Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009586.1 Hibiscus syriacus cultivar Beakdansim tig00116964_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: 3773412
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 19
Found at i:823290 original size:19 final size:19
Alignment explanation
Indices: 823266--823347 Score: 102
Period size: 19 Copynumber: 4.6 Consensus size: 19
823256 TTCTATCATA
823266 GTTGCGATTTTCATTTCGC
1 GTTGCGATTTTCATTTCGC
*
823285 GTTGCGA--TTC-TGT--C
1 GTTGCGATTTTCATTTCGC
823299 GTTGCGATTTTCATTTCGC
1 GTTGCGATTTTCATTTCGC
**
823318 GTTGCGATTTTGGTTTCGC
1 GTTGCGATTTTCATTTCGC
823337 GTTGCGATTTT
1 GTTGCGATTTT
823348 AAGTTTCGTG
Statistics
Matches: 54, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
14 8 0.15
16 5 0.09
17 5 0.09
19 36 0.67
ACGTcount: A:0.09, C:0.18, G:0.26, T:0.48
Consensus pattern (19 bp):
GTTGCGATTTTCATTTCGC
Found at i:823527 original size:93 final size:93
Alignment explanation
Indices: 823411--823878 Score: 904
Period size: 93 Copynumber: 5.1 Consensus size: 93
823401 ATGGATTGCA
823411 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
823475 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
823503 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
823568 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
823596 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
823661 TAACAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
823689 TTACTTTCAACCAAAAGACAAAAC-AAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
823753 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
*
823781 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATATACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
823846 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
823874 TTACT
1 TTACT
823879 AAGCAATCTA
Statistics
Matches: 371, Mismatches: 3, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
92 95 0.26
93 276 0.74
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:823659 original size:17 final size:17
Alignment explanation
Indices: 823637--823669 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
823627 AATACTATTT
823637 CACAGTGTTAA-AGAATA
1 CACAGT-TTAACAGAATA
823654 CACAGTTTAACAGAAT
1 CACAGTTTAACAGAAT
823670 TGGCAGCAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.45, C:0.15, G:0.15, T:0.24
Consensus pattern (17 bp):
CACAGTTTAACAGAATA
Found at i:823825 original size:185 final size:186
Alignment explanation
Indices: 823411--823878 Score: 904
Period size: 185 Copynumber: 2.5 Consensus size: 186
823401 ATGGATTGCA
823411 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
823475 TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
66 TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
823540 ATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAAT
131 ATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAAT
823596 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
823661 TAACAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAAC-AAGACAAATACT
66 TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
823725 ATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAAT
131 ATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAAT
*
823781 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATATACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
823846 TAGCAGAATTGGCAGCAACCGAACAAATTTACT
66 TAGCAGAATTGGCAGCAACCGAACAAATTTACT
823879 AAGCAATCTA
Statistics
Matches: 279, Mismatches: 3, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
185 168 0.60
186 111 0.40
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (186 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
ATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:825596 original size:19 final size:19
Alignment explanation
Indices: 825572--825677 Score: 115
Period size: 19 Copynumber: 6.1 Consensus size: 19
825562 TCTTTTGGTT
825572 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
825591 GAAATGAAAATCGCAA--C
1 GAAATGAAAATCGCAACGC
*
825608 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
825624 GAAATGAAAATCGCAA--C
1 GAAATGAAAATCGCAACGC
*
825641 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
825657 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
825676 GA
1 GA
825678 TTTTGGTTTC
Statistics
Matches: 72, Mismatches: 5, Indels: 20
0.74 0.05 0.21
Matches are distributed among these distances:
14 20 0.28
15 2 0.03
16 4 0.06
17 4 0.06
18 2 0.03
19 40 0.56
ACGTcount: A:0.46, C:0.20, G:0.24, T:0.10
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:825617 original size:33 final size:33
Alignment explanation
Indices: 825580--825672 Score: 186
Period size: 33 Copynumber: 2.8 Consensus size: 33
825570 TTGAAATGAA
825580 AATCGCAACGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAGAG
825613 AATCGCAACGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAGAG
825646 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
825673 TGCGATTTTG
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 60 1.00
ACGTcount: A:0.46, C:0.22, G:0.23, T:0.10
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAGAG
Found at i:825618 original size:14 final size:14
Alignment explanation
Indices: 825599--825655 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
825589 GCGAAATGAA
825599 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
825613 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
825632 AATCGCAACGAGAG
1 AATCGCAACGAGAG
825646 AATCGCAACG
1 AATCGCAACG
825656 CGAAATGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:825695 original size:19 final size:18
Alignment explanation
Indices: 825673--825731 Score: 54
Period size: 19 Copynumber: 3.4 Consensus size: 18
825663 AAAATCGCAA
*
825673 TGCGATTTTGGTTTCGCGT
1 TGCGATTTT-ATTTCGCGT
*
825692 TGCGA--TTCTTT--CGT
1 TGCGATTTTATTTCGCGT
825706 TGCGATTTTCATTTCGCGT
1 TGCGATTTT-ATTTCGCGT
825725 TGCGATT
1 TGCGATT
825732 CTCTCGTTGC
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 8 0.24
16 5 0.15
17 5 0.15
19 15 0.45
ACGTcount: A:0.08, C:0.19, G:0.25, T:0.47
Consensus pattern (18 bp):
TGCGATTTTATTTCGCGT
Found at i:825708 original size:14 final size:14
Alignment explanation
Indices: 825689--825745 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
825679 TTTGGTTTCG
825689 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
825703 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
825720 CGCGTTGCGATTCTCT
1 --CGTTGCGATTCTTT
825736 CGTTGCGATT
1 CGTTGCGATT
825746 TTCATTTCTC
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:0.09, C:0.23, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:825721 original size:33 final size:33
Alignment explanation
Indices: 825673--825753 Score: 135
Period size: 33 Copynumber: 2.5 Consensus size: 33
825663 AAAATCGCAA
** *
825673 TGCGATTTTGGTTTCGCGTTGCGATTCTTTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
825706 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
825739 TGCGATTTTCATTTC
1 TGCGATTTTCATTTC
825754 TCTCGTTGCG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.09, C:0.21, G:0.22, T:0.48
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:825786 original size:41 final size:41
Alignment explanation
Indices: 825729--825806 Score: 147
Period size: 41 Copynumber: 1.9 Consensus size: 41
825719 TCGCGTTGCG
*
825729 ATTCTCTCGTTGCGATTTTCATTTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
825770 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
825807 TCTTCTGCAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.13, C:0.26, G:0.17, T:0.45
Consensus pattern (41 bp):
ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
Found at i:825791 original size:20 final size:21
Alignment explanation
Indices: 825730--825805 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
825720 CGCGTTGCGA
825730 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
***
825751 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
825771 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
*
825792 TTATCTCGTTGCGA
1 TTCTCTCGTTGCGA
825806 CTCTTCTGCA
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
20 17 0.36
21 30 0.64
ACGTcount: A:0.12, C:0.25, G:0.17, T:0.46
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:825927 original size:33 final size:33
Alignment explanation
Indices: 825885--825955 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
825875 AATACTAACT
*
825885 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
825918 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
825951 TGAAA
1 TGAAA
825956 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:826187 original size:22 final size:22
Alignment explanation
Indices: 826135--826189 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
826125 TGGTTGTGAG
**
826135 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
826157 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
826179 GGATTTCTTCG
1 GGATTTCTTCG
826190 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:826463 original size:40 final size:40
Alignment explanation
Indices: 826335--826489 Score: 195
Period size: 40 Copynumber: 3.9 Consensus size: 40
826325 GCTTTAAATA
*
826335 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTAT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTGT
** *
826376 TATCGTTGCGATTTACGGATACGCGTTGCGATTTACG-GAT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTG-T
* *
826416 ACACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTGT
* ** *
826456 TCGCGTTGCGATTTTCATATTCGCGTTGCGATTT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATTT
826490 TGGAAAATCG
Statistics
Matches: 98, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
40 68 0.69
41 30 0.31
ACGTcount: A:0.17, C:0.18, G:0.26, T:0.38
Consensus pattern (40 bp):
TCGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTGT
Found at i:826490 original size:20 final size:20
