Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 31 of 325
Found at i:7268355 original size:17 final size:18
Alignment explanation
Indices: 7268313--7268361 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
7268303 AGTTGAAAAG
7268313 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
7268332 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
7268349 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
7268362 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:7269249 original size:40 final size:40
Alignment explanation
Indices: 7269183--7269349 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
7269173 AAATTGAATG
* * *
7269183 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
7269222 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
7269262 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
7269302 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
7269342 ATATCCGG
1 ATATCCGG
7269350 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:7276372 original size:17 final size:18
Alignment explanation
Indices: 7276330--7276378 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
7276320 AGTTGAAAAG
7276330 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
7276349 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
7276366 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
7276379 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:7277266 original size:40 final size:40
Alignment explanation
Indices: 7277200--7277366 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
7277190 AAATTGAATG
* * *
7277200 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
7277239 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
7277279 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
7277319 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
7277359 ATATCCGG
1 ATATCCGG
7277367 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:7280279 original size:55 final size:55
Alignment explanation
Indices: 7280220--7280340 Score: 134
Period size: 55 Copynumber: 2.2 Consensus size: 55
7280210 GCAATCCTGC
* * * *
7280220 CAAAATAACACAAGCGTACGACACGCCCGTGCCCACCACCCGTGGTCGAAACTGT
1 CAAAATAACACAAGAGTACGACACGCCCGTACCCACCACCCATGGTCAAAACTGT
* ** * * * * *
7280275 CAAAACAACACGGGAGTGCGACATGCCTGTACCCACTATCCATGGTCAAAACTGT
1 CAAAATAACACAAGAGTACGACACGCCCGTACCCACCACCCATGGTCAAAACTGT
7280330 CAAAATAACAC
1 CAAAATAACAC
7280341 GGGCTTGCTC
Statistics
Matches: 53, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
55 53 1.00
ACGTcount: A:0.35, C:0.32, G:0.18, T:0.15
Consensus pattern (55 bp):
CAAAATAACACAAGAGTACGACACGCCCGTACCCACCACCCATGGTCAAAACTGT
Found at i:7281111 original size:29 final size:30
Alignment explanation
Indices: 7281055--7281111 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
7281045 GTTTGATTGC
* *
7281055 TTTTGGTTGAGTCTTATTAGTGTCATTAGT
1 TTTTGGTTGAATCTTATTAGTGTAATTAGT
*
7281085 TTTTGGTTGAAT-TTATTAGTTTAATTA
1 TTTTGGTTGAATCTTATTAGTGTAATTA
7281112 TATTCATGGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 13 0.54
30 11 0.46
ACGTcount: A:0.21, C:0.04, G:0.19, T:0.56
Consensus pattern (30 bp):
TTTTGGTTGAATCTTATTAGTGTAATTAGT
Found at i:7287867 original size:58 final size:58
Alignment explanation
Indices: 7287767--7287897 Score: 172
Period size: 58 Copynumber: 2.3 Consensus size: 58
7287757 GCACGTATAA
* * * * * *
7287767 TGCATACTAGAACACAAAATGCATTCCTAGCACACGACGCACATACTGGAACACGAAG
1 TGCATCCTAGCACACAAAATGCACTCCTAGCACACAAAGCACATACTGGAACACAAAG
* * * *
7287825 TGCATCCTATCACACAAAATGCACTCCTAGCGCACAAAGCACATATTGGCACACAAAG
1 TGCATCCTAGCACACAAAATGCACTCCTAGCACACAAAGCACATACTGGAACACAAAG
7287883 TGCATCCTAGCACAC
1 TGCATCCTAGCACAC
7287898 GAGATGCATC
Statistics
Matches: 62, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
58 62 1.00
ACGTcount: A:0.37, C:0.31, G:0.15, T:0.17
Consensus pattern (58 bp):
TGCATCCTAGCACACAAAATGCACTCCTAGCACACAAAGCACATACTGGAACACAAAG
Found at i:7287895 original size:19 final size:19
Alignment explanation
Indices: 7287767--7287897 Score: 73
Period size: 19 Copynumber: 6.8 Consensus size: 19
7287757 GCACGTATAA
* * *
7287767 TGCATACTAGAACACAAAA
1 TGCATCCTAGCACACAAAG
* *
7287786 TGCATTCCTAGCACACGACG
1 TGCA-TCCTAGCACACAAAG
** * * * *
7287806 CACATACTGGAACACGAAG
1 TGCATCCTAGCACACAAAG
* *
7287825 TGCATCCTATCACACAAAA
1 TGCATCCTAGCACACAAAG
*
7287844 TGCACTCCTAGCGCACAAAG
1 TGCA-TCCTAGCACACAAAG
** ** *
7287864 CACATATTGGCACACAAAG
1 TGCATCCTAGCACACAAAG
7287883 TGCATCCTAGCACAC
1 TGCATCCTAGCACAC
7287898 GAGATGCATC
Statistics
Matches: 77, Mismatches: 33, Indels: 4
0.68 0.29 0.04
Matches are distributed among these distances:
19 51 0.66
20 26 0.34
ACGTcount: A:0.37, C:0.31, G:0.15, T:0.17
