG-GATAACACGGTTCCTACGTGATGAGGACGG
* ** * * * * *
942880 TTGGTTATCTAGGGGTGACACGGCTCCTACGTGATGAAGA-GAT
1 CTGGCCATCTAGGGATAACACGGTTCCTACGTGATGAGGACG-G
* **
942923 CTGG---TCGAGGGATGGCACGGTTCCTACGTGATGAGGACGG
1 CTGGCCATCTAGGGATAACACGGTTCCTACGTGATGAGGACGG
942963 CTGGCCATCTTTAGGTGATAACACGGTTCCTACGTGATGAGGACGG
1 CTGGCCATC--TAGG-GATAACACGGTTCCTACGTGATGAGGACGG
943009 CTGG
1 CTGG
943013 TTATCTATGG
Statistics
Matches: 348, Mismatches: 51, Indels: 57
0.76 0.11 0.12
Matches are distributed among these distances:
38 6 0.02
39 4 0.01
40 119 0.34
41 7 0.02
42 58 0.17
43 42 0.12
44 7 0.02
45 5 0.01
46 98 0.28
47 2 0.01
ACGTcount: A:0.24, C:0.19, G:0.33, T:0.24
Consensus pattern (43 bp):
CTGGCCATCTAGGGATAACACGGTTCCTACGTGATGAGGACGG
Found at i:942927 original size:129 final size:130
Alignment explanation
Indices: 942686--943019 Score: 447
Period size: 129 Copynumber: 2.6 Consensus size: 130
942676 AAAGGTGATA
** * *
942686 ACACGGTTCCTACGTGATGAGGACGGCTGGTTATC--TAGG-G-TGACACGGTTCATACGTGATG
1 ACACGGTTCCTACGTGATGAGGACGGCTGGCCATCTTTAGGTGATAACACGGTTCCTACGTGATG
* * *
942747 AAGA-GATCTGG---TC--GGGGAATGACACGGCTCATACGTGATGAAAAAAACTGGTCGGGGGA
66 AGGACGGT-TGGTTATCTAGGGG-ATGACACGGCTCATACGTGATGAAAAAAACTGGTCGAGGGA
942806 TG
129 TG
*
942808 ACACGGTTCCTACGTGATGAGGACGACTGGCCATCTTTAGGTGATAACACGGTTCCTACGTGATG
1 ACACGGTTCCTACGTGATGAGGACGGCTGGCCATCTTTAGGTGATAACACGGTTCCTACGTGATG
* * * *
942873 AGGACGGTTGGTTATCTAGGGG-TGACACGGCTCCTACGTGATGAAGAGATCTGGTCGAGGGATG
66 AGGACGGTTGGTTATCTAGGGGATGACACGGCTCATACGTGATGAAAAAAACTGGTCGAGGGATG
*
942937 GCACGGTTCCTACGTGATGAGGACGGCTGGCCATCTTTAGGTGATAACACGGTTCCTACGTGATG
1 ACACGGTTCCTACGTGATGAGGACGGCTGGCCATCTTTAGGTGATAACACGGTTCCTACGTGATG
*
943002 AGGACGGCTGGTTATCTA
66 AGGACGGTTGGTTATCTA
943020 TGGAGTTATG
Statistics
Matches: 187, Mismatches: 15, Indels: 13
0.87 0.07 0.06
Matches are distributed among these distances:
122 32 0.17
124 4 0.02
125 1 0.01
126 25 0.13
127 2 0.01
129 119 0.64
131 4 0.02
ACGTcount: A:0.23, C:0.19, G:0.33, T:0.24
Consensus pattern (130 bp):
ACACGGTTCCTACGTGATGAGGACGGCTGGCCATCTTTAGGTGATAACACGGTTCCTACGTGATG
AGGACGGTTGGTTATCTAGGGGATGACACGGCTCATACGTGATGAAAAAAACTGGTCGAGGGATG
Found at i:943070 original size:28 final size:28
Alignment explanation
Indices: 943050--943111 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
943040 AAACCAAATT
943050 AAAGATTTGTTTCAAAAGAAACAAACCC
1 AAAGATTTGTTTCAAAAGAAACAAACCC
* *
943078 AAAGATTTGTTTCAAGAA-AAATAAACTC
1 AAAGATTTGTTTCAA-AAGAAACAAACCC
943106 AAAGAT
1 AAAGAT
943112 GATATTTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
28 29 0.94
29 2 0.06
ACGTcount: A:0.52, C:0.13, G:0.11, T:0.24
