Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 746 of 770
Found at i:236394856 original size:24 final size:24
Alignment explanation
Indices: 236394824--236394910 Score: 165
Period size: 24 Copynumber: 3.6 Consensus size: 24
236394814 AATCTCAAAT
236394824 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
*
236394848 GCACTATGTGTGCGATTTACTATA
1 GCACTATGTGTGCGATTTACTATG
236394872 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
236394896 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
236394911 ACATAATAAG
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 61 1.00
ACGTcount: A:0.22, C:0.17, G:0.25, T:0.36
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:236394876 original size:48 final size:48
Alignment explanation
Indices: 236394824--236394932 Score: 175
Period size: 48 Copynumber: 2.3 Consensus size: 48
236394814 AATCTCAAAT
** *
236394824 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCG-ATTTACTATA
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATA-A
236394872 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATAA
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATAA
236394920 GCACTATGTGTGC
1 GCACTATGTGTGC
236394933 AACGTTTGGT
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
48 52 0.91
49 5 0.09
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (48 bp):
GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATAA
Found at i:236394923 original size:24 final size:24
Alignment explanation
Indices: 236394824--236394932 Score: 157
Period size: 24 Copynumber: 4.5 Consensus size: 24
236394814 AATCTCAAAT
*
236394824 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATA
236394848 GCACTATGTGTGCGATTTACTATA
1 GCACTATGTGTGCGATTTACTATA
*
236394872 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATA
** *
236394896 GCACTATGTGTGCGAACATAATA-A
1 GCACTATGTGTGCG-ATTTACTATA
236394920 GCACTATGTGTGC
1 GCACTATGTGTGC
236394933 AACGTTTGGT
Statistics
Matches: 78, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
24 73 0.94
25 5 0.06
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATA
Found at i:236397571 original size:68 final size:70
Alignment explanation
Indices: 236397499--236397696 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
236397489 ACACCCTGTA
* * * *
236397499 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
236397561 ATAAAT
65 ATAAAT
*
236397567 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
236397632 ATAAAT
65 ATAAAT
*
236397638 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
236397697 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:236397610 original size:41 final size:41
Alignment explanation
Indices: 236397565--236397682 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
236397555 TGAAAGATAA
236397565 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
236397606 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
236397636 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
236397677 ATGTAG
1 ATGTAG
236397683 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:236397622 original size:71 final size:71
Alignment explanation
Indices: 236397533--236397696 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
236397523 GAGATGTATC
236397533 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
236397598 AGGACA
66 AGGACA
236397604 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
236397669 AGGACA
66 AGGACA
236397675 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
236397697 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:236405141 original size:68 final size:70
Alignment explanation
Indices: 236405069--236405266 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
236405059 ACACCCTGTA
* * * *
236405069 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
236405131 ATAAAT
65 ATAAAT
*
236405137 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
236405202 ATAAAT
65 ATAAAT
*
236405208 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
236405267 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:236405180 original size:41 final size:41
Alignment explanation
Indices: 236405135--236405252 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
236405125 TGAAAGATAA
236405135 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
236405176 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
236405206 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
236405247 ATGTAG
1 ATGTAG
236405253 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:236405192 original size:71 final size:71
Alignment explanation
Indices: 236405103--236405266 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
236405093 GAGATGTATC
236405103 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
236405168 AGGACA
66 AGGACA
236405174 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
236405239 AGGACA
66 AGGACA
236405245 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
236405267 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:236407782 original size:29 final size:27
Alignment explanation
Indices: 236407741--236407814 Score: 87
Period size: 29 Copynumber: 2.6 Consensus size: 27
236407731 ATACTAGGGA
236407741 CCTTTTTATTTTATTTT-TTTCATTAGAT
1 CCTTTTTATTTTATTTTATTT-ATT-GAT
**
236407769 CCTTTTTCATTTTATTTCTATTTATTTTT
1 CCTTTTT-ATTTTATTT-TATTTATTGAT
236407798 CCTTTTTATTTTATTTT
1 CCTTTTTATTTTATTTT
236407815 GTTTTCTTTG
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
27 1 0.02
28 16 0.39
29 17 0.41
30 4 0.10
31 3 0.07
ACGTcount: A:0.15, C:0.12, G:0.01, T:0.72
Consensus pattern (27 bp):
CCTTTTTATTTTATTTTATTTATTGAT
Found at i:236407796 original size:22 final size:22
Alignment explanation
Indices: 236407771--236407813 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
236407761 CATTAGATCC
236407771 TTTTT-CATTTTATTTCTATTTA
1 TTTTTCCATTTTATTT-TATTTA
*
236407793 TTTTTCCTTTTTATTTTATTT
1 TTTTTCCATTTTATTTTATTT
236407814 TGTTTTCTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.14, C:0.09, G:0.00, T:0.77
Consensus pattern (22 bp):
TTTTTCCATTTTATTTTATTTA
Found at i:236410170 original size:22 final size:21
Alignment explanation
Indices: 236410135--236410192 Score: 53
Period size: 22 Copynumber: 2.7 Consensus size: 21
236410125 AAAAGGTATC
* *
236410135 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
236410156 TACAAAATCATATCTTTTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
236410179 TGCATATCATATCT
1 TACAAATCATATCT
236410193 AAGATTGTAT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
21 4 0.13
22 17 0.57
23 9 0.30
ACGTcount: A:0.41, C:0.16, G:0.05, T:0.38
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:236410197 original size:19 final size:19
Alignment explanation
Indices: 236410173--236410278 Score: 159
Period size: 19 Copynumber: 5.8 Consensus size: 19
236410163 TCATATCTTT
236410173 TAAGATTGCATATCATATC
1 TAAGATTGCATATCATATC
236410192 TAAGATTG--TATCATATC
1 TAAGATTGCATATCATATC
236410209 TAAGATTGCATATCATATC
1 TAAGATTGCATATCATATC
*
236410228 TAAGATTGCA-ATCATTTC
1 TAAGATTGCATATCATATC
236410246 TAAGATTG--TATCATATC
1 TAAGATTGCATATCATATC
*
236410263 TAAGATTTCATATCAT
1 TAAGATTGCATATCAT
236410279 TGAAGATTAT
Statistics
Matches: 79, Mismatches: 3, Indels: 10
0.86 0.03 0.11
Matches are distributed among these distances:
17 31 0.39
18 15 0.19
19 33 0.42
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.40
Consensus pattern (19 bp):
TAAGATTGCATATCATATC
Found at i:236410222 original size:14 final size:15
Alignment explanation
Indices: 236410185--236410276 Score: 69
Period size: 17 Copynumber: 5.5 Consensus size: 15
236410175 AGATTGCATA
236410185 TCATATCTAAGATTG
1 TCATATCTAAGATTG
236410200 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
236410217 CATATCATATCTAAGATTG
1 ----TCATATCTAAGATTG
*
236410236 CAATCATTTCTAAGATTG
1 ---TCATATCTAAGATTG
236410254 TATCATATCTAAGATT-
1 --TCATATCTAAGATTG
236410270 TCATATC
1 TCATATC
236410277 ATTGAAGATT
Statistics
Matches: 68, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
14 7 0.10
17 29 0.43
18 15 0.22
19 17 0.25
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.40
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:236410248 original size:54 final size:55
Alignment explanation
Indices: 236410173--236410278 Score: 187
Period size: 54 Copynumber: 1.9 Consensus size: 55
236410163 TCATATCTTT
236410173 TAAGATTGCATATCATATCTAAGATTGTATCATATCTAAGATTGCATATCATATC
1 TAAGATTGCATATCATATCTAAGATTGTATCATATCTAAGATTGCATATCATATC
* *
236410228 TAAGATTGCA-ATCATTTCTAAGATTGTATCATATCTAAGATTTCATATCAT
1 TAAGATTGCATATCATATCTAAGATTGTATCATATCTAAGATTGCATATCAT
236410279 TGAAGATTAT
Statistics
Matches: 49, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
54 39 0.80
55 10 0.20
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.40
Consensus pattern (55 bp):
TAAGATTGCATATCATATCTAAGATTGTATCATATCTAAGATTGCATATCATATC
Found at i:236411957 original size:24 final size:24
Alignment explanation
Indices: 236411930--236412022 Score: 141
Period size: 24 Copynumber: 3.9 Consensus size: 24
236411920 AAGGCTGTCA
236411930 GGAGAAGATTTAGGAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
*
236411954 GGAGAGGATTTAGGAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
* *
236411978 GGAGAGGATTTAGGAGCTGATAAA
1 GGAGAAGATTTAGGAGCTGATAAG
* *
236412002 GGAGAAGATTTAAGAACTGAT
1 GGAGAAGATTTAGGAGCTGAT
236412023 CAAAGAGCAG
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 64 1.00
ACGTcount: A:0.38, C:0.04, G:0.37, T:0.22
Consensus pattern (24 bp):
GGAGAAGATTTAGGAGCTGATAAG
Found at i:236413369 original size:19 final size:22
Alignment explanation
Indices: 236413327--236413366 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
236413317 CATGTTTGAC
*
236413327 TGTTGTTATTTACTGCATGCCA
1 TGTTGTTATATACTGCATGCCA
236413349 TGTTGTTATAT-CTG-ATGC
1 TGTTGTTATATACTGCATGC
236413367 ATGGGACTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 3 0.18
22 10 0.59
ACGTcount: A:0.17, C:0.15, G:0.20, T:0.47
Consensus pattern (22 bp):
TGTTGTTATATACTGCATGCCA
Found at i:236413668 original size:34 final size:34
Alignment explanation
Indices: 236413629--236413715 Score: 92
Period size: 32 Copynumber: 2.6 Consensus size: 34
236413619 GCGTACTGTT
*
236413629 ATCTGAATAAGGGGCTAAGGCCCAGT-TTAATGTA
1 ATCTGAATAA-GGGCTAAGGCCCAGTATCAATGTA
