Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009107.1 Hibiscus syriacus cultivar Beakdansim tig00112577_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: 160446
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Found at i:395 original size:24 final size:24
Alignment explanation
Indices: 361--414 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
351 CCATCACATC
361 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
385 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
409 ATCAAA
1 ATCAAA
415 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:428 original size:24 final size:24
Alignment explanation
Indices: 361--428 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
351 CCATCACATC
* * *
361 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
** *
385 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
* *
409 ATCAAATTTCGAATACTGAC
1 ATCAAAGTCCGAATACTGAC
429 TAGTACTCAC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.24
Consensus pattern (24 bp):
ATCAAAGTCCGAATACTGACCAAG
Found at i:1321 original size:20 final size:20
Alignment explanation
Indices: 1287--1429 Score: 104
Period size: 19 Copynumber: 7.5 Consensus size: 20
1277 AAACATTGTG
*
1287 TGCGAAATT-AAATTCGCGT
1 TGCGAATTTGAAATTCGCGT
*
1306 TGCGAATTTGAAATTC-AGT
1 TGCGAATTTGAAATTCGCGT
* *
1325 TGCAAATTTGAAATTC-AGT
1 TGCGAATTTGAAATTCGCGT
**
1344 TGCGAATTTGACTTTCGCGT
1 TGCGAATTTGAAATTCGCGT
* * *
1364 TGCGAAATTGGAAACT-GGGT
1 TGCG-AATTTGAAATTCGCGT
* *
1384 TGCGAA-ATGCAATTCGCG-
1 TGCGAATTTGAAATTCGCGT
* *
1402 -ACGAATTTGAGA-TCGCGT
1 TGCGAATTTGAAATTCGCGT
1420 TGCGAATTTG
1 TGCGAATTTG
1430 TTGGTCATTT
Statistics
Matches: 95, Mismatches: 22, Indels: 14
0.73 0.17 0.11
Matches are distributed among these distances:
17 9 0.09
18 7 0.07
19 53 0.56
20 19 0.20
21 7 0.07
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.32
Consensus pattern (20 bp):
TGCGAATTTGAAATTCGCGT
Found at i:17169 original size:21 final size:22
Alignment explanation
Indices: 17143--17191 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
17133 AGGGAATCAA
17143 TCCCCCCATG-AGGGAACCGAT
1 TCCCCCCATGAAGGGAACCGAT
**
17164 TCCCCCTTTGAAGGGAACCGAT
1 TCCCCCCATGAAGGGAACCGAT
17186 TCCCCC
1 TCCCCC
17192 ACAGGGGAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 8 0.32
22 17 0.68
ACGTcount: A:0.20, C:0.41, G:0.20, T:0.18
Consensus pattern (22 bp):
TCCCCCCATGAAGGGAACCGAT
Found at i:20844 original size:31 final size:31
Alignment explanation
Indices: 20804--20909 Score: 124
Period size: 31 Copynumber: 3.4 Consensus size: 31
20794 AAAACATAAG
* **
20804 TTTTTGTCACTTACGTTATTGTTTTATTACA
1 TTTTGGTCACTTATATTATTGTTTTATTACA
* *
20835 TTTTGGTCACTTATATCATTATTTTATTACA
1 TTTTGGTCACTTATATTATTGTTTTATTACA
* *
20866 TTTTGGTCACTTATATTATCGTTTTAATA-A
1 TTTTGGTCACTTATATTATTGTTTTATTACA
*
20896 GTTTTGATCACTTA
1 -TTTTGGTCACTTA
20910 GGCATTGAAT
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
30 1 0.02
31 63 0.98
ACGTcount: A:0.24, C:0.12, G:0.09, T:0.55
Consensus pattern (31 bp):
TTTTGGTCACTTATATTATTGTTTTATTACA
Found at i:22612 original size:31 final size:29
Alignment explanation
Indices: 22577--22665 Score: 81
Period size: 31 Copynumber: 2.9 Consensus size: 29
22567 TTTTGCGTTT
*
22577 ATATTTATGTTTTGATAAAATATTTAATAGG
1 ATATTTAT-TTTTG-TAAAATATTTAATAGA
** *
22608 ATATTTATATAAT-TAAAATATTTAATATA
1 ATATTTAT-TTTTGTAAAATATTTAATAGA
*
22637 ATAACTATATTTTTGTAAAATATTTAATA
1 AT-A-TTTATTTTTGTAAAATATTTAATA
22666 ATATTATAAT
Statistics
Matches: 47, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
29 16 0.34
30 3 0.06
31 28 0.60
ACGTcount: A:0.45, C:0.01, G:0.06, T:0.48
Consensus pattern (29 bp):
ATATTTATTTTTGTAAAATATTTAATAGA
Found at i:22645 original size:29 final size:31
Alignment explanation
Indices: 22592--22665 Score: 80
Period size: 29 Copynumber: 2.5 Consensus size: 31
22582 TATGTTTTGA
* **
22592 TAAAATATTTAATAGGATATTTATA-TAAT-
1 TAAAATATTTAATAGAATAACTATATTAATG
* **
22621 TAAAATATTTAATATAATAACTATATTTTTG
1 TAAAATATTTAATAGAATAACTATATTAATG
22652 TAAAATATTTAATA
1 TAAAATATTTAATA
22666 ATATTATAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
29 21 0.57
30 2 0.05
31 14 0.38
ACGTcount: A:0.49, C:0.01, G:0.04, T:0.46
Consensus pattern (31 bp):
TAAAATATTTAATAGAATAACTATATTAATG
Found at i:28752 original size:17 final size:18
Alignment explanation
Indices: 28730--28763 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
28720 TCGTTAAGGT
28730 ATATTTTATTA-TATTTA
1 ATATTTTATTAGTATTTA
*
28747 ATATTTTGTTAGTATTT
1 ATATTTTATTAGTATTT
28764 TATTTAACTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (18 bp):
ATATTTTATTAGTATTTA
Found at i:30077 original size:3 final size:3
Alignment explanation
Indices: 30069--30116 Score: 60
Period size: 3 Copynumber: 15.3 Consensus size: 3
30059 CCATCTAATG
* *
30069 ATT ATT ATT ATT AGT ATT ATT ATT ATA ATT ATT ATAT ATT ATTT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT A-TT ATT
30116 A
1 A
30117 AATATTACAA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
3 33 0.85
4 6 0.15
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:30532 original size:10 final size:10
Alignment explanation
Indices: 30513--30548 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
30503 CACCTGCAAG
30513 AGAGAACAAC
1 AGAGAACAAC
*
30523 AGAGAGCAAC
1 AGAGAACAAC
*
30533 GGAGAACAAC
1 AGAGAACAAC
30543 AGAGAA
1 AGAGAA
30549 ACAGACGGCA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.56, C:0.17, G:0.28, T:0.00
Consensus pattern (10 bp):
AGAGAACAAC
Found at i:30582 original size:17 final size:17
Alignment explanation
Indices: 30560--30596 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
30550 CAGACGGCAA
*
30560 AGAACGACAAAAAAAAC
1 AGAACGAAAAAAAAAAC
30577 AGAACGAAAAAAAAAAC
1 AGAACGAAAAAAAAAAC
30594 AGA
1 AGA
30597 GAGGAAAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.73, C:0.14, G:0.14, T:0.00
Consensus pattern (17 bp):
AGAACGAAAAAAAAAAC
Found at i:30876 original size:13 final size:13
Alignment explanation
Indices: 30858--30886 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
30848 ACCACCGTTA
30858 CGGTGGCCGGCGG
1 CGGTGGCCGGCGG
30871 CGGTGGCCGGCGG
1 CGGTGGCCGGCGG
30884 CGG
1 CGG
30887 AGTACGGTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.00, C:0.31, G:0.62, T:0.07
Consensus pattern (13 bp):
CGGTGGCCGGCGG
Found at i:32322 original size:20 final size:21
Alignment explanation
Indices: 32299--32350 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 21
32289 AGAAATTAAA
32299 AATTCATTTATTT-AATTTTT
1 AATTCATTTATTTAAATTTTT
* *
32319 AATTCTTTTCTTTTAAATTTTT
1 AATTCATTT-ATTTAAATTTTT
32341 -ATT-ATTTATT
1 AATTCATTTATT
32351 ATTTTTATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
19 2 0.08
20 11 0.42
21 6 0.23
22 7 0.27
ACGTcount: A:0.27, C:0.06, G:0.00, T:0.67
Consensus pattern (21 bp):
AATTCATTTATTTAAATTTTT
Found at i:32921 original size:46 final size:49
Alignment explanation
Indices: 32847--32937 Score: 134
Period size: 46 Copynumber: 1.9 Consensus size: 49
32837 TTTCCTTTTC
* * *
32847 TTTTTCCTAAATAAATGCATGCGAACTAGAAATCATGCGGTTAGGTTAA
1 TTTTTCCTAAACAAATGCATGCGAACTAGAAAGCATGAGGTTAGGTTAA
32896 TTTTTCC-AAACAAA-GCATG-GAACTAGAAAGCATGAGGTTAGG
1 TTTTTCCTAAACAAATGCATGCGAACTAGAAAGCATGAGGTTAGG
32938 ATTTATTACA
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
46 21 0.54
47 5 0.13
48 6 0.15
49 7 0.18
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (49 bp):
TTTTTCCTAAACAAATGCATGCGAACTAGAAAGCATGAGGTTAGGTTAA
