Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold76
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: 2182696
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.29
Warning! 286211 characters in sequence are not A, C, G, or T
File 6 of 13
Found at i:1083624 original size:51 final size:51
Alignment explanation
Indices: 1083511--1083630 Score: 143
Period size: 51 Copynumber: 2.4 Consensus size: 51
1083501 AATTTTTCTT
* * * * *
1083511 AATTGGGGATACTCCAACTCCGATTTTATTTTTAAAGCATCGATTTACCGC
1 AATTGGGGATACTCCAACTCCGATTTTATTTCTAAAACACCAATTTACCAC
* * * *
1083562 AATCGGCGATACTCTAACTCCGATTTTATTTCTAAAACACCAAATTT-TCAC
1 AATTGGGGATACTCCAACTCCGATTTTATTTCTAAAACACC-AATTTACCAC
1083613 AATTGGGGATACTCCAAC
1 AATTGGGGATACTCCAAC
1083631 CCCGTTATTT
Statistics
Matches: 56, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
51 52 0.93
52 4 0.07
ACGTcount: A:0.31, C:0.23, G:0.13, T:0.33
Consensus pattern (51 bp):
AATTGGGGATACTCCAACTCCGATTTTATTTCTAAAACACCAATTTACCAC
Found at i:1083649 original size:28 final size:28
Alignment explanation
Indices: 1083617--1083687 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
1083607 TTTCACAATT
***
1083617 GGGGATACTCCAACCCCGTTATTTCGTC
1 GGGGATACTCCAACCCCGTTATTTCCAA
*
1083645 GGGGATACTCCAACCCTGTTATTTCCAA
1 GGGGATACTCCAACCCCGTTATTTCCAA
*
1083673 GGGGATACTACAACC
1 GGGGATACTCCAACC
1083688 TCATCTTAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.24, C:0.30, G:0.21, T:0.25
Consensus pattern (28 bp):
GGGGATACTCCAACCCCGTTATTTCCAA
Found at i:1083766 original size:109 final size:106
Alignment explanation
Indices: 1083617--1083897 Score: 350
Period size: 109 Copynumber: 2.6 Consensus size: 106
1083607 TTTCACAATT
* * * *
1083617 GGGGATACTCCAACCCCGTTATTTCGTCGGGGATACTCCAACCCTGTTATTTCCAAGGGGATACT
1 GGGGGTACTCCAACCCCGTTATTTCATCGGAGATACTCCAACCC-GTTATTTCCGAGGGGATACT
* *
1083682 ACAA-CCTCATCTTAATATCTAAAAAAGTTGTTTTTTTAATAATC
65 ACAACCCT-AGCTTAATATCTAAAAAA-TTG-ATTTTTAATAATC
*
1083726 GGGGGTACTCCAACCCCGTTATTTCATCGGAGATACTCCAACCCGGTTATTTCCGAGGGCATACT
1 GGGGGTACTCCAACCCCGTTATTTCATCGGAGATACTCCAACCC-GTTATTTCCGAGGGGATACT
* ** * *
1083791 CCAACCCTAGCTTTTTATCTAAAATATTGATTTTTCATAATC
65 ACAACCCTAGCTTAATATCTAAAAAATTGATTTTTAATAATC
* * *
1083833 GGGAGTACTCCAACCCCGTTATGTCATC-GAGGATACTCCAATCCCGTTATTTTCGAGGGGATAC
1 GGGGGTACTCCAACCCCGTTATTTCATCGGA-GATACTCCAA-CCCGTTATTTCCGAGGGGATAC
1083897 T
64 T
1083898 CTAACCCCGA
Statistics
Matches: 152, Mismatches: 17, Indels: 8
0.86 0.10 0.05
Matches are distributed among these distances:
106 2 0.01
107 65 0.43
108 6 0.04
109 76 0.50
110 3 0.02
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.32
Consensus pattern (106 bp):
GGGGGTACTCCAACCCCGTTATTTCATCGGAGATACTCCAACCCGTTATTTCCGAGGGGATACTA
CAACCCTAGCTTAATATCTAAAAAATTGATTTTTAATAATC
Found at i:1083789 original size:28 final size:27
Alignment explanation
Indices: 1083731--1083797 Score: 82
Period size: 28 Copynumber: 2.4 Consensus size: 27
1083721 TAATCGGGGG
1083731 TACTCCAACCCCGTTATTTCATCGGAGA
1 TACTCCAACCCCGTTATTTCA-CGGAGA
* *
1083759 TACTCCAACCCGGTTATTTC-CGAGGGCA
1 TACTCCAACCCCGTTATTTCACG-GAG-A
1083787 TACTCCAACCC
1 TACTCCAACCC
1083798 TAGCTTTTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
26 2 0.06
27 2 0.06
28 31 0.89
ACGTcount: A:0.24, C:0.36, G:0.15, T:0.25
Consensus pattern (27 bp):
TACTCCAACCCCGTTATTTCACGGAGA
Found at i:1083871 original size:107 final size:108
Alignment explanation
Indices: 1083618--1083904 Score: 359
Period size: 107 Copynumber: 2.6 Consensus size: 108
1083608 TTCACAATTG
* *
1083618 GGGA-TACTCCAACCCCGTTATTTCGTCGGGGATACTCCAACCCTGTTATTTCCAAGGGGATACT
1 GGGAGTACTCCAACCCCGTTATTTCATC-GGGATACTCCAACCC-GTTATTTCCGAGGGGATACT
* * *
1083682 ACAA-CCTCATCTTAATATCTAAAAAAGTTGTTTTTTTAATAATC
64 CCAACCCTCAGCTTAATATCTAAAAAAGTTGTATTTTTAATAATC
* *
1083726 GGGGGTACTCCAACCCCGTTATTTCATCGGAGATACTCCAACCCGGTTATTTCCGAGGGCATACT
1 GGGAGTACTCCAACCCCGTTATTTCATCGG-GATACTCCAACCC-GTTATTTCCGAGGGGATACT
** * *
1083791 CCAACCCT-AGCTTTTTATCTAAAATA-TTG-ATTTTTCATAATC
64 CCAACCCTCAGCTTAATATCTAAAAAAGTTGTATTTTTAATAATC
* *
1083833 GGGAGTACTCCAACCCCGTTATGTCATCGAGGATACTCCAATCCCGTTATTTTCGAGGGGATACT
1 GGGAGTACTCCAACCCCGTTATTTCATCG-GGATACTCCAA-CCCGTTATTTCCGAGGGGATACT
*
1083898 CTAACCC
64 CCAACCC
1083905 CGATTTTATT
Statistics
Matches: 157, Mismatches: 17, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
107 72 0.46
108 12 0.08
109 70 0.45
110 3 0.02
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (108 bp):
GGGAGTACTCCAACCCCGTTATTTCATCGGGATACTCCAACCCGTTATTTCCGAGGGGATACTCC
AACCCTCAGCTTAATATCTAAAAAAGTTGTATTTTTAATAATC
Found at i:1083894 original size:28 final size:29
Alignment explanation
Indices: 1083833--1083906 Score: 82
Period size: 28 Copynumber: 2.6 Consensus size: 29
1083823 TTTCATAATC
1083833 GGGAGTACTCCAACCCCGTTATGTCATCGA
1 GGGA-TACTCCAACCCCGTTATGTCATCGA
* *
1083863 -GGATACTCCAATCCCGTTAT-T-TTCGA
1 GGGATACTCCAACCCCGTTATGTCATCGA
*
1083889 GGGGATACTCTAACCCCG
1 -GGGATACTCCAACCCCG
1083907 ATTTTATTCC
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
26 4 0.11
27 1 0.03
28 30 0.79
29 3 0.08
ACGTcount: A:0.23, C:0.30, G:0.22, T:0.26
Consensus pattern (29 bp):
GGGATACTCCAACCCCGTTATGTCATCGA
Found at i:1083932 original size:107 final size:107
Alignment explanation
Indices: 1083569--1083982 Score: 353
Period size: 107 Copynumber: 3.9 Consensus size: 107
1083559 CGCAATCGGC
* * ** *
1083569 GATACTCTAACTCCGATTTTATTTCTAAAACACCA-AATTTTCACAATTGGG-GATACTCCAACC
1 GATACTCTAACCCCGATTTTATATCTAAAACACCAGTTTTTTCACAATCGGGAG-TACTCCAACC
* * *
1083632 CCGTTATTTCGTCGGGGATACTCCAACCCTGTTATTTCCAAGGG
65 CCGTTATTTCATC-GGGATACTCCAACCCGGTTATTTCCGAGGG
* * * *** * * *
1083676 GATACTAC-AACCTC-ATCTTAATATCTAAAAAAGTTGTTTTTTTAATAATCGGGGGTACTCCAA
1 GATACT-CTAACCCCGAT-TTTATATCTAAAACACCAG-TTTTTTCACAATCGGGAGTACTCCAA
1083739 CCCCGTTATTTCATCGGAGATACTCCAACCCGGTTATTTCCGAGGG
63 CCCCGTTATTTCATCGG-GATACTCCAACCCGGTTATTTCCGAGGG
* * * * * ** * *
1083785 CATACTCCAACCCTAGCTTTT-TATCTAAAATA-TTGATTTTTCATAATCGGGAGTACTCCAACC
1 GATACTCTAACCC-CGATTTTATATCTAAAACACCAGTTTTTTCACAATCGGGAGTACTCCAACC
* *
1083848 CCGTTATGTCATCGAGGATACTCCAATCCC-GTTATTTTCGAGGG
65 CCGTTATTTCATCG-GGATACTCCAA-CCCGGTTATTTCCGAGGG
* * * *
1083892 GATACTCTAACCCCGATTTTAT-TCCCAAAACACCAG-TTTTTCACAATCAGGAATACTCCAATC
1 GATACTCTAACCCCGATTTTATAT-CTAAAACACCAGTTTTTTCACAATCGGGAGTACTCCAACC
*
1083955 CCGTTATTTC-TGAGGGGATACTCCAACC
65 CCGTTATTTCAT--CGGGATACTCCAACC
1083983 TCAATTTTAT
Statistics
Matches: 250, Mismatches: 41, Indels: 33
0.77 0.13 0.10
Matches are distributed among these distances:
106 11 0.04
107 144 0.58
108 13 0.05
109 78 0.31
110 3 0.01
111 1 0.00
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.32
Consensus pattern (107 bp):
GATACTCTAACCCCGATTTTATATCTAAAACACCAGTTTTTTCACAATCGGGAGTACTCCAACCC
CGTTATTTCATCGGGATACTCCAACCCGGTTATTTCCGAGGG
Found at i:1084110 original size:79 final size:80
Alignment explanation
Indices: 1083858--1084099 Score: 364
Period size: 79 Copynumber: 3.1 Consensus size: 80
1083848 CCGTTATGTC
* *
1083858 ATCGAGG-ATACTCCAATCCCGTTATTTTCGAGGGGATACTCTAACCCCGATTTTATTCCCAAAA
1 ATCGAGGAATACTCCAATCCCGTTATTTCCGAGGGGATACTCCAACCCCGATTTTATTCCCAAAA
1083922 CACCAGTTTTTCACA
66 CACCAGTTTTTCACA
* * *
1083937 ATC-AGGAATACTCCAATCCCGTTATTTCTGAGGGGATACTCCAACCTCAATTTTATTCCCAAAA
1 ATCGAGGAATACTCCAATCCCGTTATTTCCGAGGGGATACTCCAACCCCGATTTTATTCCCAAAA
1084001 CACCAGTTTTTCACA
66 CACCAGTTTTTCACA
* * *
1084016 ATCG-GGAATACTCCAATCTCGTTATTTCCGAGGGGATACTCCAACCCCGATTTTATTTCTAAAA
1 ATCGAGGAATACTCCAATCCCGTTATTTCCGAGGGGATACTCCAACCCCGATTTTATTCCCAAAA
* * *
1084080 TACCAATTTTCCACA
66 CACCAGTTTTTCACA
1084095 ATCGA
1 ATCGA
1084100 AGATATTCCA
Statistics
Matches: 146, Mismatches: 14, Indels: 5
0.88 0.08 0.03
Matches are distributed among these distances:
78 3 0.02
79 143 0.98
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.31
Consensus pattern (80 bp):
ATCGAGGAATACTCCAATCCCGTTATTTCCGAGGGGATACTCCAACCCCGATTTTATTCCCAAAA
CACCAGTTTTTCACA
Found at i:1084146 original size:51 final size:51
Alignment explanation
Indices: 1084050--1084164 Score: 124
Period size: 51 Copynumber: 2.3 Consensus size: 51
1084040 TTTCCGAGGG
* * *
1084050 GATACTCCAACCCCGATTTTATTTCTAAAATACCAATTTTCCACAATCGAA
1 GATACTCCAACCCCGATTTTATTTCCAAAACACCAATTCTCCACAATCGAA
* * * * * **
1084101 GATATTCCAACTCCGGTTTTATTTCCAAAACACTAA-TCTCTCACAATTGGG
1 GATACTCCAACCCCGATTTTATTTCCAAAACACCAATTCTC-CACAATCGAA
1084152 GATACTCCAACCC
1 GATACTCCAACCC
1084165 TGTTATTTCT
Statistics
Matches: 51, Mismatches: 12, Indels: 2
0.78 0.18 0.03
Matches are distributed among these distances:
50 3 0.06
51 48 0.94
ACGTcount: A:0.32, C:0.29, G:0.09, T:0.30
Consensus pattern (51 bp):
GATACTCCAACCCCGATTTTATTTCCAAAACACCAATTCTCCACAATCGAA
Found at i:1084157 original size:130 final size:130
Alignment explanation
Indices: 1083971--1084359 Score: 401
Period size: 122 Copynumber: 3.0 Consensus size: 130
1083961 TTTCTGAGGG
* * * * * *
1083971 GATACTCCAAC-CTCAATTTTATTCCCAAAACACCAGTTTTTCACAATCGGGAATACTCCAA-TC
1 GATACTCCAACTC-CGATTTTATTTCCAAAACACCA-ATTTTCACAATTGGGGATACTCCAACCC
1084034 TCGTTATTTCCGAGGGGATACTCCAACCCCGATTTTATTTCTAAAATACCAATTTTCCACAATCG
64 T-GTTATTTCCGAGGGGATACTCCAACCCCGATTTTATTTCTAAAATACCAATTTTCCACAATCG
1084099 A-A
128 AGA
* * * *
1084101 GATATTCCAACTCCGGTTTTATTTCCAAAACACTAATCTCTCACAATTGGGGATACTCCAACCCT
1 GATACTCCAACTCCGATTTTATTTCCAAAACACCAAT-TTTCACAATTGGGGATACTCCAACCCT
* *
1084166 GTTATTTCTGAGGGGATACTCCAACCCCGA----A-TT-T--ATTACCAATTTTCCACAATC-AG
65 GTTATTTCCGAGGGGATACTCCAACCCCGATTTTATTTCTAAAATACCAATTTTCCACAATCGAG
*
1084222 G
130 A
* * * * *
1084223 GATACTCCAACTCCGATTTTATTTTCAAAATACCGATTTTCTATAATTAGGGATACTCCAACCCT
1 GATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTTC-ACAATTGGGGATACTCCAACCCT
* * * * *
1084288 GTTATTTTCGAGGGGATACTTCAACCCCGATTTTTATTTC-AAGAACACCGATTTTCCATAATCG
65 GTTATTTCCGAGGGGATACTCCAACCCCGA-TTTTATTTCTAA-AATACCAATTTTCCACAATCG
*
1084352 -GG
128 AGA
1084354 GATACT
1 GATACT
1084360 GTAGCCCCGT
Statistics
Matches: 214, Mismatches: 29, Indels: 31
0.78 0.11 0.11
Matches are distributed among these distances:
121 4 0.02
122 98 0.46
124 1 0.00
125 2 0.01
126 1 0.00
127 1 0.00
128 2 0.01
129 1 0.00
130 77 0.36
131 27 0.13
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (130 bp):
GATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTTCACAATTGGGGATACTCCAACCCTG
TTATTTCCGAGGGGATACTCCAACCCCGATTTTATTTCTAAAATACCAATTTTCCACAATCGAGA
Found at i:1088371 original size:13 final size:13
Alignment explanation
Indices: 1088353--1088378 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1088343 CAATTTTTTG
1088353 TGTATCGATACAT
1 TGTATCGATACAT
1088366 TGTATCGATACAT
1 TGTATCGATACAT
1088379 ATTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1088389 original size:32 final size:33
Alignment explanation
Indices: 1088333--1088396 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 33
1088323 TACAAGCCAA
*
1088333 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATATTTTGTGTATCGATACAT
1088366 TGTATCGATAC-ATATTTTGTGTATCGATACA
1 TGTATCGATACAATATTTTGTGTATCGATACA
1088397 AGTTTGGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 19 0.63
33 11 0.37
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.44
Consensus pattern (33 bp):
TGTATCGATACAATATTTTGTGTATCGATACAT
Found at i:1088390 original size:19 final size:19
Alignment explanation
Indices: 1088333--1088396 Score: 68
Period size: 19 Copynumber: 3.6 Consensus size: 19
1088323 TACAAGCCAA
*
1088333 TGTATCGATACAATTTTTTG
1 TGTATCGATAC-ATATTTTG
1088353 TGTATCGATAC--A---T-
1 TGTATCGATACATATTTTG
1088366 TGTATCGATACATATTTTG
1 TGTATCGATACATATTTTG
1088385 TGTATCGATACA
1 TGTATCGATACA
1088397 AGTTTGGCTA
Statistics
Matches: 37, Mismatches: 1, Indels: 13
0.73 0.02 0.25
Matches are distributed among these distances:
13 11 0.30
14 1 0.03
15 1 0.03
18 1 0.03
19 12 0.32
20 11 0.30
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.44
Consensus pattern (19 bp):
TGTATCGATACATATTTTG
Found at i:1089907 original size:55 final size:54
Alignment explanation
Indices: 1089843--1090384 Score: 627
Period size: 55 Copynumber: 9.6 Consensus size: 54
1089833 TCCTTTCACC
1089843 CTTT-AGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCA
1 CTTTCAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCA
*
1089896 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
1 -CTTTCAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * *
1089951 TTTTTTAGTCCTCAAAGAGCAGAATGCCTTTCAAAGCCCACACAAGTTGGTGGCA
1 -CTTTCAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCA
* *
1090006 TTTTCCAGTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CTTT-CAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCA
* *
1090061 TTTTCTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
1 CTTTC-AGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCA
* *
1090116 TTTTCTAGTCCTCAAAGAGTAGGATGCTTTCTCTTTTCAAAGCCCACACAAGTTGGTGGCA
1 CTTTC-AGTCCTCAAAGAGCAGGATG----C-C-TTTCAAAGCCCACACAAGTTGGTGGCA
* *
1090177 CTTCCCAGTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CTT-TCAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * *
1090232 CTTCCCAGTCCTCATAGAGCAGGATGCCTTCTCATTTTAAAGCCAACACAAGTTGGTGGCA
1 CTT-TCAGTCCTCAAAGAGCAGGATGCCTT-TC-----AAAGCCCACACAAGTTGGTGGCA
* * * *
1090293 CCTTCCAGTCCTCAAAAAGCAGGACGCCTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA
1 -CTTTCAGTCCTCAAAGAGCAGGATG-C----C-TTTCAAAGCCCACACAAGTTGGTGGCA
