Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008645.1 Hibiscus syriacus cultivar Beakdansim tig00111621_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: 4138222
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 22 of 22
Found at i:4030469 original size:21 final size:21
Alignment explanation
Indices: 4030444--4030496 Score: 63
Period size: 23 Copynumber: 2.5 Consensus size: 21
4030434 AAAGTAACAG
4030444 TATTATATTATATTTTAAAAA
1 TATTATATTATATTTTAAAAA
* *
4030465 TATTAATTAGTATATTTTAAATA
1 TATT-A-TATTATATTTTAAAAA
4030488 TATT-TATTA
1 TATTATATTA
4030497 AATTATTATT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
20 4 0.15
21 4 0.15
22 1 0.04
23 18 0.67
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (21 bp):
TATTATATTATATTTTAAAAA
Found at i:4030479 original size:23 final size:23
Alignment explanation
Indices: 4030452--4030496 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
4030442 AGTATTATAT
4030452 TATATTTTAAAAATATTAATTAG
1 TATATTTTAAAAATATTAATTAG
* *
4030475 TATATTTTAAATATATTTATTA
1 TATATTTTAAAAATATTAATTA
4030497 AATTATTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (23 bp):
TATATTTTAAAAATATTAATTAG
Found at i:4030503 original size:23 final size:23
Alignment explanation
Indices: 4030454--4030526 Score: 60
Period size: 23 Copynumber: 3.1 Consensus size: 23
4030444 TATTATATTA
* * *
4030454 TATTTTAAAAATATTAATT-AGT
1 TATTTTAAATATATTTATTAAAT
4030476 ATATTTTAAATATATTTATTAAAT
1 -TATTTTAAATATATTTATTAAAT
*
4030500 TATTATTAGAT-TATTATATTAATAT
1 TATT-TTAAATATATT-TATTAA-AT
4030525 TA
1 TA
4030527 AATATATAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
23 25 0.60
24 13 0.31
25 4 0.10
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (23 bp):
TATTTTAAATATATTTATTAAAT
Found at i:4035285 original size:22 final size:22
Alignment explanation
Indices: 4035260--4035304 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
4035250 AATTTTGTTG
4035260 ACCAGAAAAATATTTTACGTTA
1 ACCAGAAAAATATTTTACGTTA
4035282 ACCAGAAAAATATTTTACGTTA
1 ACCAGAAAAATATTTTACGTTA
4035304 A
1 A
4035305 TCAACCAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.47, C:0.13, G:0.09, T:0.31
Consensus pattern (22 bp):
ACCAGAAAAATATTTTACGTTA
Found at i:4036168 original size:22 final size:22
Alignment explanation
Indices: 4036140--4036196 Score: 96
Period size: 22 Copynumber: 2.6 Consensus size: 22
4036130 CCCGTCGTAT
4036140 GTTGTAGAGAAACTGTTGAAGG
1 GTTGTAGAGAAACTGTTGAAGG
*
4036162 GTTGTAGAGAAACTTTTGAAGG
1 GTTGTAGAGAAACTGTTGAAGG
*
4036184 GTTGTCGAGAAAC
1 GTTGTAGAGAAAC
4036197 CAAAACTTCC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.32, C:0.07, G:0.33, T:0.28
Consensus pattern (22 bp):
GTTGTAGAGAAACTGTTGAAGG
Found at i:4039648 original size:31 final size:31
Alignment explanation
Indices: 4039606--4039668 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
4039596 TAACTCATGA
4039606 TAACCACATCTTAATTAAATAAAAACGAAAG
1 TAACCACATCTTAATTAAATAAAAACGAAAG
*
4039637 TAACCATATCTTAATTAAATAAAAACGAAAG
1 TAACCACATCTTAATTAAATAAAAACGAAAG
4039668 T
1 T
4039669 GGCAATTTCT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.54, C:0.14, G:0.06, T:0.25
Consensus pattern (31 bp):
TAACCACATCTTAATTAAATAAAAACGAAAG
Found at i:4040401 original size:21 final size:21
Alignment explanation
Indices: 4040372--4040424 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
4040362 ATTCTGACTA
4040372 TCGCATTGCGATTTCCCAAAT
1 TCGCATTGCGATTTCCCAAAT
* * *
4040393 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTCCCAAAT
*
4040414 TCGCAATGCGA
1 TCGCATTGCGA
4040425 ATACGTAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTCCCAAAT
Found at i:4041329 original size:24 final size:24
Alignment explanation
Indices: 4041302--4041347 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
4041292 TATTCGAAAT
4041302 TTGATCTTGGTCAATACCCGGACA
1 TTGATCTTGGTCAATACCCGGACA
*
4041326 TTGATCTTGGTCAATACTCGGA
1 TTGATCTTGGTCAATACCCGGA
4041348 TTTTGATGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.33
Consensus pattern (24 bp):
TTGATCTTGGTCAATACCCGGACA
Found at i:4041353 original size:24 final size:24
Alignment explanation
Indices: 4041301--4041354 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
4041291 GTATTCGAAA
4041301 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* * *
4041325 ATTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
4041349 TTTGAT
1 TTTGAT
4041355 GATTTTTCAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.22, C:0.19, G:0.20, T:0.39
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:4043947 original size:20 final size:20
Alignment explanation
Indices: 4043916--4043998 Score: 89
Period size: 20 Copynumber: 4.2 Consensus size: 20
4043906 TCGCAATGTG
*
4043916 AAATGAAAATCGCAACGC-A
1 AAATGAATATCGCAACGCGA
4043935 AATATGAATATCGCAACGCGA
1 AA-ATGAATATCGCAACGCGA
* *
4043956 AAATGACTATCGCAATGCG-
1 AAATGAATATCGCAACGCGA
* * *
4043975 AAATGAAAATTGCAACGAGA
1 AAATGAATATCGCAACGCGA
4043995 AAAT
1 AAAT
4043999 CGCAATGCGA
Statistics
Matches: 53, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
19 16 0.30
20 34 0.64
21 3 0.06
ACGTcount: A:0.48, C:0.17, G:0.18, T:0.17
Consensus pattern (20 bp):
AAATGAATATCGCAACGCGA
Found at i:4044001 original size:33 final size:33
Alignment explanation
Indices: 4043964--4044057 Score: 152
Period size: 33 Copynumber: 2.8 Consensus size: 33
4043954 GAAAATGACT
*
4043964 ATCGCAATGCGAAATGAAAATTGCAACGAGAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAAA
**
4043997 ATCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAAA
*
4044030 ATCGCAAAGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
4044058 CGAATTTAGT
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.46, C:0.18, G:0.23, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAAA
Found at i:4044053 original size:19 final size:19
Alignment explanation
Indices: 4043904--4044061 Score: 102
Period size: 19 Copynumber: 8.7 Consensus size: 19
4043894 GCAACGAGAG
* *
4043904 AATCGCAATGTGAAATGAA
1 AATCGCAAAGCGAAATGAA
* *
4043923 AATCGCAACGCAAATATGAA
1 AATCGCAAAGCGAA-ATGAA
* * *
4043943 TATCGCAACGCGAAAATGAC
1 AATCGCAAAGCG-AAATGAA
* *
4043963 TATCGCAATGCGAAATGAA
1 AATCGCAAAGCGAAATGAA
*
4043982 AATTGC-AA-CG--A-GAA
1 AATCGCAAAGCGAAATGAA
*
4043996 AATCGCAATGCGAAATGAA
1 AATCGCAAAGCGAAATGAA
**
4044015 AATCGC-AA-CG--A-GGG
1 AATCGCAAAGCGAAATGAA
4044029 AATCGCAAAGCGAAATGAA
1 AATCGCAAAGCGAAATGAA
*
4044048 AATCGCAACGCGAA
1 AATCGCAAAGCGAA