Consensus pattern (28 bp):
AAAGATTTGTTTCAAAAGAAACAAACCC
Found at i:943307 original size:66 final size:64
Alignment explanation
Indices: 943129--943307 Score: 186
Period size: 66 Copynumber: 2.8 Consensus size: 64
943119 TTAAAAAAAC
* *
943129 TGTCTCGAAA-GAGACAAAATTCGTTTCAA-AGGAAACGA-CTCAAATATGGCATTTAAAGGGAA
1 TGTCTC-AAATGAGACAAAATTCATTTCAAGA-GAAACGATCTCAAAGATGGCATTTAAAGGGAA
943191 T
64 T
* ** * * * * *
943192 TGTCTCAAGTGAGACAAAATTTGTTTTTAAGGGAAACGTTCTCAAAGATGG-ATGTTTCATGGGA
1 TGTCTCAAATGAGACAAAA-TTCATTTCAAGAGAAACGATCTCAAAGATGGCA--TTTAAAGGG-
943256 AAT
62 AAT
943259 TGTCTCAAATGAGACAAAATTCATTTCAAGAGAAACGATCTCAAAGATG
1 TGTCTCAAATGAGACAAAATTCATTTCAAGAGAAACGATCTCAAAGATG
943308 TTTATTTGTT
Statistics
Matches: 94, Mismatches: 15, Indels: 11
0.78 0.12 0.09
Matches are distributed among these distances:
62 2 0.02
63 15 0.16
64 14 0.15
65 10 0.11
66 32 0.34
67 21 0.22
ACGTcount: A:0.39, C:0.13, G:0.21, T:0.27
Consensus pattern (64 bp):
TGTCTCAAATGAGACAAAATTCATTTCAAGAGAAACGATCTCAAAGATGGCATTTAAAGGGAAT
Found at i:943322 original size:34 final size:35
Alignment explanation
Indices: 943282--943375 Score: 104
Period size: 35 Copynumber: 2.7 Consensus size: 35
943272 ACAAAATTCA
**
943282 TTTCAAGAGAAACGATCTCAAAGAT-GTTTATTTG
1 TTTCAAGAGAAACGATCTCAAAGATGGTAAATTTG
*
943316 TTTCAAGGGAAACAGAT-TCAAAGATGGTAAATTTG
1 TTTCAAGAGAAAC-GATCTCAAAGATGGTAAATTTG
* *
943351 TTTCCAA-AGAAACAAACTCAAAGAT
1 TTT-CAAGAGAAACGATCTCAAAGAT
943376 TTTTCTCAAG
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
34 21 0.42
35 26 0.52
36 3 0.06
ACGTcount: A:0.41, C:0.13, G:0.17, T:0.29
Consensus pattern (35 bp):
TTTCAAGAGAAACGATCTCAAAGATGGTAAATTTG
Found at i:943813 original size:60 final size:62
Alignment explanation
Indices: 943734--943856 Score: 187
Period size: 61 Copynumber: 2.0 Consensus size: 62
943724 CAAAGATGTT
* *
943734 TTTTTCAAAAGAAGTTGTC-TCAAGAGACAAAATTTTGTTTC-AAGGAAACAAACTCAAAGA
1 TTTTTCAAAAGAAATTGTCTTCAAGAGACAAAATTTTGTTTCAAAAGAAACAAACTCAAAGA
* * *
943794 TTTTTCAAAAGAAATTGTCTTTAAGAGATAAAATTTTGTTTCAAAAGAAACAGACTCAAAGA
1 TTTTTCAAAAGAAATTGTCTTCAAGAGACAAAATTTTGTTTCAAAAGAAACAAACTCAAAGA
943856 T
1 T
943857 GGATCACATC
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
60 18 0.32
61 20 0.36
62 18 0.32
ACGTcount: A:0.44, C:0.11, G:0.14, T:0.31
Consensus pattern (62 bp):
TTTTTCAAAAGAAATTGTCTTCAAGAGACAAAATTTTGTTTCAAAAGAAACAAACTCAAAGA
Found at i:944178 original size:67 final size:67
Alignment explanation
Indices: 944078--944311 Score: 382
Period size: 67 Copynumber: 3.5 Consensus size: 67
944068 TCATTTTAAG
* * * *
944078 AGAAACAGATTCAAAGA-TTTT-TTTCAAAAGAAATTATTTTAAGAGAGACAAAATTTTGTTTCC
