Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008495.1 Hibiscus syriacus cultivar Beakdansim tig00111338_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: 5120959
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 20 of 21
Found at i:4808734 original size:31 final size:31
Alignment explanation
Indices: 4808696--4808802 Score: 83
Period size: 31 Copynumber: 3.3 Consensus size: 31
4808686 AAACTACCTA
4808696 TTTGGTCACTTATATATTATCTAATTTATGT
1 TTTGGTCACTTATATATTATCTAATTTATGT
* ** ** **
4808727 TTTGGTCACTCAATTATTATTTAGGGTAAACTACCT
1 TTTGGTCACT-TA-TA-TA-TTA-TCTAATTTATGT
4808763 ATTTGGT-A-TTATATATTATCTAATTTATGT
1 -TTTGGTCACTTATATATTATCTAATTTATGT
4808793 TTTGGTCACT
1 TTTGGTCACT
4808803 CGATTTTTTT
Statistics
Matches: 54, Mismatches: 14, Indels: 16
0.64 0.17 0.19
Matches are distributed among these distances:
29 6 0.11
30 7 0.13
31 14 0.26
32 3 0.06
33 4 0.07
34 3 0.06
35 4 0.07
36 7 0.13
37 6 0.11
ACGTcount: A:0.26, C:0.11, G:0.12, T:0.50
Consensus pattern (31 bp):
TTTGGTCACTTATATATTATCTAATTTATGT
Found at i:4808799 original size:66 final size:68
Alignment explanation
Indices: 4808678--4808803 Score: 238
Period size: 66 Copynumber: 1.9 Consensus size: 68
4808668 TAGAGTTTTT
4808678 TTTAGGGTAAACTACCTATTTGGTCACTTATATATTATCTAATTTATGTTTTGGTCACTCAATTA
1 TTTAGGGTAAACTACCTATTTGGTCACTTATATATTATCTAATTTATGTTTTGGTCACTCAATTA
4808743 TTA
66 TTA
4808746 TTTAGGGTAAACTACCTATTTGGT-A-TTATATATTATCTAATTTATGTTTTGGTCACTC
1 TTTAGGGTAAACTACCTATTTGGTCACTTATATATTATCTAATTTATGTTTTGGTCACTC
4808804 GATTTTTTTT
Statistics
Matches: 58, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
66 33 0.57
67 1 0.02
68 24 0.41
ACGTcount: A:0.27, C:0.13, G:0.13, T:0.48
Consensus pattern (68 bp):
TTTAGGGTAAACTACCTATTTGGTCACTTATATATTATCTAATTTATGTTTTGGTCACTCAATTA
TTA
Found at i:4808926 original size:31 final size:31
Alignment explanation
Indices: 4808891--4808949 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
4808881 AACATGACAT
4808891 TTTTTAATTATGTATGGATGTTAGACTAATA
1 TTTTTAATTATGTATGGATGTTAGACTAATA
* * *
4808922 TTTTTAATTATGTTTTGATGTTGGACTA
1 TTTTTAATTATGTATGGATGTTAGACTA
4808950 TGTAATTCGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.27, C:0.03, G:0.17, T:0.53
Consensus pattern (31 bp):
TTTTTAATTATGTATGGATGTTAGACTAATA
Found at i:4810179 original size:20 final size:20
Alignment explanation
Indices: 4810156--4810196 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
4810146 GATCAAAACA
4810156 TGAATGATTAAATTGAAAGT
1 TGAATGATTAAATTGAAAGT
4810176 TGAATGATTAAATTGAAAGT
1 TGAATGATTAAATTGAAAGT
4810196 T
1 T
4810197 TTTAAATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.44, C:0.00, G:0.20, T:0.37
Consensus pattern (20 bp):
TGAATGATTAAATTGAAAGT
Found at i:4818271 original size:33 final size:33
Alignment explanation
Indices: 4818229--4818292 Score: 119
Period size: 33 Copynumber: 1.9 Consensus size: 33
4818219 CTTGTGAAGA
4818229 TTGAGTTGTTGGAGTTGCTGGGGTGGTTCTATC
1 TTGAGTTGTTGGAGTTGCTGGGGTGGTTCTATC
*
4818262 TTGAGTTGTTGGAGTTGTTGGGGTGGTTCTA
1 TTGAGTTGTTGGAGTTGCTGGGGTGGTTCTA
4818293 ACTTTTTAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.09, C:0.06, G:0.41, T:0.44
Consensus pattern (33 bp):
TTGAGTTGTTGGAGTTGCTGGGGTGGTTCTATC
Found at i:4818367 original size:40 final size:40
Alignment explanation
Indices: 4818321--4818447 Score: 130
Period size: 40 Copynumber: 3.1 Consensus size: 40
4818311 ATCACCGAAC
* **
4818321 ATAACAACACATTCAACCAAGCAACAAATAAAAATGCATA
1 ATAACAAAACATTCTTCCAAGCAACAAATAAAAATGCATA
* * *
4818361 ATAACAAAACATTCTTCCAAG-AAGCAATTTAAAATGTATA
1 ATAACAAAACATTCTTCCAAGCAA-CAAATAAAAATGCATA
* * * *
4818401 ATTACAAGATATTCTTCCAAGCAGCAAATTAAAAATGCATA
1 ATAACAAAACATTCTTCCAAGCAACAAA-TAAAAATGCATA
*
4818442 ACAACA
1 ATAACA
4818448 CTTACTGGAA
Statistics
Matches: 69, Mismatches: 15, Indels: 5
0.78 0.17 0.06
Matches are distributed among these distances:
39 2 0.03
40 52 0.75
41 15 0.22
ACGTcount: A:0.52, C:0.19, G:0.07, T:0.22
Consensus pattern (40 bp):
ATAACAAAACATTCTTCCAAGCAACAAATAAAAATGCATA
Found at i:4822845 original size:19 final size:19
Alignment explanation
Indices: 4822818--4822863 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
4822808 TTTGTCAATG
4822818 AATTGATTTTTTAAAAT-AA
1 AATT-ATTTTTTAAAATCAA
*
4822837 ATATTATTTTTTATAATCAA
1 A-ATTATTTTTTAAAATCAA
4822857 AATTATT
1 AATTATT
4822864 AAAAAATAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 18 0.75
20 6 0.25
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (19 bp):
AATTATTTTTTAAAATCAA
Found at i:4823355 original size:11 final size:11
Alignment explanation
Indices: 4823317--4823353 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
4823307 GAAATCTAAT
*
4823317 AATTTATTTAT
1 AATTTATTTAA
4823328 AATTTATTTAA
1 AATTTATTTAA
4823339 AATTT-TTTAA
1 AATTTATTTAA
4823349 AATTT
1 AATTT
4823354 TTAAATTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
10 10 0.40
11 15 0.60
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (11 bp):
AATTTATTTAA
Found at i:4823459 original size:14 final size:14
Alignment explanation
Indices: 4823422--4823448 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
4823412 AAAGTAATAT
4823422 TCAAATTATAATTA
1 TCAAATTATAATTA
4823436 TCAAATTATAATT
1 TCAAATTATAATT
4823449 TATATATTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.44
Consensus pattern (14 bp):
TCAAATTATAATTA
Found at i:4832739 original size:24 final size:24
Alignment explanation
Indices: 4832707--4832761 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 24
4832697 CACCACAGCT
* *
4832707 CATATAAATTGCACCGAAGTGCCA
1 CATAGAAATTACACCGAAGTGCCA
* *
4832731 CGTAGAAATTACACTGAAGTGCCA
1 CATAGAAATTACACCGAAGTGCCA
4832755 CATAGAA
1 CATAGAA
4832762 TGTCCCGAAG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.40, C:0.22, G:0.18, T:0.20
Consensus pattern (24 bp):
CATAGAAATTACACCGAAGTGCCA
Found at i:4834830 original size:18 final size:18
Alignment explanation
Indices: 4834788--4834867 Score: 108
Period size: 18 Copynumber: 4.5 Consensus size: 18
4834778 GTTCTTAAGG
* *
4834788 AGTGGTCCTTC-GAACAT
1 AGTGGTCCTTCGGGACAC
4834805 AGTGGTCCTTCGGGACAC
1 AGTGGTCCTTCGGGACAC
*
4834823 AATGGTCCTTCGGGACAC
1 AGTGGTCCTTCGGGACAC
* *
4834841 AGTGGTCATTCGGGACAT
1 AGTGGTCCTTCGGGACAC
4834859 AGTGGTCCT
1 AGTGGTCCT
4834868 ACGGATAAAT
Statistics
Matches: 55, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
17 11 0.20
18 44 0.80
ACGTcount: A:0.20, C:0.24, G:0.30, T:0.26
Consensus pattern (18 bp):
AGTGGTCCTTCGGGACAC
Found at i:4836842 original size:63 final size:63
Alignment explanation
Indices: 4836773--4836893 Score: 215
Period size: 63 Copynumber: 1.9 Consensus size: 63
4836763 GGACCCTTAG
* *
4836773 TGCATCGATGCATCAAGTGCATTCGATGTTTCAAAATAGCCAGAGTGTATCGATGCATGGCTA
1 TGCATCGATGCATCAAATGCATTCGATGTTTCAAAATAGCCAGAGTGCATCGATGCATGGCTA
*
4836836 TGCATCGATGCATCAAATGCATTTGATGTTTCAAAATAGCCAGAGTGCATCGATGCAT
1 TGCATCGATGCATCAAATGCATTCGATGTTTCAAAATAGCCAGAGTGCATCGATGCAT
4836894 CAAATGCATT
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
63 55 1.00
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (63 bp):
TGCATCGATGCATCAAATGCATTCGATGTTTCAAAATAGCCAGAGTGCATCGATGCATGGCTA
Found at i:4839141 original size:26 final size:25
Alignment explanation
Indices: 4839110--4839158 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
4839100 TCTTACTAAT
4839110 TTTCGAAATCATAATATTTTTTTTAA
1 TTTCGAAATCA-AATATTTTTTTTAA
* *
4839136 TTTCGAAATTAAATTTTTTTTTT
1 TTTCGAAATCAAATATTTTTTTT
4839159 GAAAAATTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 11 0.52
26 10 0.48
ACGTcount: A:0.31, C:0.06, G:0.04, T:0.59
Consensus pattern (25 bp):
TTTCGAAATCAAATATTTTTTTTAA
Found at i:4847812 original size:20 final size:20
Alignment explanation
Indices: 4847787--4847824 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
4847777 CAAATGTTAA
*
4847787 ATAATGCATCGATGCACTGT
1 ATAATGCACCGATGCACTGT
*
4847807 ATAATGTACCGATGCACT
1 ATAATGCACCGATGCACT
4847825 TCAATGGGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (20 bp):
ATAATGCACCGATGCACTGT
Found at i:4848726 original size:17 final size:18
Alignment explanation
Indices: 4848704--4848773 Score: 97
Period size: 18 Copynumber: 3.9 Consensus size: 18
4848694 GTTCTTAAAG
*
4848704 AGTGGTCCTTCGAGAC-T
1 AGTGGTCCTTCGGGACAT
* *
4848721 AGTGGTCCTTTGGGACAC
1 AGTGGTCCTTCGGGACAT
4848739 AGTGGTCCTTCGGGACAT
1 AGTGGTCCTTCGGGACAT
*
4848757 AGTGGTCCTACGGGACA
1 AGTGGTCCTTCGGGACA
4848774 AATTCTACGT
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
17 14 0.30
18 32 0.70
ACGTcount: A:0.19, C:0.23, G:0.33, T:0.26
Consensus pattern (18 bp):
AGTGGTCCTTCGGGACAT
Found at i:4849041 original size:17 final size:16
Alignment explanation
Indices: 4849019--4849053 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
4849009 TATGATAAAG
*
4849019 ATGATATGTAATTATGT
1 ATGATATGAAATTA-GT
4849036 ATGATATGAAATTAGT
1 ATGATATGAAATTAGT
4849052 AT
1 AT
4849054 TTTCATGTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.40, C:0.00, G:0.17, T:0.43
Consensus pattern (16 bp):
ATGATATGAAATTAGT
Found at i:4854611 original size:114 final size:113
Alignment explanation
Indices: 4854412--4854639 Score: 415
Period size: 114 Copynumber: 2.0 Consensus size: 113
4854402 CGAAGTTCAG
4854412 ATCAGAAAAGAAATGATTAATATGTATTTGTTATTTTAATATAGTTGGCATGTACTAATAGAATT
1 ATCAGAAAAGAAATGATTAATATGTATTTGTTATTTTAATATAGTTGGCATGTACTAATAGAATT
4854477 GAGTTTAATATGCTCTGATATGTTTTGT-AAAACCAATTTATTTTAATT
66 GAGTTTAATATGCTCTGATATG-TTTGTAAAAACCAATTTATTTTAATT
4854525 ATCAGAAAAGAAATGATTAA-ATGTATTTTGTTATTTTAAATATAGTTGGCATGTACTAATAGAA
1 ATCAGAAAAGAAATGATTAATATGTA-TTTGTTATTTT-AATATAGTTGGCATGTACTAATAGAA
4854589 TTGAGTTTAATATGCTCTGATATGTTTGTAAAAACCAATTTATTTTAATT
64 TTGAGTTTAATATGCTCTGATATGTTTGTAAAAACCAATTTATTTTAATT
4854639 A
1 A
4854640 ATGTAAAGTA
Statistics
Matches: 112, Mismatches: 0, Indels: 5
0.96 0.00 0.04
Matches are distributed among these distances:
112 5 0.04
113 36 0.32
114 71 0.63
ACGTcount: A:0.37, C:0.06, G:0.14, T:0.43
Consensus pattern (113 bp):
ATCAGAAAAGAAATGATTAATATGTATTTGTTATTTTAATATAGTTGGCATGTACTAATAGAATT
GAGTTTAATATGCTCTGATATGTTTGTAAAAACCAATTTATTTTAATT
Found at i:4854979 original size:21 final size:21
Alignment explanation
Indices: 4854953--4855005 Score: 106
Period size: 21 Copynumber: 2.5 Consensus size: 21
4854943 GAAACAATAT
4854953 AATCTTATCTCTTACTTGATC
1 AATCTTATCTCTTACTTGATC
4854974 AATCTTATCTCTTACTTGATC
1 AATCTTATCTCTTACTTGATC
4854995 AATCTTATCTC
1 AATCTTATCTC
4855006 GTTGACTCAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.25, C:0.25, G:0.04, T:0.47
Consensus pattern (21 bp):
AATCTTATCTCTTACTTGATC
Found at i:4855583 original size:23 final size:23
Alignment explanation
Indices: 4855556--4855611 Score: 103
Period size: 23 Copynumber: 2.4 Consensus size: 23
4855546 CATCTTTATT