4044062 TTTAGTTTCG
Statistics
Matches: 108, Mismatches: 19, Indels: 24
0.72 0.13 0.16
Matches are distributed among these distances:
14 15 0.14
15 5 0.05
16 4 0.04
17 4 0.04
18 4 0.04
19 44 0.41
20 30 0.28
21 2 0.02
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.15
Consensus pattern (19 bp):
AATCGCAAAGCGAAATGAA
Found at i:4044072 original size:19 final size:19
Alignment explanation
Indices: 4044050--4044092 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
4044040 GAAATGAAAA
4044050 TCGCAACGCGAATTTAGTT
1 TCGCAACGCGAATTTAGTT
*** *
4044069 TCGCGTTGCGATTTTAGTT
1 TCGCAACGCGAATTTAGTT
4044088 TCGCA
1 TCGCA
4044093 TTGCGATTTT
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.19, C:0.21, G:0.23, T:0.37
Consensus pattern (19 bp):
TCGCAACGCGAATTTAGTT
Found at i:4044096 original size:19 final size:19
Alignment explanation
Indices: 4044057--4044119 Score: 92
Period size: 19 Copynumber: 3.3 Consensus size: 19
4044047 AAATCGCAAC
* *
4044057 GCGAATTTAGTTTCGCGTT
1 GCGATTTTAGTTTCGCATT
4044076 GCGATTTTAGTTTCGCATT
1 GCGATTTTAGTTTCGCATT
4044095 GCGATTTTCA-TTTCGCATT
1 GCGATTTT-AGTTTCGCATT
4044114 GCGATT
1 GCGATT
4044120 CTCTCGTTGC
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
19 40 0.98
20 1 0.02
ACGTcount: A:0.16, C:0.17, G:0.22, T:0.44
Consensus pattern (19 bp):
GCGATTTTAGTTTCGCATT
Found at i:4044150 original size:19 final size:19
Alignment explanation
Indices: 4044067--4044151 Score: 92
Period size: 19 Copynumber: 4.7 Consensus size: 19
4044057 GCGAATTTAG
*
4044067 TTTCGCGTTGCGATTTT-A
1 TTTCGCATTGCGATTTTCA
4044085 GTTTCGCATTGCGATTTTCA
1 -TTTCGCATTGCGATTTTCA
4044105 TTTCGCATTGCGA--TTC-
1 TTTCGCATTGCGATTTTCA
*
4044121 TCTCG--TTGCGATTTTCA
1 TTTCGCATTGCGATTTTCA
*
4044138 TTTTGCATTGCGAT
1 TTTCGCATTGCGAT
4044152 AGTCATTTTT
Statistics
Matches: 56, Mismatches: 4, Indels: 12
0.78 0.06 0.17
Matches are distributed among these distances:
14 6 0.11
16 7 0.12
17 6 0.11
19 36 0.64
20 1 0.02
ACGTcount: A:0.13, C:0.20, G:0.20, T:0.47
Consensus pattern (19 bp):
TTTCGCATTGCGATTTTCA
Found at i:4044277 original size:14 final size:14
Alignment explanation
Indices: 4044258--4044294 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
4044248 CATCAATTAA
4044258 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
4044272 ACAAATCATCTTTT
1 ACAAATCAACTTTT
4044286 ACAAATCAA
1 ACAAATCAA
4044295 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:4045722 original size:42 final size:42
Alignment explanation
Indices: 4045646--4045739 Score: 109
Period size: 42 Copynumber: 2.2 Consensus size: 42
4045636 GTGAATCGGG
* * *
4045646 CTCTTGAATGGTGGGAGGGACCTCTTCAACAATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGAACTCTTCAACAATGACAGGGGC
** *
4045688 CTCTTGAACGGTGGGAGGGAACTC-TCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGAACTCTTC-AACAATGACAGGGGC
*
4045730 CTCTTCAACG
1 CTCTTGAACG
4045740 ATAGGAGTGG
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
41 2 0.05
42 42 0.95
ACGTcount: A:0.23, C:0.21, G:0.33, T:0.22
Consensus pattern (42 bp):
CTCTTGAACGGTGGGAGGGAACTCTTCAACAATGACAGGGGC
Found at i:4045754 original size:42 final size:42
Alignment explanation
Indices: 4045676--4045764 Score: 99
Period size: 42 Copynumber: 2.1 Consensus size: 42
4045666 CCTCTTCAAC
* * * *
4045676 AATGACAGTGGCCTCTTGAACGGTGGGAGGGAACTCTCGAGG
1 AATGACAGGGGCCTCTTCAACGATAGGAGGGAACTCTCGAGG
* *
4045718 AATGATAGGGGCCTCTTCAACGATAGGAGTGG-ACTCTTGAGG
1 AATGACAGGGGCCTCTTCAACGATAGGAG-GGAACTCTCGAGG
*
4045760 GATGA
1 AATGA
4045765 AAGGCGAGTC
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
42 37 0.95
43 2 0.05
ACGTcount: A:0.26, C:0.17, G:0.36, T:0.21
Consensus pattern (42 bp):
AATGACAGGGGCCTCTTCAACGATAGGAGGGAACTCTCGAGG
Found at i:4047690 original size:33 final size:33
Alignment explanation
Indices: 4047643--4047722 Score: 97
Period size: 33 Copynumber: 2.4 Consensus size: 33
4047633 CGAGAGAATC
** *
4047643 GCGATTTTGGTTTCGCGTTGTGATAATATCGTT
1 GCGATTTTAATTTCGCGTTGAGATAATATCGTT
** *
4047676 GCGATTTTAATTTCGCGTTGAGATTCTCTCGTT
1 GCGATTTTAATTTCGCGTTGAGATAATATCGTT
*
4047709 GCGATTTTCATTTC
1 GCGATTTTAATTTC
4047723 TCTCGTTGCG
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 40 1.00
ACGTcount: A:0.15, C:0.16, G:0.23, T:0.46
Consensus pattern (33 bp):
GCGATTTTAATTTCGCGTTGAGATAATATCGTT
Found at i:4047775 original size:20 final size:20
Alignment explanation
Indices: 4047706--4047777 Score: 101
Period size: 20 Copynumber: 3.5 Consensus size: 20
4047696 AGATTCTCTC
4047706 GTTGCGATTTTCATTTCTC-T
1 GTTGCGATTTTCATTT-TCAT
**
4047726 CGTTGCGATAGTCATTTTCAT
1 -GTTGCGATTTTCATTTTCAT
4047747 GTTGCGATTTTCATTTTCAT
1 GTTGCGATTTTCATTTTCAT
4047767 GTTGCGATTTT
1 GTTGCGATTTT
4047778 AAGTTTAGAA
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
20 31 0.67
21 15 0.33
ACGTcount: A:0.14, C:0.17, G:0.18, T:0.51
Consensus pattern (20 bp):
GTTGCGATTTTCATTTTCAT
Found at i:4048358 original size:20 final size:20
Alignment explanation
Indices: 4048333--4048567 Score: 170
Period size: 20 Copynumber: 11.6 Consensus size: 20
4048323 CTTTAAAAAT
*
4048333 CGCGTTGTGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
4048353 CGCGTTGCGATTTTACGTAT-
1 CGCGTTGCGA-TTTACGGATA
* * * *
4048373 TGTCATTGTGATTTTACGTAT-
1 CG-CGTTGCGA-TTTACGGATA
* *
4048394 TGTCGTTGTGATTTACGGATA
1 CG-CGTTGCGATTTACGGATA
** * * *
4048415 CGTATTTCGATTTACGTATT
1 CGCGTTGCGATTTACGGATA
* ** *
4048435 CTCGTTGCGATTTATAGTTA
1 CGCGTTGCGATTTACGGATA
* *
4048455 CGCGTTGCGATTTACGTATT
1 CGCGTTGCGATTTACGGATA
*
4048475 CTCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
4048495 CGCGTTGCGATTTTACGTAT-
1 CGCGTTGCGA-TTTACGGATA
*
4048515 TGTCGTTGCGATTTACGGATA
1 CG-CGTTGCGATTTACGGATA
*
4048536 CGCGTTACGATTTTACGGATA
1 CGCGTTGCGA-TTTACGGATA
*
4048557 CTCGTTGCGAT
1 CGCGTTGCGAT
4048568 AGTCAGAATC
Statistics
Matches: 168, Mismatches: 40, Indels: 14
0.76 0.18 0.06
Matches are distributed among these distances:
20 98 0.58
21 70 0.42
ACGTcount: A:0.18, C:0.17, G:0.24, T:0.41
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:4048532 original size:41 final size:41
Alignment explanation
Indices: 4048382--4048567 Score: 250
Period size: 40 Copynumber: 4.6 Consensus size: 41
4048372 TTGTCATTGT
* * ** *
4048382 GATTTTACGTATTGTCGTTGTGATTTACGGATACGTATTTC
1 GATTTTACGTATTCTCGTTGCGATTTACGGATACGCGTTGC
** *
4048423 GA-TTTACGTATTCTCGTTGCGATTTATAGTTACGCGTTGC
1 GATTTTACGTATTCTCGTTGCGATTTACGGATACGCGTTGC