* * * *
1090354 CTTTTTAGTCCTCAAAAAGTAGGACGCCTTT
1 C-TTTCAGTCCTCAAAGAGCAGGATGCCTTT
1090385 TTCCTTTTAT
Statistics
Matches: 436, Mismatches: 28, Indels: 47
0.85 0.05 0.09
Matches are distributed among these distances:
54 9 0.02
55 278 0.64
56 3 0.01
57 1 0.00
59 1 0.00
60 3 0.01
61 131 0.30
62 5 0.01
66 3 0.01
67 2 0.00
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.26
Consensus pattern (54 bp):
CTTTCAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:1090064 original size:27 final size:27
Alignment explanation
Indices: 1089983--1090119 Score: 69
Period size: 27 Copynumber: 5.0 Consensus size: 27
1089973 AATGCCTTTC
1089983 AAAGCCCACACAAGTTGGTGGCATTTT
1 AAAGCCCACACAAGTTGGTGGCATTTT
** * * * ** *
1090010 CCAGTCCTCAAAGAGCAGGAT-GCCTTTT
1 AAAGCCCACACA-AGTTGG-TGGCATTTT
1090038 AAAGCCCACACAAGTTGGTGGCATTTT
1 AAAGCCCACACAAGTTGGTGGCATTTT
** * * * ** ** * *
1090065 CTAGTCCTCAAAGAGCAGGACGCCTTTC
1 AAAGCCCACACA-AGTTGGTGGCATTTT
1090093 AAAGCCCACACAAGTTGGTGGCATTTT
1 AAAGCCCACACAAGTTGGTGGCATTTT
1090120 CTAGTCCTCA
Statistics
Matches: 68, Mismatches: 38, Indels: 8
0.60 0.33 0.07
Matches are distributed among these distances:
26 1 0.01
27 33 0.49
28 33 0.49
29 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.25
Consensus pattern (27 bp):
AAAGCCCACACAAGTTGGTGGCATTTT
Found at i:1090994 original size:21 final size:21
Alignment explanation
Indices: 1090949--1090994 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
1090939 TTTTTGCCAA
* *
1090949 AATGTATCGATACATGCCCTT
1 AATGTATCGATACAGGCCCTC
1090970 AATGTATCGATACAAGGCCC-C
1 AATGTATCGATAC-AGGCCCTC
1090991 AATG
1 AATG
1090995 GTCAAAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (21 bp):
AATGTATCGATACAGGCCCTC
Found at i:1091097 original size:20 final size:19
Alignment explanation
Indices: 1091070--1091143 Score: 85
Period size: 20 Copynumber: 3.7 Consensus size: 19
1091060 TTTACCTAGA
1091070 TGTATCGATACATTTTGCAT
1 TGTATCGATACATTTT-CAT
* *
1091090 TATATCGATACATTGCTCAT
1 TGTATCGATACATT-TTCAT
* *
1091110 TGTATTGATACATTTTACAA
1 TGTATCGATACATTTT-CAT
1091130 TGTATCGATACATT
1 TGTATCGATACATT
1091144 CAGGCATTTT
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
19 1 0.02
20 43 0.96
21 1 0.02
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.43
Consensus pattern (19 bp):
TGTATCGATACATTTTCAT
Found at i:1092808 original size:11 final size:11
Alignment explanation
Indices: 1092791--1092819 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
1092781 ATTTGAAACG
1092791 ATTTTTTTGA-
1 ATTTTTTTGAT
1092801 ATTTTTTTGAT
1 ATTTTTTTGAT
1092812 ATTTTTTT
1 ATTTTTTT
1092820 CTCAAAGACC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.17, C:0.00, G:0.07, T:0.76
Consensus pattern (11 bp):
ATTTTTTTGAT
Found at i:1093600 original size:51 final size:51
Alignment explanation
Indices: 1093487--1093606 Score: 143
Period size: 51 Copynumber: 2.4 Consensus size: 51
1093477 AATTTTTCTT
* * * * *
1093487 AATTGGGGATACTCCAACTCCGATTTTATTTTTAAAGCATCGATTTACCGC
1 AATTGGGGATACTCCAACTCCGATTTTATTTCTAAAACACCAATTTACCAC
* * * *
1093538 AATCGGTGATACTCTAACTCCGATTTTATTTCTAAAACACCAAATTT-TCAC
1 AATTGGGGATACTCCAACTCCGATTTTATTTCTAAAACACC-AATTTACCAC
1093589 AATTGGGGATACTCCAAC
1 AATTGGGGATACTCCAAC
1093607 CCCGTTATTT
Statistics
Matches: 56, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
51 52 0.93
52 4 0.07
ACGTcount: A:0.31, C:0.23, G:0.13, T:0.33
Consensus pattern (51 bp):
AATTGGGGATACTCCAACTCCGATTTTATTTCTAAAACACCAATTTACCAC
Found at i:1093625 original size:28 final size:28
Alignment explanation
Indices: 1093593--1093663 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
1093583 TTTCACAATT
***
1093593 GGGGATACTCCAACCCCGTTATTTCGTC
1 GGGGATACTCCAACCCCGTTATTTCCAA
1093621 GGGGATACTCCAACCCCGTTATTTCCAA
1 GGGGATACTCCAACCCCGTTATTTCCAA
*
1093649 GGGGATACTACAACC
1 GGGGATACTCCAACC
1093664 TCATCTTAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.24, C:0.31, G:0.21, T:0.24
Consensus pattern (28 bp):
GGGGATACTCCAACCCCGTTATTTCCAA
Found at i:1093743 original size:109 final size:107
Alignment explanation
Indices: 1093593--1093873 Score: 350
Period size: 109 Copynumber: 2.6 Consensus size: 107
1093583 TTTCACAATT
* * * *
1093593 GGGGATACTCCAACCCCGTTATTTCGTCGGGGATACTCCAACCCCGTTATTTCCAAGGGGATACT
1 GGGGGTACTCCAACCCCGTTATTTCATCGGAGATACTCCAACCCCGTTATTTCCGAGGGGATACT
* *
1093658 ACAA-CCTCATCTTAATATCTAAAAAAGTTGTTTTTTTAATAATC
66 ACAACCCT-AGCTTAATATCTAAAAAA-TTG-ATTTTTAATAATC
* *
1093702 GGGGGTACTCCAACCTCGTTATTTCATCGGAGATACTCCAACCCGGTTATTTCCGAGGGGATACT
1 GGGGGTACTCCAACCCCGTTATTTCATCGGAGATACTCCAACCCCGTTATTTCCGAGGGGATACT
* * ** * *
1093767 CCAGCCCTAGCTTTTTATCTAAAATATTGATTTTTCATAATC
66 ACAACCCTAGCTTAATATCTAAAAAATTGATTTTTAATAATC
* * * *
1093809 GGGAGTACTCCAACCCCGTTATGTCATC-GAGGATACTCCAATCCCGTTATTTTCGAGGGGATAC
1 GGGGGTACTCCAACCCCGTTATTTCATCGGA-GATACTCCAACCCCGTTATTTCCGAGGGGATAC
1093873 T
65 T
1093874 CTAACCCCGA
Statistics
Matches: 150, Mismatches: 20, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
106 2 0.01
107 67 0.45
108 3 0.02
109 75 0.50
110 3 0.02
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.32
Consensus pattern (107 bp):
GGGGGTACTCCAACCCCGTTATTTCATCGGAGATACTCCAACCCCGTTATTTCCGAGGGGATACT
ACAACCCTAGCTTAATATCTAAAAAATTGATTTTTAATAATC
Found at i:1093764 original size:28 final size:28
Alignment explanation
Indices: 1093702--1093769 Score: 75
Period size: 28 Copynumber: 2.4 Consensus size: 28
1093692 TTTAATAATC
* **
1093702 GGGGGTACTCCAACCTCGTTATTTCATC
1 GGGGATACTCCAACCTCGTTATTTCAGA
* *
1093730 GGAGATACTCCAACC-CGGTTATTTCCGA
1 GGGGATACTCCAACCTC-GTTATTTCAGA
1093758 GGGGATACTCCA
1 GGGGATACTCCA
1093770 GCCCTAGCTT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
27 1 0.03
28 32 0.97
ACGTcount: A:0.22, C:0.28, G:0.24, T:0.26
Consensus pattern (28 bp):
GGGGATACTCCAACCTCGTTATTTCAGA
Found at i:1093848 original size:107 final size:107
Alignment explanation
Indices: 1093594--1093879 Score: 346
Period size: 107 Copynumber: 2.6 Consensus size: 107
1093584 TTCACAATTG
* *
1093594 GGGA-TACTCCAACCCCGTTATTTCGTCGGGGATACTCCAACCCCGTTATTTCCAAGGGGATACT
1 GGGAGTACTCCAACCCCGTTATTTCATC-GGGATACTCCAA-CCCGTTATTTCCGAGGGGATACT
* * *
1093658 ACAACCTCATCTTAATATCTAAAAAAGTTGTTTTTTTAATAATC
64 CCAACCTCAGCTTAATATCTAAAAAAGTTGTATTTTTAATAATC
* *
1093702 GGGGGTACTCCAACCTCGTTATTTCATCGGAGATACTCCAACCCGGTTATTTCCGAGGGGATACT
1 GGGAGTACTCCAACCCCGTTATTTCATCGG-GATACTCCAACCC-GTTATTTCCGAGGGGATACT
* ** * *
1093767 CCAGCC-CTAGCTTTTTATCTAAAATA-TTG-ATTTTTCATAATC
64 CCAACCTC-AGCTTAATATCTAAAAAAGTTGTATTTTTAATAATC
* *
1093809 GGGAGTACTCCAACCCCGTTATGTCATCGAGGATACTCCAATCCCGTTATTTTCGAGGGGATACT
1 GGGAGTACTCCAACCCCGTTATTTCATCG-GGATACTCCAA-CCCGTTATTTCCGAGGGGATACT
*
1093874 CTAACC
64 CCAACC
1093880 CCGATTTTAT
Statistics
Matches: 154, Mismatches: 18, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
107 70 0.45
108 16 0.10
109 68 0.44
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.31
Consensus pattern (107 bp):
GGGAGTACTCCAACCCCGTTATTTCATCGGGATACTCCAACCCGTTATTTCCGAGGGGATACTCC
AACCTCAGCTTAATATCTAAAAAAGTTGTATTTTTAATAATC
Found at i:1093870 original size:28 final size:29
Alignment explanation
Indices: 1093809--1093882 Score: 82
Period size: 28 Copynumber: 2.6 Consensus size: 29
1093799 TTTCATAATC
1093809 GGGAGTACTCCAACCCCGTTATGTCATCGA
1 GGGA-TACTCCAACCCCGTTATGTCATCGA
* *
1093839 -GGATACTCCAATCCCGTTAT-T-TTCGA
1 GGGATACTCCAACCCCGTTATGTCATCGA
*
1093865 GGGGATACTCTAACCCCG
1 -GGGATACTCCAACCCCG
1093883 ATTTTATTCC
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
26 4 0.11
27 1 0.03
28 30 0.79
29 3 0.08
ACGTcount: A:0.23, C:0.30, G:0.22, T:0.26
Consensus pattern (29 bp):
GGGATACTCCAACCCCGTTATGTCATCGA
Found at i:1093908 original size:107 final size:106
Alignment explanation
Indices: 1093545--1093958 Score: 342
Period size: 107 Copynumber: 3.9 Consensus size: 106
1093535 CGCAATCGGT
* * ** *
1093545 GATACTCTAACTCCGATTTTATTTCTAAAACACCA-AATTTTCACAATTGGG-GATACTCCAACC
1 GATACTCTAACCCCGATTTTATATCTAAAACACCAGTTTTTTCACAATCGGGAG-TACTCCAACC
* *
1093608 CCGTTATTTCGTCGGGGATACTCCAACCCCGTTATTTCCAAGGG
65 CCGTTATTTCATC-GGGATACTCCAA-CCCGTTATTTCCGAGGG
* * * *** * * *
1093652 GATACTAC-AACCTC-ATCTTAATATCTAAAAAAGTTGTTTTTTTAATAATCGGGGGTACTCCAA
1 GATACT-CTAACCCCGAT-TTTATATCTAAAACACCAG-TTTTTTCACAATCGGGAGTACTCCAA
*
1093715 CCTCGTTATTTCATCGGAGATACTCCAACCCGGTTATTTCCGAGGG
63 CCCCGTTATTTCATCGG-GATACTCCAACCC-GTTATTTCCGAGGG
* * * * * ** * *
1093761 GATACTCCAGCCCTAGCTTTT-TATCTAAAATA-TTGATTTTTCATAATCGGGAGTACTCCAACC
1 GATACTCTAACCC-CGATTTTATATCTAAAACACCAGTTTTTTCACAATCGGGAGTACTCCAACC
* *
1093824 CCGTTATGTCATCGAGGATACTCCAATCCCGTTATTTTCGAGGG
65 CCGTTATTTCATCG-GGATACTCCAA-CCCGTTATTTCCGAGGG
* * * *
1093868 GATACTCTAACCCCGATTTTAT-TCCCAAAACACCAG-TTTTTCACAATCAGGAATACTCCAATC
1 GATACTCTAACCCCGATTTTATAT-CTAAAACACCAGTTTTTTCACAATCGGGAGTACTCCAACC
*
1093931 CCGTTATTTC-TGAGGGGATACTCCAACC
65 CCGTTATTTCAT--CGGGATACTCCAACC
1093959 TCAATTTTAT
Statistics
Matches: 248, Mismatches: 42, Indels: 35
0.76 0.13 0.11
Matches are distributed among these distances:
106 11 0.04
107 143 0.58
108 16 0.06
109 74 0.30
110 3 0.01
111 1 0.00
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.32
Consensus pattern (106 bp):
GATACTCTAACCCCGATTTTATATCTAAAACACCAGTTTTTTCACAATCGGGAGTACTCCAACCC
CGTTATTTCATCGGGATACTCCAACCCGTTATTTCCGAGGG
Found at i:1094086 original size:79 final size:80
Alignment explanation
Indices: 1093834--1094075 Score: 364
Period size: 79 Copynumber: 3.1 Consensus size: 80
1093824 CCGTTATGTC
* *
1093834 ATCGAGG-ATACTCCAATCCCGTTATTTTCGAGGGGATACTCTAACCCCGATTTTATTCCCAAAA
1 ATCGAGGAATACTCCAATCCCGTTATTTCCGAGGGGATACTCCAACCCCGATTTTATTCCCAAAA
1093898 CACCAGTTTTTCACA
66 CACCAGTTTTTCACA
* * *
1093913 ATC-AGGAATACTCCAATCCCGTTATTTCTGAGGGGATACTCCAACCTCAATTTTATTCCCAAAA
1 ATCGAGGAATACTCCAATCCCGTTATTTCCGAGGGGATACTCCAACCCCGATTTTATTCCCAAAA
1093977 CACCAGTTTTTCACA
66 CACCAGTTTTTCACA
* * *
1093992 ATCG-GGAATACTCCAATCTCGTTATTTCCGAGGGGATACTCCAACCCCGATTTTATTTCTAAAA
1 ATCGAGGAATACTCCAATCCCGTTATTTCCGAGGGGATACTCCAACCCCGATTTTATTCCCAAAA
* * *
1094056 TACCAATTTTCCACA
66 CACCAGTTTTTCACA
1094071 ATCGA
1 ATCGA
1094076 AGATATTCCA
Statistics
Matches: 146, Mismatches: 14, Indels: 5
0.88 0.08 0.03
Matches are distributed among these distances:
78 3 0.02
79 143 0.98
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.31
Consensus pattern (80 bp):
ATCGAGGAATACTCCAATCCCGTTATTTCCGAGGGGATACTCCAACCCCGATTTTATTCCCAAAA
CACCAGTTTTTCACA
Found at i:1094122 original size:51 final size:51
Alignment explanation
Indices: 1094026--1094140 Score: 133
Period size: 51 Copynumber: 2.3 Consensus size: 51
1094016 TTTCCGAGGG
* * *
1094026 GATACTCCAACCCCGATTTTATTTCTAAAATACCAATTTTCCACAATCGAA
1 GATACTCCAACCCCGATTTTATTTCCAAAACACCAATTCTCCACAATCGAA
* * * * **
1094077 GATATTCCAACTCCGGTTTTATTTCCAAAACACTAA-TCTCTCACAATCGGG
1 GATACTCCAACCCCGATTTTATTTCCAAAACACCAATTCTC-CACAATCGAA
1094128 GATACTCCAACCC
1 GATACTCCAACCC
1094141 TGTTATTTCT
Statistics
Matches: 52, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
50 3 0.06
51 49 0.94
ACGTcount: A:0.32, C:0.30, G:0.09, T:0.30
Consensus pattern (51 bp):
GATACTCCAACCCCGATTTTATTTCCAAAACACCAATTCTCCACAATCGAA
Found at i:1094127 original size:130 final size:125
Alignment explanation
Indices: 1093947--1094305 Score: 383
Period size: 122 Copynumber: 2.8 Consensus size: 125
1093937 TTTCTGAGGG
* * * *
1093947 GATACTCCAAC-CTCAATTTTATTCCCAAAACACCAGTTTTTCACAATCGGGAATACTCCAA-TC
1 GATACTCCAACTC-CGATTTTATTTCCAAAACACCA-ATTTTCACAATCGGG-ATACTCCAACCC
1094010 TCGTTATTTCCGAGGGGATACTCCAACCCCGATTTTATTTCTAAAATACCAATTTTCCACAATC-
63 T-GTTATTTCCGAGGGGATACTCCAACCCCGATTTTATTTCT---ATACCAATTTTCCACAATCA
1094074 GAA
124 G-A
* * * *
1094077 GATATTCCAACTCCGGTTTTATTTCCAAAACACTAATCTCTCACAATCGGGGATACTCCAACCCT
1 GATACTCCAACTCCGATTTTATTTCCAAAACACCAAT-TTTCACAATC-GGGATACTCCAACCCT
* * *
1094142 GTTATTTCTGAGGGGATACTCCAACCCCGACTTTA----T-TACCAATTTTCCACAATCAGG
64 GTTATTTCCGAGGGGATACTCCAACCCCGATTTTATTTCTATACCAATTTTCCACAATCAGA
* * * * *
1094199 GATACTCCAACTCCGATTTTATTTTCAAAATACCGATTTTCTATAATTAGGGATACTCCAACCCT
1 GATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTTC-ACAA-TCGGGATACTCCAACCCT
* *
1094264 GTTATTTTCGAGGGGATACTTCAACCCCGATTTTTATTTCTA
64 GTTATTTCCGAGGGGATACTCCAACCCCGA-TTTTATTTCTA
1094306 GAACACTGAT
Statistics
Matches: 192, Mismatches: 24, Indels: 28
0.79 0.10 0.11
Matches are distributed among these distances:
121 3 0.02
122 95 0.49
123 6 0.03
126 1 0.01
127 1 0.01
129 1 0.01
130 79 0.41
131 6 0.03
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (125 bp):
GATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTTCACAATCGGGATACTCCAACCCTGT
TATTTCCGAGGGGATACTCCAACCCCGATTTTATTTCTATACCAATTTTCCACAATCAGA
Found at i:1096200 original size:51 final size:52
Alignment explanation
Indices: 1096095--1096208 Score: 133
Period size: 51 Copynumber: 2.2 Consensus size: 52
1096085 TTCATCTCGA
** *** *
1096095 GGATACTCCAA-TCTCGATTCCATTTCCAAAACGTCAATTTTTGTTAATCGG
1 GGATACTCCAACTCTCGATTCCATTTCCAAAACCCCAATTTTTCACAATCAG
** *
1096146 GGATACTCCAACT-TCGATTTTATTTCCAAAACCCCAATTTTTCACAATTAG
1 GGATACTCCAACTCTCGATTCCATTTCCAAAACCCCAATTTTTCACAATCAG
1096197 GGATACTCCAAC
1 GGATACTCCAAC
1096209 CCCGTTATTT
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
51 52 0.98
52 1 0.02
ACGTcount: A:0.30, C:0.25, G:0.11, T:0.33
Consensus pattern (52 bp):