4855556 ATTTTAACTCATCTTAGCATCCA
1 ATTTTAACTCATCTTAGCATCCA
4855579 ATTTTAACTCATCTTAGCATCCA
1 ATTTTAACTCATCTTAGCATCCA
4855602 ATATTTAACT
1 AT-TTTAACT
4855612 AACACTTGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 25 0.78
24 7 0.22
ACGTcount: A:0.32, C:0.23, G:0.04, T:0.41
Consensus pattern (23 bp):
ATTTTAACTCATCTTAGCATCCA
Found at i:4860800 original size:41 final size:41
Alignment explanation
Indices: 4860743--4860836 Score: 152
Period size: 41 Copynumber: 2.3 Consensus size: 41
4860733 CAGGTACCCT
*
4860743 CAGTATCGATATTAGAGGAGCAATATCAATACTCATGTTTC
1 CAGTATCGATACTAGAGGAGCAATATCAATACTCATGTTTC
* * *
4860784 CAGTATTGATACTAGAGGGGCAATATCAATACTCCTGTTTC
1 CAGTATCGATACTAGAGGAGCAATATCAATACTCATGTTTC
4860825 CAGTATCGATAC
1 CAGTATCGATAC
4860837 CCTTTTTTTG
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 48 1.00
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.31
Consensus pattern (41 bp):
CAGTATCGATACTAGAGGAGCAATATCAATACTCATGTTTC
Found at i:4868958 original size:21 final size:21
Alignment explanation
Indices: 4868910--4868958 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
4868900 TAGTTTACCC
* * *
4868910 TTCAAAATTTAACGTTAAGTT
1 TTCAAAATTGAAAGTTAAGGT
* *
4868931 TTAAAAATTGAAAGTTTAGGT
1 TTCAAAATTGAAAGTTAAGGT
4868952 TTCAAAA
1 TTCAAAA
4868959 CAGACCAAAT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.43, C:0.06, G:0.12, T:0.39
Consensus pattern (21 bp):
TTCAAAATTGAAAGTTAAGGT
Found at i:4870501 original size:5 final size:5
Alignment explanation
Indices: 4870491--4870520 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
4870481 TAAAAGTAAG
4870491 CTCAA CTCAA CTCAA CTCAA CTCAAA CTCA
1 CTCAA CTCAA CTCAA CTCAA CTC-AA CTCA
4870521 CAAGCTAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.40, C:0.40, G:0.00, T:0.20
Consensus pattern (5 bp):
CTCAA
Found at i:4871552 original size:36 final size:36
Alignment explanation
Indices: 4871510--4871608 Score: 101
Period size: 39 Copynumber: 2.6 Consensus size: 36
4871500 GTTAGACCGA
*
4871510 AATCGGATGAAGATATATATTTTTCGGATCGAGTC-
1 AATCGGATGAAGATATATATTTTTCGGATCGAATCG
* * *
4871545 AGATCGGATGAAAGATATAAATTGTTTTGGATTGAATCG
1 A-ATCGGATG-AAGATATATATT-TTTCGGATCGAATCG
*
4871584 AATTCGGATAGAAGATACATATTTT
1 AA-TCGGAT-GAAGATATATATTTT
4871609 CGAGTCGGTT
Statistics
Matches: 52, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
35 1 0.02
36 8 0.15
37 11 0.21
38 14 0.27
39 17 0.33
40 1 0.02
ACGTcount: A:0.35, C:0.08, G:0.22, T:0.34
Consensus pattern (36 bp):
AATCGGATGAAGATATATATTTTTCGGATCGAATCG
Found at i:4872500 original size:22 final size:22
Alignment explanation
Indices: 4872475--4872516 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
4872465 CATTTTTTTT
4872475 TTCGATTTAAGATATCTGTTTC
1 TTCGATTTAAGATATCTGTTTC
* *
4872497 TTCGATTTAGGATATTTGTT
1 TTCGATTTAAGATATCTGTT
4872517 CACTCCATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.21, C:0.10, G:0.17, T:0.52
Consensus pattern (22 bp):
TTCGATTTAAGATATCTGTTTC
Found at i:4873037 original size:20 final size:20
Alignment explanation
Indices: 4873012--4873146 Score: 121
Period size: 20 Copynumber: 6.7 Consensus size: 20
4873002 AATTGGGAAA
4873012 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
*
4873032 ATCGCAATGCGATACTTACT
1 ATCGCAATGCGATACTGACT
* *
4873052 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAATGCGATACTGAC--T
* *
4873073 ATCGCAACGAGATACTGACT
1 ATCGCAATGCGATACTGACT
* * *
4873093 TTCGCAACGCGATTCTGACT
1 ATCGCAATGCGATACTGACT
* * *
4873113 TTCGCAACGCGATAAT-ACAT
1 ATCGCAATGCGATACTGAC-T
4873133 AATCGCAATGCGAT
1 -ATCGCAATGCGAT
4873147 TTTCAAAGCG
Statistics
Matches: 96, Mismatches: 14, Indels: 9
0.81 0.12 0.08
Matches are distributed among these distances:
19 4 0.04
20 66 0.69
21 24 0.25
22 2 0.02
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.24
Consensus pattern (20 bp):
ATCGCAATGCGATACTGACT
Found at i:4873056 original size:61 final size:61
Alignment explanation
Indices: 4873009--4873140 Score: 183
Period size: 61 Copynumber: 2.2 Consensus size: 61
4872999 GCGAATTGGG
* * * * *
4873009 AAAATCGCAATGCGATACTGACTATCGCAATGCGATACTTACTATCGCAATGCGATAATAC
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
* * *
4873070 AAAATCGCAACGAGATACTGACTTTCGCAACGCGATTCTGACTTTCGCAACGCGATAATAC
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
*
4873131 ATAATCGCAA
1 AAAATCGCAA
4873141 TGCGATTTTC
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
61 62 1.00
ACGTcount: A:0.36, C:0.24, G:0.17, T:0.23
Consensus pattern (61 bp):
AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
Found at i:4873342 original size:22 final size:22
Alignment explanation
Indices: 4873314--4873357 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
4873304 CACTCTCTTA
4873314 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
4873336 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
4873358 TATCTCCATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.45, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:4873659 original size:20 final size:20
Alignment explanation
Indices: 4873600--4873663 Score: 83
Period size: 20 Copynumber: 3.2 Consensus size: 20
4873590 GCGATTTTAG
* *
4873600 TTTCGCGTTGCGATAGTCAA
1 TTTCGTGTTGCGATAGTCAT
*
4873620 ATTCGTGTTGCGATAGTCAT
1 TTTCGTGTTGCGATAGTCAT
**
4873640 TTTCGTGTTGCGATTTTCAT
1 TTTCGTGTTGCGATAGTCAT
4873660 TTTC
1 TTTC
4873664 AGAAACTATT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.16, C:0.17, G:0.22, T:0.45
Consensus pattern (20 bp):
TTTCGTGTTGCGATAGTCAT
Found at i:4875000 original size:18 final size:18
Alignment explanation
Indices: 4874979--4875023 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
4874969 TCCACTTTGG
*
4874979 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
* *
4874997 GAGCTATCACCTTACCCA
1 GAGCCATCACCTCACCCA
4875015 GAGCCATCA
1 GAGCCATCA
4875024 TCTGATCGAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.27, C:0.42, G:0.16, T:0.16
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:4875560 original size:19 final size:20
Alignment explanation
Indices: 4875506--4875572 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
4875496 TAGTTTACTT
* *
4875506 TCGCAACACGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
4875526 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
* **
4875546 TCGCAATGC-GAAATGAAAA
1 TCGCAACGCGGAAATGACTA
4875565 TCGCAACG
1 TCGCAACG
4875573 ACAAAATCGC
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
19 14 0.36
20 25 0.64
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:4875580 original size:14 final size:14
Alignment explanation
Indices: 4875561--4875618 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
4875551 ATGCGAAATG
4875561 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
4875575 AAAATCGCAATGCGAA
1 AAAATCGCAA--CGAC
4875591 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
4875607 AAAATCGCAACG
1 AAAATCGCAACG
4875619 CGAAACACAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.24, G:0.17, T:0.10
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:4875603 original size:32 final size:33
Alignment explanation
Indices: 4875545--4875623 Score: 142
Period size: 32 Copynumber: 2.4 Consensus size: 33
4875535 GGAAATGGCT
4875545 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
4875578 ATCGCAATGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
4875610 ATCGCAACGCGAAA
1 ATCGCAATGCGAAA
4875624 CACAAATCGC
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
32 29 0.64
33 16 0.36
ACGTcount: A:0.47, C:0.23, G:0.19, T:0.11
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:4875652 original size:19 final size:19
Alignment explanation
Indices: 4875630--4875722 Score: 105
Period size: 19 Copynumber: 4.8 Consensus size: 19
4875620 GAAACACAAA
*
4875630 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
4875649 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* ***
4875668 TCGCATTGCGATAGCCATT
1 TCGCGTTGCGATTTTCATT
**
4875687 TCCGCGTTGCGATAGTCATTT
1 T-CGCGTTGCGATTTTCA-TT
4875708 TCGCGTTGCGATTTT
1 TCGCGTTGCGATTTT
4875723 AAGTTTTGTG
Statistics
Matches: 63, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
19 34 0.54
20 26 0.41
21 3 0.05
ACGTcount: A:0.14, C:0.23, G:0.22, T:0.42
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:4876158 original size:42 final size:42
Alignment explanation
Indices: 4876081--4876173 Score: 116
Period size: 42 Copynumber: 2.2 Consensus size: 42
4876071 GCCCGACTCA
*
4876081 CCTATCATCCCTCAAGAGTCCCCTCCAATCATTCAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCCCTCCAACCATTCAAGAGGCC
* * *
4876123 CCTATCCTCCCTCAAGAGTCCCC-CCTCACCGTTCAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCCCTCC-AACCATTCAAGAGGCC
* *
4876165 ACTGTCATC
1 CCTATCATC
4876174 GTTGAAGAGG
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
41 2 0.05
42 41 0.95
ACGTcount: A:0.23, C:0.43, G:0.13, T:0.22
Consensus pattern (42 bp):
CCTATCATCCCTCAAGAGTCCCCTCCAACCATTCAAGAGGCC
Found at i:4877784 original size:19 final size:19
Alignment explanation
Indices: 4877760--4877827 Score: 101
Period size: 19 Copynumber: 3.8 Consensus size: 19
4877750 ATCGCAACGA
4877760 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
4877779 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
4877798 GAAAATCGCAA--CG--A-
1 GAAAATCGCAATGCGAAAT
4877812 GAAAATCGCAATGCGA
1 GAAAATCGCAATGCGA
4877828 TTTTCATTTC
Statistics
Matches: 46, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
14 11 0.24
15 1 0.02
16 2 0.04
17 2 0.04
19 30 0.65
ACGTcount: A:0.47, C:0.18, G:0.22, T:0.13
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:4877871 original size:20 final size:20
Alignment explanation
Indices: 4877846--4877941 Score: 95
Period size: 20 Copynumber: 4.8 Consensus size: 20
4877836 TCGCATTGCG
*
4877846 ATTTTCTAGTTGCGATAGCC
1 ATTTTCGAGTTGCGATAGCC
* ***
4877866 ATTTTCGCGTTGCGATTTTTC
1 ATTTTCGAGTTGCGA-TAGCC
*
4877887 A-TTTCGAATTGCGATAGCC
1 ATTTTCGAGTTGCGATAGCC
* *
4877906 AGTTTCGCGTTGCGATAGCC
1 ATTTTCGAGTTGCGATAGCC
*
4877926 ATTTTCGTGTTGCGAT
1 ATTTTCGAGTTGCGAT
4877942 TTCCCCGTTG
Statistics
Matches: 60, Mismatches: 14, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
19 3 0.05
20 54 0.90
21 3 0.05
ACGTcount: A:0.17, C:0.20, G:0.23, T:0.41
Consensus pattern (20 bp):
ATTTTCGAGTTGCGATAGCC
Found at i:4877879 original size:34 final size:36
Alignment explanation
Indices: 4877834--4877921 Score: 99
Period size: 40 Copynumber: 2.4 Consensus size: 36
4877824 GCGATTTTCA
* * *
4877834 TTTCGCATTGCGATTTTC-T-AGTTGCGATAGCCAT
1 TTTCGCGTTGCGATTTTCTTCAATTGCGATAGCCAG
4877868 TTTCGCGTTGCGATTTTTCATTTCGAATTGCGATAGCCAG
1 TTTCGCGTTGCGA-TTTTC--TTC-AATTGCGATAGCCAG
4877908 TTTCGCGTTGCGAT
1 TTTCGCGTTGCGAT
4877922 AGCCATTTTC
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