Consensus pattern (19 bp):
TGCATCCTAGCACACAAAG
Found at i:7288768 original size:71 final size:71
Alignment explanation
Indices: 7288640--7288775 Score: 168
Period size: 71 Copynumber: 1.9 Consensus size: 71
7288630 CCTTGTCTCA
* *
7288640 AGACAAACCAATATCAAAGCTAAAATTACTTTAGAGGTGCCTTTTCTTAAGACAAAAGCCCATTT
1 AGACAAACCAATATCAAAGCTAAAATTACTTCAGAGGTGCCCTTTCTTAAGACAAAAGCCCATTT
7288705 TTCACG
66 TTCACG
* * * * * *
7288711 AGACCAACCAATATCAAAGGTAAATATTGCTTCA-A-GTGCCCCTTTCTTGAGATAAAAGTCCAT
1 AGACAAACCAATATCAAAGCTAAA-ATTACTTCAGAGGTG-CCCTTTCTTAAGACAAAAGCCCAT
7288774 TT
64 TT
7288776 GTCTCAACAC
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
70 3 0.05
71 45 0.82
72 7 0.13
ACGTcount: A:0.37, C:0.21, G:0.13, T:0.29
Consensus pattern (71 bp):
AGACAAACCAATATCAAAGCTAAAATTACTTCAGAGGTGCCCTTTCTTAAGACAAAAGCCCATTT
TTCACG
Found at i:7289719 original size:26 final size:26
Alignment explanation
Indices: 7289690--7289797 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
7289680 TGGTACAAAT
7289690 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
7289716 TGATAATGGATTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
7289742 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
7289768 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
7289794 TGAT
1 TGAT
7289798 GGACATTTCA
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.31, C:0.07, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:7294748 original size:2 final size:2
Alignment explanation
Indices: 7294741--7294779 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
7294731 GAGACTAGTC
7294741 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7294780 CATGTCATGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:7296817 original size:30 final size:30
Alignment explanation
Indices: 7296783--7296843 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
7296773 TCCTTAACTC
7296783 AAACTTTTGCAAAATTACAATTTTGCCCCT
1 AAACTTTTGCAAAATTACAATTTTGCCCCT
* * *
7296813 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTTGCAAAATTACAATTTTGCCCCT
7296843 A
1 A
7296844 GGCTCGAGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
AAACTTTTGCAAAATTACAATTTTGCCCCT
Found at i:7300087 original size:36 final size:36
Alignment explanation
Indices: 7300040--7300113 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
7300030 TTTATATTAT
7300040 TTTTCTACCTATGAACTTACTAAGCTCAATCGAAGC
1 TTTTCTACCTATGAACTTACTAAGCTCAATCGAAGC
7300076 TTTTCTACCTATGAACTTACTAAGCTCAATCGAAGC
1 TTTTCTACCTATGAACTTACTAAGCTCAATCGAAGC
7300112 TT
1 TT
7300114 ACTCGATGCT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.30, C:0.24, G:0.11, T:0.35
Consensus pattern (36 bp):
TTTTCTACCTATGAACTTACTAAGCTCAATCGAAGC
Found at i:7300116 original size:20 final size:20
Alignment explanation
Indices: 7300055--7300116 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 20
7300045 TACCTATGAA
7300055 CTTACTAAGCTCAATCGAAG
1 CTTACTAAGCTCAATCGAAG
* *
7300075 CTTTTCT-A-C-CTAT-GAA-
1 C-TTACTAAGCTCAATCGAAG
7300091 CTTACTAAGCTCAATCGAAG
1 CTTACTAAGCTCAATCGAAG
7300111 CTTACT
1 CTTACT
7300117 CGATGCTGTT
Statistics
Matches: 32, Mismatches: 4, Indels: 12
0.67 0.08 0.25
Matches are distributed among these distances:
15 4 0.12
16 2 0.06
17 4 0.12
18 6 0.19
19 4 0.12
20 8 0.25
21 4 0.12
ACGTcount: A:0.31, C:0.26, G:0.11, T:0.32
Consensus pattern (20 bp):
CTTACTAAGCTCAATCGAAG
Found at i:7303236 original size:23 final size:25
Alignment explanation
Indices: 7303183--7303239 Score: 75
Period size: 23 Copynumber: 2.4 Consensus size: 25
7303173 TCGAGCCATG
* *
7303183 ATCGGTAAGCTCCTCTTGAGCTGAA
1 ATCGGTAAGCTCCTATTAAGCTGAA
7303208 AT-GGTAAGCT-CTATTAAGCT-AA
1 ATCGGTAAGCTCCTATTAAGCTGAA
7303230 ATCGGTAAGC
1 ATCGGTAAGC
7303240 ATCAATGAGC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
22 4 0.14
23 15 0.52
24 8 0.28
25 2 0.07
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (25 bp):
ATCGGTAAGCTCCTATTAAGCTGAA
Found at i:7303250 original size:23 final size:23
Alignment explanation
Indices: 7303199--7303276 Score: 70
Period size: 23 Copynumber: 3.3 Consensus size: 23
7303189 AAGCTCCTCT
*
7303199 TGAGCTGAAATGGTAAGCTCTAT
1 TGAGCTGAAATGGTAAGCTCTAA
*
7303222 TAAGCT-AAATCGGTAAGCATC-AA
1 TGAGCTGAAAT-GGTAAGC-TCTAA
* *
7303245 TGAGCTGAAAATAGTAAGCTCTTA
1 TGAGCTG-AAATGGTAAGCTCTAA
*
7303269 CGAGCTGA
1 TGAGCTGA
7303277 TATATCAGTA
Statistics
Matches: 44, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
22 4 0.09
23 21 0.48
24 15 0.34
25 4 0.09
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.26
Consensus pattern (23 bp):
TGAGCTGAAATGGTAAGCTCTAA
Found at i:7303273 original size:24 final size:26
Alignment explanation
Indices: 7303227--7303300 Score: 73