1 AGAAACAAACTCAAAGATTTTTGTTTCAAAAGAAATTATCTTAAGAGAGAAAAAATTTTGTTTCC
944141 AA
66 AA
* *
944143 AGAGACAGACTCAAAGATTTTTGTTTCAAAAGAAATTATCTTAAGAGAGAAAAAATTTTGTTTCC
1 AGAAACAAACTCAAAGATTTTTGTTTCAAAAGAAATTATCTTAAGAGAGAAAAAATTTTGTTTCC
944208 AA
66 AA
* *
944210 AGAAACAAACTCAAAGATTTTTGTTTCAAAAGAAATTATCTTAAGAGAGAAAAAAATTTATTTCC
1 AGAAACAAACTCAAAGATTTTTGTTTCAAAAGAAATTATCTTAAGAGAGAAAAAATTTTGTTTCC
944275 AA
66 AA
944277 AGAAACAAACTCAAAGATTTTTGTTTCAAAAGAAA
1 AGAAACAAACTCAAAGATTTTTGTTTCAAAAGAAA
944312 CAATCTCAAA
Statistics
Matches: 159, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
65 15 0.09
66 4 0.03
67 140 0.88
ACGTcount: A:0.47, C:0.10, G:0.12, T:0.31
Consensus pattern (67 bp):
AGAAACAAACTCAAAGATTTTTGTTTCAAAAGAAATTATCTTAAGAGAGAAAAAATTTTGTTTCC
AA
Found at i:944212 original size:37 final size:37
Alignment explanation
Indices: 944161--944281 Score: 112
Period size: 37 Copynumber: 3.5 Consensus size: 37
944151 ACTCAAAGAT
944161 TTTTGTTTCAAAAGAAATTATCTTAAGAGAGAAAAAA
1 TTTTGTTTCAAAAGAAATTATCTTAAGAGAGAAAAAA
* *** * *
944198 TTTTGTTTCCAAAG-AA--A-C--AA-ACTCAAAGAT
1 TTTTGTTTCAAAAGAAATTATCTTAAGAGAGAAAAAA
944228 TTTTGTTTCAAAAGAAATTATCTTAAGAGAGAAAAAA
1 TTTTGTTTCAAAAGAAATTATCTTAAGAGAGAAAAAA
* * *
944265 ATTTATTTCCAAAGAAA
1 TTTTGTTTCAAAAGAAA
944282 CAAACTCAAA
Statistics
Matches: 62, Mismatches: 15, Indels: 14
0.68 0.16 0.15
Matches are distributed among these distances:
30 18 0.29
31 4 0.06
33 2 0.03
34 2 0.03
36 4 0.06
37 32 0.52
ACGTcount: A:0.47, C:0.09, G:0.12, T:0.32
Consensus pattern (37 bp):
TTTTGTTTCAAAAGAAATTATCTTAAGAGAGAAAAAA
Found at i:944232 original size:30 final size:30
Alignment explanation
Indices: 944198--944328 Score: 109
Period size: 30 Copynumber: 4.1 Consensus size: 30
944188 AGAGAAAAAA
*
944198 TTTTGTTTCCAAAGAAACAAACTCAAAGAT
1 TTTTGTTTCAAAAGAAACAAACTCAAAGAT
*** * *
944228 TTTTGTTTCAAAAGAAATTATCTTAAGAGAGAAAAAA
1 TTTTGTTTCAAAAG-AA--A-C--AA-ACTCAAAGAT
* * *
944265 ATTTATTTCCAAAGAAACAAACTCAAAGAT
1 TTTTGTTTCAAAAGAAACAAACTCAAAGAT
*
944295 TTTTGTTTCAAAAGAAACAATCTCAAAGAT
1 TTTTGTTTCAAAAGAAACAAACTCAAAGAT
944325 TTTT
1 TTTT
944329 TCACAAAATT
Statistics
Matches: 76, Mismatches: 18, Indels: 14
0.70 0.17 0.13
Matches are distributed among these distances:
30 48 0.63
31 4 0.05
33 2 0.03
34 2 0.03
36 4 0.05
37 16 0.21
ACGTcount: A:0.45, C:0.12, G:0.10, T:0.33
Consensus pattern (30 bp):
TTTTGTTTCAAAAGAAACAAACTCAAAGAT
Found at i:944335 original size:29 final size:30
Alignment explanation
Indices: 944275--944336 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
944265 ATTTATTTCC
**
944275 AAAGAAACAAACTCAAAGATTTTTGTTTCA
1 AAAGAAACAAACTCAAAGATTTTTGTCACA