GGATACTCCAACTCTCGATTCCATTTCCAAAACCCCAATTTTTCACAATCAG
Found at i:1096312 original size:28 final size:27
Alignment explanation
Indices: 1096273--1096349 Score: 102
Period size: 28 Copynumber: 2.8 Consensus size: 27
1096263 TTTTTTCATA
*
1096273 ATCGGGGGTACTCCAACCCCGTTATTT
1 ATCGGGGATACTCCAACCCCGTTATTT
1096300 CATCGGGGATACTCCAACCCCGTTATTT
1 -ATCGGGGATACTCCAACCCCGTTATTT
*
1096328 -TCGAGGGGATACACCAACCCCG
1 ATC--GGGGATACTCCAACCCCG
1096350 GCTTTATATC
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
26 2 0.04
28 43 0.96
ACGTcount: A:0.22, C:0.32, G:0.22, T:0.23
Consensus pattern (27 bp):
ATCGGGGATACTCCAACCCCGTTATTT
Found at i:1096429 original size:107 final size:108
Alignment explanation
Indices: 1096196--1096456 Score: 375
Period size: 107 Copynumber: 2.4 Consensus size: 108
1096186 TTCACAATTA
* * * *
1096196 GGGATACTCCAACCCCGTTATTTCGTCGGGGATACTCCAACCCTGGCTATATATCTAAAAATGTT
1 GGGATACTCCAACCCCGTTATTTCG-AGGGGATACACCAACCCCGGCTATATATCTAAAAATATT
* *
1096261 GTTTTTTTCATAATCGGGGGTACTCCAACCCCGTTATTTCATCG
65 GTATTTTTCATAATCGGGGGTACTCCAACCCCGTTATGTCATCG
*
1096305 GGGATACTCCAACCCCGTTATTTTCGAGGGGATACACCAACCCCGGCTTTATATCT-AAAATATT
1 GGGATACTCCAACCCCGTTA-TTTCGAGGGGATACACCAACCCCGGCTATATATCTAAAAATATT
*
1096369 G-ATTTTTCATAATCGGGGGTACTCTAACCCCGTTATGTCATCG
65 GTATTTTTCATAATCGGGGGTACTCCAACCCCGTTATGTCATCG
* *
1096412 GGGATACTCCAATCCCGTTATTTCTGAGAGGATA-ATCCAACCCCG
1 GGGATACTCCAACCCCGTTATTTC-GAGGGGATACA-CCAACCCCG
1096457 ATTTTATTCC
Statistics
Matches: 139, Mismatches: 10, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
106 5 0.04
107 75 0.54
108 8 0.06
109 46 0.33
110 5 0.04
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.31
Consensus pattern (108 bp):
GGGATACTCCAACCCCGTTATTTCGAGGGGATACACCAACCCCGGCTATATATCTAAAAATATTG
TATTTTTCATAATCGGGGGTACTCCAACCCCGTTATGTCATCG
Found at i:1099122 original size:27 final size:27
Alignment explanation
Indices: 1099084--1100144 Score: 909
Period size: 27 Copynumber: 39.1 Consensus size: 27
1099074 GGCATTCCTT
**
1099084 TTTTAAGTCCACAACTTTGTGGCAACC
1 TTTTAAGTCCACAACTCCGTGGCAACC
*
1099111 TTTTAAGTCCACAATTCCGTGGCAACC
1 TTTTAAGTCCACAACTCCGTGGCAACC
* *
1099138 TTTTAAGTCCACAATTCCGTGGCAACT
1 TTTTAAGTCCACAACTCCGTGGCAACC
1099165 TTTTAAGTCCACAACTCCGTGGCAACC
1 TTTTAAGTCCACAACTCCGTGGCAACC
*
1099192 TTTTAAGTCCACAACTCCGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCAACC
* *
1099219 TTTTAAGTCCACAACTCCGTTGTAACC
1 TTTTAAGTCCACAACTCCGTGGCAACC
* * *
1099246 TTTTAAGTCCACAGCTCTGTGGCATCC
1 TTTTAAGTCCACAACTCCGTGGCAACC
* ** *
1099273 TTTTAAGTCCACAGCTCTATGGCATCC
1 TTTTAAGTCCACAACTCCGTGGCAACC
* * **
1099300 TTTTAAGTCCAAAACTTCGTGGCATAAT
1 TTTTAAGTCCACAACTCCGTGGCA-ACC
*
1099328 TTTTAAGTCCACAACTCCGTGGCATCC
1 TTTTAAGTCCACAACTCCGTGGCAACC
*
1099355 TTTTAAAGTCCATAACTCCGTGGCAACC
1 TTTT-AAGTCCACAACTCCGTGGCAACC
* * *
1099383 TTTTAAGTCCACAGCTCTGTGGCATCC
1 TTTTAAGTCCACAACTCCGTGGCAACC
* * *
1099410 TTTTAAGTCCATAGCTCCGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCAACC
* * * *
1099437 TTTAAAGTCCATAACTCTGTGGCATCC
1 TTTTAAGTCCACAACTCCGTGGCAACC
1099464 TTTTAAAGTCCACAACTCCGTGGC-ACAC
1 TTTT-AAGTCCACAACTCCGTGGCAAC-C
* *
1099492 TTTTAAAGTCCACAACTCCGTGGCATCG
1 TTTT-AAGTCCACAACTCCGTGGCAACC
1099520 TTTTAAAGTCCACAACTCCGTGGCAA-C
1 TTTT-AAGTCCACAACTCCGTGGCAACC
* *** * ***
1099547 ----AACTCCATGGCATCCTTTTAAAGTCC
1 TTTTAAGTCCACAAC-TCCGTGGCAA--CC
* * *
1099573 --ATAACT-C-C-A-T----GGCATCC
1 TTTTAAGTCCACAACTCCGTGGCAACC
*
1099590 TTTTAAAGTCCACAACTCCGTGGCATCC
1 TTTT-AAGTCCACAACTCCGTGGCAACC
*
1099618 TTTTTAAGTCCACAGCTCCGTGGCAACC
1 -TTTTAAGTCCACAACTCCGTGGCAACC
*
1099646 TTTTAAGTCCACAGCTCCGTGGCAACC
1 TTTTAAGTCCACAACTCCGTGGCAACC
1099673 TTTTAAGTCCACAACTCCGTGGCAACC
1 TTTTAAGTCCACAACTCCGTGGCAACC
* *
1099700 TTTTAAGTCC-CAACTCTGTGGCATCC
1 TTTTAAGTCCACAACTCCGTGGCAACC
*
1099726 TTTTAAAGTCCACAACTCCGTGGCATCC
1 TTTT-AAGTCCACAACTCCGTGGCAACC
* * **
1099754 ATTTAAGTCCACAACTTCGTGGCATAAT
1 TTTTAAGTCCACAACTCCGTGGCA-ACC
* *
1099782 TTTTAAGT-C-CAACTTCGTGGCATCC
1 TTTTAAGTCCACAACTCCGTGGCAACC
*
1099807 TTTTAAAGTCCACAACTCCGTGGCATCC
1 TTTT-AAGTCCACAACTCCGTGGCAACC
* **
1099835 TTTTAAGTCCACAACTTCGTGGCATAATT
1 TTTTAAGTCCACAACTCCGTGGC--AACC
**
1099864 TTTTAAGTCCACAACTCCGTGGCGTCC
1 TTTTAAGTCCACAACTCCGTGGCAACC
* *
1099891 TTTTAAAGTCCACAACTCTGTGGCATCC
1 TTTT-AAGTCCACAACTCCGTGGCAACC
* ** *
1099919 TTTTAAGTCCATAACTTTGTGGCATCC
1 TTTTAAGTCCACAACTCCGTGGCAACC
* * *
1099946 TTTTAAAGTCCACAACTCTGTAGCATCC
1 TTTT-AAGTCCACAACTCCGTGGCAACC
* *
1099974 TTTTAAAGTCCACAACTCCATGGCATCC
1 TTTT-AAGTCCACAACTCCGTGGCAACC
* ** *
1100002 TTTTAAGTCCATAACTCTATGGCATCC
1 TTTTAAGTCCACAACTCCGTGGCAACC
* * * *
1100029 TTTTCAAAGCCCACAAATCAGTGGCACCC
1 TTTT--AAGTCCACAACTCCGTGGCAACC
* * * * *
1100058 TTTCAAAGCCCACAAGTCAGTGGCACCC
1 TTT-TAAGTCCACAACTCCGTGGCAACC
* * * * *
1100086 TTTCAAAGCCCACAAGTCAGTGGCATCC
1 TTT-TAAGTCCACAACTCCGTGGCAACC
* * * * *
1100114 TTTCAAATCCCACAAGTCAGTGGCACCC
1 TTTTAAGT-CCACAACTCCGTGGCAACC
1100142 TTT
1 TTT
1100145 GAAAGCCCAC
Statistics
Matches: 881, Mismatches: 116, Indels: 73
0.82 0.11 0.07
Matches are distributed among these distances:
17 2 0.00
19 2 0.00
20 3 0.00
21 1 0.00
22 8 0.01
23 8 0.01
24 1 0.00
25 4 0.00
26 36 0.04
27 431 0.49
28 337 0.38
29 48 0.05
ACGTcount: A:0.25, C:0.30, G:0.15, T:0.30
Consensus pattern (27 bp):
TTTTAAGTCCACAACTCCGTGGCAACC
Found at i:1099151 original size:54 final size:54
Alignment explanation
Indices: 1099084--1100172 Score: 1042
Period size: 54 Copynumber: 20.1 Consensus size: 54
1099074 GGCATTCCTT
** * *
1099084 TTTTAAGTCCACAACTTTGTGGCAACCTTTTAAGTCCACAATTCCGTGGCAACC
1 TTTTAAGTCCACAACTCCGTGGCAACCTTTTAAGTCCACAACTCCGTGGCATCC
* * *
1099138 TTTTAAGTCCACAATTCCGTGGCAACTTTTTAAGTCCACAACTCCGTGGCAACC
1 TTTTAAGTCCACAACTCCGTGGCAACCTTTTAAGTCCACAACTCCGTGGCATCC
* * * *
1099192 TTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTTGTAACC
1 TTTTAAGTCCACAACTCCGTGGCAACCTTTTAAGTCCACAACTCCGTGGCATCC
* * * * **
1099246 TTTTAAGTCCACAGCTCTGTGGCATCCTTTTAAGTCCACAGCTCTATGGCATCC
1 TTTTAAGTCCACAACTCCGTGGCAACCTTTTAAGTCCACAACTCCGTGGCATCC
* * **
1099300 TTTTAAGTCCAAAACTTCGTGGCATAATTTTTAAGTCCACAACTCCGTGGCATCC
1 TTTTAAGTCCACAACTCCGTGGCA-ACCTTTTAAGTCCACAACTCCGTGGCATCC
* * *
1099355 TTTTAAAGTCCATAACTCCGTGGCAACCTTTTAAGTCCACAGCTCTGTGGCATCC
1 TTTT-AAGTCCACAACTCCGTGGCAACCTTTTAAGTCCACAACTCCGTGGCATCC
* * * * * *
1099410 TTTTAAGTCCATAGCTCCGTGGCACCCTTTAAAGTCCATAACTCTGTGGCATCC
1 TTTTAAGTCCACAACTCCGTGGCAACCTTTTAAGTCCACAACTCCGTGGCATCC
*
1099464 TTTTAAAGTCCACAACTCCGTGGC-ACACTTTTAAAGTCCACAACTCCGTGGCATCG
1 TTTT-AAGTCCACAACTCCGTGGCAAC-CTTTT-AAGTCCACAACTCCGTGGCATCC
* * * *
1099520 TTTTAAAGTCCACAACTCCGTGGCAA-C----AACT-C-C-A-TGGCAT--C--CT
1 TTTT-AAGTCCACAACTCCGTGGCAACCTTTTAAGTCCACAACT-CCGTGGCATCC
* * * *
1099563 TTTAAAGTCCATAACTCCATGGCATCCTTTTAAAGTCCACAACTCCGTGGCATCC
1 TTTTAAGTCCACAACTCCGTGGCAACCTTTT-AAGTCCACAACTCCGTGGCATCC
* * *
1099618 TTTTTAAGTCCACAGCTCCGTGGCAACCTTTTAAGTCCACAGCTCCGTGGCAACC
1 -TTTTAAGTCCACAACTCCGTGGCAACCTTTTAAGTCCACAACTCCGTGGCATCC
*
1099673 TTTTAAGTCCACAACTCCGTGGCAACCTTTTAAGTCC-CAACTCTGTGGCATCC
1 TTTTAAGTCCACAACTCCGTGGCAACCTTTTAAGTCCACAACTCCGTGGCATCC
* * * **
1099726 TTTTAAAGTCCACAACTCCGTGGCATCCATTTAAGTCCACAACTTCGTGGCATAAT
1 TTTT-AAGTCCACAACTCCGTGGCAACCTTTTAAGTCCACAACTCCGTGGCAT-CC
* *
1099782 TTTTAAGT-C-CAACTTCGTGGCATCCTTTTAAAGTCCACAACTCCGTGGCATCC
1 TTTTAAGTCCACAACTCCGTGGCAACCTTTT-AAGTCCACAACTCCGTGGCATCC
* ** *
1099835 TTTTAAGTCCACAACTTCGTGGCATAATTTTTTAAGTCCACAACTCCGTGGCGTCC
1 TTTTAAGTCCACAACTCCGTGGC--AACCTTTTAAGTCCACAACTCCGTGGCATCC
* * * **
1099891 TTTTAAAGTCCACAACTCTGTGGCATCCTTTTAAGTCCATAACTTTGTGGCATCC
1 TTTT-AAGTCCACAACTCCGTGGCAACCTTTTAAGTCCACAACTCCGTGGCATCC
* * * *
1099946 TTTTAAAGTCCACAACTCTGTAGCATCCTTTTAAAGTCCACAACTCCATGGCATCC
1 TTTT-AAGTCCACAACTCCGTGGCAACCTTTT-AAGTCCACAACTCCGTGGCATCC
* ** * * * * *
1100002 TTTTAAGTCCATAACTCTATGGCATCCTTTTCAAAGCCCACAAATCAGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCAACCTTTT--AAGTCCACAACTCCGTGGCATCC
* * * * * * * * *
1100058 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCC
1 TTT-TAAGTCCACAACTCCGTGGCAACCTTT-TAAGTCCACAACTCCGTGGCATCC
* * * * * * * * **
1100114 TTTCAAATCCCACAAGTCAGTGGCACCCTTTGAAAGCCCACAAGTTAGTGGCATCC
1 TTTTAAGT-CCACAACTCCGTGGCAACCTTT-TAAGTCCACAACTCCGTGGCATCC
1100170 TTT
1 TTT
1100173 CATAGCCCAC
Statistics
Matches: 877, Mismatches: 122, Indels: 70
0.82 0.11 0.07
Matches are distributed among these distances:
42 18 0.02
43 5 0.01
45 1 0.00
46 1 0.00
47 3 0.00
48 4 0.00
49 2 0.00
50 4 0.00
51 3 0.00
52 1 0.00
53 44 0.05
54 302 0.34
55 211 0.24
56 235 0.27
57 43 0.05
ACGTcount: A:0.25, C:0.30, G:0.15, T:0.30
Consensus pattern (54 bp):
TTTTAAGTCCACAACTCCGTGGCAACCTTTTAAGTCCACAACTCCGTGGCATCC
Found at i:1099566 original size:42 final size:42
Alignment explanation
Indices: 1099503--1099586 Score: 132
Period size: 42 Copynumber: 2.0 Consensus size: 42
1099493 TTTAAAGTCC
* * *
1099503 ACAACTCCGTGGCATCGTTTTAAAGTCCACAACTCCGTGGCA
1 ACAACTCCATGGCATCCTTTTAAAGTCCACAACTCCATGGCA
*
1099545 ACAACTCCATGGCATCCTTTTAAAGTCCATAACTCCATGGCA
1 ACAACTCCATGGCATCCTTTTAAAGTCCACAACTCCATGGCA
1099587 TCCTTTTAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.29, C:0.31, G:0.15, T:0.25
Consensus pattern (42 bp):
ACAACTCCATGGCATCCTTTTAAAGTCCACAACTCCATGGCA
Found at i:1099587 original size:28 final size:28
Alignment explanation
Indices: 1099545--1100297 Score: 684
Period size: 28 Copynumber: 27.1 Consensus size: 28
1099535 CTCCGTGGCA
*
1099545 ACAACTCCATGGCATCCTTTTAAAGTCC
1 ACAACTCCGTGGCATCCTTTTAAAGTCC
* *
1099573 ATAACTCCATGGCATCCTTTTAAAGTCC
1 ACAACTCCGTGGCATCCTTTTAAAGTCC
*
1099601 ACAACTCCGTGGCATCCTTTTTAAGTCC
1 ACAACTCCGTGGCATCCTTTTAAAGTCC
* *
1099629 ACAGCTCCGTGGCAACCTTTT-AAGTCC
1 ACAACTCCGTGGCATCCTTTTAAAGTCC
* *
1099656 ACAGCTCCGTGGCAACCTTTT-AAGTCC
1 ACAACTCCGTGGCATCCTTTTAAAGTCC
*
1099683 ACAACTCCGTGGCAACCTTTT-AAGTCC
1 ACAACTCCGTGGCATCCTTTTAAAGTCC
*
1099710 -CAACTCTGTGGCATCCTTTTAAAGTCC
1 ACAACTCCGTGGCATCCTTTTAAAGTCC
*
1099737 ACAACTCCGTGGCATCCATTT-AAGTCC
1 ACAACTCCGTGGCATCCTTTTAAAGTCC
* ** *
1099764 ACAACTTCGTGGCATAATTTTTAAGT-C
1 ACAACTCCGTGGCATCCTTTTAAAGTCC
*
1099791 -CAACTTCGTGGCATCCTTTTAAAGTCC
1 ACAACTCCGTGGCATCCTTTTAAAGTCC
1099818 ACAACTCCGTGGCATCCTTTT-AAGTCC
1 ACAACTCCGTGGCATCCTTTTAAAGTCC
* ** *
1099845 ACAACTTCGTGGCATAATTTTTTAAGTCC
1 ACAACTCCGTGGCAT-CCTTTTAAAGTCC
*
1099874 ACAACTCCGTGGCGTCCTTTTAAAGTCC
1 ACAACTCCGTGGCATCCTTTTAAAGTCC
*
1099902 ACAACTCTGTGGCATCCTTTT-AAGTCC
1 ACAACTCCGTGGCATCCTTTTAAAGTCC
* **
1099929 ATAACTTTGTGGCATCCTTTTAAAGTCC
1 ACAACTCCGTGGCATCCTTTTAAAGTCC
* *
1099957 ACAACTCTGTAGCATCCTTTTAAAGTCC
1 ACAACTCCGTGGCATCCTTTTAAAGTCC
*
1099985 ACAACTCCATGGCATCCTTTT-AAGTCC
1 ACAACTCCGTGGCATCCTTTTAAAGTCC
* ** *
1100012 ATAACTCTATGGCATCCTTTTCAAAGCCC
1 ACAACTCCGTGGCATCCTTTT-AAAGTCC
* * * * *
1100041 ACAAATCAGTGGCACCCTTTCAAAGCCC
1 ACAACTCCGTGGCATCCTTTTAAAGTCC
* * * * *
1100069 ACAAGTCAGTGGCACCCTTTCAAAGCCC
1 ACAACTCCGTGGCATCCTTTTAAAGTCC
* * *
1100097 ACAAGTCAGTGGCATCCTTTCAAA-TCCC
1 ACAACTCCGTGGCATCCTTTTAAAGT-CC
* * * * *
1100125 ACAAGTCAGTGGCACCCTTTGAAAGCCC
1 ACAACTCCGTGGCATCCTTTTAAAGTCC
* ** * * *
1100153 ACAAGTTAGTGGCATCCTTTCATAGCCC
1 ACAACTCCGTGGCATCCTTTTAAAGTCC
* ** * * *
1100181 ACAAGTCAATGACATCCTTTCAAAGCCC
1 ACAACTCCGTGGCATCCTTTTAAAGTCC
* ** **
1100209 ACAAGTCAATGGCATCTCTTCAAAAGAT-C
1 ACAACTCCGTGGCATC-CTTTTAAAG-TCC
* ** * * *
1100238 ACAAATCAATGGCACCCTTTCAAAGCCC
1 ACAACTCCGTGGCATCCTTTTAAAGTCC
* * * *
1100266 ACAAGTCAGTGGCACCCTTTTAAAGCCC
1 ACAACTCCGTGGCATCCTTTTAAAGTCC
1100294 ACAA
1 ACAA
1100298 GTTAGTGGCA
Statistics
Matches: 638, Mismatches: 72, Indels: 30
0.86 0.10 0.04
Matches are distributed among these distances:
26 40 0.06
27 160 0.25
28 377 0.59
29 61 0.10
ACGTcount: A:0.27, C:0.30, G:0.14, T:0.28
Consensus pattern (28 bp):
ACAACTCCGTGGCATCCTTTTAAAGTCC
Found at i:1099588 original size:70 final size:70
Alignment explanation
Indices: 1099475--1099614 Score: 228
Period size: 70 Copynumber: 2.0 Consensus size: 70
1099465 TTTAAAGTCC
* * *
1099475 ACAACTCCGTGGCACACTTTTAAAGTCCACAACTCCGTGGCATCGTTTTAAAGTCCACAACTCCG
1 ACAACTCCATGGCACACTTTTAAAGTCCACAACTCCATGGCATCCTTTTAAAGTCCACAACTCCG
1099540 TGGCA
66 TGGCA
*
1099545 ACAACTCCATGGCATC-CTTTTAAAGTCCATAACTCCATGGCATCCTTTTAAAGTCCACAACTCC
1 ACAACTCCATGGCA-CACTTTTAAAGTCCACAACTCCATGGCATCCTTTTAAAGTCCACAACTCC
1099609 GTGGCA
65 GTGGCA
1099615 TCCTTTTTAA
Statistics
Matches: 65, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
70 64 0.98
71 1 0.02
ACGTcount: A:0.28, C:0.31, G:0.15, T:0.26
Consensus pattern (70 bp):
ACAACTCCATGGCACACTTTTAAAGTCCACAACTCCATGGCATCCTTTTAAAGTCCACAACTCCG
TGGCA
Found at i:1100298 original size:28 final size:28
Alignment explanation
Indices: 1099554--1100498 Score: 670
Period size: 28 Copynumber: 33.8 Consensus size: 28
1099544 AACAACTCCA
* *
1099554 TGGCATCCTTTTAAAGTCCATAACTCCA-
1 TGGCATCCTTTTAAAGTCCACAAGT-CAG
* *
1099582 TGGCATCCTTTTAAAGTCCACAACTCCG
1 TGGCATCCTTTTAAAGTCCACAAGTCAG
* *
1099610 TGGCATCCTTTTTAAGTCCAC-AGCTCCG
1 TGGCATCCTTTTAAAGTCCACAAG-TCAG
* *
1099638 TGGCAACCTTTT-AAGTCCAC-AGCTCCG
1 TGGCATCCTTTTAAAGTCCACAAG-TCAG
* * *
1099665 TGGCAACCTTTT-AAGTCCACAACTCCG
1 TGGCATCCTTTTAAAGTCCACAAGTCAG
* * *
1099692 TGGCAACCTTTT-AAGTCC-CAACTCTG
1 TGGCATCCTTTTAAAGTCCACAAGTCAG
* *
1099718 TGGCATCCTTTTAAAGTCCACAACTCCG
1 TGGCATCCTTTTAAAGTCCACAAGTCAG
* *
1099746 TGGCATCCATTT-AAGTCCACAACTTC-G
1 TGGCATCCTTTTAAAGTCCACAA-GTCAG
** * **
1099773 TGGCATAATTTTTAAGTCCA-ACTTC-G