34 12 0.27
35 5 0.11
38 1 0.02
39 1 0.02
40 26 0.58
ACGTcount: A:0.16, C:0.20, G:0.23, T:0.41
Consensus pattern (36 bp):
TTTCGCGTTGCGATTTTCTTCAATTGCGATAGCCAG
Found at i:4877932 original size:40 final size:41
Alignment explanation
Indices: 4877846--4877941 Score: 115
Period size: 40 Copynumber: 2.4 Consensus size: 41
4877836 TCGCATTGCG
* * ***
4877846 ATTTTCTAGTTGCGATAGCCATTTTCGCGTTGCGATTTTTC
1 ATTTTCGAGTTGCGATAGCCAGTTTCGCGTTGCGATTAGCC
*
4877887 A-TTTCGAATTGCGATAGCCAGTTTCGCGTTGCGA-TAGCC
1 ATTTTCGAGTTGCGATAGCCAGTTTCGCGTTGCGATTAGCC
*
4877926 ATTTTCGTGTTGCGAT
1 ATTTTCGAGTTGCGAT
4877942 TTCCCCGTTG
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
39 3 0.07
40 42 0.91
41 1 0.02
ACGTcount: A:0.17, C:0.20, G:0.23, T:0.41
Consensus pattern (41 bp):
ATTTTCGAGTTGCGATAGCCAGTTTCGCGTTGCGATTAGCC
Found at i:4878180 original size:20 final size:20
Alignment explanation
Indices: 4878155--4878226 Score: 72
Period size: 20 Copynumber: 3.5 Consensus size: 20
4878145 TTGAAGATGA
*
4878155 TTGCGATTTTCAGAATCTCG
1 TTGCGATTTTCAGTATCTCG
* *
4878175 TTGCGATTTTGTATTATCTCG
1 TTGCGATTTT-CAGTATCTCG
** * *
4878196 TTGCGATAGTCAGTATCGCA
1 TTGCGATTTTCAGTATCTCG
4878216 TTGCGATTTTC
1 TTGCGATTTTC
4878227 CAAATTCGCA
Statistics
Matches: 40, Mismatches: 11, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
20 25 0.62
21 15 0.38
ACGTcount: A:0.18, C:0.18, G:0.21, T:0.43
Consensus pattern (20 bp):
TTGCGATTTTCAGTATCTCG
Found at i:4879098 original size:24 final size:24
Alignment explanation
Indices: 4879047--4879100 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
4879037 GTATTCAAAA
* *
4879047 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACCCAGAC
* *
4879071 TTTGATATTGGTCAATACTCAGAT
1 TTTGATATTGGTCAATACCCAGAC
4879095 TTTGAT
1 TTTGAT
4879101 GATGTTTCAG
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:0.24, C:0.17, G:0.19, T:0.41
Consensus pattern (24 bp):
TTTGATATTGGTCAATACCCAGAC
Found at i:4879292 original size:12 final size:12
Alignment explanation
Indices: 4879275--4879299 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4879265 ATATAATCCT
4879275 GAAGAAGAAAAA
1 GAAGAAGAAAAA
4879287 GAAGAAGAAAAA
1 GAAGAAGAAAAA
4879299 G
1 G
4879300 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:4881612 original size:19 final size:19
Alignment explanation
Indices: 4881590--4881681 Score: 69
Period size: 19 Copynumber: 5.4 Consensus size: 19
4881580 GGAAATTACT
4881590 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
4881609 ATCGCAA--C--AA-GAGA
1 ATCGCAATGCGAAATGAAA
*
4881623 ATCGTAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
* *
4881642 ATCGCAA--CG--CT-AAT
1 ATCGCAATGCGAAATGAAA
*
4881656 TTCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
4881675 ATCGCAA
1 ATCGCAA
4881682 CGAGGGAATC
Statistics
Matches: 53, Mismatches: 10, Indels: 20
0.64 0.12 0.24
Matches are distributed among these distances:
14 17 0.32
15 3 0.06
16 3 0.06
17 3 0.06
18 3 0.06
19 24 0.45
ACGTcount: A:0.45, C:0.18, G:0.20, T:0.17
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:4881673 original size:66 final size:66
Alignment explanation
Indices: 4881591--4881723 Score: 221
Period size: 66 Copynumber: 2.0 Consensus size: 66
4881581 GAAATTACTA
* *
4881591 TCGCAATGCGAAATGAAAATCGCAACAAGAGAATCGTAATGCGAAATGAAAATCGCAACGCTAAT
1 TCGCAATGCGAAATGAAAATCGCAACAAGAGAATCATAATGCGAAATGAAAATCGCAACGCGAAT
4881656 T
66 T
* * *
4881657 TCGCAATGCGAAATGAAAATCGCAACGAGGGAATCATAATGTGAAATGAAAATCGCAACGCGAAT
1 TCGCAATGCGAAATGAAAATCGCAACAAGAGAATCATAATGCGAAATGAAAATCGCAACGCGAAT
4881722 T
66 T
4881723 T
1 T
4881724 AATTTCGCGT
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
66 62 1.00
ACGTcount: A:0.43, C:0.17, G:0.21, T:0.19
Consensus pattern (66 bp):
TCGCAATGCGAAATGAAAATCGCAACAAGAGAATCATAATGCGAAATGAAAATCGCAACGCGAAT
T
Found at i:4881716 original size:33 final size:33
Alignment explanation
Indices: 4881590--4881716 Score: 157
Period size: 33 Copynumber: 3.8 Consensus size: 33
4881580 GGAAATTACT
* *
4881590 ATCGCAATGCGAAATGAAAATCGCAACAAGAGA
1 ATCGTAATGCGAAATGAAAATCGCAACGAGAGA
**
4881623 ATCGTAATGCGAAATGAAAATCGCAACGCTA-A
1 ATCGTAATGCGAAATGAAAATCGCAACGAGAGA
* * *
4881655 TTTCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 -ATCGTAATGCGAAATGAAAATCGCAACGAGAGA
* *
4881689 ATCATAATGTGAAATGAAAATCGCAACG
1 ATCGTAATGCGAAATGAAAATCGCAACG
4881717 CGAATTTAAT
Statistics
Matches: 79, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
32 1 0.01
33 77 0.97
34 1 0.01
ACGTcount: A:0.44, C:0.17, G:0.21, T:0.17
Consensus pattern (33 bp):
ATCGTAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:4881738 original size:19 final size:19
Alignment explanation
Indices: 4881716--4881790 Score: 70
Period size: 19 Copynumber: 4.2 Consensus size: 19
4881706 AAATCGCAAC
*
4881716 GCGAATTTAATTTCGCGTT
1 GCGAATTTCATTTCGCGTT
*
4881735 GCG-A-TTC---TCTCGTT
1 GCGAATTTCATTTCGCGTT
*
4881749 GCGATTTTCATTTCGCGTT
1 GCGAATTTCATTTCGCGTT
* *
4881768 GCGATTTTCATTTCGCATT
1 GCGAATTTCATTTCGCGTT
4881787 GCGA
1 GCGA
4881791 TAGTACTTTT
Statistics
Matches: 46, Mismatches: 5, Indels: 10
0.75 0.08 0.16
Matches are distributed among these distances:
14 9 0.20
16 3 0.07
17 2 0.04
18 1 0.02
19 31 0.67
ACGTcount: A:0.15, C:0.21, G:0.21, T:0.43
Consensus pattern (19 bp):
GCGAATTTCATTTCGCGTT
Found at i:4881791 original size:19 final size:19
Alignment explanation
Indices: 4881747--4881791 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
4881737 GATTCTCTCG
*
4881747 TTGCGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCA
4881766 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
4881785 TTGCGAT
1 TTGCGAT
4881792 AGTACTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.13, C:0.20, G:0.20, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:4881917 original size:14 final size:14
Alignment explanation
Indices: 4881898--4881934 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
4881888 CATCAATTAA
4881898 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
4881912 ACAAATCACCTTTT
1 ACAAATCAACTTTT
4881926 ACAAATCAA
1 ACAAATCAA
4881935 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:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:4883374 original size:42 final size:42
Alignment explanation
Indices: 4883328--4883407 Score: 106
Period size: 42 Copynumber: 1.9 Consensus size: 42
4883318 CGATGACAGT
* * *
4883328 GGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGG
1 GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGATAGG
* * *
4883370 GGCCTCTTCAACGATAGGAGTGGACTCTTGAGGGATGA
1 GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGA
4883408 CAGGCGAGTC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 32 1.00
ACGTcount: A:0.23, C:0.17, G:0.39, T:0.21
Consensus pattern (42 bp):
GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGATAGG
Found at i:4885400 original size:20 final size:20
Alignment explanation
Indices: 4885370--4885462 Score: 74
Period size: 20 Copynumber: 5.0 Consensus size: 20
4885360 CTTTTGGTTG
4885370 AAATGAAAATCGCAACGAGA
1 AAATGAAAATCGCAACGAGA
* * **
4885390 TAATGAGAATCGCAACTCGA
1 AAATGAAAATCGCAACGAGA
**
4885410 AAATGACTATCGCAACGAG-
1 AAATGAAAATCGCAACGAGA
*
4885429 --A-G--AATCGCAACGCG-
1 AAATGAAAATCGCAACGAGA
4885443 AAATGAAAATCGCAACGAGA
1 AAATGAAAATCGCAACGAGA
4885463 GAATCGCAAC
Statistics
Matches: 55, Mismatches: 12, Indels: 12
0.70 0.15 0.15
Matches are distributed among these distances:
14 10 0.18
16 2 0.04
17 2 0.04
19 11 0.20
20 30 0.55
ACGTcount: A:0.46, C:0.19, G:0.22, T:0.13
Consensus pattern (20 bp):
AAATGAAAATCGCAACGAGA
Found at i:4885414 original size:40 final size:36
Alignment explanation
Indices: 4885369--4885490 Score: 130
Period size: 33 Copynumber: 3.4 Consensus size: 36
4885359 TCTTTTGGTT
*
4885369 GAAATGAAAATCGCAACGAGATAATGAGAATCGCAACTC
1 GAAATGAAAATCGCAACGAG--AA-GAGAATCGCAACGC
**
4885408 GAAAATGACTATCGCAAC--G-AGAGAATCGCAACGC
1 G-AAATGAAAATCGCAACGAGAAGAGAATCGCAACGC
*
4885442 GAAATGAAAATCGCAAC--G-AGAGAATCGCAACGT
1 GAAATGAAAATCGCAACGAGAAGAGAATCGCAACGC
4885475 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
4885491 TGCGATTTTG
Statistics
Matches: 76, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
33 45 0.59
34 14 0.18
35 1 0.01
38 1 0.01
39 1 0.01
40 14 0.18
ACGTcount: A:0.46, C:0.19, G:0.22, T:0.13
Consensus pattern (36 bp):
GAAATGAAAATCGCAACGAGAAGAGAATCGCAACGC
Found at i:4885437 original size:14 final size:14
Alignment explanation
Indices: 4885418--4885473 Score: 58
Period size: 14 Copynumber: 3.6 Consensus size: 14
4885408 GAAAATGACT
4885418 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
*
4885432 ATCGCAACGCGAAATGAAA
1 ATCGCAA--CG--A-GAGA
4885451 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
4885465 ATCGCAACG
1 ATCGCAACG
4885474 TGAAATGAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 19 0.54
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.43, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
ATCGCAACGAGAGA
Found at i:4885455 original size:33 final size:33
Alignment explanation
Indices: 4885394--4885490 Score: 149
Period size: 33 Copynumber: 2.9 Consensus size: 33
4885384 ACGAGATAAT
* **
4885394 GAGAATCGCAACTCGAAAATGACTATCGCAACGA
1 GAGAATCGCAACGCG-AAATGAAAATCGCAACGA
4885428 GAGAATCGCAACGCGAAATGAAAATCGCAACGA
1 GAGAATCGCAACGCGAAATGAAAATCGCAACGA
*
4885461 GAGAATCGCAACGTGAAATGAAAATCGCAA
1 GAGAATCGCAACGCGAAATGAAAATCGCAA
4885491 TGCGATTTTG
Statistics
Matches: 59, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
33 45 0.76
34 14 0.24
ACGTcount: A:0.44, C:0.21, G:0.23, T:0.12
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGAAAATCGCAACGA
Found at i:4885524 original size:19 final size:19
Alignment explanation
Indices: 4885491--4885535 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
4885481 AAAATCGCAA
*
4885491 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGATTTCGCGT
*
4885510 TGCGATTTTTATTTCGCGT
1 TGCGATTTTGATTTCGCGT
4885529 TGCGATT
1 TGCGATT
4885536 CTCTCGTTGC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.09, C:0.16, G:0.27, T:0.49
Consensus pattern (19 bp):
TGCGATTTTGATTTCGCGT
Found at i:4886141 original size:20 final size:20
Alignment explanation
Indices: 4886090--4886142 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
4886080 GCGCTATGTA
*
4886090 AATCGCGTTGCAAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
4886110 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
* *
4886130 TATCTCGTTGCGA
1 AATCGCGTTGCGA
4886143 TTTTGTATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (20 bp):
AATCGCGTTGCGAAAGTCAG
Found at i:4886176 original size:20 final size:20
Alignment explanation
Indices: 4886104--4886204 Score: 105
Period size: 20 Copynumber: 5.0 Consensus size: 20
4886094 GCGTTGCAAA
* * *
4886104 AGTCAGAATCGCGTTGCGAA
