Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032248.1 Gossypioides kirkii chromosome KI_06
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: 60359545
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 900 characters in sequence are not A, C, G, or T
File 143 of 193
Found at i:44571990 original size:49 final size:49
Alignment explanation
Indices: 44571937--44572303 Score: 232
Period size: 49 Copynumber: 7.5 Consensus size: 49
44571927 CAAGGTTTGT
44571937 CGTTGCGACTTAAACCTTTCCCTTTGTATCTTCATGGTACTGGATTCAC
1 CGTTGCGACTTAAACCTTTCCCTTTGTATCTTCATGGTACTGGATTCAC
* * ** * * ** *
44571986 CGTTGTGACTTAAATCTTTCCCTTCAT-TTTTGA-GGTACAAGATTCGC
1 CGTTGCGACTTAAACCTTTCCCTTTGTATCTTCATGGTACTGGATTCAC
*
44572033 CGTTGCGACTTAAACCTTTCCCTTTGTATCTTCGTGGTACTGGATTCAC
1 CGTTGCGACTTAAACCTTTCCCTTTGTATCTTCATGGTACTGGATTCAC
* * * *
44572082 CGTTGCGACTTAAATCTTTCCCTTCATG-AT-TCTGA-GGTAC-GAGGTTCAT
1 CGTTGCGACTTAAACCTTTCCCTT--TGTATCT-TCATGGTACTG-GATTCAC
* * * * *
44572131 CGTTGCAACTTAAACCTTTTCTTCC-AT-TATCTTCGTGGTACTAGATTTAC
1 CGTTGCGACTTAAACC-TTTC--CCTTTGTATCTTCATGGTACTGGATTCAC
* * * * * * * *
44572181 CATTGCGGCTTAAATCTTTCCCTTCATGTCTTTTGA-GGTAC-GAGGTTCGC
1 CGTTGCGACTTAAACCTTTCCCTT--TGTATCTTCATGGTACTG-GATTCAC
* * *** * * * *
44572231 CGTTACGACTTAAACATTTCCCTCCATCTCTTCGTGGTATTGGATTCGC
1 CGTTGCGACTTAAACCTTTCCCTTTGTATCTTCATGGTACTGGATTCAC
* *
44572280 CGTTGCGGCTTAAATCTTTCCCTT
1 CGTTGCGACTTAAACCTTTCCCTT
44572304 CATGCTTCAT
Statistics
Matches: 234, Mismatches: 64, Indels: 40
0.69 0.19 0.12
Matches are distributed among these distances:
47 36 0.15
48 13 0.06
49 119 0.51
50 58 0.25
51 6 0.03
52 2 0.01
ACGTcount: A:0.19, C:0.25, G:0.17, T:0.39
Consensus pattern (49 bp):
CGTTGCGACTTAAACCTTTCCCTTTGTATCTTCATGGTACTGGATTCAC
Found at i:44572194 original size:99 final size:98
Alignment explanation
Indices: 44571894--44572310 Score: 509
Period size: 99 Copynumber: 4.3 Consensus size: 98
44571884 TCGTCATTGT
* * * *
44571894 GGCTTAAATCTTTCCCTTCATGCTTTCGAGATACAAGGTTTGTCGTTGCGACTTAAACCTTTCCC
1 GGCTTAAATCTTTCCCTTCATGCTTTTGAGGTACAAGGTTCGCCGTTGCGACTTAAACCTTTCCC
* * *
44571959 TTTGTATCTTCATGGTACTGGATTCACCGTTGT
66 TATGTATCTTCGTGGTACTGGATTCACCGTTGC
* *
44571992 GACTTAAATCTTTCCCTTCAT--TTTTGAGGTACAAGATTCGCCGTTGCGACTTAAACCTTTCCC
1 GGCTTAAATCTTTCCCTTCATGCTTTTGAGGTACAAGGTTCGCCGTTGCGACTTAAACCTTTCCC
*
44572055 TTTGTATCTTCGTGGTACTGGATTCACCGTTGC
66 TATGTATCTTCGTGGTACTGGATTCACCGTTGC
* * * * ** *
44572088 GACTTAAATCTTTCCCTTCATGATTCTGAGGTACGAGGTTCATCGTTGCAACTTAAACCTTTTCT
1 GGCTTAAATCTTTCCCTTCATGCTTTTGAGGTACAAGGTTCGCCGTTGCGACTTAAACC-TTTC-
* * *
44572153 TCC-AT-TATCTTCGTGGTACTAGATTTACCATTGC
64 -CCTATGTATCTTCGTGGTACTGGATTCACCGTTGC
* * *
44572187 GGCTTAAATCTTTCCCTTCATGTCTTTTGAGGTACGAGGTTCGCCGTTACGACTTAAACATTTCC
1 GGCTTAAATCTTTCCCTTCATG-CTTTTGAGGTACAAGGTTCGCCGTTGCGACTTAAACCTTTCC
*** * * *
44572252 CTCCATCTCTTCGTGGTATTGGATTCGCCGTTGC
65 CTATGTATCTTCGTGGTACTGGATTCACCGTTGC
44572286 GGCTTAAATCTTTCCCTTCATGCTT
1 GGCTTAAATCTTTCCCTTCATGCTT
44572311 CATGGTAATG
Statistics
Matches: 277, Mismatches: 34, Indels: 16
0.85 0.10 0.05
Matches are distributed among these distances:
96 89 0.32
97 2 0.01
98 53 0.19
99 100 0.36
100 31 0.11
101 2 0.01
ACGTcount: A:0.19, C:0.25, G:0.18, T:0.39
Consensus pattern (98 bp):
GGCTTAAATCTTTCCCTTCATGCTTTTGAGGTACAAGGTTCGCCGTTGCGACTTAAACCTTTCCC
TATGTATCTTCGTGGTACTGGATTCACCGTTGC
Found at i:44585146 original size:49 final size:49
Alignment explanation
Indices: 44585093--44585459 Score: 232
Period size: 49 Copynumber: 7.5 Consensus size: 49
44585083 CAAGGTTTGT
44585093 CGTTGCGACTTAAACCTTTCCCTTTGTATCTTCATGGTACTGGATTCAC
1 CGTTGCGACTTAAACCTTTCCCTTTGTATCTTCATGGTACTGGATTCAC
* * ** * * ** *
44585142 CGTTGTGACTTAAATCTTTCCCTTCAT-TTTTGA-GGTACAAGATTCGC
1 CGTTGCGACTTAAACCTTTCCCTTTGTATCTTCATGGTACTGGATTCAC
*
44585189 CGTTGCGACTTAAACCTTTCCCTTTGTATCTTCGTGGTACTGGATTCAC
1 CGTTGCGACTTAAACCTTTCCCTTTGTATCTTCATGGTACTGGATTCAC
* * * *
44585238 CGTTGCGACTTAAATCTTTCCC-TT-CATGCTTC-TGAGGTAC-GAGGTTCAT
1 CGTTGCGACTTAAACCTTTCCCTTTGTAT-CTTCAT--GGTACTG-GATTCAC
* * * * * *
44585287 CGTTGCAACTTAAACCTTTTCTTCC-AT-TATCTTCGTGGTGCTAGATTTAC
1 CGTTGCGACTTAAACC-TTTC--CCTTTGTATCTTCATGGTACTGGATTCAC
* * * * * * * *
44585337 CATTGCGGCTTAAATCTTTCCCTTCATGTCTTTTGA-GGTAC-GAGGTTCGC
1 CGTTGCGACTTAAACCTTTCCCTT--TGTATCTTCATGGTACTG-GATTCAC
* * *** * * *
44585387 CGTTACGACTTAAACATTTCCCTCCATCTCTTCGTGGTATTGGATTCAC
1 CGTTGCGACTTAAACCTTTCCCTTTGTATCTTCATGGTACTGGATTCAC
* *
44585436 CGTTGCGGCTTAAATCTTTCCCTT
1 CGTTGCGACTTAAACCTTTCCCTT
44585460 CATGCTTCAT
Statistics
Matches: 235, Mismatches: 65, Indels: 36
0.70 0.19 0.11
Matches are distributed among these distances:
47 39 0.17
48 19 0.08
49 111 0.47
50 52 0.22
51 8 0.03
52 6 0.03
ACGTcount: A:0.18, C:0.25, G:0.17, T:0.39
Consensus pattern (49 bp):
CGTTGCGACTTAAACCTTTCCCTTTGTATCTTCATGGTACTGGATTCAC
Found at i:44585227 original size:96 final size:97
Alignment explanation
Indices: 44585050--44585462 Score: 499
Period size: 99 Copynumber: 4.2 Consensus size: 97
44585040 TCGTCATTGT
* * * *
44585050 GGCTTAAATCTTTCCCTTCATGCTTTCGAGATACAAGGTTTGTCGTTGCGACTTAAACCTTTCCC
1 GGCTTAAATCTTTCCCTTCAT-CTTTTGAGGTACAAGGTTCGCCGTTGCGACTTAAACCTTTCCC
* *
44585115 TTTGTATCTTCATGGTACTGGATTCACCGTTGT
65 TTTGTATCTTCGTGGTACTGGATTCACCGTTGC
* *
44585148 GACTTAAATCTTTCCCTTCAT-TTTTGAGGTACAAGATTCGCCGTTGCGACTTAAACCTTTCCCT
1 GGCTTAAATCTTTCCCTTCATCTTTTGAGGTACAAGGTTCGCCGTTGCGACTTAAACCTTTCCCT
44585212 TTGTATCTTCGTGGTACTGGATTCACCGTTGC
66 TTGTATCTTCGTGGTACTGGATTCACCGTTGC
* * * ** *
44585244 GACTTAAATCTTTCCCTTCATGCTTCTGAGGTACGAGGTTCATCGTTGCAACTTAAACCTTTTCT
1 GGCTTAAATCTTTCCCTTCAT-CTTTTGAGGTACAAGGTTCGCCGTTGCGACTTAAACC-TTTC-
* * * * *
44585309 TCC-AT-TATCTTCGTGGTGCTAGATTTACCATTGC
63 -CCTTTGTATCTTCGTGGTACTGGATTCACCGTTGC
* * *
44585343 GGCTTAAATCTTTCCCTTCATGTCTTTTGAGGTACGAGGTTCGCCGTTACGACTTAAACATTTCC
1 GGCTTAAATCTTTCCCTTCA--TCTTTTGAGGTACAAGGTTCGCCGTTGCGACTTAAACCTTTCC
*** * *
44585408 CTCCATCTCTTCGTGGTATTGGATTCACCGTTGC
64 CTTTGTATCTTCGTGGTACTGGATTCACCGTTGC
44585442 GGCTTAAATCTTTCCCTTCAT
1 GGCTTAAATCTTTCCCTTCAT
44585463 GCTTCATGGT
Statistics
Matches: 272, Mismatches: 34, Indels: 19
0.84 0.10 0.06
Matches are distributed among these distances:
96 89 0.33
97 3 0.01
98 50 0.18
99 95 0.35
100 32 0.12
101 3 0.01
ACGTcount: A:0.19, C:0.25, G:0.17, T:0.39
Consensus pattern (97 bp):
GGCTTAAATCTTTCCCTTCATCTTTTGAGGTACAAGGTTCGCCGTTGCGACTTAAACCTTTCCCT
TTGTATCTTCGTGGTACTGGATTCACCGTTGC
Found at i:44601944 original size:67 final size:66
Alignment explanation
Indices: 44601840--44602012 Score: 253
Period size: 67 Copynumber: 2.6 Consensus size: 66
44601830 TTTGTTATTT
*
44601840 ATTTATTTATATATATTCAT-AA-AAT-AATAAATAAATAATAAAACAAAATTAATATTATTTTA
1 ATTTATTTATTTATATTCATAAATAATAAATAAATAAATAATAAAACAAAATTAATATTATTTTA
44601902 C
66 C
* *
44601903 ATTTATTTATTTATATTCATACAATAATAAATAAACAAATAATAAAACAAAATTAATTTTATTTT
1 ATTTATTTATTTATATTCATA-AATAATAAATAAATAAATAATAAAACAAAATTAATATTATTTT
*
44601968 AT
65 AC
*
44601970 ATTTATTTATTTATATTCATAAAAATAATAAATGAATAAATAA
1 ATTTATTTATTTATATTCAT--AAATAATAAATAAATAAATAA
44602013 AAATAATAAG
Statistics
Matches: 98, Mismatches: 6, Indels: 7
0.88 0.05 0.06
Matches are distributed among these distances:
63 19 0.19
65 2 0.02
66 3 0.03
67 55 0.56
68 18 0.18
69 1 0.01
ACGTcount: A:0.53, C:0.05, G:0.01, T:0.42
Consensus pattern (66 bp):
ATTTATTTATTTATATTCATAAATAATAAATAAATAAATAATAAAACAAAATTAATATTATTTTA
C
Found at i:44615141 original size:16 final size:17
Alignment explanation
Indices: 44615116--44615148 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
44615106 TATTTAATCT
*
44615116 TTTTATAATTTATAAAA
1 TTTTATAATTAATAAAA
44615133 TTTTA-AATTAATAAAA
1 TTTTATAATTAATAAAA
44615149 GGTAAAATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
TTTTATAATTAATAAAA
Found at i:44619311 original size:23 final size:22
Alignment explanation
Indices: 44619281--44619386 Score: 106
Period size: 23 Copynumber: 4.7 Consensus size: 22
44619271 GAAACAATAA
*
44619281 GCACACACAATGCAATCCAGTAG
1 GCACACACAGTGCAAT-CAGTAG
44619304 GCACACACAGTGCAATCAGTAG
1 GCACACACAGTGCAATCAGTAG
** *
44619326 GTGCACATAGTGCAAATCAGTAG
1 GCACACACAGTGC-AATCAGTAG
* *
44619349 GCACACA-AGGTGCGAAACAGTAA
1 GCACACACA-GTGC-AATCAGTAG
*
44619372 GCACACAAAGTGCAA
1 GCACACACAGTGCAA
44619387 AACAATAAGC
Statistics
Matches: 71, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
22 19 0.27
23 51 0.72
24 1 0.01
ACGTcount: A:0.40, C:0.25, G:0.23, T:0.13
Consensus pattern (22 bp):
GCACACACAGTGCAATCAGTAG
Found at i:44619389 original size:23 final size:23
Alignment explanation
Indices: 44619272--44619396 Score: 92
Period size: 23 Copynumber: 5.5 Consensus size: 23
44619262 AGTGCTGGGG
*
44619272 AAACAATAAGCACACACAA-TGCA
1 AAACAGTAAGCACACA-AAGTGCA
** * *
44619295 ATCCAGTAGGCACACACAGTGC-
1 AAACAGTAAGCACACAAAGTGCA
* * ** *
44619317 AATCAGTAGGTGCACATAGTGCA
1 AAACAGTAAGCACACAAAGTGCA
* * * *
44619340 AATCAGTAGGCACACAAGGTGCG
1 AAACAGTAAGCACACAAAGTGCA
44619363 AAACAGTAAGCACACAAAGTGCA
1 AAACAGTAAGCACACAAAGTGCA
*
44619386 AAACAATAAGC
1 AAACAGTAAGC
44619397 GCGCTAGCGT
Statistics
Matches: 80, Mismatches: 20, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
22 18 0.22
23 62 0.77
ACGTcount: A:0.44, C:0.23, G:0.20, T:0.13
Consensus pattern (23 bp):
AAACAGTAAGCACACAAAGTGCA
Found at i:44626594 original size:23 final size:22
Alignment explanation
Indices: 44626568--44626676 Score: 94
Period size: 23 Copynumber: 4.8 Consensus size: 22
44626558 CAGTAAACAT
44626568 ACACAGTGCAATCCAGTAGGCAC
1 ACACAGTGCAAT-CAGTAGGCAC
*
44626591 ACACAGTGCAATCAGTAGGCGC
1 ACACAGTGCAATCAGTAGGCAC
* **
44626613 ACATAACGCAAATCAGTAGGCAC
1 ACACAGTGC-AATCAGTAGGCAC
* *
44626636 ACA-AGGTGCGAAACAGTAAGCAC
1 ACACA-GTGC-AATCAGTAGGCAC
* *
44626659 ACAAAGTGCGAAACAGTA
1 ACACAGTGC-AATCAGTA
44626677 AGCGCGCTAG
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
22 16 0.22
23 56 0.77
24 1 0.01
ACGTcount: A:0.40, C:0.25, G:0.23, T:0.12
Consensus pattern (22 bp):
ACACAGTGCAATCAGTAGGCAC
Found at i:44630915 original size:12 final size:12
Alignment explanation
Indices: 44630898--44630922 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
44630888 GGTTAAACAT
44630898 ATATTTTTTAAA
1 ATATTTTTTAAA
44630910 ATATTTTTTAAA
1 ATATTTTTTAAA
44630922 A
1 A
44630923 AAAATTTAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
ATATTTTTTAAA
Found at i:44631077 original size:30 final size:30
Alignment explanation
Indices: 44630982--44631077 Score: 76
Period size: 30 Copynumber: 3.2 Consensus size: 30
44630972 TAAATTTGTT
*
44630982 GAATGTTTTATATTTAAGATCAAA-TGACA
1 GAATGTTTTATATTTAAGATCAAATTGATA
* * *
44631011 G-AT-TTTGTAAATTTTGAACG-TTAAATTTGTTA
1 GAATGTTT-TATA-TTT-AA-GATCAAA-TTGATA
44631043 -AATGTTTTATATTTAAGATCAAATTGATA
1 GAATGTTTTATATTTAAGATCAAATTGATA
44631072 GAATGT
1 GAATGT
44631078 GTAAATATTG
Statistics
Matches: 50, Mismatches: 7, Indels: 19
0.66 0.09 0.25
Matches are distributed among these distances:
27 3 0.06
28 5 0.10
29 10 0.20
30 17 0.34
31 4 0.08
32 8 0.16
33 3 0.06
ACGTcount: A:0.38, C:0.04, G:0.15, T:0.44
Consensus pattern (30 bp):
GAATGTTTTATATTTAAGATCAAATTGATA
Found at i:44632906 original size:40 final size:40
Alignment explanation
Indices: 44632832--44632927 Score: 113
Period size: 40 Copynumber: 2.4 Consensus size: 40
44632822 CTAGGCTCAA
* *
44632832 AAGCCTGATAGTATACACCGGTACGAAGCCTGCTAGACACT
1 AAGCCTGATA-AATACACCGGCACGAAGCCTGCTAGACACT
* * **
44632873 AAG-CTCGATAAATACACCGGCACTAAGCTTGCTAGGTACT
1 AAGCCT-GATAAATACACCGGCACGAAGCCTGCTAGACACT
44632913 AAGCCTGATAAATAC
1 AAGCCTGATAAATAC
44632928 TGGGGAATTT
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
40 38 0.81
41 9 0.19
ACGTcount: A:0.34, C:0.25, G:0.20, T:0.21
Consensus pattern (40 bp):
AAGCCTGATAAATACACCGGCACGAAGCCTGCTAGACACT
Found at i:44641317 original size:16 final size:17
Alignment explanation
Indices: 44641287--44641327 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
44641277 AAAAACTGTA
*
44641287 TAAAATTAT-TAATA-T
1 TAAAATAATATAATATT
44641302 TAAAATAATATAATATT