4048463 GA-TTTACGTATTCTCGTTGCGATTTACGGATACGCGTTGC
1 GATTTTACGTATTCTCGTTGCGATTTACGGATACGCGTTGC
* *
4048503 GATTTTACGTATTGTCGTTGCGATTTACGGATACGCGTTAC
1 GATTTTACGTATTCTCGTTGCGATTTACGGATACGCGTTGC
* *
4048544 GATTTTACGGATACTCGTTGCGAT
1 GATTTTACGTATTCTCGTTGCGAT
4048568 AGTCAGAATC
Statistics
Matches: 128, Mismatches: 16, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
40 69 0.54
41 59 0.46
ACGTcount: A:0.19, C:0.17, G:0.24, T:0.41
Consensus pattern (41 bp):
GATTTTACGTATTCTCGTTGCGATTTACGGATACGCGTTGC
Found at i:4048583 original size:61 final size:61
Alignment explanation
Indices: 4048457--4048590 Score: 146
Period size: 61 Copynumber: 2.2 Consensus size: 61
4048447 TATAGTTACG
* * * * * * * **
4048457 CGTTGCGATTTACGTATTCTCGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTGT
1 CGTTGCGATTTACGGATACGCGTTACGATTTACGGATACGCGTTGCGATGTCACGTAATCA
*
4048518 CGTTGCGATTTACGGATACGCGTTACGATTTTACGGATACTCGTTGCGATAGTCA-G-AATCA
1 CGTTGCGATTTACGGATACGCGTTACGA-TTTACGGATACGCGTTGCGAT-GTCACGTAATCA
4048579 CGTTGCGATTTA
1 CGTTGCGATTTA
4048591 TATGTTCGCG
Statistics
Matches: 61, Mismatches: 10, Indels: 4
0.81 0.13 0.05
Matches are distributed among these distances:
61 38 0.62
62 21 0.34
63 2 0.03
ACGTcount: A:0.20, C:0.19, G:0.25, T:0.37
Consensus pattern (61 bp):
CGTTGCGATTTACGGATACGCGTTACGATTTACGGATACGCGTTGCGATGTCACGTAATCA
Found at i:4048591 original size:142 final size:142
Alignment explanation
Indices: 4048332--4048628 Score: 363
Period size: 142 Copynumber: 2.1 Consensus size: 142
4048322 GCTTTAAAAA
* * * *
4048332 TCGCGTTGTGATTTACGGATACGCGTTGCGATTTTACGTATTGTCATTGTGATTTTACGTATTGT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTGTCATTGCGATTTTACGGATCGT
** * * * *
4048397 CGTTGTGATTTACGGATACGTATTTCGATTTACGTATTCTCGTTGCGATTTATA-GTTACGCGTT
66 CGTTACGATTTACGGATACGTATTGCGATTCACGTAATCACGTTGCGATTTATATGTT-CGCGTT
*
4048461 GCGATTTACGTAT
130 GCGATTTACATAT
* *
4048474 TCTCGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTGTCGTTGCGA-TTTACGGATACG
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTGTCATTGCGATTTTACGGAT-CG
*
4048538 -CGTTACGATTTTACGGATAC-TCGTTGCGATAGTCA-G-AATCACGTTGCGATTTATATGTTCG
65 TCGTTACGA-TTTACGGATACGT-ATTGCGAT--TCACGTAATCACGTTGCGATTTATATGTTCG
*
4048599 CGTTGCGATTTTCATAT
126 CGTTGCGATTTACATAT
4048616 TCGCGTTGCGATT
1 TCGCGTTGCGATT
4048629 CTGGAAAATC
Statistics
Matches: 133, Mismatches: 16, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
141 15 0.11
142 112 0.84
143 4 0.03
144 2 0.02
ACGTcount: A:0.19, C:0.17, G:0.24, T:0.41
Consensus pattern (142 bp):
TCGCGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTGTCATTGCGATTTTACGGATCGT
CGTTACGATTTACGGATACGTATTGCGATTCACGTAATCACGTTGCGATTTATATGTTCGCGTTG
CGATTTACATAT
Found at i:4048602 original size:20 final size:20
Alignment explanation
Indices: 4048579--4048628 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
4048569 GTCAGAATCA
*
4048579 CGTTGCGATTTAT-ATGTTCG
1 CGTTGCGATTT-TCATATTCG
4048599 CGTTGCGATTTTCATATTCG
1 CGTTGCGATTTTCATATTCG
4048619 CGTTGCGATT
1 CGTTGCGATT
4048629 CTGGAAAATC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
19 1 0.04
20 27 0.96
ACGTcount: A:0.14, C:0.18, G:0.24, T:0.44
Consensus pattern (20 bp):
CGTTGCGATTTTCATATTCG
Found at i:4048689 original size:42 final size:42
Alignment explanation
Indices: 4048596--4048689 Score: 95
Period size: 42 Copynumber: 2.3 Consensus size: 42
4048586 ATTTATATGT
* *
4048596 TCGCGTTGCG-ATTTTCATATTCGCGTTGCGATTCTGGAAAA
1 TCGCGTTGCGAATTTTCATATTCGCATTGCGATTCTGCAAAA
** * *
4048637 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTCTTCATAA
1 TCGCGTTGCGAATTT-TCA-TATTCGCATTGCGATTCTGCAAAA
4048679 TCGCGTTGCGA
1 TCGCGTTGCGA
4048690 TTCTGGGAAC
Statistics
Matches: 42, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
41 8 0.19
42 31 0.74
43 3 0.07
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.35
Consensus pattern (42 bp):
TCGCGTTGCGAATTTTCATATTCGCATTGCGATTCTGCAAAA
Found at i:4048727 original size:20 final size:19
Alignment explanation
Indices: 4048678--4048731 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
4048668 ATTCTTCATA
4048678 ATCGCGTTGCGATTCTGGG
1 ATCGCGTTGCGATTCTGGG
* **
4048697 AACTGATTTGCGATTCTGGAG
1 ATC-GCGTTGCGATTCTGG-G
4048718 ATCGCGTTGCGATT
1 ATCGCGTTGCGATT
4048732 TTTATTTCGC
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
19 2 0.07
20 22 0.81
21 3 0.11
ACGTcount: A:0.17, C:0.19, G:0.31, T:0.33
Consensus pattern (19 bp):
ATCGCGTTGCGATTCTGGG
Found at i:4049292 original size:21 final size:21
Alignment explanation
Indices: 4049263--4049315 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
4049253 ATTCTGACTA
4049263 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
* *
4049284 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTTCCAAAT
*
4049305 TCGCAATGCGA
1 TCGCATTGCGA
4049316 ATACGTAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.36
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCAAAT
Found at i:4049330 original size:20 final size:20
Alignment explanation
Indices: 4049305--4049377 Score: 137
Period size: 20 Copynumber: 3.6 Consensus size: 20
4049295 TTTTCCTAAT
4049305 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
4049325 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
4049345 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
*
4049365 TCGCAACGCGAAT
1 TCGCAATGCGAAT
4049378 CTGACTATCG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 52 1.00
ACGTcount: A:0.38, C:0.22, G:0.21, T:0.19
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:4049387 original size:20 final size:20
Alignment explanation
Indices: 4049364--4049430 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
4049354 GAATACGTAA
*
4049364 ATCGCAACGCGAATCTGACT
1 ATCGCAACGCGATTCTGACT
*
4049384 ATCGCAACGAGATTCTGACT
1 ATCGCAACGCGATTCTGACT
*
4049404 ATCGCAACGCGATTCTAACT
1 ATCGCAACGCGATTCTGACT
4049424 ATCGCAA
1 ATCGCAA
4049431 TACTGAATTT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.22
Consensus pattern (20 bp):
ATCGCAACGCGATTCTGACT
Found at i:4050299 original size:24 final size:24
Alignment explanation
Indices: 4050272--4050326 Score: 83
Period size: 24 Copynumber: 2.3 Consensus size: 24
4050262 GTATTCGAAA
4050272 TTTGATATTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACCCGGAC
* * *
4050296 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATATTGGTCAATACCCGGAC
4050320 TTTGATA
1 TTTGATA
4050327 ATTTTTCAGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.40