1 AGTCAGTATCGCATTGCGAT
* *
4886124 AGTCAGTATCTCGTTGCGATTT
1 AGTCAGTATCGCATTGCGA--T
* *
4886146 TGT-ATTATCGCATTGCGAT
1 AGTCAGTATCGCATTGCGAT
4886165 AGTCAGTATCGCATTGCGAT
1 AGTCAGTATCGCATTGCGAT
*
4886185 AGTCAGTATCGCATTACGAT
1 AGTCAGTATCGCATTGCGAT
4886205 TTTCCCAATT
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
19 3 0.04
20 51 0.75
21 12 0.18
22 2 0.03
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.33
Consensus pattern (20 bp):
AGTCAGTATCGCATTGCGAT
Found at i:4886223 original size:61 final size:61
Alignment explanation
Indices: 4886091--4886225 Score: 146
Period size: 61 Copynumber: 2.2 Consensus size: 61
4886081 CGCTATGTAA
* * * * * * ** *
4886091 ATCGCGTTGCAAAAGTCAGAATCGCGTTGCGAAAGTCAGTATCTCGTTGCGATTTTGTATT
1 ATCGCGTTGCGATAGTCAGAATCGCATTGCGAAAGTCAGTATCGCATTACGATTTTCCAAT
* * *
4886152 ATCGCATTGCGATAGTCAGTATCGCATTGCGATAGTCAGTATCGCATTACGATTTTCCCAAT
1 ATCGCGTTGCGATAGTCAGAATCGCATTGCGAAAGTCAGTATCGCATTACGATTTT-CCAAT
4886214 -TCGCGTTGCGAT
1 ATCGCGTTGCGAT
4886226 TTACTTATTC
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
61 58 0.97
62 2 0.03
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.33
Consensus pattern (61 bp):
ATCGCGTTGCGATAGTCAGAATCGCATTGCGAAAGTCAGTATCGCATTACGATTTTCCAAT
Found at i:4886315 original size:21 final size:21
Alignment explanation
Indices: 4886275--4886315 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
4886265 ACTGTAGACC
** *
4886275 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGCAACT
4886296 ATCGCAACGCGAAATGCAAC
1 ATCGCAACGCGAAATGCAAC
4886316 GTGAATTTGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.29, G:0.17, T:0.20
Consensus pattern (21 bp):
ATCGCAACGCGAAATGCAACT
Found at i:4887947 original size:31 final size:31
Alignment explanation
Indices: 4887911--4887969 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
4887901 AACTTAAAAG
* *
4887911 AGTTTTGCAATACTGAGATTTAAATAATTTT
1 AGTTTTACAATACTGAAATTTAAATAATTTT
4887942 AGTTTTACAATACTGAAATTTAAATAAT
1 AGTTTTACAATACTGAAATTTAAATAAT
4887970 CCATACAACT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.41, C:0.07, G:0.10, T:0.42
Consensus pattern (31 bp):
AGTTTTACAATACTGAAATTTAAATAATTTT
Found at i:4888016 original size:40 final size:40
Alignment explanation
Indices: 4887962--4888111 Score: 157
Period size: 40 Copynumber: 3.8 Consensus size: 40
4887952 TACTGAAATT
4887962 TAAAT-AATCCATACAACTACAATAATAAATTATTTAAAA
1 TAAATCAATCCATACAACTACAATAATAAATTATTTAAAA
* ***
4888001 TAAATCAATCCATACAACTACAATAATAAATCAATATATATTT
1 TAAATCAATCCATACAACTACAATAATAAAT---TATTTAAAA
* * *
4888044 TAAAATAAATCAATTC-A-TAC--TAATAAATTATTTAAAA
1 T-AAATCAATCCATACAACTACAATAATAAATTATTTAAAA
*
4888081 TAAATCAATCTATACAACTACAATAATAAAT
1 TAAATCAATCCATACAACTACAATAATAAAT
4888112 CAATTCATAT
Statistics
Matches: 88, Mismatches: 14, Indels: 17
0.74 0.12 0.14
Matches are distributed among these distances:
36 11 0.12
37 7 0.08
38 3 0.03
39 5 0.06
40 41 0.47
42 3 0.03
43 7 0.08
44 11 0.12
ACGTcount: A:0.55, C:0.13, G:0.00, T:0.32
Consensus pattern (40 bp):
TAAATCAATCCATACAACTACAATAATAAATTATTTAAAA
Found at i:4888029 original size:26 final size:26
Alignment explanation
Indices: 4887999--4888120 Score: 74
Period size: 26 Copynumber: 4.6 Consensus size: 26
4887989 AATTATTTAA
4887999 AATAAATCAATCCATACAACTACAAT
1 AATAAATCAATCCATACAACTACAAT
* * **
4888025 AATAAATCAAT--ATA-TATTTTAA-
1 AATAAATCAATCCATACAACTACAAT
* *
4888047 AATAAATCAATTCATACTAA-TAAATTATTT
1 AATAAATCAATCCATAC-AACTACA--A--T
*
4888077 AAAATAAATCAATCTATACAACTACAAT
1 --AATAAATCAATCCATACAACTACAAT
*
4888105 AATAAATCAATTCATA
1 AATAAATCAATCCATA
4888121 TTTTAAAATA
Statistics
Matches: 72, Mismatches: 12, Indels: 24
0.67 0.11 0.22
Matches are distributed among these distances:
22 11 0.15
23 4 0.06
24 6 0.08
25 2 0.03
26 26 0.36
27 1 0.01
28 1 0.01
30 1 0.01
31 2 0.03
32 18 0.25
ACGTcount: A:0.54, C:0.14, G:0.00, T:0.32
Consensus pattern (26 bp):
AATAAATCAATCCATACAACTACAAT
Found at i:4888084 original size:54 final size:54
Alignment explanation
Indices: 4888025--4888681 Score: 495
Period size: 54 Copynumber: 12.1 Consensus size: 54
4888015 CAACTACAAT
*
4888025 AATAAATCAATATATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAA
1 AATAAATCAATATATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
* * ** * ** * ** *
4888079 AATAAATCAATCTATACAACTACAATAATAAATCAATTCATA-TTTTAAAATAAAT-C
1 AATAAATCAA--TATA-TATTTTAA-AATAAATCAATCCATACTAATAAATTATTTAA
** * * *
4888135 AATCCATACTAATAAAT-TATTTAAAATAAAACATTCCATACTAATAAATTATTTAA
1 AATAAAT-C-AATATATAT-TTTAAAATAAATCAATCCATACTAATAAATTATTTAA
* **
4888191 AACAAATCAATCGATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATATATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
* * *
4888245 AATAAATCAATCTATATTTTAAAATAAATCTATCTATACTAATAAATTATTTAA
1 AATAAATCAATATATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
** *
4888299 AATAAATCAATCCATATTTTAAAATAAATCAATCTATACTAATAAATTATTTAA
1 AATAAATCAATATATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
* * * ** * ** **
4888353 AATAAATCAATCCGTACAACTACAATAATAAATTAATCCATA-TTTTAAA--ATAAAA
1 AATAAATCAAT--ATA-TATTTTAA-AATAAATCAATCCATACTAATAAATTATTTAA
** * * ** * ** *
4888408 CAATCCATACTAATAAAT-TATTTAAAATAAATCAATACATA-TTTTAAAATAAAT-C
1 -AATAAAT-C-AATATATAT-TTTAAAATAAATCAATCCATACTAATAAATTATTTAA
** * * *
4888463 AATCCATACTAATAAAT-TATTTAAAATAAATTAATCCATAC-AACT--A-TA---AT
1 AATAAAT-C-AATATATAT-TTTAAAATAAATCAATCCATACTAA-TAAATTATTTAA
* **
4888513 AATAAATTAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATATATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
*
4888567 AATAAATCAAT-TCATATTTTAAAATAAATCAATCCATACTAATAAGTTATTTAA
1 AATAAATCAATAT-ATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
**
4888621 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATATATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
4888675 AATAAAT
1 AATAAAT
4888682 TATTTAAAAA
Statistics
Matches: 489, Mismatches: 81, Indels: 66
0.77 0.13 0.10
Matches are distributed among these distances:
48 27 0.06
49 3 0.01
50 6 0.01
51 2 0.00
52 2 0.00
53 1 0.00
54 344 0.70
55 21 0.04
56 25 0.05
57 23 0.05
58 35 0.07
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.35
Consensus pattern (54 bp):
AATAAATCAATATATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
Found at i:4888085 original size:80 final size:78
Alignment explanation
Indices: 4887984--4888582 Score: 451
Period size: 80 Copynumber: 7.4 Consensus size: 78
4887974 ACAACTACAA
4887984 TAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATATATATTTTAAAA
1 TAATAAATTATTTAAAATAAATCAATCCATACAA-TA-AATAATAAATCAATATATATTTTAAAA
*
4888049 TAAATCAATTCATAC
64 TAAATCAATCCATAC
*
4888064 TAATAAATTATTTAAAATAAATCAATCTATACAACTACAATAATAAATCAAT-TCATATTTTAAA
1 TAATAAATTATTTAAAATAAATCAATCCATACAA-TA-AATAATAAATCAATAT-ATATTTTAAA
4888128 ATAAATCAATCCATAC
63 ATAAATCAATCCATAC
* * * *
4888144 TAATAAATTATTTAAAATAAAACATTCCATACTAATAAATTATTTAAAACAAATCAATCGATATT
1 TAATAAATTATTTAAAATAAATCAATCCATAC-AATAAA-TA-ATAAATC-AAT--AT--ATATT
4888209 TTAAAATAAATCAATCCATAC
58 TTAAAATAAATCAATCCATAC
* *** ** *
4888230 TAATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCTATCTATACTAATAAATTAT
1 TAATAAATTATTTAAAATAAATCAATCCATACAAT-AAAT-AATAAATC-A-A-T-ATATA-T-T
4888295 TTAAAATAAATCAAT-C---C
58 TTAAAATAAATCAATCCATAC
* * **
4888312 --AT--A-T-TTTAAAATAAATCAATCTATACTAATAAATTATTTAAAAT-AA-ATCA-ATCCGT
1 TAATAAATTATTTAAAATAAATCAATCCATAC-AATAAA-TA-AT-AAATCAATAT-ATAT-TTT
* * *
4888368 ACAACTACAAT-AAT--AAAT
60 A-AAATA-AATCAATCCATAC
** * *
4888386 TAATCCA-TATTTTAAAATAAAACAATCCATACTAATAAATTATTTAAAATAAATCAATACATAT
1 TAATAAATTA-TTTAAAATAAATCAATCCATAC-AAT-AA--A--T--AATAAATCAATATATAT
4888450 TTTAAAATAAATCAATCCATAC
57 TTTAAAATAAATCAATCCATAC
* * **
4888472 TAATAAATTATTTAAAATAAATTAATCCATACAACTATAATAATAAATTAATCCATATTTTAAAA
1 TAATAAATTATTTAAAATAAATCAATCCATACAA-TA-AATAATAAATCAATATATATTTTAAAA
4888537 TAAATCAATCCATAC
64 TAAATCAATCCATAC
*
4888552 TAATAAATTATTTAAAATAAATCAATTCATA
1 TAATAAATTATTTAAAATAAATCAATCCATA
4888583 TTTTAAAATA
Statistics
Matches: 425, Mismatches: 48, Indels: 92
0.75 0.08 0.16
Matches are distributed among these distances:
71 3 0.01
72 10 0.02
73 4 0.01
75 1 0.00
76 28 0.07
77 4 0.01
78 5 0.01
79 3 0.01
80 201 0.47
81 9 0.02
82 5 0.01
83 4 0.01
84 16 0.04
85 18 0.04
86 111 0.26
87 3 0.01
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (78 bp):
TAATAAATTATTTAAAATAAATCAATCCATACAATAAATAATAAATCAATATATATTTTAAAATA
AATCAATCCATAC
Found at i:4888266 original size:22 final size:22
Alignment explanation
Indices: 4888240--4888282 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
4888230 TAATAAATTA
4888240 TTTAAAATAAATCAATCTATAT
1 TTTAAAATAAATCAATCTATAT
*
4888262 TTTAAAATAAATCTATCTATA
1 TTTAAAATAAATCAATCTATA
4888283 CTAATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.49, C:0.09, G:0.00, T:0.42
Consensus pattern (22 bp):
TTTAAAATAAATCAATCTATAT
Found at i:4888291 original size:22 final size:22
Alignment explanation
Indices: 4888242--4888290 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
4888232 ATAAATTATT
**
4888242 TAAAATAAATCAATCTATATTT
1 TAAAATAAATCAATCTATATAA
*
4888264 TAAAATAAATCTATCTATACTAA
1 TAAAATAAATCAATCTATA-TAA
4888287 TAAA
1 TAAA
4888291 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.37
Consensus pattern (22 bp):
TAAAATAAATCAATCTATATAA
Found at i:4888345 original size:22 final size:22
Alignment explanation
Indices: 4888296--4888344 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
4888286 ATAAATTATT
**
4888296 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
*
4888318 TAAAATAAATCAATCTATACTAA
1 TAAAATAAATCAATCCATA-TAA
4888341 TAAA
1 TAAA
4888345 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:4888345 original size:40 final size:39
Alignment explanation
Indices: 4888299--4888425 Score: 97
Period size: 32 Copynumber: 3.2 Consensus size: 39
4888289 AATTATTTAA
4888299 AATAAATCAATCCATATTTTAAAATAAATCAATCTATACT
1 AATAAAT-AATCCATATTTTAAAATAAATCAATCTATACT
4888339 AAT--A-AAT---TA-TTTAAAATAAATCAATCCGTACAACTACAAT
1 AATAAATAATCCATATTTTAAAATAAATCAAT-C-T---A-TAC--T
* *
4888379 AATAAATTAATCCATATTTTAAAATAAAACAATCCATACT
1 AATAAA-TAATCCATATTTTAAAATAAATCAATCTATACT
4888419 AATAAAT
1 AATAAAT
4888426 TATTTAAAAT
Statistics
Matches: 69, Mismatches: 2, Indels: 33
0.66 0.02 0.32
Matches are distributed among these distances:
32 16 0.23
33 3 0.04
34 1 0.01
36 3 0.04
37 1 0.01
38 4 0.06
39 1 0.01
40 14 0.20
42 4 0.06
43 1 0.01
44 3 0.04
47 3 0.04
48 15 0.22
ACGTcount: A:0.53, C:0.14, G:0.01, T:0.32
Consensus pattern (39 bp):
AATAAATAATCCATATTTTAAAATAAATCAATCTATACT
Found at i:4888424 original size:188 final size:190
Alignment explanation
Indices: 4888105--4888681 Score: 773
Period size: 188 Copynumber: 3.0 Consensus size: 190
4888095 CAACTACAAT
* * * *