Found at i:36738 original size:2 final size:2
Alignment explanation
Indices: 36731--36764 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
36721 TTATCCTTTA
36731 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
36765 CATTTGTTGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:37074 original size:1 final size:1
Alignment explanation
Indices: 37068--37119 Score: 50
Period size: 1 Copynumber: 52.0 Consensus size: 1
37058 AGAAAGAAGG
* * * * * *
37068 AAAAAAAACAAAACAAAACAAAAAAAAAAGAAAAAAGAAAAAAGAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
37120 TTGAATCAAG
Statistics
Matches: 39, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 39 1.00
ACGTcount: A:0.88, C:0.06, G:0.06, T:0.00
Consensus pattern (1 bp):
A
Found at i:37094 original size:14 final size:13
Alignment explanation
Indices: 37087--37119 Score: 57
Period size: 14 Copynumber: 2.5 Consensus size: 13
37077 AAAACAAAAC
37087 AAAAAAAAAAGAA
1 AAAAAAAAAAGAA
37100 AAAAGAAAAAAGAA
1 AAAA-AAAAAAGAA
37114 AAAAAA
1 AAAAAA
37120 TTGAATCAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.32
14 13 0.68
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAGAA
Found at i:42423 original size:76 final size:76
Alignment explanation
Indices: 42331--43046 Score: 1317
Period size: 76 Copynumber: 9.4 Consensus size: 76
42321 CTATTTCCCA
42331 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
42396 AGCCTTCGGGT
66 AGCCTTCGGGT
42407 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
42472 AGCCTTCGGGT
66 AGCCTTCGGGT
42483 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
42548 AGCCTTCGGGT
66 AGCCTTCGGGT
42559 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
42624 AGCCTTCGGGT
66 AGCCTTCGGGT
*
42635 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGAGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
42700 AGCCTTCGGGT
66 AGCCTTCGGGT
42711 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCC-AAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
42776 AAGCCTTCGGGT
65 AAGCCTTCGGGT
*
42788 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
42853 ATCCTTCGGGT
66 AGCCTTCGGGT
* *
42864 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGACTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
42929 AGCCTTAGGGT
66 AGCCTTCGGGT
*
42940 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC-A
*
43005 AAACCTTCGGGT
65 AAGCCTTCGGGT
*
43017 CATCTGTAA-TCCCTTCAGTGCTTGATGTTT
1 CATCTGTAAGT-CCTTCAGTGCATGATGTTT
43047 TCAACATTTC
Statistics
Matches: 623, Mismatches: 14, Indels: 5
0.97 0.02 0.01
Matches are distributed among these distances:
76 512 0.82
77 111 0.18
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.35
Consensus pattern (76 bp):
CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTCGGGT
Found at i:42915 original size:229 final size:228
Alignment explanation
Indices: 42331--43046 Score: 1315
Period size: 229 Copynumber: 3.1 Consensus size: 228
42321 CTATTTCCCA
*
42331 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
42396 AGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
66 AGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
42461 GATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTC
131 GATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTC
42526 GGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGT
196 GGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGT
*
42559 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
42624 AGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGAGAGCTTTTT
66 AGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
42689 GATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAAGCCTT
131 GATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCC-AAAAAGCCTT
42754 CGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGT
195 CGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGT
42788 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* * *
42853 ATCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGACTTCGGGAGCTTTTT
66 AGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
* *
42918 GATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTC
131 GATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTC
*
42983 GGGAGCTTTTTGATGTTTTCAAAAACCTTCGGGT
196 GGGAGCTTTTTGATGTTTTC-AAAGCCTTCGGGT
* *
43017 CATCTGTAATCCCTTCAGTGCTTGATGTTT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTT
43047 TCAACATTTC
Statistics
Matches: 475, Mismatches: 11, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
228 214 0.45
229 261 0.55
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.35
Consensus pattern (228 bp):
CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
GATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTC
GGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGT
Found at i:43184 original size:3 final size:3
Alignment explanation
Indices: 43178--43242 Score: 76
Period size: 3 Copynumber: 21.0 Consensus size: 3
43168 TCATTTAAAT
** * *
43178 TTA TTA TTA TTA TTA AAA TTA TTA TTA TTA GTA TTA TTA TTA TAA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
43226 TTA TATA TTA TTTA TTA
1 TTA T-TA TTA -TTA TTA
43243 AATATTACAA
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
3 46 0.88
4 6 0.12
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:43658 original size:10 final size:10
Alignment explanation
Indices: 43639--43674 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
43629 CACCTGCAAG
43639 AGAGAACAAC
1 AGAGAACAAC
*
43649 AGAGAGCAAC
1 AGAGAACAAC
*
43659 GGAGAACAAC
1 AGAGAACAAC
43669 AGAGAA
1 AGAGAA
43675 ACAGACGGCA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.56, C:0.17, G:0.28, T:0.00
Consensus pattern (10 bp):
AGAGAACAAC
Found at i:43708 original size:17 final size:17
Alignment explanation
Indices: 43686--43722 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
43676 CAGACGGCAA
*
43686 AGAACGACAAAAAAAAC
1 AGAACGAAAAAAAAAAC
43703 AGAACGAAAAAAAAAAC
1 AGAACGAAAAAAAAAAC
43720 AGA
1 AGA
43723 GAGGAAAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.73, C:0.14, G:0.14, T:0.00
Consensus pattern (17 bp):
AGAACGAAAAAAAAAAC
Found at i:44002 original size:13 final size:13
Alignment explanation
Indices: 43984--44035 Score: 104
Period size: 13 Copynumber: 4.0 Consensus size: 13
43974 ACCACCGTTA
43984 CGGTGGCCGGCGG
1 CGGTGGCCGGCGG
43997 CGGTGGCCGGCGG
1 CGGTGGCCGGCGG
44010 CGGTGGCCGGCGG
1 CGGTGGCCGGCGG
44023 CGGTGGCCGGCGG
1 CGGTGGCCGGCGG
44036 AGTACGGTGG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 39 1.00
ACGTcount: A:0.00, C:0.31, G:0.62, T:0.08
Consensus pattern (13 bp):
CGGTGGCCGGCGG
Found at i:46135 original size:3 final size:3
Alignment explanation
Indices: 46127--46170 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
46117 ATTTGCTCCT
*
46127 GAC GAC GAC GAC GAC GAT GAC GAC GAC GAC GAC GAC GAC GAC GA
1 GAC GAC GAC GAC GAC GAC GAC GAC GAC GAC GAC GAC GAC GAC GA
46171 TGGTGATGAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.34, C:0.30, G:0.34, T:0.02
Consensus pattern (3 bp):
GAC
Found at i:46381 original size:13 final size:13
Alignment explanation
Indices: 46363--46391 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
46353 TAATACTTAC
46363 TTTATTTTGTTAA
1 TTTATTTTGTTAA
46376 TTTATTTTGTTAA
1 TTTATTTTGTTAA
46389 TTT
1 TTT
46392 TGTTGGACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.21, C:0.00, G:0.07, T:0.72
Consensus pattern (13 bp):