*
944305 AAAGAAACAATCTCAAAGATTTTT-TCACA
1 AAAGAAACAAACTCAAAGATTTTTGTCACA
944334 AAA
1 AAA
944337 TTGTCTCAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 6 0.21
30 23 0.79
ACGTcount: A:0.50, C:0.15, G:0.08, T:0.27
Consensus pattern (30 bp):
AAAGAAACAAACTCAAAGATTTTTGTCACA
Found at i:944391 original size:52 final size:53
Alignment explanation
Indices: 944316--944418 Score: 181
Period size: 52 Copynumber: 2.0 Consensus size: 53
944306 AAGAAACAAT
944316 CTCAAAGATTTTTTCACAAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAGA
1 CTCAAAGATTTTTTCACAAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAGA
**
944369 CTCAAAGA-TTTTTCATGAAATTGTCTCAAGAGAGACAAAACTTTGTTTCA
1 CTCAAAGATTTTTTCACAAAATTGTCTCAAGAGAGACAAAACTTTGTTTCA
944419 AAATAAATAG
Statistics
Matches: 48, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
52 40 0.83
53 8 0.17
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.33
Consensus pattern (53 bp):
CTCAAAGATTTTTTCACAAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAGA
Found at i:944446 original size:29 final size:29
Alignment explanation
Indices: 944429--944722 Score: 233
Period size: 28 Copynumber: 10.5 Consensus size: 29
944419 AAATAAATAG
*
944429 ACTCAAAGATTTTTTTTCAAAAGAAAC-A
1 ACTCAAAGATTTTTTTTCAAAAGGAACAA
* *
944457 ACTCAAAGATTTTTATTCAAAATGAACAA
1 ACTCAAAGATTTTTTTTCAAAAGGAACAA
* *
944486 ACTCCAAGATTTTTATTCAAAAGGAACAA
1 ACTCAAAGATTTTTTTTCAAAAGGAACAA
* *
944515 ACTCAAATA-TTTTTTTCAAGAGGAACAA
1 ACTCAAAGATTTTTTTTCAAAAGGAACAA
** * * *
944543 ACTCAAAGATTTTTTCACAAAATTGTCTCAAGAG
1 ACTCAAAGATTTTTTTTCAAAA--G---GAACAA
** * *
944577 AGACAAA-ACTTTGTTTC---A-G-----
1 ACTCAAAGATTTTTTTTCAAAAGGAACAA
*
944596 ACTCAAAGA--TTTTTTCAAAAGAAAC-A
1 ACTCAAAGATTTTTTTTCAAAAGGAACAA
*
944622 ACTCAAAGATTTTTATTCAAAAGGAACAA
1 ACTCAAAGATTTTTTTTCAAAAGGAACAA
* * *
944651 ACTCCAAGATTTTTATTCAAAAAGAACAA
1 ACTCAAAGATTTTTTTTCAAAAGGAACAA
*
944680 ACTCAAAGA-TTTTTTTCAAGAGGAACAA
1 ACTCAAAGATTTTTTTTCAAAAGGAACAA
944708 ACTCAAAGATTTTTT
1 ACTCAAAGATTTTTT
944723 CAAGAGAAAC
Statistics
Matches: 211, Mismatches: 35, Indels: 39
0.74 0.12 0.14
Matches are distributed among these distances:
18 6 0.03
19 5 0.02
20 1 0.00
21 1 0.00
26 9 0.04
28 88 0.42
29 85 0.40
30 1 0.00
31 1 0.00
33 6 0.03
34 8 0.04
ACGTcount: A:0.44, C:0.15, G:0.10, T:0.31
Consensus pattern (29 bp):
ACTCAAAGATTTTTTTTCAAAAGGAACAA
Found at i:944460 original size:28 final size:29
Alignment explanation
Indices: 944414--944722 Score: 204
Period size: 29 Copynumber: 11.0 Consensus size: 29
944404 CAAAACTTTG
* * *
944414 TTTCAAAATAAATAGACTCAAAGATTTTT
1 TTTCAAAAGAAACAAACTCAAAGATTTTT