4888105 AATAAATCAATTCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAAACATT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAAT
* *
4888170 CCATACTAATAAATTATTTAAAACAAATCAATCGATATTTTAAAATAAATCAATCCATACTAATA
66 CCATACTAATAAA-TA-TT-AAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATA
* *
4888235 AATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCTATCTATACTAATAAATTATTTAA
128 AATTATTTAAAATAAATCAATC-ATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
4888299 AATAAATCAATCCATATTTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAAT
* * * *
4888364 CCGTAC-AACTACA-A-T-AATAAATTAATCCATATTTTAAAATAAAACAATCCATACTAATAAA
66 CCATACTAA-TAAATATTAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAA
4888425 TTATTTAAAATAAATCAATACATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
130 TTATTTAAAATAAATCAAT-CATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
* * * * * **
4888487 AATAAATTAATCCATA----CAACTATAAT-AA--TAAATTAATCCA-TATTTTAAAATAAATCA
1 AATAAATCAATCCATATTTTAAAATA-AATCAATCTATACTAATAAATTA-TTTAAAATAAATCA
*
4888544 ATCCATACTAATAAATTATTTAAAATAAATCAATTCATATTTTAAAATAAATCAATCCATACTAA
64 ATCCATACTAATAAA-TA-TT-AAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAA
*
4888609 TAAGTTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTA
126 TAAATTATTTAAAATAAATCAAT-CATATTTTAAAATAAATCAATCCATACTAATAAATTATTTA
4888674 A
190 A
4888675 AATAAAT
1 AATAAAT
4888682 TATTTAAAAA
Statistics
Matches: 346, Mismatches: 26, Indels: 28
0.87 0.06 0.07
Matches are distributed among these distances:
181 2 0.01
182 32 0.09
183 2 0.01
184 7 0.02
185 3 0.01
186 1 0.00
188 225 0.65
189 1 0.00
190 1 0.00
192 1 0.00
193 2 0.01
194 69 0.20
ACGTcount: A:0.52, C:0.12, G:0.01, T:0.35
Consensus pattern (190 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAAT
CCATACTAATAAATATTAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAAT
TATTTAAAATAAATCAATCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
Found at i:4888440 original size:134 final size:134
Alignment explanation
Indices: 4888025--4888636 Score: 815
Period size: 134 Copynumber: 4.5 Consensus size: 134
4888015 CAACTACAAT
*
4888025 AATAAATCAATATATATTTTAAAATAAATCAAT-TCATACTAATAAATTATTTAAAATAAATCAA
1 AATAAATCAATACATATTTTAAAATAAATCAATCT-ATACTAATAAATTATTTAAAATAAATCAA
* *
4888089 TCTATACAACTACAATAATAAATCAATTCATATTTTAAAATAAATCAATCCATACTAATAAATTA
65 TCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTA
4888154 TTTAA
130 TTTAA
* * * * * * * * *
4888159 AATAAAACATTCCATA--CT--AATAAAT-TATTTAAAACAAATCAATCGATATTTTAAAATAAA
1 AATAAATCAATACATATTTTAAAATAAATCAATCT-ATACTAATAAAT---TA-TTTAAAATAAA
* * * *
4888219 TCAATCCATACTAA-TAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCTATCTATA
61 TCAATCCATAC-AACTACA--A--T--AATAAATCAATCCATATTTTAAAATAAATCAATCCATA
4888283 CTAATAAATTATTTAA
119 CTAATAAATTATTTAA
*
4888299 AATAAATCAATCCATATTTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATACATATTTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAAT
* * *
4888364 CCGTACAACTACAATAATAAATTAATCCATATTTTAAAATAAAACAATCCATACTAATAAATTAT
66 CCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
4888429 TTAA
131 TTAA
* *
4888433 AATAAATCAATACATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATTAAT
1 AATAAATCAATACATATTTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAAT
* *
4888498 CCATACAACTATAATAATAAATTAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
66 CCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
4888563 TTAA
131 TTAA
* * *
4888567 AATAAATCAATTCATATTTTAAAATAAATCAATCCATACTAATAAGTTATTTAAAATAAATCAAT
1 AATAAATCAATACATATTTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAAT
4888632 CCATA
66 CCATA
4888637 TTTTAAAATA
Statistics
Matches: 420, Mismatches: 40, Indels: 36
0.85 0.08 0.07
Matches are distributed among these distances:
129 2 0.00
130 17 0.04
132 1 0.00
133 2 0.00
134 280 0.67
135 2 0.00
136 2 0.00
138 2 0.00
139 2 0.00
140 88 0.21
141 2 0.00
142 1 0.00
144 16 0.04
145 3 0.01
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.35
Consensus pattern (134 bp):
AATAAATCAATACATATTTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAAT
CCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
TTAA
Found at i:4888444 original size:22 final size:22
Alignment explanation
Indices: 4888419--4888465 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
4888409 AATCCATACT
4888419 AATAAAT-TATTTAAAATAAATC
1 AATAAATAT-TTTAAAATAAATC
*
4888441 AATACATATTTTAAAATAAATC
1 AATAAATATTTTAAAATAAATC
4888463 AAT
1 AAT
4888466 CCATACTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 22 0.96
23 1 0.04
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.36
Consensus pattern (22 bp):
AATAAATATTTTAAAATAAATC
Found at i:4888470 original size:22 final size:22
Alignment explanation
Indices: 4888428--4888470 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
4888418 TAATAAATTA
4888428 TTTAAAATAAATCAATACATAT
1 TTTAAAATAAATCAATACATAT
*
4888450 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATACATA
4888471 CTAATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATACATAT
Found at i:4888479 original size:22 final size:22
Alignment explanation
Indices: 4888430--4888478 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
4888420 ATAAATTATT
**
4888430 TAAAATAAATCAATACATATTT
1 TAAAATAAATCAATACATATAA
*
4888452 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATACATA-TAA
4888475 TAAA
1 TAAA
4888479 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.57, C:0.12, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATACATATAA
Found at i:4888479 original size:40 final size:40
Alignment explanation
Indices: 4888433--4888561 Score: 120
Period size: 40 Copynumber: 3.2 Consensus size: 40
4888423 AATTATTTAA
*
4888433 AATAAATCAATACATATTTTAAAATAAATCAATCCATACT
1 AATAAATTAATACATATTTTAAAATAAATCAATCCATACT
* * ** ** * *
4888473 AATAAATTATTTAAAATAAATT--AATCCATACAA-CTATAAT
1 AATAAATTA-AT-ACATATTTTAAAATAAAT-CAATCCATACT
*
4888513 AATAAATTAATCCATATTTTAAAATAAATCAATCCATACT
1 AATAAATTAATACATATTTTAAAATAAATCAATCCATACT
4888553 AATAAATTA
1 AATAAATTA
4888562 TTTAAAATAA
Statistics
Matches: 65, Mismatches: 18, Indels: 12
0.68 0.19 0.13
Matches are distributed among these distances:
38 5 0.08
39 4 0.06
40 46 0.71
41 4 0.06
42 6 0.09
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.34
Consensus pattern (40 bp):
AATAAATTAATACATATTTTAAAATAAATCAATCCATACT
Found at i:4888541 original size:22 final size:22
Alignment explanation
Indices: 4888482--4888552 Score: 79
Period size: 22 Copynumber: 3.0 Consensus size: 22
4888472 TAATAAATTA
4888482 TTTAAAATAAATTAATCCATACAAC
1 TTTAAAATAAATTAATCCAT---AC
* *
4888507 TATAATAATAAATTAATCCATAT
1 TTTAA-AATAAATTAATCCATAC
*
4888530 TTTAAAATAAATCAATCCATAC
1 TTTAAAATAAATTAATCCATAC
4888552 T
1 T
4888553 AATAAATTAT
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
22 16 0.40
23 5 0.12
25 4 0.10
26 15 0.38
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATTAATCCATAC
Found at i:4888559 original size:22 final size:21
Alignment explanation
Indices: 4888507--4888559 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 21
4888497 TCCATACAAC
*
4888507 TATAAT-AATAAATTAATCCA
1 TATAATAAATAAATCAATCCA
**
4888527 TATTTTAAAATAAATCAATCCA
1 TATAAT-AAATAAATCAATCCA
4888549 TACTAATAAAT
1 TA-TAATAAAT
4888560 TATTTAAAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
20 4 0.16
22 19 0.76
23 2 0.08
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.36
Consensus pattern (21 bp):
TATAATAAATAAATCAATCCA
Found at i:4888588 original size:22 final size:22
Alignment explanation
Indices: 4888562--4888604 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
4888552 TAATAAATTA
*
4888562 TTTAAAATAAATCAATTCATAT
1 TTTAAAATAAATCAATCCATAT
4888584 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
4888605 CTAATAAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:4888642 original size:22 final size:22
Alignment explanation
Indices: 4888616--4888658 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
4888606 TAATAAGTTA
4888616 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
4888638 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
4888659 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:4888693 original size:15 final size:15
Alignment explanation
Indices: 4888661--4888804 Score: 143
Period size: 15 Copynumber: 9.5 Consensus size: 15
4888651 AATCCATACT
4888661 AATAAATTA-TTTAA
1 AATAAATTATTTTAA
*
4888675 AATAAATTATTTAAA
1 AATAAATTATTTTAA
4888690 AATAAATCAATCCATATTT--
1 AATAAAT---T--AT-TTTAA
* *
4888709 TATAATTTATTTTAA
1 AATAAATTATTTTAA
*
4888724 AAT-AATTATTTTAT
1 AATAAATTATTTTAA
4888738 AATAAATTATTTTAA
1 AATAAATTATTTTAA
* *
4888753 TATAAATTATTTTAT
1 AATAAATTATTTTAA
*
4888768 AATAAATTATTTTAT
1 AATAAATTATTTTAA
4888783 AATAAATTATTTTAA
1 AATAAATTATTTTAA
4888798 AATAAAT
1 AATAAAT
4888805 AACCTTATTA
Statistics
Matches: 108, Mismatches: 12, Indels: 19
0.78 0.09 0.14
Matches are distributed among these distances:
13 3 0.03
14 23 0.21
15 71 0.66
16 1 0.01
18 1 0.01
19 5 0.05
20 2 0.02
21 2 0.02
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (15 bp):
AATAAATTATTTTAA
Found at i:4888707 original size:22 final size:22
Alignment explanation
Indices: 4888614--4888708 Score: 77
Period size: 22 Copynumber: 4.2 Consensus size: 22
4888604 ACTAATAAGT
4888614 TATTT-AAAATAAATCAATCCA
1 TATTTAAAAATAAATCAATCCA
*
4888635 TATTTTAAAATAAATCAATCCA
1 TATTTAAAAATAAATCAATCCA
* ** * **
4888657 TA-CTAATAAATTATTTAAAATAAA
1 TATTTAA-AAA-TAAAT-CAATCCA
4888681 TTATTTAAAAATAAATCAATCCA
1 -TATTTAAAAATAAATCAATCCA
4888704 TATTT
1 TATTT
4888709 TATAATTTAT
Statistics
Matches: 55, Mismatches: 13, Indels: 11
0.70 0.16 0.14
Matches are distributed among these distances:
21 7 0.13
22 26 0.47
23 7 0.13
24 7 0.13
25 5 0.09
26 3 0.05
ACGTcount: A:0.52, C:0.11, G:0.00, T:0.38
Consensus pattern (22 bp):
TATTTAAAAATAAATCAATCCA
Found at i:4891286 original size:11 final size:11
Alignment explanation
Indices: 4891270--4891382 Score: 81
Period size: 11 Copynumber: 9.6 Consensus size: 11
4891260 AAAATTCAGG
4891270 AGCTCGATTGA
1 AGCTCGATTGA
4891281 AGCTCGAGACTTG-
1 AGCTC--GA-TTGA
4891294 AGCTCGATTGA
1 AGCTCGATTGA
4891305 AGCTCGAGACTTG-
1 AGCTC--GA-TTGA
4891318 AGCTCGATTGA
1 AGCTCGATTGA
4891329 AGCTCGAGACTTG-
1 AGCTC--GA-TTGA
4891342 AGCTCGATTGA
1 AGCTCGATTGA
*
4891353 AGCTCAATTTTG-
1 AGCTCGA--TTGA
*
4891365 AGCTCGATTCA
1 AGCTCGATTGA
4891376 AGCTCGA
1 AGCTCGA
4891383 ACTCGATTCA
Statistics
Matches: 84, Mismatches: 3, Indels: 30
0.72 0.03 0.26
Matches are distributed among these distances:
10 11 0.13
11 34 0.40
12 6 0.07
13 24 0.29
14 9 0.11
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.27
Consensus pattern (11 bp):
AGCTCGATTGA
Found at i:4891297 original size:24 final size:24