Alignment explanation
Indices: 826336--826489 Score: 177
Period size: 20 Copynumber: 7.7 Consensus size: 20
826326 CTTTAAATAT
826336 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
826356 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
826378 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
826397 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
826417 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
826437 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
826457 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
826477 CGCGTTGCGATTT
1 CGCGTTGCGATTT
826490 TGGAAAATCG
Statistics
Matches: 115, Mismatches: 14, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
19 2 0.02
20 96 0.83
21 15 0.13
22 2 0.02
ACGTcount: A:0.18, C:0.18, G:0.27, T:0.38
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:826506 original size:21 final size:21
Alignment explanation
Indices: 826476--826558 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
826466 ATTTTCATAT
*
826476 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
826497 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
826518 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
826539 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
826559 CTGATTTGCG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:826549 original size:42 final size:43
Alignment explanation
Indices: 826456--826554 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
826446 ATTTATGTGT
* *
826456 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
**
826497 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGCAA-AA
*
826539 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
826555 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
Found at i:827186 original size:20 final size:20
Alignment explanation
Indices: 827158--827225 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
827148 GAAATTCAGT
827158 GTTGCGATAATCAGAATCGC
1 GTTGCGATAATCAGAATCGC
* *
827178 GTTGTGATAGTCAGAATCGC
1 GTTGCGATAATCAGAATCGC
* * * *
827198 ATTGCGATAGTCATAATTGC
1 GTTGCGATAATCAGAATCGC
*
827218 ATTGCGAT
1 GTTGCGAT
827226 TTACATATTC
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (20 bp):
GTTGCGATAATCAGAATCGC
Found at i:827232 original size:20 final size:20
Alignment explanation
Indices: 827194--827264 Score: 83
Period size: 20 Copynumber: 3.5 Consensus size: 20
827184 ATAGTCAGAA
*
827194 TCGCATTGCGATAGT-CATAAT
1 TCGCATTGCGAT-TTACAT-AT
827215 T-GCATTGCGATTTACATAT
1 TCGCATTGCGATTTACATAT
* *
827234 TCGCGTTGCAATTTACATAT
1 TCGCATTGCGATTTACATAT
827254 TCGCATTGCGA
1 TCGCATTGCGA
827265 ATTCGAAAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
19 4 0.09
20 38 0.88
21 1 0.02
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (20 bp):
TCGCATTGCGATTTACATAT
Found at i:835746 original size:3 final size:3
Alignment explanation
Indices: 835738--835796 Score: 118
Period size: 3 Copynumber: 19.7 Consensus size: 3
835728 ACATCTTCAA
835738 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
835786 AAT AAT AAT AA
1 AAT AAT AAT AA
835797 AAGATGGGTG
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:840504 original size:3 final size:3
Alignment explanation
Indices: 840496--840594 Score: 157
Period size: 3 Copynumber: 33.7 Consensus size: 3
840486 TTTTTATCCA
* *
840496 TAT TAT TAT TAT TAT TAT TAT TAA TAT TAT TAT TAT CAT TAT TA- TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
840543 TAT TAT TAT TAT TAT TAT TAT TAT TTT TAT TAT TAT TAT TAT T-T TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
840590 TAT TA
1 TAT TA
840595 AATATATTAA
Statistics
Matches: 88, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
2 4 0.05
3 84 0.95
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:841077 original size:10 final size:10
Alignment explanation
Indices: 841062--841103 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
841052 AAAAAAGGAA
841062 AAAGAAACAG
1 AAAGAAACAG
*
841072 AGAGAAACAG
1 AAAGAAACAG
*
841082 AAAG-AAGAG
1 AAAGAAACAG
*
841091 ACAGAAACAG
1 AAAGAAACAG
841101 AAA
1 AAA
841104 AAAAATACAG
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
9 7 0.28
10 18 0.72
ACGTcount: A:0.67, C:0.10, G:0.24, T:0.00
Consensus pattern (10 bp):
AAAGAAACAG
Found at i:841113 original size:19 final size:19
Alignment explanation
Indices: 841074--841114 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
841064 AGAAACAGAG
* *
841074 AGAAACAGAAAGAAGAGAC
1 AGAAACAGAAAAAAAAGAC
*
841093 AGAAACAGAAAAAAAATAC
1 AGAAACAGAAAAAAAAGAC
841112 AGA
1 AGA
841115 GAAAAAAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.68, C:0.10, G:0.20, T:0.02
Consensus pattern (19 bp):
AGAAACAGAAAAAAAAGAC
Found at i:842059 original size:21 final size:22
Alignment explanation
Indices: 842017--842059 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
842007 TGTTTTAGTG
**
842017 ATATTTTTATTATATTGTTAAA
1 ATATTTTTATTATATTCATAAA
842039 ATATTTTTA-TATATTCATAAA
1 ATATTTTTATTATATTCATAAA
842060 TATACATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (22 bp):
ATATTTTTATTATATTCATAAA
Found at i:842776 original size:18 final size:17
Alignment explanation
Indices: 842753--842803 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 17
842743 TTCTTTTCAA
842753 ATTTTTTATTTATTTAT
1 ATTTTTTATTTATTTAT
*
842770 -TATTTTTATAATATTTAT
1 AT-TTTTTAT-TTATTTAT
*
842788 ATGTTTTATTTTATTT
1 ATTTTTTA-TTTATTT
842804 GCAAGTATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 7
0.73 0.08 0.19
Matches are distributed among these distances:
16 1 0.04
17 7 0.26
18 17 0.63
19 2 0.07
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (17 bp):
ATTTTTTATTTATTTAT
Found at i:842825 original size:13 final size:15
Alignment explanation
Indices: 842794--842830 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
842784 TTATATGTTT
842794 TATTTTATTTGCAAG
1 TATTTTATTTGCAAG
842809 TATTTTATTT-C-AG
1 TATTTTATTTGCAAG
842822 TA-TTTATTT
1 TATTTTATTT
842831 TTATGTCAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 7 0.32
13 4 0.18
14 1 0.05
15 10 0.45
ACGTcount: A:0.24, C:0.05, G:0.08, T:0.62
Consensus pattern (15 bp):
TATTTTATTTGCAAG
Found at i:853433 original size:5 final size:5
Alignment explanation
Indices: 853423--853500 Score: 58
Period size: 5 Copynumber: 15.6 Consensus size: 5
853413 GCTTGAAGAA
853423 AAAAG AAAAG AAAAAG AAAAG -AAAG AAAAG AAAAAAG AAAA- AAAA-
1 AAAAG AAAAG -AAAAG AAAAG AAAAG AAAAG --AAAAG AAAAG AAAAG
* *
853468 AATAG AAAATG -AAA- AAAAG AGAAG AAAAAG AAA
1 AAAAG AAAA-G AAAAG AAAAG AAAAG -AAAAG AAA
853501 GGGGGTCAAG
Statistics
Matches: 60, Mismatches: 4, Indels: 18
0.73 0.05 0.22
Matches are distributed among these distances:
4 14 0.23
5 31 0.52
6 10 0.17
7 5 0.08
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.03
Consensus pattern (5 bp):
AAAAG
Found at i:853449 original size:20 final size:19
Alignment explanation
Indices: 853421--853500 Score: 108
Period size: 19 Copynumber: 4.1 Consensus size: 19
853411 ATGCTTGAAG
853421 AAAAAAGAAAAGAAAAAGA
1 AAAAAAGAAAAGAAAAAGA
853440 AAAGAAAGAAAAGAAAAAAGA
1 AAA-AAAGAAAAG-AAAAAGA
*
853461 AAAAAA-AAATAGAAAATGA
1 AAAAAAGAAA-AGAAAAAGA
*
853480 AAAAAAGAGAAGAAAAAGA
1 AAAAAAGAAAAGAAAAAGA
853499 AA
1 AA
853501 GGGGGTCAAG
Statistics
Matches: 54, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
19 28 0.52
20 16 0.30
21 10 0.19
ACGTcount: A:0.81, C:0.00, G:0.16, T:0.03
Consensus pattern (19 bp):
AAAAAAGAAAAGAAAAAGA
Found at i:853455 original size:32 final size:33
Alignment explanation
Indices: 853418--853500 Score: 100
Period size: 32 Copynumber: 2.5 Consensus size: 33
853408 ATTATGCTTG
853418 AAGAAAAAAGAAAAGAAAA-AGAAAA-GAAAGAA
1 AAGAAAAAAGAAAAGAAAATAGAAAATGAAA-AA
*
853450 AAGAAAAAAGAAAAAAAAAATAGAAAATGAAAAA
1 AAGAAAAAAG-AAAAGAAAATAGAAAATGAAAAA
* *
853484 AAGAGAAGA-AAAAGAAA
1 AAGAAAAAAGAAAAGAAA
853501 GGGGGTCAAG
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
32 17 0.39
33 8 0.18
34 15 0.34
35 4 0.09
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (33 bp):
AAGAAAAAAGAAAAGAAAATAGAAAATGAAAAA
Found at i:853462 original size:39 final size:38
Alignment explanation
Indices: 853418--853500 Score: 114
Period size: 39 Copynumber: 2.2 Consensus size: 38
853408 ATTATGCTTG
*
853418 AAGAAAAAAGAAA-AGAAAAAGAAAAGAAAGAAAAGAAAA
1 AAGAAAAAAAAAATAGAAAAAGAAAA-AAAGAAAAG-AAA
* *
853457 AAGAAAAAAAAAATAGAAAATGAAAAAAAGAGAAGAAA
1 AAGAAAAAAAAAATAGAAAAAGAAAAAAAGAAAAGAAA
853495 AAGAAA
1 AAGAAA
853501 GGGGGTCAAG
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
38 9 0.22
39 20 0.50
40 11 0.28
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (38 bp):
AAGAAAAAAAAAATAGAAAAAGAAAAAAAGAAAAGAAA
Found at i:853483 original size:7 final size:6
Alignment explanation
Indices: 853422--853500 Score: 63
Period size: 6 Copynumber: 12.5 Consensus size: 6
853412 TGCTTGAAGA
* *
853422 AAAAAG -AAAAG AAAAAG AAAAGAA AGAAAAG AAAAAAG AAAAAA AAAATAG
1 AAAAAG AAAAAG AAAAAG AAAA-AG A-AAAAG -AAAAAG AAAAAG AAAA-AG
*
853473 AAAATG AAAAA- AAGAGAAG AAAAAG AAA
1 AAAAAG AAAAAG AA-A-AAG AAAAAG AAA
853501 GGGGGTCAAG
Statistics
Matches: 59, Mismatches: 6, Indels: 16
0.73 0.07 0.20
Matches are distributed among these distances:
5 7 0.12
6 30 0.51
7 16 0.27
8 6 0.10
ACGTcount: A:0.81, C:0.00, G:0.16, T:0.03
Consensus pattern (6 bp):
AAAAAG
Found at i:854814 original size:52 final size:52
Alignment explanation
Indices: 854556--854811 Score: 442
Period size: 52 Copynumber: 4.9 Consensus size: 52
854546 GAATATGCCA
*
854556 ATAGCGTCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
* *
854608 ATAACATCTTCTAGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
854660 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT-GATCAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGA-CAGAAC
* *
854712 ATAGCATCTTCTGGAAGTGTTCTTTAAGTTATCTGATCTGGTTGGACAAAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
*