1 TAAAATAATATAATATT
44641319 TAAAA-AATA
1 TAAAATAATA
44641328 AAAAATAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 8 0.35
16 9 0.39
17 6 0.26
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
TAAAATAATATAATATT
Found at i:44650738 original size:41 final size:40
Alignment explanation
Indices: 44650656--44650732 Score: 111
Period size: 41 Copynumber: 1.9 Consensus size: 40
44650646 AATTTCATTT
* * *
44650656 AAGTTGCTAGGTTATTAAAATTATTGTTGTATGTCCTTCCC
1 AAGTTACTAGGTTATTAAAATTATTGTTG-AGGCCCTTCCC
44650697 AAGTTACTAGGTTATTAAAATTATTGTTG-GGCCCTT
1 AAGTTACTAGGTTATTAAAATTATTGTTGAGGCCCTT
44650733 TTCCCATTGC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
39 5 0.15
41 28 0.85
ACGTcount: A:0.26, C:0.13, G:0.18, T:0.43
Consensus pattern (40 bp):
AAGTTACTAGGTTATTAAAATTATTGTTGAGGCCCTTCCC
Found at i:44654911 original size:18 final size:20
Alignment explanation
Indices: 44654885--44654933 Score: 61
Period size: 16 Copynumber: 2.6 Consensus size: 20
44654875 TTAAACAAAA
*
44654885 TTTAATAAAAAATTATAA-T
1 TTTATTAAAAAATTATAATT
44654904 TTT-TT--AAAATTATAATT
1 TTTATTAAAAAATTATAATT
44654921 TTTATTAAAAAAT
1 TTTATTAAAAAAT
44654934 AACAGCATTG
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
16 10 0.40
17 4 0.16
18 3 0.12
19 3 0.12
20 5 0.20
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
TTTATTAAAAAATTATAATT
Found at i:44654924 original size:15 final size:16
Alignment explanation
Indices: 44654893--44654923 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
44654883 AATTTAATAA
44654893 AAAATTATAATTTTTT
1 AAAATTATAATTTTTT
44654909 AAAATTATAATTTTT
1 AAAATTATAATTTTT
44654924 ATTAAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
AAAATTATAATTTTTT
Found at i:44655067 original size:14 final size:13
Alignment explanation
Indices: 44655048--44655089 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
44655038 TAATTTTAGA
44655048 TTTTTTATAACTTT
1 TTTTTTATAA-TTT
*
44655062 TTTTTTATAAATT
1 TTTTTTATAATTT
*
44655075 TTGTTTATAATTT
1 TTTTTTATAATTT
44655088 TT
1 TT
44655090 AAATTTTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
13 15 0.60
14 10 0.40
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.71
Consensus pattern (13 bp):
TTTTTTATAATTT
Found at i:44657988 original size:24 final size:24
Alignment explanation
Indices: 44657956--44658003 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
44657946 GCCGCCGAAG
44657956 AAGCCCAAGGCAATTATATCAATT
1 AAGCCCAAGGCAATTATATCAATT
44657980 AAGCCCAAGGCAATTATATCAATT
1 AAGCCCAAGGCAATTATATCAATT
44658004 GGGCCAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.42, C:0.21, G:0.12, T:0.25
Consensus pattern (24 bp):
AAGCCCAAGGCAATTATATCAATT
Found at i:44665103 original size:18 final size:18
Alignment explanation
Indices: 44665080--44665114 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
44665070 GAAAATAGAA
44665080 ACACAAAAGACATAATAG
1 ACACAAAAGACATAATAG
*
44665098 ACACAAAAGACTTAATA
1 ACACAAAAGACATAATA
44665115 TCAACAACTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.60, C:0.17, G:0.09, T:0.14
Consensus pattern (18 bp):
ACACAAAAGACATAATAG
Found at i:44671159 original size:31 final size:31
Alignment explanation
Indices: 44671121--44671184 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
44671111 TTATTAAATG
44671121 AATGTTCAACTTTTCATCTCCCTTGACCTTT
1 AATGTTCAACTTTTCATCTCCCTTGACCTTT
44671152 AATGTTCAACTTTTCATCTCCCTTGACCTTT
1 AATGTTCAACTTTTCATCTCCCTTGACCTTT
44671183 AA
1 AA
44671185 CCTTCTATCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.22, C:0.28, G:0.06, T:0.44
Consensus pattern (31 bp):
AATGTTCAACTTTTCATCTCCCTTGACCTTT
Found at i:44678817 original size:1 final size:1
Alignment explanation
Indices: 44678811--44678838 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
44678801 TAGTTTCAAA
44678811 CCCCCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCC
44678839 GAAAAAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:44680836 original size:27 final size:27
Alignment explanation
Indices: 44680751--44680825 Score: 114
Period size: 27 Copynumber: 2.8 Consensus size: 27
44680741 TTTTGTACTA
* * *
44680751 TTAATATTCTTATCCATAACTAGACCG
1 TTAAAATTCTTATCCACATCTAGACCG
44680778 TTAAAATTCTTATCCACATCTAGACCG
1 TTAAAATTCTTATCCACATCTAGACCG
*
44680805 TTAAAATTCTTATCCAGATCT
1 TTAAAATTCTTATCCACATCT
44680826 CAATTGTTAA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.33, C:0.23, G:0.07, T:0.37
Consensus pattern (27 bp):
TTAAAATTCTTATCCACATCTAGACCG
Found at i:44684325 original size:42 final size:42
Alignment explanation
Indices: 44684266--44684361 Score: 142
Period size: 42 Copynumber: 2.3 Consensus size: 42
44684256 ATTAACTATG
* *
44684266 AATAATAA-TTATAAAATTAATAATTGTTCACACTATT-TTAC
1 AATAATAATTTATAAAATTAATAAATCTTCACACT-TTCTTAC
*
44684307 AATAATAATTTATAAAATTAATAAATCTTCACTCTTTCTTAC
1 AATAATAATTTATAAAATTAATAAATCTTCACACTTTCTTAC
44684349 AATAATAATTTAT
1 AATAATAATTTAT
44684362 TATAATATAT
Statistics
Matches: 50, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
41 10 0.20
42 40 0.80
ACGTcount: A:0.46, C:0.10, G:0.01, T:0.43
Consensus pattern (42 bp):
AATAATAATTTATAAAATTAATAAATCTTCACACTTTCTTAC
Found at i:44684553 original size:9 final size:9
Alignment explanation
Indices: 44684539--44684565 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
44684529 TAGATCCGTG
44684539 ATTAAATTA
1 ATTAAATTA
44684548 ATTAAATTA
1 ATTAAATTA
44684557 ATTAAATTA
1 ATTAAATTA
44684566 CCAATTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (9 bp):
ATTAAATTA
Found at i:44690693 original size:59 final size:59
Alignment explanation
Indices: 44690437--44690692 Score: 374
Period size: 59 Copynumber: 4.4 Consensus size: 59
44690427 TTTGGATACC
* *
44690437 CGGGGGCAAAATGGTAA-TTTTGGTAAAATCGGGGTTAAAAATAAAATTTTGGAAAGTT
1 CGGGGGTAAAATGGTAATTTTTGGTAAAATCGGGGTTAAAAATGAAATTTTGGAAAGTT
* * ** * *
44690495 CAGGGATAAAATGGTAATTTTTGGTGGAATCAGGGTTAAAAATGGAATTTTGG-AAGTT
1 CGGGGGTAAAATGGTAATTTTTGGTAAAATCGGGGTTAAAAATGAAATTTTGGAAAGTT
* * *
44690553 CGGGGGT-AAACGGTAATTTTTGGTAAAATCGGGGTTAAAAATGGAATTTTAGAAAGTT
1 CGGGGGTAAAATGGTAATTTTTGGTAAAATCGGGGTTAAAAATGAAATTTTGGAAAGTT
* *
44690611 CGGGGGTAAAATGGTAATTTTTGATGAAATCGGGGTTAAAAATGAAATTTTGGAAAGTT
1 CGGGGGTAAAATGGTAATTTTTGGTAAAATCGGGGTTAAAAATGAAATTTTGGAAAGTT
44690670 CGGGGGTAAAATGGTAATTTTTG
1 CGGGGGTAAAATGGTAATTTTTG
44690693 AAAGTTCGGG
Statistics
Matches: 175, Mismatches: 20, Indels: 5
0.88 0.10 0.03
Matches are distributed among these distances:
57 40 0.23
58 36 0.21
59 99 0.57
ACGTcount: A:0.35, C:0.04, G:0.29, T:0.32
Consensus pattern (59 bp):
CGGGGGTAAAATGGTAATTTTTGGTAAAATCGGGGTTAAAAATGAAATTTTGGAAAGTT
Found at i:44690710 original size:116 final size:116
Alignment explanation
Indices: 44690437--44690719 Score: 383
Period size: 116 Copynumber: 2.4 Consensus size: 116
44690427 TTTGGATACC
* * ** *
44690437 CGGGGGCAAAATGGTAATTTTGGTAAAATCGGGGTTAAAAATAAAATTTTGGAAAGTTCAGGGAT
1 CGGGGGTAAAATGGTAATTTTTGTAAAATCGGGGTTAAAAATGGAATTTTAGAAAGTTCAGGGAT
* * *
44690502 AAAATGGTAATTTTTGGTGGAATCAGGGTTAAAAATGGAATTTTGGAAGTT
66 AAAATGGTAATTTTTGATGAAATCAGGGTTAAAAATGAAATTTTGGAAGTT
* * *
44690553 CGGGGGT-AAACGGTAATTTTTGGTAAAATCGGGGTTAAAAATGGAATTTTAGAAAGTTCGGGGG
1 CGGGGGTAAAATGGTAATTTTT-GTAAAATCGGGGTTAAAAATGGAATTTTAGAAAGTTCAGGGA
*
44690617 TAAAATGGTAATTTTTGATGAAATCGGGGTTAAAAATGAAATTTTGGAAAGTT
65 TAAAATGGTAATTTTTGATGAAATCAGGGTTAAAAATGAAATTTTGG-AAGTT
* *
44690670 CGGGGGTAAAATGGTAATTTTTG-AAAGTTCGGGGGT-AAAATGGTAATTTT
1 CGGGGGTAAAATGGTAATTTTTGTAAA-ATCGGGGTTAAAAATGG-AATTTT
44690720 TGGACTGTTT
Statistics
Matches: 147, Mismatches: 15, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
115 12 0.08
116 96 0.65
117 26 0.18
118 13 0.09
ACGTcount: A:0.35, C:0.04, G:0.29, T:0.32
Consensus pattern (116 bp):
CGGGGGTAAAATGGTAATTTTTGTAAAATCGGGGTTAAAAATGGAATTTTAGAAAGTTCAGGGAT
AAAATGGTAATTTTTGATGAAATCAGGGTTAAAAATGAAATTTTGGAAGTT
Found at i:44690733 original size:29 final size:29
Alignment explanation
Indices: 44690437--44690721 Score: 201
Period size: 29 Copynumber: 9.8 Consensus size: 29
44690427 TTTGGATACC
* * *
44690437 CGGGGGCAAAATGGTAATTTTGGTAAA-AT
1 CGGGGGTAAAATGGTAATTTTTG-AAAGTT
* ** *
44690466 CGGGGTTAAAAAT-AAAATTTTGGAAAGTT
1 CGGGGGT-AAAATGGTAATTTTTGAAAGTT
* * *** *
44690495 CAGGGATAAAATGGTAATTTTTGGTGGAAT
1 CGGGGGTAAAATGGTAATTTTTGAAAG-TT
* * *
44690525 CAGGGTTAAAAATGG-AA-TTTTGGAAGTT
1 CGGGGGT-AAAATGGTAATTTTTGAAAGTT
* *
44690553 CGGGGGT-AAACGGTAATTTTTGGTAAA-AT
1 CGGGGGTAAAATGGTAATTTTT-G-AAAGTT
* *
44690582 CGGGGTTAAAAATGG-AATTTTAGAAAGTT
1 CGGGGGT-AAAATGGTAATTTTTGAAAGTT
*
44690611 CGGGGGTAAAATGGTAATTTTTGATGAA-AT
1 CGGGGGTAAAATGGTAATTTTTGA--AAGTT
* * *
44690641 CGGGGTTAAAAAT-GAAATTTTGGAAAGTT
1 CGGGGGT-AAAATGGTAATTTTTGAAAGTT
44690670 CGGGGGTAAAATGGTAATTTTTGAAAGTT
1 CGGGGGTAAAATGGTAATTTTTGAAAGTT
44690699 CGGGGGTAAAATGGTAATTTTTG
1 CGGGGGTAAAATGGTAATTTTTG
44690722 GACTGTTTGG
Statistics
Matches: 201, Mismatches: 37, Indels: 36
0.73 0.14 0.13
Matches are distributed among these distances:
26 5 0.02
27 2 0.01
28 35 0.17
29 102 0.51
30 38 0.19
31 19 0.09
ACGTcount: A:0.34, C:0.04, G:0.29, T:0.32
Consensus pattern (29 bp):
CGGGGGTAAAATGGTAATTTTTGAAAGTT
Found at i:44691094 original size:162 final size:162
Alignment explanation
Indices: 44690828--44691290 Score: 727
Period size: 162 Copynumber: 2.9 Consensus size: 162
44690818 TTAAAACTTC
44690828 TTGGGCCAATTTCGTAATT-AAATAAATGTTGATTT-GGGATTAAATTAAAATAAATTAAAAATA
1 TTGGGCCAATTTCGTAATTAAAATAAA-GTTGATTTGGGGATTAAATTAAAATAAATTAAAAATA
* *
44690891 AAAAGGACTAAATGCATAAATAAGCCAAAAAGTGACACGTGGCAGCCTCTGGTACAGTCAAACAA
65 AAAAGGACTAAATGCATAAATAAGTCAAAAAGTGACACGTGGCAGCCTCTGGTACAGTCAAACAG
44690956 TCAAAGGACTAGTTTATAAACCTTGAAAAATTA
130 TCAAAGGACTAGTTTATAAACCTTGAAAAATTA
44690989 TTGGGCCAATTTCGTAATTAAAATAAAGTTGATTTGGGGATTAAATTAAAATAAATTAAAAATAA
1 TTGGGCCAATTTCGTAATTAAAATAAAGTTGATTTGGGGATTAAATTAAAATAAATTAAAAATAA
*
44691054 AAAGGACTAAATGCATAAATAAGTCAAAAAGTGACACGTGGCAGCCTCTGGTACAGTCAGACAGT
66 AAAGGACTAAATGCATAAATAAGTCAAAAAGTGACACGTGGCAGCCTCTGGTACAGTCAAACAGT
44691119 CAAAGGACTAGTTTATAAACCTTGAAAAATTA
131 CAAAGGACTAGTTTATAAACCTTGAAAAATTA
* * * * **
44691151 TTGGGTCAATTTCGTAATTAAAATAAAGTTGATTTGAGGATTAAATTAAAACAGATTAAAAATGC
1 TTGGGCCAATTTCGTAATTAAAATAAAGTTGATTTGGGGATTAAATTAAAATAAATTAAAAATAA
* * * * * * *
44691216 CAGGGACTAAATGCAGAAATGA-TCCAAAAAATGACACGTGGCAGCCT-TCGGTACAGTTAAATA
66 AAAGGACTAAATGCATAAATAAGT-CAAAAAGTGACACGTGGCAGCCTCT-GGTACAGTCAAACA
44691279 GTCAAAGGACTA
129 GTCAAAGGACTA
44691291 AATTGAAAGC
Statistics
Matches: 281, Mismatches: 17, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
161 29 0.10
162 252 0.90
ACGTcount: A:0.43, C:0.12, G:0.18, T:0.26
Consensus pattern (162 bp):
TTGGGCCAATTTCGTAATTAAAATAAAGTTGATTTGGGGATTAAATTAAAATAAATTAAAAATAA
AAAGGACTAAATGCATAAATAAGTCAAAAAGTGACACGTGGCAGCCTCTGGTACAGTCAAACAGT
CAAAGGACTAGTTTATAAACCTTGAAAAATTA
Found at i:44692907 original size:6 final size:6
Alignment explanation
Indices: 44692898--44693000 Score: 54
Period size: 6 Copynumber: 17.2 Consensus size: 6
44692888 TTTTTTAATG
* * * *
44692898 TTAAAT TTAATAT TTTAAT TT--TT TTAAAAAT TTAAAT TCAAA- GTAAAT
1 TTAAAT TTAA-AT TTAAAT TTAAAT TT-AAA-T TTAAAT TTAAAT TTAAAT
* * * *
44692946 TTAAAT AATTAAAT TTAAAT TTAAA- ATAAAT TTAAA- ATCAAT TTAACT
1 TTAAAT --TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
44692994 TTAAAT T
1 TTAAAT T
44693001 AAACGAAAAG
Statistics
Matches: 72, Mismatches: 15, Indels: 20
0.67 0.14 0.19
Matches are distributed among these distances:
4 3 0.04
5 10 0.14
6 42 0.58
7 8 0.11
8 9 0.12
ACGTcount: A:0.50, C:0.03, G:0.01, T:0.47
Consensus pattern (6 bp):
TTAAAT
Found at i:44692945 original size:17 final size:17
Alignment explanation
Indices: 44692925--44693000 Score: 77
Period size: 17 Copynumber: 4.6 Consensus size: 17
44692915 ATTTTTTTAA
*
44692925 AAATTTAAATTCAAAGT
1 AAATTTAAATTCAAATT
44692942 AAATTTAAA-T--AATT
1 AAATTTAAATTCAAATT
* *
44692956 AAATTTAAATTTAAAAT
1 AAATTTAAATTCAAATT
* *
44692973 AAATTTAAAATCAATTT
1 AAATTTAAATTCAAATT
*