Consensus pattern (24 bp):
TTTGATATTGGTCAATACCCGGAC
Found at i:4052793 original size:20 final size:20
Alignment explanation
Indices: 4052770--4052823 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
4052760 CAACGTGAAT
* *
4052770 ATGACTATCGTAACATGGAA
1 ATGACTATCGCAACACGGAA
* *
4052790 ATGACTATCGCAACGCGGAT
1 ATGACTATCGCAACACGGAA
*
4052810 ATGACTATCACAAC
1 ATGACTATCGCAAC
4052824 GAGAGAATCG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.37, C:0.22, G:0.19, T:0.22
Consensus pattern (20 bp):
ATGACTATCGCAACACGGAA
Found at i:4052863 original size:33 final size:34
Alignment explanation
Indices: 4052824--4052889 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 34
4052814 CTATCACAAC
4052824 GAGAGAATCGCAAAGCG-AAATGAAAATCGCAAT
1 GAGAGAATCGCAAAGCGAAAATGAAAATCGCAAT
*
4052857 GAGAGAATCGCAATGCGAAAATGAAAATCGCAA
1 GAGAGAATCGCAAAGCGAAAATGAAAATCGCAA
4052890 CGCGAAGTCA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
33 16 0.52
34 15 0.48
ACGTcount: A:0.48, C:0.15, G:0.24, T:0.12
Consensus pattern (34 bp):
GAGAGAATCGCAAAGCGAAAATGAAAATCGCAAT
Found at i:4054483 original size:21 final size:22
Alignment explanation
Indices: 4054459--4054509 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
4054449 GACAGTGGCT
*
4054459 TCTTGAACGG-TGGGAGGGGAC
1 TCTTGAACGGATGAGAGGGGAC
* *
4054480 TCTTGAA-GGATGATAGGGGCC
1 TCTTGAACGGATGAGAGGGGAC
4054501 TCTTGAACG
1 TCTTGAACG
4054510 ATAGGGGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 2 0.08
21 22 0.88
22 1 0.04
ACGTcount: A:0.22, C:0.16, G:0.39, T:0.24
Consensus pattern (22 bp):
TCTTGAACGGATGAGAGGGGAC
Found at i:4054492 original size:42 final size:42
Alignment explanation
Indices: 4054427--4054536 Score: 107
Period size: 42 Copynumber: 2.6 Consensus size: 42
4054417 TCTAGAATGT
* * * *
4054427 TGGGA-GGGACCTCTTCAACGATGACAGTGGCTTCTTGAACGG
1 TGGGAGGGGA-CTCTTGAACGATGACAGGGGCCTCTTGAACGA
* *
4054469 TGGGAGGGGACTCTTGAAGGATGATAGGGGCCTCTTGAACGA
1 TGGGAGGGGACTCTTGAACGATGACAGGGGCCTCTTGAACGA
* * *
4054511 TAGGG-GAGGCCTCTTGAATGATGACA
1 T-GGGAGGGGACTCTTGAACGATGACA
4054537 TGTGAGTCGA
Statistics
Matches: 56, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
42 49 0.88
43 7 0.12
ACGTcount: A:0.24, C:0.17, G:0.36, T:0.23
Consensus pattern (42 bp):
TGGGAGGGGACTCTTGAACGATGACAGGGGCCTCTTGAACGA
Found at i:4055041 original size:20 final size:20
Alignment explanation
Indices: 4055018--4055106 Score: 124
Period size: 20 Copynumber: 4.5 Consensus size: 20
4055008 GAAACTTAAA
4055018 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
4055038 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
* *
4055058 ATCGCAATGCAAAAATGACT
1 ATCGCAACGCGAAAATGACT
* **
4055078 ATCGCAATGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
*
4055098 ATCACAACG
1 ATCGCAACG
4055107 AGAGAATCGC
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 62 1.00
ACGTcount: A:0.39, C:0.24, G:0.18, T:0.19
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:4055161 original size:20 final size:20
Alignment explanation
Indices: 4055136--4055180 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
4055126 TTCATTTCGC
*
4055136 ATAGTCATTTTCGCGTTGCG
1 ATAGTCATTTTCGCATTGCG
4055156 ATAGTCATTTTCGCATTGCG
1 ATAGTCATTTTCGCATTGCG
4055176 ATAGT
1 ATAGT
4055181 AAACTATTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.20, C:0.18, G:0.22, T:0.40
Consensus pattern (20 bp):
ATAGTCATTTTCGCATTGCG
Found at i:4057090 original size:20 final size:20
Alignment explanation
Indices: 4057067--4057156 Score: 101
Period size: 20 Copynumber: 4.5 Consensus size: 20
4057057 TCTGAAACTT
4057067 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
4057087 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
** * **
4057107 ACTATCGCAACGCGAATTTG
1 AAAATCGCAACACGAAAATG
** *
4057127 ACTATCGCAACGCG-AAATG
1 AAAATCGCAACACGAAAATG
4057146 AAAATCGCAAC
1 AAAATCGCAAC
4057157 GACATAATCG
Statistics
Matches: 61, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
19 12 0.20
20 49 0.80
ACGTcount: A:0.46, C:0.23, G:0.17, T:0.14
Consensus pattern (20 bp):
AAAATCGCAACACGAAAATG
Found at i:4057564 original size:22 final size:22
Alignment explanation
Indices: 4057494--4057567 Score: 103
Period size: 22 Copynumber: 3.4 Consensus size: 22
4057484 TGACCGTGAA
* *
4057494 TGATTTCGCCAGAGATGGAGAC
1 TGATTTCGTCGGAGATGGAGAC
*
4057516 TGATATCGTCGGAGATGGAGAC
1 TGATTTCGTCGGAGATGGAGAC
*
4057538 TGATTTCGTCGGAGATGGGGAC
1 TGATTTCGTCGGAGATGGAGAC
*
4057560 GGATTTCG
1 TGATTTCG
4057568 CCTTAGAGAG
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 46 1.00
ACGTcount: A:0.23, C:0.15, G:0.36, T:0.26
Consensus pattern (22 bp):
TGATTTCGTCGGAGATGGAGAC
Found at i:4057779 original size:20 final size:20
Alignment explanation
Indices: 4057756--4057864 Score: 182
Period size: 20 Copynumber: 5.5 Consensus size: 20
4057746 CGATAGTCAG
*
4057756 ATTCGCGTTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
*
4057776 ATTCGCATTACGATTTACGT
1 ATTCGCATTGCGATTTACGT
* *
4057796 ATTCGCATTGTGATTTACAT
1 ATTCGCATTGCGATTTACGT
4057816 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
4057836 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
4057856 ATTCGCATT
1 ATTCGCATT
4057865 AAGAATTAGG
Statistics
Matches: 82, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 82 1.00
ACGTcount: A:0.21, C:0.19, G:0.18, T:0.41
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACGT
Found at i:4057891 original size:21 final size:21
Alignment explanation
Indices: 4057867--4057910 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
4057857 TTCGCATTAA
*
4057867 GAATTAGGAAAATCGCAACGC
1 GAATTAGGAAAATCGCAAAGC
*
4057888 GAATTTGGAAAATCGCAAAGC
1 GAATTAGGAAAATCGCAAAGC
4057909 GA
1 GA
4057911 TAGTCAGAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.16, G:0.25, T:0.16
Consensus pattern (21 bp):
GAATTAGGAAAATCGCAAAGC
Found at i:4058429 original size:29 final size:28
Alignment explanation
Indices: 4058397--4058508 Score: 98
Period size: 29 Copynumber: 3.9 Consensus size: 28
4058387 ATAACTTATT
* *
4058397 AAATATATTTTATTTTTATTTTAATATAA
1 AAATATATTTTATTCTTATCTTAAT-TAA
* ** * *
4058426 AAATATATGTTTTAATAATATCTTCACTAA
1 AAATATA--TTTTATTCTTATCTTAATTAA
* *
4058456 AAGTATATTTTATTCTTATTTTAACTTAA
1 AAATATATTTTATTCTTATCTTAA-TTAA
*
4058485 AAATGTATTTTATTCTTATCTTAA
1 AAATATATTTTATTCTTATCTTAA
4058509 CTTTTAAAAA
Statistics
Matches: 64, Mismatches: 16, Indels: 6
0.74 0.19 0.07
