Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D01
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: 62811768
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 736185 characters in sequence are not A, C, G, or T
File 18 of 211
Found at i:4937564 original size:22 final size:22
Alignment explanation
Indices: 4937517--4937564 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
4937507 TTGATATTTT
* *
4937517 ATATTTTAAAAAACATATATAT
1 ATATTTTAAAAAACATATAGAA
*
4937539 ATATTTTAAAAGA-ATATAGAGA
1 ATATTTTAAAAAACATATAGA-A
4937561 ATAT
1 ATAT
4937565 ATAAAGATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 6 0.27
22 16 0.73
ACGTcount: A:0.54, C:0.02, G:0.06, T:0.38
Consensus pattern (22 bp):
ATATTTTAAAAAACATATAGAA
Found at i:4939121 original size:38 final size:39
Alignment explanation
Indices: 4939071--4939171 Score: 132
Period size: 38 Copynumber: 2.6 Consensus size: 39
4939061 TCATTTCTTT
*
4939071 TCATTTTAATAATTTTTTACAATATTTTACAATTTCTAA
1 TCATTTTTATAATTTTTTACAATATTTTACAATTTCTAA
* *
4939110 -CATTTTTATAATTTTTTACAATATTTTATAGTTTCTAA
1 TCATTTTTATAATTTTTTACAATATTTTACAATTTCTAA
* * *
4939148 TTACTTTTATATTTTTATTACAAT
1 TCATTTTTATAATTTT-TTACAAT
4939172 TTAAAAAAAA
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
38 35 0.65
39 12 0.22
40 7 0.13
ACGTcount: A:0.33, C:0.09, G:0.01, T:0.57
Consensus pattern (39 bp):
TCATTTTTATAATTTTTTACAATATTTTACAATTTCTAA
Found at i:4940633 original size:15 final size:17
Alignment explanation
Indices: 4940598--4940634 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
4940588 ATATATTATC
*
4940598 TTAATTTTTTAATAATG
1 TTAATTTTTTAATAATA
4940615 TTAATTTTTTAA-AA-A
1 TTAATTTTTTAATAATA
4940630 TTAAT
1 TTAAT
4940635 ATATAGTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 5 0.26
16 2 0.11
17 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.57
Consensus pattern (17 bp):
TTAATTTTTTAATAATA
Found at i:4944944 original size:14 final size:14
Alignment explanation
Indices: 4944925--4944956 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
4944915 AATAAAATTG
*
4944925 AAAAAAATAACAAT
1 AAAAAAATAACAAC
4944939 AAAAAAATAACAAC
1 AAAAAAATAACAAC
4944953 AAAA
1 AAAA
4944957 CCAAATATCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.81, C:0.09, G:0.00, T:0.09
Consensus pattern (14 bp):
AAAAAAATAACAAC
Found at i:4957907 original size:21 final size:23
Alignment explanation
Indices: 4957860--4957917 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 23
4957850 TTCTCTAAAT
4957860 TGTATTT-GTATTTTCGTTGTTA
1 TGTATTTAGTATTTTCGTTGTTA
*
4957882 -ATATTTAGTATTTTC-TT-TTA
1 TGTATTTAGTATTTTCGTTGTTA
*
4957902 TGTATTATATTATTTT
1 TGTATT-TAGTATTTT
4957918 AAACTATTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
20 3 0.10
21 11 0.37
22 16 0.53
ACGTcount: A:0.21, C:0.03, G:0.10, T:0.66
Consensus pattern (23 bp):
TGTATTTAGTATTTTCGTTGTTA
Found at i:4958010 original size:15 final size:15
Alignment explanation
Indices: 4957990--4958038 Score: 59
Period size: 15 Copynumber: 3.5 Consensus size: 15
4957980 AGCATTTATT
4957990 ATTTATTTGAGACTC
1 ATTTATTTGAGACTC
* *
4958005 ATTTA-TT-ATA-TT
1 ATTTATTTGAGACTC
4958017 ATTTATTTGAGACTC
1 ATTTATTTGAGACTC
4958032 ATTTATT
1 ATTTATT
4958039 ATTATTTTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
12 6 0.22
13 4 0.15
14 4 0.15
15 13 0.48
ACGTcount: A:0.29, C:0.08, G:0.08, T:0.55
Consensus pattern (15 bp):
ATTTATTTGAGACTC
Found at i:4958010 original size:22 final size:22
Alignment explanation
Indices: 4957982--4958045 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 22
4957972 CATATGAAAG
4957982 CATTTATTATTTATTTGAGACT
1 CATTTATTATTTATTTGAGACT
4958004 CATTTATTATATTATTTATTTGAGACT
1 C----ATT-TATTATTTATTTGAGACT
4958031 CATTTATTA-TTATTT
1 CATTTATTATTTATTT
4958046 TAAGTTTGCT
Statistics
Matches: 37, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
21 6 0.16
22 6 0.16
23 3 0.08
26 3 0.08
27 19 0.51
ACGTcount: A:0.28, C:0.08, G:0.06, T:0.58
Consensus pattern (22 bp):
CATTTATTATTTATTTGAGACT
Found at i:4958021 original size:27 final size:27
Alignment explanation
Indices: 4957986--4958040 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
4957976 TGAAAGCATT
4957986 TATTATTTATTTGAGACTCATTTATTA
1 TATTATTTATTTGAGACTCATTTATTA
4958013 TATTATTTATTTGAGACTCATTTATTA
1 TATTATTTATTTGAGACTCATTTATTA
4958040 T
1 T
4958041 TATTTTAAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.29, C:0.07, G:0.07, T:0.56
Consensus pattern (27 bp):
TATTATTTATTTGAGACTCATTTATTA
Found at i:4962589 original size:3 final size:3
Alignment explanation
Indices: 4962581--4962622 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
4962571 TTTTCATACT
4962581 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
4962623 AACTCAATAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:4964544 original size:38 final size:38
Alignment explanation
Indices: 4964493--4964582 Score: 180
Period size: 38 Copynumber: 2.4 Consensus size: 38
4964483 CCCTTCTAGC
4964493 TTCTGCCGATTTGCTCCCTCTGTTTCTTTTCTTTTCTT
1 TTCTGCCGATTTGCTCCCTCTGTTTCTTTTCTTTTCTT
4964531 TTCTGCCGATTTGCTCCCTCTGTTTCTTTTCTTTTCTT
1 TTCTGCCGATTTGCTCCCTCTGTTTCTTTTCTTTTCTT
4964569 TTCTGCCGATTTGC
1 TTCTGCCGATTTGC
4964583 CAGTTTCTGC
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 52 1.00
ACGTcount: A:0.03, C:0.29, G:0.12, T:0.56
Consensus pattern (38 bp):
TTCTGCCGATTTGCTCCCTCTGTTTCTTTTCTTTTCTT
Found at i:4964665 original size:25 final size:25
Alignment explanation
Indices: 4964637--4964686 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
4964627 CAACATTACG
*
4964637 CTTGGCCTTCTCAACTAGTCAACCT
1 CTTGGCCTTCTCAACCAGTCAACCT
4964662 CTTGGCCTTCTCAACCAGTCAACCT
1 CTTGGCCTTCTCAACCAGTCAACCT
4964687 TTTCTTTTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.20, C:0.38, G:0.12, T:0.30
Consensus pattern (25 bp):
CTTGGCCTTCTCAACCAGTCAACCT
Found at i:4966613 original size:26 final size:26
Alignment explanation
Indices: 4966573--4966639 Score: 127
Period size: 26 Copynumber: 2.6 Consensus size: 26
4966563 TTGTATTAAT
4966573 ATCAAAAAATG-TGAGTACTACATGG
1 ATCAAAAAATGATGAGTACTACATGG
4966598 ATCAAAAAATGATGAGTACTACATGG
1 ATCAAAAAATGATGAGTACTACATGG
4966624 ATCAAAAAATGATGAG
1 ATCAAAAAATGATGAG
4966640 ATCGTTATTA
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
25 11 0.27
26 30 0.73
ACGTcount: A:0.48, C:0.10, G:0.19, T:0.22
Consensus pattern (26 bp):
ATCAAAAAATGATGAGTACTACATGG
Found at i:4967562 original size:33 final size:33
Alignment explanation
Indices: 4967525--4967590 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
4967515 AATCTAACAA
* *
4967525 ATACCGACAATTAATTTTAGGTCAATTATACAT
1 ATACCAACAATTAATTTTAGGCCAATTATACAT
4967558 ATACCAACAATTAATTTTAGGCCAATTATACAT
1 ATACCAACAATTAATTTTAGGCCAATTATACAT
4967591 GCTTTATAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.41, C:0.17, G:0.08, T:0.35
Consensus pattern (33 bp):
ATACCAACAATTAATTTTAGGCCAATTATACAT
Found at i:4967800 original size:69 final size:68
Alignment explanation
Indices: 4967683--4967839 Score: 226
Period size: 69 Copynumber: 2.3 Consensus size: 68
4967673 TTTTTGCTTC
* * * * *
4967683 GTGTGTTCTAAATTAATATTGTTTATTTTTATTTGATAATGTGTAATTGCAGCTTTAATTCTTTG
1 GTGTGTTCTAAATTAATATTGTATATTTTTATTGGATAATGTGTAATTGAAACTTCAATTCTTTG
4967748 ATA
66 ATA
4967751 GTGTGTTCTAAATTAATATTGTATATTTTT-TTAGGTATAATGTGTAATTGAAACTTCAATTCTT
1 GTGTGTTCTAAATTAATATTGTATATTTTTATT-GG-ATAATGTGTAATTGAAACTTCAATTCTT
4967815 TGATA
64 TGATA
*
4967820 GTGTGTTCTAATTTTAATAT
1 GTGTGTTCTAA-ATTAATAT
4967840 GTTGCAGTAA
Statistics
Matches: 80, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
67 2 0.03
68 30 0.38
69 41 0.51
70 7 0.09
ACGTcount: A:0.28, C:0.06, G:0.15, T:0.52
Consensus pattern (68 bp):
GTGTGTTCTAAATTAATATTGTATATTTTTATTGGATAATGTGTAATTGAAACTTCAATTCTTTG
ATA
Found at i:4970842 original size:90 final size:90
Alignment explanation
Indices: 4970717--4970922 Score: 315
Period size: 90 Copynumber: 2.3 Consensus size: 90
4970707 CTGATTTTAG
* *
4970717 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATT-T
* * *
4970782 ATTTAATATTAATTA-TTTAAATTGTA
64 ATGTAATAATAATTATTTTAAATTATA
*
4970808 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTTAT
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTTAT
4970873 GTAATAATAATTATTTTAAATTATA
66 GTAATAATAATTATTTTAAATTATA
* *
4970898 CAAATTCATATAAGATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
4970923 GTTATAATTA
Statistics
Matches: 106, Mismatches: 8, Indels: 3
0.91 0.07 0.03
Matches are distributed among these distances:
89 14 0.13
90 76 0.72
91 16 0.15
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (90 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTTAT
GTAATAATAATTATTTTAAATTATA
Found at i:4970871 original size:27 final size:25
Alignment explanation
Indices: 4970841--4970894 Score: 72
Period size: 27 Copynumber: 2.1 Consensus size: 25
4970831 TATCAAGAAT
*
4970841 TTTATGAAATTATATATTATTATTAAA
1 TTTATGAAATAATA-ATTATT-TTAAA
*
4970868 TTTATGTAATAATAATTATTTTAAA
1 TTTATGAAATAATAATTATTTTAAA
4970893 TT
1 TT
4970895 ATACAAATTC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.28
26 6 0.24
27 12 0.48
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.54
Consensus pattern (25 bp):
TTTATGAAATAATAATTATTTTAAA
Found at i:4970897 original size:43 final size:42
Alignment explanation
Indices: 4970757--4970897 Score: 108
Period size: 43 Copynumber: 3.2 Consensus size: 42
4970747 GAATTTTATG
* *
4970757 AAATTATATATCATTATTAAATTATATTTAATATTAATTA-TTT
1 AAATTATATATTATTATTAAATT-TA-TTAATAATAATTATTTT
* ** * *
4970800 AAATTGTATAAATTCATATAAGAAAATTTATT-ATCAAGAATT-TTATG
1 AAA-T-TATATATT-AT-T-ATTAAATTTATTAAT-AATAATTATT-TT
4970847 AAATTATATATTATTATTAAATTTATGTAATAATAATTATTTT
1 AAATTATATATTATTATTAAATTTAT-TAATAATAATTATTTT
4970890 AAATTATA
1 AAATTATA
4970898 CAAATTCATA
Statistics
Matches: 75, Mismatches: 12, Indels: 22
0.69 0.11 0.20
Matches are distributed among these distances:
42 9 0.12
43 20 0.27
44 7 0.09
45 15 0.20
46 11 0.15
47 7 0.09
48 6 0.08
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (42 bp):
AAATTATATATTATTATTAAATTTATTAATAATAATTATTTT
Found at i:4971015 original size:59 final size:57
Alignment explanation
Indices: 4970949--4971137 Score: 152
Period size: 59 Copynumber: 3.2 Consensus size: 57
4970939 ATTTTATTAA
4970949 ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATCTTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTATTT-AAATTAT-TTTTATAGT
* * ** * *
4971008 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATT-TTATTA-A--
1 ATCATATATT-TTAATT-A--AAA-T-ATAT-TTAATATTAATTATTTA-AATTATTTTTATAGT
* * * *
4971069 ATTATATATTTTAATTACAATATATTTAATAATAATTATGTTAATTTATATTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTAAATTAT-TTTTATAGT
4971128 ATCATATATT
1 ATCATATATT
4971138 ATGATTTGAG
Statistics
Matches: 99, Mismatches: 17, Indels: 28
0.69 0.12 0.19
Matches are distributed among these distances:
54 14 0.14
55 7 0.07
56 5 0.05
57 3 0.03
59 20 0.20
60 8 0.08
61 10 0.10
63 4 0.04
64 5 0.05
65 6 0.06
66 17 0.17
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.50
Consensus pattern (57 bp):
ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTAAATTATTTTTATAGT
Found at i:4971046 original size:66 final size:64
Alignment explanation
Indices: 4970976--4971174 Score: 179
Period size: 66 Copynumber: 3.2 Consensus size: 64
4970966 AAATATATTT
4970976 AATATTAATTATTTCAAATTATCTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTATTT-AAATTAT-TTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