** *
236413663 ATCTGAA-AAGGGCTCTGGCCCAGTATCAATGTT
1 ATCTGAATAAGGGCTAAGGCCCAGTATCAATGTA
*
236413696 ATCTGAAT--GGGCTTAGGCCC
1 ATCTGAATAAGGGCTAAGGCCC
236413716 GATGGGCTTG
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
32 23 0.51
33 15 0.33
34 7 0.16
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (34 bp):
ATCTGAATAAGGGCTAAGGCCCAGTATCAATGTA
Found at i:236413683 original size:32 final size:35
Alignment explanation
Indices: 236413629--236413703 Score: 93
Period size: 33 Copynumber: 2.2 Consensus size: 35
236413619 GCGTACTGTT
*
236413629 ATCTGAATAAGGGGCTAAGGCCCAGT-TTAATGTA
1 ATCTGAATAAGGGGCTAAGGCCCAGTATCAATGTA
** *
236413663 ATCTGAA-AA-GGGCTCTGGCCCAGTATCAATGTT
1 ATCTGAATAAGGGGCTAAGGCCCAGTATCAATGTA
236413696 ATCTGAAT
1 ATCTGAAT
236413704 GGGCTTAGGC
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
32 13 0.37
33 15 0.43
34 7 0.20
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (35 bp):
ATCTGAATAAGGGGCTAAGGCCCAGTATCAATGTA
Found at i:236415274 original size:21 final size:21
Alignment explanation
Indices: 236415250--236415291 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
236415240 GTGGGACGAG
236415250 GCATATCAGTGGTGGATCACT
1 GCATATCAGTGGTGGATCACT
*
236415271 GCATATTAGTGGTGGATCACT
1 GCATATCAGTGGTGGATCACT
236415292 ATGAGAGAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.31
Consensus pattern (21 bp):
GCATATCAGTGGTGGATCACT
Found at i:236419925 original size:29 final size:29
Alignment explanation
Indices: 236419891--236420022 Score: 140
Period size: 29 Copynumber: 4.6 Consensus size: 29
236419881 TACTCGATTT
** * *
236419891 CGCACACTTAGTGCCATGCGATTT-AAGCC
1 CGCACACTTAGTGCCAT-ATATTTCCAGCA
* **** * *
236419920 CGCACACATAGTGCCATGCCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
236419949 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
236419978 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
236420007 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
236420023 ATCTCGTCAC
Statistics
Matches: 86, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
28 2 0.02
29 84 0.98
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:236427830 original size:27 final size:29
Alignment explanation
Indices: 236427791--236427863 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
236427781 CCCTCGAGCT
** *
236427791 CGCACACCCAGTGCCGTAT-TTTCCAGC-
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
236427818 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
236427847 CGCACACTTAGTGCCAT
1 CGCACACTTAGTGCCAT
236427864 CTCGTCACCG
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
27 15 0.38
28 8 0.21
29 16 0.41
ACGTcount: A:0.23, C:0.34, G:0.16, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:236432216 original size:40 final size:40
Alignment explanation
Indices: 236432171--236432338 Score: 178
Period size: 40 Copynumber: 4.2 Consensus size: 40
236432161 CGGAATACAA
236432171 CCGGATATAACCAC-ATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTA-GCACGAATGCCTTCGGGTCTTAGC
* * *
236432211 CCGGATAGAACGACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* *** *
236432251 CCGGATGTGGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAAT-GCCTTCGGGTCTTAGC
** ** * *
236432291 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
236432331 CCGGATAT
1 CCGGATAT
236432339 CATTCAATTG
Statistics
Matches: 106, Mismatches: 19, Indels: 6
0.81 0.15 0.05
Matches are distributed among these distances:
39 3 0.03
40 100 0.94
41 3 0.03
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:236432321 original size:80 final size:80
Alignment explanation
Indices: 236432187--236432336 Score: 203
Period size: 80 Copynumber: 1.9 Consensus size: 80
236432177 ATAACCACAT
* * * *
236432187 GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACGAATGCCTTCGGGTCTTAGCC
1 GCACGAATGCCTTCGGGTCTTAACCCGGATAGAACGACTAGCACAAATGCCTTCGGGACTTAGCC
236432252 CGGATGTGGTCACTA
66 CGGATGTGGTCACTA
* ** * *
236432267 GCAC-AATGGCCTTCGGGTCTTAACCCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 GCACGAAT-GCCTTCGGGTCTTAACCCGGATAGAACGACTAGCACAAATGCCTTCGGGACTTAGC
236432331 CCGGAT
65 CCGGAT
236432337 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
79 3 0.05
80 57 0.95
ACGTcount: A:0.23, C:0.26, G:0.26, T:0.25
Consensus pattern (80 bp):
GCACGAATGCCTTCGGGTCTTAACCCGGATAGAACGACTAGCACAAATGCCTTCGGGACTTAGCC
CGGATGTGGTCACTA
Found at i:236435381 original size:40 final size:40
Alignment explanation
Indices: 236435336--236435502 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
236435326 CGGAATATAA
236435336 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
236435376 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
236435416 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
236435456 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
236435495 CCGGATAT
1 CCGGATAT
236435503 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:236443372 original size:40 final size:39
Alignment explanation
Indices: 236443327--236443456 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
236443317 CGGAATATAA
236443327 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
236443367 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
236443407 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
236443447 CCGGATATAA
1 CCGGATATAA
236443457 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:236443471 original size:40 final size:40
Alignment explanation
Indices: 236443343--236443494 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
236443333 ATAACCATGT
* * *
236443343 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
236443383 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
236443423 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
236443463 GCATAATTGTCTTCGGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
236443495 CATTCAATTT
Statistics
Matches: 91, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
39 2 0.02
40 86 0.95
41 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:236443477 original size:80 final size:80
Alignment explanation
Indices: 236443343--236443492 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
236443333 ATAACCATGT
*
236443343 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
236443407 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
236443423 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
236443486 CCCGGAT
64 CCCGGAT
236443493 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:236446710 original size:42 final size:42
Alignment explanation
Indices: 236446663--236446769 Score: 196
Period size: 42 Copynumber: 2.5 Consensus size: 42
236446653 TATTGGTCTC
236446663 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
1 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
236446705 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
1 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
* *
236446747 GGCACTACGTGTGCGGGTTTAAA
1 GGCACTAAGTGTGCGGGTATAAA
236446770 ATTGTACAGC
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 63 1.00
ACGTcount: A:0.29, C:0.15, G:0.34, T:0.22
Consensus pattern (42 bp):
GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
Found at i:236446834 original size:27 final size:28
Alignment explanation
Indices: 236446777--236446846 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
236446767 AAAATTGTAC
**
236446777 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
* *
236446805 AGCACTATGTGTGCG-AGCTGATTTTAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
236446832 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
236446847 GATTCACTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 23 0.62
28 14 0.38
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:236450574 original size:41 final size:41
Alignment explanation
Indices: 236450529--236450646 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
236450519 TGAAAGATAA
236450529 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
236450570 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
236450600 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
236450641 ATGTAG
1 ATGTAG
236450647 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:236450585 original size:71 final size:71
Alignment explanation
Indices: 236450497--236450660 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
236450487 GAGATGTATC
236450497 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
236450562 AGGACA
66 AGGACA
236450568 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
236450633 AGGACA
66 AGGACA
236450639 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
236450661 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:236458094 original size:68 final size:70
Alignment explanation
Indices: 236458022--236458219 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
236458012 ACACCCTGTA
* * * *
236458022 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
236458084 ATAAAT
65 ATAAAT
*
236458090 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
236458155 ATAAAT
65 ATAAAT
*
236458161 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
236458220 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:236458133 original size:41 final size:41
Alignment explanation
Indices: 236458088--236458205 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
236458078 TGAAAGATAA
236458088 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
236458129 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
236458159 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
236458200 ATGTAG
1 ATGTAG
236458206 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:236458145 original size:71 final size:71
Alignment explanation
Indices: 236458056--236458219 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
236458046 GAGATGTATC
236458056 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
236458121 AGGACA
66 AGGACA
236458127 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
236458192 AGGACA
66 AGGACA
236458198 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
236458220 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:236465685 original size:41 final size:41
Alignment explanation
Indices: 236465640--236465757 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
236465630 TGAAAGATAA