1 TGGCATCCTTTTAAAGTCCACAAGTCAG
* *
1099799 TGGCATCCTTTTAAAGTCCACAACTCCG
1 TGGCATCCTTTTAAAGTCCACAAGTCAG
*
1099827 TGGCATCCTTTT-AAGTCCACAACTTC-G
1 TGGCATCCTTTTAAAGTCCACAA-GTCAG
** * * *
1099854 TGGCATAATTTTTTAAGTCCACAACTCCG
1 TGGCAT-CCTTTTAAAGTCCACAAGTCAG
* * *
1099883 TGGCGTCCTTTTAAAGTCCACAACTCTG
1 TGGCATCCTTTTAAAGTCCACAAGTCAG
* * **
1099911 TGGCATCCTTTT-AAGTCCATAACTTTG
1 TGGCATCCTTTTAAAGTCCACAAGTCAG
* *
1099938 TGGCATCCTTTTAAAGTCCACAACTCTG
1 TGGCATCCTTTTAAAGTCCACAAGTCAG
* *
1099966 TAGCATCCTTTTAAAGTCCACAACTCCA-
1 TGGCATCCTTTTAAAGTCCACAAGT-CAG
* *
1099994 TGGCATCCTTTT-AAGTCCATAACTCTA-
1 TGGCATCCTTTTAAAGTCCACAAGTC-AG
* *
1100021 TGGCATCCTTTTCAAAGCCCACAAATCAG
1 TGGCATCCTTTT-AAAGTCCACAAGTCAG
* * *
1100050 TGGCACCCTTTCAAAGCCCACAAGTCAG
1 TGGCATCCTTTTAAAGTCCACAAGTCAG
* * *
1100078 TGGCACCCTTTCAAAGCCCACAAGTCAG
1 TGGCATCCTTTTAAAGTCCACAAGTCAG
*
1100106 TGGCATCCTTTCAAA-TCCCACAAGTCAG
1 TGGCATCCTTTTAAAGT-CCACAAGTCAG
* * * *
1100134 TGGCACCCTTTGAAAGCCCACAAGTTAG
1 TGGCATCCTTTTAAAGTCCACAAGTCAG
* * * *
1100162 TGGCATCCTTTCATAGCCCACAAGTCAA
1 TGGCATCCTTTTAAAGTCCACAAGTCAG
* * * *
1100190 TGACATCCTTTCAAAGCCCACAAGTCAA
1 TGGCATCCTTTTAAAGTCCACAAGTCAG
** * *
1100218 TGGCATCTCTTCAAAAGAT-CACAAATCAA
1 TGGCATC-CTTTTAAAG-TCCACAAGTCAG
* * *
1100247 TGGCACCCTTTCAAAGCCCACAAGTCAG
1 TGGCATCCTTTTAAAGTCCACAAGTCAG
* * *
1100275 TGGCACCCTTTTAAAGCCCACAAGTTAG
1 TGGCATCCTTTTAAAGTCCACAAGTCAG
* * * *
1100303 TGGCATCCCCTTTCAAAGCCCACACAAATCAA
1 TGGCAT--CCTTTTAAAG-TC-CACAAGTCAG
* ** *
1100335 TGGCACCCTTCCAAAGCCCACAAGTCAG
1 TGGCATCCTTTTAAAGTCCACAAGTCAG
* * *
1100363 TGGCACCCTTTCAAAGCCCACAAGTCAG
1 TGGCATCCTTTTAAAGTCCACAAGTCAG
* ** *
1100391 TGGTA-CCTCTTTAAAACCCACAAGTCAC
1 TGGCATCCT-TTTAAAGTCCACAAGTCAG
* * * *
1100419 TGGCACCCTTTCAAAGCCCACAAGTTAG
1 TGGCATCCTTTTAAAGTCCACAAGTCAG
* * *
1100447 TGGCATACCCTTTCAAAGCCCACAAGTCAA
1 TGGCAT--CCTTTTAAAGTCCACAAGTCAG
** * *
1100477 TGGCGCCCTTTCAAAGCCCACA
1 TGGCATCCTTTTAAAGTCCACA
1100499 CAAATTGGTG
Statistics
Matches: 791, Mismatches: 94, Indels: 64
0.83 0.10 0.07
Matches are distributed among these distances:
26 40 0.05
27 158 0.20
28 473 0.60
29 64 0.08
30 42 0.05
31 2 0.00
32 12 0.02
ACGTcount: A:0.28, C:0.31, G:0.15, T:0.26
Consensus pattern (28 bp):
TGGCATCCTTTTAAAGTCCACAAGTCAG
Found at i:1100695 original size:45 final size:46
Alignment explanation
Indices: 1100628--1100747 Score: 125
Period size: 49 Copynumber: 2.6 Consensus size: 46
1100618 TTCGATATCG
* * *
1100628 CTGGCATTGAATCAGCATATTGGCACCTTT-ATTAGCCCAATGTCC
1 CTGGCCTTGAATCAGCACATTGGCACCTTTCATTAGCCCAATGTAC
* * *
1100673 CTGGCCTTGAATCAGCACATTGGTCCACTTTTCCCTTAGCCCAATGTAG
1 CTGGCCTTGAATCAGCACATTGG--CACCTTT-CATTAGCCCAATGTAC
* **
1100722 TTGGCCTTGAATTGGCACATTGGCAC
1 CTGGCCTTGAATCAGCACATTGGCAC
1100748 TCCTCTCATC
Statistics
Matches: 62, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
45 21 0.34
47 9 0.15
49 32 0.52
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.31
Consensus pattern (46 bp):
CTGGCCTTGAATCAGCACATTGGCACCTTTCATTAGCCCAATGTAC
Found at i:1101484 original size:20 final size:21
Alignment explanation
Indices: 1101459--1101513 Score: 78
Period size: 20 Copynumber: 2.7 Consensus size: 21
1101449 TTTCACCTAG
1101459 ATGTATCGATACATTG-AAAA
1 ATGTATCGATACATTGTAAAA
**
1101479 ATGTATCGATACA-TGTATGA
1 ATGTATCGATACATTGTAAAA
1101499 ATGTATCGATACATT
1 ATGTATCGATACATT
1101514 CTTCAATATA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
19 2 0.06
20 28 0.90
21 1 0.03
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.35
Consensus pattern (21 bp):
ATGTATCGATACATTGTAAAA
Found at i:1109283 original size:27 final size:27
Alignment explanation
Indices: 1109245--1109313 Score: 129
Period size: 27 Copynumber: 2.6 Consensus size: 27
1109235 TTAAAAGCAG
1109245 GGTTGGAGTATCCCCTCGGAAGAATGA
1 GGTTGGAGTATCCCCTCGGAAGAATGA
*
1109272 GGTTGGAGTATCTCCTCGGAAGAATGA
1 GGTTGGAGTATCCCCTCGGAAGAATGA
1109299 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
1109314 GATGATGAAG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.23, C:0.19, G:0.33, T:0.25
Consensus pattern (27 bp):
GGTTGGAGTATCCCCTCGGAAGAATGA
Found at i:1111459 original size:20 final size:20
Alignment explanation
Indices: 1111434--1111558 Score: 90
Period size: 20 Copynumber: 5.7 Consensus size: 20
1111424 AATTAACTAG
1111434 ATGTATCGATACATTGAATA
1 ATGTATCGATACATTGAATA
1111454 ATGTATCGATACATCTAGGTAACAAGATAGA
1 ATGTATCGATACAT-T--G-----A-AT--A
*
1111485 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTGAATA
* *
1111505 ATGTATCGATACATT-CATGC
1 ATGTATCGATACATTGAAT-A
*
1111525 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTGAATA
*
1111545 ATATATCGATACAT
1 ATGTATCGATACAT
1111559 CTAGGTAAAA
Statistics
Matches: 84, Mismatches: 8, Indels: 26
0.71 0.07 0.22
Matches are distributed among these distances:
19 1 0.01
20 58 0.69
21 2 0.02
22 1 0.01
23 2 0.02
28 2 0.02
29 2 0.02
30 1 0.01
31 15 0.18
ACGTcount: A:0.41, C:0.13, G:0.15, T:0.31
Consensus pattern (20 bp):
ATGTATCGATACATTGAATA
Found at i:1112745 original size:13 final size:13
Alignment explanation
Indices: 1112727--1112751 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1112717 CAAAAACTTA
1112727 TGTATTGATACAT
1 TGTATTGATACAT
1112740 TGTATTGATACA
1 TGTATTGATACA
1112752 AATTATAGAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.44
Consensus pattern (13 bp):
TGTATTGATACAT
Found at i:1113663 original size:20 final size:19
Alignment explanation
Indices: 1113640--1113678 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
1113630 TAAGTTGATG
*
1113640 AAAAATTAGGTAATTTTTGA
1 AAAAATAAGGT-ATTTTTGA
1113660 AAAAATAAGGTATTTTTGA
1 AAAAATAAGGTATTTTTGA
1113679 CACAAAGTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.46, C:0.00, G:0.15, T:0.38
Consensus pattern (19 bp):
AAAAATAAGGTATTTTTGA
Found at i:1115395 original size:39 final size:40
Alignment explanation
Indices: 1115352--1115431 Score: 101
Period size: 39 Copynumber: 2.0 Consensus size: 40
1115342 AAATAAATAA
* * *
1115352 AAAATTTAATATATAATTTTAA-ATAA-AATTAAATGTATT
1 AAAATTTAATAAATAA-TATAATATAATAATTAAATATATT
*
1115391 AAAATTTTATAAATAATATAATATAATAATTAAATATATT
1 AAAATTTAATAAATAATATAATATAATAATTAAATATATT
1115431 A
1 A
1115432 TATTTATTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
38 4 0.11
39 18 0.51
40 13 0.37
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.42
Consensus pattern (40 bp):
AAAATTTAATAAATAATATAATATAATAATTAAATATATT
Found at i:1116185 original size:20 final size:19
Alignment explanation
Indices: 1116100--1116190 Score: 69
Period size: 20 Copynumber: 4.6 Consensus size: 19
1116090 ACACTTGAAA
*
1116100 GTATCGATACATATC-CAGAT
1 GTATCGATACATA-CACA-TT
*
1116120 GTATCGATACATA-ATGCTTT
1 GTATCGATACATACA--CATT
***
1116140 GTATCGATACATGTTCATT
1 GTATCGATACATACACATT
*
1116159 ATATCGATACATACACAATT
1 GTATCGATACATACAC-ATT
1116179 GTATCGATACAT
1 GTATCGATACAT
1116191 GAAACTGGCA
Statistics
Matches: 56, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
19 15 0.27
20 40 0.71
21 1 0.02
ACGTcount: A:0.34, C:0.18, G:0.13, T:0.35
Consensus pattern (19 bp):
GTATCGATACATACACATT
Found at i:1117892 original size:15 final size:15
Alignment explanation
Indices: 1117872--1117906 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
1117862 AACCATCAAA
1117872 GATGATGAAGATAAT
1 GATGATGAAGATAAT
**
1117887 GATGATGGTGATAAT
1 GATGATGAAGATAAT
1117902 GATGA
1 GATGA
1117907 AGTTGACTCG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.40, C:0.00, G:0.31, T:0.29
Consensus pattern (15 bp):
GATGATGAAGATAAT
Found at i:1121359 original size:968 final size:968
Alignment explanation
Indices: 1119484--1121422 Score: 3736
Period size: 968 Copynumber: 2.0 Consensus size: 968
1119474 TTGATTACGA
1119484 TAAAGTATGTGATGCATGTATAAGGGTAAGCATAAAAGAAATTCTTTTAAACCTATAAACATTGT
1 TAAAGTATGTGATGCATGTATAAGGGTAAGCATAAAAGAAATTCTTTTAAACCTATAAACATTGT
*
1119549 CACAACCTCTAGAGTTTTGCAACTAGTTCATATCAACTTATTTGGTCCAACTAGAACACAAAGTC
66 CACAACCTCTAGAGTTTTGCAACTAGTTCACATCAACTTATTTGGTCCAACTAGAACACAAAGTC
1119614 TAGGCAGTAAAAGATATGGATTTGTCATTGTGGATGATTATTCAAGATATACTTGGATTTTATTT
131 TAGGCAGTAAAAGATATGGATTTGTCATTGTGGATGATTATTCAAGATATACTTGGATTTTATTT
1119679 TTAAGTACCAAAGATGAAGCTTTAGAAAAATTCATCACATTTTGTAAAATTGTTCAAAATGAAAA
196 TTAAGTACCAAAGATGAAGCTTTAGAAAAATTCATCACATTTTGTAAAATTGTTCAAAATGAAAA
1119744 AGCTTACTCCTTATCTAGCATAAGAAGTGACCATGGTAGAGAATTTGAGAATCTTGGTTTTGATA
261 AGCTTACTCCTTATCTAGCATAAGAAGTGACCATGGTAGAGAATTTGAGAATCTTGGTTTTGATA
1119809 ATTTTTGTAATAAAAATGGTATTAGCCATAACTTCTCAACTCCTAGAACTCCTTAGCAAAATGGA
326 ATTTTTGTAATAAAAATGGTATTAGCCATAACTTCTCAACTCCTAGAACTCCTTAGCAAAATGGA
*
1119874 GTTGTTGAGAGAAAAAATCAAACTTTAAAGGAAATGGCTAGAACCATGCTTTGTTAAAATAATTT
391 GTTGTTGAGAGAAAAAATCAAACTTTAAAGGAAATGGCTAGAACCATGCTTTGTAAAAATAATTT
1119939 ACCAAGATATTTTTGGGCGGAAGCCATTAATACCACATACTATATTATAAATCGAGCTATAATTA
456 ACCAAGATATTTTTGGGCGGAAGCCATTAATACCACATACTATATTATAAATCGAGCTATAATTA
1120004 GGTCAATTTTAAAGAAAACTTCATATGAACTTTATAAAGGAAAACGGCCTAACACAAGCTATTTT
521 GGTCAATTTTAAAGAAAACTTCATATGAACTTTATAAAGGAAAACGGCCTAACACAAGCTATTTT
1120069 CATCCATTTGGATGTAAATGTTTTGTTTTAAATAATGAAAAAGAAAATCTTAGTAAATTCGATGC
586 CATCCATTTGGATGTAAATGTTTTGTTTTAAATAATGAAAAAGAAAATCTTAGTAAATTCGATGC
1120134 TAAAAGTGATGAAGGTATTTTTCTTGGTTATTCAACAAACTCTAAAGCTTATCGAGTATTTAATA
651 TAAAAGTGATGAAGGTATTTTTCTTGGTTATTCAACAAACTCTAAAGCTTATCGAGTATTTAATA
* *
1120199 AAAGAACTTTAGTTGTTAAAGAATCAATCCACGTTGTTTTTTATGAATCTAAGTCTTCCATAAGG
716 AAAGAACTTTAGTTGTTAAAGAATCAATCCACGTTATTTTTTATGAATCTAACTCTTCCATAAGG
1120264 AAGGTATCCTTTGTTGACAATGATGTAGAAATATATGAAGAAAATCTAGAATAAGCATCACACAA
781 AAGGTATCCTTTGTTGACAATGATGTAGAAATATATGAAGAAAATCTAGAATAAGCATCACACAA
1120329 GGAGCAAGAAGAAAATATTCAAATTGAAGAAGCTCCAAAAAAAGTTGACGAGCAAGCACAAACTC
846 GGAGCAAGAAGAAAATATTCAAATTGAAGAAGCTCCAAAAAAAGTTGACGAGCAAGCACAAACTC
1120394 AAACCGAAAGAAAACATTCGAGGGAATTGACTTATGTGCAAAAAGGTGAGATTATCAG
911 AAACCGAAAGAAAACATTCGAGGGAATTGACTTATGTGCAAAAAGGTGAGATTATCAG
* *
1120452 TAAAGTATGTGATGCATGTATTAAGGGTAAGCATATATGAAATTCTTTTAAACCT-TAAACATTG
1 TAAAGTATGTGATGCATGTA-TAAGGGTAAGCATAAAAGAAATTCTTTTAAACCTATAAACATTG
1120516 TCACAACCTCTAGAGTTTTGCAACTAGTTCACATCAACTTATTTGGTCCAACTAGAACACAAAGT
65 TCACAACCTCTAGAGTTTTGCAACTAGTTCACATCAACTTATTTGGTCCAACTAGAACACAAAGT
* *
1120581 CTAGGCGGTAAAAGATATGGATTTGTCATTGTGGATGATTATTCAAGATATACTTGGGTTTTATT
130 CTAGGCAGTAAAAGATATGGATTTGTCATTGTGGATGATTATTCAAGATATACTTGGATTTTATT
1120646 TTTAAGTACCAAAGATGAAGCTTTAGAAAAATTCATCACATTTTGTAAAATTGTTCAAAATGAAA
195 TTTAAGTACCAAAGATGAAGCTTTAGAAAAATTCATCACATTTTGTAAAATTGTTCAAAATGAAA
1120711 AAGCTTACTCCTTATCTAGCATAAGAAGTGACCATGGTAGAGAATTTGAGAATCTTGGTTTTGAT
260 AAGCTTACTCCTTATCTAGCATAAGAAGTGACCATGGTAGAGAATTTGAGAATCTTGGTTTTGAT
* * *
1120776 AATTTTTGTAATAAAAATGGTATTAGTCATAACTTCTCAGCTCTTAGAACTCCTTAGCAAAATGG
325 AATTTTTGTAATAAAAATGGTATTAGCCATAACTTCTCAACTCCTAGAACTCCTTAGCAAAATGG
*
1120841 AGTTGTTGAGAGAAAAAATCAGACTTTAAAGGAAATGGCTAGAACCATGCTTTGTAAAAATAATT
390 AGTTGTTGAGAGAAAAAATCAAACTTTAAAGGAAATGGCTAGAACCATGCTTTGTAAAAATAATT
1120906 TACCAAGATATTTTTGGGCGGAAGCCATTAATACCACATACTATATTATAAATCGAGCTATAATT
455 TACCAAGATATTTTTGGGCGGAAGCCATTAATACCACATACTATATTATAAATCGAGCTATAATT
1120971 AGGTCAATTTTAAAGAAAACTTCATATGAACTTTATAAAGGAAAACGGCCTAACACAAGCTATTT
520 AGGTCAATTTTAAAGAAAACTTCATATGAACTTTATAAAGGAAAACGGCCTAACACAAGCTATTT
1121036 TCATCCATTTGGATGTAAATGTTTTGTTTTAAATAATGAAAAAGAAAATCTTAGTAAATTCGATG
585 TCATCCATTTGGATGTAAATGTTTTGTTTTAAATAATGAAAAAGAAAATCTTAGTAAATTCGATG
1121101 CTAAAAGTGATGAAGGTATTTTTCTTGGTTATTCAACAAACTCTAAAGCTTATCGAGTATTTAAT
650 CTAAAAGTGATGAAGGTATTTTTCTTGGTTATTCAACAAACTCTAAAGCTTATCGAGTATTTAAT
1121166 AAAAGAACTTTAGTTGTTAAAGAATCAATCCACGTTATTTTTTATGAATCTAACTCTTCCATAAG
715 AAAAGAACTTTAGTTGTTAAAGAATCAATCCACGTTATTTTTTATGAATCTAACTCTTCCATAAG
1121231 GAAGGTATCCTTTGTTGACAATGATGTAGAAATATATGAAGAAAATCTAGAATAAGCATCACACA
780 GAAGGTATCCTTTGTTGACAATGATGTAGAAATATATGAAGAAAATCTAGAATAAGCATCACACA
*
1121296 AGGAGCAAGAAGAAAATATTCAAATTGAAGAAGCTCCAAAAGAAGTTGACGAGCAAGCACAAACT
845 AGGAGCAAGAAGAAAATATTCAAATTGAAGAAGCTCCAAAAAAAGTTGACGAGCAAGCACAAACT
*
1121361 CAAACCGAAAGAAAACATTCGAGGGAATTGACTTATGTGCAAAAAGGTGAGATTATCGG
910 CAAACCGAAAGAAAACATTCGAGGGAATTGACTTATGTGCAAAAAGGTGAGATTATCAG
1121420 TAA
1 TAA
1121423 TCCAAATCAT
Statistics
Matches: 956, Mismatches: 14, Indels: 2
0.98 0.01 0.00
Matches are distributed among these distances:
968 924 0.97
969 32 0.03
ACGTcount: A:0.39, C:0.13, G:0.17, T:0.31
Consensus pattern (968 bp):
TAAAGTATGTGATGCATGTATAAGGGTAAGCATAAAAGAAATTCTTTTAAACCTATAAACATTGT
CACAACCTCTAGAGTTTTGCAACTAGTTCACATCAACTTATTTGGTCCAACTAGAACACAAAGTC
TAGGCAGTAAAAGATATGGATTTGTCATTGTGGATGATTATTCAAGATATACTTGGATTTTATTT
TTAAGTACCAAAGATGAAGCTTTAGAAAAATTCATCACATTTTGTAAAATTGTTCAAAATGAAAA
AGCTTACTCCTTATCTAGCATAAGAAGTGACCATGGTAGAGAATTTGAGAATCTTGGTTTTGATA
ATTTTTGTAATAAAAATGGTATTAGCCATAACTTCTCAACTCCTAGAACTCCTTAGCAAAATGGA
GTTGTTGAGAGAAAAAATCAAACTTTAAAGGAAATGGCTAGAACCATGCTTTGTAAAAATAATTT
ACCAAGATATTTTTGGGCGGAAGCCATTAATACCACATACTATATTATAAATCGAGCTATAATTA
GGTCAATTTTAAAGAAAACTTCATATGAACTTTATAAAGGAAAACGGCCTAACACAAGCTATTTT
CATCCATTTGGATGTAAATGTTTTGTTTTAAATAATGAAAAAGAAAATCTTAGTAAATTCGATGC
TAAAAGTGATGAAGGTATTTTTCTTGGTTATTCAACAAACTCTAAAGCTTATCGAGTATTTAATA
AAAGAACTTTAGTTGTTAAAGAATCAATCCACGTTATTTTTTATGAATCTAACTCTTCCATAAGG
AAGGTATCCTTTGTTGACAATGATGTAGAAATATATGAAGAAAATCTAGAATAAGCATCACACAA
GGAGCAAGAAGAAAATATTCAAATTGAAGAAGCTCCAAAAAAAGTTGACGAGCAAGCACAAACTC