Alignment explanation
Indices: 4891269--4891382 Score: 187
Period size: 24 Copynumber: 4.8 Consensus size: 24
4891259 AAAAATTCAG
4891269 GAGCTCGATTGAAGCTCGAGACTT
1 GAGCTCGATTGAAGCTCGAGACTT
4891293 GAGCTCGATTGAAGCTCGAGACTT
1 GAGCTCGATTGAAGCTCGAGACTT
4891317 GAGCTCGATTGAAGCTCGAGACTT
1 GAGCTCGATTGAAGCTCGAGACTT
*
4891341 GAGCTCGATTGAAGCTC-A-ATTTT
1 GAGCTCGATTGAAGCTCGAGA-CTT
*
4891364 GAGCTCGATTCAAGCTCGA
1 GAGCTCGATTGAAGCTCGA
4891383 ACTCGATTCA
Statistics
Matches: 86, Mismatches: 2, Indels: 4
0.93 0.02 0.04
Matches are distributed among these distances:
22 1 0.01
23 19 0.22
24 66 0.77
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (24 bp):
GAGCTCGATTGAAGCTCGAGACTT
Found at i:4891299 original size:13 final size:13
Alignment explanation
Indices: 4891281--4891348 Score: 76
Period size: 13 Copynumber: 5.5 Consensus size: 13
4891271 GCTCGATTGA
4891281 AGCTCGAGACTTG
1 AGCTCGAGACTTG
4891294 AGCTC--GA-TTG
1 AGCTCGAGACTTG
4891304 AAGCTCGAGACTTG
1 -AGCTCGAGACTTG
4891318 AGCTC--GA-TTG
1 AGCTCGAGACTTG
4891328 AAGCTCGAGACTTG
1 -AGCTCGAGACTTG
4891342 AGCTCGA
1 AGCTCGA
4891349 TTGAAGCTCA
Statistics
Matches: 47, Mismatches: 0, Indels: 16
0.75 0.00 0.25
Matches are distributed among these distances:
10 6 0.13
11 14 0.30
13 21 0.45
14 6 0.13
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.24
Consensus pattern (13 bp):
AGCTCGAGACTTG
Found at i:4891387 original size:17 final size:17
Alignment explanation
Indices: 4891367--4891403 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
4891357 CAATTTTGAG
4891367 CTCGATTCAAGCTCGAA
1 CTCGATTCAAGCTCGAA
4891384 CTCGATTCAAGCTCGAA
1 CTCGATTCAAGCTCGAA
4891401 CTC
1 CTC
4891404 AAACTCGAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.27, C:0.32, G:0.16, T:0.24
Consensus pattern (17 bp):
CTCGATTCAAGCTCGAA
Found at i:4893951 original size:16 final size:18
Alignment explanation
Indices: 4893924--4893956 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
4893914 TACGTGTTCC
4893924 TTCAATTTGTGT-TTGTT
1 TTCAATTTGTGTCTTGTT
4893941 TTCAA-TTGTGTCTTGT
1 TTCAATTTGTGTCTTGT
4893957 AATTTTAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.12, C:0.09, G:0.18, T:0.61
Consensus pattern (18 bp):
TTCAATTTGTGTCTTGTT
Found at i:4897841 original size:26 final size:28
Alignment explanation
Indices: 4897792--4897844 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
4897782 AAGTTTTGGG
*
4897792 TTTTTTTCTTAAAAATATATAATTTTAT
1 TTTTTTTATTAAAAATATATAATTTTAT
*
4897820 TTTTTTTATTTAAAATA-A-AATTTTA
1 TTTTTTTATTAAAAATATATAATTTTA
4897845 AAATTACAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 7 0.30
27 1 0.04
28 15 0.65
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (28 bp):
TTTTTTTATTAAAAATATATAATTTTAT
Found at i:4917136 original size:85 final size:84
Alignment explanation
Indices: 4917039--4917216 Score: 257
Period size: 85 Copynumber: 2.1 Consensus size: 84
4917029 GACGCGCAAC
* *
4917039 TGTGTGTCATAAATCTATGACACACATTTATGACGTGCATTGAGCGTCATTAAAGCCCCCGTCAT
1 TGTGTGTCATAAATCTATGACACACATGTATGACGTACATTGAGCGTCATTAAAGCCCCCGTCAT
*
4917104 AAATGAAGGTGACACACATT
66 AAATGAAGATGACACACA-T
* * * * * * *
4917124 TGTGTGTTATAAATTTATGACACGCATGTATGACTTACATTGCGTGTCATTGAAGCCCCCGTCAT
1 TGTGTGTCATAAATCTATGACACACATGTATGACGTACATTGAGCGTCATTAAAGCCCCCGTCAT
4917189 AAATGAAGATGACACACAT
66 AAATGAAGATGACACACAT
4917208 TGTGTGTCA
1 TGTGTGTCA
4917217 GAGAGTATAT
Statistics
Matches: 82, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
84 9 0.11
85 73 0.89
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (84 bp):
TGTGTGTCATAAATCTATGACACACATGTATGACGTACATTGAGCGTCATTAAAGCCCCCGTCAT
AAATGAAGATGACACACAT
Found at i:4927215 original size:17 final size:19
Alignment explanation
Indices: 4927195--4927232 Score: 53
Period size: 17 Copynumber: 2.1 Consensus size: 19
4927185 GATATGTACC
4927195 TACAAAAAAG-AAA-AAAA
1 TACAAAAAAGTAAATAAAA
*
4927212 TACAAATAAGTAAATAAAA
1 TACAAAAAAGTAAATAAAA
4927231 TA
1 TA
4927233 AACTCTAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 9 0.50
18 3 0.17
19 6 0.33
ACGTcount: A:0.74, C:0.05, G:0.05, T:0.16
Consensus pattern (19 bp):
TACAAAAAAGTAAATAAAA
Found at i:4930970 original size:29 final size:29
Alignment explanation
Indices: 4930915--4930971 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
4930905 AATTTTTCCC
* *
4930915 ATCTTTTTAATTAAGGCTCATATTTTTTT
1 ATCTTTGTAATTAAGGCTCATAATTTTTT
*
4930944 ATCTTTGTAATTAGGGCCTC-TAATTTTT
1 ATCTTTGTAATTAAGG-CTCATAATTTTT
4930972 CAAATATTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 21 0.88
30 3 0.12
ACGTcount: A:0.23, C:0.12, G:0.11, T:0.54
Consensus pattern (29 bp):
ATCTTTGTAATTAAGGCTCATAATTTTTT
Found at i:4930998 original size:43 final size:43
Alignment explanation
Indices: 4930938--4931482 Score: 227
Period size: 43 Copynumber: 12.8 Consensus size: 43
4930928 AGGCTCATAT
* * * *
4930938 TTTTTTATCTTTGTAATT-AGGGCCTCTAATTTTTCAAATATTA
1 TTTTTTACCTTTATAATTGA-GGCCTCTAATTTTTCAAATCTCA
* **
4930981 TTTTTTACCTTTATAATTGAGGTC-CT-ATTTTTTTAATCTCA
1 TTTTTTACCTTTATAATTGAGGCCTCTAATTTTTCAAATCTCA
* * * * *
4931022 TTTTTTATCTTTATAATTGAAGTCTCTAAGTTTTCCAATCTCA
1 TTTTTTACCTTTATAATTGAGGCCTCTAATTTTTCAAATCTCA
* * * *
4931065 TTTTTTACCTTTATAAATAAGGCCCCTAA----T--AATCCCA
1 TTTTTTACCTTTATAATTGAGGCCTCTAATTTTTCAAATCTCA
** * * **
4931102 -TTTTTAATTTTATAATTGCA-ACCCCTAAGTTTTTTTAATCTCA
1 TTTTTTACCTTTATAATTG-AGGCCTCTAA-TTTTTCAAATCTCA
* * * * * **
4931145 CTTTCTACCTTCAAAATTGAGTCC-CATAATTTTTTTAAT-TCCA
1 TTTTTTACCTTTATAATTGAGGCCTC-TAATTTTTCAAATCT-CA
* * *
4931188 TCTTTTACCTCTACAATTGAGGCC-CATAAGTTTTTTC-AATCTCA
1 TTTTTTACCTTTATAATTGAGGCCTC-TAA--TTTTTCAAATCTCA
* * ** ** * *
4931232 CTTTCTACCTTTATAATTGAGATCTCTAATTTTTTTAATCCCG
1 TTTTTTACCTTTATAATTGAGGCCTCTAATTTTTCAAATCTCA
* * ** *
4931275 CTTTTTACCTTTACAATTGAGGCCAATATGTTTTTC-AATCTCA
1 TTTTTTACCTTTATAATTGAGGCCTCTA-ATTTTTCAAATCTCA
* * * * *
4931318 CTTTCTACCTTTATAATCGAGG-CTCCTAATTTTTTAATTCTCA
1 TTTTTTACCTTTATAATTGAGGCCT-CTAATTTTTCAAATCTCA
* * * *
4931361 CTTTTTACCTTAATAGA-TG-GGGCTCCTTAGTTTGTTC-AATCTCA
1 TTTTTTACCTTTATA-ATTGAGGCCT-C-TAATTT-TTCAAATCTCA
* *
4931405 CTTTCTA-CTTTATAATTGAGGCC-CTTAAGTTTTTTCAAA-CTCA
1 TTTTTTACCTTTATAATTGAGGCCTC-TAA--TTTTTCAAATCTCA
* * * * *
4931448 CTTTCTACCTTTATAATTGAGACCCCTAAGTTTTC
1 TTTTTTACCTTTATAATTGAGGCCTCTAATTTTTC
4931483 CAGTTTCATA
Statistics
Matches: 389, Mismatches: 79, Indels: 69
0.72 0.15 0.13
Matches are distributed among these distances:
36 21 0.05
37 7 0.02
39 1 0.00
41 34 0.09
42 28 0.07
43 195 0.50
44 93 0.24
45 10 0.03
ACGTcount: A:0.25, C:0.20, G:0.08, T:0.47
Consensus pattern (43 bp):
TTTTTTACCTTTATAATTGAGGCCTCTAATTTTTCAAATCTCA
Found at i:4931011 original size:41 final size:43
Alignment explanation
Indices: 4930961--4931080 Score: 154
Period size: 41 Copynumber: 2.8 Consensus size: 43
4930951 TAATTAGGGC
* * *
4930961 CTCTAATTTTTCAAATATTATTTTTTACCTTTATAATTGAGGT
1 CTCTAATTTTTCAAATCTCATTTTTTACCTTTATAATTGAAGT
** *
4931004 C-CT-ATTTTTTTAATCTCATTTTTTATCTTTATAATTGAAGT
1 CTCTAATTTTTCAAATCTCATTTTTTACCTTTATAATTGAAGT
* *
4931045 CTCTAAGTTTTCCAATCTCATTTTTTACCTTTATAA
1 CTCTAATTTTTCAAATCTCATTTTTTACCTTTATAA
4931081 ATAAGGCCCC
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
41 33 0.51
42 4 0.06
43 28 0.43
ACGTcount: A:0.26, C:0.15, G:0.05, T:0.54
Consensus pattern (43 bp):
CTCTAATTTTTCAAATCTCATTTTTTACCTTTATAATTGAAGT
Found at i:4931223 original size:44 final size:44
Alignment explanation
Indices: 4931127--4931481 Score: 293
Period size: 43 Copynumber: 8.2 Consensus size: 44
4931117 TTGCAACCCC
* * *
4931127 TAAGTTTTTTTAATCTCACTTTCTACCTTCAAAATTGAGTCCCA
1 TAAGTTTTTTTAATCTCACTTTCTACCTTTACAATTGAGGCCCA
*
4931171 TAA-TTTTTTTAAT-TCCATCTTT-TACCTCTACAATTGAGGCCCA
1 TAAGTTTTTTTAATCT-CA-CTTTCTACCTTTACAATTGAGGCCCA
* * * *
4931214 TAAGTTTTTTCAATCTCACTTTCTACCTTTATAATTGAGATCTC-
1 TAAGTTTTTTTAATCTCACTTTCTACCTTTACAATTGAG-GCCCA
* * * *
4931258 TAA-TTTTTTTAATCCCGCTTTTTACCTTTACAATTGAGGCCAA
1 TAAGTTTTTTTAATCTCACTTTCTACCTTTACAATTGAGGCCCA
* * * *
4931301 TATG-TTTTTCAATCTCACTTTCTACCTTTATAATCGAGGCTCC-
1 TAAGTTTTTTTAATCTCACTTTCTACCTTTACAATTGAGGC-CCA
* * * *
4931344 TAA--TTTTTTAATTCTCACTTTTTACCTTAATAGA-TGGGGCTCC-
1 TAAGTTTTTTTAA-TCTCACTTTCTACCTTTACA-ATTGAGGC-CCA
* * * * *
4931387 TTAGTTTGTTCAATCTCACTTTCTA-CTTTATAATTGAGGCCCT
1 TAAGTTTTTTTAATCTCACTTTCTACCTTTACAATTGAGGCCCA
* * * * *
4931430 TAAGTTTTTTCAAACTCACTTTCTACCTTTATAATTGAGACCCC
1 TAAGTTTTTTTAATCTCACTTTCTACCTTTACAATTGAGGCCCA
4931474 TAAGTTTT
1 TAAGTTTT
4931482 CCAGTTTCAT
Statistics
Matches: 253, Mismatches: 42, Indels: 32
0.77 0.13 0.10
Matches are distributed among these distances:
42 12 0.05
43 160 0.63
44 72 0.28
45 9 0.04
ACGTcount: A:0.25, C:0.22, G:0.09, T:0.45
Consensus pattern (44 bp):
TAAGTTTTTTTAATCTCACTTTCTACCTTTACAATTGAGGCCCA
Found at i:4931250 original size:87 final size:85
Alignment explanation
Indices: 4931127--4931481 Score: 346
Period size: 87 Copynumber: 4.1 Consensus size: 85
4931117 TTGCAACCCC
* * * *
4931127 TAAGTTTTTTTAATCTCACTTTCTACCTTCAAAATTGAGTCCCATAATTTTTTTAATTCCA-TCT
1 TAAGTTTTTTCAATCTCACTTTCTACCTTTATAATTGAGGCCC-TAATTTTTTTAATTCCACT-T
4931191 TTTACCTCTACAATTGAGGCCCA
64 TTTACCT-TACAATTGAGGCCCA
* * * *
4931214 TAAGTTTTTTCAATCTCACTTTCTACCTTTATAATTGAGATCTCTAATTTTTTTAATCCCGCTTT
1 TAAGTTTTTTCAATCTCACTTTCTACCTTTATAATTGAG-GCCCTAATTTTTTTAATTCCACTTT
*
4931279 TTACCTTTACAATTGAGGCCAA
65 TTACC-TTACAATTGAGGCCCA
* *
4931301 TATG-TTTTTCAATCTCACTTTCTACCTTTATAATCGAGGCTCCTAA-TTTTTTAATTCTCACTT
1 TAAGTTTTTTCAATCTCACTTTCTACCTTTATAATTGAGGC-CCTAATTTTTTTAATTC-CACTT
* *
4931364 TTTACCTTA-ATAGATGGGGCTCC-
64 TTTACCTTACA-A-TTGAGGC-CCA
* * * *
4931387 TTAGTTTGTTCAATCTCACTTTCTA-CTTTATAATTGAGGCCCTTAAGTTTTTTCAA-ACTCACT
1 TAAGTTTTTTCAATCTCACTTTCTACCTTTATAATTGAGGCCC-TAA-TTTTTTTAATTC-CACT
* * * *
4931450 TTCTACCTTTATAATTGAGACCCC
63 TTTTACC-TTACAATTGAGGCCCA
4931474 TAAGTTTT
1 TAAGTTTT
4931482 CCAGTTTCAT
Statistics
Matches: 225, Mismatches: 28, Indels: 30
0.80 0.10 0.11
Matches are distributed among these distances:
84 1 0.00
85 17 0.08
86 73 0.32
87 117 0.52
88 16 0.07
89 1 0.00
ACGTcount: A:0.25, C:0.22, G:0.09, T:0.45
Consensus pattern (85 bp):
TAAGTTTTTTCAATCTCACTTTCTACCTTTATAATTGAGGCCCTAATTTTTTTAATTCCACTTTT
TACCTTACAATTGAGGCCCA
Found at i:4932302 original size:17 final size:15
Alignment explanation
Indices: 4932278--4932317 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
4932268 GGTCCTAAAT
4932278 TTAAAAAAAATGGAAA
1 TTAAAAAAAATGG-AA
*
4932294 TTAAGAAAAGATGGAA
1 TTAA-AAAAAATGGAA
4932310 TTAAAAAA
1 TTAAAAAA
4932318 TTATAAATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 4 0.18
16 10 0.45
17 8 0.36
ACGTcount: A:0.65, C:0.00, G:0.15, T:0.20
Consensus pattern (15 bp):
TTAAAAAAAATGGAA
Found at i:4932545 original size:15 final size:15
Alignment explanation
Indices: 4932527--4932605 Score: 63