44692990 AACTTTAAATT
1 AAATTTAAATT
44693001 AAACGAAAAG
Statistics
Matches: 48, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
14 12 0.25
15 1 0.02
16 1 0.02
17 34 0.71
ACGTcount: A:0.54, C:0.04, G:0.01, T:0.41
Consensus pattern (17 bp):
AAATTTAAATTCAAATT
Found at i:44692975 original size:11 final size:11
Alignment explanation
Indices: 44692930--44692991 Score: 58
Period size: 11 Copynumber: 5.8 Consensus size: 11
44692920 TTTAAAAATT
* *
44692930 TAAATTCAAAG
1 TAAATTTAAAA
44692941 TAAATTT-AAA
1 TAAATTTAAAA
*
44692951 T-AA-TTAAATT
1 TAAATTTAAA-A
44692961 TAAATTTAAAA
1 TAAATTTAAAA
44692972 TAAATTTAAAA
1 TAAATTTAAAA
*
44692983 TCAATTTAA
1 TAAATTTAA
44692992 CTTTAAATTA
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
8 2 0.05
9 4 0.10
10 4 0.10
11 27 0.64
12 5 0.12
ACGTcount: A:0.56, C:0.03, G:0.02, T:0.39
Consensus pattern (11 bp):
TAAATTTAAAA
Found at i:44693480 original size:68 final size:68
Alignment explanation
Indices: 44693338--44693884 Score: 824
Period size: 68 Copynumber: 7.9 Consensus size: 68
44693328 AACGATGTTA
* *
44693338 CTCTTACTTCAATTTCAGAGATGAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATGAC
1 CTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCC-ACTCTACTTCAATTTCAAGGGGATGAC
44693403 GTTG
65 GTTG
*
44693407 CTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATGACG
1 CTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATGACG
44693472 TTG
66 TTG
*
44693475 CTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATGACA
1 CTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATGACG
44693540 TTG
66 TTG
* * * *
44693543 CTCTTACTTCAATTTCAGAGATGAAGACGTGATAACCAGTTTTACTTCAATTTCAAAAGGATAGG
1 CTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCA-CTCTACTTCAATTTC--AAGG---GG
* * *
44693608 AAACGATGTTA
60 --ATGACGTTG
* * *
44693619 CTCTTACTTCAATTTCAAAGATGAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATGAC
1 CTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCC-ACTCTACTTCAATTTCAAGGGGATGAC
44693684 GTTG
65 GTTG
* * * *
44693688 CTTTTATTTCAATTTCAGATATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATGACG
1 CTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATGACG
44693753 TTG
66 TTG
*
44693756 CTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATGACA
1 CTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATGACG
44693821 TTG
66 TTG
*
44693824 CTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGCGGAT
1 CTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGAT
44693885 AGGAAACGAT
Statistics
Matches: 433, Mismatches: 36, Indels: 19
0.89 0.07 0.04
Matches are distributed among these distances:
68 285 0.66
69 85 0.20
71 6 0.01
74 5 0.01
76 51 0.12
77 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.16, T:0.34
Consensus pattern (68 bp):
CTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATGACG
TTG
Found at i:44693805 original size:281 final size:280
Alignment explanation
Indices: 44693300--44693898 Score: 1090
Period size: 281 Copynumber: 2.1 Consensus size: 280
44693290 TTGCTATCCA
* *
44693300 ACTTTACTTCAATTTCTAGAGGATAGGAAACGATGTTACTCTTACTTCAATTTCAGAGATGAAGA
1 ACTTTACTTCAATTTCAAGAGGATAGGAAACGATGTTACTCTTACTTCAATTTCAAAGATGAAGA
44693365 CTTGTTATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAATTTCAGAGATA
66 CTTGTTATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAATTTCAGAGATA
44693430 AAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAG
131 AAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAG
44693495 ATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATGACATTGCTCTTACTTCAATTTCA
196 ATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATGACATTGCTCTTACTTCAATTTCA
44693560 GAGATGAAGACGTGATAACC
261 GAGATGAAGACGTGATAACC
* *
44693580 AGTTTTACTTCAATTTCAAAAGGATAGGAAACGATGTTACTCTTACTTCAATTTCAAAGATGAAG
1 A-CTTTACTTCAATTTCAAGAGGATAGGAAACGATGTTACTCTTACTTCAATTTCAAAGATGAAG
* * *
44693645 ACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCTTTTATTTCAATTTCAGATAT
65 ACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAATTTCAGAGAT
44693710 AAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGA
130 AAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGA
44693775 GATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATGACATTGCTCTTACTTCAATTTC
195 GATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATGACATTGCTCTTACTTCAATTTC
* *
44693840 AGAGATGAAGACGTGTTATCC
260 AGAGATGAAGACGTGATAACC
* *
44693861 ACTCTACTTCAATTTCAAGCGGATAGGAAACGATGTTA
1 ACTTTACTTCAATTTCAAGAGGATAGGAAACGATGTTA
44693899 TTTGGTCTGA
Statistics
Matches: 305, Mismatches: 13, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
280 34 0.11
281 271 0.89
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (280 bp):
ACTTTACTTCAATTTCAAGAGGATAGGAAACGATGTTACTCTTACTTCAATTTCAAAGATGAAGA
CTTGTTATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAATTTCAGAGATA
AAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAG
ATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATGACATTGCTCTTACTTCAATTTCA
GAGATGAAGACGTGATAACC
Found at i:44705964 original size:162 final size:161
Alignment explanation
Indices: 44705682--44706178 Score: 757
Period size: 160 Copynumber: 3.1 Consensus size: 161
44705672 AGGCATCCAG
* ** * * * *
44705682 CAGTCAAAGGATTAAATTGTAAATCTTGAAAACTTCTTGGGCCAATTTCGTAATT-AAATAAAAG
1 CAGTCAAAGGACTAGTTTATAAACCTTGAAAAATTATTGGGCCAATTTCGTAATTAAAAT-AAAG
44705746 TTGATTTGGGATTAAATTAAAACAAATTAAAAATAAAAAGGACTAAATGCATAAATAAGCCAAAA
65 TTGATTTGGGATTAAATTAAAACAAATTAAAAATAAAAAGGACTAAATGCATAAATAAGCCAAAA
*
44705811 AGTGACACATGGCAGCCTCTGGTACAGTCAAA
130 AGTGACACGTGGCAGCCTCTGGTACAGTCAAA
44705843 CAGTCAAAGGACTAGTTTATAAACCTTGAAAAATTATTGGGCCAATTTCGTAATTAAAATAAAGT
1 CAGTCAAAGGACTAGTTTATAAACCTTGAAAAATTATTGGGCCAATTTCGTAATTAAAATAAAGT
*
44705908 TGATTTAGGGATTAAATTAAAACAAATTAAAAATAAAAAGGACTAAATGAATAAATAAGCCAAAA
66 TGATTT-GGGATTAAATTAAAACAAATTAAAAATAAAAAGGACTAAATGCATAAATAAGCCAAAA
*
44705973 AGTG--ACGTGGCAGCCTCTGGTACAGTCAGA
130 AGTGACACGTGGCAGCCTCTGGTACAGTCAAA
*
44706003 CAGTCAAAGGACTAGTTTATAAACCTTGAAAAATTATTGGGTCAATTTCGTAATTAAAATAAAGT
1 CAGTCAAAGGACTAGTTTATAAACCTTGAAAAATTATTGGGCCAATTTCGTAATTAAAATAAAGT
* *** * * * *
44706068 TGATTTGGGGATTAAATTAAAACAAATTAAAGATGTCAGGGACTAAATGCAGAAATGATCCAAAA
66 TGATTT-GGGATTAAATTAAAACAAATTAAAAATAAAAAGGACTAAATGCATAAATAAGCCAAAA
*
44706133 AATGACACGTGGCAGCCTCTGGTACAGTCAAA
130 AGTGACACGTGGCAGCCTCTGGTACAGTCAAA
*
44706165 TAGTCAAAGGACTA
1 CAGTCAAAGGACTA
44706179 AATTAAAAGC
Statistics
Matches: 308, Mismatches: 24, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
160 146 0.47
161 59 0.19
162 103 0.33
ACGTcount: A:0.44, C:0.13, G:0.18, T:0.26
Consensus pattern (161 bp):
CAGTCAAAGGACTAGTTTATAAACCTTGAAAAATTATTGGGCCAATTTCGTAATTAAAATAAAGT
TGATTTGGGATTAAATTAAAACAAATTAAAAATAAAAAGGACTAAATGCATAAATAAGCCAAAAA
GTGACACGTGGCAGCCTCTGGTACAGTCAAA
Found at i:44707804 original size:6 final size:6
Alignment explanation
Indices: 44707795--44707913 Score: 86
Period size: 6 Copynumber: 20.2 Consensus size: 6
44707785 TTTTTTAATG
* *** * *
44707795 TTAAAT TTAATAT TTTAAT TTTTTT TTAAAT TTAAAT TCAAA- GTAAAT
1 TTAAAT TTAA-AT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
*
44707843 TTAAAT AATTAAAT TTAAAT TTAAA- ATAAAT TTAAAT TTAAA- -TAAAT
1 TTAAAT --TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
* * *
44707890 TTAAA- ATCAAT TTAACT TTAAAT T
1 TTAAAT TTAAAT TTAAAT TTAAAT T
44707914 AAACGAAAAG
Statistics
Matches: 87, Mismatches: 18, Indels: 16
0.72 0.15 0.13
Matches are distributed among these distances:
4 4 0.05
5 10 0.11
6 62 0.71
7 5 0.06
8 6 0.07
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.48
Consensus pattern (6 bp):
TTAAAT
Found at i:44707841 original size:17 final size:17
Alignment explanation
Indices: 44707820--44707913 Score: 97
Period size: 17 Copynumber: 5.8 Consensus size: 17
44707810 TAATTTTTTT
44707820 TTAAATTTAAATTCAAA
1 TTAAATTTAAATTCAAA
*
44707837 GTAAATTTAAA-T--AA
1 TTAAATTTAAATTCAAA
*
44707851 TTAAATTTAAATTTAAA
1 TTAAATTTAAATTCAAA
* *
44707868 ATAAATTTAAATTTAAA
1 TTAAATTTAAATTCAAA
* *
44707885 -TAAATTTAAAATCAAT
1 TTAAATTTAAATTCAAA
*
44707901 TTAACTTTAAATT
1 TTAAATTTAAATT
44707914 AAACGAAAAG
Statistics
Matches: 65, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
14 12 0.18
15 1 0.02
16 14 0.22
17 38 0.58
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (17 bp):
TTAAATTTAAATTCAAA
Found at i:44707855 original size:31 final size:32
Alignment explanation
Indices: 44707820--44707915 Score: 113
Period size: 31 Copynumber: 3.0 Consensus size: 32
44707810 TAATTTTTTT
*
44707820 TTAAATTTAAATTCAAAGTAAATTTAAA-TAA
1 TTAAATTTAAATTCAAAATAAATTTAAATTAA
*
44707851 TTAAATTTAAATTTAAAATAAATTTAAATTTAA
1 TTAAATTTAAATTCAAAATAAATTTAAA-TTAA
* * ** *
44707884 ATAAATTTAAAATCAATTTAACTTTAAATTAA
1 TTAAATTTAAATTCAAAATAAATTTAAATTAA
44707916 ACGAAAAGTC
Statistics
Matches: 55, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
31 26 0.47
32 4 0.07
33 25 0.45
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (32 bp):
TTAAATTTAAATTCAAAATAAATTTAAATTAA
Found at i:44708044 original size:52 final size:52
Alignment explanation
Indices: 44707965--44708393 Score: 545
Period size: 52 Copynumber: 8.3 Consensus size: 52
44707955 CGATGACATA
* * ** * * * * *
44707965 TAGTCATCAGACCTCTTGTTCCGTAAAGGAATCATACACTTACGATGACACA
1 TAGTCATCGGACCTCATAATCCGTAAAGGATTCATATACTCACGATGGCACG
* * *
44708017 CAGTCATCGGACCTCATAATCCATAAAGAATTCATATACTCACGATGGCACG
1 TAGTCATCGGACCTCATAATCCGTAAAGGATTCATATACTCACGATGGCACG
*
44708069 TAGTCATCGGACCTCATAATCCATAAAGGATTCATATACTCACGATGGCACG
1 TAGTCATCGGACCTCATAATCCGTAAAGGATTCATATACTCACGATGGCACG
** * * * *
44708121 TAGTCATTAGACCTTAAAATCCGTAAAGGATTCATATACTCATGAAGGCACG
1 TAGTCATCGGACCTCATAATCCGTAAAGGATTCATATACTCACGATGGCACG
* * * *
44708173 TAGTTATTGGATCTCATAATCCGTAAAGGATTCATATACTCAAGATGGCACG
1 TAGTCATCGGACCTCATAATCCGTAAAGGATTCATATACTCACGATGGCACG
* * * *
44708225 TAGTCATCGGACCTCATAATCAGTAAAGAATGCATATACTCACAATGGCACG
1 TAGTCATCGGACCTCATAATCCGTAAAGGATTCATATACTCACGATGGCACG
* * * *
44708277 TAGTCATCGGACCTCATAATTCGTAAATGATTCATATTCTCACGATGGCACA
1 TAGTCATCGGACCTCATAATCCGTAAAGGATTCATATACTCACGATGGCACG
* *
44708329 TAGTTATCGGACCTCATAATCCGTAAAGGATTCATATACTCACGATGACACG
1 TAGTCATCGGACCTCATAATCCGTAAAGGATTCATATACTCACGATGGCACG
*
44708381 TAGTTATC-GACCT
1 TAGTCATCGGACCT
44708394 TTCTCATTTA
Statistics
Matches: 327, Mismatches: 50, Indels: 1
0.87 0.13 0.00
Matches are distributed among these distances:
51 5 0.02
52 322 0.98
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (52 bp):
TAGTCATCGGACCTCATAATCCGTAAAGGATTCATATACTCACGATGGCACG
Found at i:44718856 original size:12 final size:12
Alignment explanation
Indices: 44718841--44718875 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
44718831 AGCAAAATTG
44718841 AGAAAAAAAGAA
1 AGAAAAAAAGAA
*
44718853 AGAAAAAGAGAA
1 AGAAAAAAAGAA
44718865 AGAAAGAAAAG
1 AGAAA-AAAAG
44718876 GATAAATTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
12 16 0.80
13 4 0.20
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (12 bp):
AGAAAAAAAGAA
Found at i:44719055 original size:98 final size:99
Alignment explanation
Indices: 44718938--44719116 Score: 263
Period size: 99 Copynumber: 1.8 Consensus size: 99
44718928 TTTCAACTGC
* * *
44718938 TTATAACATTATAATTAACTATGAAT-AATAATTATAAAATTAATAAATGTTTA-TTCTTTATTG
1 TTATAACATCATAATTAACTATGAATGAATAATTATAAAATTAATAAATGTTCACTT-TTTATTA
44719001 CAATAATGATTTATTATAATATGTTTTGAAGTAAT
65 CAATAATGATTTATTATAATATGTTTTGAAGTAAT
* * * *
44719036 TTATAGCATCATAATTAACTATGAATGTATAATTATAAAATTAATGAATGTTCACTTTTTTTTAC
1 TTATAACATCATAATTAACTATGAATGAATAATTATAAAATTAATAAATGTTCACTTTTTATTAC
*
44719101 AATAATGGTTTATTAT
66 AATAATGATTTATTAT
44719117 CATACAAATA
Statistics
Matches: 71, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
98 24 0.34
99 45 0.63
100 2 0.03
ACGTcount: A:0.41, C:0.06, G:0.08, T:0.46
Consensus pattern (99 bp):
TTATAACATCATAATTAACTATGAATGAATAATTATAAAATTAATAAATGTTCACTTTTTATTAC
AATAATGATTTATTATAATATGTTTTGAAGTAAT