4971041 G
64 G
* * * * *
4971042 AATATTAATTATTAAGAATT-TTATTA-A--AT--TATA-TAT--TTTAATTACAA-T-ATAT-T
1 AATATTAATTATTTA-AATTATTTTTATAGTATCATATATTATGATTTGAGTA-AATTCATATAA
*
4971095 T
64 G
* *
4971096 AATAATAATTATGTTAATTTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTAT-TTAAATTAT-TTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
4971161 G
64 G
*
4971162 AATATTGATTATT
1 AATATTAATTATT
4971175 AAGAATTTTA
Statistics
Matches: 101, Mismatches: 16, Indels: 33
0.67 0.11 0.22
Matches are distributed among these distances:
54 14 0.14
55 7 0.07
56 11 0.11
57 3 0.03
58 3 0.03
59 6 0.06
61 6 0.06
62 3 0.03
63 3 0.03
64 11 0.11
65 7 0.07
66 27 0.27
ACGTcount: A:0.41, C:0.04, G:0.07, T:0.49
Consensus pattern (64 bp):
AATATTAATTATTTAAATTATTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAG
Found at i:4971053 original size:120 final size:120
Alignment explanation
Indices: 4970938--4971235 Score: 508
Period size: 120 Copynumber: 2.5 Consensus size: 120
4970928 AATTATTTTA
* * *
4970938 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATCTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT-AAATTATATTT
4971002 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
* *
4971058 AATTTTATTAAATTATATATTTTAATTACAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTT
*
4971123 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
4971178 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTAAAT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATG-TTAAAT
4971236 ATGATTAAAT
Statistics
Matches: 168, Mismatches: 8, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
120 161 0.96
121 7 0.04
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTT
ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:4971078 original size:61 final size:61
Alignment explanation
Indices: 4971011--4971198 Score: 190
Period size: 61 Copynumber: 3.1 Consensus size: 61
4971001 TTATAGTATC
4971011 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
* * ** * * * * * * *
4971072 ATATATTTTAATTACAATATATTTA-ATAATAATTATGTTAA-T-TT-A-TATTTTA-TAGTATC
1 ATATATTATGATTTGAGTAAATTCATATAAGAA-TA--TTAATTATTAAGAATTTTATTA-AATT
*
4971131 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
4971192 ATATATT
1 ATATATT
4971199 TTAATTATAA
Statistics
Matches: 94, Mismatches: 23, Indels: 20
0.69 0.17 0.15
Matches are distributed among these distances:
57 3 0.03
58 3 0.03
59 30 0.32
60 14 0.15
61 37 0.39
62 3 0.03
63 4 0.04
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.48
Consensus pattern (61 bp):
ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
Found at i:4971195 original size:59 final size:58
Alignment explanation
Indices: 4971012--4971195 Score: 164
Period size: 59 Copynumber: 3.1 Consensus size: 58
4971002 TATAGTATCA
4971012 TATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAAT
1 TATATTATGATTTGAGTAAATTCATATAAGAATATT-ATTATTAAGAATTTTATTAAAT
* * * * * * *
4971071 TATA-TAT--TTTAATTACAATAT-ATTTAATAATAATTATGTTAATTTA-TATTTTA-TAGTAT
1 TATATTATGATTTGAGTA-AAT-TCATATAAGAAT-ATTA--TT-ATTAAGAATTTTATTA-AAT
4971130 CATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAAT
1 --TATATTATGATTTGAGTAAATTCATATAAGAATATT-ATTATTAAGAATTTTATTAAAT
4971191 TATAT
1 TATAT
4971196 ATTTTAATTA
Statistics
Matches: 95, Mismatches: 14, Indels: 32
0.67 0.10 0.23
Matches are distributed among these distances:
56 6 0.06
57 12 0.13
58 9 0.09
59 19 0.20
60 8 0.08
61 14 0.15
62 9 0.09
63 12 0.13
64 6 0.06
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.48
Consensus pattern (58 bp):
TATATTATGATTTGAGTAAATTCATATAAGAATATTATTATTAAGAATTTTATTAAAT
Found at i:4971213 original size:16 final size:16
Alignment explanation
Indices: 4971192--4971233 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
4971182 TTATTAAATT
*
4971192 ATATATTTTAATTATA
1 ATATATTTTAATAATA
4971208 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
4971223 AT-TATGTTTAA
1 ATATAT-TTTAA
4971234 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:4971218 original size:15 final size:15
Alignment explanation
Indices: 4971183--4971224 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
4971173 TTAAGAATTT
*
4971183 TATTAAATTAT-ATA
1 TATTTAATTATAATA
4971197 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
4971211 TATTTAATAATAAT
1 TATTTAATTATAAT
4971225 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:4971452 original size:37 final size:37
Alignment explanation
Indices: 4971362--4971462 Score: 116
Period size: 37 Copynumber: 2.7 Consensus size: 37
4971352 TTTTCCATTA
*
4971362 TGCTATTACACCTCTATTTCATTCAACCAAACACAAGAAT
1 TGCTATTACACCTCTATTCCATT--A-CAAACACAAGAAT
* * *
4971402 T-CTATTACGCCTCTATTCCATTACAAACA-ATTGATT
1 TGCTATTACACCTCTATTCCATTACAAACACA-AGAAT
4971438 TGCTATTACACCTCTATTCCATTAC
1 TGCTATTACACCTCTATTCCATTAC
4971463 GCCTCTATTC
Statistics
Matches: 54, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
35 1 0.02
36 10 0.19
37 23 0.43
39 19 0.35
40 1 0.02
ACGTcount: A:0.32, C:0.28, G:0.05, T:0.36
Consensus pattern (37 bp):
TGCTATTACACCTCTATTCCATTACAAACACAAGAAT
Found at i:4971467 original size:16 final size:16
Alignment explanation
Indices: 4971442--4971479 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
4971432 TTGATTTGCT
4971442 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
*
4971458 ATTACGCCTCTATTCC
1 ATTACACCTCTATTCC
4971474 ATTACA
1 ATTACA
4971480 ACGAACCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.26, C:0.34, G:0.03, T:0.37
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:4971638 original size:18 final size:19
Alignment explanation
Indices: 4971611--4971649 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
4971601 GTATTTTTAC
* *
4971611 TAAAATAATACTAAAA-AA
1 TAAAAAAATACCAAAATAA
4971629 TAAAAAAATACCAAAATAA
1 TAAAAAAATACCAAAATAA
4971648 TA
1 TA
4971650 TAATTTTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.72, C:0.08, G:0.00, T:0.21
Consensus pattern (19 bp):
TAAAAAAATACCAAAATAA
Found at i:4972153 original size:151 final size:151
Alignment explanation
Indices: 4971764--4972871 Score: 1054
Period size: 152 Copynumber: 7.4 Consensus size: 151
4971754 AACATGTTCG
* ** * *
4971764 TATTTCAGCCATTTGTTCGTATTTTTTCCCCTGATTTTATTACTTTTAAAAACTATACTATTTTC
1 TATTTCGGCC-TTTGTTCGTATTTTTTCCCAAGATTTTATTACTTTCAAAAA-AATACTATTTTC
*
4971829 TAATTTTATTATTTTACATTATTTTTGTACATTATGTTTGAAATGTATTCATTTAGTGTG-TTTT
64 TAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTT
** * * *
4971893 TATTTAAA-TTAAAAAAAATCTT
129 TAAATAAATTTTAAAAAAACCCT
* * * *
4971915 TATTTCCGCCATTTGTTCGT-TTTTTT--CAGGATTTTATTATTTTCAATAAAAATATATTATTT
1 TATTTCGGCC-TTTGTTCGTATTTTTTCCCAAGATTTTATTACTTTC-A-AAAAA-ATACTATTT
* *
4971977 TCGT-ATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTACTGTGTT
62 TC-TAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTT
4972041 TTTTAAATAAATTTTAAAAAAACCCT
126 TTTTAAATAAATTTTAAAAAAACCCT
* * * *
4972067 TATTTTGGCTCTTTATTCTTATTTTTTCCCCAATATTTTATTACTTT-AAAAAAA-ACTATTTTC
1 TATTTCGGC-CTTTGTTCGTATTTTTT-CCCAAGATTTTATTACTTTCAAAAAAATACTATTTTC
* * *
4972130 TAATTTTATTATTTTACATTATTTTAGTACATTATATCTAAAATGTATTCATTTAGTGTGTTTTT
64 TAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTT
** *
4972195 TATTTAAAATTTTAAAAAAACCCA
129 TAAAT-AAATTTTAAAAAAACCCT
* * * * * *
4972219 TATTCCGTCCCTTTGTTTGTATTTTTTCCCGAG-TTTTATTATTTTCAATGAAAATA-TA---T-
1 TATTTCG-GCCTTTGTTCGTATTTTTTCCCAAGATTTTATTACTTTCAA-AAAAATACTATTTTC
* * * * *
4972278 T-ATTTT-TGTATTTT--ATTA-TTT--TACATTTTTTTTGAAATGTATTAATTTACTATGTTTT
64 TAATTTTAT-TATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTT
4972336 TTAAATAAATTTT-AAAAAACCCT
128 TTAAATAAATTTTAAAAAAACCCT
* * * * *
4972359 TATTTTGACCCTTTGTTCGTATTTTTTTCCC-GGAATTTATTACTTTAAAAAAAATACTATTTTC
1 TATTTCG-GCCTTTGTTCGTA-TTTTTTCCCAAGATTTTATTACTTTCAAAAAAATACTATTTTC
* * * *
4972423 TAATTTTATTATTTTTACATTATTTTAGTTCATTATGTTTGAAATCTATTCATTTAATTTGTTTT
64 TAATTTTATTA-TTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTT
**
4972488 TTATTTAAA--TTAAAAAAACCCT
128 TTAAATAAATTTTAAAAAAACCCT
* * ** *
4972510 TATTTTGGCCTTTTGTTTGTATTTTTT-CCTGGATTTTATTCCTTTCAATAAAAATA-TATTATT
1 TATTTCGGCC-TTTGTTCGTATTTTTTCCCAAGATTTTATTACTTTCAA-AAAAATACTA-T-TT
* * * * * * *
4972573 TTTGTATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATATATTAATTTATTTTATT
62 TCT-AATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTT
4972638 TTTTAAATAAA--TTAAAAAAACCCT
126 TTTTAAATAAATTTTAAAAAAACCCT
* ** * * *
4972662 TATTTCGGTCCTTTGTTCGTATTTTTTTCCTGGATTTTATTACTTTTAAAAAATATAATATTTTA
1 TATTTCGG-CCTTTGTTCGTATTTTTTCCCAAGATTTTATTACTTTCAAAAAA-ATACTATTTTC
*
4972727 TAATTTTATAATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTT
64 TAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTT
* *
4972792 TAAATAATTTTTTTTAAAAAAAACTCT
129 TAAATAA---ATTTT-AAAAAAACCCT
* * * ** *
4972819 TATTTCCGCCCTTTGCTC-TATTTTTT-TCGGGATTTTATTGCTTTCAATAAAAA
1 TATTT-CGGCCTTTGTTCGTATTTTTTCCCAAGATTTTATTACTTTCAA-AAAAA
4972872 GCACACTAAA
Statistics
Matches: 802, Mismatches: 103, Indels: 100
0.80 0.10 0.10
Matches are distributed among these distances:
140 33 0.04
141 30 0.04
142 34 0.04
144 4 0.00
145 5 0.01
146 8 0.01
147 16 0.02
148 15 0.02
149 8 0.01
150 117 0.15
151 203 0.25
152 207 0.26
153 48 0.06
154 3 0.00
155 18 0.02
156 28 0.03
157 23 0.03
158 2 0.00
ACGTcount: A:0.29, C:0.10, G:0.07, T:0.53
Consensus pattern (151 bp):
TATTTCGGCCTTTGTTCGTATTTTTTCCCAAGATTTTATTACTTTCAAAAAAATACTATTTTCTA
ATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTTA
AATAAATTTTAAAAAAACCCT
Found at i:4972320 original size:26 final size:26
Alignment explanation
Indices: 4972291--4972341 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
4972281 TTTTGTATTT
* *
4972291 TATTATTTTAC-ATTTTTTTTGAAATG
1 TATTAATTTACTATGTTTTTT-AAATG
4972317 TATTAATTTACTATGTTTTTTAAAT
1 TATTAATTTACTATGTTTTTTAAAT
4972342 AAATTTTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 14 0.64
27 8 0.36
ACGTcount: A:0.29, C:0.04, G:0.06, T:0.61
Consensus pattern (26 bp):
TATTAATTTACTATGTTTTTTAAATG
Found at i:4972478 original size:152 final size:149
Alignment explanation
Indices: 4971775--4972798 Score: 976
Period size: 151 Copynumber: 6.8 Consensus size: 149
4971765 ATTTCAGCCA
* ** *
4971775 TTTGTTCGTATTTTTTCCCCT-GATTTTATTACTTTTAAAAACTATACTATTTTCTAATTTTATT
1 TTTGTTCGTATTTTTT-TCCTGGATTTTATTAC-TTTAAAAAAAATAATATTTT-TAATTTTATT
* * * * **
4971839 ATTTTACATTATTTTTGTACATTATGTTTGAAATGTATTCATTTAGTGTG-TTTTTATTTAAATT
63 ATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAATTTGTTTTTTAAATAAATT
* * ** *
4971903 AAAAAAAATCTTTATTTCCGCCA
128 -AAAAAAACCCTTATTTTGGCCC
* * *
4971926 TTTGTTCG--TTTTTTT-CAGGATTTTATTATTTTCAATAAAAATATATTATTTTCGT-ATTTTA
1 TTTGTTCGTATTTTTTTCCTGGATTTTATTACTTT-AA-AAAAA-ATAATATTTT--TAATTTTA
* *
4971987 TTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTACTGTGTTTTTTAAATAAA
61 TTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAATTTGTTTTTTAAATAAA
*
4972052 TTTTAAAAAAACCCTTATTTTGGCTC
126 --TTAAAAAAACCCTTATTTTGGCCC
* * * *** *
4972078 TTTATTCTTATTTTTTCCCCAATATTTTATTACTTTAAAAAAAACT-AT-TTTCTAATTTTATTA
1 TTTGTTCGTATTTTTT-TCCTGGATTTTATTACTTTAAAAAAAA-TAATATTTTTAATTTTATTA
* * * * * * **
4972141 TTTTACATTATTTTAGTACATTATATCTAAAATGTATTCATTTAGTGTGTTTTTTATTTAAAATT
64 TTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAATTTGTTTTTTAAAT-AAA--
* ** *
4972206 TTAAAAAAACCCATATTCCGTCCC
126 TTAAAAAAACCCTTATTTTGGCCC
* * * **