236465640 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
236465681 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
236465711 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
236465752 ATGTAG
1 ATGTAG
236465758 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:236465718 original size:71 final size:71
Alignment explanation
Indices: 236465607--236465771 Score: 321
Period size: 71 Copynumber: 2.3 Consensus size: 71
236465597 GAGATGTATC
236465607 CCATGTAGACAAGAGAGCTAACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTG
1 CCATGTAGACAAGAGAGCT-ACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTG
236465672 AAGGACA
65 AAGGACA
236465679 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
236465744 AGGACA
66 AGGACA
236465750 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
236465772 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
71 74 0.80
72 19 0.20
ACGTcount: A:0.36, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:236468245 original size:26 final size:27
Alignment explanation
Indices: 236468164--236468392 Score: 254
Period size: 26 Copynumber: 8.6 Consensus size: 27
236468154 GGTATCTCGG
* **
236468164 TAATTCCACCCTACAGGGGTATT-TTA
1 TAATTCTACCCTACAGGGGTATTGCGA
* * *
236468190 GTAATTTCTACCTTATAGGGGTATTTCGA
1 -TAA-TTCTACCCTACAGGGGTATTGCGA
236468219 TAATTCTA-CCTACAGGGGTATTGCGA
1 TAATTCTACCCTACAGGGGTATTGCGA
* * *
236468245 TACTTCTACCCTACAGGGTTATTTC-A
1 TAATTCTACCCTACAGGGGTATTGCGA
* *
236468271 GTAATTCTACCCTACA-GGGTATTTCGG
1 -TAATTCTACCCTACAGGGGTATTGCGA
* *
236468298 TAATTCTA-CCTACAGGGGTATTCCGG
1 TAATTCTACCCTACAGGGGTATTGCGA
236468324 TAATTCTACCCTACAGGGGTATTGCGA
1 TAATTCTACCCTACAGGGGTATTGCGA
*
236468351 TAATTCTACCCTA-AGGGGTATTGCGG
1 TAATTCTACCCTACAGGGGTATTGCGA
*
236468377 TAATTCTATCCTACAG
1 TAATTCTACCCTACAG
236468393 TGTGACAGCC
Statistics
Matches: 175, Mismatches: 19, Indels: 16
0.83 0.09 0.08
Matches are distributed among these distances:
25 6 0.03
26 81 0.46
27 67 0.38
28 20 0.11
29 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.34
Consensus pattern (27 bp):
TAATTCTACCCTACAGGGGTATTGCGA
Found at i:236468276 original size:53 final size:54
Alignment explanation
Indices: 236468154--236468392 Score: 290
Period size: 53 Copynumber: 4.5 Consensus size: 54
236468144 TACCCCACAA
* * ** * *
236468154 GGTATCTCGGTAATTCCACCCTACAGGGGTATT-TTAGTAATTTCTACCTTATAGG
1 GGTATTTCGGTAATTCTACCCTACAGGGGTATTGCGA-TAA-TTCTACCCTACAGG
* *
236468209 GGTATTTCGATAATTCTA-CCTACAGGGGTATTGCGATACTTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGGGGTATTGCGATAATTCTACCCTACAGG
* * * *
236468262 GTTATTTCAGTAATTCTACCCTACA-GGGTATTTCGGTAATTCTA-CCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGGGGTATTGCGATAATTCTACCCTACAGG
*
236468314 GGTATTCCGGTAATTCTACCCTACAGGGGTATTGCGATAATTCTACCCTA-AGG
1 GGTATTTCGGTAATTCTACCCTACAGGGGTATTGCGATAATTCTACCCTACAGG
* *
236468367 GGTATTGCGGTAATTCTATCCTACAG
1 GGTATTTCGGTAATTCTACCCTACAG
236468393 TGTGACAGCC
Statistics
Matches: 159, Mismatches: 21, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
52 30 0.19
53 87 0.55
54 26 0.16
55 16 0.10
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.34
Consensus pattern (54 bp):
GGTATTTCGGTAATTCTACCCTACAGGGGTATTGCGATAATTCTACCCTACAGG
Found at i:236468315 original size:79 final size:79
Alignment explanation
Indices: 236468164--236468392 Score: 309
Period size: 79 Copynumber: 2.9 Consensus size: 79
236468154 GGTATCTCGG
* * * *
236468164 TAATTCCACCCTACAGGGGTATTTTAGTAATTTCTACCTTATAGGGGTATTTCGATAATTCTACC
1 TAATTCTACCCTACAGGGGTATTTCAGTAA-TTCTACCCTA-AGGGGTATTTCGGTAATTCTACC
*
236468229 TACAGGGGTATTGCGA
64 TACAGGGGTATTCCGA
* *
236468245 TACTTCTACCCTACAGGGTTATTTCAGTAATTCTACCCTACA-GGGTATTTCGGTAATTCTACCT
1 TAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTA-AGGGGTATTTCGGTAATTCTACCT
*
236468309 ACAGGGGTATTCCGG
65 ACAGGGGTATTCCGA
* *
236468324 TAATTCTACCCTACAGGGGTATTGC-GATAATTCTACCCTAAGGGGTATTGCGGTAATTCTATCC
1 TAATTCTACCCTACAGGGGTATTTCAG-TAATTCTACCCTAAGGGGTATTTCGGTAATTCTA-CC
236468388 TACAG
64 TACAG
236468393 TGTGACAGCC
Statistics
Matches: 132, Mismatches: 13, Indels: 7
0.87 0.09 0.05
Matches are distributed among these distances:
78 2 0.02
79 87 0.66
80 17 0.13
81 26 0.20
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.34
Consensus pattern (79 bp):
TAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTAAGGGGTATTTCGGTAATTCTACCTA
CAGGGGTATTCCGA
Found at i:236470209 original size:40 final size:40
Alignment explanation
Indices: 236470154--236470363 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
236470144 AACATTGGAA
236470154 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
236470194 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
236470234 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
236470274 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
236470313 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
236470354 CTATATCCGG
1 ATATATCCGG
236470364 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:236476050 original size:39 final size:38
Alignment explanation
Indices: 236475992--236476134 Score: 142
Period size: 39 Copynumber: 3.7 Consensus size: 38
236475982 CCGCACCAAG
* * * *
236475992 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAT
1 GCCTTCGGGTCTTAACCCGGATAT-ACGACTAGCACAAT
* * * *
236476031 GCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAAT
1 GCCTTCGGGTCTTAACCCGGATA-TACGACTAGCAC-AAT
* * *
236476071 GCCTTCGGGTCTTAGCCCGGATGTACCACTAGCACAATT
1 GCCTTCGGGTCTTAACCCGGATATACGACTAGCACAA-T
*
236476110 GCCTTCGGGTCTTAACCCGGTTATA
1 GCCTTCGGGTCTTAACCCGGATATA
236476135 ATTTCCAGCA
Statistics
Matches: 86, Mismatches: 15, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
38 2 0.02
39 59 0.69
40 25 0.29
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (38 bp):
GCCTTCGGGTCTTAACCCGGATATACGACTAGCACAAT
Found at i:236476066 original size:79 final size:79
Alignment explanation
Indices: 236475983--236476129 Score: 188
Period size: 79 Copynumber: 1.9 Consensus size: 79
236475973 TATGGTAACC
* * * *
236475983 CGCACCAAGGCCTACGGGACTTAACCCGGATATCACGATTTGCACAA-TGCCTTCGGGTCTTAGC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-ACCACTAGCACAATTGCCTTCGGGTCTTAAC
236476047 CCGGATAGAATGACT
65 CCGGATAGAATGACT
* * * * * *
236476062 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTACCACTAGCACAATTGCCTTCGGGTCTTAACC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATACCACTAGCACAATTGCCTTCGGGTCTTAACC
236476127 CGG
66 CGG
236476130 TTATAATTTC
Statistics
Matches: 57, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
78 10 0.18
79 47 0.82
ACGTcount: A:0.22, C:0.31, G:0.24, T:0.22
Consensus pattern (79 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATACCACTAGCACAATTGCCTTCGGGTCTTAACC
CGGATAGAATGACT
Found at i:236481543 original size:86 final size:86
Alignment explanation
Indices: 236481426--236481599 Score: 307
Period size: 86 Copynumber: 2.0 Consensus size: 86
236481416 GACTCGTGTG
*
236481426 GTCACAGGGGTCGATCCGTCCTCGTCTAGAAAAG-CCAAAGCGCCTCTAGACCGGTTCACCATCA
1 GTCACAGGGGTCGATCCGTCCTCGTCTAGAAAAGCCCAAAGCGCCTCTAGAACGGTTCA-CATCA
236481490 TCTCGAAATCTCTTCGGTGCCT
65 TCTCGAAATCTCTTCGGTGCCT
236481512 GTCA-AGGGGTCGATCGCGTCCTCGTCTAGAAAAGCCCAAAGCGCCTCTAGAACGGTTCACATCA
1 GTCACAGGGGTCGATC-CGTCCTCGTCTAGAAAAGCCCAAAGCGCCTCTAGAACGGTTCACATCA
236481576 TCTCGAAATCTCTTCGGTGCCT
65 TCTCGAAATCTCTTCGGTGCCT
236481598 GT
1 GT
236481600 TGAAGAGACT
Statistics
Matches: 85, Mismatches: 1, Indels: 4
0.94 0.01 0.04
Matches are distributed among these distances:
85 11 0.13
86 51 0.60
87 23 0.27
ACGTcount: A:0.22, C:0.31, G:0.23, T:0.24
Consensus pattern (86 bp):
GTCACAGGGGTCGATCCGTCCTCGTCTAGAAAAGCCCAAAGCGCCTCTAGAACGGTTCACATCAT
CTCGAAATCTCTTCGGTGCCT
Found at i:236484103 original size:80 final size:80
Alignment explanation
Indices: 236484019--236484167 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
236484009 TATGGTAACC
* * * *
236484019 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
236484083 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
236484099 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
236484164 CCGG
66 CCGG
236484168 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:236484109 original size:40 final size:38
Alignment explanation
Indices: 236484060--236484167 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
236484050 ATCACGATTT
*
236484060 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
236484100 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
236484140 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
236484168 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:236487986 original size:22 final size:23
Alignment explanation
Indices: 236487961--236488025 Score: 80
Period size: 22 Copynumber: 2.9 Consensus size: 23
236487951 ATAAGTAAAG
236487961 AAAATATAATAACAATAATAG-A
1 AAAATATAATAACAATAATAGTA
* * *
236487983 AAAATACAACAATAATAATAGTA
1 AAAATATAATAACAATAATAGTA
236488006 AAAGATATAATAAC-ATAATA
1 AAA-ATATAATAACAATAATA
236488026 ATATAATAGT
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
22 18 0.51
23 10 0.29
24 7 0.20
ACGTcount: A:0.66, C:0.06, G:0.05, T:0.23
Consensus pattern (23 bp):
AAAATATAATAACAATAATAGTA
Found at i:236487999 original size:3 final size:3
Alignment explanation
Indices: 236487993--236488236 Score: 105
Period size: 3 Copynumber: 82.3 Consensus size: 3
236487983 AAAATACAAC
* * * *
236487993 AAT AAT AAT AGT AA- AAG ATAT AAT AA- CAT AAT AAT -AT AAT AGT
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * * * *
236488036 AAT AGT AAC AAT -AT GAC GAT AAT AGT AAA AAT AAT -AT ATT AAAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT
* * **
236488080 AAT AGT AAT AA- AAGT AGT GCT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
236488125 AAT AAT AAT AAT AAT AAT -AT CAT -CT ATT AAGT TAT AAT GAA- AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT -AAT AAT
* * * *
236488169 AAT GAT AAT GAT GAT -AT ATT AGAT AAT AAT AAT AA- AAT AAT AAGT
1 AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AA-T
* *
236488214 AAC AAT AAT AAAT TAT AAT AAT A
1 AAT AAT AAT -AAT AAT AAT AAT A
236488237 GTGATGAGAA
Statistics
Matches: 181, Mismatches: 41, Indels: 38
0.70 0.16 0.15
Matches are distributed among these distances:
2 20 0.11
3 144 0.80
4 17 0.09