AAACCGAAAGAAAACATTCGAGGGAATTGACTTATGTGCAAAAAGGTGAGATTATCAG
Found at i:1126029 original size:20 final size:21
Alignment explanation
Indices: 1125987--1126044 Score: 75
Period size: 20 Copynumber: 2.9 Consensus size: 21
1125977 CTACCACTAT
*
1125987 TTGTATCGATACATGA-CACA
1 TTGTATCGATACATTATCACA
*
1126007 TTGTATCGATACATTATGA-A
1 TTGTATCGATACATTATCACA
*
1126027 TTGTATCAATACATTATC
1 TTGTATCGATACATTATC
1126045 CCAAATGACT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
20 32 0.97
21 1 0.03
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.38
Consensus pattern (21 bp):
TTGTATCGATACATTATCACA
Found at i:1132213 original size:43 final size:43
Alignment explanation
Indices: 1132152--1132238 Score: 156
Period size: 43 Copynumber: 2.0 Consensus size: 43
1132142 AAGGCTTAGA
*
1132152 CAAAATTAGGCATCTATAGCTAATAAGTATATTATGTCATGTG
1 CAAAATTAGGCATCTATAGCTAATAAGTATAGTATGTCATGTG
*
1132195 CAAAATTAGGCATCTATAGCTAATAAGTATAGTATGTCGTGTG
1 CAAAATTAGGCATCTATAGCTAATAAGTATAGTATGTCATGTG
1132238 C
1 C
1132239 TTCTTTTGTA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (43 bp):
CAAAATTAGGCATCTATAGCTAATAAGTATAGTATGTCATGTG
Found at i:1134018 original size:153 final size:153
Alignment explanation
Indices: 1133792--1134167 Score: 484
Period size: 153 Copynumber: 2.4 Consensus size: 153
1133782 TTAGTTTTAG
* * * * *
1133792 AATTAACGAAAATGCCCTTAGGAGATACCTTCGACGTAGAAGTACTCGATACCCCTAAAAGACTT
1 AATT-ACGAAAATGCCCCTAGGGGATACTTTCGACGTAGAAGTACCCGATACCCCTAAAGGAC-T
** * *
1133857 AAAAAGGATGTGGATGGGGTGAACCTATCATAAATGCTCACCTTCGGCATAAAAGCAGACCCGGT
64 AAAAAGGATGTGGATGGCATGAACCTATCATAAATGCCCACCTTCGACATAAAAGCAGACCCGGT
* * *
1133922 GACACCCTAGGACTCGGTTCTAAAA
129 GACAACCTAGAACTCGATTCTAAAA
* * *
1133947 AATTAC-AAAATGCCCCTAGGGGATACTTTCGACATAGAAGTACCCGACACCCTTAAAGGACTAA
1 AATTACGAAAATGCCCCTAGGGGATACTTTCGACGTAGAAGTACCCGATACCCCTAAAGGACTAA
* * *
1134011 AACAGGATGTGGATGGCATGAACCTATCCTAAATGCCCACCTTCGATATAAAAGCAGGCCCGGTG
66 AA-AGGATGTGGATGGCATGAACCTATCATAAATGCCCACCTTCGACATAAAAGCAGACCCGGTG
* * *
1134076 ATAACTTAGAACTTGATTCTAAAA
130 ACAACCTAGAACTCGATTCTAAAA
* * * * *
1134100 AATTACGAAAATACCCCTAGGGGATACTTTCAACGTAAAAGTATCTGATACCCCTAAAGGACTAA
1 AATTACGAAAATGCCCCTAGGGGATACTTTCGACGTAGAAGTACCCGATACCCCTAAAGGACTAA
1134165 AAA
66 AAA
1134168 AGATTTTGTA
Statistics
Matches: 190, Mismatches: 29, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
152 5 0.03
153 127 0.67
154 54 0.28
155 4 0.02
ACGTcount: A:0.37, C:0.22, G:0.19, T:0.22
Consensus pattern (153 bp):
AATTACGAAAATGCCCCTAGGGGATACTTTCGACGTAGAAGTACCCGATACCCCTAAAGGACTAA
AAAGGATGTGGATGGCATGAACCTATCATAAATGCCCACCTTCGACATAAAAGCAGACCCGGTGA
CAACCTAGAACTCGATTCTAAAA
Found at i:1135332 original size:43 final size:43
Alignment explanation
Indices: 1135271--1135357 Score: 156
Period size: 43 Copynumber: 2.0 Consensus size: 43
1135261 AAGGCTTAGA
*
1135271 CAAAATTAGGCATCTATAGCTAATAAGTATATTATGTCATGTG
1 CAAAATTAGGCATCTATAGCTAATAAGTATAGTATGTCATGTG
*
1135314 CAAAATTAGGCATCTATAGCTAATAAGTATAGTATGTCGTGTG
1 CAAAATTAGGCATCTATAGCTAATAAGTATAGTATGTCATGTG
1135357 C
1 C
1135358 TTCTTTTGTA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (43 bp):
CAAAATTAGGCATCTATAGCTAATAAGTATAGTATGTCATGTG
Found at i:1137146 original size:153 final size:153
Alignment explanation
Indices: 1136918--1137293 Score: 468
Period size: 153 Copynumber: 2.4 Consensus size: 153
1136908 TTAGTTTTAG
* * * * *
1136918 AATTAACGAAAATGCCCTTAGGAGATACCTTCGACGTAGAAGTACTCGATACCCCTAAAAGACTT
1 AATT-ACGAAAATGCCCCTAGGGGATACTTTCGACGTAGAAGTACCCGATACCCCTAAAGGAC-T
* * * *
1136983 AAAAAGGATGTGGATTGG-GTGAACCTATCATAAATGCTCACCTTCGGCATAAAAGCAGACCTGG
64 AAAAAGGATGTGGA-TGGCATGAACCTATCATAAATGCCCACCTTCGACATAAAAGCAGACCCGG
* * *
1137047 TGACACCCTAGGACTCGGTTCTAAAA
128 TGACAACCTAGAACTCGATTCTAAAA
* * *
1137073 AATTAC-AAAATGCCCCTAGGGGATACTTTCGACATAGAAGTACCCGACACCCTTAAAGGACTAA
1 AATTACGAAAATGCCCCTAGGGGATACTTTCGACGTAGAAGTACCCGATACCCCTAAAGGACTAA
* * *
1137137 AACAGGATGTGGATGGCATGAACCTATCCTAAATGCCCACCTTCGATATAAAAGCAGGCCCGGTG
66 AA-AGGATGTGGATGGCATGAACCTATCATAAATGCCCACCTTCGACATAAAAGCAGACCCGGTG
* * *
1137202 ATAACTTAGAACTTGATTCTAAAA
130 ACAACCTAGAACTCGATTCTAAAA
* * * * *
1137226 AATTACGAAAATACCCCTAGGGGATACTTTCAACGTAAAAGTATCTGATACCCCTAAAGGACTAA
1 AATTACGAAAATGCCCCTAGGGGATACTTTCGACGTAGAAGTACCCGATACCCCTAAAGGACTAA
1137291 AAA
66 AAA
1137294 AGATTTTGTA
Statistics
Matches: 189, Mismatches: 29, Indels: 8
0.84 0.13 0.04
Matches are distributed among these distances:
152 8 0.04
153 123 0.65
154 54 0.29
155 4 0.02
ACGTcount: A:0.37, C:0.22, G:0.19, T:0.22
Consensus pattern (153 bp):
AATTACGAAAATGCCCCTAGGGGATACTTTCGACGTAGAAGTACCCGATACCCCTAAAGGACTAA
AAAGGATGTGGATGGCATGAACCTATCATAAATGCCCACCTTCGACATAAAAGCAGACCCGGTGA
CAACCTAGAACTCGATTCTAAAA
Found at i:1138887 original size:12 final size:11
Alignment explanation
Indices: 1138863--1138912 Score: 50
Period size: 10 Copynumber: 4.6 Consensus size: 11
1138853 ATTTTCACTA
1138863 TTTTTCTTGTT
1 TTTTTCTTGTT
*
1138874 TTTTTC-TCTT
1 TTTTTCTTGTT
*
1138884 TTTTT-TTCTT
1 TTTTTCTTGTT
*
1138894 TATTTCTTCGTT
1 TTTTTCTT-GTT
1138906 TTTTTCT
1 TTTTTCT
1138913 AGCTAAAATT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
10 16 0.50
11 8 0.25
12 8 0.25
ACGTcount: A:0.02, C:0.14, G:0.04, T:0.80
Consensus pattern (11 bp):
TTTTTCTTGTT
Found at i:1141573 original size:21 final size:21
Alignment explanation
Indices: 1141523--1141573 Score: 50
Period size: 21 Copynumber: 2.4 Consensus size: 21
1141513 TTTTACCTAG
* *
1141523 GTATCAATACATTCTATCATT
1 GTATCGATACATTCTATCAAT
* *
1141544 ATATTGATACATT-TCATCAAT
1 GTATCGATACATTCT-ATCAAT
1141565 GTATCGATA
1 GTATCGATA
1141574 TAAAACTTTG
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
20 1 0.04
21 22 0.96
ACGTcount: A:0.35, C:0.16, G:0.08, T:0.41
Consensus pattern (21 bp):
GTATCGATACATTCTATCAAT
Found at i:1141645 original size:20 final size:21
Alignment explanation
Indices: 1141617--1141667 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
1141607 GAACCAAAAG
1141617 TATCGATACATAAG-CTAATA
1 TATCGATACATAAGACTAATA
* *
1141637 TATCAATACA-AAGATTAATA
1 TATCGATACATAAGACTAATA
1141657 TATCGATACAT
1 TATCGATACAT
1141668 TATATGAATG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
19 3 0.12
20 23 0.88
ACGTcount: A:0.47, C:0.14, G:0.08, T:0.31
Consensus pattern (21 bp):
TATCGATACATAAGACTAATA
Found at i:1147708 original size:11 final size:11
Alignment explanation
Indices: 1147692--1147726 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
1147682 CAATTTACAC
1147692 TATAATTTAAT
1 TATAATTTAAT
1147703 TATAATTT-AT
1 TATAATTTAAT
*
1147713 TATATTTTAAT
1 TATAATTTAAT
1147724 TAT
1 TAT
1147727 TCTTTAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 9 0.41
11 13 0.59
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
TATAATTTAAT
Found at i:1149315 original size:3 final size:3
Alignment explanation
Indices: 1149309--1149346 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
1149299 TTTCAAAATA
1149309 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1149347 ATATTCTAGC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:1156418 original size:2 final size:2
Alignment explanation
Indices: 1156411--1156443 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
1156401 GAGTTTAAAC
1156411 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1156444 AAAGTTCATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1156892 original size:2 final size:2
Alignment explanation
Indices: 1156885--1156911 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1156875 TTCAGTCCTG
1156885 GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA G
1156912 GGGTTCATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:1158602 original size:30 final size:30
Alignment explanation
Indices: 1158568--1158641 Score: 105
Period size: 30 Copynumber: 2.5 Consensus size: 30
1158558 CATTTTTCAG
* *
1158568 TGTATC-AGTACATTCTTTCTTTTACCCATA
1 TGTATCGA-TACATTCTGTCTTTTACCCAGA
1158598 TGTATCGATACATTCTGTCTTTTACCCAGA
1 TGTATCGATACATTCTGTCTTTTACCCAGA
*
1158628 TGTATTGATACATT
1 TGTATCGATACATT
1158642 TTTCAATGTA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
30 39 0.98
31 1 0.03
ACGTcount: A:0.24, C:0.20, G:0.11, T:0.45
Consensus pattern (30 bp):
TGTATCGATACATTCTGTCTTTTACCCAGA
Found at i:1163997 original size:148 final size:148
Alignment explanation
Indices: 1163808--1164103 Score: 373
Period size: 148 Copynumber: 2.0 Consensus size: 148
1163798 ACAAAGAATA
* * * * * * *
1163808 ATAGTCAATAAAGTATTATTTAATATTTATTATTTTTTGAAAATAACAATTGTAATATTTATTTT
1 ATAGTCAATAAAGTATTACTTAACATTTATTATTTTATGAAAATAAAAACTATAATATCTATTTT
*
1163873 ATAGA-AAAAAATCTTAATTTTAATTAATACATAATT-C-TATTACTAATTGAGTAAGAATTACT
66 AT-GATAAAAAATCTTAATTTTAATTAATACATAATTACGT-TT-CTAATTAAGTAAGAATTACT
* *
1163935 TTAATATTATAAGTATTCTTT
128 TTAATACTATAAGGATTCTTT
* * *
1163956 ATAGTTAATAAAGTATTACTTAACATTTATTGTTTTATGAAAATAAAAACTATAGTATCTATTTT
1 ATAGTCAATAAAGTATTACTTAACATTTATTATTTTATGAAAATAAAAACTATAATATCTATTTT
* ** * * *
1164021 ATGATAAAAAATTTTAATTTTAATTCGTACGTAATTACGTTTTTAATTAAGTGAGAATTACTTTA
66 ATGATAAAAAATCTTAATTTTAATTAATACATAATTACGTTTCTAATTAAGTAAGAATTACTTTA
1164086 ATACTATAAGGATTCTTT
131 ATACTATAAGGATTCTTT
1164104 GTTTATTGAC
Statistics
Matches: 126, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
147 2 0.02
148 120 0.95
149 3 0.02
150 1 0.01
ACGTcount: A:0.41, C:0.06, G:0.08, T:0.46
Consensus pattern (148 bp):
ATAGTCAATAAAGTATTACTTAACATTTATTATTTTATGAAAATAAAAACTATAATATCTATTTT
ATGATAAAAAATCTTAATTTTAATTAATACATAATTACGTTTCTAATTAAGTAAGAATTACTTTA
ATACTATAAGGATTCTTT
Found at i:1164264 original size:22 final size:22
Alignment explanation
Indices: 1164239--1164286 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
1164229 TTATACAAAC
* *
1164239 ATAAATTAAAAAATAAAATAAA
1 ATAAAATAAAAAATAAAAGAAA
* *
1164261 ATAAAATAATAAATTAAAGAAA
1 ATAAAATAAAAAATAAAAGAAA
1164283 ATAA
1 ATAA
1164287 TCAAACTTAC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (22 bp):
ATAAAATAAAAAATAAAAGAAA
Found at i:1164283 original size:17 final size:16
Alignment explanation
Indices: 1164239--1164287 Score: 50
Period size: 17 Copynumber: 3.1 Consensus size: 16
1164229 TTATACAAAC
1164239 ATAAATT-AAAAAAT-
1 ATAAATTAAAAAAATA
*
1164253 A-AAATAAAATAAAATA
1 ATAAATTAAA-AAAATA
1164269 ATAAATTAAAGAAAATA
1 ATAAATTAAA-AAAATA
1164286 AT
1 AT
1164288 CAAACTTACT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
13 4 0.14
14 3 0.11
15 5 0.18
16 1 0.04
17 15 0.54
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.24
Consensus pattern (16 bp):
ATAAATTAAAAAAATA
Found at i:1174079 original size:11 final size:11
Alignment explanation
Indices: 1174052--1174093 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
1174042 AGCTTCCAAG
1174052 AGAAAACAAGTGA
1 AGAAAA-AAG-GA
1174065 AGAAAAAAGGA
1 AGAAAAAAGGA
*
1174076 AGAAAAAAAG-
1 AGAAAAAAGGA
1174086 AGAAAAAA
1 AGAAAAAA
1174094 ATCAAGGCAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
10 8 0.29
11 11 0.39
12 3 0.11
13 6 0.21
ACGTcount: A:0.74, C:0.02, G:0.21, T:0.02
Consensus pattern (11 bp):
AGAAAAAAGGA
Found at i:1186067 original size:60 final size:60
Alignment explanation
Indices: 1185993--1186113 Score: 215
Period size: 60 Copynumber: 2.0 Consensus size: 60
1185983 TAAGATCGAC
*
1185993 TACTAGGGCTAAGCTGATTGACTTACTCCAAGAATACCGAGATGTATTTGCTTGGTCATA
1 TACTAGGACTAAGCTGATTGACTTACTCCAAGAATACCGAGATGTATTTGCTTGGTCATA
* *
1186053 TACTAGGACTAAGCTGATTGCCTTACTCCAAGAATACTGAGATGTATTTGCTTGGTCATA
1 TACTAGGACTAAGCTGATTGACTTACTCCAAGAATACCGAGATGTATTTGCTTGGTCATA
1186113 T
1 T
1186114 CAAGACATGC
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 58 1.00
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (60 bp):
TACTAGGACTAAGCTGATTGACTTACTCCAAGAATACCGAGATGTATTTGCTTGGTCATA
Found at i:1189311 original size:9 final size:9
Alignment explanation
Indices: 1189297--1189347 Score: 66
Period size: 9 Copynumber: 5.4 Consensus size: 9
1189287 CTTTATACCC
1189297 AAAACAAAA
1 AAAACAAAA
1189306 AAAACAAAA
1 AAAACAAAA
* *
1189315 AAAATAAAT
1 AAAACAAAA
1189324 AAAACAAAAA
1 AAAAC-AAAA
1189334 AAAACCAAAA
1 AAAA-CAAAA
1189344 AAAA
1 AAAA
1189348 ATATAAAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
9 20 0.56
10 15 0.42
11 1 0.03
ACGTcount: A:0.86, C:0.10, G:0.00, T:0.04
Consensus pattern (9 bp):
AAAACAAAA
Found at i:1189329 original size:27 final size:27
Alignment explanation
Indices: 1189297--1189373 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
1189287 CTTTATACCC
1189297 AAAACAAAAAAAACAAAAAAAATAAAT
1 AAAACAAAAAAAACAAAAAAAATAAAT
*
1189324 AAAACAAAAAAAA-ACCAAAAAA-AAAT
1 AAAACAAAAAAAACA-AAAAAAATAAAT
* *
1189350 ATAA-AAAAAAACCAAGAAAAAATA
1 AAAACAAAAAAAACAA-AAAAAATA
1189374 GCAAAAAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
25 7 0.17
26 15 0.36
27 20 0.48
ACGTcount: A:0.83, C:0.09, G:0.01, T:0.06
Consensus pattern (27 bp):
AAAACAAAAAAAACAAAAAAAATAAAT
Found at i:1189343 original size:28 final size:28
Alignment explanation
Indices: 1189297--1189360 Score: 89
Period size: 28 Copynumber: 2.4 Consensus size: 28
1189287 CTTTATACCC
1189297 AAAAC-AAAAAAAACAAAAAAAATAA-AT
1 AAAACAAAAAAAAACAAAAAAAA-AATAT
*
1189324 AAAACAAAAAAAAACCAAAAAAAAATAT
1 AAAACAAAAAAAAACAAAAAAAAAATAT
1189352 AAAA-AAAAA
1 AAAACAAAAA
1189361 CCAAGAAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
27 12 0.35
28 22 0.65
ACGTcount: A:0.86, C:0.08, G:0.00, T:0.06
Consensus pattern (28 bp):