854764 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACA
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACA
854812 AAATCAAGTA
Statistics
Matches: 193, Mismatches: 9, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
51 2 0.01
52 189 0.98
53 2 0.01
ACGTcount: A:0.24, C:0.15, G:0.23, T:0.38
Consensus pattern (52 bp):
ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
Found at i:855543 original size:20 final size:20
Alignment explanation
Indices: 855479--855544 Score: 64
Period size: 20 Copynumber: 3.3 Consensus size: 20
855469 CCAGAGGAAG
855479 AGTTCATAATGAGAAGAACT
1 AGTTCATAATGAGAAGAACT
* **
855499 CG-TCATGAA-GAGGAAGAAGA
1 AGTTCAT-AATGA-GAAGAACT
855519 AGTTCATAATGAGAAGAACT
1 AGTTCATAATGAGAAGAACT
*
855539 TGTTCA
1 AGTTCA
855545 ACCTTTTGCT
Statistics
Matches: 35, Mismatches: 7, Indels: 8
0.70 0.14 0.16
Matches are distributed among these distances:
19 6 0.17
20 23 0.66
21 6 0.17
ACGTcount: A:0.42, C:0.11, G:0.24, T:0.23
Consensus pattern (20 bp):
AGTTCATAATGAGAAGAACT
Found at i:855640 original size:114 final size:115
Alignment explanation
Indices: 855438--856091 Score: 1003
Period size: 114 Copynumber: 5.7 Consensus size: 115
855428 TTAGCAAAGA
* *
855438 TTGAATTCATCAAACTGATGGATCATCATTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGTC
1 TTGAATTCATCAAATTGATGGATCATCATTTCCAGA-GAAGAGTTCATAATGAGAAGAACTCATC
855503 ATGAAG-AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGC
65 -TGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGC
* *
855554 TTGAATTCATC-ACTTGATGGATCATTCTTTTCCAGAGAA-AGTTCATAATGAGAAGAACTCATC
1 TTGAATTCATCAAATTGATGGATCA-TCATTTCCAGAGAAGAGTTCATAATGAGAAGAACTCATC
855617 TGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGC
65 TGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGC
855668 TTGAATTCATCAAATTGATGGATCATCATTTCCAGAG-A-AGTTCATAATGAGAAGAACTCATCT
1 TTGAATTCATCAAATTGATGGATCATCATTTCCAGAGAAGAGTTCATAATGAGAAGAACTCATCT
855731 GAAGAA-G--GAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGC
66 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGC
855778 TTGAATTCATCAAATTGATGGATCATCA-TTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGTC
1 TTGAATTCATCAAATTGATGGATCATCATTTCCAGA-GAAGAGTTCATAATGAGAAGAA--C-TC
*
855842 ATCTGAAGGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGC
62 ATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGC
855896 TTGAATTCATCAAATTGATGGATCATCATTTCCAGAGAAAGAGTTCATAATGAGAAGAACTCGTC
1 TTGAATTCATCAAATTGATGGATCATCATTTCCAGAG-AAGAGTTCATAATGAGAAGAA--C-TC
*
855961 ATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAATC-TTTGC
62 ATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGC
* * **
856014 TTGAATTCATC-ATTTGATGGAACATCATCCCCAGCAGAA-AGTTCATAATGAGAAGAACTCATC
1 TTGAATTCATCAAATTGATGGATCATCATTTCCAG-AGAAGAGTTCATAATGAGAAGAACTCATC
*
856077 TGGAGAA--AAGAAGAA
65 TGAAGAAGGAAGAAGAA
856092 TTTATTCAAT
Statistics
Matches: 509, Mismatches: 14, Indels: 35
0.91 0.03 0.06
Matches are distributed among these distances:
109 7 0.01
110 69 0.14
111 9 0.02
112 19 0.04
113 48 0.09
114 92 0.18
115 37 0.07
116 40 0.08
117 21 0.04
118 87 0.17
119 80 0.16
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.28
Consensus pattern (115 bp):
TTGAATTCATCAAATTGATGGATCATCATTTCCAGAGAAGAGTTCATAATGAGAAGAACTCATCT
GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGC
Found at i:855996 original size:119 final size:117
Alignment explanation
Indices: 855438--856073 Score: 1000
Period size: 118 Copynumber: 5.5 Consensus size: 117
855428 TTAGCAAAGA
*
855438 TTGAATTCATCAAACTGATGGATCATCATTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGTC
1 TTGAATTCATCAAATTGATGGATCATCATTTCCAGA-GAA-AGTTCATAATGAGAAGAACTCGTC
855503 A--TGAAG-AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGC
64 ATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGC
* *
855554 TTGAATTCATC-ACTTGATGGATCATTCTTTTCCAGAGAAAGTTCATAATGAGAAGAA--C-TCA
1 TTGAATTCATCAAATTGATGGATCA-TCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCGTCA
855615 TCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGC
65 TCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGC
855668 TTGAATTCATCAAATTGATGGATCATCATTTCCAGAG-AAGTTCATAATGAGAAGAA--C-TCAT
1 TTGAATTCATCAAATTGATGGATCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCGTCAT
855729 CTGAAGAA-G--GAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGC
66 CTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGC
855778 TTGAATTCATCAAATTGATGGATCATCA-TTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGTC
1 TTGAATTCATCAAATTGATGGATCATCATTTCCAGA-GAA-AGTTCATAATGAGAAGAACTCGTC
*
855842 ATCTGAAGGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGC
64 ATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGC
855896 TTGAATTCATCAAATTGATGGATCATCATTTCCAGAGAAAGAGTTCATAATGAGAAGAACTCGTC
1 TTGAATTCATCAAATTGATGGATCATCATTTCCAGAG-AA-AGTTCATAATGAGAAGAACTCGTC
*
855961 ATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAATC-TTTGC
64 ATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGC
* * **
856014 TTGAATTCATC-ATTTGATGGAACATCATCCCCAGCAGAAAGTTCATAATGAGAAGAACTC
1 TTGAATTCATCAAATTGATGGATCATCATTTCCAG-AGAAAGTTCATAATGAGAAGAACTC
856074 ATCTGGAGAA
Statistics
Matches: 491, Mismatches: 12, Indels: 34
0.91 0.02 0.06
Matches are distributed among these distances:
109 7 0.01
110 69 0.14
111 4 0.01
112 20 0.04
113 37 0.08
114 86 0.18
115 37 0.08
116 43 0.09
117 21 0.04
118 87 0.18
119 80 0.16
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.28
Consensus pattern (117 bp):
TTGAATTCATCAAATTGATGGATCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCGTCAT
CTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGC
Found at i:856235 original size:3 final size:3
Alignment explanation
Indices: 856227--856318 Score: 120
Period size: 3 Copynumber: 31.7 Consensus size: 3
856217 TTTTTATCCA
* *
856227 TAT TAT TAT TAT TAT TA- TAT ATAT TAT TAT CAT TAT TAA TA- TAT
1 TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT
*
856271 TAT TAT TAT TAT TAT TAT TAT TTT TAT TAT T-T TAT TAT T-T TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
856317 TA
1 TA
856319 AATATATTAA
Statistics
Matches: 79, Mismatches: 5, Indels: 10
0.84 0.05 0.11
Matches are distributed among these distances:
2 8 0.10
3 68 0.86
4 3 0.04
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:856797 original size:10 final size:10
Alignment explanation
Indices: 856782--856823 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
856772 AAAAAAGGAA
856782 AAAGAAACAG
1 AAAGAAACAG
*
856792 AGAGAAACAG
1 AAAGAAACAG
*
856802 AAAG-AAGAG
1 AAAGAAACAG
*
856811 ACAGAAACAG
1 AAAGAAACAG
856821 AAA
1 AAA
856824 AAAAATACAG
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
9 7 0.28
10 18 0.72
ACGTcount: A:0.67, C:0.10, G:0.24, T:0.00
Consensus pattern (10 bp):
AAAGAAACAG
Found at i:856833 original size:19 final size:19
Alignment explanation
Indices: 856794--856834 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
856784 AGAAACAGAG
* *
856794 AGAAACAGAAAGAAGAGAC
1 AGAAACAGAAAAAAAAGAC
*
856813 AGAAACAGAAAAAAAATAC
1 AGAAACAGAAAAAAAAGAC
856832 AGA
1 AGA
856835 GAAAAAAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.68, C:0.10, G:0.20, T:0.02
Consensus pattern (19 bp):
AGAAACAGAAAAAAAAGAC
Found at i:857772 original size:21 final size:22
Alignment explanation
Indices: 857730--857772 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
857720 TGTTTTAGTG
**
857730 ATATTTTTATTATATTGTTAAA
1 ATATTTTTATTATATTCATAAA
857752 ATATTTTTA-TATATTCATAAA
1 ATATTTTTATTATATTCATAAA
857773 TATACATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (22 bp):
ATATTTTTATTATATTCATAAA
Found at i:864821 original size:20 final size:21
Alignment explanation
Indices: 864796--864876 Score: 76
Period size: 20 Copynumber: 3.9 Consensus size: 21
864786 TTTTGGTGCA
*
864796 GAGGGAATCGA-TCCCCCCAT
1 GAGGGAACCGATTCCCCCCAT
**
864816 GAGGGAACCGATTCCCCCTTT
1 GAGGGAACCGATTCCCCCCAT
864837 GAAGGGGAACCGATTCCCCCCA-
1 G-A-GGGAACCGATTCCCCCCAT
* * *
864859 CAGGGAATCGATACCCCC
1 GAGGGAACCGATTCCCCC
864877 TGGGGTTCTG
Statistics
Matches: 50, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
20 24 0.48
21 9 0.18
22 1 0.02
23 16 0.32
ACGTcount: A:0.25, C:0.36, G:0.25, T:0.15
Consensus pattern (21 bp):
GAGGGAACCGATTCCCCCCAT
Found at i:870351 original size:63 final size:64
Alignment explanation
Indices: 870245--870385 Score: 187
Period size: 63 Copynumber: 2.2 Consensus size: 64
870235 TTTACTTTAT
* * * *
870245 GGGGTATCGATACCCTACTGGGGTATCGGTACCCTCATAACATTCTGTAATTTT-TCGTTCAAG
1 GGGGTATCGGTACCCTACTGGGGTATCAGTACCCCCATAACATTCTGAAATTTTCTCGTTCAAG
* **
870308 GGGGTATCGGTACCC-ATCTGGGGTATCAGTACCCCCATGACATTCTGAAATTTTCTCGTTTGAG
1 GGGGTATCGGTACCCTA-CTGGGGTATCAGTACCCCCATAACATTCTGAAATTTTCTCGTTCAAG
*
870372 AGGGTATCGGTACC
1 GGGGTATCGGTACC
870386 TGTTGAATGG
Statistics
Matches: 68, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
62 1 0.01
63 47 0.69
64 20 0.29
ACGTcount: A:0.21, C:0.23, G:0.25, T:0.31
Consensus pattern (64 bp):
GGGGTATCGGTACCCTACTGGGGTATCAGTACCCCCATAACATTCTGAAATTTTCTCGTTCAAG
Found at i:871946 original size:23 final size:22
Alignment explanation
Indices: 871918--872009 Score: 91
Period size: 23 Copynumber: 4.1 Consensus size: 22
871908 ATTGAAGAAG
*
871918 GAAATGGGTTTATGGAAGAAATA
1 GAAATGAGTTTATGGAAGAAA-A
* *
871941 GAAATGAGTTTGTAGAAGAAAA
1 GAAATGAGTTTATGGAAGAAAA
*
871963 -AAAT--GTATTATGGAAGACGAA
1 GAAATGAGT-TTATGGAAGA-AAA
871984 GAAATGAGTTTATGGAAGAAGAA
1 GAAATGAGTTTATGGAAGAA-AA
872007 GAA
1 GAA
872010 TGGTTCAAAA
Statistics
Matches: 56, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
19 2 0.04
20 8 0.14
21 6 0.11
22 5 0.09
23 33 0.59
24 2 0.04
ACGTcount: A:0.48, C:0.01, G:0.28, T:0.23
Consensus pattern (22 bp):
GAAATGAGTTTATGGAAGAAAA
Found at i:873289 original size:8 final size:8
Alignment explanation
Indices: 873278--873304 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
873268 TTATTTTCAA
873278 TTTTTAAT