Period size: 26 Copynumber: 2.9 Consensus size: 26
7303217 TCTATTAAGC
* *
7303227 TAAATCGGTAAGCATCA-ATGAGCTGA
1 TAAATCAGTAAGC-TCATACGAGCTGA
*
7303253 -AAAT-AGTAAGCTCTTACGAGCTGA
1 TAAATCAGTAAGCTCATACGAGCTGA
* *
7303277 TATATCAGTAAGCTCATAGGAGCT
1 TAAATCAGTAAGCTCATACGAGCT
7303301 ATGGTGAGTC
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
23 2 0.05
24 14 0.36
25 7 0.18
26 16 0.41
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (26 bp):
TAAATCAGTAAGCTCATACGAGCTGA
Found at i:7310788 original size:23 final size:23
Alignment explanation
Indices: 7310758--7310862 Score: 106
Period size: 23 Copynumber: 4.6 Consensus size: 23
7310748 TGAACTGATG
*
7310758 AACAGTAAGCTTTATTGAGCTGA
1 AACAGTAAGCTCTATTGAGCTGA
7310781 AACAGTAAGCTCTATTGAGCTG-
1 AACAGTAAGCTCTATTGAGCTGA
* *
7310803 AACAATAAGCTCT-TACGAGCTGA
1 AACAGTAAGCTCTAT-TGAGCTGA
* * * * *
7310826 ATCGGTAAGCTCCAATGAGCTAAA
1 AACAGTAAGCTCTATTGAGCT-GA
7310850 AACAGTAAGCTCT
1 AACAGTAAGCTCT
7310863 TACGAGCTGA
Statistics
Matches: 65, Mismatches: 13, Indels: 7
0.76 0.15 0.08
Matches are distributed among these distances:
21 1 0.02
22 18 0.28
23 35 0.54
24 11 0.17
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (23 bp):
AACAGTAAGCTCTATTGAGCTGA
Found at i:7310871 original size:47 final size:45
Alignment explanation
Indices: 7310758--7310872 Score: 133
Period size: 45 Copynumber: 2.5 Consensus size: 45
7310748 TGAACTGATG
* * * *
7310758 AACAGTAAGCT-TTATTGAGCTGAAACAGTAAGCTCTATTGAGCTG
1 AACAGTAAGCTCTTA-CGAGCTGAAACAGTAAGCTCCAATGAGCTA
* * *
7310803 AACAATAAGCTCTTACGAGCTGAATCGGTAAGCTCCAATGAGCTAAA
1 AACAGTAAGCTCTTACGAGCTGAAACAGTAAGCTCCAATGAGCT--A
7310850 AACAGTAAGCTCTTACGAGCTGA
1 AACAGTAAGCTCTTACGAGCTGA
7310873 TATATCGATA
Statistics
Matches: 59, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
45 34 0.58
46 3 0.05
47 22 0.37
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (45 bp):
AACAGTAAGCTCTTACGAGCTGAAACAGTAAGCTCCAATGAGCTA
Found at i:7313799 original size:68 final size:69
Alignment explanation
Indices: 7313683--7313811 Score: 172
Period size: 68 Copynumber: 1.9 Consensus size: 69
7313673 CCCTTGGTAC
*
7313683 AGGGAGTAATTATCAACTAAATTATCAAACATATAGCAACATCACTAACCGTTGGTAAAAAGTAT
1 AGGGAGTAATTATCAACTAAATTATCAAACATATAGCAACATCACTAACCATTGGTAAAAAGTAT
7313748 GTAT
66 GTAT
* * * * **
7313752 AGGG-GTAATTATCAACTAAGTT-TCTGAACATATATCAACGTTGCTAACCATTGGTAAAAA
1 AGGGAGTAATTATCAACTAAATTATC-AAACATATAGCAACATCACTAACCATTGGTAAAAA
7313812 AATGTGAGTA
Statistics
Matches: 52, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
67 2 0.04
68 46 0.88
69 4 0.08
ACGTcount: A:0.41, C:0.15, G:0.16, T:0.29
Consensus pattern (69 bp):
AGGGAGTAATTATCAACTAAATTATCAAACATATAGCAACATCACTAACCATTGGTAAAAAGTAT
GTAT
Found at i:7314617 original size:22 final size:23
Alignment explanation
Indices: 7314592--7314642 Score: 70
Period size: 22 Copynumber: 2.3 Consensus size: 23
7314582 AGGTTTAATT
7314592 GATTTAAGGTTAGGGTTTTTA-G
1 GATTTAAGGTTAGGGTTTTTATG
* *
7314614 GATTTAGGGTTATGGTTTTTATG
1 GATTTAAGGTTAGGGTTTTTATG
7314637 G-TTTAA
1 GATTTAA
7314643 AATTTAAAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 23 0.92
23 2 0.08
ACGTcount: A:0.22, C:0.00, G:0.29, T:0.49
Consensus pattern (23 bp):
GATTTAAGGTTAGGGTTTTTATG
Found at i:7314726 original size:34 final size:34
Alignment explanation
Indices: 7314688--7314764 Score: 84
Period size: 35 Copynumber: 2.2 Consensus size: 34
7314678 TTTTAAATAC
* *
7314688 TAAATTAGAGTTTAGGGT-ATTAGGGTTAATTGAT
1 TAAATTAGAGATT-GAGTAATTAGGGTTAATTGAT
* *
7314722 TAAATTAGTGATTGATTAAATTAGGGTTAATTGAT
1 TAAATTAGAGATTGAGT-AATTAGGGTTAATTGAT
*
7314757 TAATTTAG
1 TAAATTAG
7314765 GGTTAATTGA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
33 2 0.06
34 11 0.31
35 23 0.64
ACGTcount: A:0.35, C:0.00, G:0.22, T:0.43
Consensus pattern (34 bp):
TAAATTAGAGATTGAGTAATTAGGGTTAATTGAT
Found at i:7314756 original size:19 final size:19
Alignment explanation
Indices: 7314706--7314775 Score: 101
Period size: 19 Copynumber: 3.8 Consensus size: 19
7314696 AGTTTAGGGT
7314706 ATTAGGGTTAATTGATTAA
1 ATTAGGGTTAATTGATTAA
*
7314725 ATTA--G-TGATTGATTAA
1 ATTAGGGTTAATTGATTAA
7314741 ATTAGGGTTAATTGATTAA
1 ATTAGGGTTAATTGATTAA
*
7314760 TTTAGGGTTAATTGAT
1 ATTAGGGTTAATTGAT
7314776 ACATAATCGT
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
16 14 0.31
17 1 0.02
18 1 0.02
19 29 0.64
ACGTcount: A:0.34, C:0.00, G:0.21, T:0.44
Consensus pattern (19 bp):
ATTAGGGTTAATTGATTAA
Found at i:7315543 original size:126 final size:124
Alignment explanation
Indices: 7315313--7315693 Score: 514
Period size: 126 Copynumber: 3.0 Consensus size: 124
7315303 TTTCTATAAG
* * *
7315313 AATAATTTTGAGTAGACATTTCTGAACAAATAGTGTTGAAAACGCTTCAAGCAGGATGCACTGTT