AAAACAAAAAAAAACAAAAAAAAAATAT
Found at i:1189355 original size:23 final size:24
Alignment explanation
Indices: 1189328--1189384 Score: 89
Period size: 23 Copynumber: 2.4 Consensus size: 24
1189318 ATAAATAAAA
1189328 CAAAAAAAAACCAAAAAAAAATA-
1 CAAAAAAAAACCAAAAAAAAATAG
* *
1189351 TAAAAAAAAACCAAGAAAAAATAG
1 CAAAAAAAAACCAAAAAAAAATAG
1189375 CAAAAAAAAA
1 CAAAAAAAAA
1189385 AAAGGTCCAG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
23 21 0.70
24 9 0.30
ACGTcount: A:0.81, C:0.11, G:0.04, T:0.05
Consensus pattern (24 bp):
CAAAAAAAAACCAAAAAAAAATAG
Found at i:1189369 original size:13 final size:12
Alignment explanation
Indices: 1189329--1189385 Score: 55
Period size: 12 Copynumber: 4.8 Consensus size: 12
1189319 TAAATAAAAC
1189329 AAAAAAAAACCA
1 AAAAAAAAACCA
*
1189341 AAAAAAAATA--T
1 AAAAAAAA-ACCA
1189352 AAAAAAAAACCA
1 AAAAAAAAACCA
* *
1189364 AGAAAAAATAGCA
1 A-AAAAAAAACCA
1189377 AAAAAAAAA
1 AAAAAAAAA
1189386 AAGGTCCAGA
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
10 1 0.03
11 8 0.22
12 16 0.44
13 11 0.31
ACGTcount: A:0.82, C:0.09, G:0.04, T:0.05
Consensus pattern (12 bp):
AAAAAAAAACCA
Found at i:1190195 original size:28 final size:28
Alignment explanation
Indices: 1190155--1190589 Score: 357
Period size: 28 Copynumber: 14.8 Consensus size: 28
1190145 CGTTCATCTC
1190155 TTCAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
1190183 TTCAAAGCCCACAAGTCAGTGGCATCAT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
1190211 TTCAAAGCCCACACAAGTCGGTGGCAACTCAT
1 TTCAAAG-CC-CACAAGTCAGTGGC-AC-CCT
**
1190243 TTCAAAGCCCACACAAGTTGGTGGCAACCCAT
1 TTCAAAG-CC-CACAAGTCAGTGGC-ACCC-T
**
1190275 TTCAAAGCCCACACAAGTTGGTGGCAACCCAT
1 TTCAAAG-CC-CACAAGTCAGTGGC-ACCC-T
** *
1190307 TTCAAAGCCCACACAAGTTGGTTGCAGCCCAT
1 TTCAAAG-CC-CACAAGTCAGTGGCA-CCC-T
1190339 TTCAAAGCCCACACAAGTCAGTGGCACCCT
1 TTCAAAG-CC-CACAAGTCAGTGGCACCCT
* *
1190369 TTCAAAGCCCACAAGTCAGTCGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * * * *
1190397 TTCAAAGTCCACAAGTCGGTGGTATCTT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * ***
1190425 TTCAAAGCCCACATGTTAGTGGCATATT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
1190453 TTCAAAGCCCACAAGTCAGTGGCATCTT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
1190481 TTCAAAACGCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* ** **
1190509 TTCAAAGCCCACGAGTTGGTGGCAACTTTT
1 TTCAAAGCCCACAAGTCAGTGGC-AC-CCT
* * * *
1190539 TTCAAAGCCTATAAGTTAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
1190567 TTCAAAGCCCACAAGTCAATGGC
1 TTCAAAGCCCACAAGTCAGTGGC
1190590 CCACAAGTCA
Statistics
Matches: 351, Mismatches: 48, Indels: 16
0.85 0.12 0.04
Matches are distributed among these distances:
28 182 0.52
29 7 0.02
30 41 0.12
31 6 0.02
32 115 0.33
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.23
Consensus pattern (28 bp):
TTCAAAGCCCACAAGTCAGTGGCACCCT
Found at i:1190285 original size:64 final size:62
Alignment explanation
Indices: 1190155--1190381 Score: 286
Period size: 64 Copynumber: 3.7 Consensus size: 62
1190145 CGTTCATCTC
* ** *
1190155 TTCAAAG-CC-CACAAGTCAGTGGCACCCTTTCAAAG-CC-CACAAGTCAGTGGC-A-TCAT
1 TTCAAAGCCCACACAAGTCAGTGGCACCATTTCAAAGCCCACACAAGTTGGTGGCAACCCAT
*
1190211 TTCAAAGCCCACACAAGTCGGTGGCAACTCATTTCAAAGCCCACACAAGTTGGTGGCAACCCAT
1 TTCAAAGCCCACACAAGTCAGTGGC-AC-CATTTCAAAGCCCACACAAGTTGGTGGCAACCCAT
** * *
1190275 TTCAAAGCCCACACAAGTTGGTGGCAACCCATTTCAAAGCCCACACAAGTTGGTTGCAGCCCAT
1 TTCAAAGCCCACACAAGTCAGTGGC-A-CCATTTCAAAGCCCACACAAGTTGGTGGCAACCCAT
*
1190339 TTCAAAGCCCACACAAGTCAGTGGCACCCTTTCAAAGCCCACA
1 TTCAAAGCCCACACAAGTCAGTGGCACCATTTCAAAGCCCACA
1190382 AGTCAGTCGC
Statistics
Matches: 151, Mismatches: 11, Indels: 12
0.87 0.06 0.07
Matches are distributed among these distances:
56 7 0.05
57 2 0.01
58 13 0.09
59 2 0.01
60 9 0.06
61 2 0.01
62 28 0.19
63 2 0.01
64 85 0.56
65 1 0.01
ACGTcount: A:0.31, C:0.33, G:0.18, T:0.19
Consensus pattern (62 bp):
TTCAAAGCCCACACAAGTCAGTGGCACCATTTCAAAGCCCACACAAGTTGGTGGCAACCCAT
Found at i:1190593 original size:15 final size:15
Alignment explanation
Indices: 1190573--1190604 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
1190563 TCCTTTCAAA
1190573 GCCCACAAGTCAATG
1 GCCCACAAGTCAATG
*
1190588 GCCCACAAGTCAGTG
1 GCCCACAAGTCAATG
1190603 GC
1 GC
1190605 ACACTTTCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.28, C:0.34, G:0.25, T:0.12
Consensus pattern (15 bp):
GCCCACAAGTCAATG
Found at i:1190607 original size:28 final size:27
Alignment explanation
Indices: 1190588--1190858 Score: 272
Period size: 28 Copynumber: 9.6 Consensus size: 27
1190578 CAAGTCAATG
1190588 GCCCACAAGTCAGTGGCACACTTTCAAA
1 GCCCACAAGTCAGTGGCACA-TTTCAAA
* *
1190616 GCCCACAAGTTAGTGGCACCCTTTCAAA
1 GCCCACAAGTCAGTGGCA-CATTTCAAA
*
1190644 GCCCACAAGTCAGTGGCACTCTTTTCAAA
1 GCCCACAAGTCAGTGGCA--CATTTCAAA
* *
1190673 GCCCACAAGTTAGTGGCATCCTTTCAAA
1 GCCCACAAGTCAGTGGCA-CATTTCAAA
* *
1190701 GCCCACAAGTCAGTGGCACCCTTTTAAA
1 GCCCACAAGTCAGTGGCA-CATTTCAAA
* *
1190729 GCCCACAAGTCAATGGCACTCTTTTCAAA
1 GCCCACAAGTCAGTGGCA--CATTTCAAA
* * *
1190758 GCCCACAAGTTAGTGGCACCCTTTTAAA
1 GCCCACAAGTCAGTGGCA-CATTTCAAA
* *
1190786 GCCCACAAGTTAGTGGCACCCTTTCAAA
1 GCCCACAAGTCAGTGGCA-CATTTCAAA
* * *
1190814 GTCCACAAGTTAGTGGCACTCTTTTCAAA
1 GCCCACAAGTCAGTGGCA--CATTTCAAA
*
1190843 GCCCACAAGCCAGTGG
1 GCCCACAAGTCAGTGG
1190859 TAACTCTTTT
Statistics
Matches: 213, Mismatches: 26, Indels: 7
0.87 0.11 0.03
Matches are distributed among these distances:
28 143 0.67
29 70 0.33
ACGTcount: A:0.29, C:0.31, G:0.18, T:0.23
Consensus pattern (27 bp):
GCCCACAAGTCAGTGGCACATTTCAAA
Found at i:1190684 original size:57 final size:57
Alignment explanation
Indices: 1190588--1190879 Score: 410
Period size: 57 Copynumber: 5.1 Consensus size: 57
1190578 CAAGTCAATG
*
1190588 GCCCACAAGTCAGTGGCACAC-TTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAA
1 GCCCACAAGTCAGTGGCACCCTTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAA
* *
1190644 GCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAA
1 GCCCACAAGTCAGTGGCACCCTTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAA
* * *
1190701 GCCCACAAGTCAGTGGCACCCTTTT-AAAGCCCACAAGTCAATGGCACTCTTTTCAAA
1 GCCCACAAGTCAGTGGCACCCTTTTCAAAGCCCACAAGTTAGTGGCAC-CCTTTCAAA
*
1190758 GCCCACAAGTTAGTGGCACCCTTTT-AAAGCCCACAAGTTAGTGGCACCCTTTCAAA
1 GCCCACAAGTCAGTGGCACCCTTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAA
* * * ** * *
1190814 GTCCACAAGTTAGTGGCACTCTTTTCAAAGCCCACAAGCCAGTGGTAACTCTTTTCAAA
1 GCCCACAAGTCAGTGGCACCCTTTTCAAAGCCCACAAGTTAGTGG-CAC-CCTTTCAAA
1190873 GCCCACA
1 GCCCACA
1190880 CGAATCGATG
Statistics
Matches: 213, Mismatches: 18, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
56 70 0.33
57 127 0.60
58 2 0.01
59 14 0.07
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.23
Consensus pattern (57 bp):
GCCCACAAGTCAGTGGCACCCTTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAA
Found at i:1190731 original size:85 final size:85
Alignment explanation
Indices: 1190588--1190879 Score: 442
Period size: 85 Copynumber: 3.4 Consensus size: 85
1190578 CAAGTCAATG
1190588 GCCCACAAGTCAGTGGCA-CACTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAA
1 GCCCACAAGTCAGTGGCATC-CTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAA
1190652 GTCAGTGGCACTCTTTTCAAA
65 GTCAGTGGCACTCTTTTCAAA
* * *
1190673 GCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCACAAG
1 GCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAG
*
1190738 TCAATGGCACTCTTTTCAAA
66 TCAGTGGCACTCTTTTCAAA
* * * *
1190758 GCCCACAAGTTAGTGGCACCCTTTTAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGTCCACAAG
1 GCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAG
*
1190823 TTAGTGGCACTCTTTTCAAA
66 TCAGTGGCACTCTTTTCAAA
* * *
1190843 GCCCACAAGCCAGTGGTAACTCTTTTCAAAGCCCACA
1 GCCCACAAGTCAGTGG-CA-TCCTTTCAAAGCCCACA
1190880 CGAATCGATG
Statistics
Matches: 187, Mismatches: 17, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
85 171 0.91
86 2 0.01
87 14 0.07
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.23
Consensus pattern (85 bp):
GCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAG
TCAGTGGCACTCTTTTCAAA
Found at i:1191057 original size:45 final size:47
Alignment explanation
Indices: 1190992--1191101 Score: 125
Period size: 49 Copynumber: 2.3 Consensus size: 47
1190982 ACTGTCTGAC
* * *
1190992 ATCGCTAGCATTGAATCAGCATATTGG-CACCTTT-ATTAGCCCAAT
1 ATCGCTGGCCTTGAATCAGCACATTGGCCACCTTTCATTAGCCCAAT
* * * *
1191037 GTCGCTGGTCTTGAATCAGCACATTGGTCCACTTTTCCTTTAGCCCAAT
1 ATCGCTGGCCTTGAATCAGCACATTGG-CCACCTTT-CATTAGCCCAAT
1191086 ATCGCTGGCCTTGAAT
1 ATCGCTGGCCTTGAAT
1191102 TGACACATTG
Statistics
Matches: 52, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
45 22 0.42
47 6 0.12
49 24 0.46
ACGTcount: A:0.23, C:0.26, G:0.18, T:0.33
Consensus pattern (47 bp):
ATCGCTGGCCTTGAATCAGCACATTGGCCACCTTTCATTAGCCCAAT
Found at i:1191781 original size:20 final size:20
Alignment explanation
Indices: 1191758--1191832 Score: 114
Period size: 20 Copynumber: 3.8 Consensus size: 20
1191748 AAGTACCCAG
1191758 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * *
1191778 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
*
1191798 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTTTTCA
1191818 ATGTATCGATACATT
1 ATGTATCGATACATT
1191833 CTATCTTTTT
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:1194137 original size:27 final size:27
Alignment explanation
Indices: 1194099--1194173 Score: 141
Period size: 27 Copynumber: 2.8 Consensus size: 27
1194089 TATCATTGTC
1194099 GGGGATACTCCAACCCCATTTCTCCGA
1 GGGGATACTCCAACCCCATTTCTCCGA
1194126 GGGGATACTCCAACCCCATTTCTCCGA
1 GGGGATACTCCAACCCCATTTCTCCGA
*
1194153 GGGGATACTCTAACCCCATTT
1 GGGGATACTCCAACCCCATTT
1194174 TTCTATAAAA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.23, C:0.35, G:0.19, T:0.24
Consensus pattern (27 bp):
GGGGATACTCCAACCCCATTTCTCCGA
Found at i:1201161 original size:52 final size:52
Alignment explanation
Indices: 1201081--1201199 Score: 179
Period size: 52 Copynumber: 2.3 Consensus size: 52
1201071 AAAGTTGCTT
*
1201081 GCATGTATCGATACATTTAATAGTGTATCGATACATCTAGGCAAATTTGCCCA
1 GCATGTATCGATACATTTAATAATGTATCGATACATCTAGGCAAATTTG-CCA
* *
1201134 G-ATGTATCGATACATTATAA-AATGTATCGATACATCTGGGCAAATTTGCCT
1 GCATGTATCGATACATT-TAATAATGTATCGATACATCTAGGCAAATTTGCCA
1201185 GCATGTATCGATACA
1 GCATGTATCGATACA
1201200 AAGATCAATG
Statistics
Matches: 61, Mismatches: 3, Indels: 5
0.88 0.04 0.07
Matches are distributed among these distances:
51 3 0.05
52 54 0.89
53 4 0.07
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.32
Consensus pattern (52 bp):
GCATGTATCGATACATTTAATAATGTATCGATACATCTAGGCAAATTTGCCA
Found at i:1201210 original size:52 final size:52
Alignment explanation
Indices: 1201104--1201219 Score: 155
Period size: 52 Copynumber: 2.2 Consensus size: 52
1201094 CATTTAATAG
**
1201104 TGTATCGATACATCTAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATCTAGGCAAATTTGCCCAGATGTATCGATACAAGATAAAA
* * *
1201156 TGTATCGATACATCTGGGCAAATTTG-CCTGCATGTATCGATACAAAGAT-CAA
1 TGTATCGATACATCTAGGCAAATTTGCCCAG-ATGTATCGATAC-AAGATAAAA
1201208 TGTATCGATACA
1 TGTATCGATACA
1201220 ATGTATCGAT
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
51 3 0.05
52 51 0.89
53 3 0.05
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATCTAGGCAAATTTGCCCAGATGTATCGATACAAGATAAAA
Found at i:1201223 original size:13 final size:13
Alignment explanation
Indices: 1201205--1201232 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1201195 ATACAAAGAT
1201205 CAATGTATCGATA
1 CAATGTATCGATA
1201218 CAATGTATCGATA
1 CAATGTATCGATA
1201231 CA
1 CA
1201233 TTTGAGTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:1201299 original size:20 final size:20
Alignment explanation
Indices: 1201274--1201328 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
1201264 GTAGCTTAAA
1201274 ATGTATCGATACAAAAAAAT
1 ATGTATCGATACAAAAAAAT
* ***
1201294 ATGTATCGATACAACATTTT
1 ATGTATCGATACAAAAAAAT
1201314 ATGTATCGATACAAA
1 ATGTATCGATACAAA
1201329 TTGTTGAAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.45, C:0.13, G:0.11, T:0.31
Consensus pattern (20 bp):
ATGTATCGATACAAAAAAAT
Found at i:1205429 original size:21 final size:21
Alignment explanation
Indices: 1205361--1205439 Score: 90
Period size: 20 Copynumber: 3.9 Consensus size: 21
1205351 AAACACAAAA
* * *
1205361 AAATATATCGATACA-TTGAA
1 AAATGTATCGATACATTTCAC
*
1205381 AAATGTATTGATACA-TTCAC
1 AAATGTATCGATACATTTCAC
* *
1205401 ACATGTATCGATACATTTCTC
1 AAATGTATCGATACATTTCAC
1205422 AAATGTATCGATACATTT
1 AAATGTATCGATACATTT
1205440 AGACAAAAAT
Statistics
Matches: 50, Mismatches: 8, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
20 29 0.58
21 21 0.42
ACGTcount: A:0.39, C:0.15, G:0.10, T:0.35
Consensus pattern (21 bp):
AAATGTATCGATACATTTCAC
Found at i:1206343 original size:13 final size:13
Alignment explanation
Indices: 1206325--1206349 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1206315 TGCCAAAAAA
1206325 TGTATCGATACAT
1 TGTATCGATACAT
1206338 TGTATCGATACA
1 TGTATCGATACA
1206350 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1221023 original size:79 final size:78
Alignment explanation
Indices: 1220920--1221124 Score: 223
Period size: 79 Copynumber: 2.6 Consensus size: 78
1220910 GATAATAACG
* * * * * *
1220920 GGGTTGGAGTGTCCCCTTGAAAATAACGGGGTTGGAGTATCCCCGGTTGTGAGAAATCGATGA-T