1 TTTTTAAT
873286 TTTTTAAT
1 TTTTTAAT
873294 TTTTTAAT
1 TTTTTAAT
873302 TTT
1 TTT
873305 ATATTTTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (8 bp):
TTTTTAAT
Found at i:882030 original size:3 final size:3
Alignment explanation
Indices: 882024--882060 Score: 65
Period size: 3 Copynumber: 12.0 Consensus size: 3
882014 TTTTTCCCAT
882024 TTA TTA TTA TTA TTA TTA TATA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA
882061 AATAAATATT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 30 0.91
4 3 0.09
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:882149 original size:15 final size:17
Alignment explanation
Indices: 882113--882151 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
882103 TTACAACCTG
*
882113 AGGCCCAGACCCAAACC
1 AGGCCCAGACCAAAACC
882130 AGGCCC-GACCAAAACC
1 AGGCCCAGACCAAAACC
882146 -GGCCCA
1 AGGCCCA
882152 AGACTAACCC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 5 0.25
16 9 0.45
17 6 0.30
ACGTcount: A:0.33, C:0.46, G:0.21, T:0.00
Consensus pattern (17 bp):
AGGCCCAGACCAAAACC
Found at i:882288 original size:16 final size:16
Alignment explanation
Indices: 882257--882298 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
882247 TCCAACAGAA
*
882257 AACCCTA-GGTATCAT
1 AACCCTAGGGCATCAT
882272 AACCCTAGGGCATCAT
1 AACCCTAGGGCATCAT
882288 AACCCTAGGGC
1 AACCCTAGGGC
882299 GTGGTTCCAC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
15 7 0.28
16 18 0.72
ACGTcount: A:0.31, C:0.31, G:0.19, T:0.19
Consensus pattern (16 bp):
AACCCTAGGGCATCAT
Found at i:883585 original size:18 final size:19
Alignment explanation
Indices: 883554--883593 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
883544 TTTTAGGAAA
883554 ATTTATTATATTTTATAAT
1 ATTTATTATATTTTATAAT
*
883573 ATTTATT-TATTTTTTAAT
1 ATTTATTATATTTTATAAT
883591 ATT
1 ATT
883594 AAAGAAATGG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 13 0.65
19 7 0.35
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
ATTTATTATATTTTATAAT
Found at i:883587 original size:20 final size:20
Alignment explanation
Indices: 883538--883588 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
883528 TTTTATTTAA
883538 ATTATTTTTTAGGAAAATTT
1 ATTATTTTTTAGGAAAATTT
* * *
883558 ATTATATTTTA-TAATATTT
1 ATTATTTTTTAGGAAAATTT
883577 ATTTATTTTTTA
1 A-TTATTTTTTA
883589 ATATTAAAGA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
19 7 0.27
20 19 0.73
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (20 bp):
ATTATTTTTTAGGAAAATTT
Found at i:886593 original size:6 final size:7
Alignment explanation
Indices: 886563--886598 Score: 56
Period size: 7 Copynumber: 5.1 Consensus size: 7
886553 CATACATTCA
886563 TTTGCAT
1 TTTGCAT
886570 TTTGCAT
1 TTTGCAT
886577 CTTTGCAT
1 -TTTGCAT
886585 TTT-CAT
1 TTTGCAT
886591 TTTGCAT
1 TTTGCAT
886598 T
1 T
886599 CGTACTTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 6 0.22
7 14 0.52
8 7 0.26
ACGTcount: A:0.14, C:0.17, G:0.11, T:0.58
Consensus pattern (7 bp):
TTTGCAT
Found at i:891938 original size:23 final size:23
Alignment explanation
Indices: 891912--891980 Score: 95
Period size: 23 Copynumber: 3.0 Consensus size: 23
891902 CACCACAGCT
*
891912 CGTATAATTGCACCGAAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
* *
891935 CGTAGAATTGCACCGGAGTGCCG
1 CGTAGAATTGCACCGAAGTGCCA
891958 CGTAGAATTGCACC-ATAGTGCCA
1 CGTAGAATTGCACCGA-AGTGCCA
891981 TTTAAGAATC
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.28, C:0.26, G:0.26, T:0.20
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCA
Found at i:892161 original size:103 final size:103
Alignment explanation
Indices: 891982--892175 Score: 334
Period size: 103 Copynumber: 1.9 Consensus size: 103
891972 ATAGTGCCAT
* * *
891982 TTAAGAATCATATACATATACTAGGGATCAAGTATGTATCTCACTAGACTTCACACATGTTCCAA
1 TTAAGAATCATATACATATACCAAGGATCAAGTATGTATCTCACCAGACTTCACACATGTTCCAA
892047 AGAATACATATATGTCCCGAAGGACCACATATCATTCC
66 AGAATACATATATGTCCCGAAGGACCACATATCATTCC
* *
892085 TTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCAGACTTCACACATGTTCCAA
1 TTAAGAATCATATACATATACCAAGGATCAAGTATGTATCTCACCAGACTTCACACATGTTCCAA
*
892150 AGAATACATATATGTCTCGAAGGACC
66 AGAATACATATATGTCCCGAAGGACC
892176 GCGTAGACCC
Statistics
Matches: 85, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
103 85 1.00
ACGTcount: A:0.37, C:0.22, G:0.14, T:0.27
Consensus pattern (103 bp):
TTAAGAATCATATACATATACCAAGGATCAAGTATGTATCTCACCAGACTTCACACATGTTCCAA
AGAATACATATATGTCCCGAAGGACCACATATCATTCC
Found at i:893016 original size:20 final size:20
Alignment explanation
Indices: 892993--893038 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
892983 CTCTTTATAA
892993 ACATCTATTTCTATTTCCCT
1 ACATCTATTTCTATTTCCCT
893013 ACATCTATTTCTATTTCCCT
1 ACATCTATTTCTATTTCCCT
893033 ACATCT
1 ACATCT
893039 CTCGACTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.22, C:0.30, G:0.00, T:0.48
Consensus pattern (20 bp):
ACATCTATTTCTATTTCCCT
Found at i:893594 original size:20 final size:21
Alignment explanation
Indices: 893553--893608 Score: 87
Period size: 20 Copynumber: 2.7 Consensus size: 21
893543 CATTTGAGGG
*
893553 GGGTATCGATTCCCTATTGAAT
1 GGGTACCGATTCCC-ATTGAAT
893575 GGGTACCGATTCCC-TTGAAT
1 GGGTACCGATTCCCATTGAAT
893595 GGGTACCGATTCCC
1 GGGTACCGATTCCC
893609 CTTGCCCAGA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
20 20 0.61
22 13 0.39
ACGTcount: A:0.20, C:0.25, G:0.25, T:0.30
Consensus pattern (21 bp):
GGGTACCGATTCCCATTGAAT
Found at i:897187 original size:23 final size:23
Alignment explanation
Indices: 897161--897229 Score: 84
Period size: 23 Copynumber: 3.0 Consensus size: 23
897151 CACCACAGCT
*
897161 CGTATAATTGCACCGAAGTGCCA
1 CGTAAAATTGCACCGAAGTGCCA
* * *
897184 CGTAGAATTGCACCGGAGTGCCG
1 CGTAAAATTGCACCGAAGTGCCA
* *
897207 CGTAAAATTACACCGTAGTGCCA
1 CGTAAAATTGCACCGAAGTGCCA
897230 TATAATAGGG
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.29, C:0.26, G:0.25, T:0.20
Consensus pattern (23 bp):
CGTAAAATTGCACCGAAGTGCCA
Found at i:898246 original size:20 final size:20
Alignment explanation
Indices: 898223--898268 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
898213 CTCTTTATAA
898223 ACATCTATTTCTATTTCCCT
1 ACATCTATTTCTATTTCCCT
898243 ACATCTATTTCTATTTCCCT
1 ACATCTATTTCTATTTCCCT
898263 ACATCT
1 ACATCT
898269 CTCGACTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.22, C:0.30, G:0.00, T:0.48
Consensus pattern (20 bp):
ACATCTATTTCTATTTCCCT
Found at i:898798 original size:23 final size:22
Alignment explanation
Indices: 898775--898817 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
898765 TCTGGTTCAT
* *
898775 TTGAGGGGGTATCGATTCCCCA
1 TTGAAGGGGTACCGATTCCCCA
*
898797 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
898818 TTGCCCAGAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.19, C:0.26, G:0.28, T:0.28
Consensus pattern (22 bp):
TTGAAGGGGTACCGATTCCCCA
Found at i:900134 original size:54 final size:54
Alignment explanation
Indices: 900043--900204 Score: 234
Period size: 54 Copynumber: 3.0 Consensus size: 54
900033 GCTTCACTAG
* * *
900043 CAAACATCTGGGCAGAAACCACAGGAAATGATGAATGTGTTATCAAATGATTTA
1 CAAACATCTGGGCAGAAGCCACAGGAAAGGATGAATGTGTTATCAAATGTTTTA
* * * *
900097 CGAATATCTGGGTAGAAGCCACAGGAAAGGATAAATGTGTTATCAAATGTTTTA
1 CAAACATCTGGGCAGAAGCCACAGGAAAGGATGAATGTGTTATCAAATGTTTTA
* * *
900151 CAAACATCTGGGCAGAAGCCACATGAAAGTATGAATGTGTTGTCAAATGTTTTA
1 CAAACATCTGGGCAGAAGCCACAGGAAAGGATGAATGTGTTATCAAATGTTTTA
900205 TGAACCAGGA
Statistics
Matches: 94, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 94 1.00
ACGTcount: A:0.38, C:0.14, G:0.22, T:0.27
Consensus pattern (54 bp):
CAAACATCTGGGCAGAAGCCACAGGAAAGGATGAATGTGTTATCAAATGTTTTA
Found at i:900604 original size:22 final size:21
Alignment explanation
Indices: 900574--900630 Score: 69
Period size: 22 Copynumber: 2.6 Consensus size: 21
900564 CTACATCTAC
900574 ATTCATCAAAGATAATAGATTT
1 ATTCATCAAAGATAATAGA-TT
* *
900596 ATTCCTCAAAGATGATAGATT
1 ATTCATCAAAGATAATAGATT
*
900617 ATCTCTTCAAAGAT
1 AT-TCATCAAAGAT
900631 TAAAGCTTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
21 4 0.13
22 27 0.87
ACGTcount: A:0.40, C:0.14, G:0.11, T:0.35
Consensus pattern (21 bp):
ATTCATCAAAGATAATAGATT
Found at i:901357 original size:45 final size:45
Alignment explanation
Indices: 901293--901727 Score: 690
Period size: 45 Copynumber: 9.7 Consensus size: 45
901283 TATTTCTTGA
901293 ATCTGTAAGACCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTC
1 ATCTGTAAGACCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTC
* *
901338 ATCTGTAAGACATTCAGTGCATGATGTTTTCAAAACCTTCGGTTC
1 ATCTGTAAGACCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTC
* *
901383 ATTTGTAAGACCTTCAGTGCATGATGTTTTCAAAACCTTCGGATC
1 ATCTGTAAGACCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTC
* * *
901428 ATCTGTAAGACCTACAGTGCATGATGTTTTCAAAGCCTTTGGGTC
1 ATCTGTAAGACCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTC
** * * *
901473 ATCCATAAGACCTACAGTGCATGATTTTTTCAAAACCTTCGGGTT
1 ATCTGTAAGACCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTC
* *
901518 ATCTGTAAGACCTACAGTGCATGATGCTTTCAAAACCTTCGGGTC
1 ATCTGTAAGACCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTC
*
901563 ATCTGTAAGACCTTCAGTGCGTGATGTTTTCAAAACCTTCGGGTC
1 ATCTGTAAGACCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTC
*
901608 ATCTGTAAGACCTTCAGTGCATGATGTTTTTAAAACCTTCGGGTC
1 ATCTGTAAGACCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTC
*
901653 ATCTGTAAGACCTTCAGTGCATGATATTTTCAAAACCTTCGGGTC
1 ATCTGTAAGACCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTC
** *
901698 ATCCATAAGACCTTCAGTGCAGGATGTTTT
1 ATCTGTAAGACCTTCAGTGCATGATGTTTT
901728 GAAATAGAAA
Statistics
Matches: 358, Mismatches: 32, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 358 1.00
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (45 bp):
ATCTGTAAGACCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTC
Found at i:901577 original size:20 final size:20