Found at i:44719647 original size:27 final size:27
Alignment explanation
Indices: 44719580--44719653 Score: 105
Period size: 26 Copynumber: 2.8 Consensus size: 27
44719570 TTTTGTACTA
* * *
44719580 TTAATATTCTTATCCATAACTAGACCG
1 TTAAAATTCTTATCCATATCTAGACAG
44719607 TT-AAATTCTTATCCATATCTAGACAG
1 TTAAAATTCTTATCCATATCTAGACAG
*
44719633 TTAAAATTCTTATCCACATCT
1 TTAAAATTCTTATCCATATCT
44719654 CAACTGTTAA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 23 0.55
27 19 0.45
ACGTcount: A:0.34, C:0.22, G:0.05, T:0.39
Consensus pattern (27 bp):
TTAAAATTCTTATCCATATCTAGACAG
Found at i:44727122 original size:22 final size:22
Alignment explanation
Indices: 44727095--44727145 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
44727085 TGATTGAGTA
44727095 AAAAAATAAC-TATAAATCAGAT
1 AAAAAA-AACTTATAAATCAGAT
* *
44727117 AAAAAAATCTTATAAGTCAGAT
1 AAAAAAAACTTATAAATCAGAT
44727139 AAAAAAA
1 AAAAAAA
44727146 TCTTTCACAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 2 0.08
22 24 0.92
ACGTcount: A:0.65, C:0.08, G:0.06, T:0.22
Consensus pattern (22 bp):
AAAAAAAACTTATAAATCAGAT
Found at i:44727146 original size:22 final size:22
Alignment explanation
Indices: 44727105--44727149 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
44727095 AAAAAATAAC
44727105 TATAAATCAGATAAAAAAATCT
1 TATAAATCAGATAAAAAAATCT
*
44727127 TATAAGTCAGATAAAAAAATCT
1 TATAAATCAGATAAAAAAATCT
44727149 T
1 T
44727150 TCACAATCGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.56, C:0.09, G:0.07, T:0.29
Consensus pattern (22 bp):
TATAAATCAGATAAAAAAATCT
Found at i:44733394 original size:39 final size:39
Alignment explanation
Indices: 44733340--44733418 Score: 104
Period size: 39 Copynumber: 2.0 Consensus size: 39
44733330 TGTCAGCTGA
* * *
44733340 AGTTTCTGACAGAAGTAATGTTGTTAGTATTGCAGCAGC
1 AGTTTCTAACAGAAGTAATGGTGTTAGTACTGCAGCAGC
** *
44733379 AGTTTCTAACAGAAGTGGTGGTGTTGGTACTGCAGCAGC
1 AGTTTCTAACAGAAGTAATGGTGTTAGTACTGCAGCAGC
44733418 A
1 A
44733419 CCTAATCCTT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (39 bp):
AGTTTCTAACAGAAGTAATGGTGTTAGTACTGCAGCAGC
Found at i:44737804 original size:18 final size:19
Alignment explanation
Indices: 44737768--44737804 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
44737758 CACCTTGATA
44737768 ATCAGTTTGTTTATTTTCT
1 ATCAGTTTGTTTATTTTCT
*
44737787 ATCAGTTT-TTTCTTTTCT
1 ATCAGTTTGTTTATTTTCT
44737805 TTTCCTCATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.14, C:0.14, G:0.08, T:0.65
Consensus pattern (19 bp):
ATCAGTTTGTTTATTTTCT
Found at i:44746480 original size:30 final size:30
Alignment explanation
Indices: 44746418--44746787 Score: 514
Period size: 30 Copynumber: 12.4 Consensus size: 30
44746408 GGATTTAAGG
* *
44746418 AAGTTTGGGGGT-AAAATGGTAATTTTTG-A
1 AAGTTTTGGGGTCAAAAT-GTAATTTTGGAA
*
44746447 AAGTTTAT-GGGTCAAAATGTAATTTTAGAA
1 AAGTTT-TGGGGTCAAAATGTAATTTTGGAA
44746477 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
*
44746507 AAGTTTTTGGGTCAAAATGTAATTTTGGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
* * *
44746537 GAGTTTTGGGGTCAAAATATAATTTTAGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
*
44746567 AAGTTTTGGGGGTTAAAATGTAATTTTGG-A
1 AAGTTTT-GGGGTCAAAATGTAATTTTGGAA
* *
44746597 AAGTTTTAGGGTCAAAAGGTAATTTTGGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
*
44746627 AAGTTTTGGGGTTAAAATGTAATTTTGGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
* * *
44746657 GAGTTTTGGGGTCAAAATATAATTTAGGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
44746687 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
* * * * *
44746717 AATTTTTAGGGTTAAAATATAATTTTAGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
44746747 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
44746777 AAGTTTTGGGG
1 AAGTTTTGGGG
44746788 GTCACAAAGC
Statistics
Matches: 300, Mismatches: 35, Indels: 11
0.87 0.10 0.03
Matches are distributed among these distances:
29 38 0.13
30 244 0.81
31 18 0.06
ACGTcount: A:0.35, C:0.02, G:0.26, T:0.38
Consensus pattern (30 bp):
AAGTTTTGGGGTCAAAATGTAATTTTGGAA
Found at i:44747483 original size:21 final size:22
Alignment explanation
Indices: 44747457--44747504 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
44747447 CCTCATTCTT
44747457 TTCTTC-TATTTTGTTCTTTTA
1 TTCTTCATATTTTGTTCTTTTA
*
44747478 TTCTTCATTTTTTGTTC-TTTA
1 TTCTTCATATTTTGTTCTTTTA
44747499 TT-TTCA
1 TTCTTCA
44747505 AAATCTTTCC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 4 0.16
21 12 0.48
22 9 0.36
ACGTcount: A:0.10, C:0.15, G:0.04, T:0.71
Consensus pattern (22 bp):
TTCTTCATATTTTGTTCTTTTA
Found at i:44748403 original size:20 final size:20
Alignment explanation
Indices: 44748365--44748403 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
44748355 CAGGGCATGG
*
44748365 TGGAGCTTGGTGGTGGCAGA
1 TGGAGCTTGGTGGTAGCAGA
44748385 TGGAGC-TGGTGGTCAGCAG
1 TGGAGCTTGGTGGT-AGCAG
44748404 CATAGGCACG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.15, C:0.13, G:0.49, T:0.23
Consensus pattern (20 bp):
TGGAGCTTGGTGGTAGCAGA
Found at i:44748629 original size:17 final size:17
Alignment explanation
Indices: 44748609--44748673 Score: 73
Period size: 17 Copynumber: 4.0 Consensus size: 17
44748599 TTAATATTAT
* *
44748609 TTTAAATTAAGTTTAAA
1 TTTAAAATAAATTTAAA
44748626 TTTAAAATAAATTTAAA
1 TTTAAAATAAATTTAAA
*
44748643 --T-AAGTAAATTTAAA
1 TTTAAAATAAATTTAAA
*
44748657 TTTAAGATAAATTTAAA
1 TTTAAAATAAATTTAAA
44748674 AATGAATTTA
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
14 12 0.30
15 1 0.03
16 1 0.03
17 26 0.65
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.42
Consensus pattern (17 bp):
TTTAAAATAAATTTAAA
Found at i:44748636 original size:11 final size:11
Alignment explanation
Indices: 44748622--44748692 Score: 58
Period size: 11 Copynumber: 6.5 Consensus size: 11
44748612 AAATTAAGTT
44748622 TAAATTTAAAA
1 TAAATTTAAAA
44748633 TAAATTT-AAA
1 TAAATTTAAAA
* *
44748643 T-AA-GTAAATT
1 TAAATTTAAA-A
*
44748653 TAAATTTAAGA
1 TAAATTTAAAA
44748664 TAAATTTAAAAA
1 TAAATTT-AAAA
*
44748676 TGAATTTAAAA
1 TAAATTTAAAA
*
44748687 TTAATT
1 TAAATT
44748693 CAAACATTAA
Statistics
Matches: 47, Mismatches: 8, Indels: 10
0.72 0.12 0.15
Matches are distributed among these distances:
8 1 0.02
9 4 0.09
10 5 0.11
11 25 0.53
12 12 0.26
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.39
Consensus pattern (11 bp):
TAAATTTAAAA
Found at i:44748658 original size:31 final size:29
Alignment explanation
Indices: 44748593--44748690 Score: 99
Period size: 31 Copynumber: 3.3 Consensus size: 29
44748583 TTTTAATTTA
* * * * *
44748593 TTAAATTTAATAT-TATTTTAAATTAAGT
1 TTAAATTTAAAATAAATTTAAAAATAAAT
44748621 TTAAATTTAAAATAAATTTAAATAAGTAAAT
1 TTAAATTTAAAATAAATTTAAA-AA-TAAAT
* *
44748652 TTAAATTTAAGATAAATTTAAAAATGAAT
1 TTAAATTTAAAATAAATTTAAAAATAAAT
*
44748681 TTAAAATTAA
1 TTAAATTTAA
44748691 TTCAAACATT
Statistics
Matches: 59, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 12 0.20
29 19 0.32
30 3 0.05
31 25 0.42
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (29 bp):
TTAAATTTAAAATAAATTTAAAAATAAAT
Found at i:44749015 original size:76 final size:70
Alignment explanation
Indices: 44748929--44749546 Score: 613
Period size: 68 Copynumber: 8.7 Consensus size: 70
44748919 TTTGTCTTGC
* * * *
44748929 TCAATTTCGGAGATAAAGACTTGATACCCAATTCTACTTCAATTTCGAACGGATAGGAAATGACG
1 TCAATTTCAGAGATAAAGACGTGATATCCAACTCTACTTCAATTTC-AA-GG---GG-AATGACG
44748994 TTGCTCTTACT
60 TTGCTCTTACT
* *
44749005 TCAATTTCGGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCGAGAGGATGGGAAATGATC
1 TCAATTTCAGAGATAAAGACGTGATATCCAACTCTACTTCAATTTC-A-A-G--GGG-AATGA-C
44749070 -TTGCTCTTACT
59 GTTGCTCTTACT
* * * * * *
44749081 TCATTTTCGGAGATAAAAACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAATGATC
1 TCAATTTCAGAGATAAAGACGTGATATCCAACTCTACTTCAATTTC-A-AGG---GG-AATGA-C
**
44749146 -TTATTCTTACT
59 GTTGCTCTTACT
* * * * *
44749157 TCAATTTCAGAGATAAAGACATGTTATCCAGCTTTACTTCAATTTCAAGAGGACA--ACGTTGCT
1 TCAATTTCAGAGATAAAGACGTGATATCCAACTCTACTTCAATTTCAAGGGGA-ATGACGTTGCT
44749220 CTTACT
65 CTTACT
*
44749226 TCAATTTCAGAGATAAAGACGTGTTATCC-ACTCTACTTCAATTTCAAGGGG-ATGACGTTGCTC
1 TCAATTTCAGAGATAAAGACGTGATATCCAACTCTACTTCAATTTCAAGGGGAATGACGTTGCTC
44749289 TTACT
66 TTACT
*
44749294 TCAATTTCAGAGGTAAAGACGT-ATTATCC-ACTCTACTTCAATTTCAAGGGG-ATGACGTTGCT
1 TCAATTTCAGAGATAAAGACGTGA-TATCCAACTCTACTTCAATTTCAAGGGGAATGACGTTGCT
44749356 CTTACT
65 CTTACT
* *
44749362 TCAATTTTAGAGGTAAAGACGT-ATTATCC-ACTCTACTTCAATTTCAAGGGG-ATGACGTTGCT
1 TCAATTTCAGAGATAAAGACGTGA-TATCCAACTCTACTTCAATTTCAAGGGGAATGACGTTGCT
44749424 CTTACT
65 CTTACT
* *
44749430 TCAATTTCAGAGATAAAGACGT-ATTATCC-ACTCTACTTC-ATCTTCAAGAGG-ATGACGTCGC
1 TCAATTTCAGAGATAAAGACGTGA-TATCCAACTCTACTTCAAT-TTCAAGGGGAATGACGTTGC
*
44749491 TCTTACC
64 TCTTACT
* * * *
44749498 TCAATTTCAGAGATGAAGACTTGATATCCAGCTTTACCTT-AATTTCAAG
1 TCAATTTCAGAGATAAAGACGTGATATCCAACTCTA-CTTCAATTTCAAG
44749547 AGGATAGGAA
Statistics
Matches: 491, Mismatches: 34, Indels: 41
0.87 0.06 0.07
Matches are distributed among these distances:
66 1 0.00
67 2 0.00
68 251 0.51
69 49 0.10
70 6 0.01
71 3 0.01
73 1 0.00
74 2 0.00
75 2 0.00
76 170 0.35
77 3 0.01
79 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (70 bp):
TCAATTTCAGAGATAAAGACGTGATATCCAACTCTACTTCAATTTCAAGGGGAATGACGTTGCTC
TTACT
Found at i:44749043 original size:38 final size:38
Alignment explanation
Indices: 44748929--44749126 Score: 113
Period size: 38 Copynumber: 5.2 Consensus size: 38
44748919 TTTGTCTTGC
* *
44748929 TCAATTTCGGAGATAAAGACTTGATACCCAATTCTACT
1 TCAATTTCGGAGATAAAGACTTGATATCCAACTCTACT
* * ** * *
44748967 TCAATTTCGAACGGAT-AGGAAATGACGT-TGC-TCT-TACT
1 TCAATTTCGGA--GATAAAGACTTGA--TATCCAACTCTACT
44749005 TCAATTTCGGAGATAAAGACTTGATATCCAACTCTACT
1 TCAATTTCGGAGATAAAGACTTGATATCCAACTCTACT
** ** ***
44749043 TCAATTTCGAGAGGAT-GGGAAATG--ATCTTGCTCTTACT
1 TCAATTTCG-GA-GATAAAGACTTGATATCCAACTC-TACT
* * * *
44749081 TCATTTTCGGAGATAAAAACTTGATATCCAGCTTTACT
1 TCAATTTCGGAGATAAAGACTTGATATCCAACTCTACT
44749119 TCAATTTC
1 TCAATTTC
44749127 AAGAGGATAG
Statistics
Matches: 115, Mismatches: 31, Indels: 28
0.66 0.18 0.16
Matches are distributed among these distances:
35 1 0.01
36 8 0.07
37 19 0.17
38 60 0.52
39 19 0.17
40 7 0.06
41 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.34
Consensus pattern (38 bp):
TCAATTTCGGAGATAAAGACTTGATATCCAACTCTACT
Found at i:44749194 original size:38 final size:37
Alignment explanation
Indices: 44749000--44749271 Score: 140
Period size: 38 Copynumber: 7.4 Consensus size: 37
44748990 GACGTTGCTC
* * *
44749000 TTACTTCAATTTCGGAGATAAAGACTTGATATCCAACT
1 TTACTTCAATTTCAGAGATAAAGACATG-TATCCAGCT
* ** * **
44749038 CTACTTCAATTTCGAGAGGAT-GGGAAATG-ATCTTGCT
1 TTACTTCAATTTC-AGA-GATAAAGACATGTATCCAGCT
* * * *
44749075 CTTACTTCATTTTCGGAGATAAAAACTTGATATCCAGCT
1 -TTACTTCAATTTCAGAGATAAAGACATG-TATCCAGCT
* * * *
44749114 TTACTTCAATTTCAAGAGGAT-AGGAAATG-ATCTTA-TT
1 TTACTTCAATTTC-AGA-GATAAAGACATGTATC-CAGCT
44749151 CTTACTTCAATTTCAGAGATAAAGACATGTTATCCAGCT
1 -TTACTTCAATTTCAGAGATAAAGACATG-TATCCAGCT
* *
44749190 TTACTTCAATTTCA-AG---AGGACAACGT-T---GCT
1 TTACTTCAATTTCAGAGATAAAGAC-ATGTATCCAGCT
*
44749220 CTTACTTCAATTTCAGAGATAAAGACGTGTTATCCA-CT
1 -TTACTTCAATTTCAGAGATAAAGACATG-TATCCAGCT
*
44749258 CTACTTCAATTTCA
1 TTACTTCAATTTCA
44749272 AGGGGATGAC
Statistics
Matches: 172, Mismatches: 37, Indels: 51
0.66 0.14 0.20
Matches are distributed among these distances:
30 3 0.02
31 14 0.08
32 2 0.01
33 1 0.01
34 6 0.03
35 7 0.04
36 7 0.04
37 38 0.22
38 66 0.38
39 22 0.13
40 6 0.03
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.35
Consensus pattern (37 bp):
TTACTTCAATTTCAGAGATAAAGACATGTATCCAGCT
Found at i:44749228 original size:31 final size:31
Alignment explanation
Indices: 44749190--44749438 Score: 126
Period size: 31 Copynumber: 7.5 Consensus size: 31
44749180 TTATCCAGCT
*
44749190 TTACTTCAATTTCAAGAGGACAACGTTGCTC
1 TTACTTCAATTTCAAGAGGAAAACGTTGCTC
* * *
44749221 TTACTTCAATTTC-AGAGATAAAGACGTGTTATCCAC
1 TTACTTCAATTTCAAGAG-GAAA-AC--G-T-TGCTC
* **