TTTATTTTGTTAA
Found at i:46447 original size:35 final size:32
Alignment explanation
Indices: 46398--46491 Score: 89
Period size: 38 Copynumber: 2.7 Consensus size: 32
46388 ATTTTGTTGG
*
46398 ACTTTTTGTTAATTTTGTTTATTACCATTTAAT
1 ACTTATTG-TAATTTTGTTTATTACCATTTAAT
*
46431 ATCAATTATTGTAATTTTTTTATTATTTACCATTTAAT
1 A-C--TTATTGTAA-TTTTGT-TTA-TTACCATTTAAT
*
46469 ACTTATTGTAAGTTTGTTGTATT
1 ACTTATTGTAATTTTGTT-TATT
46492 TAAAATTATA
Statistics
Matches: 50, Mismatches: 4, Indels: 14
0.74 0.06 0.21
Matches are distributed among these distances:
33 4 0.08
34 7 0.14
35 12 0.24
36 10 0.20
37 4 0.08
38 13 0.26
ACGTcount: A:0.27, C:0.07, G:0.07, T:0.59
Consensus pattern (32 bp):
ACTTATTGTAATTTTGTTTATTACCATTTAAT
Found at i:49762 original size:24 final size:22
Alignment explanation
Indices: 49735--49782 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
49725 ACGAAAATAT
49735 AACACAATAAAATTTTTACACATA
1 AACACAA-AAAA-TTTTACACATA
* *
49759 AACATAAATAATTTTACACATA
1 AACACAAAAAATTTTACACATA
49781 AA
1 AA
49783 TGTAAATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 13 0.59
23 3 0.14
24 6 0.27
ACGTcount: A:0.56, C:0.15, G:0.00, T:0.29
Consensus pattern (22 bp):
AACACAAAAAATTTTACACATA
Found at i:49776 original size:22 final size:22
Alignment explanation
Indices: 49748--49794 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
49738 ACAATAAAAT
49748 TTTTACACATAAACATAAATAA
1 TTTTACACATAAACATAAATAA
**
49770 TTTTACACATAAATGTAAATAA
1 TTTTACACATAAACATAAATAA
49792 TTT
1 TTT
49795 AAATAATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.49, C:0.11, G:0.02, T:0.38
Consensus pattern (22 bp):
TTTTACACATAAACATAAATAA
Found at i:51966 original size:80 final size:81
Alignment explanation
Indices: 51795--52036 Score: 348
Period size: 80 Copynumber: 3.0 Consensus size: 81
51785 GAATTTAGAC
* *
51795 AGAGTTTTACTCCAACTAAAACTCTTTTAATATTAAAATTTAGATAAATAATAATATCTTTTAAA
1 AGAGTTTTACTTCAACCAAAACTCTTTTAATATT-AAATTTA-ATAAATAATAATATCTTTTAAA
51860 TTTAAAATATTAAACCTA
64 TTTAAAATATTAAACCTA
* *
51878 AGAATTTTACTTCAACCAAAACTCTTTTAATATATAAATTTAA-ACAT-ATAATATCTTTTAAAT
1 AGAGTTTTACTTCAACCAAAACTCTTTTAATAT-TAAATTTAATAAATAATAATATCTTTTAAAT
51941 TTAAAATATTAAACCTGA
65 TTAAAATATTAAACCT-A
* *
51959 A-AGTTTTACTTAAACCAAAACTCTTTTAATATCTAAATTTAAATAGATAATAATATCTTTTAAA
1 AGAGTTTTACTTCAACCAAAACTCTTTTAATAT-TAAATTT-AATAAATAATAATATCTTTTAAA
52023 TTT-AAATATTAAAC
64 TTTAAAATATTAAAC
52037 ATATATTTCC
Statistics
Matches: 146, Mismatches: 8, Indels: 11
0.88 0.05 0.07
Matches are distributed among these distances:
80 68 0.47
81 7 0.05
82 15 0.10
83 55 0.38
84 1 0.01
ACGTcount: A:0.46, C:0.11, G:0.03, T:0.40
Consensus pattern (81 bp):
AGAGTTTTACTTCAACCAAAACTCTTTTAATATTAAATTTAATAAATAATAATATCTTTTAAATT
TAAAATATTAAACCTA
Found at i:53611 original size:20 final size:20
Alignment explanation
Indices: 53571--53611 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
53561 AAGTAAAATT
* * *
53571 TCTATTATTTTTATTATAAA
1 TCTAATATTTTTACTACAAA
53591 TCTAATATTTTTACTACAAA
1 TCTAATATTTTTACTACAAA
53611 T
1 T
53612 AAGATAGGTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.37, C:0.10, G:0.00, T:0.54
Consensus pattern (20 bp):
TCTAATATTTTTACTACAAA
Found at i:59398 original size:21 final size:21
Alignment explanation
Indices: 59368--59415 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
59358 GCAGGGGTAC
* *
59368 ATGCCCAGCCCTCCACTTCAT
1 ATGCCAAGCCCACCACTTCAT
* *
59389 ATGCCAAGCCCACCAGTTTAT
1 ATGCCAAGCCCACCACTTCAT
59410 ATGCCA
1 ATGCCA
59416 TCTCCGTAGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.25, C:0.40, G:0.12, T:0.23
Consensus pattern (21 bp):
ATGCCAAGCCCACCACTTCAT
Found at i:59449 original size:21 final size:22
Alignment explanation
Indices: 59423--59505 Score: 118
Period size: 21 Copynumber: 3.9 Consensus size: 22
59413 CCATCTCCGT
* *
59423 AGGGTTACATTCCGAGCCCG-C
1 AGGGTTACATGCCTAGCCCGCC
*
59444 AGGGTTACATTCCTAGCCCGCC
1 AGGGTTACATGCCTAGCCCGCC
59466 A-GGTTACATGCCTAGCCCGCC
1 AGGGTTACATGCCTAGCCCGCC
59487 A-GGTTACATGCCTAGCCCG
1 AGGGTTACATGCCTAGCCCG
59506 TAGGGTTTTA
Statistics
Matches: 59, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
21 57 0.97
22 2 0.03
ACGTcount: A:0.19, C:0.35, G:0.25, T:0.20
Consensus pattern (22 bp):
AGGGTTACATGCCTAGCCCGCC
Found at i:60108 original size:32 final size:35
Alignment explanation
Indices: 60032--60128 Score: 91
Period size: 32 Copynumber: 3.0 Consensus size: 35
60022 GATAAATGTT
* *
60032 TTTAAAATA-CAAATTATATTATTCGAAATTTAAA
1 TTTAAAATATAAAAATATATTATTCGAAATTTAAA
*
60066 -ATAAAA-ATAAAAATA-ATTATTC-AAA-TTAAA
1 TTTAAAATATAAAAATATATTATTCGAAATTTAAA
* * *
60096 TTTAAAATAT-AAATTATAGTATTCAAAATTTAA
1 TTTAAAATATAAAAATATATTATTCGAAATTTAA
60129 CATTAAATTT
Statistics
Matches: 51, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
30 5 0.10
31 13 0.25
32 16 0.31
33 13 0.25
34 4 0.08
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.38
Consensus pattern (35 bp):
TTTAAAATATAAAAATATATTATTCGAAATTTAAA
Found at i:60757 original size:126 final size:128
Alignment explanation
Indices: 60531--61155 Score: 1150
Period size: 128 Copynumber: 4.9 Consensus size: 128
60521 TTTACCTGAT
60531 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
*
60596 TGATGAAATAATGGAAGGCGCG--CCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
60657 TACTGATATATCTAGTGTCCCCGA-GGACATGAGTGACATAATAGGGC-ATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
* *
60720 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTTATATGAATAGTGAAATAATAGG
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
60783 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
*
60848 TGACGAAATAATGGAAGGCGCGCCCTCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
* *
60911 TAATGATATATCTAGTGTCACCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
60976 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
61039 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
* *
61104 TGACGAAATAATGGAAGGCGCGCCCCTGGGAACGCGCCTTCATATGAATAGT
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGT
61156 ACTCCGATTA
Statistics
Matches: 482, Mismatches: 13, Indels: 6
0.96 0.03 0.01
Matches are distributed among these distances:
124 37 0.08
125 23 0.05
126 85 0.18
127 23 0.05
128 314 0.65
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.24
Consensus pattern (128 bp):
TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
Found at i:61239 original size:8 final size:8
Alignment explanation
Indices: 61226--61266 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
61216 TCACAATCTT
61226 TCAAATTC
1 TCAAATTC
61234 TCAAATTC
1 TCAAATTC
* *
61242 CCAAACTC
1 TCAAATTC
61250 T-AAATTC
1 TCAAATTC
61257 TCAAATTC
1 TCAAATTC
61265 TC
1 TC
61267 TGAAAATGAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.37, C:0.29, G:0.00, T:0.34
Consensus pattern (8 bp):
TCAAATTC
Found at i:65261 original size:25 final size:25
Alignment explanation
Indices: 65233--65283 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
65223 AAAGAAAGAA
65233 TCTTAAAATTTAATTCAAATACCGG
1 TCTTAAAATTTAATTCAAATACCGG
65258 TCTTAAAATTTAATTCAAATACCGG
1 TCTTAAAATTTAATTCAAATACCGG
65283 T
1 T
65284 AATACTACGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.39, C:0.16, G:0.08, T:0.37
Consensus pattern (25 bp):
TCTTAAAATTTAATTCAAATACCGG
Found at i:66063 original size:15 final size:17
Alignment explanation
Indices: 66033--66065 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
66023 GTGACCCTCA