1 GGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAAT-ATT
*
1220984 TAGAAAAAAAAATC
65 TAGAAAAAAAAACC
* *
1220998 GGGATTGGAGTATCCCCTCGGAAATAACGAGGTTGGAGTATCCCCAATTATGAGAAATCAATATT
1 GGG-TTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATT
* ** * *
1221063 TTGGGAATAAAGCC
65 TAGAAAAAAAAACC
* **
1221077 GAGGTTGGAGTATCCCCTCAGAGGTAACGGGGTTGGAGTATCCCCGAT
1 G-GGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGAT
1221125 GAAATAACGA
Statistics
Matches: 105, Mismatches: 19, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
78 4 0.04
79 99 0.94
80 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.24
Consensus pattern (78 bp):
GGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTT
AGAAAAAAAAACC
Found at i:1221119 original size:28 final size:28
Alignment explanation
Indices: 1221076--1221147 Score: 92
Period size: 28 Copynumber: 2.6 Consensus size: 28
1221066 GGAATAAAGC
**
1221076 CGAGGTTGGAGTATCCCCTCA-GAGGTAA
1 CGAGGTTGGAGTATCCCC-CATGAAATAA
* *
1221104 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGAGGTTGGAGTATCCCCCATGAAATAA
1221132 CGAGGTTGGAGTATCC
1 CGAGGTTGGAGTATCC
1221148 TCAATTGTGA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
27 1 0.03
28 37 0.97
ACGTcount: A:0.25, C:0.19, G:0.33, T:0.22
Consensus pattern (28 bp):
CGAGGTTGGAGTATCCCCCATGAAATAA
Found at i:1221294 original size:51 final size:51
Alignment explanation
Indices: 1221135--1221302 Score: 201
Period size: 52 Copynumber: 3.3 Consensus size: 51
1221125 GAAATAACGA
* *
1221135 GGTTGGAGTATCCTCAATTGTGAAAAATTGGTGTTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCTCGATTGTGGAAAATTGGTG-TTTTGGAAATAAAATCGG
* * ** * * *
1221187 AGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGAAAATTAAGTCGG
1 GGTTGGAGTATCCTCGATT-GTGGAAAATTGGTGTTTTGGAAATAAAATCGG
* * * *
1221239 GGTTGGAGTATCCTCGATTGTGGAAAATCGATGATTTGGAAATAAAACCGG
1 GGTTGGAGTATCCTCGATTGTGGAAAATTGGTGTTTTGGAAATAAAATCGG
1221290 GGTTGGAGTATCC
1 GGTTGGAGTATCC
1221303 CCTCGGAGAT
Statistics
Matches: 95, Mismatches: 20, Indels: 3
0.81 0.17 0.03
Matches are distributed among these distances:
51 36 0.38
52 48 0.51
53 11 0.12
ACGTcount: A:0.30, C:0.10, G:0.29, T:0.31
Consensus pattern (51 bp):
GGTTGGAGTATCCTCGATTGTGGAAAATTGGTGTTTTGGAAATAAAATCGG
Found at i:1221336 original size:79 final size:80
Alignment explanation
Indices: 1221236--1221415 Score: 231
Period size: 80 Copynumber: 2.3 Consensus size: 80
1221226 AAAATTAAGT
* * * *
1221236 CGGGGTTGGAGTATCCTCGATTGTG-GAAAATCGATGA-TTTGGAAATAAAACC-GGGGTTGGAG
1 CGGGGTTGGAGTATCCCCGATTATGAG-AAATCAAT-ATTTTAGAAATAAAACCGGGGGTTGGAG
* *
1221298 TATCCCCTCGGAGATAA
64 TATCCCCTCGAAAATAA
* * * *
1221315 TGGGGTTGGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAGCCGGGGGTTGGAGTT
1 CGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAGAAATAAAACCGGGGGTTGGAGTA
1221380 TCCCCTCGAAAATAA
66 TCCCCTCGAAAATAA
1221395 CGGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
1221416 GATTAACGGG
Statistics
Matches: 87, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
78 1 0.01
79 41 0.47
80 45 0.52
ACGTcount: A:0.28, C:0.16, G:0.30, T:0.27
Consensus pattern (80 bp):
CGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAGAAATAAAACCGGGGGTTGGAGTA
TCCCCTCGAAAATAA
Found at i:1221411 original size:28 final size:28
Alignment explanation
Indices: 1221368--1221437 Score: 90
Period size: 27 Copynumber: 2.5 Consensus size: 28
1221358 AATAAAGCCG
*
1221368 GGGGTTGGAGTTTCCCCTCGA-AAATAAC
1 GGGGTTGGAGTATCCCC-CGATAAATAAC
* *
1221396 GGGGTTGGAGTAT-CCCCGATGATTAAC
1 GGGGTTGGAGTATCCCCCGATAAATAAC
1221423 GGGGTTGGAGTATCC
1 GGGGTTGGAGTATCC
1221438 TCGATGAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
26 3 0.08
27 21 0.57
28 13 0.35
ACGTcount: A:0.21, C:0.19, G:0.34, T:0.26
Consensus pattern (28 bp):
GGGGTTGGAGTATCCCCCGATAAATAAC
Found at i:1221430 original size:27 final size:27
Alignment explanation
Indices: 1221392--1221444 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
1221382 CCCTCGAAAA
1221392 TAACGGGGTTGGAGTATCCCCGATGAT
1 TAACGGGGTTGGAGTATCCCCGATGAT
*
1221419 TAACGGGGTTGGAGTATCCTCGATGA
1 TAACGGGGTTGGAGTATCCCCGATGA
1221445 AAAATTGATG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.23, C:0.17, G:0.34, T:0.26
Consensus pattern (27 bp):
TAACGGGGTTGGAGTATCCCCGATGAT
Found at i:1221481 original size:48 final size:51
Alignment explanation
Indices: 1221426--1221542 Score: 138
Period size: 51 Copynumber: 2.4 Consensus size: 51
1221416 GATTAACGGG
*
1221426 GTTGGAGTATCCTCGA-T-GA-AAAATT-GATGTTTT-AGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTAGAGAAAATTAG-TGTTTTGA-AAATAAAATCGGA
* *
1221474 GTTGGAGTATCCCCGATTATAGAAAATTAGTGTTTTGAAAATGAAATCGGA
1 GTTGGAGTATCCCCGATTAGAGAAAATTAGTGTTTTGAAAATAAAATCGGA
1221525 GTTGG-GATATCCCCGATT
1 GTTGGAG-TATCCCCGATT
1221543 GCGGAGAATT
Statistics
Matches: 60, Mismatches: 3, Indels: 9
0.83 0.04 0.12
Matches are distributed among these distances:
48 15 0.25
49 1 0.02
50 2 0.03
51 40 0.67
52 2 0.03
ACGTcount: A:0.33, C:0.11, G:0.24, T:0.32
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTAGAGAAAATTAGTGTTTTGAAAATAAAATCGGA
Found at i:1221509 original size:51 final size:51
Alignment explanation
Indices: 1221445--1221542 Score: 139
Period size: 51 Copynumber: 1.9 Consensus size: 51
1221435 TCCTCGATGA
1221445 AAAATTGATGTTTT-AGAAATAAAATCGGAGTT-GGAGTATCCCCGATTATAG
1 AAAATTGATGTTTTGA-AAATAAAATCGGAGTTGGGA-TATCCCCGATTATAG
*
1221496 AAAATT-AGTGTTTTGAAAATGAAATCGGAGTTGGGATATCCCCGATT
1 AAAATTGA-TGTTTTGAAAATAAAATCGGAGTTGGGATATCCCCGATT
1221543 GCGGAGAATT
Statistics
Matches: 43, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
50 1 0.02
51 38 0.88
52 4 0.09
ACGTcount: A:0.36, C:0.10, G:0.22, T:0.32
Consensus pattern (51 bp):
AAAATTGATGTTTTGAAAATAAAATCGGAGTTGGGATATCCCCGATTATAG
Found at i:1223360 original size:10 final size:10
Alignment explanation
Indices: 1223347--1223376 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
1223337 CAATGGAATA
1223347 GTGTTTTTTT
1 GTGTTTTTTT
1223357 GTGTTTTTTT
1 GTGTTTTTTT
1223367 G-GTTTTTTT
1 GTGTTTTTTT
1223376 G
1 G
1223377 CTAAAGGATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.00, C:0.00, G:0.23, T:0.77
Consensus pattern (10 bp):
GTGTTTTTTT
Found at i:1223554 original size:10 final size:10
Alignment explanation
Indices: 1223541--1223570 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
1223531 CAATGGAATA
1223541 GTGTTTTTTT
1 GTGTTTTTTT
1223551 GTGTTTTTTT
1 GTGTTTTTTT
1223561 G-GTTTTTTT
1 GTGTTTTTTT
1223570 G
1 G
1223571 CTAAAGGATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.00, C:0.00, G:0.23, T:0.77
Consensus pattern (10 bp):
GTGTTTTTTT
Found at i:1223584 original size:194 final size:194
Alignment explanation
Indices: 1223255--1223635 Score: 762
Period size: 194 Copynumber: 2.0 Consensus size: 194
1223245 GAGCTGTTTT
1223255 TGGGTGAAAGTGTGAGGAATATGGAGTTTTTGAAGGGTTTTTGGTGGTGGCTTTTGGAGCTACGG
1 TGGGTGAAAGTGTGAGGAATATGGAGTTTTTGAAGGGTTTTTGGTGGTGGCTTTTGGAGCTACGG
1223320 GAATGGAGTTTGGAAACCAATGGAATAGTGTTTTTTTGTGTTTTTTTGGTTTTTTTGCTAAAGGA
66 GAATGGAGTTTGGAAACCAATGGAATAGTGTTTTTTTGTGTTTTTTTGGTTTTTTTGCTAAAGGA
1223385 TTTCTTAAGGGTTTCTTGCTGCTAGAAAATGGTTTTTTTTTCAGAAAAGGATCCTTTCAGAAAA
131 TTTCTTAAGGGTTTCTTGCTGCTAGAAAATGGTTTTTTTTTCAGAAAAGGATCCTTTCAGAAAA
1223449 TGGGTGAAAGTGTGAGGAATATGGAGTTTTTGAAGGGTTTTTGGTGGTGGCTTTTGGAGCTACGG
1 TGGGTGAAAGTGTGAGGAATATGGAGTTTTTGAAGGGTTTTTGGTGGTGGCTTTTGGAGCTACGG
1223514 GAATGGAGTTTGGAAACCAATGGAATAGTGTTTTTTTGTGTTTTTTTGGTTTTTTTGCTAAAGGA
66 GAATGGAGTTTGGAAACCAATGGAATAGTGTTTTTTTGTGTTTTTTTGGTTTTTTTGCTAAAGGA
1223579 TTTCTTAAGGGTTTCTTGCTGCTAGAAAATGGTTTTTTTTTCAGAAAAGGATCCTTT
131 TTTCTTAAGGGTTTCTTGCTGCTAGAAAATGGTTTTTTTTTCAGAAAAGGATCCTTT
1223636 TTTGCTGAGC
Statistics
Matches: 187, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
194 187 1.00
ACGTcount: A:0.22, C:0.07, G:0.29, T:0.41
Consensus pattern (194 bp):
TGGGTGAAAGTGTGAGGAATATGGAGTTTTTGAAGGGTTTTTGGTGGTGGCTTTTGGAGCTACGG
GAATGGAGTTTGGAAACCAATGGAATAGTGTTTTTTTGTGTTTTTTTGGTTTTTTTGCTAAAGGA
TTTCTTAAGGGTTTCTTGCTGCTAGAAAATGGTTTTTTTTTCAGAAAAGGATCCTTTCAGAAAA
Found at i:1224118 original size:13 final size:13
Alignment explanation
Indices: 1224100--1224125 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1224090 CAAAGAAAAG
1224100 ATGTATCGATACA
1 ATGTATCGATACA
1224113 ATGTATCGATACA
1 ATGTATCGATACA
1224126 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1224142 original size:33 final size:34
Alignment explanation
Indices: 1224079--1224145 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
1224069 AACTTCCTAG
1224079 ATGTATCGATACAAAGAAAAGATGTATCGATACA
1 ATGTATCGATACAAAGAAAAGATGTATCGATACA
*
1224113 ATGTATCGATACACAGAAAA-ATGTATCGATACA
1 ATGTATCGATACAAAGAAAAGATGTATCGATACA
1224146 TTTCCTTGGC
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
33 13 0.41
34 19 0.59
ACGTcount: A:0.46, C:0.13, G:0.16, T:0.24
Consensus pattern (34 bp):
ATGTATCGATACAAAGAAAAGATGTATCGATACA
Found at i:1225776 original size:59 final size:56
Alignment explanation
Indices: 1225367--1225957 Score: 630
Period size: 55 Copynumber: 10.3 Consensus size: 56
1225357 AATAAAGTGT
* * *
1225367 ATCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTT--GAAAGGC
1 ATCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAGAAAGGC
*
1225422 ATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAG-ACGTG-
1 ATCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTAAGAAAG-GC
* ** *
1225478 -TCCTACTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT--GAAAGGT
1 ATCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAGAAAGGC
* * * *
1225532 GTCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AG-GAGGT
1 ATCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTAAGAAAGGC
* * * *
1225587 GTCCTGCTCTTTGAGGACTGGAA-ATGCCACCAACTTGTGTGGG-TTT-TGAAAGGG
1 ATCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAGAAAGGC
* * *
1225641 GTCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGC
1 ATCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTT---AAG-AAAGGC
* *
1225702 ATCCCGCTCTTTGAGGACTGAAGGTGCCACCAACTTGGGTGGGCTTTAAAAGAAAAGGC
1 ATCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTT--AAG-AAAGGC
* * *
1225761 ATCCCGCTCGTTGAGGACTGAAGGTGCCACTAACTTGTGTGGGCTTTAAAAGAAAAGGC
1 ATCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTT--AAG-AAAGGC
* *
1225820 ATCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGTCTTTAAAAGAAAATGC
1 ATCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTT--AAG-AAAGGC
* *
1225879 ATCCCGTTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
1 ATCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTT--AA-G-AAAGGC
1225939 ATCCTGCTCTTTGAGGACT
1 ATCCTGCTCTTTGAGGACT
1225958 AAAAAGCGAA
Statistics
Matches: 473, Mismatches: 42, Indels: 37
0.86 0.08 0.07
Matches are distributed among these distances:
53 7 0.01
54 45 0.10
55 170 0.36
56 8 0.02
57 2 0.00
59 169 0.36
60 51 0.11
61 21 0.04
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (56 bp):
ATCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAGAAAGGC
Found at i:1226966 original size:21 final size:21
Alignment explanation
Indices: 1226927--1226989 Score: 65
Period size: 21 Copynumber: 2.9 Consensus size: 21
1226917 AAGCAGGTTC
1226927 TTTTTCTTTTCTCTCTTTTT-CTT
1 TTTTTCTTTT-T-T-TTTTTGCTT
*
1226950 TGTTTTGTTTTTTTTTTTGCTT
1 T-TTTTCTTTTTTTTTTTGCTT
*
1226972 TTTTTCTTTTTTCTTTTG
1 TTTTTCTTTTTTTTTTTG
1226990 AAGAGAAGGT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
21 20 0.57
22 5 0.14
23 2 0.06
24 8 0.23
ACGTcount: A:0.00, C:0.13, G:0.06, T:0.81
Consensus pattern (21 bp):
TTTTTCTTTTTTTTTTTGCTT
Found at i:1226973 original size:8 final size:7
Alignment explanation
Indices: 1226927--1226988 Score: 56
Period size: 7 Copynumber: 8.4 Consensus size: 7
1226917 AAGCAGGTTC
1226927 TTTTTCT
1 TTTTTCT
*
1226934 TTTCTCT
1 TTTTTCT
1226941 CTTTTTCT
1 -TTTTTCT
1226949 TTGTTT-T
1 TT-TTTCT
1226956 GTTTTT-T
1 -TTTTTCT
1226963 TTTTTGCTT
1 TTTTT-C-T
1226972 TTTTTCT
1 TTTTTCT
1226979 TTTTTCT
1 TTTTTCT
1226986 TTT
1 TTT
1226989 GAAGAGAAGG
Statistics
Matches: 47, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
6 5 0.11
7 24 0.51
8 12 0.26
9 6 0.13
ACGTcount: A:0.00, C:0.13, G:0.05, T:0.82
Consensus pattern (7 bp):
TTTTTCT
Found at i:1226975 original size:15 final size:15
Alignment explanation
Indices: 1226927--1226988 Score: 65
Period size: 15 Copynumber: 4.1 Consensus size: 15
1226917 AAGCAGGTTC
* *
1226927 TTTTTCTTTTCTCTC
1 TTTTTCTTTTTTCTT
1226942 TTTTTCTTTGTTT-TGT
1 TTTTTCTTT-TTTCT-T
*
1226958 TTTTT-TTTTTGCTT
1 TTTTTCTTTTTTCTT
1226972 TTTTTCTTTTTTCTT
1 TTTTTCTTTTTTCTT
1226987 TT
1 TT
1226989 GAAGAGAAGG
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
14 8 0.21
15 24 0.62
16 7 0.18
ACGTcount: A:0.00, C:0.13, G:0.05, T:0.82
Consensus pattern (15 bp):
TTTTTCTTTTTTCTT
Found at i:1239547 original size:28 final size:28
Alignment explanation
Indices: 1239504--1239575 Score: 92
Period size: 28 Copynumber: 2.6 Consensus size: 28
1239494 GGAATAAAGC
**
1239504 CGAGGTTGGAGTATCCCCTCA-GAGGTAA
1 CGAGGTTGGAGTATCCCC-CATGAAATAA
* *
1239532 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGAGGTTGGAGTATCCCCCATGAAATAA
1239560 CGAGGTTGGAGTATCC
1 CGAGGTTGGAGTATCC
1239576 TCAATTGTGA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
27 1 0.03
28 37 0.97
ACGTcount: A:0.25, C:0.19, G:0.33, T:0.22