4972230 TTTGTTTGTA-TTTTTTCC-CGAGTTTTATTATTTTCAATGAAAAT-ATA---TT-ATTTT-TGT
1 TTTGTTCGTATTTTTTTCCTGGA-TTTTATTACTTT-AAAAAAAATAATATTTTTAATTTTAT-T
* * * *
4972287 ATTTT--ATTA-TTT--TACATTTTTTTTGAAATGTATTAATTTACTATGTTTTTTAAATAAATT
63 ATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAATTTGTTTTTTAAATAAA-T
* *
4972347 TTAAAAAACCCTTATTTTGACCC
127 TAAAAAAACCCTTATTTTGGCCC
* * *
4972370 TTTGTTCGTATTTTTTTCCCGGAATTTATTACTTTAAAAAAAATACTATTTTCTAATTTTATTAT
1 TTTGTTCGTATTTTTTTCCTGGATTTTATTACTTTAAAAAAAATAATATTTT-TAATTTTATTA-
* * * **
4972435 TTTTACATTATTTTAGTTCATTATGTTTGAAATCTATTCATTTAATTTGTTTTTTATTTAAATTA
64 TTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAATTTGTTTTTTAAATAAATTA
*
4972500 AAAAAACCCTTATTTTGGCCT
129 AAAAAACCCTTATTTTGGCCC
* * * *
4972521 TTTGTTTGTA-TTTTTTCCTGGATTTTATTCCTTTCAATAAAAATATATTATTTTTGTATTTTAT
1 TTTGTTCGTATTTTTTTCCTGGATTTTATTACTTT-AA-AAAAA-ATAATATTTTT-AATTTTAT
* * *
4972585 TATTTTACATTATTTTAGTACATTATGTTTGAAATATATTAATTTATTTTATTTTTTAAATAAAT
62 TATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAATTTGTTTTTTAAATAAAT
* *
4972650 TAAAAAAACCCTTATTTCGGTCC
127 TAAAAAAACCCTTATTTTGGCCC
* *
4972673 TTTGTTCGTATTTTTTTCCTGGATTTTATTACTTTTAAAAAATATAATATTTTATAATTTTATAA
1 TTTGTTCGTATTTTTTTCCTGGATTTTATTAC-TTTAAAAAAAATAATATTTT-TAATTTTATTA
* * *
4972738 TTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTTAAATAA
64 TTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAATTTGTTTTTTAAATAA
4972799 TTTTTTTTAA
Statistics
Matches: 724, Mismatches: 108, Indels: 82
0.79 0.12 0.09
Matches are distributed among these distances:
140 36 0.05
141 23 0.03
142 36 0.05
144 4 0.01
145 5 0.01
146 8 0.01
147 20 0.03
148 13 0.02
149 14 0.02
150 105 0.15
151 196 0.27
152 189 0.26
153 44 0.06
154 15 0.02
155 2 0.00
156 14 0.02
ACGTcount: A:0.30, C:0.09, G:0.07, T:0.54
Consensus pattern (149 bp):
TTTGTTCGTATTTTTTTCCTGGATTTTATTACTTTAAAAAAAATAATATTTTTAATTTTATTATT
TTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAATTTGTTTTTTAAATAAATTAAA
AAAACCCTTATTTTGGCCC
Found at i:4973327 original size:126 final size:125
Alignment explanation
Indices: 4973061--4973484 Score: 636
Period size: 125 Copynumber: 3.4 Consensus size: 125
4973051 TTGACGTGCT
* * * *
4973061 AAGAATTTTTGAAATCGCACCCTCGTGGACGCGCTTTTGCTACAATAGGTCTTGGAAAAAATAAT
1 AAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCCTGGAAAAAATAAT
4973126 TTCGAGTTGACGTTTCTAAGCAAATAGTATAAAAACGCTTCAACCAGGATGCTTTATCAG
66 TTCGAGTTGACGTTTCTAAGCAAATAGTATAAAAACGCTTCAACCAGGATGCTTTATCAG
* *
4973186 AAGAATTTGTGAAATCGCGCCCACGTGGACGCGCGTTTGCTACAGTAGGTCCT-GAAAAAATAAT
1 AAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCCTGGAAAAAATAAT
* * * *
4973250 TTTGAGTTGATGTTTCTAAGTAAATAGTATAAAAAAACGCTTCAACCAGGATGCTTTATGAG
66 TTCGAGTTGACGTTTCTAAGCAAATAGTAT--AAAAACGCTTCAACCAGGATGCTTTATCAG
* * *
4973312 AAGAATTTGTGAAATCGCGCCCTCGTGGACACGCTTTTGCTTCAGTAGGTTCTGGAAAAAATAAT
1 AAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCCTGGAAAAAATAAT
* ** *
4973377 TTCGAGTTAACGTTTCTGAA-CAAATAGTATAAAAACGCTTCAAGAAGGATGCTTTATTAG
66 TTCGAGTTGACGTTTCT-AAGCAAATAGTATAAAAACGCTTCAACCAGGATGCTTTATCAG
* *
4973437 AAGAATTTGTGAAATCGCGCCCCCGTGGATGCGCTTTTGCTACAGTAG
1 AAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAG
4973485 CATGTTTGGG
Statistics
Matches: 269, Mismatches: 26, Indels: 8
0.89 0.09 0.03
Matches are distributed among these distances:
124 38 0.14
125 118 0.44
126 77 0.29
127 34 0.13
128 2 0.01
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.29
Consensus pattern (125 bp):
AAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCCTGGAAAAAATAAT
TTCGAGTTGACGTTTCTAAGCAAATAGTATAAAAACGCTTCAACCAGGATGCTTTATCAG
Found at i:4976480 original size:9 final size:9
Alignment explanation
Indices: 4976466--4976496 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
4976456 GTTAAACGAA
4976466 TCGAGTTAT
1 TCGAGTTAT
*
4976475 TCGAGTTAA
1 TCGAGTTAT
4976484 TCGAGTTAT
1 TCGAGTTAT
4976493 TCGA
1 TCGA
4976497 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:4976577 original size:9 final size:9
Alignment explanation
Indices: 4976550--4976586 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
4976540 TGAGTTTTCG
4976550 AATTCGAAT
1 AATTCGAAT
* *
4976559 AACTCAAAT
1 AATTCGAAT
4976568 AATTCGAAT
1 AATTCGAAT
4976577 AATTCGAAT
1 AATTCGAAT
4976586 A
1 A
4976587 TCAAACTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:4977330 original size:114 final size:114
Alignment explanation
Indices: 4977158--4977426 Score: 457
Period size: 114 Copynumber: 2.4 Consensus size: 114
4977148 ATATTTTTTC
* *
4977158 AATTATTAATTGATAATTGTATTAATTGTTAGTAAAACTATCAAATTATATCAAATTATTAATTG
1 AATTATTAATTGTTAATTGTATTAATTGTTAGTAAAATTATCAAATTATATCAAATTATTAATTG
* *
4977223 TTAGTACCAGTCAAAACATTTTGTAAAATCTAACTTTTTGTGAATGTAA
66 TTAGTACCAGTAAAAACATTTTGTAAAATCTAACATTTTGTGAATGTAA
4977272 AATTATTAATTGTTAATTGTATTAATTGTTAGTAAAATTATCAAATTATATCAAATTATTAATTG
1 AATTATTAATTGTTAATTGTATTAATTGTTAGTAAAATTATCAAATTATATCAAATTATTAATTG
** ** *
4977337 TTAGTGGCAGTAAAAATTTTTTGTAAAATTTAACATTTTGTGAATGTAA
66 TTAGTACCAGTAAAAACATTTTGTAAAATCTAACATTTTGTGAATGTAA
4977386 AATTATTAATTGTTAATTGTATTAATTGTTAGTAAAATTAT
1 AATTATTAATTGTTAATTGTATTAATTGTTAGTAAAATTAT
4977427 TAATTGTTAA
Statistics
Matches: 146, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
114 146 1.00
ACGTcount: A:0.40, C:0.05, G:0.10, T:0.45
Consensus pattern (114 bp):
AATTATTAATTGTTAATTGTATTAATTGTTAGTAAAATTATCAAATTATATCAAATTATTAATTG
TTAGTACCAGTAAAAACATTTTGTAAAATCTAACATTTTGTGAATGTAA
Found at i:4977337 original size:37 final size:38
Alignment explanation
Indices: 4977177--4977341 Score: 101
Period size: 37 Copynumber: 4.4 Consensus size: 38
4977167 TTGATAATTG
*
4977177 TATTAATTGTTAGTAAAACTATCAAATTATATCAAAT-
1 TATTAATTGTTAGTAAAATTATCAAATTATATCAAATC
* * * * * * *
4977214 TATTAATTGTTAGTACCAGTCA-AAACATTTTGTAAAATC
1 TATTAATTGTTAGTA-AAATTATCAA-ATTATATCAAATC
* * * * * *
4977253 TAACTT-TTTGTGAATGTAAAATTAT-TAATTGT-T-AATTG
1 T-A-TTAATTGT-TA-GTAAAATTATCAAATTATATCAAATC
4977291 TATTAATTGTTAGTAAAATTATCAAATTATATCAAAT-
1 TATTAATTGTTAGTAAAATTATCAAATTATATCAAATC
4977328 TATTAATTGTTAGT
1 TATTAATTGTTAGT
4977342 GGCAGTAAAA
Statistics
Matches: 94, Mismatches: 22, Indels: 24
0.67 0.16 0.17
Matches are distributed among these distances:
35 10 0.11
36 8 0.09
37 37 0.39
38 18 0.19
39 2 0.02
40 9 0.10
41 7 0.07
42 3 0.03
ACGTcount: A:0.40, C:0.07, G:0.09, T:0.44
Consensus pattern (38 bp):
TATTAATTGTTAGTAAAATTATCAAATTATATCAAATC
Found at i:4979597 original size:51 final size:51
Alignment explanation
Indices: 4979549--4979652 Score: 129
Period size: 51 Copynumber: 2.0 Consensus size: 51
4979539 TTAAAATTAT
4979549 TTAAAAATAGAGATTTAAGAGAAATTTA-AGAGGAAATTCAGAGCAAATTGAGA
1 TTAAAAAT-G-GATTTAAGAGAAATTTAGA-AGGAAATTCAGAGCAAATTGAGA
* * * * *
4979602 TTAAATATGGATTTGAGAGAAATTTGGAAGGAATTTGAGAGCAAATTGAGA
1 TTAAAAATGGATTTAAGAGAAATTTAGAAGGAAATTCAGAGCAAATTGAGA
4979653 GGAAGATGAG
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
51 36 0.80
52 2 0.04
53 7 0.16
ACGTcount: A:0.46, C:0.03, G:0.24, T:0.27
Consensus pattern (51 bp):
TTAAAAATGGATTTAAGAGAAATTTAGAAGGAAATTCAGAGCAAATTGAGA
Found at i:4980408 original size:42 final size:42
Alignment explanation
Indices: 4980329--4980408 Score: 119
Period size: 42 Copynumber: 1.9 Consensus size: 42
4980319 GTAAAATACC
*
4980329 ATATAATAATATATTATAATTAAAACATAAAATATCTTTGTT
1 ATATAATAATATATAATAATTAAAACATAAAATATCTTTGTT
4980371 ATATAATAATATAATAATATATT-AAACATAAAA-ATCTT
1 ATATAATAATAT-ATAATA-ATTAAAACATAAAATATCTT
4980409 AGATTTTCCT
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
42 17 0.49
43 15 0.43
44 3 0.09
ACGTcount: A:0.54, C:0.05, G:0.01, T:0.40
Consensus pattern (42 bp):
ATATAATAATATATAATAATTAAAACATAAAATATCTTTGTT
Found at i:4982576 original size:50 final size:50
Alignment explanation
Indices: 4982501--4982600 Score: 164
Period size: 50 Copynumber: 2.0 Consensus size: 50
4982491 AAGAATATGA
* *
4982501 GTTAAAAAGTTGAAATGATTTAACATAACGACTCCATTTTCAAAACCCAT
1 GTTAAAAAGCTGAAAGGATTTAACATAACGACTCCATTTTCAAAACCCAT
* *
4982551 GTTAATAAGCTGAAAGGATTTAACATAACGACTCCGTTTTCAAAACCCAT
1 GTTAAAAAGCTGAAAGGATTTAACATAACGACTCCATTTTCAAAACCCAT
4982601 TCTTTGTGAC
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 46 1.00
ACGTcount: A:0.40, C:0.19, G:0.12, T:0.29
Consensus pattern (50 bp):
GTTAAAAAGCTGAAAGGATTTAACATAACGACTCCATTTTCAAAACCCAT
Found at i:4984236 original size:30 final size:28
Alignment explanation
Indices: 4984190--4984250 Score: 86
Period size: 30 Copynumber: 2.1 Consensus size: 28
4984180 ACATATTTTA
4984190 TTGTTAATTTTTATTATTTTAAAGACAT
1 TTGTTAATTTTTATTATTTTAAAGACAT
* *
4984218 TTGTTAATTTTGTTATTATTTTAGAGATAT
1 TTGTTAA-TTT-TTATTATTTTAAAGACAT
4984248 TTG
1 TTG
4984251 ATTGTTAAGT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 7 0.24
29 3 0.10
30 19 0.66
ACGTcount: A:0.28, C:0.02, G:0.11, T:0.59
Consensus pattern (28 bp):
TTGTTAATTTTTATTATTTTAAAGACAT
Found at i:4984402 original size:12 final size:12
Alignment explanation
Indices: 4984372--4984404 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
4984362 ATATATTTTT
4984372 AAAATT-ATATA
1 AAAATTAATATA
4984383 AAAA-TAATATA
1 AAAATTAATATA
4984394 AAAATTAATAT
1 AAAATTAATAT
4984405 GGCCGGGCCG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 13 0.65
12 6 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:4987116 original size:16 final size:17
Alignment explanation
Indices: 4987065--4987116 Score: 52
Period size: 18 Copynumber: 3.1 Consensus size: 17
4987055 AAAATGAAAT
4987065 AATTATTTCAAATATAA
1 AATTATTTCAAATATAA
* * *
4987082 TAATTATTTTATATGTAA
1 -AATTATTTCAAATATAA
*
4987100 AA-TATTTCACATATAA
1 AATTATTTCAAATATAA
4987116 A
1 A
4987117 CATAGTGATA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
16 12 0.43
17 2 0.07
18 14 0.50
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (17 bp):
AATTATTTCAAATATAA
Found at i:4987314 original size:13 final size:13
Alignment explanation
Indices: 4987281--4987321 Score: 66
Period size: 13 Copynumber: 3.2 Consensus size: 13
4987271 AATAAAAGAG
4987281 ATATTAATTAAAA
1 ATATTAATTAAAA
4987294 A-ATTAATTAAAA
1 ATATTAATTAAAA
*
4987306 ATATGAATTAAAA
1 ATATTAATTAAAA
4987319 ATA
1 ATA
4987322 AAAAAATTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
12 12 0.46
13 14 0.54
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.34
Consensus pattern (13 bp):
ATATTAATTAAAA
Found at i:4992869 original size:63 final size:63
Alignment explanation
Indices: 4992765--4992885 Score: 188
Period size: 63 Copynumber: 1.9 Consensus size: 63
4992755 ATCAAAATGC
* * * *
4992765 AGAGGCACGGGCGTGCGTCTAGGCCGTGTGACTCACTGTTTACGATTTAGGACCACACGGACT
1 AGAGACACGGGCGTGCGTCCAGGCCGTGTGACTCACTGTTTACAAATTAGGACCACACGGACT
* *
4992828 AGAGACACGGGCGTGTGTCCAGGCCGTGTGACTCACTGTTTACAAATTAGGATCACAC
1 AGAGACACGGGCGTGCGTCCAGGCCGTGTGACTCACTGTTTACAAATTAGGACCACAC
4992886 AAGCAGACGA
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
63 52 1.00
ACGTcount: A:0.23, C:0.25, G:0.30, T:0.22
Consensus pattern (63 bp):
AGAGACACGGGCGTGCGTCCAGGCCGTGTGACTCACTGTTTACAAATTAGGACCACACGGACT
Found at i:4998202 original size:7 final size:7
Alignment explanation
Indices: 4998190--4998214 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
4998180 AGTCGATTGA
4998190 TATTTAG
1 TATTTAG
4998197 TATTTAG
1 TATTTAG
4998204 TATTTAG
1 TATTTAG
4998211 TATT
1 TATT
4998215 ATGTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:4999330 original size:25 final size:25
Alignment explanation
Indices: 4999296--4999419 Score: 134