ACGTcount: A:0.58, C:0.03, G:0.07, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:236488255 original size:16 final size:16
Alignment explanation
Indices: 236488236--236488267 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
236488226 TTATAATAAT
236488236 AGTGATGAGAATAACA
1 AGTGATGAGAATAACA
*
236488252 AGTGATGATAATAACA
1 AGTGATGAGAATAACA
236488268 GTAACAATAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.50, C:0.06, G:0.22, T:0.22
Consensus pattern (16 bp):
AGTGATGAGAATAACA
Found at i:236488322 original size:22 final size:23
Alignment explanation
Indices: 236488296--236488347 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
236488286 ATATATTAGT
*
236488296 AATATAATAGATGTAGTAA-AAA
1 AATATAATAGATATAGTAATAAA
* * *
236488318 AATATAGTAGTTATAGTAATAAT
1 AATATAATAGATATAGTAATAAA
236488341 AATATAA
1 AATATAA
236488348 ACAAGTAGCA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
22 16 0.67
23 8 0.33
ACGTcount: A:0.56, C:0.00, G:0.12, T:0.33
Consensus pattern (23 bp):
AATATAATAGATATAGTAATAAA
Found at i:236488399 original size:16 final size:16
Alignment explanation
Indices: 236488370--236488407 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
236488360 TATACGTATG
*
236488370 AAAA-ATAATGATAGT
1 AAAATATAATAATAGT
236488385 AAAATATAATAATAGT
1 AAAATATAATAATAGT
236488401 AATAATA
1 AA-AATA
236488408 ATAGTGGAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 4 0.20
16 12 0.60
17 4 0.20
ACGTcount: A:0.63, C:0.00, G:0.08, T:0.29
Consensus pattern (16 bp):
AAAATATAATAATAGT
Found at i:236488515 original size:3 final size:3
Alignment explanation
Indices: 236488507--236488549 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
236488497 ACACACTACC
236488507 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
236488550 TAGAAATACA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:236488657 original size:3 final size:3
Alignment explanation
Indices: 236488643--236488687 Score: 81
Period size: 3 Copynumber: 14.7 Consensus size: 3
236488633 AAATACACAC
236488643 TAA TATA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
236488688 TTAAAATGCA
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 38 0.93
4 3 0.07
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:236489668 original size:44 final size:43
Alignment explanation
Indices: 236489604--236489689 Score: 120
Period size: 44 Copynumber: 2.0 Consensus size: 43
236489594 TGAGTTCTTG
*
236489604 ATCTGCTTCTTCGATCTGTTCCCCATAAACACAGGGATGCCAA
1 ATCTGCTTCTTCAATCTGTTCCCCATAAACACAGGGATGCCAA
**
236489647 ATCTGCTGTCTTCAA-CTTGTTCCTTATAAACACAGGGATGCCA
1 ATCTGCT-TCTTCAATC-TGTTCCCCATAAACACAGGGATGCCA
236489690 TGCTGAAATC
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
43 8 0.21
44 30 0.79
ACGTcount: A:0.26, C:0.28, G:0.16, T:0.30
Consensus pattern (43 bp):
ATCTGCTTCTTCAATCTGTTCCCCATAAACACAGGGATGCCAA
Found at i:236490432 original size:204 final size:205
Alignment explanation
Indices: 236489743--236490527 Score: 1307
Period size: 203 Copynumber: 3.9 Consensus size: 205
236489733 AGATCTATTT
* * * * * * *
236489743 CTTCGATTTGTTCCCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTTAACGTAAGCAC
1 CTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
* * * *
236489808 GTGAAAGCCAAATCAACTATG-ATTCGATTTGCTCCTTGTAAGCATAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCTT
* * *
236489872 GGATCCGCTTCAGCATAAACATCCGAAGGTGAGATCTGCTATGTG-CTGCTCTCCATCAAAGTGA
131 GGATCTGCTTCAGCATAAACATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
236489936 AGATGCCAAA
196 AGATGCCAAA
*
236489946 CTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
1 CTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
*
236490011 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCTT
*
236490076 GGATCTGCTTCAG--TGAAA-TTCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTG
131 GGATCTGCTTCAGCAT-AAACATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTG
236490138 AAGATGCCAAA
195 AAGATGCCAAA
236490149 CTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
1 CTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
*
236490214 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCTT
* *
236490279 GGATCTGCTTCAGCGA-AATCATCTGAAGG-TAGATCTGCTATGTGTCTGCTCTCCATCAAAGTG
131 GGATCTGCTTCAGC-ATAAACATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTG
236490342 AAGATGCCAAA
195 AAGATGCCAAA
*
236490353 CTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
1 CTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
236490418 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCTT
236490483 GGATC-GCTTCAGCATAAACATCTGAAGGCGAGATCTGCTATGTGT
131 GGATCTGCTTCAGCATAAACATCTGAAGGCGAGATCTGCTATGTGT
236490528 GGCCTATTAC
Statistics
Matches: 548, Mismatches: 25, Indels: 17
0.93 0.04 0.03
Matches are distributed among these distances:
202 24 0.04
203 271 0.49
204 245 0.45
205 8 0.01
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (205 bp):
CTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCTT
GGATCTGCTTCAGCATAAACATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
AGATGCCAAA
Found at i:236498507 original size:15 final size:14
Alignment explanation
Indices: 236498465--236498514 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 14
236498455 ATAACTTTGA
*
236498465 ATGCAAATGATGTG
1 ATGCAAATGATGAG
236498479 ATG-AAATGTTATGAG
1 ATGCAAATG--ATGAG
236498494 ATGCAAATGCATGA-
1 ATGCAAATG-ATGAG
236498508 ATGCAAA
1 ATGCAAA
236498515 AAGAATATCG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
13 5 0.16
14 10 0.32
15 11 0.35
16 5 0.16
ACGTcount: A:0.42, C:0.08, G:0.24, T:0.26
Consensus pattern (14 bp):
ATGCAAATGATGAG
Found at i:236511717 original size:40 final size:40
Alignment explanation
Indices: 236511662--236511829 Score: 196
Period size: 40 Copynumber: 4.2 Consensus size: 40
236511652 TGAATGATAC
* *
236511662 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* *
236511702 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATAT
* * ** *
236511742 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * * *
236511782 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
236511822 CC-GGCTAA
1 CCGGGCTAA
236511830 ATTCCGAAGA
Statistics
Matches: 106, Mismatches: 20, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
39 6 0.06
40 98 0.92
41 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
Found at i:236519630 original size:40 final size:39
Alignment explanation
Indices: 236519465--236519648 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
236519455 AAATTGAATG
* * *
236519465 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
236519505 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
236519545 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
236519585 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
236519624 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
236519649 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:236519673 original size:80 final size:81
Alignment explanation
Indices: 236519505--236519693 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
236519495 GCTGGAAATT
* * * *
236519505 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
236519570 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
236519586 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
236519649 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
236519665 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
236519694 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:236525180 original size:8 final size:8
Alignment explanation
Indices: 236525155--236525200 Score: 56
Period size: 8 Copynumber: 5.5 Consensus size: 8
236525145 ACATATACAT
236525155 ATAAAAAA
1 ATAAAAAA
*
236525163 TATAATAAA
1 -ATAAAAAA
236525172 ATAACAAAA
1 ATAA-AAAA
236525181 ATAAAAAA
1 ATAAAAAA
*
236525189 AGAAAAAA
1 ATAAAAAA
236525197 ATAA
1 ATAA
236525201 TTTTTTTTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
8 18 0.56
9 14 0.44
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.15
Consensus pattern (8 bp):
ATAAAAAA
Found at i:236525184 original size:17 final size:16
Alignment explanation
Indices: 236525155--236525201 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 16
236525145 ACATATACAT
236525155 ATAAAAAATATAATAAA
1 ATAAAAAA-ATAATAAA
*
236525172 ATAACAAAAATAAAAAA
1 ATAA-AAAAATAATAAA
*
236525189 AGAAAAAAATAAT
1 ATAAAAAAATAAT
236525202 TTTTTTTTAC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
16 8 0.31
17 14 0.54
18 4 0.15
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.17
Consensus pattern (16 bp):
ATAAAAAAATAATAAA
Found at i:236525916 original size:13 final size:14
Alignment explanation
Indices: 236525892--236525922 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
236525882 ATTATTATCA
236525892 ATATTAATATATGT
1 ATATTAATATATGT
236525906 ATATT-ATATATGT
1 ATATTAATATATGT
236525919 ATAT
1 ATAT
236525923 ATTCATACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (14 bp):
ATATTAATATATGT
Found at i:236526022 original size:12 final size:12
Alignment explanation
Indices: 236526005--236526036 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
236525995 TATATTTCAT
*
236526005 TATTATTTTTAA
1 TATTATTATTAA
236526017 TATTATTATTAA
1 TATTATTATTAA
236526029 TATTATTA
1 TATTATTA
236526037 GATGTTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
TATTATTATTAA
Found at i:236526215 original size:21 final size:20
Alignment explanation
Indices: 236526182--236526224 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
236526172 TTTTATATAC
236526182 TATTACATGTATACTT-CTAA
1 TATTACATGTATA-TTCCTAA
*
236526202 TATTATATCGTATATTCCTAA
1 TATTACAT-GTATATTCCTAA
236526223 TA
1 TA
236526225 CCATCATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.35, C:0.14, G:0.05, T:0.47
Consensus pattern (20 bp):
TATTACATGTATATTCCTAA
Found at i:236538689 original size:71 final size:71
Alignment explanation
Indices: 236538570--236538708 Score: 251
Period size: 71 Copynumber: 2.0 Consensus size: 71
236538560 GTTTTCCAAG
* *
236538570 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTGAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
236538635 GTTTCA
66 GTTTCA
*
236538641 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACATGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
236538706 GTT
66 GTT
236538709 GCGAGAAGTG