Period size: 15 Copynumber: 5.3 Consensus size: 15
4932517 ATCCTAAATC
*
4932527 AAAAGATGGTAATTA
1 AAAAGATCGTAATTA
* *
4932542 AAAAAATCATAATTAA
1 AAAAGATCGTAATT-A
*
4932558 AAAAGATCCTAAATT-
1 AAAAGATCGT-AATTA
*
4932573 AAAAGATGGTAATTA
1 AAAAGATCGTAATTA
* *
4932588 AAAA-TTCATAATTA
1 AAAAGATCGTAATTA
4932602 AAAA
1 AAAA
4932606 AATATCCAAA
Statistics
Matches: 51, Mismatches: 10, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
14 15 0.29
15 23 0.45
16 9 0.18
17 4 0.08
ACGTcount: A:0.59, C:0.05, G:0.09, T:0.27
Consensus pattern (15 bp):
AAAAGATCGTAATTA
Found at i:4932559 original size:14 final size:14
Alignment explanation
Indices: 4932536--4932606 Score: 61
Period size: 14 Copynumber: 4.8 Consensus size: 14
4932526 CAAAAGATGG
4932536 TAATTAAAAAAATCA
1 TAATT-AAAAAATCA
*
4932551 TAATTAAAAAAGATCC
1 TAATT-AAAAA-ATCA
* **
4932567 TAAATTAAAAGATGG
1 T-AATTAAAAAATCA
*
4932582 TAATTAAAAATTCA
1 TAATTAAAAAATCA
4932596 TAATTAAAAAA
1 TAATTAAAAAA
4932607 ATATCCAAAT
Statistics
Matches: 45, Mismatches: 9, Indels: 5
0.76 0.15 0.08
Matches are distributed among these distances:
14 19 0.42
15 14 0.31
16 8 0.18
17 4 0.09
ACGTcount: A:0.61, C:0.06, G:0.06, T:0.28
Consensus pattern (14 bp):
TAATTAAAAAATCA
Found at i:4932606 original size:15 final size:15
Alignment explanation
Indices: 4932536--4932608 Score: 69
Period size: 15 Copynumber: 4.9 Consensus size: 15
4932526 CAAAAGATGG
4932536 TAATTAAAAAAATCA
1 TAATTAAAAAAATCA
*
4932551 TAATTAAAAAAGATCC
1 TAATTAAAAAA-ATCA
* **
4932567 TAAATT-AAAAGATGG
1 T-AATTAAAAAAATCA
*
4932582 TAATT-AAAAATTCA
1 TAATTAAAAAAATCA
4932596 TAATTAAAAAAAT
1 TAATTAAAAAAAT
4932609 ATCCAAATCA
Statistics
Matches: 46, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
14 14 0.30
15 20 0.43
16 8 0.17
17 4 0.09
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.29
Consensus pattern (15 bp):
TAATTAAAAAAATCA
Found at i:4932607 original size:46 final size:46
Alignment explanation
Indices: 4932512--4932618 Score: 164
Period size: 46 Copynumber: 2.3 Consensus size: 46
4932502 TAAAAAATCT
4932512 AAAATATCCTAAATCAAAAGATGGTAATTAAAAAAATCATAATTAA
1 AAAATATCCTAAATCAAAAGATGGTAATTAAAAAAATCATAATTAA
* * *
4932558 AAAAGATCCTAAATTAAAAGATGGTAATT-AAAAATTCATAATTAAA
1 AAAATATCCTAAATCAAAAGATGGTAATTAAAAAAATCATAATT-AA
4932604 AAAATATCC-AAATCA
1 AAAATATCCTAAATCA
4932619 TTAGAAGATT
Statistics
Matches: 55, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
45 18 0.33
46 37 0.67
ACGTcount: A:0.58, C:0.09, G:0.07, T:0.26
Consensus pattern (46 bp):
AAAATATCCTAAATCAAAAGATGGTAATTAAAAAAATCATAATTAA
Found at i:4933102 original size:18 final size:17
Alignment explanation
Indices: 4933081--4933114 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
4933071 GTTAATTAAT
4933081 TTTATTAATTGTTATTTA
1 TTTATTAATT-TTATTTA
*
4933099 TTTATTTATTTTATTT
1 TTTATTAATTTTATTT
4933115 TTAAATTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (17 bp):
TTTATTAATTTTATTTA
Found at i:4942753 original size:24 final size:24
Alignment explanation
Indices: 4942726--4942801 Score: 66
Period size: 24 Copynumber: 3.2 Consensus size: 24
4942716 ATTTGAATTT
4942726 TGTTCTGACATCTAATCTGAAATA
1 TGTTCTGACATCTAATCTGAAATA
* * *
4942750 TGTTCTTAC-TCCTAA-CATGGAATC
1 TGTTCTGACAT-CTAATC-TGAAATA
* * *
4942774 TGTTCTGACATATGATCTGAATTA
1 TGTTCTGACATCTAATCTGAAATA
4942798 TGTT
1 TGTT
4942802 TTGTTTTTTG
Statistics
Matches: 39, Mismatches: 9, Indels: 8
0.70 0.16 0.14
Matches are distributed among these distances:
23 2 0.05
24 35 0.90
25 2 0.05
ACGTcount: A:0.28, C:0.17, G:0.14, T:0.41
Consensus pattern (24 bp):
TGTTCTGACATCTAATCTGAAATA
Found at i:4944776 original size:20 final size:20
Alignment explanation
Indices: 4944751--4944841 Score: 80
Period size: 20 Copynumber: 4.5 Consensus size: 20
4944741 TCGTTGGGTC
*
4944751 TCCATACCAAAAAATTGGTA
1 TCCATACCAAAAGATTGGTA
* * * *
4944771 TCCATA-CATGAGGACTGGTC
1 TCCATACCA-AAAGATTGGTA
4944791 TCCATA-CAGAAAGATTGGTA
1 TCCATACCA-AAAGATTGGTA
*
4944811 TCCATGCC-AAAGATTGAGTA
1 TCCATACCAAAAGATTG-GTA
4944831 TCCATACCAAA
1 TCCATACCAAA
4944842 GGCCTAATAA
Statistics
Matches: 55, Mismatches: 12, Indels: 7
0.74 0.16 0.09
Matches are distributed among these distances:
19 10 0.18
20 42 0.76
21 3 0.05
ACGTcount: A:0.37, C:0.22, G:0.16, T:0.24
Consensus pattern (20 bp):
TCCATACCAAAAGATTGGTA
Found at i:4950691 original size:14 final size:15
Alignment explanation
Indices: 4950667--4950695 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
4950657 TCACTTCATC
4950667 AAAAATAAATTTAAA
1 AAAAATAAATTTAAA
4950682 AAAAAT-AATTTAAA
1 AAAAATAAATTTAAA
4950696 TATGAGACTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (15 bp):
AAAAATAAATTTAAA
Found at i:4950968 original size:41 final size:41
Alignment explanation
Indices: 4950919--4951130 Score: 253
Period size: 41 Copynumber: 5.2 Consensus size: 41
4950909 AAAGGAGGAG
* *
4950919 CCACTAATATTTCGAAGCGAAATTCATCTCGAATGGTGAAT
1 CCACTAATATTCCGAAGTGAAATTCATCTCGAATGGTGAAT
* ** * **
4950960 CCATTAATATTTTGAAGTAAAATTCATCTTAAATGGTGAAT
1 CCACTAATATTCCGAAGTGAAATTCATCTCGAATGGTGAAT
* * *
4951001 CCACTAATATTCCGAAGTGGAATTCATCCCGAAAGGTGAAT
1 CCACTAATATTCCGAAGTGAAATTCATCTCGAATGGTGAAT
* * * *
4951042 CTACTAATATTCCGAAGTGGAATTCATCCCGAAAGGTGAAT
1 CCACTAATATTCCGAAGTGAAATTCATCTCGAATGGTGAAT
* * * *
4951083 CTACTAATAATCCAAAGTGAAATTCATCTCAAATGGTGAAT
1 CCACTAATATTCCGAAGTGAAATTCATCTCGAATGGTGAAT
4951124 CCACTAA
1 CCACTAA
4951131 ACTTTCCCGA
Statistics
Matches: 148, Mismatches: 23, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 148 1.00
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.29
Consensus pattern (41 bp):
CCACTAATATTCCGAAGTGAAATTCATCTCGAATGGTGAAT
Found at i:4951897 original size:17 final size:17
Alignment explanation
Indices: 4951872--4951907 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
4951862 TTAGAATCAA
*
4951872 AATAAATAATATAATAT
1 AATAAATAATATAAAAT
*
4951889 AATAGATAATATAAAAT
1 AATAAATAATATAAAAT
4951906 AA
1 AA
4951908 ACATTAATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (17 bp):
AATAAATAATATAAAAT
Found at i:4955537 original size:20 final size:19
Alignment explanation
Indices: 4955512--4955564 Score: 70
Period size: 20 Copynumber: 2.7 Consensus size: 19
4955502 TGATGCAATC
*
4955512 AGTATCGATACCAAAGGGGG
1 AGTATCGATACCAAA-GGGA
*
4955532 AGTATCGATACCGAAGGGA
1 AGTATCGATACCAAAGGGA
4955551 AGGTATCGATACCA
1 A-GTATCGATACCA
4955565 TCCGAAACAG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 4 0.14
20 25 0.86
ACGTcount: A:0.36, C:0.17, G:0.30, T:0.17
Consensus pattern (19 bp):
AGTATCGATACCAAAGGGA
Found at i:4956073 original size:56 final size:54
Alignment explanation
Indices: 4955973--4956078 Score: 176
Period size: 56 Copynumber: 1.9 Consensus size: 54
4955963 TGATTACATA
4955973 ATGGCACTGAGTATGCAAAAAGTTGAAATTCATAATTTGTTTATGAATTTTCGT
1 ATGGCACTGAGTATGCAAAAAGTTGAAATTCATAATTTGTTTATGAATTTTCGT
* *
4956027 ATGGCACTGAGTGTTCAAAAAGTTAAGAAATTCATAATTTGTTTATGAATTT
1 ATGGCACTGAGTATGCAAAAAGTT--GAAATTCATAATTTGTTTATGAATTT
4956079 CTGTATAAGA
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
54 22 0.46
56 26 0.54
ACGTcount: A:0.35, C:0.08, G:0.18, T:0.39
Consensus pattern (54 bp):
ATGGCACTGAGTATGCAAAAAGTTGAAATTCATAATTTGTTTATGAATTTTCGT
Found at i:4956253 original size:16 final size:16
Alignment explanation
Indices: 4956232--4956268 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
4956222 TTGAAAGAGT
4956232 TAATTGATATTACGAA
1 TAATTGATATTACGAA
*
4956248 TAATTGATATTATGAA
1 TAATTGATATTACGAA
4956264 TAATT
1 TAATT
4956269 ATTATAGTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.43, C:0.03, G:0.11, T:0.43
Consensus pattern (16 bp):
TAATTGATATTACGAA
Found at i:4956389 original size:67 final size:67
Alignment explanation
Indices: 4956304--4956693 Score: 566
Period size: 67 Copynumber: 5.8 Consensus size: 67
4956294 AAAAGATTAA
* * *
4956304 AGGCCTAACTATGCATTGACAGAAAGGTGCCAATCATGCCAGTTAGATGAAAGGCTAAATGCCTT
1 AGGCCTAACTGTGCATTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGCCTT
4956369 TG
66 TG
*** *
4956371 AGTTTTAACTGTGCATTGACAGAAATGTGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGCCTT
1 AGGCCTAACTGTGCATTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGCCTT
4956436 TG
66 TG
*
4956438 AGGCCTAACTGTGCATTGACAAAAAGGTGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGCCTT
1 AGGCCTAACTGTGCATTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGCCTT
4956503 TG
66 TG
* *
4956505 AGGCCTAACTGTGCATTGACAGAAATGTGTCAATCATGCCAGTTAGATGAAAGACTAAGTGCCTT
1 AGGCCTAACTGTGCATTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGCCTT
4956570 TG
66 TG
* * * * * *
4956572 AGGCCTAATTATTCATTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTACCTT
1 AGGCCTAACTGTGCATTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGCCTT
4956637 TG
66 TG
* * * * *
4956639 AGGCCTAACTGTACATTTAATAGAAAGGTGTCAATTATGTCC-GTTAAATGAAAGG
1 AGGCCTAACTGTGCA-TTGACAGAAAGGTGTCAATCATG-CCAGTTAGATGAAAGG
4956694 TTAAATACCT
Statistics
Matches: 293, Mismatches: 28, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
67 259 0.88
68 32 0.11
69 2 0.01
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.28
Consensus pattern (67 bp):
AGGCCTAACTGTGCATTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGCCTT
TG
Found at i:4956882 original size:45 final size:45
Alignment explanation
Indices: 4956814--4956913 Score: 173
Period size: 45 Copynumber: 2.2 Consensus size: 45
4956804 TCCATAACAT
4956814 TGTATAAAAAGGCATGAAAGGATGCCATAAAGGAAATGTATAATAG
1 TGTAT-AAAAGGCATGAAAGGATGCCATAAAGGAAATGTATAATAG
* *
4956860 TGTATAAAAGGCATGAATGGATGCCATAAATGAAATGTATAATAG
1 TGTATAAAAGGCATGAAAGGATGCCATAAAGGAAATGTATAATAG
4956905 TGTATAAAA
1 TGTATAAAA
4956914 AGTGTTGAAA
Statistics
Matches: 52, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
45 47 0.90
46 5 0.10
ACGTcount: A:0.47, C:0.06, G:0.22, T:0.25
Consensus pattern (45 bp):
TGTATAAAAGGCATGAAAGGATGCCATAAAGGAAATGTATAATAG
Found at i:4957310 original size:76 final size:77
Alignment explanation
Indices: 4957160--4957353 Score: 275
Period size: 76 Copynumber: 2.5 Consensus size: 77
4957150 GATTGCTTAG
** *
4957160 AGGGAACCGATTCCCCCCCATAGGAGGAACCGATTCCCCCCTAAATGGTTTTGGCCCCGAGATTT
1 AGGGAACCGATT-CCCCCCATAGGAGGAACCGATTCCCCCCTAAACAGTTTTGGCCCCGAGAATT
4957225 CCAGAATGCTCGA
65 CCAGAATGCTCGA
* *
4957238 AGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCCTAAACAGTTTT-TCTCCGAGAATTC
1 AGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCCTAAACAGTTTTGGCCCCGAGAATTC
* *
4957302 CAGTATGCTCGG
66 CAGAATGCTCGA
* * *
4957314 AGGGAACCGATCCCCCCCA-AGGGGGTACCGATTCCCCCCT
1 AGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCCT
4957354 TGTACAACGG
Statistics
Matches: 106, Mismatches: 10, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
75 19 0.18
76 38 0.36
77 37 0.35
78 12 0.11
ACGTcount: A:0.24, C:0.34, G:0.23, T:0.20