Matches are distributed among these distances:
28 12 0.19
29 31 0.48
30 9 0.14
31 12 0.19
ACGTcount: A:0.38, C:0.06, G:0.03, T:0.53
Consensus pattern (28 bp):
AAATATATTTTATTCTTATCTTAATTAA
Found at i:4058519 original size:31 final size:29
Alignment explanation
Indices: 4058444--4058526 Score: 98
Period size: 29 Copynumber: 2.9 Consensus size: 29
4058434 GTTTTAATAA
* * *
4058444 TATCTTCAC-TAAAAGTATATTTTATTCT
1 TATCTTAACTTAAAAATGTATTTTATTCT
*
4058472 TATTTTAACTTAAAAATGTATTTTATTCT
1 TATCTTAACTTAAAAATGTATTTTATTCT
4058501 TATCTTAACTTTTAAAAATGT-TTTTA
1 TATCTTAAC--TTAAAAATGTATTTTA
4058527 AAATATATTT
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
28 7 0.15
29 25 0.53
30 5 0.11
31 10 0.21
ACGTcount: A:0.34, C:0.10, G:0.04, T:0.53
Consensus pattern (29 bp):
TATCTTAACTTAAAAATGTATTTTATTCT
Found at i:4058712 original size:2 final size:2
Alignment explanation
Indices: 4058705--4058731 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4058695 AGATAAAGAT
4058705 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
4058732 TAAAATAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4058722 original size:69 final size:69
Alignment explanation
Indices: 4058582--4058723 Score: 153
Period size: 69 Copynumber: 2.1 Consensus size: 69
4058572 ATTTAAAAAA
* * * * * *
4058582 ATATTTTTAAAAGTTAAGATAATAATGAAATATATTTTTTAATTTAAAATAAGAATAAAATATTT
1 ATATTTTTAAAAATTAAGATAAGAATGAAATATATATTTTAAGTGAAAATAAGAATAAAATATAT
4058647 AAAT
66 AAAT
* * * *
4058651 ATATTTTTAAAAATTAAGATAAGAAT-AAA-ATCTATTTTAAGTGAAGATAAAGATTATATATAT
1 ATATTTTTAAAAATTAAGATAAGAATGAAATATATATTTTAAGTGAAAAT-AAGAATA-AAATAT
*
4058714 ATATAT
64 ATAAAT
4058720 ATAT
1 ATAT
4058724 ATATATATTA
Statistics
Matches: 60, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
67 14 0.23
68 9 0.15
69 37 0.62
ACGTcount: A:0.51, C:0.01, G:0.07, T:0.41
Consensus pattern (69 bp):
ATATTTTTAAAAATTAAGATAAGAATGAAATATATATTTTAAGTGAAAATAAGAATAAAATATAT
AAAT
Found at i:4058786 original size:28 final size:27
Alignment explanation
Indices: 4058750--4058834 Score: 80
Period size: 28 Copynumber: 2.9 Consensus size: 27
4058740 AAATAAAAAT
4058750 AAGTTAAGAAAAATAAAATATATTTAA
1 AAGTTAAGAAAAATAAAATATATTTAA
*
4058777 CAAGTTAAGACAAAAAATAAAAGATATTTTTAA
1 -AAGTTAAG---AAAAAT-AAA-ATATATTTAA
* *
4058810 AATTTAAGAAATATAAAATAATATT
1 AAGTTAAGAAAAATAAAAT-ATATT
4058835 AATTTTGAGT
Statistics
Matches: 47, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
27 2 0.04
28 15 0.32
29 5 0.11
31 6 0.13
32 10 0.21
33 9 0.19
ACGTcount: A:0.60, C:0.02, G:0.07, T:0.31
Consensus pattern (27 bp):
AAGTTAAGAAAAATAAAATATATTTAA
Found at i:4059205 original size:6 final size:6
Alignment explanation
Indices: 4059194--4059219 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
4059184 TAGTTTATCC
4059194 AAATAT AAATAT AAATAT AAATAT AA
1 AAATAT AAATAT AAATAT AAATAT AA
4059220 TAGGGTAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (6 bp):
AAATAT
Found at i:4066345 original size:14 final size:14
Alignment explanation
Indices: 4066326--4066372 Score: 62
Period size: 14 Copynumber: 3.5 Consensus size: 14
4066316 CTTATGTTCA
4066326 CATATATAATTTAG
1 CATATATAATTTAG
* *
4066340 CATATATGA-TCA-
1 CATATATAATTTAG
4066352 CATATATAATTTAG
1 CATATATAATTTAG
4066366 CATATAT
1 CATATAT
4066373 GATCACATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
12 8 0.30
13 4 0.15
14 15 0.56
ACGTcount: A:0.43, C:0.11, G:0.06, T:0.40
Consensus pattern (14 bp):
CATATATAATTTAG
Found at i:4066352 original size:26 final size:26
Alignment explanation
Indices: 4066318--4066382 Score: 121
Period size: 26 Copynumber: 2.5 Consensus size: 26
4066308 CTTAATCTCT
*
4066318 TATGTTCACATATATAATTTAGCATA
1 TATGATCACATATATAATTTAGCATA
4066344 TATGATCACATATATAATTTAGCATA
1 TATGATCACATATATAATTTAGCATA
4066370 TATGATCACATAT
1 TATGATCACATAT
4066383 CACATATTCA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.40, C:0.12, G:0.08, T:0.40
Consensus pattern (26 bp):
TATGATCACATATATAATTTAGCATA
Found at i:4066355 original size:12 final size:12
Alignment explanation
Indices: 4066340--4066382 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
4066330 TATAATTTAG
4066340 CATATATGATCA
1 CATATATGATCA
* *
4066352 CATATATAATTTA
1 CATATATGA-TCA
4066365 GCATATATGATCA
1 -CATATATGATCA
4066378 CATAT
1 CATAT
4066383 CACATATTCA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
12 13 0.52
13 4 0.16
14 8 0.32
ACGTcount: A:0.42, C:0.14, G:0.07, T:0.37
Consensus pattern (12 bp):
CATATATGATCA
Found at i:4066424 original size:2 final size:2
Alignment explanation
Indices: 4066417--4066446 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
4066407 TCCCTATTGT
4066417 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
4066447 ATAAATAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4067618 original size:24 final size:25
Alignment explanation
Indices: 4067570--4067618 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
4067560 AGAGGAAGAA
4067570 GGAGAAGAAAAAGTTCCAGACTTTT
1 GGAGAAGAAAAAGTTCCAGACTTTT
*
4067595 GGAGAAGAAGAAGTT-CAGACTTTT
1 GGAGAAGAAAAAGTTCCAGACTTTT
4067619 CTTTCTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 9 0.39
25 14 0.61
ACGTcount: A:0.39, C:0.10, G:0.27, T:0.24
Consensus pattern (25 bp):
GGAGAAGAAAAAGTTCCAGACTTTT
Found at i:4079046 original size:21 final size:21
Alignment explanation
Indices: 4079020--4079099 Score: 126
Period size: 21 Copynumber: 3.8 Consensus size: 21
4079010 ATTATCCAAT
4079020 AAACTTGATATCCATAACAAC
1 AAACTTGATATCCATAACAAC
4079041 AAACTTGATATCCATAACAAC
1 AAACTTGATATCCATAACAAC
*
4079062 AAACTTGAAATCCATAACAAC
1 AAACTTGATATCCATAACAAC
*
4079083 CAACTTGA-ACTCCATAA
1 AAACTTGATA-TCCATAA
4079100 TAATAAATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
20 1 0.02
21 55 0.98
ACGTcount: A:0.47, C:0.25, G:0.05, T:0.23
Consensus pattern (21 bp):
AAACTTGATATCCATAACAAC
Found at i:4080224 original size:41 final size:41
Alignment explanation
Indices: 4080167--4080421 Score: 235
Period size: 41 Copynumber: 6.2 Consensus size: 41
4080157 ATTTGGTATT
* *
4080167 AAAACGCCACTAAAGTATGATTCTATATTGGCGTTTGTAAAA
1 AAAACGCCACTAAAGTATGAGTCTATAGTGGCGTTTGT-AAA
* * *
4080209 AAAAC-CCACTAAAGTATGAGTCTATAGCGGTGTTTGTATA
1 AAAACGCCACTAAAGTATGAGTCTATAGTGGCGTTTGTAAA
* * *
4080249 AAAACGCCACTAAAGTACGAGTCTATAGTGGCGATTGTACA
1 AAAACGCCACTAAAGTATGAGTCTATAGTGGCGTTTGTAAA
* * *
4080290 AAAACGCCACAAAAGTATGAGTATATAGTGGCGTTTGTATA
1 AAAACGCCACTAAAGTATGAGTCTATAGTGGCGTTTGTAAA
* * ** * * * *