Period size: 25 Copynumber: 5.1 Consensus size: 25
4999286 TTAGTATTTT
4999296 GAAGTTTATTTGATGTAATAAAATA
1 GAAGTTTATTTGATGTAATAAAATA
4999321 GAAGTTTATTTGATGTAATAAAAATA
1 GAAGTTTATTTGATGTAAT-AAAATA
* * ** *
4999347 GAAATTTTTTTGA-GT--T-ATTTT
1 GAAGTTTATTTGATGTAATAAAATA
4999368 G-A-TATTATTTGATGTAATAAAATA
1 GAAGT-TTATTTGATGTAATAAAATA
*
4999392 AAAGTTTATTTGATGTAATAAAATA
1 GAAGTTTATTTGATGTAATAAAATA
4999417 GAA
1 GAA
4999420 ATTTTTGAAT
Statistics
Matches: 80, Mismatches: 11, Indels: 16
0.75 0.10 0.15
Matches are distributed among these distances:
19 1 0.01
20 8 0.10
21 5 0.06
23 2 0.03
24 2 0.03
25 44 0.55
26 18 0.22
ACGTcount: A:0.43, C:0.00, G:0.15, T:0.43
Consensus pattern (25 bp):
GAAGTTTATTTGATGTAATAAAATA
Found at i:4999436 original size:9 final size:9
Alignment explanation
Indices: 4999422--4999463 Score: 68
Period size: 9 Copynumber: 4.7 Consensus size: 9
4999412 AAATAGAAAT
4999422 TTTTGAATA
1 TTTTGAATA
4999431 TTTTGAATA
1 TTTTGAATA
4999440 TTTTGAATA
1 TTTTGAATA
4999449 TTTTG-ATA
1 TTTTGAATA
4999457 TTATTGA
1 TT-TTGA
4999464 GAATTCTACT
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
8 5 0.16
9 26 0.84
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.57
Consensus pattern (9 bp):
TTTTGAATA
Found at i:4999547 original size:46 final size:46
Alignment explanation
Indices: 4999493--4999764 Score: 377
Period size: 46 Copynumber: 5.8 Consensus size: 46
4999483 AAATTGAAAA
4999493 GAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTAAATT
1 GAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTAAATT
* *
4999539 AAAAACCCTAACCTAATAAAATTAAAAACCCTAACCTAATTAAATT
1 GAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTAAATT
4999585 GAAAACCCTAACCTAATTAAATTGAAAAGAAAACCCTAACCTAATTAAATT
1 GAAAACCCTAACCTAATTAAATT----A-AAAACCCTAACCTAATTAAATT
* **
4999636 GAAAACCCTAACCTAATTAAATTAAAAACCATAACCTAATTAAAAA
1 GAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTAAATT
****
4999682 GAAAACCCTAACCTAATTAAACCCTAAACCCTAACCTAATTAAATT
1 GAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTAAATT
*
4999728 GAAAACTCTAACCTAATTAAACCTT--AAACCCTAACCT
1 GAAAACCCTAACCTAATTAAA--TTAAAAACCCTAACCT
4999765 TTGTACTTTT
Statistics
Matches: 202, Mismatches: 17, Indels: 14
0.87 0.07 0.06
Matches are distributed among these distances:
46 155 0.77
47 1 0.00
50 1 0.00
51 45 0.22
ACGTcount: A:0.50, C:0.23, G:0.03, T:0.24
Consensus pattern (46 bp):
GAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTAAATT
Found at i:4999590 original size:69 final size:70
Alignment explanation
Indices: 4999494--4999748 Score: 361
Period size: 69 Copynumber: 3.6 Consensus size: 70
4999484 AATTGAAAAG
*
4999494 AAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTAAATTA-AAAACCCTAACCTAATAA
1 AAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTAAATTAGAAAACCCTAACCTAATTA
4999558 AATTA
66 AATTA
*
4999563 AAAACCCTAACCTAATTAAATTGAAAACCCTAACCTAATTAAATTGAAAAGAAAACCCTAACCTA
1 AAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTAAATT----AGAAAACCCTAACCTA
*
4999628 ATTAAATTG
62 ATTAAATTA
* *
4999637 AAAACCCTAACCTAATTAAATTAAAAACCATAACCTAATTAAA-AAGAAAACCCTAACCTAATTA
1 AAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTAAATTAGAAAACCCTAACCTAATTA
***
4999701 AACCC
66 AATTA
* * *
4999706 TAAACCCTAACCTAATTAAATTGAAAACTCTAACCTAATTAAA
1 AAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTAAA
4999749 CCTTAAACCC
Statistics
Matches: 168, Mismatches: 13, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
69 105 0.62
73 1 0.01
74 62 0.37
ACGTcount: A:0.52, C:0.22, G:0.02, T:0.24
Consensus pattern (70 bp):
AAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTAAATTAGAAAACCCTAACCTAATTA
AATTA
Found at i:4999629 original size:120 final size:120
Alignment explanation
Indices: 4999472--4999732 Score: 436
Period size: 120 Copynumber: 2.2 Consensus size: 120
4999462 GAGAATTCTA
4999472 CTAACCTAATTAAATTGAAAAGAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTAAA
1 CTAACCTAATTAAATTGAAAAGAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTAAA
* ***
4999537 TTAAAAACCCTAACCTAA-TAAAATTA-AAAACCCTAACCTAATTAAATTGAAAACC
66 TTAAAAACCATAACCTAATTAAAA--AGAAAACCCTAACCTAATTAAACCCAAAACC
*
4999592 CTAACCTAATTAAATTGAAAAGAAAACCCTAACCTAATTAAATTGAAAACCCTAACCTAATTAAA
1 CTAACCTAATTAAATTGAAAAGAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTAAA
*
4999657 TTAAAAACCATAACCTAATTAAAAAGAAAACCCTAACCTAATTAAACCCTAAACC
66 TTAAAAACCATAACCTAATTAAAAAGAAAACCCTAACCTAATTAAACCCAAAACC
4999712 CTAACCTAATTAAATTGAAAA
1 CTAACCTAATTAAATTGAAAA
4999733 CTCTAACCTA
Statistics
Matches: 133, Mismatches: 6, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
119 1 0.01
120 127 0.95
121 5 0.04
ACGTcount: A:0.52, C:0.21, G:0.03, T:0.24
Consensus pattern (120 bp):
CTAACCTAATTAAATTGAAAAGAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTAAA
TTAAAAACCATAACCTAATTAAAAAGAAAACCCTAACCTAATTAAACCCAAAACC
Found at i:4999756 original size:23 final size:22
Alignment explanation
Indices: 4999494--4999764 Score: 312
Period size: 23 Copynumber: 11.6 Consensus size: 22
4999484 AATTGAAAAG
4999494 AAAACCCTAACCTAATTAAATT
1 AAAACCCTAACCTAATTAAATT
4999516 AAAAACCCTAACCTAATTAAATT
1 -AAAACCCTAACCTAATTAAATT
*
4999539 AAAAACCCTAACCTAATAAAATT
1 -AAAACCCTAACCTAATTAAATT
4999562 AAAAACCCTAACCTAATTAAATT
1 -AAAACCCTAACCTAATTAAATT
4999585 GAAAACCCTAACCTAATTAAATT
1 -AAAACCCTAACCTAATTAAATT
4999608 GAAAAGAAAACCCTAACCTAATTAAATT
1 ------AAAACCCTAACCTAATTAAATT
4999636 GAAAACCCTAACCTAATTAAATT
1 -AAAACCCTAACCTAATTAAATT
* **
4999659 AAAAACCATAACCTAATTAAAAAG
1 -AAAACCCTAACCTAATT-AAATT
*
4999683 AAAACCCTAACCTAATTAAACCCT
1 AAAACCCTAACCTAATTAAA--TT
4999707 -AAACCCTAACCTAATTAAATT
1 AAAACCCTAACCTAATTAAATT
*
4999728 GAAAACTCTAACCTAATTAAACCTT
1 -AAAACCCTAACCTAATTAAA--TT
4999753 -AAACCCTAACCT
1 AAAACCCTAACCT
4999765 TTGTACTTTT
Statistics
Matches: 223, Mismatches: 13, Indels: 24
0.86 0.05 0.09
Matches are distributed among these distances:
21 1 0.00
22 3 0.01
23 191 0.86
24 3 0.01
25 2 0.01
28 23 0.10
ACGTcount: A:0.51, C:0.23, G:0.02, T:0.24
Consensus pattern (22 bp):
AAAACCCTAACCTAATTAAATT
Found at i:5001226 original size:123 final size:124
Alignment explanation
Indices: 5001001--5001342 Score: 524
Period size: 124 Copynumber: 2.8 Consensus size: 124
5000991 CAAACATGCT
* * * *
5001001 ACTGTAGCAAAAACGGGTCCATGAGGGCGCGATTTTCACAAATTCTTCTCAAATAACATCCTGCT
1 ACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTT-ACAAATTCTTCTCAAATAGCATCCTGCT
*
5001066 AGAAGCGATTTTATACTATTTGCTCAGAAATGCCAAAAAAA-ATATTTCATCCATGACCA
65 AGAAGCGATTTTATACTATTTGCTCAGAAAGGCCAAAAAAATATATTTCATCCATGACCA
*
5001125 ACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTTACAAATTATTCTCAAATAGCATCCTGCTA
1 ACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTTACAAATTCTTCTCAAATAGCATCCTGCTA
* * * *
5001190 GAAGTGATTTTATACTATTTGCTCAGAAAGGTCAAAAAAATTTATTTCATCCATGACCT
66 GAAGCGATTTTATACTATTTGCTCAGAAAGGCCAAAAAAATATATTTCATCCATGACCA
* * * *
5001249 ACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTTAAATAGTATCTTGCTA
1 ACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTTACAAATTCTTCTCAAATAGCATCCTGCTA
* *
5001314 GAAGCGGTTTTATACTATTTGATCAGAAA
66 GAAGCGATTTTATACTATTTGCTCAGAAA
5001343 CATCAACTCA
Statistics
Matches: 199, Mismatches: 18, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
123 64 0.32
124 135 0.68
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.29
Consensus pattern (124 bp):
ACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTTACAAATTCTTCTCAAATAGCATCCTGCTA
GAAGCGATTTTATACTATTTGCTCAGAAAGGCCAAAAAAATATATTTCATCCATGACCA
Found at i:5002047 original size:16 final size:17
Alignment explanation
Indices: 5002009--5002051 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
5001999 TAATCTTTTT
5002009 ATTTTTATAAAAATTGA
1 ATTTTTATAAAAATTGA
**
5002026 AGTTTTTATAAATCTTG-
1 A-TTTTTATAAAAATTGA
5002043 ATTTTTATA
1 ATTTTTATA
5002052 TATTTTTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 8 0.35
17 2 0.09
18 13 0.57
ACGTcount: A:0.37, C:0.02, G:0.07, T:0.53
Consensus pattern (17 bp):
ATTTTTATAAAAATTGA
Found at i:5004200 original size:18 final size:19
Alignment explanation
Indices: 5004165--5004199 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
5004155 CGGTATATTT
5004165 ATTTCTTTTTCTAATTTTA
1 ATTTCTTTTTCTAATTTTA
5004184 ATTT-TTTTTCT-ATTTT
1 ATTTCTTTTTCTAATTTT
5004200 TTTTCTTTCG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 7 0.44
19 4 0.25
ACGTcount: A:0.17, C:0.09, G:0.00, T:0.74
Consensus pattern (19 bp):
ATTTCTTTTTCTAATTTTA
Found at i:5013189 original size:21 final size:20
Alignment explanation
Indices: 5013155--5013194 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
5013145 TATTTTTTAT
*
5013155 CATTTTAATAATTATTAATA
1 CATTTTAATAATTAATAATA
*
5013175 CATTTATAATTATTAATAAT
1 CATTT-TAATAATTAATAAT
5013195 GTTTTATTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (20 bp):
CATTTTAATAATTAATAATA
Found at i:5017303 original size:21 final size:21
Alignment explanation
Indices: 5017277--5017317 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
5017267 AGACGAGCAA
* *
5017277 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
5017298 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
5017318 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:5022661 original size:26 final size:25
Alignment explanation
Indices: 5022613--5022662 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
5022603 AAAGCGGATA
** *
5022613 ATTTTTTAAGTTTTTATATATTTTT
1 ATTTTTTAAGTTTGAATAAATTTTT
5022638 ATTTTTCTAAGTTTGAATAAATTTT
1 ATTTTT-TAAGTTTGAATAAATTTT
5022663 ATCTAAATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 6 0.29
26 15 0.71
ACGTcount: A:0.28, C:0.02, G:0.06, T:0.64
Consensus pattern (25 bp):
ATTTTTTAAGTTTGAATAAATTTTT
Found at i:5022752 original size:21 final size:20
Alignment explanation
Indices: 5022705--5022754 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
5022695 TTTTATTTTT
*
5022705 TATTTTTATAAAATTTTAAA
1 TATTTTTTTAAAATTTTAAA
* *
5022725 TAGTTTTTCAAAATTTTAAA
1 TATTTTTTTAAAATTTTAAA
5022745 TATTTTTTTA
1 TATTTTTTTA
5022755 TAAAAATTTT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (20 bp):
TATTTTTTTAAAATTTTAAA
Found at i:5026446 original size:40 final size:40
Alignment explanation
Indices: 5026395--5026512 Score: 191
Period size: 40 Copynumber: 3.0 Consensus size: 40
5026385 TTATTTTTTT
*
5026395 TTTTTTTAATTTTAAAATACTTTTAAAATACTTTTTTAAA
1 TTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTAAA
* *
5026435 TTTTTTTAATTTTAAAATATTTTTAAAATACTTTGTAAAA
1 TTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTAAA
* *
5026475 TTTTTTTAATTTAAAAATATTTTTAAAATATTTTTTTA
1 TTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTA
5026513 TTTTTAAAAT
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 71 1.00
ACGTcount: A:0.38, C:0.03, G:0.01, T:0.58
Consensus pattern (40 bp):
TTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTAAA
Found at i:5026487 original size:28 final size:29
Alignment explanation
Indices: 5026459--5026515 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
5026449 AAATATTTTT
5026459 AAAATACTTTGTAAAAT-TTTTTTAATTTA
1 AAAATA-TTTGTAAAATATTTTTTAATTTA
* *
5026488 AAAATATTTTTAAAATATTTTTTTATTT
1 AAAATATTTGTAAAATATTTTTTAATTT
5026516 TTAAAATAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 9 0.36
29 16 0.64
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (29 bp):
AAAATATTTGTAAAATATTTTTTAATTTA
Found at i:5026504 original size:11 final size:11