Alignment explanation
Indices: 901552--901667 Score: 63
Period size: 20 Copynumber: 5.3 Consensus size: 20
901542 TGCTTTCAAA
901552 ACCTTCGGGTCATCTGTAAG
1 ACCTTCGGGTCATCTGTAAG
* * * *
901572 ACCTTCAGTGCGTGATGTTTTCAAA
1 ACCTTC-G-G-GTCAT-CTGT-AAG
901597 ACCTTCGGGTCATCTGTAAG
1 ACCTTCGGGTCATCTGTAAG
* * *
901617 ACCTTC-AGTGCATGATGTTTTTAAA
1 ACCTTCGGGT-CAT-CTG----TAAG
901642 ACCTTCGGGTCATCTGTAAG
1 ACCTTCGGGTCATCTGTAAG
901662 ACCTTC
1 ACCTTC
901668 AGTGCATGAT
Statistics
Matches: 70, Mismatches: 14, Indels: 24
0.65 0.13 0.22
Matches are distributed among these distances:
19 2 0.03
20 26 0.37
21 5 0.07
22 5 0.07
23 5 0.07
24 5 0.07
25 20 0.29
26 2 0.03
ACGTcount: A:0.22, C:0.23, G:0.21, T:0.34
Consensus pattern (20 bp):
ACCTTCGGGTCATCTGTAAG
Found at i:901835 original size:39 final size:39
Alignment explanation
Indices: 901778--902188 Score: 605
Period size: 39 Copynumber: 10.6 Consensus size: 39
901768 ACATTTCCAG
901778 AAGGAGTTCATAATCTGAAGAACTCATCTGAAGAGGAAA
1 AAGGAGTTCATAATCTGAAGAACTCATCTGAAGAGGAAA
* * *
901817 AATGAGTTCATAATCTGAAGAACTCGTCTAAAGAGGAAA
1 AAGGAGTTCATAATCTGAAGAACTCATCTGAAGAGGAAA
* *
901856 AAGGAGTTCATAATCTGAAGAACTCGTCTGAAAAGGAAA
1 AAGGAGTTCATAATCTGAAGAACTCATCTGAAGAGGAAA
* * * * *
901895 AAAGAGTTTATAATCTGAATAACTCATTTTAAGAGGAAA
1 AAGGAGTTCATAATCTGAAGAACTCATCTGAAGAGGAAA
* *
901934 AATGAGTTCATAATCTGAAGAACTCGTCTGAAGAGGAAA
1 AAGGAGTTCATAATCTGAAGAACTCATCTGAAGAGGAAA
* *
901973 AAGGAGTTCATAATCTGAAGAATTCGTCTGAAGAGGAAA
1 AAGGAGTTCATAATCTGAAGAACTCATCTGAAGAGGAAA
*
902012 AAGGAGTTCATAATCTGAAGAACTCGTCTGAAGAGGAAA
1 AAGGAGTTCATAATCTGAAGAACTCATCTGAAGAGGAAA
902051 AAGGAGTTCATAATCTGAAGAACTCATCTGAAGAGGAAA
1 AAGGAGTTCATAATCTGAAGAACTCATCTGAAGAGGAAA
* *
902090 AATGAGTTCATAATCTGAAGAACTCATATGAAGAGGAAGA
1 AAGGAGTTCATAATCTGAAGAACTCATCTGAAGAGGAA-A
*
902130 AA-GAGGTCATAATCTGAAGAACTCATCTGAAGA-G--A
1 AAGGAGTTCATAATCTGAAGAACTCATCTGAAGAGGAAA
* *
902165 AAGAAGTTCATAGTCTGAAGAACT
1 AAGGAGTTCATAATCTGAAGAACT
902189 TATTCAACCT
Statistics
Matches: 340, Mismatches: 30, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
35 3 0.01
36 18 0.05
38 1 0.00
39 315 0.93
40 3 0.01
ACGTcount: A:0.43, C:0.12, G:0.22, T:0.23
Consensus pattern (39 bp):
AAGGAGTTCATAATCTGAAGAACTCATCTGAAGAGGAAA
Found at i:902375 original size:3 final size:3
Alignment explanation
Indices: 902369--902428 Score: 68
Period size: 3 Copynumber: 20.0 Consensus size: 3
902359 TTTTGCCCAT
* * * *
902369 TTA TTA TTA TTA TAA TTA TAA TTA TTA ATA TTA ATA TTA -TA TATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
902414 TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA
902429 AATAAATATT
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
2 2 0.04
3 42 0.89
4 3 0.06
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:903922 original size:144 final size:145
Alignment explanation
Indices: 903788--904056 Score: 359
Period size: 145 Copynumber: 1.9 Consensus size: 145
903778 TTTATTTTGT
903788 AAAAA-TAT-ATATTAAATAATA-TTATTTATTTTTAAATATT-AAGAAATGAATTGTCTTAAAA
1 AAAAATTATCATATTAAATAATATTTATTTATTTTTAAATATTAAAGAAATGAATTGTCTTAAAA
* * *
903849 CAACTAGATATCATTTTCTGATATTTTTAAATTAATAAA-ATATTATATTTAATCTAGTTTTATT
66 CAAATAGATATCATTTTATGATATTTTTAAATAAATAAATATATT-TATTTAATCTAGTTTTATT
903913 TAAATTATTTTTTAGG
130 TAAATTATTTTTTAGG
** * * ** *
903929 AAAAATTATCATATTTTATCATATTTATTTATTTTTTAATATTAAAGAAATGGGTTGTCTTAAAG
1 AAAAATTATCATATTAAATAATATTTATTTATTTTTAAATATTAAAGAAATGAATTGTCTTAAAA
* * * * *
903994 TAAATAGATGTCCTTTTATGATATTTTTAAATAAATAAATATATTTATTTACTTTAGTTTTAT
66 CAAATAGATATCATTTTATGATATTTTTAAATAAATAAATATATTTATTTAATCTAGTTTTAT
904057 AAATATTATT
Statistics
Matches: 108, Mismatches: 15, Indels: 6
0.84 0.12 0.05
Matches are distributed among these distances:
141 5 0.05
142 3 0.03
143 10 0.09
144 18 0.17
145 67 0.62
146 5 0.05
ACGTcount: A:0.40, C:0.04, G:0.07, T:0.49
Consensus pattern (145 bp):
AAAAATTATCATATTAAATAATATTTATTTATTTTTAAATATTAAAGAAATGAATTGTCTTAAAA
CAAATAGATATCATTTTATGATATTTTTAAATAAATAAATATATTTATTTAATCTAGTTTTATTT
AAATTATTTTTTAGG
Found at i:911103 original size:12 final size:12
Alignment explanation
Indices: 911086--911153 Score: 54
Period size: 12 Copynumber: 6.0 Consensus size: 12
911076 AAATACAATA
*
911086 TGAACAGTACCG
1 TGAACAATACCG
* *
911098 TGAACAGTA--A
1 TGAACAATACCG
* *
911108 TGAACAATATCA
1 TGAACAATACCG
911120 TGAACAATA--G
1 TGAACAATACCG
*
911130 TGAACATTACCG
1 TGAACAATACCG
911142 TGAACAATACCG
1 TGAACAATACCG
911154 AATGTTAAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
10 16 0.34
12 31 0.66
ACGTcount: A:0.43, C:0.19, G:0.18, T:0.21
Consensus pattern (12 bp):
TGAACAATACCG
Found at i:911113 original size:22 final size:22
Alignment explanation
Indices: 911080--911150 Score: 81
Period size: 22 Copynumber: 3.3 Consensus size: 22
911070 ACAGTCAAAT
*
911080 ACAAT-ATGAACAGTACCGTGA
1 ACAATAATGAACAATACCGTGA
* * *
911101 ACAGTAATGAACAATATCATGA
1 ACAATAATGAACAATACCGTGA
* *
911123 ACAATAGTGAACATTACCGTGA
1 ACAATAATGAACAATACCGTGA
911145 ACAATA
1 ACAATA
911151 CCGAATGTTA
Statistics
Matches: 40, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
21 4 0.10
22 36 0.90
ACGTcount: A:0.46, C:0.17, G:0.15, T:0.21
Consensus pattern (22 bp):
ACAATAATGAACAATACCGTGA
Found at i:911966 original size:30 final size:31
Alignment explanation
Indices: 911930--912083 Score: 86
Period size: 31 Copynumber: 5.0 Consensus size: 31
911920 CCGAAGGACA
* *
911930 TGTCCATATGT-CATACAGAACCTAGG-CAAT
1 TGTCCATATGTCCAGA-AGAACCTAGGTAAAT
*
911960 TGTCCATA-GCTCCCGAAGAACCTAGGTAAAT
1 TGTCCATATG-TCCAGAAGAACCTAGGTAAAT
* ** * *
911991 TGTCCATATGTTTC-TTAGAACATAGGTATAT
1 TGTCCATATG-TCCAGAAGAACCTAGGTAAAT
* * *
912022 TGTCCATATGTCCTGAA-AGACATAGGTAATT
1 TGTCCATATGTCCAGAAGA-ACCTAGGTAAAT
* * *
912053 ATGTTCATATGTTCC-GTAGAACATAGGTAAA
1 -TGTCCATATG-TCCAGAAGAACCTAGGTAAA
912084 CCCTCGACTC
Statistics
Matches: 98, Mismatches: 17, Indels: 16
0.75 0.13 0.12
Matches are distributed among these distances:
29 1 0.01
30 22 0.22
31 47 0.48
32 24 0.24
33 4 0.04
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.31
Consensus pattern (31 bp):
TGTCCATATGTCCAGAAGAACCTAGGTAAAT
Found at i:912045 original size:31 final size:31
Alignment explanation
Indices: 911957--912083 Score: 107
Period size: 31 Copynumber: 4.1 Consensus size: 31
911947 GAACCTAGGC
* * *
911957 AATTGTCCATA-GCTCCCGAAGAACCTAGGTA
1 AATTGTCCATATGTTCCTGAA-AACATAGGTA
* * *
911988 AATTGTCCATATGTTTCTTAGAACATAGGTA
1 AATTGTCCATATGTTCCTGAAAACATAGGTA
*
912019 TATTGTCCATATG-TCCTGAAAGACATAGGTA
1 AATTGTCCATATGTTCCTGAAA-ACATAGGTA
* * *
912050 ATTATGTTCATATGTTCC-GTAGAACATAGGTA
1 AAT-TGTCCATATGTTCCTG-AAAACATAGGTA
912082 AA
1 AA
912084 CCCTCGACTC
Statistics
Matches: 76, Mismatches: 15, Indels: 9
0.76 0.15 0.09
Matches are distributed among these distances:
30 5 0.07
31 42 0.55
32 24 0.32
33 5 0.07
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Consensus pattern (31 bp):
AATTGTCCATATGTTCCTGAAAACATAGGTA
Found at i:914375 original size:23 final size:23
Alignment explanation
Indices: 914340--914387 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
914330 ATCAAGTACA
* *
914340 ATAATATATTAGGTAGTGCTTAT
1 ATAATATAATAGGTAGCGCTTAT
*
914363 ATAATGTAATAGGTAGCGCTTAT
1 ATAATATAATAGGTAGCGCTTAT
914386 AT
1 AT
914388 TGACATATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.06, G:0.19, T:0.40
Consensus pattern (23 bp):
ATAATATAATAGGTAGCGCTTAT
Found at i:918954 original size:2 final size:2
Alignment explanation
Indices: 918947--918989 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
918937 ATACTAAATT
918947 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
918989 T
1 T
918990 GTGTTAATGT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:919840 original size:39 final size:39
Alignment explanation
Indices: 919752--919845 Score: 111
Period size: 39 Copynumber: 2.4 Consensus size: 39
919742 GACCTTCTCA
* * * * *
919752 ATTTGCATGAAGACGCCATGCAGTCGTGAGGTTTTCTTT
1 ATTTGCTTGAAGACGCCATGCAGTCATGAAGTCTTCTAT
919791 ATTTGCTTGAAGACGCCATGCAGTCATGAAGTCTT-TAT
1 ATTTGCTTGAAGACGCCATGCAGTCATGAAGTCTTCTAT
919829 ATTTAAG-TTGAAGACGC
1 ATTT--GCTTGAAGACGC
919846 ATGGAGCACC
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
38 6 0.12
39 41 0.85
40 1 0.02
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.34
Consensus pattern (39 bp):
ATTTGCTTGAAGACGCCATGCAGTCATGAAGTCTTCTAT
Found at i:921767 original size:105 final size:103
Alignment explanation
Indices: 921587--921795 Score: 391
Period size: 105 Copynumber: 2.0 Consensus size: 103
921577 GTTTTTAAGG
921587 TCGCTAAAAACACATGCGAAAACGCCGCTAAAAGCGCCTGAAAATAGCGTCGCTAAAGTTTGTGG
1 TCGCTAAAAACACATGCGAAAACGCCGCTAAAAGCGCCTGAAAATAGCGTCGCTAAAGTTTGTGG
921652 CGTTTTTCATGAAAAAAGCCGCAATAGGTGTTGATATT
66 CGTTTTTCATGAAAAAAGCCGCAATAGGTGTTGATATT
921690 TCGCTAAAAACACATGCGAAAACGCCGCTAAAAGCGCCGCTGAAAATAGCGTCGCTAAAGTTTGT
1 TCGCTAAAAACACATGCGAAAACGCCGCTAAAAGCG-C-CTGAAAATAGCGTCGCTAAAGTTTGT
*
921755 GGCGTTTTTCATGAAAAACGCCGCAATAGGTGTTGATATT
64 GGCGTTTTTCATGAAAAAAGCCGCAATAGGTGTTGATATT
921795 T
1 T
921796 AGCGGCGTTT
Statistics
Matches: 103, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
103 36 0.35
104 1 0.01
105 66 0.64
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.24
Consensus pattern (103 bp):
TCGCTAAAAACACATGCGAAAACGCCGCTAAAAGCGCCTGAAAATAGCGTCGCTAAAGTTTGTGG
CGTTTTTCATGAAAAAAGCCGCAATAGGTGTTGATATT
Found at i:921816 original size:43 final size:42
Alignment explanation
Indices: 921767--922000 Score: 202
Period size: 43 Copynumber: 5.5 Consensus size: 42
921757 CGTTTTTCAT
921767 GAAAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTGACA
1 GAAAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTGA-A
* * * *
921810 GAAAAACGCCACAATAGATTTTGATA-TTAGCGGCGTTGGAA
1 GAAAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTGAA
* * *
921851 GACAAACGCCGCAATAGATGTTGATATTTAGCGGCATTTGGAA
1 GAAAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTT-GAA
* * * * ***
921894 GACAAACGCCGCAGTAGGT-TTCAATTTTTAGCGGCGTTTTTCC