1 AATAATTCTGAGTAGACATTTCTGAACAAATAGTGTCGAAAACGCTTCAAGCAGGATGCACTGTC
* * *
7315378 AGCAAAATTTCTGAAAAAAGCTCCTACGTGGAAGTTCTTTTAG-TATAGTAGTTCGTAGAAA
66 AGCAAAATTTATGAAAAAAGCTCC-ACGT-GAAGCTCTTTT-GCTACAGTAGTTCGTAGAAA
* * *
7315439 AATAATTCTGAGTAGACATTTCTGAACAAATAGTGTCGAAAACGCTTCAAGTATGATACACTGTC
1 AATAATTCTGAGTAGACATTTCTGAACAAATAGTGTCGAAAACGCTTCAAGCAGGATGCACTGTC
*
7315504 AGCAAAATTTTTGAAAAAAGCTCTCACGTGAATGCTCTTTTGCTACAGTAGTTCGTAGAAA
66 AGCAAAATTTATGAAAAAAGCTC-CACGTGAA-GCTCTTTTGCTACAGTAGTTCGTAGAAA
* * * *
7315565 AATAATTCTAAGTAGACGTTTCTAAACAAATAGTGTCGAAAATAG-TTCAAGCAGGATGCACTGT
1 AATAATTCTGAGTAGACATTTCTGAACAAATAGTGTCGAAAA-CGCTTCAAGCAGGATGCACTGT
* * * *
7315629 CATCAAAATTTATGAAAAAAGTTCCCACGTGGACGCTCTTTTGCTACAATAGTTCGTAGAAA
65 CAGCAAAATTTATGAAAAAAGCT-CCACGT-GAAGCTCTTTTGCTACAGTAGTTCGTAGAAA
7315691 AAT
1 AAT
7315694 GAGGCTATAA
Statistics
Matches: 228, Mismatches: 21, Indels: 12
0.87 0.08 0.05
Matches are distributed among these distances:
125 4 0.02
126 219 0.96
127 5 0.02
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.30
Consensus pattern (124 bp):
AATAATTCTGAGTAGACATTTCTGAACAAATAGTGTCGAAAACGCTTCAAGCAGGATGCACTGTC
AGCAAAATTTATGAAAAAAGCTCCACGTGAAGCTCTTTTGCTACAGTAGTTCGTAGAAA
Found at i:7319200 original size:18 final size:18
Alignment explanation
Indices: 7319174--7319216 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
7319164 GACTAGGAAA
* **
7319174 AGGAAACATATAAGGTTT
1 AGGATACATATAAGGGCT
7319192 AGGATACATATAAGGGCT
1 AGGATACATATAAGGGCT
7319210 AGGATAC
1 AGGATAC
7319217 GCACCTTGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.42, C:0.09, G:0.26, T:0.23
Consensus pattern (18 bp):
AGGATACATATAAGGGCT
Found at i:7319821 original size:7 final size:7
Alignment explanation
Indices: 7319811--7319843 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
7319801 CATAATACAT
7319811 AATACTA
1 AATACTA
7319818 AATACTA
1 AATACTA
7319825 AATACTA
1 AATACTA
*
7319832 AATATTA
1 AATACTA
7319839 AATAC
1 AATAC
7319844 GAAACGACTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.58, C:0.12, G:0.00, T:0.30
Consensus pattern (7 bp):
AATACTA
Found at i:7321855 original size:35 final size:35
Alignment explanation
Indices: 7321828--7321955 Score: 166
Period size: 35 Copynumber: 3.5 Consensus size: 35
7321818 CATGGCAAAG
*
7321828 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
*
7321863 TGTGAAATGTAGGTATGGTATTATCCATACTGAGC
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
*
7321898 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGC
**
7321938 TAAGAAATGTAGGTATGG
1 TGTGAAATGTAGGTATGG
7321956 CATTTCCCAT
Statistics
Matches: 82, Mismatches: 6, Indels: 5
0.88 0.06 0.05
Matches are distributed among these distances:
35 51 0.62
38 3 0.04
40 28 0.34
ACGTcount: A:0.31, C:0.09, G:0.26, T:0.34
Consensus pattern (35 bp):
TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
Found at i:7321966 original size:35 final size:35
Alignment explanation
Indices: 7321831--7321997 Score: 158
Period size: 35 Copynumber: 4.6 Consensus size: 35
7321821 GGCAAAGTGT
* **
7321831 GAAATGTAGGTATGGTATCAT-CCATACTGAGTTGT
1 GAAATGTAGGTATGGTAT-TTCCCATACTGAGTTAA
* **
7321866 GAAATGTAGGTATGGTATTAT-CCATACTGAGCTGT
1 GAAATGTAGGTATGGTATT-TCCCATACTGAGTTAA
7321901 GAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAA
1 GAAATGTAGGTATGGTATT-TC----CCATACTGAGTTAA
* * *
7321941 GAAATGTAGGTATGGCATTTCCCATACCGTGTTAAA
1 GAAATGTAGGTATGGTATTTCCCATACTGAGTT-AA
*
7321977 AAAATGTAGGTATGGTATTTC
1 GAAATGTAGGTATGGTATTTC
7321998 AATGAGGAAA
Statistics
Matches: 115, Mismatches: 10, Indels: 13
0.83 0.07 0.09
Matches are distributed among these distances:
35 63 0.55
36 21 0.18
39 2 0.02
40 29 0.25
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.34
Consensus pattern (35 bp):
GAAATGTAGGTATGGTATTTCCCATACTGAGTTAA
Found at i:7321966 original size:75 final size:70
Alignment explanation
Indices: 7321828--7321967 Score: 192
Period size: 75 Copynumber: 1.9 Consensus size: 70
7321818 CATGGCAAAG
** *
7321828 TGTGAAATGTAGGTATGGTATCATCCATACTGAGTTGTGAAATGTAGGTATGGTATTATCCATAC
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGTTAAGAAATGTAGGTATGGCATTATCCATAC
7321893 TGAGC
66 TGAGC
7321898 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TC
1 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTAAGAAATGTAGGTATGGCATTAT-
7321962 CCATAC
60 CCATAC
7321968 CGTGTTAAAA
Statistics
Matches: 61, Mismatches: 3, Indels: 7
0.86 0.04 0.10
Matches are distributed among these distances:
70 18 0.30
73 4 0.07
74 1 0.02
75 38 0.62
ACGTcount: A:0.31, C:0.12, G:0.24, T:0.34
Consensus pattern (70 bp):
TGTGAAATGTAGGTATGGTATCATCCATACTGAGTTAAGAAATGTAGGTATGGCATTATCCATAC
TGAGC