44749257 TCTACTTCAATTTCAAGGGGATGACGTTGCTC
1 T-TACTTCAATTTCAAGAGGAAAACGTTGCTC
* *
44749289 TTACTTCAATTTC-AGAGGTAAAGACGTATTATCCAC
1 TTACTTCAATTTCAAGAGG-AAA-ACG---T-TGCTC
* **
44749325 TCTACTTCAATTTCAAGGGGATGACGTTGCTC
1 T-TACTTCAATTTCAAGAGGAAAACGTTGCTC
* * *
44749357 TTACTTCAATTT-TAGAGGTAAAGACGTATTATCCAC
1 TTACTTCAATTTCAAGAGG-AAA-ACG---T-TGCTC
* **
44749393 TCTACTTCAATTTCAAGGGGATGACGTTGCTC
1 T-TACTTCAATTTCAAGAGGAAAACGTTGCTC
44749425 TTACTTCAATTTCA
1 TTACTTCAATTTCA
44749439 GAGATAAAGA
Statistics
Matches: 162, Mismatches: 32, Indels: 48
0.67 0.13 0.20
Matches are distributed among these distances:
30 12 0.07
31 53 0.33
32 20 0.12
33 3 0.02
34 2 0.01
35 3 0.02
36 20 0.12
37 38 0.23
38 11 0.07
ACGTcount: A:0.28, C:0.20, G:0.16, T:0.35
Consensus pattern (31 bp):
TTACTTCAATTTCAAGAGGAAAACGTTGCTC
Found at i:44761350 original size:50 final size:50
Alignment explanation
Indices: 44761264--44761358 Score: 120
Period size: 50 Copynumber: 1.9 Consensus size: 50
44761254 TTTTTTAGAG
* * * * * *
44761264 GTAAAATGGTAATTTTTGTGAAATCGAGGGTTAAAAATGGAATTTGGGGA
1 GTAAAATGGTAATTTTGGTAAAAACGAAGGTCAAAAATGAAATTTGGGGA
44761314 GTAAAATGGTAAATTTTGGTAAAAAC-AAGGTCAAAAATGAAATTT
1 GTAAAATGGT-AATTTTGGTAAAAACGAAGGTCAAAAATGAAATTT
44761359 TAGAAAGTTC
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
50 26 0.68
51 12 0.32
ACGTcount: A:0.42, C:0.03, G:0.24, T:0.31
Consensus pattern (50 bp):
GTAAAATGGTAATTTTGGTAAAAACGAAGGTCAAAAATGAAATTTGGGGA
Found at i:44761492 original size:30 final size:30
Alignment explanation
Indices: 44761422--44761999 Score: 808
Period size: 30 Copynumber: 19.4 Consensus size: 30
44761412 GGATTTAAGG
* *
44761422 AAGTTTAGGGGT-AAAATGGTAATTTTTG-A
1 AAGTTTTGGGGTCAAAAT-GTAATTTTGGAA
* * *
44761451 AAGTTTCGGGGTCAAAATATAATTTTAGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
* *
44761481 AATTTTTGGGGTCAAAATGTAATTTTAGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
44761511 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
*
44761541 AAGTTTAGGGGTCAAAATGTAATTTTGG-A
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
44761570 AAGTTTTGGGGTCAAAA-GTTAATTTTGGAA
1 AAGTTTTGGGGTCAAAATG-TAATTTTGGAA
44761600 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
* * *
44761630 GAGTTTTGGGGTCAAAATATAATTTAGGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
*
44761660 AAGTTTTGGGGTTAAAATGTAATTTTGGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
* *
44761690 GAGTATTGGGGTCAAAATGTAATTTTGGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
* *
44761720 AAG-TTTGGGGTTAAAATGTAATTTTAGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
*
44761749 AAGTTTTGAGGTCAAAATGTAATTTTGGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
*
44761779 AAGTTTTGGGGGTTAAAATGTAATTTTGG-A
1 AAGTTTT-GGGGTCAAAATGTAATTTTGGAA
* *
44761809 AAGTTTTAGGGTCAAAAGGTAATTTTGGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
* *
44761839 AAGTTTTAGGGTTAAAATGTAATTTTGGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
* * * *
44761869 GAGTTTTAGGGTCAAAATATAATTTAGGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
44761899 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
* * * * *
44761929 AATTTTTGAGGTTAAAATATAATTTTAGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
44761959 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
44761989 AAGTTTTGGGG
1 AAGTTTTGGGG
44762000 GTCACAAAGC
Statistics
Matches: 489, Mismatches: 52, Indels: 15
0.88 0.09 0.03
Matches are distributed among these distances:
28 1 0.00
29 89 0.18
30 379 0.78
31 20 0.04
ACGTcount: A:0.35, C:0.02, G:0.25, T:0.37
Consensus pattern (30 bp):
AAGTTTTGGGGTCAAAATGTAATTTTGGAA
Found at i:44762706 original size:22 final size:21
Alignment explanation
Indices: 44762664--44762717 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
44762654 CTCTTCCTCA
44762664 TTCTTT-TTCTTC-TATTTTG
1 TTCTTTATTCTTCATATTTTG
*
44762683 TTCTTTTATTCTTCATTTTTTG
1 TTC-TTTATTCTTCATATTTTG
44762705 TTCTTTATT-TTCA
1 TTCTTTATTCTTCA
44762718 AAATCTTTCC
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
19 3 0.10
20 7 0.23
21 12 0.39
22 9 0.29
ACGTcount: A:0.09, C:0.15, G:0.04, T:0.72
Consensus pattern (21 bp):
TTCTTTATTCTTCATATTTTG
Found at i:44763620 original size:20 final size:20
Alignment explanation
Indices: 44763582--44763620 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
44763572 CAGGGCATGG
*
44763582 TGGAGCTTGGTGGTGGCAGA
1 TGGAGCTTGGTGGTAGCAGA
44763602 TGGAG-TTGGTGGTCAGCAG
1 TGGAGCTTGGTGGT-AGCAG
44763621 CATAGGCACG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.15, C:0.10, G:0.49, T:0.26
Consensus pattern (20 bp):
TGGAGCTTGGTGGTAGCAGA
Found at i:44763854 original size:11 final size:11
Alignment explanation
Indices: 44763840--44763910 Score: 67
Period size: 11 Copynumber: 6.5 Consensus size: 11
44763830 AAATTAAGTT
44763840 TAAATTTAAAA
1 TAAATTTAAAA
44763851 TAAATTT-AAA
1 TAAATTTAAAA
*
44763861 TAAA--TAAATT
1 TAAATTTAAA-A
*
44763871 TAAATTTAAGA
1 TAAATTTAAAA
44763882 TAAATTTAAAAA
1 TAAATTT-AAAA
*
44763894 TGAATTTAAAA
1 TAAATTTAAAA
*
44763905 TTAATT
1 TAAATT
44763911 CAAACATTAA
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
8 1 0.02
9 2 0.04
10 11 0.22
11 23 0.47
12 12 0.24
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (11 bp):
TAAATTTAAAA
Found at i:44763876 original size:31 final size:30
Alignment explanation
Indices: 44763829--44763908 Score: 99
Period size: 31 Copynumber: 2.6 Consensus size: 30
44763819 AATATTATTT
*
44763829 TAAATTAAGTTTAAATTTAAAATAAATTTAAA
1 TAAA-TAAATTTAAATTTAAAATAAATTT-AA
*
44763861 TAAATAAATTTAAATTTAAGATAAATTTAA
1 TAAATAAATTTAAATTTAAAATAAATTTAA
* *
44763891 -AAATGAATTTAAAATTAA
1 TAAATAAATTTAAATTTAA
44763909 TTCAAACATT
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
29 16 0.36
30 2 0.05
31 22 0.50
32 4 0.09
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (30 bp):
TAAATAAATTTAAATTTAAAATAAATTTAA
Found at i:44766577 original size:97 final size:98
Alignment explanation
Indices: 44766465--44766642 Score: 277
Period size: 98 Copynumber: 1.8 Consensus size: 98
44766455 TTCAACTGAT
* ** *
44766465 TTATAACATCATAATTAATTATGAAT-AATAATTATAAAATTAATAAATGTTCACTCTTTCTTAC
1 TTATAACATCATAATTAACTATGAATGAATAATTATAAAATTAATAAACATTCACCCTTTCTTAC
44766529 AATAATGATTTATTATAATATGTTTTGAAGTAA
66 AATAATGATTTATTATAATATGTTTTGAAGTAA
* * *
44766562 TTATAACATCATAATTAACTATGAATGTATAATTATAAAATTAATGAACATTCACCCTTTTTTAC
1 TTATAACATCATAATTAACTATGAATGAATAATTATAAAATTAATAAACATTCACCCTTTCTTAC
*
44766627 AATAATGGTTTATTAT
66 AATAATGATTTATTAT
44766643 CATACAAATA
Statistics
Matches: 72, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
97 25 0.35
98 47 0.65
ACGTcount: A:0.42, C:0.09, G:0.06, T:0.43
Consensus pattern (98 bp):
TTATAACATCATAATTAACTATGAATGAATAATTATAAAATTAATAAACATTCACCCTTTCTTAC
AATAATGATTTATTATAATATGTTTTGAAGTAA
Found at i:44771450 original size:74 final size:73
Alignment explanation
Indices: 44771335--44771476 Score: 198
Period size: 74 Copynumber: 1.9 Consensus size: 73
44771325 GTTGCACCCT
*
44771335 AAAAAAAAACACTCTTTTAACATCTCAATTTCACAACTCTTTTAACCATAATTTCAACCCTCCCC
1 AAAAAAAAACACTCTTTTAACATCTCAATTCCACAACTCTTTTAACCATAATTTCAACCCTCCCC
44771400 CCTCCCAC
66 CCTCCCAC
* * *
44771408 AAAAAAAAA-ACTCTTCTTTAGCTTCTCAATTCCACATA-TCTTTTAACCATAGTTTCAACCCTC
1 AAAAAAAAACACTC-T-TTTAACATCTCAATTCCACA-ACTCTTTTAACCATAATTTCAACCCTC
*
44771471 TCCCCT
63 CCCCCT
44771477 AAAAAACAGT
Statistics
Matches: 61, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
72 4 0.07
73 10 0.16
74 46 0.75
75 1 0.02
ACGTcount: A:0.34, C:0.33, G:0.01, T:0.32
Consensus pattern (73 bp):
AAAAAAAAACACTCTTTTAACATCTCAATTCCACAACTCTTTTAACCATAATTTCAACCCTCCCC
CCTCCCAC
Found at i:44777988 original size:57 final size:58
Alignment explanation
Indices: 44777849--44777991 Score: 182
Period size: 58 Copynumber: 2.5 Consensus size: 58
44777839 TCTTTTAACA
* ** *
44777849 TCTAAATTTAAAAAATCTTCTAACCATAGTTTCAACCCCAAAAAATAATTATTTATCT
1 TCTAAATTTCAAAAATCTTCTAACCATAGTTTCAACCCCAAAAAATAAACATTCATCT
* * * *
44777907 TCTCAATTTCACAACTCTTTTAACCATAGTTTCAACCCCAAAAAA-AAACACTTCA-CT
1 TCTAAATTTCAAAAATCTTCTAACCATAGTTTCAACCCCAAAAAATAAACA-TTCATCT
*
44777964 TCTAAATTTCATAAATCTTCTAACCATA
1 TCTAAATTTCAAAAATCTTCTAACCATA
44777992 TTTTTACCCT
Statistics
Matches: 72, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
57 29 0.40
58 43 0.60
ACGTcount: A:0.41, C:0.24, G:0.01, T:0.34
Consensus pattern (58 bp):
TCTAAATTTCAAAAATCTTCTAACCATAGTTTCAACCCCAAAAAATAAACATTCATCT
Found at i:44780019 original size:5 final size:5
Alignment explanation
Indices: 44780012--44780055 Score: 79
Period size: 5 Copynumber: 8.8 Consensus size: 5
44780002 ATACTGTAAT
*
44780012 GGAAT GGAAG GGAAG GGAAG GGAAG GGAAG GGAAG GGAAG GGAA
1 GGAAG GGAAG GGAAG GGAAG GGAAG GGAAG GGAAG GGAAG GGAA
44780056 TTGAATATTT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 38 1.00
ACGTcount: A:0.41, C:0.00, G:0.57, T:0.02
Consensus pattern (5 bp):
GGAAG
Found at i:44784686 original size:42 final size:42
Alignment explanation
Indices: 44784633--44784713 Score: 135
Period size: 42 Copynumber: 1.9 Consensus size: 42
44784623 AATATATAAT
*
44784633 TATAAAATTAATGAATGTTCTCTCTTTTTTACAATAATAACG
1 TATAAAATTAATGAATGTTCACTCTTTTTTACAATAATAACG
* *
44784675 TATAAAGTTAATGGATGTTCACTCTTTTTTACAATAATA
1 TATAAAATTAATGAATGTTCACTCTTTTTTACAATAATA
44784714 GTACTCTTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.37, C:0.11, G:0.09, T:0.43
Consensus pattern (42 bp):
TATAAAATTAATGAATGTTCACTCTTTTTTACAATAATAACG
Found at i:44784741 original size:23 final size:21
Alignment explanation
Indices: 44784695--44784736 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
44784685 ATGGATGTTC
44784695 ACTCTTTTTTACAATAATAGT
1 ACTCTTTTTTACAATAATAGT
*
44784716 ACTCTTTTTTATAATAATAGT
1 ACTCTTTTTTACAATAATAGT
44784737 TTACTATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.12, G:0.05, T:0.50
Consensus pattern (21 bp):
ACTCTTTTTTACAATAATAGT
Found at i:44792473 original size:18 final size:17
Alignment explanation
Indices: 44792447--44792480 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
44792437 CTCATGTGTA
44792447 AAATATAAAAATATATT
1 AAATATAAAAATATATT
44792464 AAATATTAAAAATATAT
1 AAATA-TAAAAATATAT
44792481 AATTTCATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
AAATATAAAAATATATT
Found at i:44794570 original size:17 final size:18
Alignment explanation
Indices: 44794544--44794578 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
44794534 TTTTTAATAA
44794544 AAAAAATTTATAA-TTTT
1 AAAAAATTTATAACTTTT
*
44794561 AAAAATTTTATAACTTTT
1 AAAAAATTTATAACTTTT
44794579 GTTTATAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (18 bp):
AAAAAATTTATAACTTTT
Found at i:44795119 original size:16 final size:16
Alignment explanation
Indices: 44795098--44795128 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
44795088 AGTTAAATTT
*
44795098 AATATTTATTTTTTAA
1 AATATTTAATTTTTAA
44795114 AATATTTAATTTTTA
1 AATATTTAATTTTTA
44795129 TATTTTTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
AATATTTAATTTTTAA
Found at i:44799324 original size:201 final size:194
Alignment explanation
Indices: 44798882--44799335 Score: 549
Period size: 201 Copynumber: 2.3 Consensus size: 194
44798872 TACTAGTACT
* ** *
44798882 CGATGTTGCTCACACGAGCTGTCGAGGACTCGCAATGTATGCGGTACC-CTAGCCATCGATATGG
1 CGATGCTGCTCACACGAGCTGTCGAGGACTCGCAACATATGCGGTACCTC-AGCCATCGATACGG
* * * *
44798946 TGCTTGTCTGTACTATAAATTGTTCCCTAACGATGCTGCTCACACGAGCTGTCGAGAGTATGTAA
65 TGCTTG-CTGCACTATAAACTGTTCCCTAACGATGCTGCTCACACGAGCTGTCGAGAATATGCAA
* * * * * *
44799011 TAAGCGTAGTCCCAGCCATCGTAGGGCCTGTAATCCATTTAGGATCCATATCTCTTTCTCGAGTC
129 TAAGCATAATCCCAACCATCGTAGAGCCTGTAATCCATTTAGGATCCATATCTCTTTCCCGACTC
44799076 A
194 A
* * *
44799077 CGATGCTGCTCACACGAGCTGTCGAAGACTCACAACATATGCGGTACCTCAGCCATTGATACGGT
1 CGATGCTGCTCACACGAGCTGTCGAGGACTCGCAACATATGCGGTACCTCAGCCATCGATACGGT
* *
44799142 -ATCTG-TGCA-TAT-AACTGTTCCCTAACGATGCTGCTCACACGAGCTGTCGAGAATATGCACT
66 GCT-TGCTGCACTATAAACTGTTCCCTAACGATGCTGCTCACACGAGCTGTCGAGAATATGCA-A
* *