Consensus pattern (77 bp):
AGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCCTAAACAGTTTTGGCCCCGAGAATTC
CAGAATGCTCGA
Found at i:4963177 original size:21 final size:21
Alignment explanation
Indices: 4963151--4963190 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
4963141 CCTCCTTTGA
*
4963151 AGGGGAACCGATTCCCCCTAC
1 AGGGGAACCGATACCCCCTAC
*
4963172 AGGGGAATCGATACCCCCT
1 AGGGGAACCGATACCCCCT
4963191 GGGGTTCTGT
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:0.25, C:0.35, G:0.25, T:0.15
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCTAC
Found at i:4965136 original size:17 final size:17
Alignment explanation
Indices: 4965114--4965161 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
4965104 TTTCAACATT
4965114 TTTGATATTTTGGATTG
1 TTTGATATTTTGGATTG
4965131 TTTGAT-TTTGTGGATTG
1 TTTGATATTT-TGGATTG
*
4965148 -TTG-GATTTTGGATT
1 TTTGATATTTTGGATT
4965162 TATGAATAGT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
15 6 0.21
16 9 0.32
17 13 0.46
ACGTcount: A:0.15, C:0.00, G:0.27, T:0.58
Consensus pattern (17 bp):
TTTGATATTTTGGATTG
Found at i:4965431 original size:30 final size:30
Alignment explanation
Indices: 4965397--4965468 Score: 126
Period size: 30 Copynumber: 2.3 Consensus size: 30
4965387 GGAGAAGAAT
4965397 AGGTGTTAAATGTTTTACATAATAAATTGA
1 AGGTGTTAAATGTTTTACATAATAAATTGA
4965427 AGGTGTTAAATGTTTTACATAATAAATTGA
1 AGGTGTTAAATGTTTTACATAATAAATTGA
4965457 AGAAGTGTTAAA
1 AG--GTGTTAAA
4965469 GTAAGGGGGA
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
30 32 0.80
32 8 0.20
ACGTcount: A:0.42, C:0.03, G:0.18, T:0.38
Consensus pattern (30 bp):
AGGTGTTAAATGTTTTACATAATAAATTGA
Found at i:4965956 original size:76 final size:77
Alignment explanation
Indices: 4965793--4965984 Score: 275
Period size: 78 Copynumber: 2.5 Consensus size: 77
4965783 AGATTACTCA
** *
4965793 GAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCCCTAAATGGTTTTGGCCCTGAGATT
1 GAGGGAACCGATTCCCCCCATAGGAGGAACCGATT-CCCCCCTAAACAGTTTTGGCCCTGAGAAT
4965858 TCCAGAATGCTCG
65 TCCAGAATGCTCG
4965871 GAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCCTAAACAGTTTT-GCTCC-GAGAAT
1 GAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCCTAAACAGTTTTGGC-CCTGAGAAT
*
4965934 TCCAGTATGCTCG
65 TCCAGAATGCTCG
* * *
4965947 GAGGGAACCGA-TCCCCCC-CAGGGGGTACCGATTCCCCC
1 GAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCC
4965985 TTGTACAACG
Statistics
Matches: 106, Mismatches: 7, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
74 17 0.16
75 7 0.07
76 30 0.28
77 17 0.16
78 35 0.33
ACGTcount: A:0.23, C:0.33, G:0.24, T:0.19
Consensus pattern (77 bp):
GAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCCTAAACAGTTTTGGCCCTGAGAATT
CCAGAATGCTCG
Found at i:4966787 original size:45 final size:45
Alignment explanation
Indices: 4966738--4966957 Score: 311
Period size: 45 Copynumber: 4.9 Consensus size: 45
4966728 TATAAAAGGA
*
4966738 ATGAAAGGATGTCATAATT-AACATGCATATGGGTGCATTA-CTAGC
1 ATGAAAGGATGCCATAATTGAA-ATGCATATGGGTGCATTATC-AGC
* * *
4966783 ATGAAAAGATGCCATAATTAAAATGCATATGGGTGCATTATCGGC
1 ATGAAAGGATGCCATAATTGAAATGCATATGGGTGCATTATCAGC
* ** *
4966828 ATGAAAGGATGCCATAATTGAAATGCGTATGGCCGCATTATCGGC
1 ATGAAAGGATGCCATAATTGAAATGCATATGGGTGCATTATCAGC
*
4966873 ATGAAAGGATGCCATAATTGAAATGCATATGGGTACATTATCAGC
1 ATGAAAGGATGCCATAATTGAAATGCATATGGGTGCATTATCAGC
*
4966918 ATGAAAGGATGCCATAATTGAAATGTATAT-GGTGCATTAT
1 ATGAAAGGATGCCATAATTGAAATGCATATGGGTGCATTAT
4966958 AAGTTTGAAG
Statistics
Matches: 158, Mismatches: 15, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
44 9 0.06
45 146 0.92
46 3 0.02
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.28
Consensus pattern (45 bp):
ATGAAAGGATGCCATAATTGAAATGCATATGGGTGCATTATCAGC
Found at i:4968176 original size:198 final size:200
Alignment explanation
Indices: 4967843--4968284 Score: 532
Period size: 198 Copynumber: 2.2 Consensus size: 200
4967833 AACTCGAAGC
* * * * *
4967843 TAAGTTGCAATACTACGCCTCTAAGCTTAAAAATTATAAAATAAATCTGATTAACTTCTCAAAAA
1 TAAGTTGCAATAATACGCCTATAAACTTAAAAATTACAAAATAAA-CTGAATAACTTCTCAAAAA
* * **
4967908 CACCCCTTGAACATGTCTATCAAGCCATTTTAGCTTGTTCTTCATGCACAAAATCAAGCTTTGGA
65 CACCCCTTGAACATGCCTATCAAGCCATTTTAGCTTGTTCTTCATGCACAAAACCAAGCTTTCAA
*
4967973 ACCATTTTCAACGCAAGTTTTACCCCACTTACAATGCTTCATATATGTCGATTTCAGTCTCAACA
130 ACCATTTTCAACACAAGTTTTACCCCACTTACAATGCTTCATATATGTCGATTTCAGTCTCAACA
4968038 AAAAGA
195 AAAAGA
* * *
4968044 TAAGTTGCAATAATACGCTTATAAACTTAAAAATTACAAAA-AAA-TGAATAACTTCTCAGAAAT
1 TAAGTTGCAATAATACGCCTATAAACTTAAAAATTACAAAATAAACTGAATAACTTCTCAAAAAC
* * *
4968107 ACCCCTTGAACATGCCTATCAAGCCGTTTTAGCTTGTTCTTTATGCACAAAACCTAGCTTTCAAA
66 ACCCCTTGAACATGCCTATCAAGCCATTTTAGCTTGTTCTTCATGCACAAAACCAAGCTTTCAAA
* * * * * * * *
4968172 CCATTTTCAATACAATTTTTACCTCGCTTACAATG-TCTCGTATGTGCCGATATT-AGCCTCAAC
131 CCATTTTCAACACAAGTTTTACCCCACTTACAATGCT-TCATATATGTCGAT-TTCAGTCTCAAC
** *
4968235 TGAAATA
194 AAAAAGA
* * * * *
4968242 TAAGTTCCAATATTACGCCTCTAATCTTATAAATTACGAAAAT
1 TAAGTTGCAATAATACGCCTATAAACTTAAAAATTAC-AAAAT
4968285 TTTCCAATTT
Statistics
Matches: 204, Mismatches: 33, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
197 1 0.00
198 158 0.77
199 6 0.03
200 3 0.01
201 36 0.18
ACGTcount: A:0.36, C:0.22, G:0.10, T:0.32
Consensus pattern (200 bp):
TAAGTTGCAATAATACGCCTATAAACTTAAAAATTACAAAATAAACTGAATAACTTCTCAAAAAC
ACCCCTTGAACATGCCTATCAAGCCATTTTAGCTTGTTCTTCATGCACAAAACCAAGCTTTCAAA
CCATTTTCAACACAAGTTTTACCCCACTTACAATGCTTCATATATGTCGATTTCAGTCTCAACAA
AAAGA
Found at i:4968951 original size:20 final size:19
Alignment explanation
Indices: 4968926--4968978 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
4968916 TGATGCAATC
*
4968926 AGTATCGATACCAAAGGGGG
1 AGTATCGATACCAAA-GGGA
* *
4968946 AGTATCGACACCGAAGGGA
1 AGTATCGATACCAAAGGGA
4968965 AGGTATCGATACCA
1 A-GTATCGATACCA
4968979 TCCGAAACAG
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
19 4 0.15
20 23 0.85
ACGTcount: A:0.36, C:0.19, G:0.30, T:0.15
Consensus pattern (19 bp):
AGTATCGATACCAAAGGGA
Found at i:4969666 original size:16 final size:16
Alignment explanation
Indices: 4969645--4969681 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
4969635 TTGAAAGAGT
4969645 TAATTGATATTACGAA
1 TAATTGATATTACGAA
*
4969661 TAATTGATATTATGAA
1 TAATTGATATTACGAA
4969677 TAATT
1 TAATT
4969682 ATTATAGTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.43, C:0.03, G:0.11, T:0.43
Consensus pattern (16 bp):
TAATTGATATTACGAA
Found at i:4969802 original size:67 final size:67
Alignment explanation
Indices: 4969717--4970121 Score: 551
Period size: 67 Copynumber: 6.0 Consensus size: 67
4969707 AAAAGATTAA
*
4969717 AGGCCTAACTATGCATTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGGCTAAATGCCTT
1 AGGCCTAACTGTGCATTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGGCTAAATGCCTT
4969782 TG
66 TG
*** * *
4969784 AGTTTTAACTGTGCATTGACAGAAATGTGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGCCTT
1 AGGCCTAACTGTGCATTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGGCTAAATGCCTT
4969849 TG
66 TG
* * * *
4969851 AGGCCTAACTGTGCATTGATAAAAAGGTGTCAATCATGCCAGTTAGATTAAAGGCTAAGTGCCTT
1 AGGCCTAACTGTGCATTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGGCTAAATGCCTT
4969916 TG
66 TG
* * * *
4969918 AGGTCTAACTGTGCATTGACAGGAAGGTGTCAATCATGCCAGTTAGATGAAAGACTAAACGCCTT
1 AGGCCTAACTGTGCATTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGGCTAAATGCCTT
4969983 TG
66 TG
* * * * * *
4969985 AGGCCTAATTATTCATTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
1 AGGCCTAACTGTGCATTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGGCTAAATGCCTT
4970050 TG
66 TG
* * * * * *
4970052 AGGCCTAACTGTACATTTAATAGAAAGGTGTCAATTATGTCC-GTTAGATGAAAGGTTAAATACC
1 AGGCCTAACTGTGCA-TTGACAGAAAGGTGTCAATCATG-CCAGTTAGATGAAAGGCTAAATGCC
4970116 TTTG
64 TTTG
4970120 AG
1 AG
4970122 TAAAAGATTA
Statistics
Matches: 296, Mismatches: 40, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
67 249 0.84
68 45 0.15
69 2 0.01
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (67 bp):
AGGCCTAACTGTGCATTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGGCTAAATGCCTT
TG
Found at i:4970345 original size:46 final size:45
Alignment explanation
Indices: 4970227--4970392 Score: 242
Period size: 45 Copynumber: 3.6 Consensus size: 45
4970217 TCCATAACGT
* *
4970227 TGTATAAAAAGGCATGAAAGGATGCCATAAAGGAAATGTATAATAA
1 TGTAT-AAAAGGCATGAAAGGATGCCATAAAAGAAATGTATAATAG
* *
4970273 TGTATAAAAGGCATGAATGGATGCCATAAATGAAATGTATAATAG
1 TGTATAAAAGGCATGAAAGGATGCCATAAAAGAAATGTATAATAG
* *
4970318 TGTATAAAAAGGCATGAAATGATGCCATAAAAGAAATGTATACTAG
1 TGTAT-AAAAGGCATGAAAGGATGCCATAAAAGAAATGTATAATAG
* *
4970364 AGTATAAAAGGCATGAAAGGATGTCATAA
1 TGTATAAAAGGCATGAAAGGATGCCATAA
4970393 TTAACATGCA
Statistics
Matches: 109, Mismatches: 10, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
45 64 0.59
46 45 0.41
ACGTcount: A:0.48, C:0.07, G:0.22, T:0.23
Consensus pattern (45 bp):
TGTATAAAAGGCATGAAAGGATGCCATAAAAGAAATGTATAATAG
Found at i:4970386 original size:91 final size:91
Alignment explanation
Indices: 4970227--4970392 Score: 271
Period size: 91 Copynumber: 1.8 Consensus size: 91
4970217 TCCATAACGT
* *
4970227 TGTATAAAAAGGCATGAAAGGATGCCATAAAGGAAATGTATAATAATGTATAAAAGGCATGAATG
1 TGTATAAAAAGGCATGAAAGGATGCCATAAAAGAAATGTATAATAATGTATAAAAGGCATGAAAG
4970292 GATGCCATAAATGAAATGTATAATAG
66 GATGCCATAAATGAAATGTATAATAG
* *
4970318 TGTATAAAAAGGCATGAAATGATGCCATAAAAGAAATGTATACTAGA-GTATAAAAGGCATGAAA
1 TGTATAAAAAGGCATGAAAGGATGCCATAAAAGAAATGTATAATA-ATGTATAAAAGGCATGAAA
*
4970382 GGATGTCATAA
65 GGATGCCATAA
4970393 TTAACATGCA
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
91 68 0.99
92 1 0.01
ACGTcount: A:0.48, C:0.07, G:0.22, T:0.23
Consensus pattern (91 bp):
TGTATAAAAAGGCATGAAAGGATGCCATAAAAGAAATGTATAATAATGTATAAAAGGCATGAAAG
GATGCCATAAATGAAATGTATAATAG
Found at i:4970423 original size:45 final size:45
Alignment explanation
Indices: 4970374--4970595 Score: 306
Period size: 45 Copynumber: 5.0 Consensus size: 45
4970364 AGTATAAAAG
*
4970374 GCATGAAAGGATGTCATAATT-AACATGCATATGGGTGCATTA-CTA
1 GCATGAAAGGATGCCATAATTGAA-ATGCATATGGGTGCATTATC-A
* * *
4970419 GCATGAAAAGATGCCATAATTAAAATGCATATGGGTGCATTATCG
1 GCATGAAAGGATGCCATAATTGAAATGCATATGGGTGCATTATCA
* * ** *
4970464 GCATGAAATGATGCCATAATTGAAATGCGTATGGCCGCATTATCG
1 GCATGAAAGGATGCCATAATTGAAATGCATATGGGTGCATTATCA
*
4970509 GCATGAAAGGATGCCATAATTGAAATGCATATGGGTACATTATCA
1 GCATGAAAGGATGCCATAATTGAAATGCATATGGGTGCATTATCA
*
4970554 GCATGAAAGGATGCCATAATTGAAATGTATAT-GGTGCATTAT
1 GCATGAAAGGATGCCATAATTGAAATGCATATGGGTGCATTAT
4970596 AAGTTTGAAG
Statistics
Matches: 159, Mismatches: 16, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
44 9 0.06
45 147 0.92
46 3 0.02
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (45 bp):
GCATGAAAGGATGCCATAATTGAAATGCATATGGGTGCATTATCA
Done.