Found at i:7329443 original size:75 final size:75
Alignment explanation
Indices: 7329324--7329495 Score: 205
Period size: 75 Copynumber: 2.4 Consensus size: 75
7329314 CATGGCAAAG
** *
7329324 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TC
*
7329383 CCATACTGAGC
65 CCATACCGAGC
7329394 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
*
7329459 CATACCGAGT
66 CATACCGAGC
***
7329469 TAAAAAAATGTAGGTATGGTATT-TCAA
1 T-GTGAAATGTAGGTATGGTATTATCAA
7329496 TGAGGAAAAC
Statistics
Matches: 87, Mismatches: 8, Indels: 9
0.84 0.08 0.09
Matches are distributed among these distances:
70 18 0.21
73 4 0.05
74 1 0.01
75 46 0.53
76 18 0.21
ACGTcount: A:0.33, C:0.11, G:0.23, T:0.33
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
CATACCGAGC
Found at i:7329462 original size:35 final size:35
Alignment explanation
Indices: 7329327--7329493 Score: 167
Period size: 35 Copynumber: 4.6 Consensus size: 35
7329317 GGCAAAGTGT
* **
7329327 GAAATGTAGGTATGGTATCAT-CCATACTGAGTTGT
1 GAAATGTAGGTATGGTAT-TTCCCATACTGAGTTAA
* **
7329362 GAAATGTAGGTATGGTATTAT-CCATACTGAGCTGT
1 GAAATGTAGGTATGGTATT-TCCCATACTGAGTTAA
7329397 GAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAA
1 GAAATGTAGGTATGGTATT-TC----CCATACTGAGTTAA
* *
7329437 GAAATGTAGGTATGGCATTTCCCATACCGAGTTAAA
1 GAAATGTAGGTATGGTATTTCCCATACTGAGTT-AA
*
7329473 AAAATGTAGGTATGGTATTTC
1 GAAATGTAGGTATGGTATTTC
7329494 AATGAGGAAA
Statistics
Matches: 116, Mismatches: 9, Indels: 13
0.84 0.07 0.09
Matches are distributed among these distances:
35 64 0.55
36 21 0.18
39 2 0.02
40 29 0.25
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.33
Consensus pattern (35 bp):
GAAATGTAGGTATGGTATTTCCCATACTGAGTTAA
Found at i:7329485 original size:36 final size:35
Alignment explanation
Indices: 7329423--7329493 Score: 106
Period size: 36 Copynumber: 2.0 Consensus size: 35
7329413 ATTATCAAAT
* *
7329423 CCATACTGAGTTAAGAAATGTAGGTATGGCATTTC
1 CCATACCGAGTTAAAAAATGTAGGTATGGCATTTC
*
7329458 CCATACCGAGTTAAAAAAATGTAGGTATGGTATTTC
1 CCATACCGAGTT-AAAAAATGTAGGTATGGCATTTC
7329494 AATGAGGAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
35 11 0.34
36 21 0.66
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.31
Consensus pattern (35 bp):
CCATACCGAGTTAAAAAATGTAGGTATGGCATTTC
Found at i:7331082 original size:48 final size:46
Alignment explanation
Indices: 7330997--7331130 Score: 155
Period size: 48 Copynumber: 2.8 Consensus size: 46
7330987 ATGCAAACAT
* *
7330997 CATAAATGAAAAAAAAT-AAAGCAGTATTGAAATTTTAATTATAA-TTG
1 CATAAATGAAAAAATATCAAA-TAGTATTGAAA-TTTAATTA-AATTTG
7331044 CATAAATGAATAAAATATCAAATAGTATTGTAAATTTAATTAAATTTG
1 CATAAATGAA-AAAATATCAAATAGTATTG-AAATTTAATTAAATTTG
* *
7331092 CATAAATTAAAAAAATATCGAATAGTATTGAAAATTTAA
1 CATAAA-TGAAAAAATATCAAATAGTATTG-AAATTTAA
7331131 AATTATCACT
Statistics
Matches: 77, Mismatches: 5, Indels: 9
0.85 0.05 0.10
Matches are distributed among these distances:
47 12 0.16
48 56 0.73
49 9 0.12
ACGTcount: A:0.53, C:0.04, G:0.09, T:0.34
Consensus pattern (46 bp):
CATAAATGAAAAAATATCAAATAGTATTGAAATTTAATTAAATTTG
Found at i:7331689 original size:6 final size:6
Alignment explanation
Indices: 7331678--7331732 Score: 110
Period size: 6 Copynumber: 9.2 Consensus size: 6
7331668 TACCTAAAAG
7331678 TATAAT TATAAT TATAAT TATAAT TATAAT TATAAT TATAAT TATAAT
1 TATAAT TATAAT TATAAT TATAAT TATAAT TATAAT TATAAT TATAAT
7331726 TATAAT T
1 TATAAT T
7331733 TTACATAAAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 49 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (6 bp):
TATAAT
Found at i:7331949 original size:22 final size:23
Alignment explanation
Indices: 7331921--7331965 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
7331911 TGCTAAACAA
* *
7331921 ATAATTTTT-GAGTTAGAAGTGC
1 ATAATTTTTAAAGTGAGAAGTGC
7331943 ATAATTTTTAAAGTGAGAAGTGC
1 ATAATTTTTAAAGTGAGAAGTGC
7331966 TTTTGAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.36, C:0.04, G:0.22, T:0.38
Consensus pattern (23 bp):
ATAATTTTTAAAGTGAGAAGTGC
Found at i:7334843 original size:11 final size:11
Alignment explanation
Indices: 7334808--7334845 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
7334798 TTTTAAATTT
7334808 TTTTTTATATA
1 TTTTTTATATA
*
7334819 TTTTTTAGA-A
1 TTTTTTATATA
7334829 -TTTTTATATA
1 TTTTTTATATA
7334839 TTTTTTA
1 TTTTTTA
7334846 AAAATATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
9 7 0.30
10 2 0.09
11 14 0.61
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (11 bp):
TTTTTTATATA
Found at i:7340125 original size:21 final size:21
Alignment explanation
Indices: 7340079--7340125 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
7340069 ATTCATGAAT
*
7340079 ATAATTATTTATATATATATA
1 ATAATTATTTATATATATAAA