66033 TAAATATAATTTTTATT
1 TAAATATAATTTTTATT
66050 TAAA-ATAA-TTTTATT
1 TAAATATAATTTTTATT
66065 T
1 T
66066 GTAATTAATC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
16 4 0.25
17 4 0.25
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
TAAATATAATTTTTATT
Found at i:66930 original size:27 final size:26
Alignment explanation
Indices: 66887--66952 Score: 71
Period size: 27 Copynumber: 2.5 Consensus size: 26
66877 TTGAAAATAA
* *
66887 TAAAA-TAAAAGAGTAAAAACCAAAT
1 TAAAATTAAAAGAATAAAAAACAAAT
*
66912 TAAAATTAAAAGCAATAAAAAATAAAT
1 TAAAATTAAAAG-AATAAAAAACAAAT
*
66939 AAAAATTTAAAAGA
1 TAAAA-TTAAAAGA
66953 TCAAATTGCA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
25 5 0.15
26 6 0.18
27 16 0.47
28 7 0.21
ACGTcount: A:0.70, C:0.05, G:0.06, T:0.20
Consensus pattern (26 bp):
TAAAATTAAAAGAATAAAAAACAAAT
Found at i:67740 original size:21 final size:21
Alignment explanation
Indices: 67704--67751 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
67694 GGGTTCATTT
**
67704 CTGATTGTTTTGGGGTTGCTA
1 CTGATTGTTTCAGGGTTGCTA
*
67725 CTGATTGTTTCAGGGTTGTTA
1 CTGATTGTTTCAGGGTTGCTA
*
67746 CCGATT
1 CTGATT
67752 ATCTCGGATA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.12, C:0.12, G:0.29, T:0.46
Consensus pattern (21 bp):
CTGATTGTTTCAGGGTTGCTA
Found at i:68333 original size:11 final size:12
Alignment explanation
Indices: 68284--68333 Score: 54
Period size: 11 Copynumber: 4.4 Consensus size: 12
68274 GAAAAATATT
*
68284 AATAAAATAATA
1 AATAATATAATA
68296 AATAATA-AATA
1 AATAATATAATA
68307 AATAATAT--TA
1 AATAATATAATA
68317 ATATAATATAA-A
1 A-ATAATATAATA
68329 AATAA
1 AATAA
68334 AAATCATTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
10 3 0.09
11 22 0.67
12 8 0.24
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (12 bp):
AATAATATAATA
Found at i:68406 original size:36 final size:36
Alignment explanation
Indices: 68332--68514 Score: 180
Period size: 36 Copynumber: 5.1 Consensus size: 36
68322 ATATAAAAAT
* * * *
68332 AAAAATCATTTT-AAAA-TTTATATTATATATGCTCTC
1 AAAAATTATTTTCAAAACTATATAATATATAT--TTTC
68368 AAAAATTATTTTCAAAACCT-TATAATATATATTTTC
1 AAAAATTATTTTCAAAA-CTATATAATATATATTTTC
* *
68404 AAAAATTGTTTTTAAAACTATATAATATATATTTTC
1 AAAAATTATTTTCAAAACTATATAATATATATTTTC
**
68440 AAAAA--AAATTCAAAACTATATATTATATATATTTTC
1 AAAAATTATTTTCAAAACTATATA--ATATATATTTTC
* * *
68476 AAAAA-TGTTTTCAAAATTATATAATATATGTTTTC
1 AAAAATTATTTTCAAAACTATATAATATATATTTTC
68511 AAAA
1 AAAA
68515 CTATATAATA
Statistics
Matches: 126, Mismatches: 14, Indels: 15
0.81 0.09 0.10
Matches are distributed among these distances:
34 13 0.10
35 17 0.13
36 67 0.53
37 17 0.13
38 11 0.09
39 1 0.01
ACGTcount: A:0.46, C:0.08, G:0.02, T:0.43
Consensus pattern (36 bp):
AAAAATTATTTTCAAAACTATATAATATATATTTTC
Found at i:68520 original size:94 final size:98
Alignment explanation
Indices: 68410--68612 Score: 326
Period size: 94 Copynumber: 2.1 Consensus size: 98
68400 TTTCAAAAAT
*
68410 TGTTTTTAAAACTATATAATATATATTTTCAAAAAAAATTCAAAACTATATATTATATATATTTT
1 TGTTTTCAAAACTATATAATATATATTTTCAAAAAAAATTCAAAACTATATATTATATATATTTT
*
68475 CAAAAATGTTTT-CAAAA-T-TATA-TA-ATATA
66 C-AAAATGTTTTAAAAAACTATATATTATATATA
* *
68504 TGTTTTCAAAACTATATAATATATATTTTCAAAAAAATTTGAAAACTATATATTATATATATTTT
1 TGTTTTCAAAACTATATAATATATATTTTCAAAAAAAATTCAAAACTATATATTATATATATTTT
68569 CAAAATGTTTTAAAAAACTATATATTATATATA
66 CAAAATGTTTTAAAAAACTATATATTATATATA
68602 TGTTTTCAAAA
1 TGTTTTCAAAA
68613 TGCTTTCAAA
Statistics
Matches: 100, Mismatches: 4, Indels: 6
0.91 0.04 0.05
Matches are distributed among these distances:
93 10 0.10
94 67 0.67
95 1 0.01
96 4 0.04
97 2 0.02
98 16 0.16
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (98 bp):
TGTTTTCAAAACTATATAATATATATTTTCAAAAAAAATTCAAAACTATATATTATATATATTTT
CAAAATGTTTTAAAAAACTATATATTATATATA
Found at i:68525 original size:21 final size:23
Alignment explanation
Indices: 68480--68537 Score: 98
Period size: 23 Copynumber: 2.5 Consensus size: 23
68470 ATTTTCAAAA
*
68480 ATGTTTTCAAAATTATATAATAT
1 ATGTTTTCAAAACTATATAATAT
68503 ATGTTTTCAAAACTATATAATAT
1 ATGTTTTCAAAACTATATAATAT
*
68526 ATATTTTCAAAA
1 ATGTTTTCAAAA
68538 AAATTTGAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.45, C:0.07, G:0.03, T:0.45
Consensus pattern (23 bp):
ATGTTTTCAAAACTATATAATAT
Found at i:68608 original size:39 final size:37
Alignment explanation
Indices: 68503--68695 Score: 172
Period size: 36 Copynumber: 5.4 Consensus size: 37
68493 TATATAATAT
*
68503 ATGTTTT-CAAAACTATATA--ATATATATTTTCAAA
1 ATGTTTTAAAAAACTATATATTATATATATTTTCAAA
*** *
68537 AAAATTT-GAAAACTATATATTATATATATTTTCAAA
1 ATGTTTTAAAAAACTATATATTATATATATTTTCAAA
68573 ATGTTTTAAAAAACTATATATTATATATATGTTTTCAAA
1 ATGTTTTAAAAAACTATATATTATATATA--TTTTCAAA
* * *
68612 ATGCTTT-CAAAACTATATA--ATATATATTCTCGAAA
1 ATGTTTTAAAAAACTATATATTATATATATTTTC-AAA
* *
68647 ACGTTTTAAAAAGCTATATATTAT-T-T-TTTTCAAAA
1 ATGTTTTAAAAAACTATATATTATATATATTTTC-AAA
*
68682 ATATTTTCAAAAAA
1 ATGTTTT-AAAAAA
68696 TTTATACTAT
Statistics
Matches: 129, Mismatches: 20, Indels: 18
0.77 0.12 0.11
Matches are distributed among these distances:
34 19 0.15
35 20 0.16
36 42 0.33
37 21 0.16
38 13 0.10
39 14 0.11
ACGTcount: A:0.45, C:0.08, G:0.04, T:0.42
Consensus pattern (37 bp):
ATGTTTTAAAAAACTATATATTATATATATTTTCAAA
Found at i:68707 original size:109 final size:109
Alignment explanation
Indices: 68507--68707 Score: 266
Period size: 109 Copynumber: 1.8 Consensus size: 109
68497 TAATATATGT
* *
68507 TTTCAAAACTATATAATATATATTTTCAAAAAAATTTGAAAACTATATATTATATATATTTTCAA
1 TTTCAAAACTATATAATATATATTCTCAAAAAAATTTAAAAACTATATATTATATATATTTTCAA
* *
68572 AATGTTTTAAAAAACTATATATTATATATATGTTTTCAAAATGC
66 AATATTTTAAAAAACTATATACTATATATATGTTTTCAAAATGC
***
68616 TTTCAAAACTATATAATATATATTCTCGAAAACGTTTTAAAAAGCTATATATTAT-T-T-TTTTC
1 TTTCAAAACTATATAATATATATTCTC-AAAAAAATTTAAAAA-CTATATATTATATATATTTTC
*
68678 AAAAATATTTTCAAAAAA-TTTATACTATAT
64 -AAAATATTTT-AAAAAACTATATACTATAT
68708 TAACATATAT
Statistics
Matches: 80, Mismatches: 8, Indels: 8
0.83 0.08 0.08
Matches are distributed among these distances:
108 5 0.06
109 46 0.57
110 18 0.22
111 11 0.14
ACGTcount: A:0.45, C:0.08, G:0.03, T:0.43
Consensus pattern (109 bp):
TTTCAAAACTATATAATATATATTCTCAAAAAAATTTAAAAACTATATATTATATATATTTTCAA
AATATTTTAAAAAACTATATACTATATATATGTTTTCAAAATGC
Found at i:77298 original size:23 final size:23
Alignment explanation
Indices: 77248--77316 Score: 75
Period size: 23 Copynumber: 3.0 Consensus size: 23
77238 CACCATAGCT
*
77248 CGTATAAATGCACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
* * * *
77271 CGTAGGATTGCACCGAAGTGTCG
1 CGTAGAAATGCACCGAAGTGCCA
* *
77294 TGTAGAAATGCACCGTAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
77317 TATATATAAT
Statistics
Matches: 35, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.29, C:0.23, G:0.28, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCA
Found at i:82624 original size:23 final size:23
Alignment explanation
Indices: 82598--82666 Score: 57
Period size: 23 Copynumber: 3.0 Consensus size: 23
82588 CACCACAGCT
*
82598 CGTATAAATGCACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
* * * *
82621 CGTAGGATTGCACTGAAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCA
* * * *
82644 TGTAGAAATACACTGTAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
82667 TATATATAAT
Statistics
Matches: 35, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.30, C:0.22, G:0.26, T:0.22
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCA
Found at i:83819 original size:23 final size:23
Alignment explanation
Indices: 83793--83836 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
83783 TCATACAGCT
83793 CATATAT-GGTTCACATATAGTTA
1 CATATATCGGTTC-CATATAGTTA
*
83816 CATATATCGTTTCCATATAGT
1 CATATATCGGTTCCATATAGT
83837 CCATATCATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.32, C:0.16, G:0.11, T:0.41
Consensus pattern (23 bp):
CATATATCGGTTCCATATAGTTA
Found at i:89036 original size:20 final size:20
Alignment explanation
Indices: 89011--89048 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
89001 TTTGGTTCAC
89011 GGAATGTAAGATTACCAGTG
1 GGAATGTAAGATTACCAGTG
89031 GGAATGTAAGATTACCAG
1 GGAATGTAAGATTACCAG
89049 GGAATAAGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.37, C:0.11, G:0.29, T:0.24
Consensus pattern (20 bp):
GGAATGTAAGATTACCAGTG
Found at i:89058 original size:16 final size:18
Alignment explanation
Indices: 89011--89061 Score: 61
Period size: 20 Copynumber: 2.8 Consensus size: 18
89001 TTTGGTTCAC
89011 GGAATGTAAGATTACCAGTG
1 GGAA-GTAAGATTACCAG-G
89031 GGAATGTAAGATTACCA-G
1 GGAA-GTAAGATTACCAGG
89049 GGAA-TAAGATTAC
1 GGAAGTAAGATTAC
89062 TGAGAATGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
16 9 0.29
18 5 0.16
20 17 0.55
ACGTcount: A:0.39, C:0.10, G:0.27, T:0.24
Consensus pattern (18 bp):
GGAAGTAAGATTACCAGG
Found at i:90788 original size:3 final size:3
Alignment explanation
Indices: 90782--90871 Score: 75
Period size: 3 Copynumber: 31.0 Consensus size: 3
90772 ACATTTGGTT
* *
90782 TTA TTA TTA -TA TTTA TTA TTT TTA TT- TT- TTT TTA TTA TTA TTA
1 TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
90825 TTA GTT- TTG TTA TTA ATA TTA TTA -TA TTTA TTA TTA TTA TT- TTA
1 TTA -TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA
90869 TTA
1 TTA
90872 CAGATACAAC
Statistics
Matches: 73, Mismatches: 6, Indels: 16
0.77 0.06 0.17
Matches are distributed among these distances:
2 12 0.16
3 55 0.75
4 6 0.08
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:92325 original size:24 final size:23
Alignment explanation
Indices: 92298--92346 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
92288 TAAATATATA
*
92298 TAATAAATAATAATTCATATTTTT
1 TAATAAATAAT-ATTAATATTTTT
* *
92322 TAATAAATTATTTTAATATTTTT
1 TAATAAATAATATTAATATTTTT
92345 TA
1 TA
92347 TCGAAGAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 12 0.55
24 10 0.45
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (23 bp):
TAATAAATAATATTAATATTTTT
Found at i:103697 original size:10 final size:10
Alignment explanation
Indices: 103682--103735 Score: 51
Period size: 10 Copynumber: 5.7 Consensus size: 10
103672 ATGCTTGAAG
103682 GAAAAAAAAA
1 GAAAAAAAAA
*
103692 GAAAAAAGAA
1 GAAAAAAAAA
* *
103702 G--GAAAAGA
1 GAAAAAAAAA
103710 -AAAAAAAAA
1 GAAAAAAAAA
*
103719 GAATAAAAAA
1 GAAAAAAAAA
103729 GAAAAAA
1 GAAAAAA
103736 GAAAAAGGGG
Statistics
Matches: 33, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
8 4 0.12
9 5 0.15
10 24 0.73
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (10 bp):
GAAAAAAAAA
Found at i:103698 original size:7 final size:7
Alignment explanation
Indices: 103686--103741 Score: 69
Period size: 7 Copynumber: 7.7 Consensus size: 7
103676 TTGAAGGAAA
103686 AAAAAAG
1 AAAAAAG
103693 AAAAAAG
1 AAAAAAG
103700 AAGGAAAAG
1 AA--AAAAG
103709 AAAAAA-
1 AAAAAAG
*
103715 AAAAGAAT
1 AAAA-AAG
103723 AAAAAAG
1 AAAAAAG
103730 AAAAAAG
1 AAAAAAG
103737 AAAAA
1 AAAAA
103742 GGGGGTCAAG
Statistics
Matches: 44, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
6 4 0.09
7 29 0.66
8 4 0.09
9 7 0.16
ACGTcount: A:0.84, C:0.00, G:0.14, T:0.02
Consensus pattern (7 bp):
AAAAAAG
Found at i:103702 original size:21 final size:20
Alignment explanation
Indices: 103678--103735 Score: 73
Period size: 20 Copynumber: 2.9 Consensus size: 20
103668 TATTATGCTT
103678 GAAGGAAAAAAAAAGAAAAAA
1 GAAGGAAAAAAAAA-AAAAAA
*
103699 GAAGGAAAAGAAAAAAAAAA
1 GAAGGAAAAAAAAAAAAAAA
*
103719 GAA-TAAAAAAGAAAAAA
1 GAAGGAAAAAA-AAAAAA
103736 GAAAAAGGGG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
19 5 0.15
20 15 0.45
21 13 0.39
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (20 bp):
GAAGGAAAAAAAAAAAAAAA
Found at i:103721 original size:27 final size:28
Alignment explanation
Indices: 103683--103741 Score: 86
Period size: 27 Copynumber: 2.1 Consensus size: 28
103673 TGCTTGAAGG
*
103683 AAAAAAAAAGAA-AAAAGAAG-GAAAAGA
1 AAAAAAAAAGAATAAAA-AAGAAAAAAGA
103710 AAAAAAAAAGAATAAAAAAGAAAAAAGA
1 AAAAAAAAAGAATAAAAAAGAAAAAAGA
103738 AAAA
1 AAAA
103742 GGGGGTCAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
27 15 0.52
28 14 0.48
ACGTcount: A:0.85, C:0.00, G:0.14, T:0.02
Consensus pattern (28 bp):
AAAAAAAAAGAATAAAAAAGAAAAAAGA
Found at i:105027 original size:83 final size:83
Alignment explanation
Indices: 104888--105520 Score: 1203
Period size: 83 Copynumber: 7.6 Consensus size: 83
104878 AACAAATGCC
*
104888 ATGTGCTCATAACATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAATC
1 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAATC
104953 ATTGAATTTGGAAGAATA
66 ATTGAATTTGGAAGAATA
*
104971 ATGTGCTCATAGCATCTCCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAATC
1 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAATC
105036 ATTGAATTTGGAAGAATA
66 ATTGAATTTGGAAGAATA
105054 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAATC
1 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAATC
105119 ATTGAATTTGGAAGAATA
66 ATTGAATTTGGAAGAATA
*
105137 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATTTGGTTTGGTAAAACCAATC
1 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAATC
105202 ATTGAATTTGGAAGAATA
66 ATTGAATTTGGAAGAATA
*
105220 ATGTGCTCATAGCATCTTCTGTAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAATC
1 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAATC
105285 ATTGAATTTGGAAGAATA
66 ATTGAATTTGGAAGAATA
105303 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAATC
1 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAATC
*
105368 ATTGAATTTGAAAGAATA
66 ATTGAATTTGGAAGAATA
*
105386 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGATAAAACCAATC
1 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAATC
105451 ATTGAATTTGGAAGAATA
66 ATTGAATTTGGAAGAATA
*
105469 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATTTGGTTT
1 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTT
105521 AGTAGGAACC
Statistics
Matches: 539, Mismatches: 11, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
83 539 1.00
ACGTcount: A:0.27, C:0.13, G:0.21, T:0.38
Consensus pattern (83 bp):
ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAATC
ATTGAATTTGGAAGAATA
Found at i:106458 original size:113 final size:113
Alignment explanation
Indices: 106260--106902 Score: 1058
Period size: 113 Copynumber: 5.7 Consensus size: 113
106250 ATCCATAACA
106260 ATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
1 ATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
*
106325 TCATAATGAGAAGAATTTGTTCAACCTTTTGCCTGAATTCATCACTTG
66 TCATAATGAGAAGAACTTGTTCAACCTTTTGCCTGAATTCATCACTTG
106373 ATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
1 ATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
*
106438 TCATAATGAGAATAACTTGTTCAACCTTTTGCCTGAATTCATCACTTG
66 TCATAATGAGAAGAACTTGTTCAACCTTTTGCCTGAATTCATCACTTG
* *
106486 ATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
1 ATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