Alignment explanation
Indices: 5026404--5026529 Score: 71
Period size: 11 Copynumber: 12.4 Consensus size: 11
5026394 TTTTTTTTAA
*
5026404 TTTTAAAATAC
1 TTTTAAAATAT
5026415 TTTTAAAATACT
1 TTTTAAAATA-T
*
5026427 TTTTTAAAT-T
1 TTTTAAAATAT
*
5026437 TTTT----TAA
1 TTTTAAAATAT
5026444 TTTTAAAATAT
1 TTTTAAAATAT
5026455 TTTTAAAATACT
1 TTTTAAAATA-T
*
5026467 TTGTAAAAT-T
1 TTTTAAAATAT
*
5026477 TTTT----TAA
1 TTTTAAAATAT
*
5026484 TTTAAAAATAT
1 TTTTAAAATAT
5026495 TTTTAAAATAT
1 TTTTAAAATAT
*
5026506 TTTT---TTAT
1 TTTTAAAATAT
5026514 TTTTAAAATAAT
1 TTTTAAAAT-AT
5026526 TTTT
1 TTTT
5026530 GGTATTTATT
Statistics
Matches: 87, Mismatches: 12, Indels: 31
0.67 0.09 0.24
Matches are distributed among these distances:
6 2 0.02
7 7 0.08
8 7 0.08
10 9 0.10
11 39 0.45
12 23 0.26
ACGTcount: A:0.39, C:0.02, G:0.01, T:0.58
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:5026514 original size:19 final size:20
Alignment explanation
Indices: 5026492--5026529 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
5026482 AATTTAAAAA
5026492 TATTTTTAAAAT-ATTTTTT
1 TATTTTTAAAATAATTTTTT
5026511 TATTTTTAAAATAATTTTT
1 TATTTTTAAAATAATTTTT
5026530 GGTATTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (20 bp):
TATTTTTAAAATAATTTTTT
Found at i:5026517 original size:20 final size:21
Alignment explanation
Indices: 5026492--5026536 Score: 67
Period size: 19 Copynumber: 2.2 Consensus size: 21
5026482 AATTTAAAAA
*
5026492 TATTTTTAAAAT-ATTTTT-T
1 TATTTTTAAAATAATTTTTGG
5026511 TATTTTTAAAATAATTTTTGG
1 TATTTTTAAAATAATTTTTGG
5026532 TATTT
1 TATTT
5026537 ATTTAAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 12 0.52
20 6 0.26
21 5 0.22
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.64
Consensus pattern (21 bp):
TATTTTTAAAATAATTTTTGG
Found at i:5030743 original size:19 final size:20
Alignment explanation
Indices: 5030706--5030744 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
5030696 TTGTAATGTA
5030706 TAATTTTTCTTTCATTTTTT
1 TAATTTTTCTTTCATTTTTT
5030726 TAATTTATT-TTT-ATTTTTT
1 TAATTT-TTCTTTCATTTTTT
5030745 CCAGAATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.39
20 9 0.50
21 2 0.11
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.77
Consensus pattern (20 bp):
TAATTTTTCTTTCATTTTTT
Found at i:5033098 original size:16 final size:16
Alignment explanation
Indices: 5033073--5033103 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
5033063 TTGCTCGTAC
5033073 CAAAAAATATATATTT
1 CAAAAAATATATATTT
*
5033089 CAAAACATATATATT
1 CAAAAAATATATATT
5033104 GTATTAAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.35
Consensus pattern (16 bp):
CAAAAAATATATATTT
Found at i:5044109 original size:21 final size:21
Alignment explanation
Indices: 5044063--5044109 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
5044053 TGGCCTGCTT
* *
5044063 TGCTTCTCTCGCTGCAGCTTC
1 TGCTTCCCTCGCTGCAGCCTC
* *
5044084 CGCTTCCCTCGCTGCCGCCTC
1 TGCTTCCCTCGCTGCAGCCTC
5044105 TGCTT
1 TGCTT
5044110 TAAGTTGTAG
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.02, C:0.45, G:0.19, T:0.34
Consensus pattern (21 bp):
TGCTTCCCTCGCTGCAGCCTC
Found at i:5047234 original size:9 final size:9
Alignment explanation
Indices: 5047217--5047441 Score: 141
Period size: 9 Copynumber: 25.9 Consensus size: 9
5047207 TATGTATTAA
*
5047217 GTAAATTAT
1 GTAAGTTAT
5047226 GTAAGTTAT
1 GTAAGTTAT
*
5047235 GTACGTGTA-
1 GTAAGT-TAT
5047244 -TAAGTTAT
1 GTAAGTTAT
*
5047252 GTAAGTTTT
1 GTAAGTTAT
*
5047261 GT-A-TTAA
1 GTAAGTTAT
**
5047268 GTAAACTAT
1 GTAAGTTAT
*
5047277 GTAAGTTGT
1 GTAAGTTAT
5047286 GT-A-TTAT
1 GTAAGTTAT
*
5047293 GTAACTTAT
1 GTAAGTTAT
5047302 GTAAGTTAT
1 GTAAGTTAT
** *
5047311 CAAAGTAAT
1 GTAAGTTAT
*
5047320 GTATGTTAT
1 GTAAGTTAT
5047329 GTAAG-T-T
1 GTAAGTTAT
5047336 GTAAGTTAT
1 GTAAGTTAT
*
5047345 -TATGTATTAT
1 GTAAG--TTAT
* * *
5047355 ATAACTTCT
1 GTAAGTTAT
5047364 GTAAGTTAT
1 GTAAGTTAT
5047373 GTAAGTTAT
1 GTAAGTTAT
*
5047382 GTAAGTTGT
1 GTAAGTTAT
*
5047391 GTAAGCTAT
1 GTAAGTTAT
* *
5047400 TTTAGTTAT
1 GTAAGTTAT
5047409 GTAAGCTT-T
1 GTAAG-TTAT
5047418 GT-A-TTAT
1 GTAAGTTAT
5047425 GTAAGTTAT
1 GTAAGTTAT
*
5047434 GTAGGTTA
1 GTAAGTTA
5047442 AGTTGTGTAA
Statistics
Matches: 163, Mismatches: 37, Indels: 32
0.70 0.16 0.14
Matches are distributed among these distances:
6 2 0.01
7 20 0.12
8 15 0.09
9 116 0.71
10 8 0.05
11 2 0.01
ACGTcount: A:0.32, C:0.04, G:0.20, T:0.45
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:5047237 original size:25 final size:25
Alignment explanation
Indices: 5047206--5047310 Score: 115
Period size: 25 Copynumber: 4.2 Consensus size: 25
5047196 TAATATATAT
5047206 TTATGTATTAAGTAAATTATGTAAG
1 TTATGTATTAAGTAAATTATGTAAG
*
5047231 TTATGTACGTGT-A-TAAGTTATGTAAG
1 TTATGTA--T-TAAGTAAATTATGTAAG
* *
5047257 TTTTGTATTAAGTAAACTATGTAAG
1 TTATGTATTAAGTAAATTATGTAAG
* * *
5047282 TTGTGTATTATGTAACTTATGTAAG
1 TTATGTATTAAGTAAATTATGTAAG
5047307 TTAT
1 TTAT
5047311 CAAAGTAATG
Statistics
Matches: 66, Mismatches: 9, Indels: 10
0.78 0.11 0.12
Matches are distributed among these distances:
23 1 0.02
24 2 0.03
25 42 0.64
26 18 0.27
27 2 0.03
28 1 0.02
ACGTcount: A:0.33, C:0.03, G:0.18, T:0.46
Consensus pattern (25 bp):
TTATGTATTAAGTAAATTATGTAAG
Found at i:5047730 original size:13 final size:13
Alignment explanation
Indices: 5047712--5047763 Score: 77
Period size: 13 Copynumber: 4.0 Consensus size: 13
5047702 GAAATTTTAG
*
5047712 TAAGTAATGTATT
1 TAAGTAATATATT
*
5047725 TAAGTAATTTATT
1 TAAGTAATATATT
5047738 TAAGTAATATATT
1 TAAGTAATATATT
*
5047751 CAAGTAATATATT
1 TAAGTAATATATT
5047764 AAGAGTAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 36 1.00
ACGTcount: A:0.42, C:0.02, G:0.10, T:0.46
Consensus pattern (13 bp):
TAAGTAATATATT
Found at i:5047738 original size:53 final size:53
Alignment explanation
Indices: 5047609--5047744 Score: 191
Period size: 53 Copynumber: 2.6 Consensus size: 53
5047599 TTTATAGCGG
* *
5047609 GTAATATATTCAAGTAACATATTTAAGTAAAAAATTTAACCAAATTTTAGTAA
1 GTAATGTATTTAAGTAACATATTTAAGTAAAAAATTTAACCAAATTTTAGTAA
* * ** *
5047662 TTAATGTATCTGCGTAACATATTTAAGTAAAAAATTTAACGAAATTTTAGTAA
1 GTAATGTATTTAAGTAACATATTTAAGTAAAAAATTTAACCAAATTTTAGTAA
**
5047715 GTAATGTATTTAAGTAATTTATTTAAGTAA
1 GTAATGTATTTAAGTAACATATTTAAGTAA
5047745 TATATTCAAG
Statistics
Matches: 70, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
53 70 1.00
ACGTcount: A:0.45, C:0.06, G:0.10, T:0.39
Consensus pattern (53 bp):
GTAATGTATTTAAGTAACATATTTAAGTAAAAAATTTAACCAAATTTTAGTAA
Found at i:5047899 original size:52 final size:52
Alignment explanation
Indices: 5047843--5048100 Score: 264
Period size: 47 Copynumber: 5.1 Consensus size: 52
5047833 TATATATTTA
5047843 AGTAATGTAATATATAAATTTTAAAAAATTATATTCGAACAATATATGTATT
1 AGTAATGTAATATATAAATTTTAAAAAATTATATTCGAACAATATATGTATT
* *
5047895 AGTAATAAGTTAA-AT-TAAATTGT--AAAA--ATATT--AAC-ATATATATATTT
1 AGTAAT--G-TAATATATAAATTTTAAAAAATTATATTCGAACAATATATGTA-TT
5047942 AAGTAATGTAATATATAAATTTTAAAAAATTATATTCGAACAATATATGTATT
1 -AGTAATGTAATATATAAATTTTAAAAAATTATATTCGAACAATATATGTATT
* *
5047995 AGTAATAAGTTAA-AT-TAAATTGT--AAAA--ATATT--AAC-ATATATATATTT
1 AGTAAT--G-TAATATATAAATTTTAAAAAATTATATTCGAACAATATATGTA-TT
5048042 AAGTAATGTAATATATAAATTTTAAAAAATTATATTCGAACAATATATGTATT
1 -AGTAATGTAATATATAAATTTTAAAAAATTATATTCGAACAATATATGTATT
5048095 AGTAAT
1 AGTAAT
5048101 AAGTTAAATT
Statistics
Matches: 170, Mismatches: 8, Indels: 56
0.73 0.03 0.24
Matches are distributed among these distances:
45 6 0.04
46 22 0.13
47 24 0.14
48 12 0.07
49 18 0.11
51 18 0.11
52 18 0.11
53 24 0.14
54 22 0.13
55 6 0.04
ACGTcount: A:0.50, C:0.03, G:0.07, T:0.40
Consensus pattern (52 bp):
AGTAATGTAATATATAAATTTTAAAAAATTATATTCGAACAATATATGTATT
Found at i:5047945 original size:100 final size:100
Alignment explanation
Indices: 5047832--5048141 Score: 620
Period size: 100 Copynumber: 3.1 Consensus size: 100
5047822 ATACTTAAAA
5047832 ATATATATTTAAGTAATGTAATATATAAATTTTAAAAAATTATATTCGAACAATATATGTATTAG
1 ATATATATTTAAGTAATGTAATATATAAATTTTAAAAAATTATATTCGAACAATATATGTATTAG
5047897 TAATAAGTTAAATTAAATTGTAAAAATATTAACAT
66 TAATAAGTTAAATTAAATTGTAAAAATATTAACAT
5047932 ATATATATTTAAGTAATGTAATATATAAATTTTAAAAAATTATATTCGAACAATATATGTATTAG
1 ATATATATTTAAGTAATGTAATATATAAATTTTAAAAAATTATATTCGAACAATATATGTATTAG
5047997 TAATAAGTTAAATTAAATTGTAAAAATATTAACAT
66 TAATAAGTTAAATTAAATTGTAAAAATATTAACAT
5048032 ATATATATTTAAGTAATGTAATATATAAATTTTAAAAAATTATATTCGAACAATATATGTATTAG
1 ATATATATTTAAGTAATGTAATATATAAATTTTAAAAAATTATATTCGAACAATATATGTATTAG
5048097 TAATAAGTTAAATTAAATTGTAAAAATATTAACAT
66 TAATAAGTTAAATTAAATTGTAAAAATATTAACAT
5048132 ATATATATTT
1 ATATATATTT
5048142 TTAATATTAA
Statistics
Matches: 210, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
100 210 1.00
ACGTcount: A:0.50, C:0.03, G:0.07, T:0.41
Consensus pattern (100 bp):
ATATATATTTAAGTAATGTAATATATAAATTTTAAAAAATTATATTCGAACAATATATGTATTAG
TAATAAGTTAAATTAAATTGTAAAAATATTAACAT
Found at i:5048122 original size:52 final size:53
Alignment explanation
Indices: 5047857--5048127 Score: 276
Period size: 53 Copynumber: 5.3 Consensus size: 53
5047847 ATGTAATATA
*
5047857 TAAATTTTAAAAAATTATATTCGAACAATATATGTATTAGTAATAAGTTAAAT
1 TAAATTGTAAAAAATTATATTCGAACAATATATGTATTAGTAATAAGTTAAAT
*
5047910 TAAATTGT--AAAA--ATATT--AAC-ATATATATATT--TAAGTAA-TGTAATAT
1 TAAATTGTAAAAAATTATATTCGAACAATATATGTATTAGTAA-TAAGT-TAA-AT
*
5047956 ATAAATTTTAAAAAATTATATTCGAACAATATATGTATTAGTAATAAGTTAAAT
1 -TAAATTGTAAAAAATTATATTCGAACAATATATGTATTAGTAATAAGTTAAAT
*
5048010 TAAATTGT--AAAA--ATATT--AAC-ATATATATATT--TAAGTAA-TGTAATAT
1 TAAATTGTAAAAAATTATATTCGAACAATATATGTATTAGTAA-TAAGT-TAA-AT
*
5048056 ATAAATTTTAAAAAATTATATTCGAACAATATATGTATTAGTAATAAGTTAAAT
1 -TAAATTGTAAAAAATTATATTCGAACAATATATGTATTAGTAATAAGTTAAAT
5048110 TAAATTGTAAAAATATTA
1 TAAATTGTAAAAA-ATTA
5048128 ACATATATAT
Statistics
Matches: 180, Mismatches: 9, Indels: 57
0.73 0.04 0.23
Matches are distributed among these distances:
44 8 0.04
45 12 0.07
46 24 0.13
47 20 0.11
49 18 0.10
51 18 0.10
53 32 0.18
54 28 0.16
55 12 0.07
56 8 0.04
ACGTcount: A:0.50, C:0.03, G:0.07, T:0.40
Consensus pattern (53 bp):
TAAATTGTAAAAAATTATATTCGAACAATATATGTATTAGTAATAAGTTAAAT
Found at i:5048566 original size:7 final size:7
Alignment explanation
Indices: 5048541--5048613 Score: 76
Period size: 7 Copynumber: 10.3 Consensus size: 7
5048531 CACTTCATTC
5048541 AACAGAA
1 AACAGAA
*
5048548 AATAGCAA
1 AACAG-AA
5048556 AACAGAA
1 AACAGAA
*
5048563 AACAAAA
1 AACAGAA
*
5048570 AATAGAA
1 AACAGAA
5048577 AACAGAA
1 AACAGAA
5048584 AACA-AA
1 AACAGAA
*
5048590 ATGCAGAA
1 A-ACAGAA
*
5048598 AATAGAA
1 AACAGAA
5048605 AACAGAA
1 AACAGAA
5048612 AA
1 AA
5048614 TAAAGAAACA
Statistics
Matches: 53, Mismatches: 10, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
6 3 0.06
7 41 0.77
8 9 0.17
ACGTcount: A:0.71, C:0.11, G:0.12, T:0.05
Consensus pattern (7 bp):
AACAGAA
Found at i:5048570 original size:21 final size:22
Alignment explanation
Indices: 5048541--5048615 Score: 86
Period size: 21 Copynumber: 3.5 Consensus size: 22
5048531 CACTTCATTC
5048541 AACAGAAAATAGCAAAACAGAA
1 AACAGAAAATAGCAAAACAGAA
*
5048563 AACAAAAAATAG-AAAACAGAA
1 AACAGAAAATAGCAAAACAGAA
*
5048584 AAC--AAAAT-GCAGAAAATAGAA
1 AACAGAAAATAGC--AAAACAGAA
5048605 AACAGAAAATA
1 AACAGAAAATA
5048616 AAGAAACATA
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
18 1 0.02
19 5 0.11
21 23 0.51
22 11 0.24
23 5 0.11
ACGTcount: A:0.71, C:0.11, G:0.12, T:0.07
Consensus pattern (22 bp):
AACAGAAAATAGCAAAACAGAA
Found at i:5048587 original size:28 final size:28