44799203 TATGCATAAATCTCAACCATCGTAGAGCCTGTAATCCATTTAGGATCCATATTTCTTTTCTCATT
129 TAAGCAT-AATCCCAACCATCGTAGAGCCTGTAATCCATTTAGGATCCATA-------TCTC-TT
44799268 TCCCGACTCA
185 TCCCGACTCA
* *
44799278 CGATGCTGCTCTCACGAGCTATCGAGGACTCGCAACATATGCGGTACCTCAGCCATCG
1 CGATGCTGCTCACACGAGCTGTCGAGGACTCGCAACATATGCGGTACCTCAGCCATCG
44799336 CGTCGATTTC
Statistics
Matches: 221, Mismatches: 26, Indels: 18
0.83 0.10 0.07
Matches are distributed among these distances:
191 44 0.20
192 8 0.04
193 42 0.19
194 1 0.00
195 58 0.26
196 1 0.00
200 4 0.02
201 63 0.29
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.28
Consensus pattern (194 bp):
CGATGCTGCTCACACGAGCTGTCGAGGACTCGCAACATATGCGGTACCTCAGCCATCGATACGGT
GCTTGCTGCACTATAAACTGTTCCCTAACGATGCTGCTCACACGAGCTGTCGAGAATATGCAATA
AGCATAATCCCAACCATCGTAGAGCCTGTAATCCATTTAGGATCCATATCTCTTTCCCGACTCA
Found at i:44801209 original size:22 final size:22
Alignment explanation
Indices: 44801161--44801210 Score: 57
Period size: 24 Copynumber: 2.2 Consensus size: 22
44801151 TATAAAATTT
* *
44801161 TAAAAAATATATTTAATATTTAT
1 TAAAAAATATATTTAATA-TAAA
44801184 TAAAAAATTATATTTAATA-AAA
1 TAAAAAA-TATATTTAATATAAA
44801206 TAAAA
1 TAAAA
44801211 TGTTTATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 6 0.25
23 7 0.29
24 11 0.46
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
TAAAAAATATATTTAATATAAA
Found at i:44801233 original size:36 final size:37
Alignment explanation
Indices: 44801191--44801265 Score: 98
Period size: 39 Copynumber: 2.0 Consensus size: 37
44801181 TATTAAAAAA
**
44801191 TTATA-TTTAATAAAATAAAATGTTTATTATATTTAT
1 TTATATTTTAATAAAATAAAACATTTATTATATTTAT
*
44801227 TTATATTTTTTAATATAATAAAACATTTATTATATTTAT
1 TTATA--TTTTAATAAAATAAAACATTTATTATATTTAT
44801266 GATATTGTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
36 5 0.15
39 28 0.85
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (37 bp):
TTATATTTTAATAAAATAAAACATTTATTATATTTAT
Found at i:44802611 original size:27 final size:27
Alignment explanation
Indices: 44802579--44802658 Score: 160
Period size: 27 Copynumber: 3.0 Consensus size: 27
44802569 TTAAATTCTA
44802579 ACACTTAAAATTTTCAGTTTATCAAAT
1 ACACTTAAAATTTTCAGTTTATCAAAT
44802606 ACACTTAAAATTTTCAGTTTATCAAAT
1 ACACTTAAAATTTTCAGTTTATCAAAT
44802633 ACACTTAAAATTTTCAGTTTATCAAA
1 ACACTTAAAATTTTCAGTTTATCAAA
44802659 GAACATCTTA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 53 1.00
ACGTcount: A:0.41, C:0.15, G:0.04, T:0.40
Consensus pattern (27 bp):
ACACTTAAAATTTTCAGTTTATCAAAT
Found at i:44809468 original size:2 final size:2
Alignment explanation
Indices: 44809461--44809510 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
44809451 TCACAACAAT
44809461 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
44809503 TA TA TA TA
1 TA TA TA TA
44809511 ACTCAAAAAG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:44816329 original size:12 final size:13
Alignment explanation
Indices: 44816314--44816356 Score: 54
Period size: 12 Copynumber: 3.4 Consensus size: 13
44816304 ATTTACAAAA
44816314 ATAAATATA-AAT
1 ATAAATATATAAT
44816326 ATAAATATATAAT
1 ATAAATATATAAT
*
44816339 ATTAAGTATATAAT
1 A-TAAATATATAAT
44816353 -TAAA
1 ATAAA
44816357 AAAATAACAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
12 12 0.44
13 4 0.15
14 11 0.41
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.37
Consensus pattern (13 bp):
ATAAATATATAAT
Found at i:44821448 original size:27 final size:27
Alignment explanation
Indices: 44821442--44821506 Score: 130
Period size: 27 Copynumber: 2.4 Consensus size: 27
44821432 TGGTTCAAAT
44821442 CCTCAGCTGGAGAGTGATGATTCGAAG
1 CCTCAGCTGGAGAGTGATGATTCGAAG
44821469 CCTCAGCTGGAGAGTGATGATTCGAAG
1 CCTCAGCTGGAGAGTGATGATTCGAAG
44821496 CCTCAGCTGGA
1 CCTCAGCTGGA
44821507 CCTTGAAGAG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.25, C:0.22, G:0.32, T:0.22
Consensus pattern (27 bp):
CCTCAGCTGGAGAGTGATGATTCGAAG
Found at i:44828373 original size:16 final size:16
Alignment explanation
Indices: 44828352--44828398 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
44828342 TTTTTATAAA
44828352 TGCGATTAGTTTTTGG
1 TGCGATTAGTTTTTGG
*
44828368 TGCGATT-G-TTTTAG
1 TGCGATTAGTTTTTGG
44828382 TGC-ATTAGTTTCTTGG
1 TGCGATTAGTTT-TTGG
44828398 T
1 T
44828399 AAATAGGCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
13 3 0.12
14 9 0.35
15 3 0.12
16 11 0.42
ACGTcount: A:0.13, C:0.09, G:0.28, T:0.51
Consensus pattern (16 bp):
TGCGATTAGTTTTTGG
Found at i:44828384 original size:14 final size:16
Alignment explanation
Indices: 44828352--44828392 Score: 52
Period size: 14 Copynumber: 2.8 Consensus size: 16
44828342 TTTTTATAAA
*
44828352 TGCGATTAGTTTTTGG
1 TGCGATTAGTTTTTAG
44828368 TGCGATT-G-TTTTAG
1 TGCGATTAGTTTTTAG
44828382 TGC-ATTAGTTT
1 TGCGATTAGTTT
44828393 CTTGGTAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
13 3 0.14
14 9 0.41
15 3 0.14
16 7 0.32
ACGTcount: A:0.15, C:0.07, G:0.27, T:0.51
Consensus pattern (16 bp):
TGCGATTAGTTTTTAG
Found at i:44833596 original size:23 final size:24
Alignment explanation
Indices: 44833570--44833617 Score: 89
Period size: 23 Copynumber: 2.0 Consensus size: 24
44833560 TACAATCATA
44833570 ATTACATGTCTGAG-CAATTAAGT
1 ATTACATGTCTGAGCCAATTAAGT
44833593 ATTACATGTCTGAGCCAATTAAGT
1 ATTACATGTCTGAGCCAATTAAGT
44833617 A
1 A
44833618 GAGCCAAACT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 14 0.58
24 10 0.42
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (24 bp):
ATTACATGTCTGAGCCAATTAAGT
Found at i:44841751 original size:21 final size:21
Alignment explanation
Indices: 44841726--44841789 Score: 60
Period size: 21 Copynumber: 3.0 Consensus size: 21
44841716 TGTTATCTCA
44841726 AATAATATAAAATATTATATT
1 AATAATATAAAATATTATATT
* * *
44841747 AATAATATTAAAAGTAATAAATA
1 AATAATA-TAAAA-TATTATATT
44841770 AATAAT-TAAAA-ATTAATATT
1 AATAATATAAAATATT-ATATT
44841790 TATTTCATCA
Statistics
Matches: 34, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
19 2 0.06
20 3 0.09
21 12 0.35
22 5 0.15
23 12 0.35
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (21 bp):
AATAATATAAAATATTATATT
Found at i:44846340 original size:27 final size:27
Alignment explanation
Indices: 44846299--44846359 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
44846289 TAGTTTAGAC
* * *
44846299 AAAGGCAGCACTGGTGTCGCCTATCCA
1 AAAGGCACCACTGGTGCCGCCTACCCA
* *
44846326 AAAGGCACCATTGGTGCCGCCTACCCC
1 AAAGGCACCACTGGTGCCGCCTACCCA
44846353 AAAGGCA
1 AAAGGCA
44846360 TCACCTGAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.28, C:0.33, G:0.25, T:0.15
Consensus pattern (27 bp):
AAAGGCACCACTGGTGCCGCCTACCCA
Found at i:44849069 original size:14 final size:14
Alignment explanation
Indices: 44849050--44849088 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
44849040 TTCTGAGGAT
*
44849050 CATATCTATATATC
1 CATATCTAGATATC
44849064 CATATCTAGATATC
1 CATATCTAGATATC
* *
44849078 AATATCAAGAT
1 CATATCTAGAT
44849089 TTCTTTTCTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.41, C:0.18, G:0.05, T:0.36
Consensus pattern (14 bp):
CATATCTAGATATC
Found at i:44851500 original size:16 final size:15
Alignment explanation
Indices: 44851464--44851512 Score: 64
Period size: 16 Copynumber: 3.2 Consensus size: 15
44851454 GGATTTTAAG
44851464 ATTAATTTGATAA-AA
1 ATTAA-TTGATAATAA
44851479 ATTAATTGATAATAA
1 ATTAATTGATAATAA
*
44851494 TATTAATTGATAATGA
1 -ATTAATTGATAATAA
44851510 ATT
1 ATT
44851513 TTTATCATAT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
14 7 0.23
15 10 0.32
16 14 0.45
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.43
Consensus pattern (15 bp):
ATTAATTGATAATAA
Found at i:44873642 original size:43 final size:43
Alignment explanation
Indices: 44873594--44873693 Score: 110
Period size: 43 Copynumber: 2.3 Consensus size: 43
44873584 ATGAGTTGTA
* * * *
44873594 GGAGGCACACGGGTGTGTGTCAGGGTGTATGACTATACTGTTT
1 GGAGGCACACGGGCGTGTGTCAAGATGTATGACTATACTATTT
* * * **
44873637 GGAGGCACACAGGCGTGTGTTAAGATGTGTGTGTATACTATTT
1 GGAGGCACACGGGCGTGTGTCAAGATGTATGACTATACTATTT
*
44873680 GAAGGCACACGGGC
1 GGAGGCACACGGGC
44873694 TGGCACACGG
Statistics
Matches: 46, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.22, C:0.15, G:0.36, T:0.27
Consensus pattern (43 bp):
GGAGGCACACGGGCGTGTGTCAAGATGTATGACTATACTATTT
Found at i:44874796 original size:43 final size:41
Alignment explanation
Indices: 44874748--44874843 Score: 129
Period size: 43 Copynumber: 2.3 Consensus size: 41
44874738 GAGTTGCAAG
* *
44874748 AGGCACACGGGCGTGTGTCAGGGTGTGTGAGTATACCGTTTGA
1 AGGCACACGGGCATGTGTCAAGGTGTGT--GTATACCGTTTGA
* * *
44874791 AGGCACACAGGCATGTGTCAAGGTGTGTGTATACTGTTTGG
1 AGGCACACGGGCATGTGTCAAGGTGTGTGTATACCGTTTGA
44874832 AGGCACACGGGC
1 AGGCACACGGGC
44874844 TGACACACAG
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
41 22 0.47
43 25 0.53
ACGTcount: A:0.21, C:0.18, G:0.38, T:0.24
Consensus pattern (41 bp):
AGGCACACGGGCATGTGTCAAGGTGTGTGTATACCGTTTGA
Found at i:44874851 original size:53 final size:53
Alignment explanation
Indices: 44874794--44874940 Score: 192
Period size: 53 Copynumber: 2.8 Consensus size: 53
44874784 CGTTTGAAGG
44874794 CACACAGGCATGTGTCAAGGTGTGTGTATACTGTTTGGAGGCACACGGGCTGA
1 CACACAGGCATGTGTCAAGGTGTGTGTATACTGTTTGGAGGCACACGGGCTGA
* * * *
44874847 CACACAGGCGTGTGTCAGGGTGTGTGTATA-TAGTTTGGAGACACACGGGCTGG
1 CACACAGGCATGTGTCAAGGTGTGTGTATACT-GTTTGGAGGCACACGGGCTGA
* *
44874900 CACAC-GAGTATGTGTC-AGGATATGTGTATACTGTTTGGAGG
1 CACACAG-GCATGTGTCAAGG-TGTGTGTATACTGTTTGGAGG
44874941 TAGAAGGGTG
Statistics
Matches: 81, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
52 4 0.05
53 76 0.94
54 1 0.01
ACGTcount: A:0.22, C:0.16, G:0.35, T:0.27
Consensus pattern (53 bp):
CACACAGGCATGTGTCAAGGTGTGTGTATACTGTTTGGAGGCACACGGGCTGA
Found at i:44875055 original size:41 final size:41
Alignment explanation
Indices: 44874994--44875072 Score: 122
Period size: 41 Copynumber: 1.9 Consensus size: 41
44874984 CACAGGCTGA
* * * *
44874994 TACATGGGCGTGTGTTAGGGTGTGTGTATATTGTTTTGGGG
1 TACATGGCCGTGTGTCAGGGTGTGTGCATAATGTTTTGGGG
44875035 TACATGGCCGTGTGTCAGGGTGTGTGCATAATGTTTTG
1 TACATGGCCGTGTGTCAGGGTGTGTGCATAATGTTTTG
44875073 AGACACATGG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.14, C:0.09, G:0.38, T:0.39
Consensus pattern (41 bp):
TACATGGCCGTGTGTCAGGGTGTGTGCATAATGTTTTGGGG
Found at i:44875081 original size:41 final size:41
Alignment explanation
Indices: 44874995--44875082 Score: 113
Period size: 41 Copynumber: 2.1 Consensus size: 41
44874985 ACAGGCTGAT
* * * * * **
44874995 ACATGGGCGTGTGTTAGGGTGTGTGTATATTGTTTTGGGGT
1 ACATGGCCGTGTGTCAGGGTGTGTGCATAATGTTTTGAGAC
44875036 ACATGGCCGTGTGTCAGGGTGTGTGCATAATGTTTTGAGAC
1 ACATGGCCGTGTGTCAGGGTGTGTGCATAATGTTTTGAGAC
44875077 ACATGG
1 ACATGG
44875083 TCTGTAATAA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.17, C:0.10, G:0.38, T:0.35
Consensus pattern (41 bp):
ACATGGCCGTGTGTCAGGGTGTGTGCATAATGTTTTGAGAC
Found at i:44875594 original size:40 final size:40
Alignment explanation
Indices: 44875491--44875597 Score: 108
Period size: 40 Copynumber: 2.7 Consensus size: 40
44875481 GAATATTTAT
* * * *
44875491 TGAACTGGCAGTGACACTGTTAACATTGCAAGATTTCAAC
1 TGAACTGACAGTGACACTGTAAACACTGCAAGATTACAAC
* * ** *
44875531 T-AAATCGACCGTGGTACTATAAACACTGCAAGATTACAAC
1 TGAACT-GACAGTGACACTGTAAACACTGCAAGATTACAAC
*
44875571 TGAACTGATAGTGACACTGTAAACACT
1 TGAACTGACAGTGACACTGTAAACACT
44875598 ACGATGTGTC
Statistics
Matches: 50, Mismatches: 15, Indels: 4
0.72 0.22 0.06
Matches are distributed among these distances:
39 3 0.06
40 44 0.88
41 3 0.06
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.25
Consensus pattern (40 bp):
TGAACTGACAGTGACACTGTAAACACTGCAAGATTACAAC
Found at i:44875747 original size:29 final size:29
Alignment explanation
Indices: 44875700--44875779 Score: 79
Period size: 29 Copynumber: 2.8 Consensus size: 29
44875690 TCTGCCTCTG
* * * * * *
44875700 TAACTATATCTATATCATGTCTACTTCCG
1 TAACTATATTTGTAACATGACTACATCCA
* * *
44875729 TAACTATGTTTGTGACATGACTGCATCCA
1 TAACTATATTTGTAACATGACTACATCCA
44875758 TAACTATATTTGTAACATGACT