106551 TCATAATGAGAAGAACTTGTTCAACCTTTTGCCTGAATTCATCACTTG
66 TCATAATGAGAAGAACTTGTTCAACCTTTTGCCTGAATTCATCACTTG
* *
106599 ATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
1 ATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
*
106664 TCATAATGAGAAGAACTTGTTCAACCTTTTGCCTGAATTCATCAATTG
66 TCATAATGAGAAGAACTTGTTCAACCTTTTGCCTGAATTCATCACTTG
* * *
106712 ATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGT
1 ATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
** * *
106777 TCATAATGAGAAGAACTTGTTCAACCTTTTGTTTAAATTCATCAATTG
66 TCATAATGAGAAGAACTTGTTCAACCTTTTGCCTGAATTCATCACTTG
* * * * * * **
106825 ATGGATTAACATTGCCAGATAGAGTTCATAATCAGAAGAACTCGTCAT-CTGAA-GAAGAAG-AG
1 ATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATC-TGAAGAAGGAAGAAGAAG
106887 TTCATAATGAGAAGAA
65 TTCATAATGAGAAGAA
106903 TTCGTCATCT
Statistics
Matches: 508, Mismatches: 21, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
111 18 0.04
112 6 0.01
113 483 0.95
114 1 0.00
ACGTcount: A:0.38, C:0.15, G:0.20, T:0.27
Consensus pattern (113 bp):
ATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
TCATAATGAGAAGAACTTGTTCAACCTTTTGCCTGAATTCATCACTTG
Found at i:106880 original size:19 final size:18
Alignment explanation
Indices: 106858--106919 Score: 54
Period size: 19 Copynumber: 3.3 Consensus size: 18
106848 GTTCATAATC
106858 AGAAGAACTCGTCATCTGA
1 AGAAGAA-TCGTCATCTGA
** *
106877 AGAAGAAGAGTTCATAATG-
1 AGAAGAATCG-TCAT-CTGA
106896 AGAAGAATTCGTCATCTGA
1 AGAAGAA-TCGTCATCTGA
106915 AGAAG
1 AGAAG
106920 GAAGAATAAG
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
18 3 0.09
19 27 0.82
20 3 0.09
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.21
Consensus pattern (18 bp):
AGAAGAATCGTCATCTGA
Found at i:106887 original size:38 final size:39
Alignment explanation
Indices: 106845--106924 Score: 135
Period size: 38 Copynumber: 2.1 Consensus size: 39
106835 ATTGCCAGAT
106845 AGAGTTCATAATCAGAAGAACTCGTCATCTGAAGAA-GA
1 AGAGTTCATAATCAGAAGAACTCGTCATCTGAAGAAGGA
* *
106883 AGAGTTCATAATGAGAAGAATTCGTCATCTGAAGAAGGA
1 AGAGTTCATAATCAGAAGAACTCGTCATCTGAAGAAGGA
106922 AGA
1 AGA
106925 ATAAGTTCAT
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
38 34 0.87
39 5 0.13
ACGTcount: A:0.42, C:0.12, G:0.24, T:0.21
Consensus pattern (39 bp):
AGAGTTCATAATCAGAAGAACTCGTCATCTGAAGAAGGA
Found at i:106943 original size:154 final size:147
Alignment explanation
Indices: 106730--107106 Score: 564
Period size: 154 Copynumber: 2.5 Consensus size: 147
106720 GCTTTTCCAG
*
106730 AGAA-AGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATGAGAAGAACT
1 AGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAA-AAGTTCATAATGAGAAGAACT
106794 TGTTCAACCTTTTGTTTAAATTCATCAATTGATGGATTAACATTGCCAGATAGAGTTCATAATCA
65 TGTTCAACCTTTTGTTTAAATTCATCAATTGATGGATTAACATTGCCAGATAGAGTTCATAATCA
106859 GAAGAACTCGTCATCTGAAGA
130 GAAGAA-T--TCATCTGAAGA
106880 AGAAGAGTTCATAATGAGAAGAATTCGTCATCTGAAGAAGGAAGAATAAGTTCATAATGAGAAGA
1 AGAAGAGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGAAGAA-AAGTTCATAATGAGAAGA
* * * *
106945 ATTTGTTCAACCTTTTATTTAAATTCATCATTTGATGGATTAACATTGCCAGGTAGAGTTCATAA
62 ACTTGTTCAACCTTTTGTTTAAATTCATCAATTGATGGATTAACATTGCCAGATAGAGTTCATAA
*
107010 TGAGAAGAATTCATCTGAAGA
127 TCAGAAGAATTCATCTGAAGA
* * *
107031 AAAAGAAGTTCATAATGAGAAGAACTCATCTGAAGAA-GAAG--AAGTTCACAATGAGAAGAGCT
1 AGAAG-AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAAAGTTCATAATGAGAAGAACT
107093 TGTTCAACCTTTTG
65 TGTTCAACCTTTTG
107107 CATAATTCTA
Statistics
Matches: 210, Mismatches: 12, Indels: 15
0.89 0.05 0.06
Matches are distributed among these distances:
145 31 0.15
148 4 0.02
149 12 0.06
150 5 0.02
151 33 0.16
152 18 0.09
153 2 0.01
154 105 0.50
ACGTcount: A:0.40, C:0.12, G:0.20, T:0.28
Consensus pattern (147 bp):
AGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAAAGTTCATAATGAGAAGAACTT
GTTCAACCTTTTGTTTAAATTCATCAATTGATGGATTAACATTGCCAGATAGAGTTCATAATCAG
AAGAATTCATCTGAAGA
Found at i:107041 original size:36 final size:36
Alignment explanation
Indices: 107001--107089 Score: 151
Period size: 36 Copynumber: 2.5 Consensus size: 36
106991 TGCCAGGTAG
*
107001 AGTTCATAATGAGAAGAATTCATCTGAAGAAAAAGA
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAAAAGA
*
107037 AGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGA
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAAAAGA
*
107073 AGTTCACAATGAGAAGA
1 AGTTCATAATGAGAAGA
107090 GCTTGTTCAA
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 50 1.00
ACGTcount: A:0.48, C:0.10, G:0.21, T:0.20
Consensus pattern (36 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAAAAAGA
Found at i:107266 original size:124 final size:122
Alignment explanation
Indices: 107036--107318 Score: 351
Period size: 124 Copynumber: 2.3 Consensus size: 122
107026 GAAGAAAAAG
*
107036 AAGTTCATAATGAGAAGAACTCATCTG---AAG-AAGAAGAAGTTCACAATGAGAAGAGCTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAAAAGAAAGAAGAAGTTCACAATGAGAAGAGCTTATT
* * * * * *
107097 CAACCTTTTGCATAATTCTATCACAGAAGTAGATAGATTAGCATCAACCTTTCCAG-AAA
66 CAACCTTTTGAATAACTCTATCACAGAAGGAAATAGATCAACATCAACC---CCAGCAAA
* *
107156 AAGTTCATAATGAGAAGAATTCATCTGAAAAAGAAAGAAGAAGTTCATAATGAGAAGAGCTTATT
1 AAGTTCATAATGAGAAGAACTCATCTGAAAAAGAAAGAAGAAGTTCACAATGAGAAGAGCTTATT
* * * * * *
107221 TAACCTTTTGAATGACTCTATCACATAAGGAAATAGGTCAACATCATCCCCAGCAGA
66 CAACCTTTTGAATAACTCTATCACAGAAGGAAATAGATCAACATCAACCCCAGCAAA
107278 AAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAGAAGAA
1 AAGTTCATAATGAGAAGAACTCATCTGAA-AAAGA-AAGAA
107319 TTTATTCAAC
Statistics
Matches: 140, Mismatches: 16, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
120 26 0.19
121 4 0.03
122 30 0.21
123 8 0.06
124 72 0.51
ACGTcount: A:0.43, C:0.15, G:0.18, T:0.24
Consensus pattern (122 bp):
AAGTTCATAATGAGAAGAACTCATCTGAAAAAGAAAGAAGAAGTTCACAATGAGAAGAGCTTATT
CAACCTTTTGAATAACTCTATCACAGAAGGAAATAGATCAACATCAACCCCAGCAAA
Found at i:107467 original size:3 final size:3
Alignment explanation
Indices: 107461--107549 Score: 78
Period size: 3 Copynumber: 30.0 Consensus size: 3
107451 ACATTTGGTT
* * *
107461 TTA TTA TTA -TA TTTA TTA TTT TTA TTT TTA TTT TTA TTA TTA TTA
1 TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
107506 GTT- TTG TTA TTA ATA TTA TTA -TA TTTA TTA TTA TTA TT- TTA TTA
1 -TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA
107550 CATATACAAC
Statistics
Matches: 70, Mismatches: 9, Indels: 14
0.75 0.10 0.15
Matches are distributed among these distances:
2 8 0.11
3 56 0.80
4 6 0.09
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:107483 original size:21 final size:21
Alignment explanation
Indices: 107461--107547 Score: 89
Period size: 18 Copynumber: 4.5 Consensus size: 21
107451 ACATTTGGTT
*
107461 TTATTATTATATTTATTATTT
1 TTATTATTATATTTATTATTA
107482 TTATT-TT-TATTT-TTATTA
1 TTATTATTATATTTATTATTA
* *
107500 TTATTA--GT-TTTGTTATTA
1 TTATTATTATATTTATTATTA
*
107518 ATATTATTATATTTATTATTA
1 TTATTATTATATTTATTATTA
107539 TTATT-TTAT
1 TTATTATTAT
107548 TACATATACA
Statistics
Matches: 55, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
17 3 0.05
18 22 0.40
19 5 0.09
20 7 0.13
21 18 0.33
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (21 bp):
TTATTATTATATTTATTATTA
Found at i:108994 original size:24 final size:23
Alignment explanation
Indices: 108967--109015 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
108957 AATATATATA
*
108967 TAATAAATAATAATTCATATTTTT
1 TAATAAATAAT-ATTAATATTTTT
* *
108991 TAATAAATTATTTTAATATTTTT