Alignment explanation
Indices: 5048544--5048613 Score: 88
Period size: 28 Copynumber: 2.5 Consensus size: 28
5048534 TTCATTCAAC
*
5048544 AGAAAATAGCAAAACAGAAA-ACAAAAAAT
1 AGAAAACAG-AAAACA-AAATACAAAAAAT
* *
5048573 AGAAAACAGAAAACAAAATGCAGAAAAT
1 AGAAAACAGAAAACAAAATACAAAAAAT
5048601 AGAAAACAGAAAA
1 AGAAAACAGAAAA
5048614 TAAAGAAACA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.08
28 26 0.70
29 8 0.22
ACGTcount: A:0.71, C:0.10, G:0.13, T:0.06
Consensus pattern (28 bp):
AGAAAACAGAAAACAAAATACAAAAAAT
Found at i:5048659 original size:18 final size:19
Alignment explanation
Indices: 5048617--5048660 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
5048607 CAGAAAATAA
*
5048617 AGAAACATAAAAATGGTAC
1 AGAAACATAAAAATGCTAC
* *
5048636 AGAAACAT-AACATGCTAG
1 AGAAACATAAAAATGCTAC
5048654 AGAAACA
1 AGAAACA
5048661 GAAATTTTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 14 0.64
19 8 0.36
ACGTcount: A:0.57, C:0.14, G:0.16, T:0.14
Consensus pattern (19 bp):
AGAAACATAAAAATGCTAC
Found at i:5050258 original size:198 final size:198
Alignment explanation
Indices: 5049919--5050330 Score: 639
Period size: 198 Copynumber: 2.1 Consensus size: 198
5049909 TAATTAACCC
*
5049919 ATTTGCGGCGTTTATATACCAGCGCCACTAGTAATATGATCAAACGCTGTCGTTTCCCGATCAGT
1 ATTTGCGGCGTTTATATACCAGCGCCACTAGTAATATGATCAAACGCTGTCGTTCCCCGATCAGT
* ** * * * * *
5049984 TAACTCTAAGTCATTGCGTTTTAGAGAAAACGACATCGTCTCTATAAAAATTAAAACATTTTTGC
66 AAACTAAAACTCATGGCGTTTTAGACAAAACGACATCGTCTCCATAAAAATTAAAACAATTTTGC
*
5050049 GGCGTTTACTAAAAGCGCCACTAAA-AGTAAATAAGAAAACGAAGCCGTTTTCCTAAACAATTTC
131 AGCGTTTACTAAAAGCGCCACTAAAGA-TAAATAAGAAAACGAAGCCGTTTTCCTAAACAATTTC
5050113 TGTA
195 TGTA
* * *
5050117 CTTTGCGGCGTTTATATACTAGCGCCACTAGTAATATGATCAAACGCTGTCGTTCCCCGATTAGT
1 ATTTGCGGCGTTTATATACCAGCGCCACTAGTAATATGATCAAACGCTGTCGTTCCCCGATCAGT
5050182 AAACTAAAACTCATGGCGTTTTAGACAAAACGGA-ATCGTCTCCATAAAAATTAAAACAATTTTG
66 AAACTAAAACTCATGGCGTTTTAGACAAAAC-GACATCGTCTCCATAAAAATTAAAACAATTTTG
* * *
5050246 CAGCGTTTACTAAAAGCGCCACTAATGATAAATAAGAAAACGGAGCCGTTTTCGTAAACAATTTC
130 CAGCGTTTACTAAAAGCGCCACTAAAGATAAATAAGAAAACGAAGCCGTTTTCCTAAACAATTTC
5050311 TGTA
195 TGTA
*
5050315 AATTGCGGCGTTTATA
1 ATTTGCGGCGTTTATA
5050331 CATAAACGCC
Statistics
Matches: 194, Mismatches: 18, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
198 191 0.98
199 3 0.02
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (198 bp):
ATTTGCGGCGTTTATATACCAGCGCCACTAGTAATATGATCAAACGCTGTCGTTCCCCGATCAGT
AAACTAAAACTCATGGCGTTTTAGACAAAACGACATCGTCTCCATAAAAATTAAAACAATTTTGC
AGCGTTTACTAAAAGCGCCACTAAAGATAAATAAGAAAACGAAGCCGTTTTCCTAAACAATTTCT
GTA
Found at i:5050790 original size:47 final size:47
Alignment explanation
Indices: 5050718--5050809 Score: 130
Period size: 47 Copynumber: 2.0 Consensus size: 47
5050708 GTTAATTTTG
* **
5050718 GTAATATTTAAAAAAATTAGATAAAATTATCAATCTTAGTTTTTTAA
1 GTAATATTTAAAAAAATTAGATAAAAATAAAAATCTTAGTTTTTTAA
* * *
5050765 GTAATATTTATAAAAATTAGGTAAAAATAAAAATTTTAGTTTTTT
1 GTAATATTTAAAAAAATTAGATAAAAATAAAAATCTTAGTTTTTT
5050810 TATTTCTTTT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
47 39 1.00
ACGTcount: A:0.47, C:0.02, G:0.08, T:0.43
Consensus pattern (47 bp):
GTAATATTTAAAAAAATTAGATAAAAATAAAAATCTTAGTTTTTTAA
Found at i:5050826 original size:17 final size:19
Alignment explanation
Indices: 5050797--5050844 Score: 66
Period size: 18 Copynumber: 2.6 Consensus size: 19
5050787 AAAAATAAAA
5050797 ATTTTAGTTTTTTTA-TTTC
1 ATTTTA-TTTTTTTATTTTC
5050816 -TTTTA-TTTTTTATTTTC
1 ATTTTATTTTTTTATTTTC
5050833 ATTTTATTTTTT
1 ATTTTATTTTTT
5050845 GTAATTTTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
16 7 0.27
17 4 0.15
18 10 0.38
19 5 0.19
ACGTcount: A:0.15, C:0.04, G:0.02, T:0.79
Consensus pattern (19 bp):
ATTTTATTTTTTTATTTTC
Found at i:5050911 original size:16 final size:14
Alignment explanation
Indices: 5050882--5050908 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
5050872 TTTACAATTC
5050882 CAAATTATTATATT
1 CAAATTATTATATT
5050896 CAAATTATTATAT
1 CAAATTATTATAT
5050909 ATTGCATATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.48
Consensus pattern (14 bp):
CAAATTATTATATT
Found at i:5051142 original size:95 final size:97
Alignment explanation
Indices: 5050979--5051155 Score: 225
Period size: 95 Copynumber: 1.8 Consensus size: 97
5050969 TATAAAGAAC
* * ** * * * *
5050979 TTATTTAATATGTTAATTAAATAAGTACTAATTAATCCAAATCTTAATCCCTAACCCGACTCCAA
1 TTATTTAATATATAAATTAAATAAACACTAATTAATCCAAACCTTAAACCATAACCCGAATCCAA
5051044 ACCCATAACCC-TAACCCCTAACCCCTAAACT
66 ACCCATAACCCTTAACCCCTAACCCCTAAACT
* *
5051075 TTATTTAATATATAAATTAAA-AAACACTAATTAATCTAAACCTTAAACCATAACCC-AATCCTT
1 TTATTTAATATATAAATTAAATAAACACTAATTAATCCAAACCTTAAACCATAACCCGAATCC-A
*
5051138 AACCCTTAACCCTTAACC
65 AACCCATAACCCTTAACC
5051156 TTTAACCCTT
Statistics
Matches: 68, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
94 4 0.06
95 40 0.59
96 24 0.35
ACGTcount: A:0.41, C:0.27, G:0.02, T:0.30
Consensus pattern (97 bp):
TTATTTAATATATAAATTAAATAAACACTAATTAATCCAAACCTTAAACCATAACCCGAATCCAA
ACCCATAACCCTTAACCCCTAACCCCTAAACT
Found at i:5051197 original size:7 final size:7
Alignment explanation
Indices: 5051134--5051177 Score: 79
Period size: 7 Copynumber: 6.3 Consensus size: 7
5051124 ATAACCCAAT
5051134 CCTTAAC
1 CCTTAAC
5051141 CCTTAAC
1 CCTTAAC
5051148 CCTTAAC
1 CCTTAAC
*
5051155 CTTTAAC
1 CCTTAAC
5051162 CCTTAAC
1 CCTTAAC
5051169 CCTTAAC
1 CCTTAAC
5051176 CC
1 CC
5051178 ATGACTTCTA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
7 35 1.00
ACGTcount: A:0.27, C:0.43, G:0.00, T:0.30
Consensus pattern (7 bp):
CCTTAAC
Found at i:5051318 original size:12 final size:12
Alignment explanation
Indices: 5051301--5051339 Score: 60
Period size: 12 Copynumber: 3.1 Consensus size: 12
5051291 CTCTTAACAT
5051301 CTAACCCCTAAC
1 CTAACCCCTAAC
5051313 CTAACCCCTAACC
1 CTAACCCCTAA-C
5051326 CATAACCCCTAAC
1 C-TAACCCCTAAC
5051339 C
1 C
5051340 CCTAATCCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 11 0.44
13 4 0.16
14 10 0.40
ACGTcount: A:0.33, C:0.51, G:0.00, T:0.15
Consensus pattern (12 bp):
CTAACCCCTAAC
Found at i:5051338 original size:21 final size:21
Alignment explanation
Indices: 5051312--5051351 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
5051302 TAACCCCTAA
5051312 CCTAACCCCTAACCCATAACC
1 CCTAACCCCTAACCCATAACC
*
5051333 CCTAACCCCTAATCCATAA
1 CCTAACCCCTAACCCATAA
5051352 ACCTTAAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.35, C:0.47, G:0.00, T:0.17
Consensus pattern (21 bp):
CCTAACCCCTAACCCATAACC
Found at i:5051340 original size:14 final size:13
Alignment explanation
Indices: 5051301--5051340 Score: 64
Period size: 14 Copynumber: 3.1 Consensus size: 13
5051291 CTCTTAACAT
5051301 CTAACCCCTAA-C
1 CTAACCCCTAACC
5051313 CTAACCCCTAACC
1 CTAACCCCTAACC
5051326 CATAACCCCTAACC
1 C-TAACCCCTAACC
5051340 C
1 C
5051341 CTAATCCATA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
12 11 0.42
13 2 0.08
14 13 0.50
ACGTcount: A:0.33, C:0.53, G:0.00, T:0.15
Consensus pattern (13 bp):
CTAACCCCTAACC
Found at i:5051403 original size:14 final size:15
Alignment explanation
Indices: 5051381--5051414 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
5051371 CTTAAACCAG
*
5051381 AATCCCTAA-TCCAT
1 AATCTCTAATTCCAT
5051395 AATCTCTAATTCCAT
1 AATCTCTAATTCCAT
5051410 AATCT
1 AATCT
5051415 ATAAAACTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.35, C:0.29, G:0.00, T:0.35
Consensus pattern (15 bp):
AATCTCTAATTCCAT
Found at i:5051873 original size:114 final size:114
Alignment explanation
Indices: 5051747--5051952 Score: 256
Period size: 114 Copynumber: 1.8 Consensus size: 114
5051737 GCTTTACCGA
* * *
5051747 AAACGCCGCTAA-TACTATTC-TTTAGCGGCGTTTTACCATAAACGCCACTAAT-TCTAATATAC
1 AAACGCCACTAATTA-TATTCTTTTA-CGGCGTTTTACCAAAAACACCACTAATAT-TAATATAC
*
5051809 ATCAAAACCAAACGCTGCGTTTTGGTTAAGGCATTTTGCGGCGCTTCCAAAT
63 ATCAAAACCAAACGCTGCGTTTTCGTTAAGGCATTTTGCGGCGCTTCCAAAT
* *** * *
5051861 AAACGCCACTAATTATGTTCTTTTACGGCGTTTTTTTAAAAACACCACTAATATTAATCTACCTC
1 AAACGCCACTAATTATATTCTTTTACGGCGTTTTACCAAAAACACCACTAATATTAATATACATC
* *
5051926 AAGACCAAACGGTGCGTTTTCGTTAAG
66 AAAACCAAACGCTGCGTTTTCGTTAAG
5051953 ATATTTGCGG
Statistics
Matches: 77, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
114 70 0.91
115 7 0.09
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.32
Consensus pattern (114 bp):
AAACGCCACTAATTATATTCTTTTACGGCGTTTTACCAAAAACACCACTAATATTAATATACATC
AAAACCAAACGCTGCGTTTTCGTTAAGGCATTTTGCGGCGCTTCCAAAT
Found at i:5051998 original size:74 final size:75
Alignment explanation
Indices: 5051900--5052038 Score: 201
Period size: 74 Copynumber: 1.9 Consensus size: 75
5051890 GTTTTTTTAA
* * *
5051900 AAACACCACTAATATTAATCTACCTCAAGACCAAACGGTGCGTTTTCGTTAAGATA-TTTGCGGC
1 AAACACCACTAATATTAATATACCTCAAAACCAAACGCTGCGTTTTCGTTAAGATATTTTGCGGC
5051964 TTTTTATCGT
66 TTTTTATCGT
* * *
5051974 AAACGCCACTAAT-TCTAATATACCTCAAAACCAAACGCTGCGTTTTGGTTAAGGTATTTTGCGG
1 AAACACCACTAATAT-TAATATACCTCAAAACCAAACGCTGCGTTTTCGTTAAGATATTTTGCGG
5052038 C
65 C
5052039 GCATAAAAAT
Statistics
Matches: 57, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
73 1 0.02
74 48 0.84
75 8 0.14
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (75 bp):
AAACACCACTAATATTAATATACCTCAAAACCAAACGCTGCGTTTTCGTTAAGATATTTTGCGGC
TTTTTATCGT
Found at i:5052004 original size:188 final size:188
Alignment explanation
Indices: 5051771--5052159 Score: 652
Period size: 188 Copynumber: 2.1 Consensus size: 188
5051761 CTATTCTTTA
5051771 GCGGCGTTTTACCATAAACGCCACTAATTCTAATATACATCAAAACCAAACGCTGCGTTTTGGTT
1 GCGGCGTTTTACCATAAACGCCACTAATTCTAATATACATCAAAACCAAACGCTGCGTTTTGGTT
* ** *
5051836 AAGGCATTTTGCGGCGCTTCCAAATAAACGCCACTAATTATGTTCTTTTACGGCGTTTTTTTAAA
66 AAGGCATTTTGCGGCGCATAAAAATAAACGCCACTAATTATGTTCTTTTACGGCGTTTTTCTAAA
* *
5051901 AACACCACTAATATTAATCTACCTCAAGACCAAACGGTGCGTTTTCGTTAAGATATTT
131 AACACCACTAATACTAATCTACCTCAAGACCAAACGGTGCGTTTTCATTAAGATATTT
* * * *
5051959 GCGGCTTTTTATCGTAAACGCCACTAATTCTAATATACCTCAAAACCAAACGCTGCGTTTTGGTT
1 GCGGCGTTTTACCATAAACGCCACTAATTCTAATATACATCAAAACCAAACGCTGCGTTTTGGTT
*
5052024 AAGGTATTTTGCGGCGCATAAAAATAAACGCCACTAATTATGTTCTTTTACGGCGTTTTTCTAAA
66 AAGGCATTTTGCGGCGCATAAAAATAAACGCCACTAATTATGTTCTTTTACGGCGTTTTTCTAAA
* *
5052089 AACGCCACTAATACTAATCTACCTCAAGACGAAACGGTGCGTTTTCATTAAGATATTT
131 AACACCACTAATACTAATCTACCTCAAGACCAAACGGTGCGTTTTCATTAAGATATTT
*
5052147 GCGGCGCTTTACC
1 GCGGCGTTTTACC
5052160 GACAACGCCG
Statistics
Matches: 185, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
188 185 1.00
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (188 bp):
GCGGCGTTTTACCATAAACGCCACTAATTCTAATATACATCAAAACCAAACGCTGCGTTTTGGTT
AAGGCATTTTGCGGCGCATAAAAATAAACGCCACTAATTATGTTCTTTTACGGCGTTTTTCTAAA
AACACCACTAATACTAATCTACCTCAAGACCAAACGGTGCGTTTTCATTAAGATATTT
Found at i:5052219 original size:113 final size:111
Alignment explanation
Indices: 5051956--5052551 Score: 434
Period size: 114 Copynumber: 5.2 Consensus size: 111
5051946 CGTTAAGATA
* ** * * *
5051956 TTTGCGGCTTTTTATCGTAAACGCCACTAATTCTAATATACCTCAAAACCAAACGCTGCGTTTTG
1 TTTGCGGCGTTTTAT-AAAAACGCCAC-AAATCTAATATACCTCAAGACCAAACGCTGCGTTTTC
* **** *
5052021 GTTAAGGTATTTTGCGGCGCATAAAAATAAACGCCACTAATTATGTTCT
64 GTTAAGATATTTTGCGGCGC-TTCCGATAAACGCCACTAATTATATTCT
* * * * * *
5052070 TTTACGGCGTTTTTCTAAAAACGCCACTAATACTAATCTACCTCAAGACGAAACGGTGCGTTTTC
1 TTTGCGGCG-TTTTATAAAAACGCCACAAAT-CTAATATACCTCAAGACCAAACGCTGCGTTTTC
* * *
5052135 ATTAAGATA-TTTGCGGCGCTTTACCGA-CAACGCCGCTAA-TACTATTCT