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
71 65 1.00
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.32
Consensus pattern (71 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
GTTTCA
Found at i:236538712 original size:52 final size:52
Alignment explanation
Indices: 236538655--236538754 Score: 146
Period size: 52 Copynumber: 1.9 Consensus size: 52
236538645 TCAACTCATA
* * * *
236538655 TTGCGAGAGGTGAGTTGAGCCTCAAGACATGTTGAGGTAATTTCAATTTATG
1 TTGCGAGAAGTGAGTTGAACCTCAAGACACGCTGAGGTAATTTCAATTTATG
**
236538707 TTGCGAGAAGTGAGTTGAACCTCGGGACACGCTGAGGTAATTTCAATT
1 TTGCGAGAAGTGAGTTGAACCTCAAGACACGCTGAGGTAATTTCAATT
236538755 CCTATTAAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
52 42 1.00
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (52 bp):
TTGCGAGAAGTGAGTTGAACCTCAAGACACGCTGAGGTAATTTCAATTTATG
Found at i:236538876 original size:125 final size:123
Alignment explanation
Indices: 236538707--236538946 Score: 317
Period size: 123 Copynumber: 1.9 Consensus size: 123
236538697 TCAATTTATG
*
236538707 TTGCGAGAAGTGAGTTGAACCTCGGGACACGCTGAGGTAATTTC-AATTCCTATTAAATCTAAAA
1 TTGCGAGAAGTGAGTTGAACCTCGGGACACGCTAAGGTAATTTCAAATT-CTATT--ATC-AAAA
* * *
236538771 -TCGACTCATATTGCGAGAGGTGAGTTGAGTCTTTTTAGTTTCTATTTTCAATTCCTGTTTA
62 GTCAACTCATATTGCGAGAGATGAGTTGAGTCTTTTTAATTTCTATTTTCAATTCCTGTTTA
* * * *
236538832 TTGCGAGAGGTGAGTTGAGCCTTAC-GG-CACGCTAAGGTATTTTCAAATTCTATTTTCAAAAGT
1 TTGCGAGAAGTGAGTTGAACC-T-CGGGACACGCTAAGGTAATTTCAAATTCTATTATCAAAAGT
*
236538895 CAATTCATATTGCGAGAGATGAGTTGAGTCTTTTTAATTTCTATTTTCAATT
64 CAACTCATATTGCGAGAGATGAGTTGAGTCTTTTTAATTTCTATTTTCAATT
236538947 TTTGTTTTTT
Statistics
Matches: 102, Mismatches: 9, Indels: 10
0.84 0.07 0.08
Matches are distributed among these distances:
122 4 0.04
123 51 0.50
125 39 0.38
126 7 0.07
127 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.20, T:0.38
Consensus pattern (123 bp):
TTGCGAGAAGTGAGTTGAACCTCGGGACACGCTAAGGTAATTTCAAATTCTATTATCAAAAGTCA
ACTCATATTGCGAGAGATGAGTTGAGTCTTTTTAATTTCTATTTTCAATTCCTGTTTA
Found at i:236539122 original size:67 final size:66
Alignment explanation
Indices: 236538962--236539137 Score: 203
Period size: 67 Copynumber: 2.6 Consensus size: 66
236538952 TTTTTTTAAT
*
236538962 TTTTCAAAGATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTAATTTCGTTTTTCAAAATCTA
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTAATTTCGTTTTTCAAAATCTA
236539027 C
66 C
* * * * **
236539028 TTTTCAAAGTATTAACTCATGTTGCGAGAGGTGAGTTGAGCCTTCTAATTTC-TTCTTTTAATTT
1 TTTTCAAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT-TAATTTCGTT-TTTCAAAAT
236539092 CTA-
63 CTAC
* * **
236539095 TGTTTCAAAAATCAACCCATATGGCGAGAAATGAGTTGAGCCT
1 T-TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
236539138 CAGTTCACCT
Statistics
Matches: 93, Mismatches: 13, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
66 8 0.09
67 62 0.67
68 23 0.25
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.38
Consensus pattern (66 bp):
TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTAATTTCGTTTTTCAAAATCTA
C
Found at i:236541179 original size:13 final size:14
Alignment explanation
Indices: 236541155--236541185 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
236541145 ATTATTATCA
236541155 ATATTAATATATGT
1 ATATTAATATATGT
236541169 ATATT-ATATATGT
1 ATATTAATATATGT
236541182 ATAT
1 ATAT
236541186 ATTCATACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (14 bp):
ATATTAATATATGT
Found at i:236541285 original size:12 final size:12
Alignment explanation
Indices: 236541268--236541299 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
236541258 TATATTTCAT
*
236541268 TATTATTTTTAA
1 TATTATTATTAA
236541280 TATTATTATTAA
1 TATTATTATTAA
236541292 TATTATTA
1 TATTATTA
236541300 GATGTTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
TATTATTATTAA
Found at i:236541396 original size:25 final size:24
Alignment explanation
Indices: 236541360--236541424 Score: 71
Period size: 25 Copynumber: 2.6 Consensus size: 24
236541350 CTATATGTAT
236541360 TTTTTTATATATGT-TATTTGTATA-A
1 TTTTTTA-ATAT-TATATTT-TATACA
236541385 GTTTTTTAATATTATATTTTATACA
1 -TTTTTTAATATTATATTTTATACA
236541410 TATTTTTAATATTAT
1 T-TTTTTAATATTAT
236541425 TAGTTATACT
Statistics
Matches: 36, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
24 6 0.17
25 23 0.64
26 7 0.19
ACGTcount: A:0.31, C:0.02, G:0.05, T:0.63
Consensus pattern (24 bp):
TTTTTTAATATTATATTTTATACA
Found at i:236541478 original size:21 final size:20
Alignment explanation
Indices: 236541445--236541487 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
236541435 TTTTATATAC
236541445 TATTACATGTATACTT-CTAA
1 TATTACATGTATA-TTCCTAA
*
236541465 TATTATATCGTATATTCCTAA
1 TATTACAT-GTATATTCCTAA
236541486 TA
1 TA
236541488 CCATCATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.35, C:0.14, G:0.05, T:0.47
Consensus pattern (20 bp):
TATTACATGTATATTCCTAA
Found at i:236551686 original size:30 final size:29
Alignment explanation
Indices: 236551592--236551693 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
236551582 TATAGTGAAT
* * *
236551592 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
236551621 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
236551649 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
236551679 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
236551694 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:236559537 original size:30 final size:29
Alignment explanation
Indices: 236559443--236559544 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
236559433 TATAGTGAAT
* * *
236559443 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
236559472 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
236559500 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
236559530 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
236559545 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:236564992 original size:39 final size:39
Alignment explanation
Indices: 236564911--236565073 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
236564901 TATGGTAACC
* *
236564911 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
236564951 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
236564990 CGCACCATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
236565029 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
236565068 CGCACA
1 CGCACA
236565074 TTCATACACA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:236567075 original size:40 final size:40
Alignment explanation
Indices: 236566967--236567183 Score: 298
Period size: 40 Copynumber: 5.5 Consensus size: 40
236566957 AAGCCAAGTA
* * * * *
236566967 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATA
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
236567006 CCTTCGGGACATAG-CCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
236567045 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
236567085 CCTTCGGGACTTAGCCCGGATATGGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
236567125 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
236567165 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
236567184 TTATCATCCA
Statistics
Matches: 163, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
38 1 0.01
39 45 0.28
40 117 0.72
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:236575291 original size:40 final size:40
Alignment explanation
Indices: 236575172--236575425 Score: 333
Period size: 40 Copynumber: 6.5 Consensus size: 40
236575162 AAGCCAAGTA
* * * * *
236575172 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATA
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
236575211 CCTT-GGGACATAGCCCGGATATAGT-ACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
236575249 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
236575289 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
236575329 CCTTCGGGACTTAGCCCGGATATGGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
236575369 -CTTCGGGACTTAGCCC--AAACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
236575407 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
236575426 TTATCATCCA
Statistics
Matches: 194, Mismatches: 14, Indels: 12
0.88 0.06 0.05
Matches are distributed among these distances:
37 2 0.01
38 35 0.18
39 66 0.34
40 91 0.47
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:236575337 original size:80 final size:79
Alignment explanation
Indices: 236575172--236575425 Score: 331
Period size: 78 Copynumber: 3.2 Consensus size: 79
236575162 AAGCCAAGTA
* * * * * *
236575172 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATACCTT-GGGACATAGCCCGGATATA
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATA
*
236575234 GTACTCGCACCAATG
65 GTACTCGCACAAATG
236575249 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
236575314 TAACTCGCACAAATG
66 T-ACTCGCACAAATG
* *
236575329 CCTTCGGGACTTAGCCCGGATATGGTAACTCGCACAAATG-CTTCGGGACTTAGCCC--AAACTA
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATA-TA
* *
236575391 GTCACTAGCGCAAATG
65 GT-ACTCGCACAAATG
236575407 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
236575426 TTATCATCCA
Statistics
Matches: 160, Mismatches: 12, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
77 15 0.09
78 58 0.36
79 36 0.22
80 51 0.32
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (79 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
TACTCGCACAAATG
Found at i:236577417 original size:27 final size:26
Alignment explanation
Indices: 236577361--236577417 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
236577351 TCACATTAAC
* *
236577361 CCTAGGGGTATATCAATAATTTTACT
1 CCTAGGGGTAAATCAATAATTTTACA
* *
236577387 CCTAGGGGTAAATCTATAAATTTTCCA
1 CCTAGGGGTAAATCAAT-AATTTTACA
236577414 CCTA
1 CCTA
236577418 TAAAGGTATT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 15 0.58
27 11 0.42
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.35
Consensus pattern (26 bp):
CCTAGGGGTAAATCAATAATTTTACA
Found at i:236580838 original size:20 final size:20
Alignment explanation
Indices: 236580813--236580851 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
236580803 NNNNNNNNNN
236580813 CATATCATA-CATATCATGTG
1 CATATCATATCA-ATCATGTG
236580833 CATATCATATCAATCATGT
1 CATATCATATCAATCATGT
236580852 ATATCAAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 16 0.89
21 2 0.11