1 TAATAAATAATATTAATATTTTT
109014 TA
1 TA
109016 TCGAAGAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 12 0.55
24 10 0.45
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (23 bp):
TAATAAATAATATTAATATTTTT
Found at i:115339 original size:21 final size:21
Alignment explanation
Indices: 115314--115357 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
115304 GTAAATATTA
* * *
115314 AAAAATATTGATATTTTAGAT
1 AAAAATAATAATATTTTAAAT
115335 AAAAATAATAATATTTTAAAT
1 AAAAATAATAATATTTTAAAT
115356 AA
1 AA
115358 TTTTTTACCG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.39
Consensus pattern (21 bp):
AAAAATAATAATATTTTAAAT
Found at i:118450 original size:20 final size:20
Alignment explanation
Indices: 118425--118473 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
118415 CCAAGATTGT
118425 ATCGGTACATCATCCAGTGC
1 ATCGGTACATCATCCAGTGC
*
118445 ATCGGTACATCATCCAGTGT
1 ATCGGTACATCATCCAGTGC
*
118465 ATCGATACA
1 ATCGGTACA
118474 CAAAATGCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.27
Consensus pattern (20 bp):
ATCGGTACATCATCCAGTGC
Found at i:118837 original size:13 final size:13
Alignment explanation
Indices: 118821--118854 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
118811 TAAGATTTTA
*
118821 TTTGAAAATCATT
1 TTTGAAAATCAAT
118834 TTTG-AAATCAAT
1 TTTGAAAATCAAT
118846 TTTGAAAAT
1 TTTGAAAAT
118855 TACTCTCCTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.41, C:0.06, G:0.09, T:0.44
Consensus pattern (13 bp):
TTTGAAAATCAAT
Found at i:120640 original size:14 final size:14
Alignment explanation
Indices: 120613--120645 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
120603 TAATGGCAAA
*
120613 TTTG-AAAACTATG
1 TTTGAAAAACAATG
120626 TTTGAAAAACAATG
1 TTTGAAAAACAATG
120640 TTTGAA
1 TTTGAA
120646 GAATCATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 4 0.22
14 14 0.78
ACGTcount: A:0.42, C:0.06, G:0.15, T:0.36
Consensus pattern (14 bp):
TTTGAAAAACAATG
Found at i:124514 original size:23 final size:22
Alignment explanation
Indices: 124470--124514 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
124460 AATATCATAG
*
124470 GGGAACCGATACCCCCACAGGA
1 GGGAACCGATACCCCCAAAGGA
124492 GGGAACCGACT-CCCCCTAAAGGA
1 GGGAACCGA-TACCCCC-AAAGGA
124515 AAATTGTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.31, C:0.36, G:0.27, T:0.07
Consensus pattern (22 bp):
GGGAACCGATACCCCCAAAGGA
Found at i:124933 original size:2 final size:2
Alignment explanation
Indices: 124926--124954 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
124916 AAGATCTTTG
124926 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
124955 AATGAAATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:129276 original size:23 final size:22
Alignment explanation
Indices: 129217--129276 Score: 102
Period size: 22 Copynumber: 2.7 Consensus size: 22
129207 AATGTCATGG
* *
129217 GGGAACTGATACCCCCACAGGA
1 GGGAACCGATTCCCCCACAGGA
129239 GGGAACCGATTCCCCCACAGGA
1 GGGAACCGATTCCCCCACAGGA
129261 GGGAACCGATTCCCCC
1 GGGAACCGATTCCCCC
129277 TAAAGGAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.27, C:0.37, G:0.27, T:0.10
Consensus pattern (22 bp):
GGGAACCGATTCCCCCACAGGA
Found at i:130942 original size:23 final size:23
Alignment explanation
Indices: 130888--130944 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 23
130878 CTTATATAGC
* *
130888 ACTTCGGTGCAATTCTACGCGGT
1 ACTTCGGTGCAATTCTACACGGA
* *
130911 ACTAT-GGTGTAATTCTACATGGA
1 ACT-TCGGTGCAATTCTACACGGA
130934 ACTTCGGTGCA
1 ACTTCGGTGCA
130945 TTTATATGAG
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
22 1 0.04
23 25 0.93
24 1 0.04
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.32
Consensus pattern (23 bp):
ACTTCGGTGCAATTCTACACGGA
Found at i:133911 original size:31 final size:31
Alignment explanation
Indices: 133844--133903 Score: 97
Period size: 29 Copynumber: 2.0 Consensus size: 31
133834 CAATTTAAGG
*
133844 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAATGGTATTTGGACTTGAATTGAATTTA
133875 CAAAAT-GTATTTGGACTT-AATTGAATTTA
1 CAAAATGGTATTTGGACTTGAATTGAATTTA
133904 TTCAAAATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 11 0.39
30 11 0.39
31 6 0.21
ACGTcount: A:0.35, C:0.07, G:0.17, T:0.42
Consensus pattern (31 bp):
CAAAATGGTATTTGGACTTGAATTGAATTTA
Found at i:134079 original size:21 final size:21
Alignment explanation
Indices: 134055--134096 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
134045 ATTTGAATAT
* *
134055 TATGAAGGGATATCGATTCCC
1 TATGAAGGGATACCAATTCCC
134076 TATGAAGGGATACCAATTCCC
1 TATGAAGGGATACCAATTCCC
134097 CCATTCTGGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.26
Consensus pattern (21 bp):
TATGAAGGGATACCAATTCCC
Found at i:135332 original size:19 final size:20
Alignment explanation
Indices: 135308--135355 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
135298 AACGATTTTC
*
135308 TTTTGAAAACAAAAAT-AGA
1 TTTTGAAAACAAAAATGAAA
* *
135327 TTTTGAAAGCCAAAATGAAA
1 TTTTGAAAACAAAAATGAAA
135347 TTTTGAAAA
1 TTTTGAAAA
135356 AGGATTTAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.52, C:0.06, G:0.12, T:0.29
Consensus pattern (20 bp):
TTTTGAAAACAAAAATGAAA
Found at i:136672 original size:31 final size:31
Alignment explanation
Indices: 136605--136664 Score: 97
Period size: 29 Copynumber: 2.0 Consensus size: 31
136595 CAATTTAAGG
*
136605 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAATGGTATTTGGACTTGAATTGAATTTA
136636 CAAAAT-GTATTTGGACTT-AATTGAATTTA
1 CAAAATGGTATTTGGACTTGAATTGAATTTA
136665 TTCAAAATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 11 0.39
30 11 0.39
31 6 0.21
ACGTcount: A:0.35, C:0.07, G:0.17, T:0.42
Consensus pattern (31 bp):
CAAAATGGTATTTGGACTTGAATTGAATTTA
Found at i:136757 original size:19 final size:19
Alignment explanation
Indices: 136730--136795 Score: 96
Period size: 19 Copynumber: 3.5 Consensus size: 19
136720 ATGTTTTTTA
* *
136730 TGAATAGTAATTTACTATT
1 TGAACAGTAAATTACTATT
136749 TGAACAGTAAATTACTATT
1 TGAACAGTAAATTACTATT
* *
136768 TGAACAGTAAATCACTGTT
1 TGAACAGTAAATTACTATT
136787 TGAACAGTA
1 TGAACAGTA
136796 CCCCGAGGCT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 43 1.00
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.36
Consensus pattern (19 bp):
TGAACAGTAAATTACTATT
Found at i:136984 original size:21 final size:21
Alignment explanation
Indices: 136951--136990 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
136941 TTTTTGCAGA
*
136951 AAAATCATTCCCAAACGGCTCC
1 AAAATCA-TCCCCAACGGCTCC
136973 AAAA-CATCCCCAACGGCT
1 AAAATCATCCCCAACGGCT
136991 AGATATGACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 2 0.12
22 4 0.24
ACGTcount: A:0.38, C:0.38, G:0.10, T:0.15
Consensus pattern (21 bp):
AAAATCATCCCCAACGGCTCC
Found at i:138501 original size:21 final size:21
Alignment explanation
Indices: 138477--138516 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
138467 GTTGGGAGCA
138477 TAGGTGTATCGGTACACTCTC
1 TAGGTGTATCGGTACACTCTC
* *
138498 TAGGTGTATTGGTATACTC
1 TAGGTGTATCGGTACACTC
138517 AGTGTAAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.20, C:0.17, G:0.25, T:0.38
Consensus pattern (21 bp):
TAGGTGTATCGGTACACTCTC
Found at i:143996 original size:17 final size:17
Alignment explanation
Indices: 143974--144046 Score: 119
Period size: 17 Copynumber: 4.2 Consensus size: 17
143964 AACGATCAAC
143974 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
143991 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
* *