* *
7340100 TTAATTATTT-TATATCTTAAA
1 ATAATTATTTATATAT-ATAAA
7340121 ATAAT
1 ATAAT
7340126 AAATGAGTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (21 bp):
ATAATTATTTATATATATAAA
Found at i:7343993 original size:17 final size:20
Alignment explanation
Indices: 7343949--7343991 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
7343939 GCTATAATCT
7343949 CACCACTACTAATGTTTCTA
1 CACCACTACTAATGTTTCTA
*
7343969 CACCACTACTAATGTTTTTA
1 CACCACTACTAATGTTTCTA
7343989 CAC
1 CAC
7343992 TAACAACTAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.30, C:0.30, G:0.05, T:0.35
Consensus pattern (20 bp):
CACCACTACTAATGTTTCTA
Found at i:7352904 original size:2 final size:2
Alignment explanation
Indices: 7352899--7352957 Score: 118
Period size: 2 Copynumber: 29.5 Consensus size: 2
7352889 CACACACACA
7352899 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
7352941 CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT C
7352958 CTTATATTTT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:7358764 original size:5 final size:5
Alignment explanation
Indices: 7358754--7358781 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
7358744 CTAATTTGTG
7358754 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
7358782 GAACACACAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:7360296 original size:12 final size:13
Alignment explanation
Indices: 7360279--7360307 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
7360269 CCTTTCCCAC
7360279 TAAAAAAAAATT-
1 TAAAAAAAAATTA
7360291 TAAAAAAAAATTA
1 TAAAAAAAAATTA
7360304 TAAA
1 TAAA
7360308 CTGGTTTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
TAAAAAAAAATTA
Found at i:7367617 original size:12 final size:13
Alignment explanation
Indices: 7367589--7367621 Score: 59
Period size: 12 Copynumber: 2.6 Consensus size: 13
7367579 GGGGTCACAC
7367589 GGCCGTGTGGCTA
1 GGCCGTGTGGCTA
7367602 GGCCGTGTGG-TA
1 GGCCGTGTGGCTA
7367614 GGCCGTGT
1 GGCCGTGT
7367622 AACAGTCTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 10 0.50
13 10 0.50
ACGTcount: A:0.06, C:0.21, G:0.48, T:0.24
Consensus pattern (13 bp):
GGCCGTGTGGCTA
Found at i:7372935 original size:30 final size:28
Alignment explanation
Indices: 7372896--7372957 Score: 97
Period size: 28 Copynumber: 2.1 Consensus size: 28
7372886 ATGGATTTAA
7372896 ATTACTTATTATTTAAGTAAATAGATATTT
1 ATTACTTATTA-TTAAGTAAA-AGATATTT
*
7372926 ATTATTTATTATTAAGTAAAAGATATTT
1 ATTACTTATTATTAAGTAAAAGATATTT
7372954 ATTA
1 ATTA
7372958 ATTAAATAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 12 0.39
29 9 0.29
30 10 0.32
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.50
Consensus pattern (28 bp):
ATTACTTATTATTAAGTAAAAGATATTT
Found at i:7374327 original size:18 final size:19
Alignment explanation
Indices: 7374301--7374342 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
7374291 AAAGAAATGA
*
7374301 GAAAGTTGA-ATTGTGAATT
1 GAAAGTTGAGATTG-GAAGT
7374320 GAAA-TTGAGATTGGAAGT
1 GAAAGTTGAGATTGGAAGT
7374338 GAAAG
1 GAAAG
7374343 GCATAAACAA
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.40, C:0.00, G:0.31, T:0.29
Consensus pattern (19 bp):
GAAAGTTGAGATTGGAAGT
Found at i:7375800 original size:12 final size:12
Alignment explanation
Indices: 7375783--7375833 Score: 51
Period size: 12 Copynumber: 4.8 Consensus size: 12
7375773 ACTCAAATTT
7375783 TACAATTTATTC
1 TACAATTTATTC
*
7375795 TACAATTTAATC
1 TACAATTTATTC
7375807 -A-AA---ATT-
1 TACAATTTATTC
7375813 TACAATTTATTC
1 TACAATTTATTC
7375825 TACAATTTA
1 TACAATTTA
7375834 ATCCTTTTTC
Statistics
Matches: 31, Mismatches: 2, Indels: 12
0.69 0.04 0.27
Matches are distributed among these distances:
7 3 0.10
8 2 0.06
10 2 0.06
11 4 0.13
12 20 0.65
ACGTcount: A:0.41, C:0.14, G:0.00, T:0.45
Consensus pattern (12 bp):
TACAATTTATTC
Found at i:7375809 original size:30 final size:30
Alignment explanation
Indices: 7375775--7375836 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
7375765 TCCCTATTAC
*
7375775 TCAAATTTTACAATTTATTCTACAATTTAA
1 TCAAAATTTACAATTTATTCTACAATTTAA
7375805 TCAAAATTTACAATTTATTCTACAATTTAA
1 TCAAAATTTACAATTTATTCTACAATTTAA
7375835 TC
1 TC
7375837 CTTTTTCATT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.40, C:0.15, G:0.00, T:0.45
Consensus pattern (30 bp):
TCAAAATTTACAATTTATTCTACAATTTAA
Found at i:7376084 original size:13 final size:13
Alignment explanation
Indices: 7376066--7376091 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7376056 TGCTTCTTTC
7376066 TCTTTTCTTTCTT
1 TCTTTTCTTTCTT
7376079 TCTTTTCTTTCTT
1 TCTTTTCTTTCTT
7376092 GTTTTGATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (13 bp):
TCTTTTCTTTCTT
Found at i:7376165 original size:18 final size:18
Alignment explanation