4080331 AAAACGCTACTACAGTGCGATTCTTTAGCGGCGTTTGTATA
1 AAAACGCCACTAAAGTATGAGTCTATAGTGGCGTTTGTAAA
* * * * * * *
4080372 CAAACGTCA-TGAAAATCTGAGTCTTTAGCGGCGTTTGTTCAA
1 AAAACGCCACT-AAAGTATGAGTCTATAGTGGCGTTTG-TAAA
4080414 AAAACGCC
1 AAAACGCC
4080422 GCTATAAACC
Statistics
Matches: 174, Mismatches: 36, Indels: 6
0.81 0.17 0.03
Matches are distributed among these distances:
40 8 0.05
41 153 0.88
42 13 0.07
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28
Consensus pattern (41 bp):
AAAACGCCACTAAAGTATGAGTCTATAGTGGCGTTTGTAAA
Found at i:4080262 original size:82 final size:83
Alignment explanation
Indices: 4080162--4080369 Score: 267
Period size: 82 Copynumber: 2.5 Consensus size: 83
4080152 GTAGCATTTG
* * * *
4080162 GTATTAAAACGCCACTAAAGTATGATTCTATATTGGCGTTTGTAAAAAAAAC-CCACTAAAGTAT
1 GTATAAAAACGCCACTAAAGTACGATTCTATAGTGGCGTTTGTAAAAAAAACGCCACAAAAGTAT
* *
4080226 GAGTCTATAGCGGTGTTT
66 GAGTATATAGCGGCGTTT
* * *
4080244 GTATAAAAACGCCACTAAAGTACGAGTCTATAGTGGCGATTGT-ACAAAAACGCCACAAAAGTAT
1 GTATAAAAACGCCACTAAAGTACGATTCTATAGTGGCGTTTGTAAAAAAAACGCCACAAAAGTAT
*
4080308 GAGTATATAGTGGCGTTT
66 GAGTATATAGCGGCGTTT
* * * * *
4080326 GTATAAAAACGCTACTACAGTGCGATTCTTTAGCGGCGTTTGTA
1 GTATAAAAACGCCACTAAAGTACGATTCTATAGTGGCGTTTGTA
4080370 TACAAACGTC
Statistics
Matches: 107, Mismatches: 17, Indels: 3
0.84 0.13 0.02
Matches are distributed among these distances:
81 7 0.07
82 100 0.93
ACGTcount: A:0.35, C:0.16, G:0.21, T:0.29
Consensus pattern (83 bp):
GTATAAAAACGCCACTAAAGTACGATTCTATAGTGGCGTTTGTAAAAAAAACGCCACAAAAGTAT
GAGTATATAGCGGCGTTT
Found at i:4080360 original size:123 final size:124
Alignment explanation
Indices: 4080110--4080377 Score: 301
Period size: 123 Copynumber: 2.2 Consensus size: 124
4080100 TATGACAATT
* * **
4080110 GCGGCGTTTGGTATTAAAATGCCACTAAACTACACGTCTATAGTAGCATTTGGTATTAAAACGCC
1 GCGGCGTTT-GTATAAAAACGCCACTAAACTACACGTCTATAGTAGCATTTGGTACAAAAACGCC
* * * * *
4080175 ACTAAAGTATGATTCTATATTGGCGTTTGTAAAAAAAACCCACTAAAGTATGAGTCTATA
65 ACAAAAGTATGAGTATATAGTGGCGTTTGTAAAAAAAACCCACTAAAGTACGAGTCTATA
* * *
4080235 GCGGTGTTTGTATAAAAACGCCACTAAAGTACGA-GTCTATAGTGGCGA-TT-GTACAAAAACGC
1 GCGGCGTTTGTATAAAAACGCCACTAAACTAC-ACGTCTATAGTAGC-ATTTGGTACAAAAACGC
* * * * * *
4080297 CACAAAAGTATGAGTATATAGTGGCGTTTGT-ATAAAAACGCTACTACAGTGCGATTCTTTA
64 CACAAAAGTATGAGTATATAGTGGCGTTTGTAAAAAAAAC-CCACTAAAGTACGAGTCTATA
*
4080358 GCGGCGTTTGTATACAAACG
1 GCGGCGTTTGTATAAAAACG
4080378 TCATGAAAAT
Statistics
Matches: 120, Mismatches: 20, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
122 7 0.06
123 70 0.58
124 33 0.28
125 10 0.08
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.29
Consensus pattern (124 bp):
GCGGCGTTTGTATAAAAACGCCACTAAACTACACGTCTATAGTAGCATTTGGTACAAAAACGCCA
CAAAAGTATGAGTATATAGTGGCGTTTGTAAAAAAAACCCACTAAAGTACGAGTCTATA
Found at i:4080394 original size:123 final size:124
Alignment explanation
Indices: 4080167--4080421 Score: 284
Period size: 123 Copynumber: 2.1 Consensus size: 124
4080157 ATTTGGTATT
* * * * *
4080167 AAAACGCCACTAAAGTATGATTCTATATTGGCGTTTGTAAAAAAAACCCACTAAAGTATGAGTCT
1 AAAACGCCACAAAAGTATGAGTATATAGTGGCGTTTGTAAAAAAAACCCACTAAAGTACGAGTCT
* * *
4080232 ATAGCGGTGTTTGTATAAAAACGCCACTAAAGTACGAGTCTATAGTGGCGATTGTAC-A
66 ATAGCGGCGTTTGTATAAAAACGCCACTAAAATACGAGTCTATAGCGGCGATTGTACAA
* * * * *
4080290 AAAACGCCACAAAAGTATGAGTATATAGTGGCGTTTGT-ATAAAAACGCTACTACAGTGCGATTC
1 AAAACGCCACAAAAGTATGAGTATATAGTGGCGTTTGTAAAAAAAAC-CCACTAAAGTACGAGTC
* * * * * *
4080354 TTTAGCGGCGTTTGTATACAAACGTCA-TGAAAAT-CTGAGTCTTTAGCGGCGTTTGTTCAA
65 TATAGCGGCGTTTGTATAAAAACGCCACT-AAAATAC-GAGTCTATAGCGGCGATTGTACAA
4080414 AAAACGCC
1 AAAACGCC
4080422 GCTATAAACC
Statistics
Matches: 109, Mismatches: 19, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
122 9 0.08
123 91 0.83
124 9 0.08
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28
Consensus pattern (124 bp):
AAAACGCCACAAAAGTATGAGTATATAGTGGCGTTTGTAAAAAAAACCCACTAAAGTACGAGTCT
ATAGCGGCGTTTGTATAAAAACGCCACTAAAATACGAGTCTATAGCGGCGATTGTACAA
Found at i:4081177 original size:42 final size:42
Alignment explanation
Indices: 4081111--4081194 Score: 105
Period size: 42 Copynumber: 2.0 Consensus size: 42
4081101 ATCTCAAGAA
* *
4081111 ATCCGGCAACCCACCGATCAGCATTTTCCACCAACTCGTTAC
1 ATCCGGCAACCCACCGATCAGCATTTCCCACCAACTCATTAC
* * * * *
4081153 ATCCGGCGACCCAGCGGTCGGCATTTCCCACCCACTCATTAC
1 ATCCGGCAACCCACCGATCAGCATTTCCCACCAACTCATTAC
4081195 GGTGAGTAGC
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.23, C:0.42, G:0.15, T:0.20
Consensus pattern (42 bp):
ATCCGGCAACCCACCGATCAGCATTTCCCACCAACTCATTAC
Found at i:4088555 original size:8 final size:9
Alignment explanation
Indices: 4088544--4088596 Score: 56
Period size: 10 Copynumber: 5.8 Consensus size: 9
4088534 TTTATTTTAT
4088544 TATTA-ATA
1 TATTATATA
*
4088552 TATTAAATA
1 TATTATATA
4088561 -ATTATCATA
1 TATTAT-ATA
4088570 TATATATATA
1 TAT-TATATA
4088580 TATATATATA
1 TAT-TATATA
4088590 TATTATA
1 TATTATA
4088597 AACTGTATTT
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
8 9 0.22
9 10 0.25
10 18 0.45
11 3 0.08
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (9 bp):
TATTATATA
Found at i:4088572 original size:2 final size:2
Alignment explanation
Indices: 4088567--4088596 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
4088557 AATAATTATC
4088567 AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4088597 AACTGTATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4090244 original size:2 final size:2
Alignment explanation
Indices: 4090237--4090273 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
4090227 ATTAATTTAT
4090237 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4090274 CAATTATGAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4092502 original size:23 final size:23
Alignment explanation
Indices: 4092476--4092525 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
4092466 TATTTCAATC
*
4092476 TTTTCAATA-TTTGATTTTTTATG
1 TTTT-AATACTTTAATTTTTTATG
* *
4092499 TTTTAGTACTTTAATTTTTTTTG
1 TTTTAATACTTTAATTTTTTATG
4092522 TTTT
1 TTTT
4092526 TGATATTTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 3 0.13
23 20 0.87
ACGTcount: A:0.18, C:0.04, G:0.08, T:0.70
Consensus pattern (23 bp):
TTTTAATACTTTAATTTTTTATG
Found at i:4092572 original size:29 final size:29
Alignment explanation
Indices: 4092517--4092591 Score: 71
Period size: 29 Copynumber: 2.6 Consensus size: 29
4092507 CTTTAATTTT
* **
4092517 TTTTGTTTTTGATATTTTAGTCATTTAACC