1 TAACTATATTTGTAACATGACT
44875780 GTATCTGTAA
Statistics
Matches: 40, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.30, C:0.20, G:0.11, T:0.39
Consensus pattern (29 bp):
TAACTATATTTGTAACATGACTACATCCA
Found at i:44875790 original size:29 final size:29
Alignment explanation
Indices: 44875728--44875817 Score: 108
Period size: 29 Copynumber: 3.1 Consensus size: 29
44875718 GTCTACTTCC
* * *
44875728 GTAACTATGTTTGTGACATGACTGCATCC
1 GTAACTATATTTGTGACATGACTGTATCT
* *
44875757 ATAACTATATTTGTAACATGACTGTATCT
1 GTAACTATATTTGTGACATGACTGTATCT
* * *
44875786 GTAACTGTATCTGTGACATGATTGTATCT
1 GTAACTATATTTGTGACATGACTGTATCT
44875815 GTA
1 GTA
44875818 TTATTTCTAT
Statistics
Matches: 51, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 51 1.00
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.39
Consensus pattern (29 bp):
GTAACTATATTTGTGACATGACTGTATCT
Found at i:44882749 original size:1 final size:1
Alignment explanation
Indices: 44882743--44882777 Score: 70
Period size: 1 Copynumber: 35.0 Consensus size: 1
44882733 TTGTTTCCAA
44882743 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
44882778 AAGAAAAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 34 1.00
ACGTcount: A:0.00, C:0.00, G:1.00, T:0.00
Consensus pattern (1 bp):
G
Found at i:44886303 original size:22 final size:21
Alignment explanation
Indices: 44886259--44886308 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
44886249 TTAATCAGAT
*
44886259 ATTAATTTAATTAAAAAATTAA
1 ATTAA-TTAATTAAAAAAGTAA
*
44886281 ATTAATTAATTAATAAAGGTAA
1 ATTAATTAATTAA-AAAAGTAA
*
44886303 AGTAAT
1 ATTAAT
44886309 GGCTTTTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 8 0.33
22 16 0.67
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (21 bp):
ATTAATTAATTAAAAAAGTAA
Found at i:44888321 original size:26 final size:27
Alignment explanation
Indices: 44888283--44888336 Score: 101
Period size: 26 Copynumber: 2.0 Consensus size: 27
44888273 GAAGTATGAT
44888283 TTCATTTTATTTGGAAGAGAAGTAACG
1 TTCATTTTATTTGGAAGAGAAGTAACG
44888310 TTCA-TTTATTTGGAAGAGAAGTAACG
1 TTCATTTTATTTGGAAGAGAAGTAACG
44888336 T
1 T
44888337 AGATAAAGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 23 0.85
27 4 0.15
ACGTcount: A:0.33, C:0.07, G:0.22, T:0.37
Consensus pattern (27 bp):
TTCATTTTATTTGGAAGAGAAGTAACG
Found at i:44900971 original size:12 final size:11
Alignment explanation
Indices: 44900946--44900976 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 11
44900936 ATTGAAAAGG
44900946 TTATTATTATA
1 TTATTATTATA
44900957 TTATTATTAATA
1 TTATTATT-ATA
44900969 TTATTATT
1 TTATTATT
44900977 TCCTAAATTC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
TTATTATTATA
Found at i:44903328 original size:30 final size:31
Alignment explanation
Indices: 44903292--44903363 Score: 85
Period size: 30 Copynumber: 2.4 Consensus size: 31
44903282 GTTACGTGTA
*
44903292 ACAAAACAATCACTCAACTT-T-GAAAATGTG
1 ACAAAACAATCACTAAACTTATCGAAAA-GTG
* *
44903322 ACAAAACAGTCACTAAAGTTATCGAAAAGTG
1 ACAAAACAATCACTAAACTTATCGAAAAGTG
*
44903353 ACAAAATAATC
1 ACAAAACAATC
44903364 CTCTTGTTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
30 17 0.49
31 13 0.37
32 5 0.14
ACGTcount: A:0.50, C:0.18, G:0.11, T:0.21
Consensus pattern (31 bp):
ACAAAACAATCACTAAACTTATCGAAAAGTG
Found at i:44904706 original size:31 final size:30
Alignment explanation
Indices: 44904663--44904734 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 30
44904653 ACAACAAGAG
* * *
44904663 GACTATTTTGTCAC-TTTTTGATAACTTTAGT
1 GACTGTTTTGTCACATTTCT-A-AACTTGAGT
*
44904694 GACTGTTTTGTCACATTTCTAAAGTTGAGT
1 GACTGTTTTGTCACATTTCTAAACTTGAGT
44904724 GACTGTTTTGT
1 GACTGTTTTGT
44904735 TAAACGTAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
30 18 0.50
31 14 0.39
32 4 0.11
ACGTcount: A:0.21, C:0.12, G:0.18, T:0.49
Consensus pattern (30 bp):
GACTGTTTTGTCACATTTCTAAACTTGAGT
Found at i:44904884 original size:30 final size:31
Alignment explanation
Indices: 44904830--44904888 Score: 102
Period size: 30 Copynumber: 1.9 Consensus size: 31
44904820 AAAAAAACTG
44904830 TTGTCACATTTTCAAAAATTGAGGGACTGTT
1 TTGTCACATTTTCAAAAATTGAGGGACTGTT
*
44904861 TTGTCACATTTTC-AAAGTTGAGGGACTG
1 TTGTCACATTTTCAAAAATTGAGGGACTG
44904889 AAATGTAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
30 14 0.52
31 13 0.48
ACGTcount: A:0.27, C:0.14, G:0.22, T:0.37
Consensus pattern (31 bp):
TTGTCACATTTTCAAAAATTGAGGGACTGTT
Found at i:44907601 original size:33 final size:32
Alignment explanation
Indices: 44907525--44907603 Score: 81
Period size: 33 Copynumber: 2.4 Consensus size: 32
44907515 ATGTGCTACC
*
44907525 ATTGTTAACTTTTAGACTTACTTTATGTTGCT
1 ATTGTTAACTTTTAAACTTACTTTATGTTGCT
* *
44907557 -TTTTTAAAACTTTTAAAACTT-CTTCTATGTTGGT
1 ATTGTT--AACTTTT-AAACTTACTT-TATGTTGCT
44907591 ATTGTTAACTTTT
1 ATTGTTAACTTTT
44907604 TGTTTGGTTG
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
31 4 0.11
33 17 0.45
34 13 0.34
35 4 0.11
ACGTcount: A:0.24, C:0.11, G:0.10, T:0.54
Consensus pattern (32 bp):
ATTGTTAACTTTTAAACTTACTTTATGTTGCT
Found at i:44907925 original size:44 final size:44
Alignment explanation
Indices: 44907856--44907944 Score: 142
Period size: 44 Copynumber: 2.0 Consensus size: 44
44907846 TAGATCACCA
*
44907856 AAATAGCCTATGTGGCATGCCACATAAGCATAATGATATCATCG
1 AAATAGCCTATGTGGCATGCCACATAAGCATAATGACATCATCG
* * *
44907900 AAATAGTCTATGTGGCGTGCTACATAAGCATAATGACATCATCG
1 AAATAGCCTATGTGGCATGCCACATAAGCATAATGACATCATCG
44907944 A
1 A
44907945 TGACGTCATC
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (44 bp):
AAATAGCCTATGTGGCATGCCACATAAGCATAATGACATCATCG
Found at i:44911519 original size:21 final size:20
Alignment explanation
Indices: 44911494--44911541 Score: 51
Period size: 22 Copynumber: 2.3 Consensus size: 20
44911484 AAATCCAATC
44911494 AATTATATTTAATAAATAATA
1 AATTATATTTAATAAAT-ATA
* *
44911515 AATTAATTTTTATTAAATATA
1 AATT-ATATTTAATAAATATA
*
44911536 ATTTAT
1 AATTAT
44911542 TAAATTTAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 2 0.09
21 10 0.43
22 11 0.48
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
AATTATATTTAATAAATATA
Found at i:44922290 original size:3 final size:3
Alignment explanation
Indices: 44922282--44922326 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
44922272 AGCTAGGATC
44922282 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
44922327 GTTGTTGTTG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:44922331 original size:3 final size:3
Alignment explanation
Indices: 44922325--44922359 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
44922315 ATTATTATTA
44922325 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
44922360 ATTTAATTCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:44923596 original size:97 final size:102
Alignment explanation
Indices: 44923440--44923696 Score: 337
Period size: 97 Copynumber: 2.5 Consensus size: 102
44923430 TGAAAAAAAA
* *
44923440 TTTGGTGTTGGCCATTGC-ATGGCCGACACCCCTTTTTAATCTGATAAAAAAAATCAAATTTTTG
1 TTTGGTGTTGGCCA-TGCAATGGCCGAAACCCCTATTT-ATCTGATAAAAAAAATCAAATTTTTG
44923504 GGTGTCGACCATTG-TCAGAT-AAAAAA-TTC-AA-TTT
64 GGTGTCGACCATTGTTCAGATAAAAAAATTTCAAATTTT
* *
44923538 TTTGGTATTGGCCATGCAATGGTCGAAACCCCTATTTATCTGATAAAAAAAATCAAATTTTTGGG
1 TTTGGTGTTGGCCATGCAATGGCCGAAACCCCTATTTATCTGATAAAAAAAATCAAATTTTTGGG
*
44923603 TGTCGGCCATTGCTTTTCAGATAAAAAAATTTCAAATTTT
66 TGTCGACCATTG---TTCAGATAAAAAAATTTCAAATTTT
*
44923643 TTTGGTGTTGGCCATGCAATGGCCGACCGACACCCCTATTTATTTGATAAAAAA
1 TTTGGTGTTGGCCATGCAATGGCCGA---A-ACCCCTATTTATCTGATAAAAAA
44923697 TGCATGGCCA
Statistics
Matches: 138, Mismatches: 8, Indels: 15
0.86 0.05 0.09
Matches are distributed among these distances:
97 42 0.30
98 29 0.21
101 6 0.04
102 6 0.04
103 3 0.02
104 2 0.01
105 27 0.20
108 1 0.01
109 22 0.16
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.34
Consensus pattern (102 bp):
TTTGGTGTTGGCCATGCAATGGCCGAAACCCCTATTTATCTGATAAAAAAAATCAAATTTTTGGG
TGTCGACCATTGTTCAGATAAAAAAATTTCAAATTTT
Found at i:44923779 original size:61 final size:59
Alignment explanation
Indices: 44923696--44923865 Score: 184
Period size: 63 Copynumber: 2.8 Consensus size: 59
44923686 TTGATAAAAA
*
44923696 ATGC-ATGGCCAACACCTCCTTTTCTCAGATAAAAAAATTCAAATTTTTTTTATGCTGACC
1 ATGCAATGGCCGACACCT-CTTTT-TCAGATAAAAAAATTCAAATTTTTTTTATGCTGACC
* * **
44923756 ATGCAATGGTCGACACCCTCTTTTTGCAGATAAAAAAATTTCAAATTTTTTTTTATGTTGGTC
1 ATGCAATGGCCGACA-CCTCTTTTT-CAGATAAAAAAA-TTCAAA-TTTTTTTTATGCTGACC
* *
44923819 ATGCAATGGCCGACACTTCTATTTATCTGAT-AAAAAATT-AAATTTTT
1 ATGCAATGGCCGACACCTCT-TTT-TCAGATAAAAAAATTCAAATTTTT
44923866 GGGTGTTGGC
Statistics
Matches: 95, Mismatches: 8, Indels: 15
0.81 0.07 0.13
Matches are distributed among these distances:
59 5 0.05
60 8 0.08
61 27 0.28
62 19 0.20
63 35 0.37
64 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.12, T:0.38
Consensus pattern (59 bp):
ATGCAATGGCCGACACCTCTTTTTCAGATAAAAAAATTCAAATTTTTTTTATGCTGACC
Found at i:44923973 original size:59 final size:59
Alignment explanation
Indices: 44923889--44924067 Score: 184
Period size: 60 Copynumber: 3.0 Consensus size: 59
44923879 TGTCTTTTCT
* * *
44923889 CAGATAAAAAAATTTCAAA-ATTTTTTGATGTTGGTCATGTAATGGCCTATACCCCTTTTTG
1 CAGAT-AAAAAATTTCAAATATTTTTTG-TGTTGGCCATGTAATGGCCGACA-CCCTTTTTG
* * *
44923950 CAGATAAAAAATTT-TAATTTTTTTTGTGTTGGCCATGTAATGGCCGACACCCTTTTTT
1 CAGATAAAAAATTTCAAATATTTTTTGTGTTGGCCATGTAATGGCCGACACCCTTTTTG
* * * **
44924008 TAGATAAAAAAAATTCAAAT-TTTGTTGGTGTTGGCCATGCCATGGCCGACATCCCTTTTT
1 CAGAT-AAAAAATTTCAAATATTT-TTTGTGTTGGCCATGTAATGGCCGACA-CCCTTTTT
44924068 TATTTCGTAA
Statistics
Matches: 101, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
58 12 0.12
59 33 0.33
60 43 0.43
61 13 0.13
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.39
Consensus pattern (59 bp):
CAGATAAAAAATTTCAAATATTTTTTGTGTTGGCCATGTAATGGCCGACACCCTTTTTG
Found at i:44923980 original size:107 final size:107
Alignment explanation
Indices: 44923774--44923985 Score: 261
Period size: 107 Copynumber: 2.0 Consensus size: 107
44923764 GTCGACACCC
* * **
44923774 TCTTTTTGCAGATAAAAAAATTTCAAATTTTTTTTTATGTTGGTCATGCAATGGCCGACACTTCT
1 TCTTTTTGCAGATAAAAAAATTTCAAATATTTTTTGATGTTGGTCATGCAATGGCCGACACCCCT
*
44923839 ATTTATCTGATAAAAAATTAAATTTTTGGGTGTTGGCCATTG
66 ATTTATCAGATAAAAAATTAAATTTTTGGGTGTTGGCCATTG
* * *
44923881 TCTTTTCT-CAGATAAAAAAATTTCAAA-ATTTTTTGATGTTGGTCATGTAATGGCCTATACCCC
1 TCTTTT-TGCAGATAAAAAAATTTCAAATATTTTTTGATGTTGGTCATGCAATGGCCGACACCCC
* **
44923944 T-TTT-TGCAGATAAAAAATTTTAATTTTTTTTGTGTTGGCCAT
65 TATTTAT-CAGATAAAAAA--TTAAATTTTTGGGTGTTGGCCAT
44923986 GTAATGGCCG
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
104 1 0.01
105 13 0.14
106 30 0.33
107 45 0.50
108 1 0.01
ACGTcount: A:0.29, C:0.13, G:0.15, T:0.44
Consensus pattern (107 bp):
TCTTTTTGCAGATAAAAAAATTTCAAATATTTTTTGATGTTGGTCATGCAATGGCCGACACCCCT
ATTTATCAGATAAAAAATTAAATTTTTGGGTGTTGGCCATTG
Found at i:44924008 original size:60 final size:60
Alignment explanation
Indices: 44923883--44924118 Score: 216
Period size: 59 Copynumber: 4.0 Consensus size: 60
44923873 GGCCATTGTC
* * * * * * *
44923883 TTTTCTCAGATAAAAAAATTTCAAAATTTTTTGATGTTGGTCATGTAATGGCCTATACCCC
1 TTTTTTCAGATAAAAAAATTT-TAAATTTTTTGGTGTTGGCCATGTAATGGCCGACACCCT
* * *
44923944 TTTTTGCAGAT-AAAAAATTTTAATTTTTTTTGTGTTGGCCATGTAATGGCCGACACCCT
1 TTTTTTCAGATAAAAAAATTTTAAATTTTTTGGTGTTGGCCATGTAATGGCCGACACCCT
* * **
44924003 TTTTTT-AGATAAAAAAAATTCAAATTTTGTTGGTGTTGGCCATGCCATGGCCGACATCCCTTT
1 TTTTTTCAGATAAAAAAATTTTAAATTTT-TTGGTGTTGGCCATGTAATGGCCGACA-CCC--T
** *
44924066 TTTATTTC-G-T-AAAAAA--TTAAATTTTTTGGTGTTGATCATGTAATGACCGACAC
1 TTT-TTTCAGATAAAAAAATTTTAAATTTTTTGGTGTTGGCCATGTAATGGCCGACAC
44924119 TAACTTTCTC
Statistics
Matches: 145, Mismatches: 23, Indels: 17
0.78 0.12 0.09
Matches are distributed among these distances:
58 5 0.03
59 72 0.50
60 41 0.28
61 12 0.08
62 6 0.04
63 5 0.03
64 4 0.03
ACGTcount: A:0.29, C:0.15, G:0.16, T:0.40
Consensus pattern (60 bp):
TTTTTTCAGATAAAAAAATTTTAAATTTTTTGGTGTTGGCCATGTAATGGCCGACACCCT
Found at i:44924953 original size:17 final size:17