Indices: 7376142--7376196 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
7376132 CTATTGGTTT
7376142 TATTATTATAATAATATA
1 TATTATTATAATAATATA
* * *
7376160 TATTATTAAGAAAAATTTA
1 TATTATT-ATAATAATATA
7376179 -ATTATTATAAT-ATATA
1 TATTATTATAATAATATA
7376195 TA
1 TA
7376197 ATAATAAATT
Statistics
Matches: 29, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
16 4 0.14
17 4 0.14
18 13 0.45
19 8 0.28
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (18 bp):
TATTATTATAATAATATA
Found at i:7377731 original size:16 final size:16
Alignment explanation
Indices: 7377710--7377740 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7377700 TATTTTATTT
*
7377710 ATATTAGGATAATTAA
1 ATATTAAGATAATTAA
7377726 ATATTAAGATAATTA
1 ATATTAAGATAATTA
7377741 TTAGGATTAT
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:0.52, C:0.00, G:0.10, T:0.39
Consensus pattern (16 bp):
ATATTAAGATAATTAA
Found at i:7377769 original size:28 final size:27
Alignment explanation
Indices: 7377706--7377770 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 27
7377696 ATTCTATTTT
7377706 ATTTATATTAGGATAATTAAATATTAAG
1 ATTT-TATTAGGATAATTAAATATTAAG
* * * *
7377734 ATAATTATTAGGATTATTTAAATTTTAGG
1 AT-TTTATTAGGA-TAATTAAATATTAAG
7377763 ATTTTATT
1 ATTTTATT
7377771 TTAATTATCT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
28 15 0.50
29 15 0.50
ACGTcount: A:0.40, C:0.00, G:0.11, T:0.49
Consensus pattern (27 bp):
ATTTTATTAGGATAATTAAATATTAAG
Found at i:7380170 original size:21 final size:20
Alignment explanation
Indices: 7380128--7380171 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
7380118 ATTTTAATAA
*
7380128 TTGAAAATAAAAAGAAACAT
1 TTGAAAATAAAAAGAAAAAT
* *
7380148 TTGATAAATAAAGATAAAAAT
1 TTGA-AAATAAAAAGAAAAAT
7380169 TTG
1 TTG
7380172 TTTTTAATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.59, C:0.02, G:0.11, T:0.27
Consensus pattern (20 bp):
TTGAAAATAAAAAGAAAAAT
Found at i:7381418 original size:147 final size:147
Alignment explanation
Indices: 7381218--7381510 Score: 410
Period size: 147 Copynumber: 2.0 Consensus size: 147
7381208 TTTAAATTTA
* *
7381218 AAAATAGTTCCAAAACGCCCATTACCGTCATAACATTACATTCGGTGAACCAAATATTTCATTAG
1 AAAATAGTTCCAAAACGCCCATTACCGTCATAACATTACATTCGGTGAACCAAATACTCCATTAG
7381283 CTATAAATAAATTTTCAAAAATGTTAGTATTATGGCTAGAATTAATATAGTATTTTGTACTTAAT
66 CTATAAATAAATTTTCAAAAATGTTAGTATTATGGCTAGAATTAATATAGTATTTTGTACTTAAT
7381348 TTTGATTACAATGTTCC
131 TTTGATTACAATGTTCC
* * * * * *
7381365 AAAATAGTT-TAAAACGGCCCTTTACGGGTCGTAACATT-TATTCGGTGAACCAAATGCTCCATT
1 AAAATAGTTCCAAAAC-GCCCATTAC-CGTCATAACATTACATTCGGTGAACCAAATACTCCATT
* * * * * *
7381428 AGTTGTAAATAGATTTTCAAAAATGTTAGTATTATGGTTAGATTTAATATAGTATTTTGTACTTG
64 AGCTATAAATAAATTTTCAAAAATGTTAGTATTATGGCTAGAATTAATATAGTATTTTGTACTTA
**
7381493 ATTTTGATTTTAATGTTC
129 ATTTTGATTACAATGTTC
7381511 AATTTAATTT
Statistics
Matches: 128, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
146 5 0.04
147 113 0.88
148 10 0.08
ACGTcount: A:0.34, C:0.13, G:0.14, T:0.39
Consensus pattern (147 bp):
AAAATAGTTCCAAAACGCCCATTACCGTCATAACATTACATTCGGTGAACCAAATACTCCATTAG
CTATAAATAAATTTTCAAAAATGTTAGTATTATGGCTAGAATTAATATAGTATTTTGTACTTAAT
TTTGATTACAATGTTCC
Found at i:7381729 original size:2 final size:2
Alignment explanation
Indices: 7381687--7381714 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
7381677 TATTTTAACA
7381687 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7381715 TTCAACCTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7381767 original size:15 final size:16
Alignment explanation
Indices: 7381724--7381767 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 16
7381714 TTTCAACCTC
*
7381724 ATATATTTAGTTATTA
1 ATATATTTAATTATTA
*
7381740 ATA-ATTTATTTATTA
1 ATATATTTAATTATTA
7381755 ATATA-TTAATTAT
1 ATATATTTAATTAT
7381768 GATTATAACT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 21 0.84
16 4 0.16
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (16 bp):
ATATATTTAATTATTA
Found at i:7382527 original size:35 final size:35
Alignment explanation
Indices: 7382484--7382555 Score: 135
Period size: 35 Copynumber: 2.1 Consensus size: 35
7382474 TGTAAAAAAA
7382484 ATTATAGTTTAAATTTTTCTTATAACAAAAAAGCT
1 ATTATAGTTTAAATTTTTCTTATAACAAAAAAGCT
*
7382519 ATTATAGTTTGAATTTTTCTTATAACAAAAAAGCT
1 ATTATAGTTTAAATTTTTCTTATAACAAAAAAGCT
7382554 AT
1 AT
7382556 GTCAAGGATT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.42, C:0.08, G:0.07, T:0.43
Consensus pattern (35 bp):
ATTATAGTTTAAATTTTTCTTATAACAAAAAAGCT
Found at i:7384186 original size:8 final size:9
Alignment explanation
Indices: 7384167--7384191 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
7384157 CTTTTACTAA
7384167 TTTAAAATT