1 TTTTGTTTTT-TTATTTTAGTCATTTAAAA
*
4092547 TTTTGTTTTTTTATTTT-GATCCTTTAAAA
1 TTTTGTTTTTTTATTTTAG-TCATTTAAAA
* *
4092576 TTTTATTTATTTATTT
1 TTTTGTTTTTTTATTT
4092592 AATTTTAATA
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
28 1 0.03
29 27 0.71
30 10 0.26
ACGTcount: A:0.20, C:0.07, G:0.07, T:0.67
Consensus pattern (29 bp):
TTTTGTTTTTTTATTTTAGTCATTTAAAA
Found at i:4092633 original size:22 final size:21
Alignment explanation
Indices: 4092585--4092640 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 21
4092575 ATTTTATTTA
*
4092585 TTTATTTAATTTTAATATTTTC
1 TTTATTT-ATTTTAACATTTTC
* *
4092607 CTTATTTATTTTAACATTGTTT
1 TTTATTTATTTTAACATT-TTC
*
4092629 TTTATATATTTT
1 TTTATTTATTTT
4092641 TTAGACTTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
21 10 0.36
22 18 0.64
ACGTcount: A:0.25, C:0.05, G:0.02, T:0.68
Consensus pattern (21 bp):
TTTATTTATTTTAACATTTTC
Found at i:4092652 original size:12 final size:11
Alignment explanation
Indices: 4092637--4092661 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
4092627 TTTTTATATA
4092637 TTTTTTAGACT
1 TTTTTTAGACT
4092648 TTTTTTAGACT
1 TTTTTTAGACT
4092659 TTT
1 TTT
4092662 ATTTTTTTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.08, G:0.08, T:0.68
Consensus pattern (11 bp):
TTTTTTAGACT
Found at i:4092752 original size:21 final size:22
Alignment explanation
Indices: 4092732--4092773 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
4092722 TTATTGTTAT
4092732 TTTA-TCAATTT-ATTTATTTA
1 TTTATTCAATTTGATTTATTTA
*
4092752 TTTATTCTATTTGATTTATTTA
1 TTTATTCAATTTGATTTATTTA
4092774 ATATTTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 4 0.21
21 6 0.32
22 9 0.47
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (22 bp):
TTTATTCAATTTGATTTATTTA
Found at i:4092756 original size:25 final size:24
Alignment explanation
Indices: 4092728--4092789 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 24
4092718 ATTTTTATTG
*
4092728 TTATTTTATCAATTTATTTATTTAT
1 TTATTTTATCAATTTATTTA-ATAT
* **
4092753 TTATTCTATTTGATTTATTTAATAT
1 TTATTTTA-TCAATTTATTTAATAT
4092778 TTATTTT-TCAAT
1 TTATTTTATCAAT
4092790 ATAACCTTGT
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
23 3 0.10
25 16 0.55
26 10 0.34
ACGTcount: A:0.27, C:0.05, G:0.02, T:0.66
Consensus pattern (24 bp):
TTATTTTATCAATTTATTTAATAT
Found at i:4092768 original size:5 final size:4
Alignment explanation
Indices: 4092739--4092783 Score: 56
Period size: 4 Copynumber: 11.0 Consensus size: 4
4092729 TATTTTATCA
*
4092739 ATTT ATTT ATTT ATTT ATTCT ATTT GATTT ATTT A-AT ATTT ATTT
1 ATTT ATTT ATTT ATTT ATT-T ATTT -ATTT ATTT ATTT ATTT ATTT
4092784 TTCAATATAA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
3 2 0.06
4 26 0.72
5 8 0.22
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (4 bp):
ATTT
Found at i:4092790 original size:14 final size:15
Alignment explanation
Indices: 4092746--4092791 Score: 53
Period size: 14 Copynumber: 3.2 Consensus size: 15
4092736 TCAATTTATT
4092746 TATTTATTTATTC--
1 TATTTATTTATTCAA
*
4092759 TATTTGATTTATTTAA
1 TATTT-ATTTATTCAA
4092775 TATTTATTT-TTCAA
1 TATTTATTTATTCAA
4092789 TAT
1 TAT
4092792 AACCTTGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
13 5 0.18
14 14 0.50
15 4 0.14
16 5 0.18
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.65
Consensus pattern (15 bp):
TATTTATTTATTCAA
Found at i:4093798 original size:16 final size:16
Alignment explanation
Indices: 4093774--4093816 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
4093764 GAATCATGAG
*
4093774 CATGTGGGGTATATAT
1 CATGAGGGGTATATAT
4093790 CATGAGGGGTATATAT
1 CATGAGGGGTATATAT
*
4093806 CATGCGGGGTA
1 CATGAGGGGTA
4093817 GGACTTTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.26, C:0.09, G:0.35, T:0.30
Consensus pattern (16 bp):
CATGAGGGGTATATAT
Found at i:4095872 original size:11 final size:12
Alignment explanation
Indices: 4095853--4095907 Score: 69
Period size: 11 Copynumber: 4.7 Consensus size: 12
4095843 AGATTCAATC
*
4095853 AGAACAAAA-AG
1 AGAAAAAAAGAG
4095864 AGAAAAAAA-AG
1 AGAAAAAAAGAG
4095875 AGAAAAAAAGAG
1 AGAAAAAAAGAG
*
4095887 AGAGAAAAAATAG
1 AGA-AAAAAAGAG
4095900 AGAAAAAA
1 AGAAAAAA
4095908 TAAAGGAAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
11 19 0.47
12 10 0.25
13 11 0.28
ACGTcount: A:0.76, C:0.02, G:0.20, T:0.02
Consensus pattern (12 bp):
AGAAAAAAAGAG
Found at i:4095880 original size:10 final size:10
Alignment explanation
Indices: 4095853--4095887 Score: 52
Period size: 10 Copynumber: 3.3 Consensus size: 10
4095843 AGATTCAATC
4095853 AGAACAAAAAG
1 AGAA-AAAAAG
4095864 AGAAAAAAAAG
1 AG-AAAAAAAG
4095875 AGAAAAAAAG
1 AGAAAAAAAG
4095885 AGA
1 AGA
4095888 GAGAAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 11 0.48
11 10 0.43
12 2 0.09
ACGTcount: A:0.77, C:0.03, G:0.20, T:0.00
Consensus pattern (10 bp):
AGAAAAAAAG
Found at i:4096073 original size:69 final size:69
Alignment explanation
Indices: 4095989--4096126 Score: 206
Period size: 69 Copynumber: 2.0 Consensus size: 69
4095979 GATTCAAACT
* *
4095989 ATGAGATTGGCCAAGCACAATCATTT-TCGAATCACTAAACCACTTCACTCGAAGATCATAGAGC
1 ATGAGATTGACCAAGCACAATCATTTCT-GAATCACTAAACCACTCCACTCGAAGATCATAGAGC
4096053 ATCAA
65 ATCAA
* * * *
4096058 ATGAGATTGATCAAGCACAATCATTTCTGAATCATTGAATCACTCCACTCGAAGATCATAGAGCA
1 ATGAGATTGACCAAGCACAATCATTTCTGAATCACTAAACCACTCCACTCGAAGATCATAGAGCA
4096123 TCAA
66 TCAA
4096127 GAGAGAGACA
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
69 61 0.98
70 1 0.02
ACGTcount: A:0.38, C:0.23, G:0.14, T:0.25
Consensus pattern (69 bp):
ATGAGATTGACCAAGCACAATCATTTCTGAATCACTAAACCACTCCACTCGAAGATCATAGAGCA
TCAA
Found at i:4097101 original size:32 final size:34
Alignment explanation
Indices: 4097065--4097154 Score: 116
Period size: 32 Copynumber: 2.8 Consensus size: 34
4097055 GCATCTTTAA
4097065 AGATTTAACATCAAATGTTGGGGCATATTT-TT-
1 AGATTTAACATCAAATGTTGGGGCATATTTCTTG
*
4097097 AGATTTAACATCAAATGTTGAGG-A-ATTTCTTG
1 AGATTTAACATCAAATGTTGGGGCATATTTCTTG
* * *
4097129 AGATTCAACATCGAATATTGGGGCAT
1 AGATTTAACATCAAATGTTGGGGCAT
4097155 CTTTGGGAAT
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
30 4 0.08
31 3 0.06
32 41 0.84
33 1 0.02
ACGTcount: A:0.33, C:0.11, G:0.20, T:0.36
Consensus pattern (34 bp):
AGATTTAACATCAAATGTTGGGGCATATTTCTTG
Found at i:4098164 original size:157 final size:157
Alignment explanation
Indices: 4097878--4098164 Score: 529
Period size: 157 Copynumber: 1.8 Consensus size: 157
4097868 ACAACACAAG