944443 TTTCAAAAGAAAC-AACTCAAAGATTTTT
1 TTTCAAAAGAAACAAACTCAAAGATTTTT
* *
944471 ATTCAAAATG-AACAAACTCCAAGATTTTT
1 TTTCAAAA-GAAACAAACTCAAAGATTTTT
* * *
944500 ATTCAAAAGGAACAAACTCAAATA-TTTT
1 TTTCAAAAGAAACAAACTCAAAGATTTTT
* *
944528 TTTCAAGAGGAACAAACTCAAAGATTTTT
1 TTTCAAAAGAAACAAACTCAAAGATTTTT
** * * * ** * *
944557 TCACAAAATTGTCTCAAGAGAGACAAA-ACTTTG
1 TTTCAAAA--G---AAACAAACTCAAAGATTTTT
944590 TTTC---AG------ACTCAAAGA--TTT
1 TTTCAAAAGAAACAAACTCAAAGATTTTT
944608 TTTCAAAAGAAAC-AACTCAAAGATTTTT
1 TTTCAAAAGAAACAAACTCAAAGATTTTT
* * *
944636 ATTCAAAAGGAACAAACTCCAAGATTTTT
1 TTTCAAAAGAAACAAACTCAAAGATTTTT
*
944665 ATTCAAAA-AGAACAAACTCAAAGA-TTTT
1 TTTCAAAAGA-AACAAACTCAAAGATTTTT
* *
944693 TTTCAAGAGGAACAAACTCAAAGATTTTT
1 TTTCAAAAGAAACAAACTCAAAGATTTTT
944722 T
1 T
944723 CAAGAGAAAC
Statistics
Matches: 223, Mismatches: 33, Indels: 48
0.73 0.11 0.16
Matches are distributed among these distances:
18 6 0.03
19 5 0.02
20 1 0.00
21 2 0.01
26 9 0.04
28 89 0.40
29 95 0.43
30 1 0.00
31 1 0.00
33 6 0.03
34 8 0.04
ACGTcount: A:0.45, C:0.15, G:0.10, T:0.31
Consensus pattern (29 bp):
TTTCAAAAGAAACAAACTCAAAGATTTTT
Found at i:944621 original size:165 final size:167
Alignment explanation
Indices: 944368--944752 Score: 578
Period size: 165 Copynumber: 2.3 Consensus size: 167
944358 TTTGTTTCAG
**
944368 ACTCAAAGA-TTTTTCATGAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAAAATAAATAGACT
1 ACTCAAAGATTTTTTCACAAAATTGTCTCAAGAGAGACAAAACTTTGTTTC-------A-AGACT
*
944432 CAAAGATTTTTTTTCAAAAGAAACAACTCAAAGATTTTTATTCAAAATGAACAAACTCCAAGATT
58 CAAAGA-TTTTTTTCAAAAGAAACAACTCAAAGATTTTTATTCAAAAGGAACAAACTCCAAGATT
* *
944497 TTTATTCAAAAGGAACAAACTCAAATATTTTTTTCAAGAGGAACAA
122 TTTATTCAAAAAGAACAAACTCAAAGATTTTTTTCAAGAGGAACAA
944543 ACTCAAAGATTTTTTCACAAAATTGTCTCAAGAGAGACAAAACTTTGTTTC-AGACTCAAAGA-T
1 ACTCAAAGATTTTTTCACAAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAAGACTCAAAGATT
944606 TTTTTCAAAAGAAACAACTCAAAGATTTTTATTCAAAAGGAACAAACTCCAAGATTTTTATTCAA
66 TTTTTCAAAAGAAACAACTCAAAGATTTTTATTCAAAAGGAACAAACTCCAAGATTTTTATTCAA
944671 AAAGAACAAACTCAAAGATTTTTTTCAAGAGGAACAA
131 AAAGAACAAACTCAAAGATTTTTTTCAAGAGGAACAA
* *
944708 ACTCAAAGATTTTTTCAAGAGAAACTGTCTCAAGAGAGACCAAAA
1 ACTCAAAGATTTTTTC-ACA-AAATTGTCTCAAGAGAGA-CAAAA
944753 AAAATCGTAA
Statistics
Matches: 199, Mismatches: 7, Indels: 15
0.90 0.03 0.07
Matches are distributed among these distances:
165 116 0.58
166 2 0.01
167 28 0.14
168 5 0.03
175 9 0.05
176 39 0.20
ACGTcount: A:0.44, C:0.15, G:0.11, T:0.29
Consensus pattern (167 bp):
ACTCAAAGATTTTTTCACAAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAAGACTCAAAGATT
TTTTTCAAAAGAAACAACTCAAAGATTTTTATTCAAAAGGAACAAACTCCAAGATTTTTATTCAA
AAAGAACAAACTCAAAGATTTTTTTCAAGAGGAACAA
Found at i:945053 original size:36 final size:36
Alignment explanation
Indices: 944969--945072 Score: 124
Period size: 36 Copynumber: 3.0 Consensus size: 36
944959 GAGAAAATGA
* * *
944969 TGTCTCAAGCGAGACGAAATTTG-CTTTA-AGATAT
1 TGTCTCAAGCGAGACAAAATTTGTTTTTAGAGAAAT
* **
945003 AGTCTCAAATGAGACAAAATTTGTTTTTAGAGAAAT
1 TGTCTCAAGCGAGACAAAATTTGTTTTTAGAGAAAT
*
945039 TGTCTCAAGCGAGACAAAGTTTGTTTTT-GAGAAA
1 TGTCTCAAGCGAGACAAAATTTGTTTTTAGAGAAA
945073 ACGATCTCAA
Statistics
Matches: 58, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
34 19 0.33
35 10 0.17
36 29 0.50
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.33
Consensus pattern (36 bp):
TGTCTCAAGCGAGACAAAATTTGTTTTTAGAGAAAT
Found at i:945100 original size:36 final size:36
Alignment explanation
Indices: 944970--945088 Score: 111
Period size: 36 Copynumber: 3.4 Consensus size: 36
944960 AGAAAATGAT
* * * *
944970 GTCTCAAGCGAGACGAAATTTG-CTTTA-AGATATA-
1 GTCTCAAGTGAGACAAAATTTGTTTTTAGAGA-AAAC
* **
945004 GTCTCAAATGAGACAAAATTTGTTTTTAGAGAAATT
1 GTCTCAAGTGAGACAAAATTTGTTTTTAGAGAAAAC
* *
945040 GTCTCAAGCGAGACAAAGTTTGTTTTT-GAGAAAAC
1 GTCTCAAGTGAGACAAAATTTGTTTTTAGAGAAAAC
945075 GATCTCAAGTGAGA
1 G-TCTCAAGTGAGA
945089 TCAACTTTGT
Statistics
Matches: 69, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
34 19 0.28
35 12 0.17
36 38 0.55
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.30
Consensus pattern (36 bp):
GTCTCAAGTGAGACAAAATTTGTTTTTAGAGAAAAC
Found at i:945254 original size:104 final size:101
Alignment explanation
Indices: 945039--945271 Score: 285
Period size: 104 Copynumber: 2.3 Consensus size: 101
945029 TTAGAGAAAT
*
945039 TGTCTCAAGCGAGAC-AAAGTTTGTTTTTGAGAAAACGATCTCAAGTGAGATCAACTTTGTTTAA
1 TGTCTCAAGCGAGACGAAA-TTTG-TTTTGAGAAAAAGATCTCAAGTGAGATCAACTTTGTTTAA
*
945103 TGTGAAACAAATTCGAAATTTGGATCTCAAAGGGAAAA
64 TGTGAAACAAATTCGAAATTTGGATCTCAAAGGAAAAA
* * *
945141 GGTCTCAAGCGAGACGAAATTTGTTTTGAAAGAAACAAGAATCT-AAGGTGAGATTAATTTTGTT
1 TGTCTCAAGCGAGACGAAATTTGTTTTG--AGAAA-AAG-ATCTCAA-GTGAGATCAACTTTGTT
* * *
945205 T-TTAGTGAATCAAATTC-AAATTTGTATCTCAAAGGAAAAA
61 TAAT-GTGAAACAAATTCGAAATTTGGATCTCAAAGGAAAAA
*
945245 TGTCTCAAGCGAGACGCAATTTGTTTT
1 TGTCTCAAGCGAGACGAAATTTGTTTT
945272 AAAATTCAAA
Statistics
Matches: 114, Mismatches: 10, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
101 5 0.04
102 18 0.16
103 8 0.07
104 51 0.45
105 32 0.28
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.31
Consensus pattern (101 bp):
TGTCTCAAGCGAGACGAAATTTGTTTTGAGAAAAAGATCTCAAGTGAGATCAACTTTGTTTAATG
TGAAACAAATTCGAAATTTGGATCTCAAAGGAAAAA
Done.