Consensus pattern (28 bp):
CGAGGTTGGAGTATCCCCCATGAAATAA
Found at i:1239718 original size:51 final size:50
Alignment explanation
Indices: 1239563--1239730 Score: 183
Period size: 52 Copynumber: 3.3 Consensus size: 50
1239553 GAAATAACGA
* * * *
1239563 GGTTGGAGTATCCTCAATTGTGAAAAATTGGTGTTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCTCGATTGTGGAAAA-TGATG-TTTTGGAAATAAAACCGG
* * ** * * *
1239615 AGTTGGAGTATCCCCGATTAAAGGAAAATTAGTGTTTTGAAAATAAAGCCGG
1 GGTTGGAGTATCCTCGATT-GTGGAAAATGA-TGTTTTGGAAATAAAACCGG
*
1239667 GGTTGGAGTATCCTCGATTGTGGAAAATCGATGATTTGGAAATAAAACCGG
1 GGTTGGAGTATCCTCGATTGTGGAAAAT-GATGTTTTGGAAATAAAACCGG
1239718 GGTTGGAGTATCC
1 GGTTGGAGTATCC
1239731 CCTCGGAGAT
Statistics
Matches: 94, Mismatches: 19, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
51 37 0.39
52 50 0.53
53 7 0.07
ACGTcount: A:0.32, C:0.11, G:0.28, T:0.30
Consensus pattern (50 bp):
GGTTGGAGTATCCTCGATTGTGGAAAATGATGTTTTGGAAATAAAACCGG
Found at i:1239764 original size:79 final size:80
Alignment explanation
Indices: 1239664--1239843 Score: 231
Period size: 80 Copynumber: 2.3 Consensus size: 80
1239654 AAAATAAAGC
* * * *
1239664 CGGGGTTGGAGTATCCTCGATTGTG-GAAAATCGATGA-TTTGGAAATAAAACC-GGGGTTGGAG
1 CGGGGTTGGAGTATCCCCGATTATGAG-AAATCAAT-ATTTTAGAAATAAAACCGGGGGTTGGAG
* *
1239726 TATCCCCTCGGAGATAA
64 TATCCCCTCGAAAATAA
* * * *
1239743 TGGGGTTGGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAGCCGGGGGTTGGAGTT
1 CGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAGAAATAAAACCGGGGGTTGGAGTA
1239808 TCCCCTCGAAAATAA
66 TCCCCTCGAAAATAA
1239823 CGGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
1239844 GATTAATGGG
Statistics
Matches: 87, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
78 1 0.01
79 41 0.47
80 45 0.52
ACGTcount: A:0.28, C:0.16, G:0.30, T:0.27
Consensus pattern (80 bp):
CGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAGAAATAAAACCGGGGGTTGGAGTA
TCCCCTCGAAAATAA
Found at i:1239839 original size:28 final size:28
Alignment explanation
Indices: 1239796--1239867 Score: 85
Period size: 27 Copynumber: 2.6 Consensus size: 28
1239786 AATAAAGCCG
*
1239796 GGGGTTGGAGTTTCCCCTCGA-AAATAAC
1 GGGGTTGGAGTATCCCC-CGATAAATAAC
* * *
1239824 GGGGTTGGAGTAT-CCCCGATGATTAAT
1 GGGGTTGGAGTATCCCCCGATAAATAAC
1239851 GGGGTTGGAGTATCCCC
1 GGGGTTGGAGTATCCCC
1239868 GATGAAAAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
26 3 0.08
27 20 0.53
28 15 0.39
ACGTcount: A:0.21, C:0.19, G:0.33, T:0.26
Consensus pattern (28 bp):
GGGGTTGGAGTATCCCCCGATAAATAAC
Found at i:1239956 original size:51 final size:48
Alignment explanation
Indices: 1239854--1239970 Score: 132
Period size: 51 Copynumber: 2.4 Consensus size: 48
1239844 GATTAATGGG
* *
1239854 GTTGGAGTATCCCCGATGAAAAATTGATGTTTTAGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTAAAAATTGATGTTTTAGAAATAAAATCAGA
*
1239902 GTTGGAGTATCCCCGATTATAGAAAGTT-AGTGTTTT-GAAAATGAAATCAGA
1 GTTGGAGTATCCCCGATTA-A-AAA-TTGA-TGTTTTAG-AAATAAAATCAGA
1239953 GTTGG-GATATCCCCGATT
1 GTTGGAG-TATCCCCGATT
1239971 GCGGAGAATT
Statistics
Matches: 60, Mismatches: 3, Indels: 9
0.83 0.04 0.12
Matches are distributed among these distances:
48 18 0.30
49 1 0.02
50 6 0.10
51 35 0.58
ACGTcount: A:0.33, C:0.12, G:0.24, T:0.31
Consensus pattern (48 bp):
GTTGGAGTATCCCCGATTAAAAATTGATGTTTTAGAAATAAAATCAGA
Found at i:1242865 original size:59 final size:56
Alignment explanation
Indices: 1242395--1243039 Score: 686
Period size: 55 Copynumber: 11.3 Consensus size: 56
1242385 ATAAAGTGTA
* * *
1242395 TCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTT--GAAAGGCG
1 TCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAGAAAGGCG
*
1242450 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAG--AGGTG
1 TCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTAAGAAAGGCG
** *
1242505 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT--GAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAGAAAGGCG
* * * *
1242560 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAATTTGTGTGGGCTTT-AG-GAGGTG
1 TCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTAAGAAAGGCG
** * *
1242615 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTTTGTGGGCTTT--GAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAGAAAGGCG
** *
1242670 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT--GAAAGGGG
1 TCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAGAAAGGCG
* * * *
1242725 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTATGTGGGCTTTGAAAAGAAAAAGCA
1 TCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTT---AAG-AAAGGCG
* * * *
1242786 TCTTGCTCTTTGAGGGCTGAAGGTGCCACCAATTTGGGTGGGCTTTAAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTT--AAG-AAAGGCG
* *
1242845 TCCCGCTCTTTGAGGACTGAAGGTGCCACTAACTTGTGTGGGCTTTAAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTT--AAG-AAAGGCG
* *
1242904 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTATATGGGCTTTAAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTT--AAG-AAAGGCG
* * *
1242963 TCCCGCTCTATGAGGACTGAAGGTGCCACCAACTTGTGTGGG-TTTAAAAGGAAAAGGCA
1 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTT--AA-G-AAAGGCG
1243022 TCCTGCTCTTTGAGGACT
1 TCCTGCTCTTTGAGGACT
1243040 AAAAAGCGGA
Statistics
Matches: 521, Mismatches: 51, Indels: 32
0.86 0.08 0.05
Matches are distributed among these distances:
53 1 0.00
54 3 0.01
55 280 0.54
56 3 0.01
57 1 0.00
58 7 0.01
59 181 0.35
60 25 0.05
61 20 0.04
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (56 bp):
TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAGAAAGGCG
Found at i:1244028 original size:1 final size:1
Alignment explanation
Indices: 1244024--1244086 Score: 54
Period size: 1 Copynumber: 63.0 Consensus size: 1
1244014 CTTTTCTCTC
* * * * * ** *
1244024 TTTTTCTTTGTTTTGTTTTTTTTTGTTTTGTTTTTTTTTTTTGCTTTTTTTTCTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1244087 GAAGAGAAGG
Statistics
Matches: 47, Mismatches: 15, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 47 1.00
ACGTcount: A:0.00, C:0.05, G:0.08, T:0.87
Consensus pattern (1 bp):
T
Found at i:1244042 original size:15 final size:14
Alignment explanation
Indices: 1244024--1244086 Score: 76
Period size: 14 Copynumber: 4.4 Consensus size: 14
1244014 CTTTTCTCTC
1244024 TTTTTCTTTGTTTTG
1 TTTTT-TTTGTTTTG
1244039 TTTTTTTTTGTTTTG
1 -TTTTTTTTGTTTTG
1244054 TTTTTTTT-TTTTG
1 TTTTTTTTGTTTTG
*
1244067 CTTTTTTTTCTTTT-
1 -TTTTTTTTGTTTTG
1244081 TTTTTT
1 TTTTTT
1244087 GAAGAGAAGG
Statistics
Matches: 45, Mismatches: 0, Indels: 7
0.87 0.00 0.13
Matches are distributed among these distances:
13 11 0.24
14 16 0.36
15 13 0.29
16 5 0.11
ACGTcount: A:0.00, C:0.05, G:0.08, T:0.87
Consensus pattern (14 bp):
TTTTTTTTGTTTTG
Found at i:1244060 original size:18 final size:18
Alignment explanation
Indices: 1244024--1244084 Score: 72
Period size: 19 Copynumber: 3.3 Consensus size: 18
1244014 CTTTTCTCTC
1244024 TTTTT-CTTTGTTTTGTTTT
1 TTTTTGCTTT-TTTT-TTTT
1244043 TTTTTG-TTTTGTTTTTTT
1 TTTTTGCTTTT-TTTTTTT
1244061 TTTTTGCTTTTTTTTCTTT
1 TTTTTGCTTTTTTTT-TTT
1244080 TTTTT
1 TTTTT
1244085 TTGAAGAGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
18 15 0.39
19 23 0.61
ACGTcount: A:0.00, C:0.05, G:0.08, T:0.87
Consensus pattern (18 bp):
TTTTTGCTTTTTTTTTTT
Found at i:1244085 original size:10 final size:10
Alignment explanation
Indices: 1244006--1244085 Score: 67
Period size: 10 Copynumber: 8.2 Consensus size: 10
1243996 CTTAAGCAGG
1244006 TTCTTTTTCTT
1 TTCTTTTT-TT
* *
1244017 TTCTCTCTTT
1 TTCTTTTTTT
*
1244027 TTC-TTTGTT
1 TTCTTTTTTT
*
1244036 TTGTTTTTTT
1 TTCTTTTTTT
* *
1244046 TTGTTTTGTT
1 TTCTTTTTTT
1244056 TT-TTTTTTT
1 TTCTTTTTTT
*
1244065 TGC-TTTTTT
1 TTCTTTTTTT
1244074 TTCTTTTTTT
1 TTCTTTTTTT
1244084 TT
1 TT
1244086 TGAAGAGAAG
Statistics
Matches: 55, Mismatches: 11, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
9 20 0.36
10 29 0.53
11 6 0.11
ACGTcount: A:0.00, C:0.10, G:0.06, T:0.84
Consensus pattern (10 bp):
TTCTTTTTTT
Found at i:1253188 original size:52 final size:50
Alignment explanation
Indices: 1253125--1253294 Score: 187
Period size: 52 Copynumber: 3.3 Consensus size: 50
1253115 GAAATAACGA
* * *
1253125 GGTTGGAGTATCCTCAATTGTGAAAAATTGGTGTTTTTGGAAATAAAATCG
1 GGTTGGAGTATCCCCGATTGTGGAAAATTGGTG-TTTTGGAAATAAAATCG
** * **
1253176 GAGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAGCCAG
1 G-GTTGGAGTATCCCCGATT-GTGGAAAATTGGTGTTTTGGAAATAAAATC-G
* * * *
1253229 GGTTAGAGTATCCCCGATTGTGGAAAATCGATGATTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTGTGGAAAATTGGTGTTTTGGAAATAAAATC-G
1253280 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
1253295 TCGGAGATAA
Statistics
Matches: 97, Mismatches: 19, Indels: 6
0.80 0.16 0.05
Matches are distributed among these distances:
51 38 0.39
52 46 0.47
53 13 0.13
ACGTcount: A:0.32, C:0.12, G:0.27, T:0.29
Consensus pattern (50 bp):
GGTTGGAGTATCCCCGATTGTGGAAAATTGGTGTTTTGGAAATAAAATCG
Found at i:1253283 original size:51 final size:52
Alignment explanation
Indices: 1253160--1253294 Score: 164
Period size: 51 Copynumber: 2.6 Consensus size: 52
1253150 AATTGGTGTT
* * * *
1253160 TTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGT
1 TTTGGAAATAAAATCGGGGTTGGAGTATCCCCGATTAAAGGAAAATCGATGA
* ** * * **
1253212 TTTGAAAATAAAGCCAGGGTTAGAGTATCCCCGATT-GTGGAAAATCGATGA
1 TTTGGAAATAAAATCGGGGTTGGAGTATCCCCGATTAAAGGAAAATCGATGA
1253263 TTTGGAAATAAAATCGGGGTTGGAGTATCCCC
1 TTTGGAAATAAAATCGGGGTTGGAGTATCCCC
1253295 TCGGAGATAA
Statistics
Matches: 67, Mismatches: 16, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
51 37 0.55
52 30 0.45
ACGTcount: A:0.33, C:0.13, G:0.27, T:0.27
Consensus pattern (52 bp):
TTTGGAAATAAAATCGGGGTTGGAGTATCCCCGATTAAAGGAAAATCGATGA
Found at i:1253323 original size:79 final size:80
Alignment explanation
Indices: 1253228--1253405 Score: 227
Period size: 80 Copynumber: 2.2 Consensus size: 80
1253218 AATAAAGCCA
* * * * *
1253228 GGGTTAGAGTATCCCCGATTGTG-GAAAATCGATGA-TTTGGAAATAAAATC-GGGGTTGGAGTA
1 GGGTTGGAGTATCCCCGATTATGAG-AAATCAAT-ATTTTAGAAATAAAACCGGGGGTTGGAGTA
** *
1253290 TCCCCTCGGAGATAACG
64 TCCCCTCAAAAATAACG
* *
1253307 GGGTTGGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAGCCGGGGGTTGGAGTATC
1 GGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAGAAATAAAACCGGGGGTTGGAGTATC
1253372 CCCTCAAAAATAACG
66 CCCTCAAAAATAACG
1253387 GGGTTGGAGTATCCCCGAT
1 GGGTTGGAGTATCCCCGAT
1253406 GATTAACGGG
Statistics
Matches: 86, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
78 1 0.01
79 39 0.45
80 46 0.53
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.26
Consensus pattern (80 bp):
GGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAGAAATAAAACCGGGGGTTGGAGTATC
CCCTCAAAAATAACG
Found at i:1253420 original size:27 final size:27
Alignment explanation
Indices: 1253358--1253435 Score: 111
Period size: 27 Copynumber: 2.9 Consensus size: 27
1253348 AATAAAGCCG
* **
1253358 GGGGTTGGAGTATCCCCTCAAAAATAAC
1 GGGGTTGGAGTATCCCC-GATGAATAAC
*
1253386 GGGGTTGGAGTATCCCCGATGATTAAC
1 GGGGTTGGAGTATCCCCGATGAATAAC
1253413 GGGGTTGGAGTATCCCCGATGAA
1 GGGGTTGGAGTATCCCCGATGAA
1253436 AAATTGATGT
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
27 28 0.62
28 17 0.38
ACGTcount: A:0.26, C:0.19, G:0.32, T:0.23
Consensus pattern (27 bp):
GGGGTTGGAGTATCCCCGATGAATAAC
Found at i:1253511 original size:51 final size:49
Alignment explanation
Indices: 1253416--1253533 Score: 145
Period size: 51 Copynumber: 2.4 Consensus size: 49
1253406 GATTAACGGG
1253416 GTTGGAGTATCCCCGA-TGAAAAATTGATGTTTTAGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGAAAAATTGATGTTTTAGAAATAAAATCGGA
* *
1253464 GTTGGAGTATCCCCGATTATAGAAAATT-AGTGTTTT-GAAAATGAAATCGGA
1 GTTGGAGTATCCCCGATT-GA-AAAATTGA-TGTTTTAG-AAATAAAATCGGA
1253515 GTTGG-GATATCCCCGATTG
1 GTTGGAG-TATCCCCGATTG
1253534 CGGAGAATTG
Statistics
Matches: 61, Mismatches: 3, Indels: 10
0.82 0.04 0.14
Matches are distributed among these distances:
48 16 0.26
49 1 0.02
50 4 0.07
51 40 0.66
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.31
Consensus pattern (49 bp):
GTTGGAGTATCCCCGATTGAAAAATTGATGTTTTAGAAATAAAATCGGA
Found at i:1255349 original size:10 final size:10
Alignment explanation
Indices: 1255336--1255365 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
1255326 CAATGGAATA
1255336 GTGTTTTTTT
1 GTGTTTTTTT
1255346 GTGTTTTTTT
1 GTGTTTTTTT
1255356 G-GTTTTTTT
1 GTGTTTTTTT
1255365 G
1 G
1255366 CTAAAGGATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.00, C:0.00, G:0.23, T:0.77
Consensus pattern (10 bp):
GTGTTTTTTT
Found at i:1255913 original size:13 final size:13
Alignment explanation
Indices: 1255897--1255922 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1255887 CAAAGAAAAG
1255897 ATGTATCGATACA
1 ATGTATCGATACA
1255910 ATGTATCGATACA
1 ATGTATCGATACA
1255923 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1255939 original size:33 final size:34
Alignment explanation
Indices: 1255876--1255942 Score: 109
Period size: 34 Copynumber: 2.0 Consensus size: 34
1255866 AACTTCCTAG
*
1255876 ATGTATCGATGCAAAGAAAAGATGTATCGATACA
1 ATGTATCGATACAAAGAAAAGATGTATCGATACA
*
1255910 ATGTATCGATACACAGAAAA-ATGTATCGATACA
1 ATGTATCGATACAAAGAAAAGATGTATCGATACA
1255943 TTTTCTTGGC
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 13 0.42
34 18 0.58
ACGTcount: A:0.45, C:0.13, G:0.18, T:0.24
Consensus pattern (34 bp):
ATGTATCGATACAAAGAAAAGATGTATCGATACA
Done.