1 GAAAAACGCCGCAATAGGTGTT-GATATTTAGCGGCG-TTTGAA
* * * * * * *
921937 CAGAAACGCCGCAGTAGGTGTTGATGTTTAGTGGCGTTTTAT
1 GAAAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTGAA
* * *
921979 TACAAACGCCGCAATAAGTGTT
1 GAAAAACGCCGCAATAGGTGTT
922001 AAGGTTTCGC
Statistics
Matches: 158, Mismatches: 28, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
41 24 0.15
42 47 0.30
43 82 0.52
44 5 0.03
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.28
Consensus pattern (42 bp):
GAAAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTGAA
Found at i:922033 original size:43 final size:40
Alignment explanation
Indices: 921982--922097 Score: 125
Period size: 35 Copynumber: 2.9 Consensus size: 40
921972 GTTTTATTAC
921982 AAACGCCGCAATAAGTGTTAAGGTTTCGCGGCATTTTTAGCTT
1 AAACGCCGCAATAAGTGTT---GTTTCGCGGCATTTTTAGCTT
922025 AAACGCCGCAAT-A----TGTTTCGCGGCATTTTTAGCTT
1 AAACGCCGCAATAAGTGTTGTTTCGCGGCATTTTTAGCTT
* * *
922060 AAACGCCGCAATATGTGTTTGATTTGGCGGCATCTTTA
1 AAACGCCGCAATAAGTG-TTG-TTTCGCGGCATTTTTA
922098 ATACAAACGC
Statistics
Matches: 63, Mismatches: 3, Indels: 15
0.78 0.04 0.19
Matches are distributed among these distances:
35 33 0.52
38 1 0.02
41 2 0.03
42 15 0.24
43 12 0.19
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.34
Consensus pattern (40 bp):
AAACGCCGCAATAAGTGTTGTTTCGCGGCATTTTTAGCTT
Found at i:922050 original size:35 final size:35
Alignment explanation
Indices: 922004--922075 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
921994 AAGTGTTAAG
922004 GTTTCGCGGCATTTTTAGCTTAAACGCCGCAATAT
1 GTTTCGCGGCATTTTTAGCTTAAACGCCGCAATAT
922039 GTTTCGCGGCATTTTTAGCTTAAACGCCGCAATAT
1 GTTTCGCGGCATTTTTAGCTTAAACGCCGCAATAT
922074 GT
1 GT
922076 GTTTGATTTG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.22, C:0.22, G:0.21, T:0.35
Consensus pattern (35 bp):
GTTTCGCGGCATTTTTAGCTTAAACGCCGCAATAT
Found at i:922538 original size:21 final size:21
Alignment explanation
Indices: 922471--922527 Score: 114
Period size: 21 Copynumber: 2.7 Consensus size: 21
922461 GATATTTGCT
922471 TCTCTTTGTGCTGCCGCTGCC
1 TCTCTTTGTGCTGCCGCTGCC
922492 TCTCTTTGTGCTGCCGCTGCC
1 TCTCTTTGTGCTGCCGCTGCC
922513 TCTCTTTGTGCTGCC
1 TCTCTTTGTGCTGCC
922528 ACTGTTTCTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.00, C:0.37, G:0.23, T:0.40
Consensus pattern (21 bp):
TCTCTTTGTGCTGCCGCTGCC
Found at i:922538 original size:42 final size:42
Alignment explanation
Indices: 922471--922553 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 42
922461 GATATTTGCT
* * *
922471 TCTCTTTGTGCTGCCGCTGCCTCTCTTTGTGCTGCCGCTGCC
1 TCTCTTTGTGCTGCCACTGCCTCTCTCTCTGCTGCCGCTGCC
** *
922513 TCTCTTTGTGCTGCCACTGTTTCTCTCTCTGCTTCCGCTGC
1 TCTCTTTGTGCTGCCACTGCCTCTCTCTCTGCTGCCGCTGC
922554 TGCTCTGGCT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.01, C:0.37, G:0.20, T:0.41
Consensus pattern (42 bp):
TCTCTTTGTGCTGCCACTGCCTCTCTCTCTGCTGCCGCTGCC
Found at i:922576 original size:20 final size:21
Alignment explanation
Indices: 922535--922589 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 21
922525 GCCACTGTTT
*
922535 CTCTCTCTGCTTCCGCTGCTG
1 CTCTCGCTGCTTCCGCTGCTG
*
922556 CTCTGGCTGCTTCCG-TGCTG
1 CTCTCGCTGCTTCCGCTGCTG
*
922576 CTCTCTCTGCTTCC
1 CTCTCGCTGCTTCC
922590 CTTGTTTCAT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 17 0.57
21 13 0.43
ACGTcount: A:0.00, C:0.42, G:0.20, T:0.38
Consensus pattern (21 bp):
CTCTCGCTGCTTCCGCTGCTG
Found at i:926217 original size:46 final size:46
Alignment explanation
Indices: 926150--926240 Score: 164
Period size: 46 Copynumber: 2.0 Consensus size: 46
926140 TAGCGATTCT
* *
926150 GAAATAACTACATGGTCAAACAAGACAGAGGAACGAAGGCAAGTAC
1 GAAATAACTACATGGTCAAACAAGAAAAAGGAACGAAGGCAAGTAC
926196 GAAATAACTACATGGTCAAACAAGAAAAAGGAACGAAGGCAAGTA
1 GAAATAACTACATGGTCAAACAAGAAAAAGGAACGAAGGCAAGTA
926241 AGTACCTTAG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.51, C:0.15, G:0.23, T:0.11
Consensus pattern (46 bp):
GAAATAACTACATGGTCAAACAAGAAAAAGGAACGAAGGCAAGTAC
Found at i:927119 original size:42 final size:41
Alignment explanation
Indices: 927058--927214 Score: 124
Period size: 41 Copynumber: 3.8 Consensus size: 41
927048 TAAAAACATC
* *
927058 TGCGGCGTTTTTTGTCAAAACGCCACTAAAGTACGCAT-CATT
1 TGCGGCGTTTTTAG-CAAAACGCCACTAAAGTACGAATAC-TT
*** * *
927100 TGCGGCGTTTGTTAGCAAAACGTTGCTAAATTACTAATACTT
1 TGCGGCGTTT-TTAGCAAAACGCCACTAAAGTACGAATACTT
* *
927142 TGCGGCGTTTCTA-CGAAAACGCCACTAAAGTACGAGT-CTAT
1 TGCGGCGTTTTTAGC-AAAACGCCACTAAAGTACGAATACT-T
* * *
927183 AGCGGCGTTTTTA-TACGAACGCCACTAAAGTA
1 TGCGGCGTTTTTAGCA-AAACGCCACTAAAGTA
927215 AAGTCTATAG
Statistics
Matches: 92, Mismatches: 18, Indels: 11
0.76 0.15 0.09
Matches are distributed among these distances:
40 4 0.04
41 45 0.49
42 39 0.42
43 4 0.04
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (41 bp):
TGCGGCGTTTTTAGCAAAACGCCACTAAAGTACGAATACTT
Found at i:927188 original size:41 final size:39
Alignment explanation
Indices: 927143--927251 Score: 123
Period size: 40 Copynumber: 2.7 Consensus size: 39
927133 CTAATACTTT
*
927143 GCGGCGTTTCTACGAAAACGCCACTAAAGTACGAGTCTATA
1 GCGGCGTTTCTACG-AAACGCCACTAAAGTA-AAGTCTATA
*
927184 GCGGCGTTTTTATACG-AACGCCACTAAAGTAAAGTCTATA
1 GCGGCG--TTTCTACGAAACGCCACTAAAGTAAAGTCTATA
*
927224 GCGGCGTGTTCATAC-AAACACCACTAAA
1 GCGGCGT-TTC-TACGAAACGCCACTAAA
927252 ATACAAATAT
Statistics
Matches: 59, Mismatches: 4, Indels: 11
0.80 0.05 0.15
Matches are distributed among these distances:
38 1 0.02
39 2 0.03
40 28 0.47
41 21 0.36
43 7 0.12
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.23
Consensus pattern (39 bp):
GCGGCGTTTCTACGAAACGCCACTAAAGTAAAGTCTATA
Found at i:927248 original size:40 final size:41
Alignment explanation
Indices: 927158--927257 Score: 139
Period size: 40 Copynumber: 2.5 Consensus size: 41
927148 GTTTCTACGA
* * *
927158 AAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTTTATAC
1 AAACGCCACTAAAGTACAAGTCTATAGCGGCGTGTTCATAC
*
927199 GAACGCCACTAAAGTA-AAGTCTATAGCGGCGTGTTCATAC
1 AAACGCCACTAAAGTACAAGTCTATAGCGGCGTGTTCATAC
* *
927239 AAACACCACTAAAATACAA
1 AAACGCCACTAAAGTACAA
927258 ATATTTTGCA
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
40 34 0.67
41 17 0.33
ACGTcount: A:0.38, C:0.23, G:0.17, T:0.22
Consensus pattern (41 bp):
AAACGCCACTAAAGTACAAGTCTATAGCGGCGTGTTCATAC
Found at i:927670 original size:56 final size:57
Alignment explanation
Indices: 927496--927682 Score: 358
Period size: 57 Copynumber: 3.3 Consensus size: 57
927486 ATTAAAACAG
927496 AAGTACTTATGCATAAAACTACTTAACAACAAAATACATTATAATTTAGAAACATTA
1 AAGTACTTATGCATAAAACTACTTAACAACAAAATACATTATAATTTAGAAACATTA
927553 AAGTACTTATGCATAAAACTACTTAACAACAAAATACATTATAATTTAGAAACATTA
1 AAGTACTTATGCATAAAACTACTTAACAACAAAATACATTATAATTTAGAAACATTA
*
927610 AAGTACTTATGCATAAAACTACTTAAAAAC-AAATACATTATAATTTAGAAACATTA
1 AAGTACTTATGCATAAAACTACTTAACAACAAAATACATTATAATTTAGAAACATTA
927666 AAGTACTTATGCATAAA
1 AAGTACTTATGCATAAA
927683 CAGTCTTCAC
Statistics
Matches: 129, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
56 43 0.33
57 86 0.67
ACGTcount: A:0.51, C:0.13, G:0.06, T:0.30
Consensus pattern (57 bp):
AAGTACTTATGCATAAAACTACTTAACAACAAAATACATTATAATTTAGAAACATTA
Found at i:928737 original size:41 final size:41
Alignment explanation
Indices: 928686--928793 Score: 132
Period size: 41 Copynumber: 2.6 Consensus size: 41
928676 CACATGTTTT
* * *
928686 TTGCGGCGTTTATACAATAAACGTCGCTATAT-TAC-ACTATA
1 TTGCGGCGTTT-TACTATAAACGCCGCTAAATGT-CTACTATA
928727 TTGCGGCGTTTTAGCTA-AAACGCCGCTAAATGTCTACTATA
1 TTGCGGCGTTTTA-CTATAAACGCCGCTAAATGTCTACTATA
928768 TTGCGGCGTTTTTACTATAAACGCCG
1 TTGCGGCG-TTTTACTATAAACGCCG
928794 TATTGTTTAA
Statistics
Matches: 59, Mismatches: 3, Indels: 9
0.83 0.04 0.13
Matches are distributed among these distances:
40 15 0.25
41 31 0.53
42 13 0.22
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (41 bp):
TTGCGGCGTTTTACTATAAACGCCGCTAAATGTCTACTATA
Found at i:930357 original size:3 final size:3
Alignment explanation
Indices: 930349--930424 Score: 54
Period size: 3 Copynumber: 26.0 Consensus size: 3
930339 CGGGAGTAAC
* * *
930349 GAA GAA GAA G-A GGA GAA GAAA GAA -AA GAA TAA GAA -AA GGA GAA
1 GAA GAA GAA GAA GAA GAA G-AA GAA GAA GAA GAA GAA GAA GAA GAA
*
930392 GAA -ATA -AA GGAA GAA AAA GAA GAA GAA GAA GAA
1 GAA GA-A GAA -GAA GAA GAA GAA GAA GAA GAA GAA
930425 TAAAGAAATA
Statistics
Matches: 59, Mismatches: 7, Indels: 14
0.74 0.09 0.17
Matches are distributed among these distances:
2 8 0.14
3 46 0.78
4 5 0.08
ACGTcount: A:0.67, C:0.00, G:0.30, T:0.03
Consensus pattern (3 bp):
GAA
Found at i:930377 original size:12 final size:11
Alignment explanation
Indices: 930350--930424 Score: 62
Period size: 11 Copynumber: 6.5 Consensus size: 11
930340 GGGAGTAACG
*
930350 AAGAAGAAGAG
1 AAGAAGAAGAA
*
930361 GAGAAGAAAGAA
1 AAGAAG-AAGAA
*
930373 AAGAATAAGAA
1 AAGAAGAAGAA
*
930384 AAGGAGAAGAA
1 AAGAAGAAGAA
930395 ATA-AAGGAAGAAA
1 A-AGAA-GAAG-AA
930408 AAGAAGAAGAA
1 AAGAAGAAGAA
930419 GAAGAA
1 -AAGAA
930425 TAAAGAAATA
Statistics
Matches: 51, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
11 23 0.45
12 23 0.45
13 5 0.10
ACGTcount: A:0.68, C:0.00, G:0.29, T:0.03
Consensus pattern (11 bp):
AAGAAGAAGAA
Found at i:930662 original size:18 final size:18
Alignment explanation
Indices: 930639--930692 Score: 63
Period size: 21 Copynumber: 2.8 Consensus size: 18
930629 GAGATGATGT
930639 TATTATTATTTAATAAAA
1 TATTATTATTTAATAAAA
*
930657 TATTATTATTTGAGAATAAAC
1 TATTATTATTT---AATAAAA
*
930678 TATTATTATTAAATA
1 TATTATTATTTAATA
930693 GTAGAAGTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
18 15 0.48
21 16 0.52
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (18 bp):
TATTATTATTTAATAAAA
Found at i:939722 original size:21 final size:19
Alignment explanation
Indices: 939682--939718 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
939672 CAGTATGTTC
939682 AGGGGGTATCGATTCCCCT
1 AGGGGGTATCGATTCCCCT
939701 AGGGGGTATCGATTCCCC
1 AGGGGGTATCGATTCCCC