ACGTcount: A:0.36, C:0.21, G:0.08, T:0.36
Consensus pattern (20 bp):
CATATCATATCAATCATGTG
Found at i:236588724 original size:40 final size:40
Alignment explanation
Indices: 236588665--236588795 Score: 172
Period size: 40 Copynumber: 3.3 Consensus size: 40
236588655 CGGGACTTTA
* * *
236588665 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
236588705 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
236588745 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
236588785 CCCGGATATAA
1 CCCGGATATAA
236588796 TTTCCAGCAT
Statistics
Matches: 78, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 78 1.00
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.27
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:236588810 original size:40 final size:40
Alignment explanation
Indices: 236588682--236588833 Score: 171
Period size: 40 Copynumber: 3.8 Consensus size: 40
236588672 ATCACGATTT
* * * **
236588682 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACCA
* *
236588722 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAACTACCA
* * *
236588762 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACCA
* * *
236588802 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
236588834 CATTCAATTT
Statistics
Matches: 97, Mismatches: 13, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 2 0.02
40 93 0.96
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACCA
Found at i:236596758 original size:40 final size:40
Alignment explanation
Indices: 236596699--236596829 Score: 172
Period size: 40 Copynumber: 3.3 Consensus size: 40
236596689 CGGGACTTTA
* * *
236596699 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
236596739 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
236596779 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
236596819 CCCGGATATAA
1 CCCGGATATAA
236596830 TTTCAGCATA
Statistics
Matches: 78, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 78 1.00
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.27
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:236596862 original size:39 final size:40
Alignment explanation
Indices: 236596716--236596866 Score: 180
Period size: 40 Copynumber: 3.8 Consensus size: 40
236596706 ATCACGATTT
* * * *
236596716 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACTA
*
236596756 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAACTACTA
* * *
236596796 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-A
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACTA
* * *
236596835 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
236596867 CATTCAATTT
Statistics
Matches: 97, Mismatches: 12, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
39 31 0.32
40 64 0.66
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACTA
Found at i:236599752 original size:3 final size:3
Alignment explanation
Indices: 236599744--236599790 Score: 87
Period size: 3 Copynumber: 16.0 Consensus size: 3
236599734 ACAAGGATAT
236599744 ATA ATA ATA ATA AT- ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
236599791 TATATTGAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.05
3 41 0.95
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:236599921 original size:3 final size:3
Alignment explanation
Indices: 236599897--236599938 Score: 59
Period size: 3 Copynumber: 14.0 Consensus size: 3
236599887 AATGTATTTC
*
236599897 AAT AAC AAT -AT AAT ATAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
236599939 TGTTAGAGAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 2 0.06
3 30 0.86
4 3 0.09
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:236604149 original size:11 final size:12
Alignment explanation
Indices: 236604133--236604168 Score: 58
Period size: 11 Copynumber: 3.2 Consensus size: 12
236604123 AAGGAAAAAA
236604133 GAAGAGAG-AGG
1 GAAGAGAGAAGG
236604144 GAAGAGAGAAGG
1 GAAGAGAGAAGG
236604156 G-AGAGAGAAGG
1 GAAGAGAGAAGG
236604167 GA
1 GA
236604169 GGGGAATCCG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 19 0.83
12 4 0.17
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (12 bp):
GAAGAGAGAAGG
Found at i:236604283 original size:13 final size:13
Alignment explanation
Indices: 236604265--236604308 Score: 74
Period size: 13 Copynumber: 3.5 Consensus size: 13
236604255 AGGTAAATTT
236604265 TTTTTTTTGTATA
1 TTTTTTTTGTATA
236604278 TTTTTTTTGTATA
1 TTTTTTTTGTATA
236604291 --TTTTTTGTATA
1 TTTTTTTTGTATA
236604302 TTTTTTT
1 TTTTTTT
236604309 ATGTTTTAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
11 11 0.38
13 18 0.62
ACGTcount: A:0.14, C:0.00, G:0.07, T:0.80
Consensus pattern (13 bp):
TTTTTTTTGTATA
Found at i:236604315 original size:10 final size:11
Alignment explanation
Indices: 236604267--236604307 Score: 64
Period size: 11 Copynumber: 3.5 Consensus size: 11
236604257 GTAAATTTTT
236604267 TTTTTTGTATA
1 TTTTTTGTATA
236604278 TTTTTTTTGTATA
1 --TTTTTTGTATA
236604291 TTTTTTGTATA
1 TTTTTTGTATA
236604302 TTTTTT
1 TTTTTT
236604308 TATGTTTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
11 17 0.61
13 11 0.39
ACGTcount: A:0.15, C:0.00, G:0.07, T:0.78
Consensus pattern (11 bp):
TTTTTTGTATA
Found at i:236604729 original size:35 final size:35
Alignment explanation
Indices: 236604689--236604759 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
236604679 GGAGTGTGTG
*
236604689 ATGGTGTTGGTGGCAGACAGCATGGGAGAATGGGA
1 ATGGTGCTGGTGGCAGACAGCATGGGAGAATGGGA
*
236604724 ATGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGA
1 ATGGTGCTGGTGGCAGACAGCATGGGAGAATGGGA
236604759 A
1 A
236604760 GAGGCAAGTG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.25, C:0.10, G:0.46, T:0.18
Consensus pattern (35 bp):
ATGGTGCTGGTGGCAGACAGCATGGGAGAATGGGA
Found at i:236605704 original size:72 final size:72
Alignment explanation
Indices: 236605562--236605833 Score: 438
Period size: 72 Copynumber: 3.8 Consensus size: 72
236605552 CATGTGAACC
* * * *
236605562 GAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTGAAAATAGAAATTGAAAATACCTCAA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-ATTTTGAAAACAGAAATTGAAATTACCTCAA
*
236605627 TGTGTCTT
65 CGTGTCTT
**
236605635 GAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAAC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAAC
236605700 GTGTCTT
66 GTGTCTT
*
236605707 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCAAC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAAC
236605772 GTGTCTT
66 GTGTCTT
*
236605779 GAGGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTGACGAACAGAAATTGAAA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGA-AAACAGAAATTGAAA
236605834 AACAGAAATT
Statistics
Matches: 186, Mismatches: 12, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
71 6 0.03
72 150 0.81
73 30 0.16
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (72 bp):
GAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAAC
GTGTCTT
Found at i:236605837 original size:14 final size:14
Alignment explanation
Indices: 236605820--236605848 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
236605810 GATTTTGACG
236605820 AACAGAAATTGAAA
1 AACAGAAATTGAAA
236605834 AACAGAAATTGAAA
1 AACAGAAATTGAAA
236605848 A
1 A
236605849 TACCTCAGCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.66, C:0.07, G:0.14, T:0.14
Consensus pattern (14 bp):
AACAGAAATTGAAA
Found at i:236616990 original size:18 final size:18
Alignment explanation
Indices: 236616967--236617003 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
236616957 TTTACGTTTT
236616967 ACTTAAAGAAACTAAACC
1 ACTTAAAGAAACTAAACC
236616985 ACTTAAAGAAACTAAACC
1 ACTTAAAGAAACTAAACC
236617003 A
1 A
236617004 AAATTAAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.57, C:0.22, G:0.05, T:0.16
Consensus pattern (18 bp):
ACTTAAAGAAACTAAACC
Found at i:236619392 original size:21 final size:21
Alignment explanation
Indices: 236619345--236619397 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 21
236619335 CATATACGTG
236619345 TAATAAT-GATGAAAATAATAA
1 TAATAATAG-TGAAAATAATAA
236619366 TAATAATAGTGAAAATAAGTAAGA
1 TAATAATAGTGAAAATAA-T-A-A
236619390 TAATAATA
1 TAATAATA
236619398 CATATGATAG
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
21 16 0.57
22 2 0.07
23 1 0.04
24 9 0.32
ACGTcount: A:0.60, C:0.00, G:0.11, T:0.28
Consensus pattern (21 bp):
TAATAATAGTGAAAATAATAA
Found at i:236619486 original size:12 final size:12
Alignment explanation
Indices: 236619471--236619500 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
236619461 GGCTAATATG
236619471 AATAATGATAAT
1 AATAATGATAAT
*
236619483 AATACTGATAAT
1 AATAATGATAAT
236619495 AATAAT
1 AATAAT
236619501 AAAATACAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.57, C:0.03, G:0.07, T:0.33
Consensus pattern (12 bp):
AATAATGATAAT
Found at i:236619536 original size:18 final size:18
Alignment explanation
Indices: 236619436--236619579 Score: 69
Period size: 18 Copynumber: 7.4 Consensus size: 18
236619426 TGAAATGTGT
236619436 ATATATATATATAATAATA
1 ATATATA-ATATAATAATA
*
236619455 TATATAGGCTAATATGAATAATG
1 -ATATA---TAATAT-AATAATA
*
236619478 ATA-ATAATACTGATAATA
1 ATATATAATA-TAATAATA
* * *
236619496 ATAATAAAATACAAAAAGT-
1 AT-ATATAATATAATAA-TA
236619515 ATATATAATATAATAATA
1 ATATATAATATAATAATA
* *
236619533 ATATTAAAATACAATAATTA
1 ATA-TATAATATAATAA-TA
* *
236619553 A-AAATAATATTATACATAA
1 ATATATAATATAATA-AT-A
236619572 ATATATAA
1 ATATATAA
236619580 ACATTCACAT
Statistics
Matches: 93, Mismatches: 17, Indels: 28
0.67 0.12 0.20
Matches are distributed among these distances:
17 1 0.01
18 35 0.38
19 22 0.24
20 19 0.20
21 1 0.01
22 7 0.08
23 8 0.09
ACGTcount: A:0.58, C:0.03, G:0.04, T:0.34
Consensus pattern (18 bp):
ATATATAATATAATAATA
Found at i:236619560 original size:37 final size:37
Alignment explanation
Indices: 236619480--236619580 Score: 103
Period size: 37 Copynumber: 2.6 Consensus size: 37
236619470 GAATAATGAT
* * *
236619480 AATAATACTGATAATAATAATAAAATACAAAAAGTATA
1 AATAATA-TAATAATAATATTAAAATACAAAAAGTAAA
* * *
236619518 TATAATATAATAATAATATTAAAATACAATAATTAAA
1 AATAATATAATAATAATATTAAAATACAAAAAGTAAA
*
236619555 AATAATATTATACATAAATATATAAA
1 AATAATATAATA-AT-AATAT-TAAA
236619581 CATTCACATA
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
37 35 0.67
38 8 0.15
39 5 0.10
40 4 0.08
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (37 bp):