4097878 TTCAACTTCACAGCGAAGGATATTGGACTCGGAACAATACAACTTACTTGGATTTCAACTTCACG
1 TTCAACTTCACAGCGAAGGATATTGGACTCGGAACAATACAACTTACTTGGATTTCAACTTCACG
* *
4097943 ACGAAGGATATCCAATTTATGGCTCAACTTCACGGTGAAGGGGCCACCCACGGTTTCAACTTCAC
66 ACGAAGGATATCCAATTTATAGCTCAACTTCACGGTGAAGGGGCCACCCACAGTTTCAACTTCAC
4098008 AAACAATTTCCCAGTTCCAGAGTCAAT
131 AAACAATTTCCCAGTTCCAGAGTCAAT
* *
4098035 TTCAACTTCACGGCGGAGGATATTGGACTCGGAACAATACAACTTACTTGGATTTCAACTTCACG
1 TTCAACTTCACAGCGAAGGATATTGGACTCGGAACAATACAACTTACTTGGATTTCAACTTCACG
*
4098100 ACGAAGGATATCCAATTTCTAGCTCAACTTCACGGTGAAGGGGCCACCCACAGTTTCAACTTCAC
66 ACGAAGGATATCCAATTTATAGCTCAACTTCACGGTGAAGGGGCCACCCACAGTTTCAACTTCAC
4098165 GACGAAGGGA
Statistics
Matches: 125, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
157 125 1.00
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.25
Consensus pattern (157 bp):
TTCAACTTCACAGCGAAGGATATTGGACTCGGAACAATACAACTTACTTGGATTTCAACTTCACG
ACGAAGGATATCCAATTTATAGCTCAACTTCACGGTGAAGGGGCCACCCACAGTTTCAACTTCAC
AAACAATTTCCCAGTTCCAGAGTCAAT
Found at i:4098577 original size:37 final size:36
Alignment explanation
Indices: 4098515--4098629 Score: 133
Period size: 36 Copynumber: 3.2 Consensus size: 36
4098505 TATCTTTTCC
** *
4098515 TTGAAACAAATTTCATCTCCCTTGAGACAGTTTCTT
1 TTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTT
* *
4098551 TT-AGAACTAAGTTTTGTCTCTCTTGAGACAGTTTATT
1 TTGA-AAC-AAATTTTGTCTCTCTTGAGACAGTTTCTT
* * *
4098588 TTGAAACAAATTTTGTCCCTCTTGAGACAATTTCTC
1 TTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTT
4098624 TTGAAA
1 TTGAAA
4098630 TACAAAAAAA
Statistics
Matches: 66, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
35 1 0.02
36 35 0.53
37 29 0.44
38 1 0.02
ACGTcount: A:0.28, C:0.18, G:0.13, T:0.41
Consensus pattern (36 bp):
TTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTT
Found at i:4098610 original size:36 final size:36
Alignment explanation
Indices: 4098515--4098616 Score: 118
Period size: 37 Copynumber: 2.8 Consensus size: 36
4098505 TATCTTTTCC
** *
4098515 TTGAAACAAATTTCATCTCC-CTTGAGACAGTTTCTT
1 TTGAAACAAATTTTGTC-CCTCTTGAGACAGTTTATT
* *
4098551 TT-AGAACTAAGTTTTGTCTCTCTTGAGACAGTTTATT
1 TTGA-AAC-AAATTTTGTCCCTCTTGAGACAGTTTATT
4098588 TTGAAACAAATTTTGTCCCTCTTGAGACA
1 TTGAAACAAATTTTGTCCCTCTTGAGACA
4098617 ATTTCTCTTG
Statistics
Matches: 55, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
35 1 0.02
36 26 0.47
37 27 0.49
38 1 0.02
ACGTcount: A:0.27, C:0.19, G:0.14, T:0.40
Consensus pattern (36 bp):
TTGAAACAAATTTTGTCCCTCTTGAGACAGTTTATT
Found at i:4098680 original size:29 final size:30
Alignment explanation
Indices: 4098634--4098695 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 30
4098624 TTGAAATACA
*
4098634 AAAAAAAAACCCTCGAAATTATTTCTCTTG
1 AAAAAAAAACCCTCGAAAATATTTCTCTTG
* * *
4098664 AAAAAAAAA-CTTTGAAAATGTTTCTCTTG
1 AAAAAAAAACCCTCGAAAATATTTCTCTTG
4098693 AAA
1 AAA
4098696 CACAAAGCCT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 19 0.68
30 9 0.32
ACGTcount: A:0.47, C:0.15, G:0.08, T:0.31
Consensus pattern (30 bp):
AAAAAAAAACCCTCGAAAATATTTCTCTTG
Found at i:4100594 original size:23 final size:23
Alignment explanation
Indices: 4100568--4100617 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
4100558 TATTTCAATA
*
4100568 TTTTAAATA-TTTGATTTTTTCTG
1 TTTT-AATACTTTAATTTTTTCTG
* *
4100591 TTTTAGTACTTTAATTTTTTTTG
1 TTTTAATACTTTAATTTTTTCTG
4100614 TTTT
1 TTTT
4100618 TGATATTTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 3 0.13
23 20 0.87
ACGTcount: A:0.18, C:0.04, G:0.08, T:0.70
Consensus pattern (23 bp):
TTTTAATACTTTAATTTTTTCTG
Found at i:4100802 original size:26 final size:26
Alignment explanation
Indices: 4100773--4100825 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
4100763 AGACTAAATA
*
4100773 TTTTTCTTCAT-TTTTTACTT-TTATT
1 TTTTTCTTAATATTTTTA-TTGTTATT
4100798 TTTTTCTTAATATTTTTATTGTTATT
1 TTTTTCTTAATATTTTTATTGTTATT
4100824 TT
1 TT
4100826 CTCAATTTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
25 12 0.48
26 13 0.52
ACGTcount: A:0.15, C:0.08, G:0.02, T:0.75
Consensus pattern (26 bp):
TTTTTCTTAATATTTTTATTGTTATT
Found at i:4100858 original size:25 final size:24
Alignment explanation
Indices: 4100773--4100868 Score: 83
Period size: 23 Copynumber: 3.9 Consensus size: 24
4100763 AGACTAAATA
4100773 TTTTTCTTC-ATTTTTTACTTTTATT
1 TTTTTCTTCAATTTTTTA--TTTATT
*
4100798 TTTTTCTT-AATATTTTTA-TTGTT
1 TTTTTCTTCAAT-TTTTTATTTATT
*
4100821 ATTTTC-TCAATTTATTTATTTATT
1 TTTTTCTTCAATTT-TTTATTTATT
*
4100845 TTTTTCTTCTATTTGATTTATTTA
1 TTTTTCTTCAATTT--TTTATTTA
4100869 ATATTTATTT
Statistics
Matches: 59, Mismatches: 5, Indels: 13
0.77 0.06 0.17
Matches are distributed among these distances:
22 3 0.05
23 16 0.27
24 9 0.15
25 16 0.27
26 15 0.25
ACGTcount: A:0.18, C:0.08, G:0.02, T:0.72
Consensus pattern (24 bp):
TTTTTCTTCAATTTTTTATTTATT
Found at i:4113788 original size:15 final size:15
Alignment explanation
Indices: 4113768--4113797 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
4113758 TATCACAATC
4113768 GCGCAGGATTTCGGG
1 GCGCAGGATTTCGGG
4113783 GCGCAGGATTTCGGG
1 GCGCAGGATTTCGGG
4113798 AGCACCGTGG
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:0.13, C:0.20, G:0.47, T:0.20
Consensus pattern (15 bp):
GCGCAGGATTTCGGG
Found at i:4118761 original size:15 final size:15
Alignment explanation
Indices: 4118741--4118770 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
4118731 TATCACAATC
4118741 GCGCAGGATTTCGGG
1 GCGCAGGATTTCGGG
4118756 GCGCAGGATTTCGGG
1 GCGCAGGATTTCGGG
4118771 AGCACCGTGG
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:0.13, C:0.20, G:0.47, T:0.20
Consensus pattern (15 bp):
GCGCAGGATTTCGGG
Found at i:4123735 original size:15 final size:15
Alignment explanation
Indices: 4123715--4123744 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
4123705 TATCACAATC
4123715 GCGCAGGATTTCGGG
1 GCGCAGGATTTCGGG
4123730 GCGCAGGATTTCGGG
1 GCGCAGGATTTCGGG
4123745 AGCACCGTGG
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:0.13, C:0.20, G:0.47, T:0.20
Consensus pattern (15 bp):
GCGCAGGATTTCGGG
Found at i:4128693 original size:14 final size:14
Alignment explanation
Indices: 4128674--4128702 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
4128664 TATCACAATC
4128674 GCGCAGGATTTCGG
1 GCGCAGGATTTCGG
4128688 GCGCAGGATTTCGG
1 GCGCAGGATTTCGG
4128702 G
1 G
4128703 AGCACCGTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.21, G:0.45, T:0.21
Consensus pattern (14 bp):
GCGCAGGATTTCGG
Done.