939719 CCTAAATGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.16, C:0.27, G:0.32, T:0.24
Consensus pattern (19 bp):
AGGGGGTATCGATTCCCCT
Found at i:940378 original size:22 final size:19
Alignment explanation
Indices: 940328--940379 Score: 52
Period size: 18 Copynumber: 2.6 Consensus size: 19
940318 AGGGTATTGT
*
940328 AGTCCTTCGGGACGTAATG
1 AGTCCTTCGGGACATAATG
*
940347 -GTCCTACGGGACATATATAG
1 AGTCCTTCGGGACATA-AT-G
940367 AAGTCCTTCGGGA
1 -AGTCCTTCGGGA
940380 TGAATACTGA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
18 13 0.50
19 2 0.08
20 1 0.04
22 10 0.38
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (19 bp):
AGTCCTTCGGGACATAATG
Found at i:941744 original size:13 final size:13
Alignment explanation
Indices: 941726--941750 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
941716 GTGTTAGTAT
941726 ATATTTAAATTAA
1 ATATTTAAATTAA
941739 ATATTTAAATTA
1 ATATTTAAATTA
941751 TATTAGTATT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
ATATTTAAATTAA
Found at i:941891 original size:22 final size:22
Alignment explanation
Indices: 941849--941904 Score: 55
Period size: 22 Copynumber: 2.6 Consensus size: 22
941839 CTTAAAACAC
941849 ATAAA-TT-ATTATACTAAAAAA
1 ATAAAGTTAATTATACT-AAAAA
* * *
941870 ATACA-TTAATTATATTATAAA
1 ATAAAGTTAATTATACTAAAAA
941891 ATAAAGTTAATTAT
1 ATAAAGTTAATTAT
941905 TATACATAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
21 14 0.48
22 15 0.52
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (22 bp):
ATAAAGTTAATTATACTAAAAA
Found at i:941907 original size:20 final size:20
Alignment explanation
Indices: 941882--941969 Score: 116
Period size: 20 Copynumber: 4.7 Consensus size: 20
941872 ACATTAATTA
*
941882 TATTATAAAATAAAGTTAAT
1 TATTATAAAATCAAGTTAAT
*
941902 TATTAT---A-C-A-TAAAT
1 TATTATAAAATCAAGTTAAT
941916 TATTATAAAATCAAGTTAAT
1 TATTATAAAATCAAGTTAAT
941936 TATTATAAAATCAAGTTAAT
1 TATTATAAAATCAAGTTAAT
941956 TATTATAAAATCAA
1 TATTATAAAATCAA
941970 ATATATACAT
Statistics
Matches: 59, Mismatches: 3, Indels: 12
0.80 0.04 0.16
Matches are distributed among these distances:
14 10 0.17
15 1 0.02
17 2 0.03
18 1 0.02
19 1 0.02
20 44 0.75
ACGTcount: A:0.52, C:0.05, G:0.03, T:0.40
Consensus pattern (20 bp):
TATTATAAAATCAAGTTAAT
Found at i:941910 original size:36 final size:34
Alignment explanation
Indices: 941882--942014 Score: 121
Period size: 34 Copynumber: 3.8 Consensus size: 34
941872 ACATTAATTA
941882 TATTATAAAATAAAGTTAATTATTATACATAAAT
1 TATTATAAAATAAAGTTAATTATTATACATAAAT
* *
941916 TATTATAAAATCAAGTTAATTATTATAAAATCAAGTTAAT
1 TATTATAAAATAAAGTTAATTATTAT---A-C-A-TAAAT
* *
941956 TATTATAAAATCAAA--T-A-TATACATACACAAAT
1 TATTATAAAAT-AAAGTTAATTAT-TATACATAAAT
*
941988 TATTATAAAATCAAGTTAATTATTATA
1 TATTATAAAATAAAGTTAATTATTATA
942015 AAAAAATTCA
Statistics
Matches: 79, Mismatches: 8, Indels: 24
0.71 0.07 0.22
Matches are distributed among these distances:
31 2 0.03
32 14 0.18
33 2 0.03
34 30 0.38
35 4 0.05
37 4 0.05
38 4 0.05
39 2 0.03
40 15 0.19
41 2 0.03
ACGTcount: A:0.52, C:0.06, G:0.03, T:0.39
Consensus pattern (34 bp):
TATTATAAAATAAAGTTAATTATTATACATAAAT
Found at i:941920 original size:17 final size:17
Alignment explanation
Indices: 941870--941921 Score: 52
Period size: 17 Copynumber: 2.9 Consensus size: 17
941860 TACTAAAAAA
*
941870 ATACATTAATTA-TATT
1 ATACATAAATTATTATT
*
941886 ATAAAATAAAGTTAATTATT
1 AT-ACATAAA-TT-ATTATT
941906 ATACATAAATTATTAT
1 ATACATAAATTATTAT
941922 AAAATCAAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
16 2 0.07
17 10 0.34
18 4 0.14
19 7 0.24
20 6 0.21
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (17 bp):
ATACATAAATTATTATT
Found at i:944855 original size:29 final size:29
Alignment explanation
Indices: 944784--944853 Score: 115
Period size: 29 Copynumber: 2.4 Consensus size: 29
944774 TTGATATTAT
944784 ACAATA-TAAAAATAATATTAACATAACA
1 ACAATAGTAAAAATAATATTAACATAACA
*
944812 ACAATAGTAAAAATAATATTAACATAATA
1 ACAATAGTAAAAATAATATTAACATAACA
944841 ATCAATAGTAAAA
1 A-CAATAGTAAAA
944854 TACCTCAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
28 6 0.15
29 22 0.56
30 11 0.28
ACGTcount: A:0.63, C:0.09, G:0.03, T:0.26
Consensus pattern (29 bp):
ACAATAGTAAAAATAATATTAACATAACA
Found at i:948302 original size:18 final size:18
Alignment explanation
Indices: 948279--948315 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
948269 TATCCCATGA
948279 TGCATCTGAGCTATGCTT
1 TGCATCTGAGCTATGCTT
948297 TGCATCTGAGCTATGCTT
1 TGCATCTGAGCTATGCTT
948315 T
1 T
948316 CTCGACTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.16, C:0.22, G:0.22, T:0.41
Consensus pattern (18 bp):
TGCATCTGAGCTATGCTT
Found at i:958264 original size:10 final size:10
Alignment explanation
Indices: 958249--958274 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
958239 TTTGCCTCTT
958249 TTCTTGGAGG
1 TTCTTGGAGG
958259 TTCTTGGAGG
1 TTCTTGGAGG
958269 TTCTTG
1 TTCTTG
958275 CCCTTCTTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.08, C:0.12, G:0.35, T:0.46
Consensus pattern (10 bp):
TTCTTGGAGG
Found at i:967258 original size:22 final size:22
Alignment explanation
Indices: 967233--967284 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
967223 ATATTAGTCC
967233 TTCGGGACGTATCCAGTGGTCA
1 TTCGGGACGTATCCAGTGGTCA
* *
967255 TTCGAGACGTATCCAGTGGTCC
1 TTCGGGACGTATCCAGTGGTCA
967277 TTCGGGAC
1 TTCGGGAC
967285 ATAGTGGTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.17, C:0.25, G:0.31, T:0.27
Consensus pattern (22 bp):
TTCGGGACGTATCCAGTGGTCA
Found at i:967292 original size:18 final size:18
Alignment explanation
Indices: 967269--967303 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
967259 AGACGTATCC
967269 AGTGGTCCTTCGGGACAT
1 AGTGGTCCTTCGGGACAT
* *
967287 AGTGGTTCTTTGGGACA
1 AGTGGTCCTTCGGGACA
967304 AATACTGAAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.17, C:0.17, G:0.34, T:0.31
Consensus pattern (18 bp):
AGTGGTCCTTCGGGACAT
Found at i:973612 original size:24 final size:24
Alignment explanation
Indices: 973582--973660 Score: 96
Period size: 24 Copynumber: 3.5 Consensus size: 24
973572 GCATGGGTAG
973582 TGCATCGATGCACCCGTCAAGGGA
1 TGCATCGATGCACCCGTCAAGGGA
***
973606 TGCATCGATGCATGGGT--A--G-
1 TGCATCGATGCACCCGTCAAGGGA
973625 TGCATCGATGCACCCGTCAAGGGA
1 TGCATCGATGCACCCGTCAAGGGA
973649 TGCATCGATGCA
1 TGCATCGATGCA
973661 GGGTAGTGCA
Statistics
Matches: 44, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
19 14 0.32
20 1 0.02
21 1 0.02
22 1 0.02
23 1 0.02
24 26 0.59
ACGTcount: A:0.24, C:0.25, G:0.30, T:0.20
Consensus pattern (24 bp):
TGCATCGATGCACCCGTCAAGGGA
Found at i:973615 original size:43 final size:43
Alignment explanation
Indices: 973562--973715 Score: 225
Period size: 43 Copynumber: 3.7 Consensus size: 43
973552 AATAGGATTT
*
973562 ATGCACCGATGCATGGGTAGTGCATCGATGCACCCGTCAAGGG
1 ATGCATCGATGCATGGGTAGTGCATCGATGCACCCGTCAAGGG
973605 ATGCATCGATGCATGGGTAGTGCATCGATGCACCCGTCAAGGG
1 ATGCATCGATGCATGGGTAGTGCATCGATGCACCCGTCAAGGG
973648 ATGCATCGATGCA-GGGTAGTGCATCGATGCA-CC-TCAA-GG
1 ATGCATCGATGCATGGGTAGTGCATCGATGCACCCGTCAAGGG
*
973687 ATGCAT--A--CATGGTGTAGTGCATCAATGCA
1 ATGCATCGATGCATGG-GTAGTGCATCGATGCA
973716 TACCTTCAAT
Statistics
Matches: 107, Mismatches: 2, Indels: 10
0.90 0.02 0.08
Matches are distributed among these distances:
35 2 0.02
36 2 0.02
37 16 0.15
39 8 0.07
40 4 0.04
41 2 0.02
42 18 0.17
43 55 0.51
ACGTcount: A:0.25, C:0.23, G:0.31, T:0.21
Consensus pattern (43 bp):
ATGCATCGATGCATGGGTAGTGCATCGATGCACCCGTCAAGGG
Found at i:974250 original size:22 final size:23
Alignment explanation
Indices: 974225--974277 Score: 92
Period size: 22 Copynumber: 2.4 Consensus size: 23
974215 TATATTAGTT
974225 TTTCGGGACGTATCCAGTGGT-C
1 TTTCGGGACGTATCCAGTGGTCC
974247 TTTCGGGACGTATCCAGTGGTCC
1 TTTCGGGACGTATCCAGTGGTCC
974270 TTT-GGGAC
1 TTTCGGGAC
974278 AAATACTGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
22 26 0.87
23 4 0.13
ACGTcount: A:0.13, C:0.23, G:0.32, T:0.32
Consensus pattern (23 bp):
TTTCGGGACGTATCCAGTGGTCC
Found at i:975349 original size:45 final size:46
Alignment explanation
Indices: 975277--975400 Score: 144
Period size: 45 Copynumber: 2.6 Consensus size: 46
975267 AAATTTTTAT
*
975277 TGTTTAAATTAGTTTATTA-TATGAAATTATTAGTTTATTAGTTTAGG
1 TGTTT-AATTAGTTTGTTAGTAT-AAATTATTAGTTTATTAGTTTAGG
*
975324 -GTTTAATTAGTTTGTTAGTATAAATTATTAGTTTGTTAGTTTAGG
1 TGTTTAATTAGTTTGTTAGTATAAATTATTAGTTTATTAGTTTAGG
* * *
975369 TTATATTATATTAGTTTGTTAGTTTAAGTTAT
1 -TGT-TTA-ATTAGTTTGTTAGTATAAATTAT
975401 ATATTATATT
Statistics
Matches: 67, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
45 35 0.52
46 7 0.10
47 1 0.01
48 3 0.04
49 21 0.31
ACGTcount: A:0.29, C:0.00, G:0.16, T:0.55
Consensus pattern (46 bp):
TGTTTAATTAGTTTGTTAGTATAAATTATTAGTTTATTAGTTTAGG
Found at i:975355 original size:21 final size:21
Alignment explanation
Indices: 975284--975363 Score: 72
Period size: 21 Copynumber: 3.7 Consensus size: 21
975274 TATTGTTTAA
975284 ATTAGTTTATTA-TATGAAATT
1 ATTAGTTTATTAGTAT-AAATT
* **
975305 ATTAGTTTATTAGTTTAGGGTTT
1 ATTAGTTTATTAGTATA--AATT
*
975328 AATTAGTTTGTTAGTATAAATT
1 -ATTAGTTTATTAGTATAAATT
*
975350 ATTAGTTTGTTAGT
1 ATTAGTTTATTAGT
975364 TTAGGTTATA
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
21 27 0.56
22 4 0.08
23 2 0.04
24 15 0.31
ACGTcount: A:0.30, C:0.00, G:0.16, T:0.54
Consensus pattern (21 bp):
ATTAGTTTATTAGTATAAATT
Found at i:975372 original size:21 final size:21
Alignment explanation
Indices: 975303--975372 Score: 77
Period size: 21 Copynumber: 3.2 Consensus size: 21
975293 TTATATGAAA
*
975303 TTATTAGTTTATTAGTTTAGGG
1 TTATTAGTTTGTTAGTTTA-GG
* **
975325 TTTAATTAGTTTGTTAGTATAAA
1 -TT-ATTAGTTTGTTAGTTTAGG
975348 TTATTAGTTTGTTAGTTTAGG
1 TTATTAGTTTGTTAGTTTAGG
975369 TTAT
1 TTAT
975373 ATTATATTAG
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
21 20 0.51
22 2 0.05
23 2 0.05
24 15 0.38
ACGTcount: A:0.26, C:0.00, G:0.19, T:0.56
Consensus pattern (21 bp):
TTATTAGTTTGTTAGTTTAGG