AATAATATAATAATAATATTAAAATACAAAAAGTAAA
Found at i:236619574 original size:26 final size:27
Alignment explanation
Indices: 236619519--236619580 Score: 76
Period size: 26 Copynumber: 2.4 Consensus size: 27
236619509 AAAAGTATAT
*
236619519 ATAATATAATAATAATATTAAAATACA
1 ATAATATAAAAATAATATTAAAATACA
*
236619546 ATAAT-TAAAAATAATATTATACATA-A
1 ATAATATAAAAATAATATTA-AAATACA
236619572 AT-ATATAAA
1 ATAATATAAA
236619581 CATTCACATA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
25 2 0.06
26 20 0.65
27 9 0.29
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (27 bp):
ATAATATAAAAATAATATTAAAATACA
Found at i:236621610 original size:136 final size:137
Alignment explanation
Indices: 236621231--236621631 Score: 637
Period size: 138 Copynumber: 2.9 Consensus size: 137
236621221 CTAAAGCTTG
* * * ** * * * *
236621231 ACTCA-CTCTCGCAATATGAGCTGATTTTTTTGAACAGTAGGAATTGAAAAGCAGAAATTGAAAG
1 ACTCACCTCTCGCAATATGAGTTGA-TTTTTTAAAAAACAGGAATTGGAAAGTAGAAACTGAAAA
* * *
236621295 TACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGGGTTGATTTTTTGAAAAACAAA
65 TACCTCAGCATGCCCCGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTGAAAAACAAA
236621360 AAGGTACA
130 AAGGTACA
236621368 ACTCACCTCTCGCAATATGAGTTGATTTTTTAAAAAAACAGGAATTGGAAAGTAGAAACTGAAAA
1 ACTCACCTCTCGCAATATGAGTTGATTTTTT-AAAAAACAGGAATTGGAAAGTAGAAACTGAAAA
236621433 TACCTCAGCATGCCCCGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTGAAAAACAAA
65 TACCTCAGCATGCCCCGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTGAAAAACAAA
236621498 AAGGTACA
130 AAGGTACA
236621506 ACTCACCTCTCGCAATATGAGTTGA-TTTTTAAAAAACAGGAATTGGAAAGTAGAAACTGAAAAT
1 ACTCACCTCTCGCAATATGAGTTGATTTTTTAAAAAACAGGAATTGGAAAGTAGAAACTGAAAAT
*
236621570 ACCTCAGCATGCCCCGAGGCTCAACTCACCTCTCATAATATGAGTTGA-TTTTTGAAACAACA
66 ACCTCAGCATGCCCCGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTGAAA-AACA
236621632 GGAATTAAAA
Statistics
Matches: 248, Mismatches: 13, Indels: 7
0.93 0.05 0.03
Matches are distributed among these distances:
135 9 0.04
136 85 0.34
137 16 0.06
138 138 0.56
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.26
Consensus pattern (137 bp):
ACTCACCTCTCGCAATATGAGTTGATTTTTTAAAAAACAGGAATTGGAAAGTAGAAACTGAAAAT
ACCTCAGCATGCCCCGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTGAAAAACAAAA
AGGTACA
Found at i:236621684 original size:73 final size:71
Alignment explanation
Indices: 236621565--236621767 Score: 246
Period size: 73 Copynumber: 2.8 Consensus size: 71
236621555 GTAGAAACTG
* * * *
236621565 AAAATACCTCAGCATGCCCCGAGGCTCAACTCACCTCTCATAATATGAGTTGATTTTTGAAACAA
1 AAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAC-A
236621630 CAGGAATT-
65 CA--AATTA
** ** * *
236621638 AAAATACCTCAGCGTGACCTGAGGCTTGACTCACCTCTCACAATATGAGTCAAATTTTGAAACAT
1 AAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAACAC
236621703 AAATTA
66 AAATTA
* *
236621709 AAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTT
1 AAAATACCTCAGC--GTGACCTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTT
236621768 CTTGGAAAAC
Statistics
Matches: 110, Mismatches: 17, Indels: 6
0.83 0.13 0.05
Matches are distributed among these distances:
70 4 0.04
71 13 0.12
72 2 0.02
73 91 0.83
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.27
Consensus pattern (71 bp):
AAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAACAC
AAATTA
Found at i:236621886 original size:56 final size:56
Alignment explanation
Indices: 236621821--236621977 Score: 246
Period size: 58 Copynumber: 2.8 Consensus size: 56
236621811 GCGTGCCTTG
*
236621821 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAAAAACA-AAAGTTGAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAAACATAAA-TTGAA
* *
236621877 AGGCTCAACTCACCTCTCGCAATATGGGTTGATTTATTTGAAAAAAATATAAATTGAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TT-TTTGAAAAAAACATAAATTGAA
236621935 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT-AAAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAA
236621978 CAGGAATTAA
Statistics
Matches: 94, Mismatches: 4, Indels: 7
0.90 0.04 0.07
Matches are distributed among these distances:
55 6 0.06
56 33 0.35
57 4 0.04
58 48 0.51
59 3 0.03
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.30
Consensus pattern (56 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAAACATAAATTGAA
Found at i:236622230 original size:68 final size:69
Alignment explanation
Indices: 236622118--236622252 Score: 209
Period size: 68 Copynumber: 2.0 Consensus size: 69
236622108 CAATTTTCTA
* *
236622118 AACATAAACTAAAAATACCTCAGCGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
1 AACATAAACTAAAAATACCTCAACGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAGCTGATT
236622183 TTGG
66 TTGG
* * **
236622187 AACATAAATTAAAATTACCTCAACGT-CTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATT
1 AACATAAACTAAAAATACCTCAACGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAGCTGATT
236622251 TT
66 TT
236622253 CTTGGAAAAC
Statistics
Matches: 60, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
68 37 0.62
69 23 0.38
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.27
Consensus pattern (69 bp):
AACATAAACTAAAAATACCTCAACGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAGCTGATT
TTGG
Found at i:236622395 original size:71 final size:71
Alignment explanation
Indices: 236622279--236622412 Score: 207
Period size: 71 Copynumber: 1.9 Consensus size: 71
236622269 TAAAAAGCAG
* *
236622279 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG
1 AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGCTGATTTTTG
236622344 AAACAT
66 AAACAT
* * *
236622350 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCA-TCTCTCGCAATATGAGCTGATTTT
1 AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACT-TCTCGCAATATGAGCTGATTTT
236622413 CTTGGAAAAC
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
70 1 0.02
71 56 0.98
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.31
Consensus pattern (71 bp):
AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGCTGATTTTTG
AAACAT
Found at i:236622407 original size:160 final size:158
Alignment explanation
Indices: 236622129--236622503 Score: 673
Period size: 160 Copynumber: 2.4 Consensus size: 158
236622119 ACATAAACTA
* *
236622129 AAAATACCTCAGCGTGCCC-GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTGGAACAT
1 AAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAACAT
236622192 AAATTAAAATTACCTCAACGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTCTTG
66 AAATTAAAATTACCTCAACGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTCTTG
*
236622257 GAAAACATGAATTAAAAAGCAGAAATTG
131 GAAAACATGAACTAAAAAGCAGAAATTG
236622285 AAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAACAT
1 AAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAACAT
* *
236622350 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAGCTGATTTTCT
66 AAATTAAAATTACCTCAAC--GTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTCT
236622415 TGGAAAACATGAACTAAAAAGCAGAAATTG
129 TGGAAAACATGAACTAAAAAGCAGAAATTG
236622445 AAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG
1 AAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG
236622504 GAAAAAACAA
Statistics
Matches: 210, Mismatches: 5, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
156 19 0.09
157 32 0.15
158 28 0.13
160 131 0.62
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.28
Consensus pattern (158 bp):
AAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAACAT
AAATTAAAATTACCTCAACGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTCTTG
GAAAACATGAACTAAAAAGCAGAAATTG
Found at i:236634963 original size:19 final size:20
Alignment explanation
Indices: 236634947--236634985 Score: 62
Period size: 19 Copynumber: 1.9 Consensus size: 20
236634937 GTAATAATGA
236634947 TGAAAATAA-TAAATAATAG
1 TGAAAATAAGTAAATAATAG
236634966 TGAAAATAAGTAAGATAATA
1 TGAAAATAAGTAA-ATAATA
236634986 ATACATATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 9 0.50
20 3 0.17
21 6 0.33
ACGTcount: A:0.62, C:0.00, G:0.13, T:0.26
Consensus pattern (20 bp):
TGAAAATAAGTAAATAATAG
Found at i:236635115 original size:19 final size:19
Alignment explanation
Indices: 236635062--236635127 Score: 52
Period size: 19 Copynumber: 3.6 Consensus size: 19
236635052 GGCTAATATG
*
236635062 AATAATGATAATAATACTGA
1 AATAATAAT-ATAATACTGA
*
236635082 AATAATAATAAAATAC-GA
1 AATAATAATATAATACTGA
236635100 AA-AAGTATATATAATA-T--
1 AATAA-TA-ATATAATACTGA
236635117 AATAATAATAT
1 AATAATAATAT
236635128 TAAAATACAA
Statistics
Matches: 39, Mismatches: 3, Indels: 12
0.72 0.06 0.22
Matches are distributed among these distances:
16 4 0.10
17 6 0.15
18 8 0.21
19 13 0.33
20 8 0.21
ACGTcount: A:0.61, C:0.03, G:0.06, T:0.30
Consensus pattern (19 bp):
AATAATAATATAATACTGA
Found at i:236638473 original size:30 final size:30
Alignment explanation
Indices: 236638388--236638517 Score: 171
Period size: 29 Copynumber: 4.5 Consensus size: 30
236638378 GACAAGATTG
* * * *
236638388 GCACTAAGTGTGCG-GTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
236638417 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
236638445 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
236638475 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
236638504 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
236638518 GATTCACTAT
Statistics
Matches: 92, Mismatches: 4, Indels: 10
0.87 0.04 0.09
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 34 0.37
30 32 0.35
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:236644575 original size:40 final size:40
Alignment explanation
Indices: 236644473--236644656 Score: 174
Period size: 40 Copynumber: 4.6 Consensus size: 40
236644463 AAATTGAATG
* * * * *
236644473 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAG-TAGTT
* *
236644513 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
236644553 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
236644593 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
236644633 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
236644657 CTTGGTGCGG
Statistics
Matches: 121, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
39 3 0.02
40 115 0.95
41 3 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:236652689 original size:40 final size:40
Alignment explanation
Indices: 236652587--236652770 Score: 174