144008 GGTCAACGGTTGGGTTG
1 GGTCAACGGTCGGGTCG
144025 GGTCGAACGGTCGGGTCG
1 GGTC-AACGGTCGGGTCG
144043 GGTC
1 GGTC
144047 TGTCGGTCGA
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
17 36 0.71
18 15 0.29
ACGTcount: A:0.11, C:0.21, G:0.48, T:0.21
Consensus pattern (17 bp):
GGTCAACGGTCGGGTCG
Found at i:144082 original size:19 final size:19
Alignment explanation
Indices: 144058--144124 Score: 84
Period size: 19 Copynumber: 3.5 Consensus size: 19
144048 GTCGGTCGAG
144058 TCAGACCGGTCAAACCGGT
1 TCAGACCGGTCAAACCGGT
144077 TCAGACCGGTCAAACCGGT
1 TCAGACCGGTCAAACCGGT
*
144096 TC-GAACCGGTCGAAACTGG-
1 TCAG-ACCGGTC-AAACCGGT
*
144115 TCAAACCGGT
1 TCAGACCGGT
144125 TGAAAACCGG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
18 1 0.02
19 36 0.84
20 6 0.14
ACGTcount: A:0.27, C:0.30, G:0.27, T:0.16
Consensus pattern (19 bp):
TCAGACCGGTCAAACCGGT
Found at i:144086 original size:10 final size:9
Alignment explanation
Indices: 144057--144124 Score: 73
Period size: 9 Copynumber: 7.2 Consensus size: 9
144047 TGTCGGTCGA
*
144057 GTCAGACCG
1 GTCAAACCG
144066 GTCAAACCG
1 GTCAAACCG
*
144075 GTTCAGACCG
1 G-TCAAACCG
144085 GTCAAACCG
1 GTCAAACCG
*
144094 GTTCGAACCG
1 G-TCAAACCG
*
144104 GTCGAAACTG
1 GTC-AAACCG
144114 GTCAAACCG
1 GTCAAACCG
144123 GT
1 GT
144125 TGAAAACCGG
Statistics
Matches: 49, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
9 26 0.53
10 23 0.47
ACGTcount: A:0.26, C:0.29, G:0.28, T:0.16
Consensus pattern (9 bp):
GTCAAACCG
Found at i:144141 original size:20 final size:19
Alignment explanation
Indices: 144069--144145 Score: 66
Period size: 20 Copynumber: 3.9 Consensus size: 19
144059 CAGACCGGTC
* *
144069 AAACCGGTTCAGACCGG-TC
1 AAACCGGTTGA-ACCGGTTG
*
144088 AAACCGGTTCGAACCGGTCG
1 AAACCGGTT-GAACCGGTTG
* **
144108 AAACTGGTCAAACCGGTTG
1 AAACCGGTTGAACCGGTTG
144127 AAAACCGGTTGAACCGGTT
1 -AAACCGGTTGAACCGGTT
144146 TCTAGCAGCC
Statistics
Matches: 45, Mismatches: 10, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
19 22 0.49
20 23 0.51
ACGTcount: A:0.29, C:0.26, G:0.27, T:0.18
Consensus pattern (19 bp):
AAACCGGTTGAACCGGTTG
Found at i:151354 original size:5 final size:5
Alignment explanation
Indices: 151346--151407 Score: 56
Period size: 5 Copynumber: 11.8 Consensus size: 5
151336 TCGGGTCAAC
*
151346 GGTCG GGTCG GGTCAAC GGTCG GGTCG GGTCG AACGGTCG GGTCG GGTC-
1 GGTCG GGTCG GGTC--G GGTCG GGTCG GGTCG ---GGTCG GGTCG GGTCG
151395 GGTC- GGTCG GGTC
1 GGTCG GGTCG GGTC
151408 AGACCGATCG
Statistics
Matches: 49, Mismatches: 2, Indels: 12
0.78 0.03 0.19
Matches are distributed among these distances:
4 8 0.16
5 32 0.65
7 4 0.08
8 5 0.10
ACGTcount: A:0.06, C:0.23, G:0.52, T:0.19
Consensus pattern (5 bp):
GGTCG
Found at i:151371 original size:12 final size:12
Alignment explanation
Indices: 151327--151354 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
151317 GAAAGTCAAC
151327 GGTCAACGGTCG
1 GGTCAACGGTCG
151339 GGTCAACGGTCG
1 GGTCAACGGTCG
151351 GGTC
1 GGTC
151355 GGGTCAACGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.14, C:0.25, G:0.43, T:0.18
Consensus pattern (12 bp):
GGTCAACGGTCG
Found at i:151395 original size:18 final size:17
Alignment explanation
Indices: 151334--151394 Score: 113
Period size: 17 Copynumber: 3.5 Consensus size: 17
151324 AACGGTCAAC
151334 GGTCGGGTCAACGGTCG
1 GGTCGGGTCAACGGTCG
151351 GGTCGGGTCAACGGTCG
1 GGTCGGGTCAACGGTCG
151368 GGTCGGGTCGAACGGTCG
1 GGTCGGGTC-AACGGTCG
151386 GGTCGGGTC
1 GGTCGGGTC
151395 GGTCGGTCGG
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
17 26 0.60
18 17 0.40
ACGTcount: A:0.10, C:0.23, G:0.49, T:0.18
Consensus pattern (17 bp):
GGTCGGGTCAACGGTCG
Found at i:151401 original size:18 final size:18
Alignment explanation
Indices: 151334--151407 Score: 116
Period size: 18 Copynumber: 4.2 Consensus size: 18
151324 AACGGTCAAC
151334 GGTCGGGTC-AACGGTCG
1 GGTCGGGTCGAACGGTCG
151351 GGTCGGGTC-AACGGTCG
1 GGTCGGGTCGAACGGTCG
151368 GGTCGGGTCGAACGGTCG
1 GGTCGGGTCGAACGGTCG
**
151386 GGTCGGGTCGGTCGGTCG
1 GGTCGGGTCGAACGGTCG
151404 GGTC
1 GGTC
151408 AGACCGATCG
Statistics
Matches: 54, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
17 26 0.48
18 28 0.52
ACGTcount: A:0.08, C:0.23, G:0.50, T:0.19
Consensus pattern (18 bp):
GGTCGGGTCGAACGGTCG
Found at i:151439 original size:19 final size:18
Alignment explanation
Indices: 151404--151443 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
151394 CGGTCGGTCG
151404 GGTCAGACCGATCGAACC
1 GGTCAGACCGATCGAACC
* *
151422 GGTCAGAACCGGTTGAACC
1 GGTCAG-ACCGATCGAACC
151441 GGT
1 GGT
151444 TTCCAGCAGC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.25, C:0.28, G:0.33, T:0.15
Consensus pattern (18 bp):
GGTCAGACCGATCGAACC
Found at i:153887 original size:59 final size:59
Alignment explanation
Indices: 153778--153937 Score: 141
Period size: 59 Copynumber: 2.7 Consensus size: 59
153768 GGAATGTTCA
** * * * * *
153778 AAAAGTTTGGGGACTAATTTAGAATGAATGTTATAGTTTAGGAATGAAACT-AATATGTT
1 AAAAGTTTAAGGACTAATTTAAAATGAATATCATAGTTTAGGAATAAAACTGAA-ATATT
153837 CAAAAG-TTAAGGACTAATTTAAAATG-ATAATCATAGTTTAAGG-ATAAAACTGAAATATT
1 -AAAAGTTTAAGGACTAATTTAAAATGAAT-ATCATAGTTT-AGGAATAAAACTGAAATATT
* * * *
153896 AAAAGTTTAAAGATTAA-TTAAAATGAAGATTATAGCTTTAGG
1 AAAAGTTTAAGGACTAATTTAAAATGAATATCATAG-TTTAGG
153938 GATATATGAT
Statistics
Matches: 83, Mismatches: 11, Indels: 14
0.77 0.10 0.13
Matches are distributed among these distances:
58 24 0.29
59 49 0.59
60 10 0.12
ACGTcount: A:0.45, C:0.04, G:0.17, T:0.33
Consensus pattern (59 bp):
AAAAGTTTAAGGACTAATTTAAAATGAATATCATAGTTTAGGAATAAAACTGAAATATT
Found at i:154496 original size:22 final size:22
Alignment explanation
Indices: 154466--154513 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
154456 TAATCACTGT
* *
154466 ATAACTTTTTACTAACATTA-TA
1 ATAAATTTTAACTAA-ATTATTA
*
154488 ATAAATTTTAACTTAATTATTA
1 ATAAATTTTAACTAAATTATTA
154510 ATAA
1 ATAA
154514 TAATTCGAGT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 4 0.18
22 18 0.82
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (22 bp):
ATAAATTTTAACTAAATTATTA
Found at i:160092 original size:24 final size:24
Alignment explanation
Indices: 160069--160170 Score: 113
Period size: 24 Copynumber: 4.3 Consensus size: 24
160059 TTTTATTGAT
*
160069 TTTC-GATTTGAAATCTGTTATGA
1 TTTCTGATTTGAATTCTGTTATGA
*
160092 TTTCTGATCTGAATTCTGTTATGA
1 TTTCTGATTTGAATTCTGTTATGA
*
160116 TTTCTGA-TTGGATTCTGTTATGA
1 TTTCTGATTTGAATTCTGTTATGA
* *
160139 TATCTG-TGATT-AATTCTGTTTTGA
1 TTTCTGAT--TTGAATTCTGTTATGA
160163 TTTCTGAT
1 TTTCTGAT
160171 ATCTCTGTTT
Statistics
Matches: 66, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
23 23 0.35
24 40 0.61
25 3 0.05
ACGTcount: A:0.21, C:0.10, G:0.18, T:0.52
Consensus pattern (24 bp):
TTTCTGATTTGAATTCTGTTATGA
Found at i:160097 original size:12 final size:12
Alignment explanation
Indices: 160082--160168 Score: 70
Period size: 12 Copynumber: 7.3 Consensus size: 12
160072 CGATTTGAAA
160082 TCTGTTATGATT
1 TCTGTTATGATT
* * *
160094 TCTGATCTGAAT
1 TCTGTTATGATT
160106 TCTGTTATGATT
1 TCTGTTATGATT
*
160118 TCTGATT-GGA-T
1 TCTG-TTATGATT
*
160129 TCTGTTATGATA
1 TCTGTTATGATT
* * *
160141 TCTGTGATTAAT
1 TCTGTTATGATT
*
160153 TCTGTTTTGATT
1 TCTGTTATGATT
160165 TCTG
1 TCTG
160169 ATATCTCTGT
Statistics
Matches: 55, Mismatches: 17, Indels: 6
0.71 0.22 0.08
Matches are distributed among these distances:
10 2 0.04
11 7 0.13
12 44 0.80
13 2 0.04
ACGTcount: A:0.18, C:0.10, G:0.18, T:0.53
Consensus pattern (12 bp):
TCTGTTATGATT
Done.