Found at i:975381 original size:28 final size:30
Alignment explanation
Indices: 975349--975411 Score: 103
Period size: 28 Copynumber: 2.2 Consensus size: 30
975339 TAGTATAAAT
975349 TATTAGTTTGTTAGTTT-AGGT-TATATTA
1 TATTAGTTTGTTAGTTTAAGGTATATATTA
*
975377 TATTAGTTTGTTAGTTTAAGTTATATATTA
1 TATTAGTTTGTTAGTTTAAGGTATATATTA
975407 TATTA
1 TATTA
975412 TATAAAAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 17 0.53
29 3 0.09
30 12 0.38
ACGTcount: A:0.29, C:0.00, G:0.14, T:0.57
Consensus pattern (30 bp):
TATTAGTTTGTTAGTTTAAGGTATATATTA
Found at i:975886 original size:15 final size:16
Alignment explanation
Indices: 975862--975891 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
975852 AAGTTATTTC
975862 TGTTTAAAAAATATTG
1 TGTTTAAAAAATATTG
975878 TGTTT-AAAAATATT
1 TGTTTAAAAAATATT
975892 TATTATTGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.43, C:0.00, G:0.10, T:0.47
Consensus pattern (16 bp):
TGTTTAAAAAATATTG
Found at i:979304 original size:60 final size:60
Alignment explanation
Indices: 979224--979340 Score: 225
Period size: 60 Copynumber: 1.9 Consensus size: 60
979214 AAAATTATAA
979224 TAATTATTTAGTAATGATTAGTAATAATGAAATTATTAATAATATTTAATGATTTGATAG
1 TAATTATTTAGTAATGATTAGTAATAATGAAATTATTAATAATATTTAATGATTTGATAG
*
979284 TAATTATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGA
1 TAATTATTTAGTAATGATTAGTAATAATGAAATTATTAATAATATTTAATGATTTGA
979341 ATTTATGTAA
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 56 1.00
ACGTcount: A:0.43, C:0.00, G:0.11, T:0.46
Consensus pattern (60 bp):
TAATTATTTAGTAATGATTAGTAATAATGAAATTATTAATAATATTTAATGATTTGATAG
Found at i:979481 original size:11 final size:11
Alignment explanation
Indices: 979465--979744 Score: 117
Period size: 11 Copynumber: 23.4 Consensus size: 11
979455 CAATTAACCA
979465 TAATAATGATT
1 TAATAATGATT
*
979476 TAATAATAATT
1 TAATAATGATT
979487 T--TAAT-ATT
1 TAATAATGATT
979495 TAATGATTTGATGATT
1 TAAT-A----ATGATT
*
979511 TAGTAATGATTT
1 TAATAATGA-TT
979523 GGTAATAATGA--
1 --TAATAATGATT
979534 TAATAATGATT
1 TAATAATGATT
*
979545 TAACAATGATT
1 TAATAATGATT
*
979556 TAGTAATGATTT
1 TAATAATGA-TT
*
979568 GATAATAATCATT
1 --TAATAATGATT
979581 ATAATAATGATTT
1 -TAATAATGA-TT
*
979594 AGTAATAATCATT
1 --TAATAATGATT
979607 ATAATAATGATTT
1 -TAATAATGA-TT
979620 GATAATAATGATT
1 --TAATAATGATT
979633 TAATAATGATT
1 TAATAATGATT
* *
979644 TAGTAATTATTAT
1 TAATAATGA-T-T
*
979657 TAATAACGATT
1 TAATAATGATT
* * *
979668 TATTATTAATAT
1 TAATAATGAT-T
979680 T--TAATGATT
1 TAATAATGATT
979689 TAATATTAATGA-T
1 T-A-A-TAATGATT
979702 TAAGTAATGATT
1 TAA-TAATGATT
979714 AGTAATAATGAAATT
1 --TAATAATG--ATT
979729 GTAATAATGATT
1 -TAATAATGATT
979741 TAAT
1 TAAT
979745 CATTAATAAT
Statistics
Matches: 211, Mismatches: 25, Indels: 66
0.70 0.08 0.22
Matches are distributed among these distances:
8 4 0.02
9 15 0.07
10 6 0.03
11 69 0.33
12 30 0.14
13 24 0.11
14 51 0.24
15 6 0.03
16 6 0.03
ACGTcount: A:0.43, C:0.01, G:0.11, T:0.45
Consensus pattern (11 bp):
TAATAATGATT
Found at i:979588 original size:26 final size:26
Alignment explanation
Indices: 979559--979644 Score: 140
Period size: 26 Copynumber: 3.3 Consensus size: 26
979549 AATGATTTAG
979559 TAATGATTTGATAATAATCATTATAA
1 TAATGATTTGATAATAATCATTATAA
979585 TAATGATTT-AGTAATAATCATTATAA
1 TAATGATTTGA-TAATAATCATTATAA
*
979611 TAATGATTTGATAATAATGATT-TAA
1 TAATGATTTGATAATAATCATTATAA
979636 TAATGATTT
1 TAATGATTT
979645 AGTAATTATT
Statistics
Matches: 57, Mismatches: 1, Indels: 5
0.90 0.02 0.08
Matches are distributed among these distances:
25 13 0.23
26 43 0.75
27 1 0.02
ACGTcount: A:0.44, C:0.02, G:0.09, T:0.44
Consensus pattern (26 bp):
TAATGATTTGATAATAATCATTATAA
Found at i:979601 original size:14 final size:14
Alignment explanation
Indices: 979559--979650 Score: 85
Period size: 14 Copynumber: 7.1 Consensus size: 14
979549 AATGATTTAG
979559 TAATGATTT-GATAA
1 TAATGATTTAG-TAA
*
979573 TAATCA-TTA-TAA
1 TAATGATTTAGTAA
979585 TAATGATTTAGTAA
1 TAATGATTTAGTAA
*
979599 TAATCA-TTA-TAA
1 TAATGATTTAGTAA
979611 TAATGATTT-GATAA
1 TAATGATTTAG-TAA
979625 TAATGA-TT--TAA
1 TAATGATTTAGTAA
979636 TAATGATTTAGTAA
1 TAATGATTTAGTAA
979650 T
1 T
979651 TATTATTAAT
Statistics
Matches: 65, Mismatches: 4, Indels: 18
0.75 0.05 0.21
Matches are distributed among these distances:
11 9 0.14
12 18 0.28
13 12 0.18
14 26 0.40
ACGTcount: A:0.45, C:0.02, G:0.10, T:0.43
Consensus pattern (14 bp):
TAATGATTTAGTAA
Found at i:979690 original size:21 final size:22
Alignment explanation
Indices: 979635--979713 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 22
979625 TAATGATTTA
* *
979635 ATAATGATTTAGTAATTATTATT
1 ATAATGATTTA-TTATTAATATT
*
979658 AATAACGATTTATTATTAATATT
1 -ATAATGATTTATTATTAATATT
*
979681 -TAATGATTTAATATTAATGATT
1 ATAATGATTTATTATTAAT-ATT
979703 AAGTAATGATT
1 -A-TAATGATT
979714 AGTAATAATG
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
21 16 0.35
22 3 0.07
23 9 0.20
24 10 0.22
25 8 0.17
ACGTcount: A:0.42, C:0.01, G:0.09, T:0.48
Consensus pattern (22 bp):
ATAATGATTTATTATTAATATT
Found at i:979699 original size:14 final size:15
Alignment explanation
Indices: 979673--979702 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
979663 CGATTTATTA
979673 TTAATATTTAATGAT
1 TTAATATTTAATGAT
979688 TTAATA-TTAATGAT
1 TTAATATTTAATGAT
979702 T
1 T
979703 AAGTAATGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (15 bp):
TTAATATTTAATGAT
Found at i:979947 original size:24 final size:25
Alignment explanation
Indices: 979919--979967 Score: 82
Period size: 26 Copynumber: 2.0 Consensus size: 25
979909 TAAATCAAAA
979919 CACATAGGA-TTTTTAATAATTATG
1 CACATAGGATTTTTTAATAATTATG
979943 CACATAGGATTTTTTTAATAATTAT
1 CACATAGGA-TTTTTTAATAATTAT
979968 ATGATTTAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 9 0.39
26 14 0.61
ACGTcount: A:0.37, C:0.08, G:0.10, T:0.45
Consensus pattern (25 bp):
CACATAGGATTTTTTAATAATTATG
Found at i:980038 original size:14 final size:13
Alignment explanation
Indices: 980021--980147 Score: 126
Period size: 14 Copynumber: 10.0 Consensus size: 13
980011 TTTGATAATT
980021 TAATAATGATTTGA
1 TAATAATGATTT-A
980035 TAATAATGATTTA
1 TAATAATGATTTA
*
980048 GTAATAATCA-TTA
1 -TAATAATGATTTA
980061 TAATAATGATTTA
1 TAATAATGATTTA
*
980074 GTAATAATCA-TTA
1 -TAATAATGATTTA
980087 TAATAATGATTTAA
1 TAATAATGATTT-A
980101 TAATAATG----A
1 TAATAATGATTTA
980110 TAATAATGATTTA
1 TAATAATGATTTA
*
980123 GTAATAA-G-TTGA
1 -TAATAATGATTTA
980135 TAATAATGATTTA
1 TAATAATGATTTA
980148 ATATTAAATT
Statistics
Matches: 95, Mismatches: 6, Indels: 25
0.75 0.05 0.20
Matches are distributed among these distances:
9 9 0.09
11 6 0.06
12 20 0.21
13 17 0.18
14 43 0.45
ACGTcount: A:0.46, C:0.02, G:0.10, T:0.42
Consensus pattern (13 bp):
TAATAATGATTTA
Found at i:980070 original size:26 final size:26
Alignment explanation
Indices: 980032--980147 Score: 161
Period size: 26 Copynumber: 4.6 Consensus size: 26
980022 AATAATGATT
980032 TGATAATAATGATTTAGTAATAATCA
1 TGATAATAATGATTTAGTAATAATCA
*
980058 TTATAATAATGATTTAGTAATAATCA
1 TGATAATAATGATTTAGTAATAATCA
* *
980084 TTATAATAATGA-TT--TAATAATAA
1 TGATAATAATGATTTAGTAATAATCA
980107 TGATAATAATGATTTAGTAATAAGT--
1 TGATAATAATGATTTAGTAATAA-TCA
980132 TGATAATAATGATTTA
1 TGATAATAATGATTTA
980148 ATATTAAATT
Statistics
Matches: 83, Mismatches: 3, Indels: 9
0.87 0.03 0.09
Matches are distributed among these distances:
23 19 0.23
24 2 0.02
25 18 0.22
26 43 0.52
27 1 0.01
ACGTcount: A:0.47, C:0.02, G:0.10, T:0.41
Consensus pattern (26 bp):
TGATAATAATGATTTAGTAATAATCA
Found at i:980590 original size:21 final size:21
Alignment explanation
Indices: 980564--980605 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
980554 ATGGGAGAGT
980564 AGATGGGTGCCTCAGGCTGCA
1 AGATGGGTGCCTCAGGCTGCA
980585 AGATGGGTGCCTCAGGCTGCA
1 AGATGGGTGCCTCAGGCTGCA
980606 CAAACTCTGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.19, C:0.24, G:0.38, T:0.19
Consensus pattern (21 bp):
AGATGGGTGCCTCAGGCTGCA
Found at i:982268 original size:29 final size:29
Alignment explanation
Indices: 982229--982309 Score: 137
Period size: 29 Copynumber: 2.8 Consensus size: 29
982219 TATGTGATAT
982229 GAGAACATGACATGAGCTACATGATCACAA
1 GAGAA-ATGACATGAGCTACATGATCACAA
*
982259 GAGAAATGACATGAACTACATGATCACAA
1 GAGAAATGACATGAGCTACATGATCACAA
982288 GAGAAATGACATGAG-TACATGA
1 GAGAAATGACATGAGCTACATGA
982310 ACATATGCAA
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
28 7 0.14
29 37 0.76
30 5 0.10
ACGTcount: A:0.46, C:0.16, G:0.21, T:0.17
Consensus pattern (29 bp):
GAGAAATGACATGAGCTACATGATCACAA
Found at i:983068 original size:53 final size:53
Alignment explanation
Indices: 982988--983094 Score: 214
Period size: 53 Copynumber: 2.0 Consensus size: 53
982978 GGTTTAGTCG
982988 ATTCTCGGTATAAACTGGAGTTTATAGTGTCTAATGATGTATACACACCAACA
1 ATTCTCGGTATAAACTGGAGTTTATAGTGTCTAATGATGTATACACACCAACA
983041 ATTCTCGGTATAAACTGGAGTTTATAGTGTCTAATGATGTATACACACCAACA
1 ATTCTCGGTATAAACTGGAGTTTATAGTGTCTAATGATGTATACACACCAACA
983094 A
1 A
983095 AGTAGAAACT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.32
Consensus pattern (53 bp):
ATTCTCGGTATAAACTGGAGTTTATAGTGTCTAATGATGTATACACACCAACA
Found at i:988372 original size:64 final size:65
Alignment explanation
Indices: 988247--988391 Score: 172
Period size: 64 Copynumber: 2.2 Consensus size: 65
988237 ATGCACTGGT
** * *
988247 AGTGCATCGATGCACTCTCTTTTAAAATAAAAAGATCGAATGCAATTAGTGCATCGATGCATAAG
1 AGTGCATCGATGCA-TCTCCATTAAAATAAAAACATCGAATGCAATTAGTGCACCGATGCATAA-
988312 GC
64 GC
*
988314 A-TGCATCGATGCATC-CCATTAATAAT-AAAACATCGAATGCATTTTA-TGCACCGATGCATAA
1 AGTGCATCGATGCATCTCCATTAA-AATAAAAACATCGAATGCA-ATTAGTGCACCGATGCATAA
*
988375 GT
64 GC
988377 AGTGCATCGATGCAT
1 AGTGCATCGATGCAT
988392 ACCTTCATTA
Statistics
Matches: 69, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
63 2 0.03
64 46 0.67
65 8 0.12
66 12 0.17
67 1 0.01
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (65 bp):
AGTGCATCGATGCATCTCCATTAAAATAAAAACATCGAATGCAATTAGTGCACCGATGCATAAGC
Done.