Period size: 40 Copynumber: 4.6 Consensus size: 40
236652577 AAATTGAATG
* * * * *
236652587 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAG-TAGTT
* *
236652627 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
236652667 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
236652707 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
236652747 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
236652771 CTTGGTGCGG
Statistics
Matches: 121, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
39 3 0.02
40 115 0.95
41 3 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:236657132 original size:120 final size:122
Alignment explanation
Indices: 236656850--236657184 Score: 534
Period size: 121 Copynumber: 2.8 Consensus size: 122
236656840 GAATTATGTG
*
236656850 AAATGAAAATATGGATGTGTAATGATTATTGACATATGTGTGTATGAGTATTTGAATGGTACCCG
1 AAAT-AAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCG
*
236656915 GGCTAAGTCCCGAAGGC-ATTATGCTAGTGATATGTTTGTGTTGAGCCTTAGTAACGA
65 GGCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTGAGCCTTAGTAAAGA
*
236656972 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCC-G
1 AAATAAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
236657036 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATG-TTGTGTTCGAGCCTTAGTAAAGA
66 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTT-GAGCCTTAGTAAAGA
* * * * *
236657093 AAATAAAATATGGAT-TGTAATGATTATTGATTTATGTGTGCATGAGCAATTGAATGATACCCGG
1 AAATAAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
* *
236657157 GCTAAGTCCCGAAGACATTTATGCTAGT
66 GCTAAGTCCCGAAGGCAATTATGCTAGT
236657185 AATTATATCC
Statistics
Matches: 199, Mismatches: 11, Indels: 7
0.92 0.05 0.03
Matches are distributed among these distances:
120 66 0.33
121 129 0.65
122 4 0.02
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.33
Consensus pattern (122 bp):
AAATAAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTGAGCCTTAGTAAAGA
Found at i:236657282 original size:40 final size:40
Alignment explanation
Indices: 236657153--236657395 Score: 269
Period size: 40 Copynumber: 6.0 Consensus size: 40
236657143 TGAATGATAC
* * * **
236657153 CCGGGCTAAGT-CCCGAAGACATTTATGCTAGTAATTATAT
1 CCGGGCTAA-TACCCGAAGGCATTTGTGCAAGTTGTTATAT
* * * *
236657193 CCGGGTTAAGA-CCGAAGGCAATTTGCTGCTAG-TGACTATAT
1 CCGGGCTAATACCCGAAGGC-ATTTG-TGCAAGTTG-TTATAT
236657234 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATAT
1 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATAT
*
236657274 CCGAGCTAATACCCGAAGGCATTT-TGCAAGTTGTTATAT
1 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATAT
*
236657313 CCGGGCTAATACCCGAAGGCATTGTGTGCAAGTCGTTATAT
1 CCGGGCTAATACCCGAAGGCATT-TGTGCAAGTTGTTATAT
* * * * *
236657354 CCGGGCTAAGACCCGAGGGCATTCGTGCATGTGGTTATAT
1 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATAT
236657394 CC
1 CC
236657396 AGTTGTATTC
Statistics
Matches: 176, Mismatches: 19, Indels: 16
0.83 0.09 0.08
Matches are distributed among these distances:
39 44 0.25
40 62 0.35
41 62 0.35
42 8 0.05
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.28
Consensus pattern (40 bp):
CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATAT
Found at i:236657410 original size:80 final size:79
Alignment explanation
Indices: 236657153--236657395 Score: 265
Period size: 81 Copynumber: 3.0 Consensus size: 79
236657143 TGAATGATAC
* * * ** * *
236657153 CCGGGCTAAGT-CCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGA-CCGAAGGCAATT
1 CCGGGCTAA-TACCCGAAGGCATTTGTGCAAGTCGTTATATCCGAGCTAAGACCCGAAGGC-A-T
* **
236657216 TGCTGCTAGTGACTATAT
63 TG-TGCAAGTGGTTATAT
* * *
236657234 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATATCCGAGCTAATACCCGAAGGCATTTT
1 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTTATATCCGAGCTAAGACCCGAAGGCATTGT
*
236657299 GCAAGTTGTTATAT
66 GCAAGTGGTTATAT
* *
236657313 CCGGGCTAATACCCGAAGGCATTGTGTGCAAGTCGTTATATCCGGGCTAAGACCCGAGGGCATTC
1 CCGGGCTAATACCCGAAGGCATT-TGTGCAAGTCGTTATATCCGAGCTAAGACCCGAAGGCATT-
*
236657378 GTGCATGTGGTTATAT
64 GTGCAAGTGGTTATAT
236657394 CC
1 CC
236657396 AGTTGTATTC
Statistics
Matches: 138, Mismatches: 20, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
79 34 0.25
80 39 0.28
81 57 0.41
82 8 0.06
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.28
Consensus pattern (79 bp):
CCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTTATATCCGAGCTAAGACCCGAAGGCATTGT
GCAAGTGGTTATAT
Found at i:236660177 original size:40 final size:40
Alignment explanation
Indices: 236660052--236660178 Score: 134
Period size: 40 Copynumber: 3.2 Consensus size: 40
236660042 AAATTGAATG
* * * ***
236660052 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGGTT
* *
236660091 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGGTT
*
236660131 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-ACGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTA-GTGGTT
236660171 ATATCCGG
1 ATATCCGG
236660179 TTGTATTCCG
Statistics
Matches: 73, Mismatches: 12, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
39 17 0.23
40 56 0.77
ACGTcount: A:0.27, C:0.23, G:0.28, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGGTT
Found at i:236668128 original size:39 final size:40
Alignment explanation
Indices: 236668005--236668129 Score: 116
Period size: 39 Copynumber: 3.2 Consensus size: 40
236667995 GAATTGAATG
* * * ***
236668005 ATATCCGGGCTAAG-CCCGAAGAC-ATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGGTT
* *
236668043 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGGTT
*
236668083 ACATCCGGGCTAAGACCC-AAGGC-ATTCGTGC-ACGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTA-GTGGTT
236668122 ATATCCGG
1 ATATCCGG
236668130 TTGTATTCCG
Statistics
Matches: 71, Mismatches: 12, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
38 17 0.24
39 29 0.41
40 25 0.35
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGGTT
Found at i:236675555 original size:66 final size:68
Alignment explanation
Indices: 236675479--236675665 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
236675469 TAGTACCACT
*
236675479 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
236675541 CACG
65 CACG
236675545 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
236675610 ATCACG
63 ATCACG
236675616 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
236675666 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:236675590 original size:71 final size:71
Alignment explanation
Indices: 236675502--236675665 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
236675492 CGATTTGTCT
236675502 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
236675567 CTTTCA
66 CTTTCA
236675573 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
236675638 CTTTCA
66 CTTTCA
236675644 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
236675666 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:236675703 original size:71 final size:70
Alignment explanation
Indices: 236675502--236675699 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
236675492 CGATTTGTCT
* * *
236675502 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
236675567 CTTTCA
65 CTTTCA
* * *
236675573 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
236675638 CTTTCA
65 CTTTCA
* *
236675644 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
236675700 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:236689280 original size:47 final size:49
Alignment explanation
Indices: 236689217--236689384 Score: 165
Period size: 47 Copynumber: 3.6 Consensus size: 49
236689207 ATTATGAGAA
236689217 CCAGTGTAAGACCATGTCTGGGACATGGCATCGACATCCAGA-A-GGGGG
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCGACA-CCAGATATGGGGG
* * *
236689265 CTAGTGTAAGA-CATGTCTGGGACAT-GCAT--A-AGCCATATTATGAGGG
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCGACA-CCAGA-TATGGGGG
** * * *
236689311 CCAGTGTAAGATAATGTCTGGGACATGGCATCGGCA-CAGAGATGGGTG
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCGACACCAGATATGGGGG
*
236689359 CCAGAGTAAGA-CATGTCTGGGACATG
1 CCAGTGTAAGACCATGTCTGGGACATG
236689385 CATTGGCCTT
Statistics
Matches: 99, Mismatches: 13, Indels: 17
0.77 0.10 0.13
Matches are distributed among these distances:
43 5 0.05
44 1 0.01
45 1 0.01
46 18 0.18
47 41 0.41
48 29 0.29
49 3 0.03
51 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.32, T:0.21
Consensus pattern (49 bp):
CCAGTGTAAGACCATGTCTGGGACATGGCATCGACACCAGATATGGGGG
Found at i:236689334 original size:94 final size:92
Alignment explanation
Indices: 236689173--236689530 Score: 357
Period size: 94 Copynumber: 3.8 Consensus size: 92
236689163 TTTGTGCGCC
* * * *
236689173 AGTGTAAGACATGTCTGGGATATGCTTCAGCTACATTATGAGAACCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGG
*
236689238 GACATGGCATCGACATCCAGAAGGGGGCT
66 GACATGGCATCGACA--CAGAAGGGTGCT
* * * **
236689267 AGTGTAAGACATGTCTGGGACATGCATAAGCCATATTATGAGGGCCAGTGTAAGATAATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGG
* *
236689332 GACATGGCATCGGCACAGAGATGGGTGCC
66 GACATGGCATCGACACAGA-A-GGGTGCT
* ** *** * *
236689361 AGAGTAAGACATGTCTGGGACATGCATTGGCCTTGTCA-GAGATAGCCAGTGTAAGA-CGTGTCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAG--AGCCAGTGTAAGACCATGTCT
* * * *
236689424 GGGACA-CGCATC-AGCAAAG-AGTTGTACT
64 GGGACATGGCATCGA-CACAGAAG-GGTGCT
*
236689452 AGTGTAAGACATGTCTGGGACATGCATCAGCACACATATATGAGATCCAGTGTAAGACCATGTCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGC-CACAT-TATGAGAGCCAGTGTAAGACCATGTCT
*
236689517 GAGACATGGCATCG
64 GGGACATGGCATCG
236689531 GCAATATATC
Statistics
Matches: 214, Mismatches: 38, Indels: 23
0.78 0.14 0.08
Matches are distributed among these distances:
90 1 0.00
91 32 0.15
92 18 0.08
93 25 0.12
94 126 0.59
95 12 0.06
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (92 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGG
GACATGGCATCGACACAGAAGGGTGCT
Found at i:236691213 original size:19 final size:19
Alignment explanation
Indices: 236691189--236691230 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
236691179 TTCAAGTCAT
236691189 ATAAATCAAGCAAACATCA
1 ATAAATCAAGCAAACATCA
236691208 ATAAATCAAGCAAACATCA
1 ATAAATCAAGCAAACATCA
236691227 ATAA
1 ATAA
236691231 CATGTATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.60, C:0.19, G:0.05, T:0.17
Consensus pattern (19 bp):
ATAAATCAAGCAAACATCA
Done.