Alignment explanation
Indices: 44924933--44924987 Score: 64
Period size: 17 Copynumber: 3.5 Consensus size: 17
44924923 AAAAAATAAT
44924933 AATTAGAATATACAGGA
1 AATTAGAATATACAGGA
*
44924950 AATTAGAA-A-ATA--A
1 AATTAGAATATACAGGA
*
44924963 AATTAAAATATACAGGA
1 AATTAGAATATACAGGA
44924980 AATTAGAA
1 AATTAGAA
44924988 ATTAAATTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
13 8 0.27
14 1 0.03
15 4 0.13
16 1 0.03
17 16 0.53
ACGTcount: A:0.60, C:0.04, G:0.13, T:0.24
Consensus pattern (17 bp):
AATTAGAATATACAGGA
Found at i:44924973 original size:30 final size:30
Alignment explanation
Indices: 44924925--44925030 Score: 122
Period size: 30 Copynumber: 3.5 Consensus size: 30
44924915 AAATTTTTAA
*
44924925 AAAATAATAATTAGAATATACAGGAAATTAG
1 AAAATAA-AATTAAAATATACAGGAAATTAG
44924956 AAAATAAAATTAAAATATACAGGAAATTAG
1 AAAATAAAATTAAAATATACAGGAAATTAG
* * * * * *
44924986 AAATTAAATTTAAAATAAAAATGAAATTAC
1 AAAATAAAATTAAAATATACAGGAAATTAG
* *
44925016 AAATTAAATTTAAAA
1 AAAATAAAATTAAAA
44925031 AATAAACGGA
Statistics
Matches: 68, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
30 61 0.90
31 7 0.10
ACGTcount: A:0.62, C:0.03, G:0.08, T:0.27
Consensus pattern (30 bp):
AAAATAAAATTAAAATATACAGGAAATTAG
Found at i:44926245 original size:19 final size:19
Alignment explanation
Indices: 44926207--44926251 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
44926197 TTATTTTTTT
44926207 AAAA-ATTTGAAAATATAA
1 AAAATATTTGAAAATATAA
44926225 AAAATATTTCGAAAATA-AA
1 AAAATATTT-GAAAATATAA
44926244 AAAATATT
1 AAAATATT
44926252 ATAAAAAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.16
19 14 0.56
20 7 0.28
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.29
Consensus pattern (19 bp):
AAAATATTTGAAAATATAA
Found at i:44926247 original size:28 final size:28
Alignment explanation
Indices: 44926216--44926269 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 28
44926206 TAAAAATTTG
44926216 AAAATA-TA-AAAAATATTTCGAAAATAAA
1 AAAATATTATAAAAA-ATTT-GAAAATAAA
44926244 AAAATATTATAAAAAATTTGAAAATA
1 AAAATATTATAAAAAATTTGAAAATA
44926270 TATTTTACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
28 13 0.54
29 6 0.25
30 5 0.21
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.28
Consensus pattern (28 bp):
AAAATATTATAAAAAATTTGAAAATAAA
Found at i:44926259 original size:20 final size:20
Alignment explanation
Indices: 44926216--44926274 Score: 57
Period size: 20 Copynumber: 2.9 Consensus size: 20
44926206 TAAAAATTTG
**
44926216 AAAATATAAAAAATATTTCG
1 AAAATATAAAAAATATTTAA
44926236 AAAATA-AAAAAATATTATAA
1 AAAATATAAAAAATATT-TAA
* *
44926256 AAAATTTGAAAATATATTT
1 AAAATAT-AAAAAATATTT
44926275 TACATCATCT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
19 10 0.31
20 12 0.38
21 1 0.03
22 9 0.28
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (20 bp):
AAAATATAAAAAATATTTAA
Found at i:44927348 original size:22 final size:23
Alignment explanation
Indices: 44927299--44927357 Score: 86
Period size: 22 Copynumber: 2.7 Consensus size: 23
44927289 TTGAGGTGTT
44927299 GGTGAGCTGGAATTTCGGTTTTA
1 GGTGAGCTGGAATTTCGGTTTTA
*
44927322 -CTGAGCTGGAATTTCGG-TTTA
1 GGTGAGCTGGAATTTCGGTTTTA
*
44927343 GGTGAGCTGAAATTT
1 GGTGAGCTGGAATTT
44927358 GGGTGGTCCA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 4 0.12
22 28 0.88
ACGTcount: A:0.20, C:0.10, G:0.32, T:0.37
Consensus pattern (23 bp):
GGTGAGCTGGAATTTCGGTTTTA
Found at i:44927553 original size:84 final size:84
Alignment explanation
Indices: 44927450--44928184 Score: 1150
Period size: 84 Copynumber: 8.7 Consensus size: 84
44927440 TAAATTTAAA
* * *
44927450 ATTTGATAAAAAGTATAATATAATAATAATTTTTTATTTAAATATTTAAAATTAATAAATAATAT
1 ATTTGATAAAAATTGTAATATAATAATAATTTTTTATTTAAATATTTAAAATTAATAAATAATGT
*
44927515 ATTATCAAATCAACATATT
66 ATTATCAAATCAACACATT
* *
44927534 ATTTGATAAAAATTGTAATATAATAATAATTTTTTATTTAAATATTTAAAATTAGTAAATAATAT
1 ATTTGATAAAAATTGTAATATAATAATAATTTTTTATTTAAATATTTAAAATTAATAAATAATGT
44927599 ATTATCAAATCAACACATT
66 ATTATCAAATCAACACATT
* *
44927618 ATTTGAAAAAAATTGTAATATAATAATAATTTTTTATTTAAATATTTAAAATTAGTAAATAATGT
1 ATTTGATAAAAATTGTAATATAATAATAATTTTTTATTTAAATATTTAAAATTAATAAATAATGT
*
44927683 ATTATAAAATCAACACATT
66 ATTATCAAATCAACACATT
* *
44927702 ATTTGATAAAAAATTATAATATAATAATATTTTTTTATTTAAATATTTAAAATTAATAAATAATG
1 ATTTGAT-AAAAATTGTAATATAATAATAATTTTTTATTTAAATATTTAAAATTAATAAATAATG
*
44927767 TATTGTCAAATCAACACATT
65 TATTATCAAATCAACACATT
* *
44927787 ATTTGATAAAAATTGTAATATAATAATAATTTTTTATTTAAATATTTAAACTTAATAAATAATAT
1 ATTTGATAAAAATTGTAATATAATAATAATTTTTTATTTAAATATTTAAAATTAATAAATAATGT
44927852 ATTATCAAATCAACACATT
66 ATTATCAAATCAACACATT
*
44927871 ATTTGATAAAAATTATAATATAATAATAATTTTTTATTTAAATATTTAAAATTAATAAATAATGT
1 ATTTGATAAAAATTGTAATATAATAATAATTTTTTATTTAAATATTTAAAATTAATAAATAATGT
* * *
44927936 ATTGTCAAATCAATATATT
66 ATTATCAAATCAACACATT
*
44927955 ATTTGATAAAAATTGTAATATAATAATAATTTTTTATTTAAATATTTAAAATTAGTAAATAATGT
1 ATTTGATAAAAATTGTAATATAATAATAATTTTTTATTTAAATATTTAAAATTAATAAATAATGT
* *
44928020 ATTACCAATTCAACACATT
66 ATTATCAAATCAACACATT
* * *
44928039 ATTTGATAAAAATTGTAATAAAATAATAATCTTTTTTTATTTAAATA-TGAAAATTTGATAAATA
1 ATTTGATAAAAATTGTAATATAATAATAA---TTTTTTATTTAAATATTTAAAA-TTAATAAATA
44928103 ATGTATTATCAAATCAACACATT
62 ATGTATTATCAAATCAACACATT
*
44928126 ATTTGATAAAAATTATAATATAATAATAATCTTTTTTATTTAAATAATGTT-AAATTAAT
1 ATTTGATAAAAATTGTAATATAATAATAA--TTTTTTATTTAAAT-AT-TTAAAATTAAT
44928185 TTTAAATGTA
Statistics
Matches: 600, Mismatches: 43, Indels: 13
0.91 0.07 0.02
Matches are distributed among these distances:
84 422 0.70
85 79 0.13
86 19 0.03
87 76 0.13
88 3 0.00
89 1 0.00
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.43
Consensus pattern (84 bp):
ATTTGATAAAAATTGTAATATAATAATAATTTTTTATTTAAATATTTAAAATTAATAAATAATGT
ATTATCAAATCAACACATT
Found at i:44932422 original size:242 final size:239
Alignment explanation
Indices: 44931993--44932681 Score: 825
Period size: 242 Copynumber: 2.9 Consensus size: 239
44931983 AGGGGAAGTT
* * *
44931993 GGTGTCGGCCATTACATGGTCAACACCAAAAAATTTAATTTTTTATCAAATAAAAAGGGGGTGTC
1 GGTGTCGGCCATTACATGGCCAACACCAAAAAATTTATTTTTTTATCAGAT-AAAA-GGGGTGTC
* * * *
44932058 GGCCATGGCATGGCTAACACCAACAAAATTTGAAATTTTTTATCTGAAA-AAA-AGGAGTGTCGG
64 GGCCAT-GCATGGCCAACACCCA-AAAATTT-AATTTTTTTATC--AAATAAATAGGGGTGTCGG
** * *
44932121 CCATTGCATTCCCAACACAAAAAAAAATTTGAAA-TTTTTTATCAGCAAAAAGGGGGTGTCGGCC
124 CCATTGCATGGCCAACAC-CAAAAAAATTTGAAATTTTTTTATCTGCAAAAAGGGGGTGTCGGCC
* * *
44932185 GTTGCATGGCCAACACCAAAAAAATTTAAAATTTTTTTATTTG-AGAAAAGGA
188 ATTGCATGGCCAACACCAAAAAAAATTAAAATTTTTTTATCTGTA-AAAAGGA
* *
44932237 GGTGTCGGCCATTGCATGGCCAACACCCAAAAATTTGATTTTTTTATCAGATAAATAGGGGTGTC
1 GGTGTCGGCCATTACATGGCCAACACCAAAAAATTT-ATTTTTTTATCAGATAAA-AGGGGTGTC
44932302 GGCCATTGCATGGCCAACACCCAAAAATTTAATTTTTTTATCAAATAAATAGGGGTGTCGGCCAT
64 GGCCA-TGCATGGCCAACACCCAAAAATTTAATTTTTTTATCAAATAAATAGGGGTGTCGGCCAT
* *
44932367 TGCATGGTCAACACCAAAAAAATTTGAAATTTTTTTATTTGCAAAAAGGGGGTGTCGGCCATTGC
128 TGCATGGCCAACACCAAAAAAATTTGAAATTTTTTTATCTGCAAAAAGGGGGTGTCGGCCATTGC
* * *
44932432 ATGGCCCACACCAAAAAAAATTGAAATTTTTTTATCTGTAAAAAGGG
193 ATGGCCAACACCAAAAAAAATTAAAATTTTTTTATCTGTAAAAAGGA
* * *
44932479 GGTGTCGGCCATTACATGACCAACACAAAAAAAATTTAAAATTTTTTTATCTGATAAAA-----G
1 GGTGTCGGCCATTACATGGCCAACAC-CAAAAAATTT---ATTTTTTTATCAGATAAAAGGGGTG
* *
44932539 --GG--A---ATGGCCAACACCCAAAAATTTAATTTTTTTAATCAGATAAATAGGGGTGTCGGTC
62 TCGGCCATGCATGGCCAACACCCAAAAATTTAATTTTTTT-ATCAAATAAATAGGGGTGTCGGCC
* * * *
44932597 ATTTCATGGCCAACACCAAAAAAATTTGAATTTTTTTTATCTGAAAAAAGGGAGTGTCGGCCATT
126 ATTGCATGGCCAACACCAAAAAAATTTGAAATTTTTTTATCTGCAAAAAGGGGGTGTCGGCCATT
* *
44932662 GTATGGCCAACACCCAAAAA
191 GCATGGCCAACACCAAAAAA
44932682 TTTGATTTTT
Statistics
Matches: 396, Mismatches: 38, Indels: 34
0.85 0.08 0.07
Matches are distributed among these distances:
231 30 0.08
232 98 0.25
235 1 0.00
237 2 0.01
239 1 0.00
240 3 0.01
241 17 0.04
242 132 0.33
243 16 0.04
244 64 0.16
245 32 0.08
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.29
Consensus pattern (239 bp):
GGTGTCGGCCATTACATGGCCAACACCAAAAAATTTATTTTTTTATCAGATAAAAGGGGTGTCGG
CCATGCATGGCCAACACCCAAAAATTTAATTTTTTTATCAAATAAATAGGGGTGTCGGCCATTGC
ATGGCCAACACCAAAAAAATTTGAAATTTTTTTATCTGCAAAAAGGGGGTGTCGGCCATTGCATG
GCCAACACCAAAAAAAATTAAAATTTTTTTATCTGTAAAAAGGA
Found at i:44932538 original size:62 final size:61
Alignment explanation
Indices: 44931993--44932540 Score: 584
Period size: 62 Copynumber: 9.0 Consensus size: 61
44931983 AGGGGAAGTT
* * * **
44931993 GGTGTCGGCCATTACATGGTCAACACCAAAAAATTT--AA-TTTTTTATCAAATAAAAAGGG
1 GGTGTCGGCCATTGCATGGCCAACACAAAAAAATTTGAAATTTTTTTATCTGAT-AAAAGGG
* * * * *
44932052 GGTGTCGGCCATGGCATGGCTAACACCAACAAAATTTGAAA-TTTTTTATCTGAAAAAAAGG
1 GGTGTCGGCCATTGCATGGCCAACA-CAAAAAAATTTGAAATTTTTTTATCTGATAAAAGGG
* ** *
44932113 AGTGTCGGCCATTGCATTCCCAACACAAAAAAAAATTTGAAA-TTTTTTATCAGCA-AAAAGGG
1 GGTGTCGGCCATTGCATGGCCAACAC--AAAAAAATTTGAAATTTTTTTATCTG-ATAAAAGGG
* * * * *
44932175 GGTGTCGGCCGTTGCATGGCCAACACCAAAAAAATTTAAAATTTTTTTATTTGAGAAAAGGA
1 GGTGTCGGCCATTGCATGGCCAACA-CAAAAAAATTTGAAATTTTTTTATCTGATAAAAGGG
** *
44932237 GGTGTCGGCCATTGCATGGCCAACACCCAAAAATTTG--ATTTTTTTATCAGATAAATA-GG
1 GGTGTCGGCCATTGCATGGCCAACACAAAAAAATTTGAAATTTTTTTATCTGATAAA-AGGG
** **
44932296 GGTGTCGGCCATTGCATGGCCAACACCCAAAAATTT--AATTTTTTTATCAAATAAATA-GG
1 GGTGTCGGCCATTGCATGGCCAACACAAAAAAATTTGAAATTTTTTTATCTGATAAA-AGGG
* *
44932355 GGTGTCGGCCATTGCATGGTCAACACCAAAAAAATTTGAAATTTTTTTATTTGCA-AAAAGGG
1 GGTGTCGGCCATTGCATGGCCAACA-CAAAAAAATTTGAAATTTTTTTATCTG-ATAAAAGGG
* *
44932417 GGTGTCGGCCATTGCATGGCCCACACCAAAAAAAATTGAAATTTTTTTATCTG-TAAAAAGGG
1 GGTGTCGGCCATTGCATGGCCAACA-CAAAAAAATTTGAAATTTTTTTATCTGAT-AAAAGGG
* * *
44932479 GGTGTCGGCCATTACATGACCAACACAAAAAAAATTTAAAATTTTTTTATCTGATAAAAGGG
1 GGTGTCGGCCATTGCATGGCCAACAC-AAAAAAATTTGAAATTTTTTTATCTGATAAAAGGG
44932541 AATGGCCAAC
Statistics
Matches: 419, Mismatches: 50, Indels: 37
0.83 0.10 0.07
Matches are distributed among these distances:
59 118 0.28
60 20 0.05
61 51 0.12
62 226 0.54
63 4 0.01
ACGTcount: A:0.36, C:0.16, G:0.19, T:0.29
Consensus pattern (61 bp):
GGTGTCGGCCATTGCATGGCCAACACAAAAAAATTTGAAATTTTTTTATCTGATAAAAGGG
Found at i:44932623 original size:108 final size:108
Alignment explanation
Indices: 44932447--44932649 Score: 284
Period size: 108 Copynumber: 1.9 Consensus size: 108
44932437 CCACACCAAA
*
44932447 AAAAATTGAAATTTTTTTATCTGTAAAAAGGGGGTGTCGGCCATTACATGACCAACACAAAAAAA
1 AAAAATTGAAATTTTTTTATCAGTAAAAAGGGGGTGTCGGCCATTACATGACCAACACAAAAAAA
*
44932512 ATTTAAAATTTTTTTATCTGATAAAAGGGAATGGCCAACACCC
66 ATTTAAAATTTTTTTATCTGAAAAAAGGGAATGGCCAACACCC
* * * * * *
44932555 AAAAATT-TAATTTTTTTAATCAGATAAATA-GGGGTGTCGGTCATTTCATGGCCAACACCAAAA
1 AAAAATTGAAATTTTTTT-ATCAG-TAAAAAGGGGGTGTCGGCCATTACATGACCAACACAAAAA
* *
44932618 AAATTTGAATTTTTTTTATCTGAAAAAAGGGA
64 AAATTTAAAATTTTTTTATCTGAAAAAAGGGA
44932650 GTGTCGGCCA
Statistics
Matches: 83, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
107 9 0.11
108 69 0.83
109 5 0.06
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.32
Consensus pattern (108 bp):
AAAAATTGAAATTTTTTTATCAGTAAAAAGGGGGTGTCGGCCATTACATGACCAACACAAAAAAA
ATTTAAAATTTTTTTATCTGAAAAAAGGGAATGGCCAACACCC
Found at i:44932668 original size:62 final size:61
Alignment explanation
Indices: 44932542--44932703 Score: 217
Period size: 62 Copynumber: 2.7 Consensus size: 61
44932532 ATAAAAGGGA
* *
44932542 ATGGCCAACACCCAAAAATTT-AATTTTTTTAATCAGATAAATAGGGGTGTCGGTCATTTC
1 ATGGCCAACACCCAAAAATTTGAATTTTTTTAATCAGATAAAAAGGGGTGTCGGCCATTTC
* * *
44932602 ATGGCCAACACCAAAAAAATTTGAATTTTTTTTATCTGA-AAAAAGGGAGTGTCGGCCATTGT-
1 ATGGCCAACACC-CAAAAATTTGAATTTTTTTAATCAGATAAAAAGGG-GTGTCGGCCATT-TC
44932664 ATGGCCAACACCCAAAAATTTG-ATTTTTTT-ATCAGATAAA
1 ATGGCCAACACCCAAAAATTTGAATTTTTTTAATCAGATAAA
44932704 TAGAAAATTA
Statistics
Matches: 90, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
59 5 0.06
60 23 0.26
61 24 0.27
62 37 0.41
63 1 0.01
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (61 bp):
ATGGCCAACACCCAAAAATTTGAATTTTTTTAATCAGATAAAAAGGGGTGTCGGCCATTTC
Done.