64 GTTAAGATATTTTGCGGCGC-TT-CCGATAAACGCCACTAATTA-TATTCT
* **
5052183 TTTGCGGCGTTTTATAGAAAACGCCACAAAGTCTAATATACAATTGA-ACCAAACGCTGCGTTTT
1 TTTGCGGCGTTTTATA-AAAACGCCACAAA-TCTAATATAC-CTCAAGACCAAACGCTGCGTTTT
* * * * *
5052247 GGTTAAGGTATTTTGTGGCGCCTCCTGATAAACGCCACTAATTATGTTCT
63 CGTTAAGATATTTTGCGGCGCTTCC-GATAAACGCCACTAATTATATTCT
* * * * * * *
5052297 TTTACAGCATTATTTTAAAAACGCCACTAATAT-TAATCTACCTCAAGACAAAACGGTGCGTTTT
1 TTTGCGGCGTT-TTATAAAAACGCCAC-AA-ATCTAATATACCTCAAGACCAAACGCTGCGTTTT
* ** * *
5052361 CCTTAAGATA-TTTGCGGCGCTTTTTGTTAAACGCCGCTAA-TACTATTCT
63 CGTTAAGATATTTTGCGGCGC-TTCCGATAAACGCCACTAATTA-TATTCT
* * * * **
5052410 TTAGCGGCGTTTTTTATAAAAAACGCCATGAATTCTAATATACAATTGA-ACCAAACGCTGCGTT
1 TTTGCGGCG--TTTTAT-AAAAACGCCA-CAAATCTAATATAC-CTCAAGACCAAACGCTGCGTT
* * * * *
5052474 TTGGTTAAGGTATTTTGCGGCGCTTACAATAAACGCCACTAATTATGTTCT
61 TTCGTTAAGATATTTTGCGGCGCTTCCGATAAACGCCACTAATTATATTCT
* * *
5052525 TTTACGGCGTTTTTTTAGAAACGCCAC
1 TTTGCGGCG-TTTTATAAAAACGCCAC
5052552 TAGTTCTTCA
Statistics
Matches: 371, Mismatches: 86, Indels: 52
0.73 0.17 0.10
Matches are distributed among these distances:
112 12 0.03
113 124 0.33
114 137 0.37
115 83 0.22
116 15 0.04
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.33
Consensus pattern (111 bp):
TTTGCGGCGTTTTATAAAAACGCCACAAATCTAATATACCTCAAGACCAAACGCTGCGTTTTCGT
TAAGATATTTTGCGGCGCTTCCGATAAACGCCACTAATTATATTCT
Found at i:5052256 original size:227 final size:224
Alignment explanation
Indices: 5051956--5052553 Score: 840
Period size: 227 Copynumber: 2.6 Consensus size: 224
5051946 CGTTAAGATA
* * * * * **
5051956 TTTGCGGCTTTTTATCGTAAACGCCACTAATTCTAATATAC-CTCAAAACCAAACGCTGCGTTTT
1 TTTGCGGCGTTTTATAGAAAACGCCACAAATTCTAATATACAAT-TGAACCAAACGCTGCGTTTT
5052020 GGTTAAGGTATTTTGCGGCGCATAAAAATAAACGCCACTAATTATGTTCTTTTACGGCGTTTTTC
65 GGTTAAGGTATTTTGCGGCGC-TAAAAATAAACGCCACTAATTATGTTCTTTTACGGCGTTTTT-
*
5052085 TAAAAACGCCACTAATACTAATCTACCTCAAGACGAAACGGTGCGTTTTCATTAAGATATTTGCG
128 TAAAAACGCCACTAATACTAATCTACCTCAAGACAAAACGGTGCGTTTTCATTAAGATATTTGCG
5052150 GCGCTTTACCG-ACAACGCCGCTAATACTATTCT
193 GCGCTTT-CCGTA-AACGCCGCTAATACTATTCT
*
5052183 TTTGCGGCGTTTTATAGAAAACGCCACAAAGTCTAATATACAATTGAACCAAACGCTGCGTTTTG
1 TTTGCGGCGTTTTATAGAAAACGCCACAAATTCTAATATACAATTGAACCAAACGCTGCGTTTTG
* **** * *
5052248 GTTAAGGTATTTTGTGGCGCCTCCTGATAAACGCCACTAATTATGTTCTTTTACAGCATTATTTT
66 GTTAAGGTATTTTGCGGCG-CTAAAAATAAACGCCACTAATTATGTTCTTTTACGGCGTT-TTTT
* *
5052313 AAAAACGCCACTAATATTAATCTACCTCAAGACAAAACGGTGCGTTTTCCTTAAGATATTTGCGG
129 AAAAACGCCACTAATACTAATCTACCTCAAGACAAAACGGTGCGTTTTCATTAAGATATTTGCGG
**
5052378 CGCTTTTTGTTAAACGCCGCTAATACTATTCT
194 CGCTTTCCG-TAAACGCCGCTAATACTATTCT
* * **
5052410 TTAGCGGCGTTTTTTATAAAAAACGCCATGAATTCTAATATACAATTGAACCAAACGCTGCGTTT
1 TTTGCGGCG--TTTTATAGAAAACGCCACAAATTCTAATATACAATTGAACCAAACGCTGCGTTT
* *
5052475 TGGTTAAGGTATTTTGCGGCGCTTACAATAAACGCCACTAATTATGTTCTTTTACGGCGTTTTTT
64 TGGTTAAGGTATTTTGCGGCGCTAAAAATAAACGCCACTAATTATGTTCTTTTACGGCG-TTTTT
*
5052540 TAGAAACGCCACTA
128 TAAAAACGCCACTA
5052554 GTTCTTCAGG
Statistics
Matches: 330, Mismatches: 33, Indels: 15
0.87 0.09 0.04
Matches are distributed among these distances:
226 1 0.00
227 203 0.62
228 54 0.16
229 72 0.22
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.33
Consensus pattern (224 bp):
TTTGCGGCGTTTTATAGAAAACGCCACAAATTCTAATATACAATTGAACCAAACGCTGCGTTTTG
GTTAAGGTATTTTGCGGCGCTAAAAATAAACGCCACTAATTATGTTCTTTTACGGCGTTTTTTAA
AAACGCCACTAATACTAATCTACCTCAAGACAAAACGGTGCGTTTTCATTAAGATATTTGCGGCG
CTTTCCGTAAACGCCGCTAATACTATTCT
Found at i:5052322 original size:114 final size:110
Alignment explanation
Indices: 5051974--5052551 Score: 486
Period size: 113 Copynumber: 5.1 Consensus size: 110
5051964 TTTTTATCGT
* *
5051974 AAACGCCACTAATTCTAATATACCTCAAAACCAAACGCTGCGTTTTGGTTAAGGTATTTTGCGGC
1 AAACGCCAC-AAATCTAATATACATC-AAACCAAACGCTGCGTTTTGGTTAAGGTATTTTGCGGC
* **
5052039 GCATAAAAATAAACGCCACTAATTATGTTCTTTTACGGCGTTTTTCTAA
64 GC-TTACGATAAACGCCACTAATTATGTTCTTTTACGGCGTTTTT-TAA
* * * * * ** *
5052088 AAACGCCACTAATACTAATCTACCTCAAGACGAAACGGTGCGTTTTCATTAAGATA-TTTGCGGC
1 AAACGCCACAAAT-CTAATATACATCAA-ACCAAACGCTGCGTTTTGGTTAAGGTATTTTGCGGC
* * * * *
5052152 GCTTTACCGA-CAACGCCGCTAA-TACTATTCTTTTGCGGCGTTTTATAGA
64 GC-TTA-CGATAAACGCCACTAATTA-TGTTCTTTTACGGCGTTTTTTA-A
** *
5052201 AAACGCCACAAAGTCTAATATACAATTGAACCAAACGCTGCGTTTTGGTTAAGGTATTTTGTGGC
1 AAACGCCACAAA-TCTAATATAC-ATCAAACCAAACGCTGCGTTTTGGTTAAGGTATTTTGCGGC
* * * *
5052266 GCCTCCTGATAAACGCCACTAATTATGTTCTTTTACAGCATTATTTTAA
64 GCTTAC-GATAAACGCCACTAATTATGTTCTTTTACGGCGTT-TTTTAA
* * * * ** *
5052315 AAACGCCACTAATAT-TAATCTACCTCAAGACAAAACGGTGCGTTTTCCTTAAGATA-TTTGCGG
1 AAACGCCAC-AA-ATCTAATATACATCAA-ACCAAACGCTGCGTTTTGGTTAAGGTATTTTGCGG
** * * *
5052378 CGCTTTTTGTTAAACGCCGCTAA-TACTATTC-TTTAGCGGCGTTTTTTATAAA
63 CGC-TTACGATAAACGCCACTAATTA-TGTTCTTTTA-CGGCG-TTTTT-T-AA
* * **
5052430 AAACGCCATGAATTCTAATATACAATTGAACCAAACGCTGCGTTTTGGTTAAGGTATTTTGCGGC
1 AAACGCCA-CAAATCTAATATAC-ATCAAACCAAACGCTGCGTTTTGGTTAAGGTATTTTGCGGC
* *
5052495 GCTTACAATAAACGCCACTAATTATGTTCTTTTACGGCGTTTTTTTAG
64 GCTTACGATAAACGCCACTAATTATGTTCTTTTACGGCG-TTTTTTAA
5052543 AAACGCCAC
1 AAACGCCAC
5052552 TAGTTCTTCA
Statistics
Matches: 363, Mismatches: 74, Indels: 56
0.74 0.15 0.11
Matches are distributed among these distances:
112 11 0.03
113 131 0.36
114 123 0.34
115 79 0.22
116 19 0.05
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.33
Consensus pattern (110 bp):
AAACGCCACAAATCTAATATACATCAAACCAAACGCTGCGTTTTGGTTAAGGTATTTTGCGGCGC
TTACGATAAACGCCACTAATTATGTTCTTTTACGGCGTTTTTTAA
Found at i:5053569 original size:20 final size:19
Alignment explanation
Indices: 5053544--5053609 Score: 62
Period size: 20 Copynumber: 3.4 Consensus size: 19
5053534 CTTGTTTACA
5053544 TTGATTTGATTCTCAATCTT
1 TTGATTTGATTCTCAATC-T
** * *
5053564 TTGATTTCTTTC-CATTACA
1 TTGATTTGATTCTCAAT-CT
5053583 TTGATTTGATTCTCAATCCT
1 TTGATTTGATTCTCAAT-CT
5053603 TTGATTT
1 TTGATTT
5053610 CTTTCCATTA
Statistics
Matches: 35, Mismatches: 9, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
19 13 0.37
20 22 0.63
ACGTcount: A:0.20, C:0.17, G:0.09, T:0.55
Consensus pattern (19 bp):
TTGATTTGATTCTCAATCT
Found at i:5053588 original size:19 final size:19
Alignment explanation
Indices: 5053564--5053620 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
5053554 TCTCAATCTT
5053564 TTGATTTCTTTCCATTACA
1 TTGATTTCTTTCCATTACA
** * * *
5053583 TTGATTTGATTCTCAATCCT
1 TTGATTTCTTTC-CATTACA
5053603 TTGATTTCTTTCCATTAC
1 TTGATTTCTTTCCATTAC
5053621 TGTTTTGATT
Statistics
Matches: 28, Mismatches: 9, Indels: 2
0.72 0.23 0.05
Matches are distributed among these distances:
19 14 0.50
20 14 0.50
ACGTcount: A:0.19, C:0.21, G:0.07, T:0.53
Consensus pattern (19 bp):
TTGATTTCTTTCCATTACA
Found at i:5053593 original size:39 final size:39
Alignment explanation
Indices: 5053539--5053657 Score: 206
Period size: 39 Copynumber: 3.1 Consensus size: 39
5053529 AAAATCTTGT
*
5053539 TTACATTGATTTGATTCTCAATCTTTTGATTTCTTTCCA
1 TTACATTGATTTGATTCTCAATCCTTTGATTTCTTTCCA
5053578 TTACATTGATTTGATTCTCAATCCTTTGATTTCTTTCCA
1 TTACATTGATTTGATTCTCAATCCTTTGATTTCTTTCCA
*
5053617 TTAC--TGTTTTGATTCTCAATCCTTTGATTTCTTTCCA
1 TTACATTGATTTGATTCTCAATCCTTTGATTTCTTTCCA
5053654 TTAC
1 TTAC
5053658 TGTTTTGCTT
Statistics
Matches: 78, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
37 36 0.46
39 42 0.54
ACGTcount: A:0.19, C:0.20, G:0.08, T:0.53
Consensus pattern (39 bp):
TTACATTGATTTGATTCTCAATCCTTTGATTTCTTTCCA
Found at i:5053630 original size:22 final size:22
Alignment explanation
Indices: 5053602--5053664 Score: 59
Period size: 22 Copynumber: 3.2 Consensus size: 22
5053592 TTCTCAATCC
5053602 TTTGATTTCTTTCCATTACTGT
1 TTTGATTTCTTTCCATTACTGT
**
5053624 TTTGA-TTC--T-CA--A-TCC
1 TTTGATTTCTTTCCATTACTGT
5053639 TTTGATTTCTTTCCATTACTGT
1 TTTGATTTCTTTCCATTACTGT
5053661 TTTG
1 TTTG
5053665 CTTCCTTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 14
0.62 0.08 0.29
Matches are distributed among these distances:
15 6 0.20
16 4 0.13
18 3 0.10
19 3 0.10
21 4 0.13
22 10 0.33
ACGTcount: A:0.14, C:0.19, G:0.10, T:0.57
Consensus pattern (22 bp):
TTTGATTTCTTTCCATTACTGT
Found at i:5053637 original size:37 final size:37
Alignment explanation
Indices: 5053548--5053664 Score: 198
Period size: 37 Copynumber: 3.1 Consensus size: 37
5053538 TTTACATTGA
* *
5053548 TTTGATTCTCAATCTTTTGATTTCTTTCCATTACATTGA
1 TTTGATTCTCAATCCTTTGATTTCTTTCCATTAC--TGT
5053587 TTTGATTCTCAATCCTTTGATTTCTTTCCATTACTGT
1 TTTGATTCTCAATCCTTTGATTTCTTTCCATTACTGT
5053624 TTTGATTCTCAATCCTTTGATTTCTTTCCATTACTGT
1 TTTGATTCTCAATCCTTTGATTTCTTTCCATTACTGT
5053661 TTTG
1 TTTG
5053665 CTTCCTTTTT
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
37 43 0.57
39 33 0.43
ACGTcount: A:0.17, C:0.20, G:0.09, T:0.55
Consensus pattern (37 bp):
TTTGATTCTCAATCCTTTGATTTCTTTCCATTACTGT
Found at i:5059356 original size:22 final size:23
Alignment explanation
Indices: 5059310--5059356 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
5059300 TAAAATAGTG
* * *
5059310 AAATTATATTTTTATTGTTATAA
1 AAATTATAATTTAATTGTTAAAA
5059333 AAATTATAATTTAATT-TTAAAA
1 AAATTATAATTTAATTGTTAAAA
5059355 AA
1 AA
5059357 GTTTGATGCT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 7 0.33
23 14 0.67
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (23 bp):
AAATTATAATTTAATTGTTAAAA
Found at i:5066805 original size:106 final size:106
Alignment explanation
Indices: 5066669--5066869 Score: 375
Period size: 106 Copynumber: 1.9 Consensus size: 106
5066659 AAAATTTTTC
5066669 TAAATAAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGAT
1 TAAATAAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGAT
*
5066734 TTCTCGTTCGACCAAATAGCCAAATATCCTTTTTAAACTTT
66 TTCTCGTTCGACCAAACAGCCAAATATCCTTTTTAAACTTT
*
5066775 TAAATAAGGCAATATTTCGCGTTTGGAAAATCGAGGAAACGTGCCCTAACGTGCTGGGTTTCGAT
1 TAAATAAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGAT
*
5066840 TTCTCGTTCGACTAAACAGCCAAATATCCT
66 TTCTCGTTCGACCAAACAGCCAAATATCCT
5066870 CTTAAAGCTT
Statistics
Matches: 92, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
106 92 1.00
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.30
Consensus pattern (106 bp):
TAAATAAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGAT
TTCTCGTTCGACCAAACAGCCAAATATCCTTTTTAAACTTT
Found at i:5067664 original size:14 final size:14
Alignment explanation
Indices: 5067645--5067678 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
5067635 AAAATAAAAG
5067645 AAAATAATCACTTA
1 AAAATAATCACTTA
*
5067659 AAAATACTCACTTA
1 AAAATAATCACTTA
*
5067673 ATAATA
1 AAAATA
5067679 TAATTTCTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.56, C:0.15, G:0.00, T:0.29
Consensus pattern (14 bp):
AAAATAATCACTTA
Found at i:5069085 original size:87 final size:87
Alignment explanation
Indices: 5068992--5069156 Score: 235
Period size: 88 Copynumber: 1.9 Consensus size: 87
5068982 TTATTTTTGT
* * * *
5068992 ACTCAATTTGG-TACTTGAAC-CGTCAAAATGTATCAAAAAGGCCCTCAAACTTTTTCAAAAAAA
1 ACTCAATTTGGATACTT-AACTCGTCAAAATGCATAAAAAAGACCCTCAAAATTTTTC-AAAAAA
5069055 AACAATTAAGCCCCTTTTTTTTAC
64 AACAATTAAGCCCCTTTTTTTTAC
* * *
5069079 ACTCAATTTGGATACTTAACTTGTCAAAATGCATAAAAAAGATCCTCAAAATTTTTCAAAAAAAT
1 ACTCAATTTGGATACTTAACTCGTCAAAATGCATAAAAAAGACCCTCAAAATTTTTCAAAAAAAA
5069144 CAATTAAGCCCCT
66 CAATTAAGCCCCT
5069157 GCTGTTTCTT
Statistics
Matches: 69, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
87 34 0.49
88 35 0.51
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (87 bp):
ACTCAATTTGGATACTTAACTCGTCAAAATGCATAAAAAAGACCCTCAAAATTTTTCAAAAAAAA
CAATTAAGCCCCTTTTTTTTAC
Found at i:5069344 original size:18 final size:17
Alignment explanation
Indices: 5069291--5069348 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 17
5069281 AATTAGAAAA
*
5069291 AAAAATATAAAAATGTAA
1 AAAAATATAAAAAT-TAT
* *
5069309 AAAAATGTAAAATTTTAT
1 AAAAATATAAAA-ATTAT
5069327 AAAAATCATAAAAATTAT
1 AAAAAT-ATAAAAATTAT
5069345 AAAA
1 AAAA
5069349 TGCATCAAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
18 27 0.82
19 6 0.18
ACGTcount: A:0.67, C:0.02, G:0.03, T:0.28
Consensus pattern (17 bp):
AAAAATATAAAAATTAT
Found at i:5069495 original size:16 final size:18
Alignment explanation
Indices: 5069472--5069515 Score: 67
Period size: 16 Copynumber: 2.6 Consensus size: 18
5069462 GTGAAAAATG
5069472 ATAAAATAAATAAAA-TT
1 ATAAAATAAATAAAAGTT
5069489 A-AAAATAAATAAAAGTT
1 ATAAAATAAATAAAAGTT
5069506 ATAAAA-AAAT
1 ATAAAATAAAT
5069516 TATAAAATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 13 0.52
17 8 0.32
18 4 0.16
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (18 bp):
ATAAAATAAATAAAAGTT
Found at i:5069687 original size:28 final size:29
Alignment explanation
Indices: 5069655--5069777 Score: 94
Period size: 29 Copynumber: 4.3 Consensus size: 29
5069645 TTTTTTTACG
5069655 ATTTTTATAAAATTTTATAATTATTTATA
1 ATTTTTATAAAATTTTATAATTATTTATA
* * * *
5069684 TTTTTTAT-GATTTTTATAATCTTTTTATA
1 ATTTTTATAAAATTTTATAAT-TATTTATA
* *
5069713 ATTTTTAATAAAA-ATTA-AA-TATTTCTTA
1 ATTTTT-ATAAAATTTTATAATTATTT-ATA
* * *
5069741 TTTTTTATTAAAATTTAAT-ATTTTTTATA
1 ATTTTTA-TAAAATTTTATAATTATTTATA
5069770 ATTTTTAT
1 ATTTTTAT
5069778 TTATTTTTAT
Statistics
Matches: 70, Mismatches: 16, Indels: 17
0.68 0.16 0.17
Matches are distributed among these distances:
27 5 0.07
28 23 0.33
29 32 0.46
30 9 0.13
31 1 0.01
ACGTcount: A:0.36, C:0.02, G:0.01, T:0.62
Consensus pattern (29 bp):
ATTTTTATAAAATTTTATAATTATTTATA
Found at i:5069688 original size:38 final size:37
Alignment explanation
Indices: 5069634--5069719 Score: 111
Period size: 38 Copynumber: 2.3 Consensus size: 37
5069624 TATATTTCTG
*
5069634 TATATTTTTTATTTTTTTACGATTTTTATAA-AATTT
1 TATAATTTTTATTTTTTTACGATTTTTATAATAATTT
* **
5069670 TATAATTATTTATATTTTTTATGATTTTTATAATCTTTT
1 TATAATT-TTTAT-TTTTTTACGATTTTTATAATAATTT
5069709 TATAATTTTTA
1 TATAATTTTTA
5069720 ATAAAAATTA
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
36 6 0.14
37 5 0.12
38 22 0.51
39 10 0.23
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.66
Consensus pattern (37 bp):
TATAATTTTTATTTTTTTACGATTTTTATAATAATTT
Found at i:5069709 original size:58 final size:57
Alignment explanation
Indices: 5069562--5069725 Score: 147
Period size: 58 Copynumber: 2.8 Consensus size: 57
5069552 TCTTATACGA
* * * *
5069562 ATTTATATTTCTTTACA-TTTTTATCGTTTTCTTACAA-ATTTATAAAATTTTATATTTTT
1 ATTTATATTTCTGTATATTTTTTATC--TTT-TTACAATTTTTATAAAATTTTATA-TATT
* * *
5069621 TTTTATATTTCTGTATATTTTTTATTTTTTTACGATTTTTATAAAATTTTATA-ATT
1 ATTTATATTTCTGTATATTTTTTATCTTTTTACAATTTTTATAAAATTTTATATATT
* *
5069677 ATTTATATTT-TTTATGATTTTTATAATCTTTTTATAATTTTTAATAAAA
1 ATTTATATTTCTGTAT-ATTTTT-T-ATCTTTTTACAATTTTT-ATAAAA
5069726 ATTAAATATT
Statistics
Matches: 87, Mismatches: 12, Indels: 12
0.78 0.11 0.11
Matches are distributed among these distances:
55 4 0.05
56 17 0.20
57 6 0.07
58 33 0.38
59 20 0.23
60 7 0.08
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.63
Consensus pattern (57 bp):
ATTTATATTTCTGTATATTTTTTATCTTTTTACAATTTTTATAAAATTTTATATATT
Found at i:5069723 original size:10 final size:9
Alignment explanation
Indices: 5069620--5069794 Score: 70
Period size: 9 Copynumber: 18.6 Consensus size: 9
5069610 TTTATATTTT
5069620 TTTTTAT-A
1 TTTTTATAA
*
5069628 TTTCTGTATAT
1 TTT-T-TATAA
*
5069639 TTTTTAT-T
1 TTTTTATAA
**
5069647 TTTTTACGA
1 TTTTTATAA
5069656 TTTTTATAAA
1 TTTTTAT-AA
*
5069666 ATTTTATAA
1 TTTTTATAA
*
5069675 TTATTTATAT
1 TT-TTTATAA
*
5069685 TTTTTATGA
1 TTTTTATAA
5069694 TTTTTATAA
1 TTTTTATAA
5069703 TCTTTTTATAA
1 --TTTTTATAA
5069714 TTTTTAATAA
1 TTTTT-ATAA
***
5069724 AAATTA-AA
1 TTTTTATAA
*
5069732 TATTTCT-TAT
1 T-TTT-TATAA
5069742 TTTTTATTAAA
1 TTTTTA-T-AA
* * *
5069753 ATTTAATAT
1 TTTTTATAA
5069762 TTTTTATAA
1 TTTTTATAA
*
5069771 TTTTTATTTA
1 TTTTTA-TAA
*
5069781 TTTTTATCA
1 TTTTTATAA
5069790 TTTTT
1 TTTTT
5069795 TGCTACATCC
Statistics
Matches: 124, Mismatches: 27, Indels: 31
0.68 0.15 0.17
Matches are distributed among these distances:
8 13 0.10
9 56 0.45
10 38 0.31
11 17 0.14
ACGTcount: A:0.30, C:0.03, G:0.02, T:0.65
Consensus pattern (9 bp):
TTTTTATAA
Found at i:5072601 original size:18 final size:18
Alignment explanation
Indices: 5072572--5072663 Score: 132
Period size: 18 Copynumber: 5.2 Consensus size: 18
5072562 TACGACCGTT
*
5072572 TACGGTACTATTCACGTA
1 TACGGCACTATTCACGTA
*
5072590 TACAGCACTATTCACGTA
1 TACGGCACTATTCACGTA
*
5072608 TACGGTACTATT-ACGTA
1 TACGGCACTATTCACGTA
5072625 TACGGCACTATTCACGTA
1 TACGGCACTATTCACGTA
* *
5072643 TACGGTACTGTTCACGTA
1 TACGGCACTATTCACGTA
5072661 TAC
1 TAC
5072664 AGTAGTTGGG
Statistics
Matches: 66, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
17 16 0.24
18 50 0.76
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (18 bp):
TACGGCACTATTCACGTA
Found at i:5072633 original size:35 final size:36
Alignment explanation
Indices: 5072572--5072665 Score: 163
Period size: 35 Copynumber: 2.6 Consensus size: 36
5072562 TACGACCGTT
5072572 TACGGTACTATTCACGTATACAGCACTATTCACGTA
1 TACGGTACTATTCACGTATACAGCACTATTCACGTA
*
5072608 TACGGTACTATT-ACGTATACGGCACTATTCACGTA
1 TACGGTACTATTCACGTATACAGCACTATTCACGTA
*
5072643 TACGGTACTGTTCACGTATACAG
1 TACGGTACTATTCACGTATACAG
5072666 TAGTTGGGAT
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
35 33 0.61
36 21 0.39
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (36 bp):
TACGGTACTATTCACGTATACAGCACTATTCACGTA
Found at i:5081014 original size:13 final size:13
Alignment explanation
Indices: 5080996--5081056 Score: 52
Period size: 13 Copynumber: 4.3 Consensus size: 13
5080986 TCAAATTAAG
5080996 ATATTTTATATTT
1 ATATTTTATATTT
5081009 ATATTTTAT-TTAT
1 ATATTTTATATT-T
5081022 ATATTTTCAGGTATATT
1 ATATTTT-A--TAT-TT
*
5081039 ATAATTATATATTT
1 AT-ATTTTATATTT
5081053 ATAT
1 ATAT
5081057 AATTTGACAA
Statistics
Matches: 40, Mismatches: 1, Indels: 14
0.73 0.02 0.25
Matches are distributed among these distances:
12 2 0.05
13 19 0.47
14 5 0.12
15 3 0.08
16 1 0.03
17 5 0.12
18 5 0.12
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.61
Consensus pattern (13 bp):
ATATTTTATATTT
Found at i:5086919 original size:21 final size:21
Alignment explanation
Indices: 5086893--5086933 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
5086883 AGACGAGCAA
* *
5086893 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
5086914 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
5086934 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:5096654 original size:11 final size:11
Alignment explanation
Indices: 5096638--5096665 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
5096628 TCTAATCTAA
5096638 TATATTTATAT
1 TATATTTATAT
5096649 TATATTTATAT
1 TATATTTATAT
5096660 TATATT
1 TATATT
5096666 ATCTACAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
TATATTTATAT
Found at i:5097449 original size:24 final size:25
Alignment explanation
Indices: 5097411--5097465 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
5097401 ATACTGACAT
* **
5097411 ATAAAATAAATTTTTAATTGTAAAA
1 ATAAATTAAATTTTTAATTAAAAAA
5097436 ATAAATTAAATTTTT-ATTAAAAAA
1 ATAAATTAAATTTTTAATTAAAAAA
5097460 ATAAAT
1 ATAAAT
5097466 ATATCTAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 13 0.48
25 14 0.52
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (25 bp):
ATAAATTAAATTTTTAATTAAAAAA
Found at i:5102301 original size:23 final size:22
Alignment explanation
Indices: 5102262--5102310 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 22
5102252 ATTATTTAAC
5102262 AAAA-AACAAAAATTTAAAACTA
1 AAAATAACAAAAATTT-AAACTA
*
5102284 AAAATAACGAAAAA-TTAAATTA
1 AAAATAAC-AAAAATTTAAACTA
5102306 AAAAT
1 AAAAT
5102311 TAAAATGATT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
22 14 0.58
23 5 0.21
24 5 0.21
ACGTcount: A:0.71, C:0.06, G:0.02, T:0.20
Consensus pattern (22 bp):
AAAATAACAAAAATTTAAACTA
Found at i:5102429 original size:28 final size:28
Alignment explanation
Indices: 5102371--5102430 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 28
5102361 AAAGCTGTTT
*
5102371 TTTTTTTAAATTTACCGAAATGGGCTGA
1 TTTTTTTAAATTTACCGAAATGGGCTCA
* * *
5102399 TTTTTTTATTATTTACTGGAATGGGC-CA
1 TTTTTTTA-AATTTACCGAAATGGGCTCA
5102427 TTTT
1 TTTT
5102431 CCGCGAAATC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 13 0.48
29 14 0.52
ACGTcount: A:0.23, C:0.10, G:0.17, T:0.50
Consensus pattern (28 bp):
TTTTTTTAAATTTACCGAAATGGGCTCA
Found at i:5107240 original size:22 final size:22
Alignment explanation
Indices: 5107207--5107248 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
5107197 AATAAACACC
5107207 AAAAAATAATTTTAAAAATAAA
1 AAAAAATAATTTTAAAAATAAA
*
5107229 AAAAAAGT-ATTTTGAAAATA
1 AAAAAA-TAATTTTAAAAATA
5107249 TTTTAAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 17 0.94
23 1 0.06
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.29
Consensus pattern (22 bp):
AAAAAATAATTTTAAAAATAAA
Found at i:5108626 original size:18 final size:18
Alignment explanation
Indices: 5108600--5108634 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
5108590 AAATAGGGTG
*
5108600 TACATCTTAACCATCCAC
1 TACACCTTAACCATCCAC
*
5108618 TACACCTTAATCATCCA
1 TACACCTTAACCATCCA
5108635 AATCGAGGGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.37, G:0.00, T:0.29
Consensus pattern (18 bp):
TACACCTTAACCATCCAC
Found at i:5113312 original size:57 final size:57
Alignment explanation
Indices: 5113244--5113352 Score: 218
Period size: 57 Copynumber: 1.9 Consensus size: 57
5113234 TTAAGCATTA
5113244 TTTATAACATTGTCAAATTTATAATTTAAAAAATTATAAAAAATAGAAATAATTTTT
1 TTTATAACATTGTCAAATTTATAATTTAAAAAATTATAAAAAATAGAAATAATTTTT
5113301 TTTATAACATTGTCAAATTTATAATTTAAAAAATTATAAAAAATAGAAATAA
1 TTTATAACATTGTCAAATTTATAATTTAAAAAATTATAAAAAATAGAAATAA
5113353 AAAAAATTTA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 52 1.00
ACGTcount: A:0.53, C:0.04, G:0.04, T:0.39
Consensus pattern (57 bp):
TTTATAACATTGTCAAATTTATAATTTAAAAAATTATAAAAAATAGAAATAATTTTT
Found at i:5113377 original size:57 final size:57
Alignment explanation
Indices: 5113243--5113374 Score: 210
Period size: 57 Copynumber: 2.3 Consensus size: 57
5113233 GTTAAGCATT
****
5113243 ATTTATAACATTGTCAAATTTATAATTTAAAAAATTATAAAAAATAGAAATAATTTT
1 ATTTATAACATTGTCAAATTTATAATTTAAAAAATTATAAAAAATAGAAATAAAAAA
*
5113300 TTTTATAACATTGTCAAATTTATAATTTAAAAAATTATAAAAAATAGAAATAAAAAAA
1 ATTTATAACATTGTCAAATTTATAATTTAAAAAATTATAAAAAATAGAAAT-AAAAAA
5113358 ATTTATAACATTGTCAA
1 ATTTATAACATTGTCAA
5113375 TTTTTTTTGT
Statistics
Matches: 68, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
57 50 0.74
58 18 0.26
ACGTcount: A:0.54, C:0.05, G:0.04, T:0.38
Consensus pattern (57 bp):
ATTTATAACATTGTCAAATTTATAATTTAAAAAATTATAAAAAATAGAAATAAAAAA
Found at i:5116716 original size:14 final size:14
Alignment explanation
Indices: 5116693--5116732 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
5116683 ACAGAAAAGT
*
5116693 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
5116707 AAATCATTTTACGG
1 AAAACATTTTACAG
5116721 AAAACATTTTAC
1 AAAACATTTTAC
5116733 TGCCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Done.