1 TTTAAAATT
7384176 TTTAAAATT
1 TTTAAAATT
7384185 TTTAAAA
1 TTTAAAA
7384192 GGCCTAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (9 bp):
TTTAAAATT
Found at i:7387382 original size:22 final size:20
Alignment explanation
Indices: 7387356--7387400 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 20
7387346 TATATTGATA
7387356 TATTATCTTT-TTATCTTTTCAT
1 TATTAT-TTTATTAT-TTTTC-T
7387378 TATTATTTTATTATTTTTCT
1 TATTATTTTATTATTTTTCT
7387398 TAT
1 TAT
7387401 AATTAAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 4 0.18
21 8 0.36
22 10 0.45
ACGTcount: A:0.20, C:0.09, G:0.00, T:0.71
Consensus pattern (20 bp):
TATTATTTTATTATTTTTCT
Found at i:7391853 original size:35 final size:35
Alignment explanation
Indices: 7391809--7391975 Score: 201
Period size: 35 Copynumber: 4.6 Consensus size: 35
7391799 TCCTCATTGA
** *
7391809 AATACCATACCTACATTTTTCAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
7391844 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
7391884 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
7391919 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
7391954 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
7391976 CTTTGCCATG
Statistics
Matches: 117, Mismatches: 10, Indels: 10
0.85 0.07 0.07
Matches are distributed among these distances:
35 87 0.74
39 3 0.03
40 27 0.23
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.31
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:7391892 original size:75 final size:73
Alignment explanation
Indices: 7391804--7391975 Score: 226
Period size: 75 Copynumber: 2.4 Consensus size: 73
7391794 GGTTTTCCTC
** * * **
7391804 ATTGAAATACCATACCTACATTTTTCAACTCGGTATGGGA-AATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
7391868 TCAGTATGG
65 TCAGTATGG
*
7391877 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
7391942 CTCAGTATGG
64 CTCAGTATGG
7391952 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
7391976 CTTTGCCATG
Statistics
Matches: 89, Mismatches: 7, Indels: 9
0.85 0.07 0.09
Matches are distributed among these distances:
70 21 0.24
73 3 0.03
74 7 0.08
75 58 0.65
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.31
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:7395975 original size:42 final size:41
Alignment explanation
Indices: 7395903--7396023 Score: 113
Period size: 42 Copynumber: 2.9 Consensus size: 41
7395893 CGGAAAGCTC
* *
7395903 ATACAATGCCAAC-GTCCCAGAT-GTCCTCTTACATGTATCAA
1 ATACGATGCC-ACTGTCCCAGATAGT-GTCTTACATGTATCAA
***
7395944 ATATCGATGCCACTGTCCCAGATAGTGTCTTACACAAAATCAA
1 ATA-CGATGCCACTGTCCCAGATAGTGTCTTACA-TGTATCAA
* *
7395987 ATACGATGCCAATGTCCCAGACA-TGATCTTACATGTA
1 ATACGATGCCACTGTCCCAGATAGTG-TCTTACATGTA
7396024 AATCATAAGT
Statistics
Matches: 65, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
41 8 0.12
42 47 0.72
43 10 0.15
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.26
Consensus pattern (41 bp):
ATACGATGCCACTGTCCCAGATAGTGTCTTACATGTATCAA
Found at i:7403450 original size:45 final size:44
Alignment explanation
Indices: 7403389--7403490 Score: 132
Period size: 45 Copynumber: 2.3 Consensus size: 44
7403379 AGTTAAACAT
* * *
7403389 CAAATAATCTATTTAAAACAACAACAATAAATTAATTCAAAGAAA
1 CAAA-AATCGATTTAAAAAAACAACAATAAATCAATTCAAAGAAA
* * *
7403434 CAAACAATCGATTTAAAAAAACAATAATGAATCAATTCAAAGAAG
1 CAAA-AATCGATTTAAAAAAACAACAATAAATCAATTCAAAGAAA
7403479 CAAAAATCGATT
1 CAAAAATCGATT
7403491 CAAGAAGAAA
Statistics
Matches: 50, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
44 8 0.16
45 42 0.84
ACGTcount: A:0.58, C:0.14, G:0.06, T:0.23
Consensus pattern (44 bp):
CAAAAATCGATTTAAAAAAACAACAATAAATCAATTCAAAGAAA
Found at i:7403455 original size:21 final size:21
Alignment explanation
Indices: 7403423--7403556 Score: 94
Period size: 21 Copynumber: 6.3 Consensus size: 21
7403413 CAATAAATTA
*
7403423 ATTCAAAGAAACAAACAATCG
1 ATTCAAAAAAACAAACAATCG
* * *
7403444 ATTTAAAAAAACAATAATGAATCA
1 ATTCAAAAAAAC-A-AA-CAATCG
* *
7403468 ATTCAAAGAAGCAAA-AATCG
1 ATTCAAAAAAACAAACAATCG
*
7403488 ATTCAAGAAGAA-AAA-AATCG
1 ATTCAA-AAAAACAAACAATCG
* * *
7403508 ATTTAAAACAATAAACAATCG
1 ATTCAAAAAAACAAACAATCG
* * *
7403529 ATTCAAAACAACAAGCAATTG
1 ATTCAAAAAAACAAACAATCG
7403550 ATTCAAA
1 ATTCAAA
7403557 GAAGTAAAGA
Statistics
Matches: 90, Mismatches: 17, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
19 4 0.04
20 26 0.29
21 41 0.46
22 3 0.03
23 3 0.03
24 13 0.14
ACGTcount: A:0.57, C:0.14, G:0.09, T:0.19
Consensus pattern (21 bp):
ATTCAAAAAAACAAACAATCG
Found at i:7403491 original size:20 final size:20
Alignment explanation
Indices: 7403480--7403534 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 20
7403470 TCAAAGAAGC
7403480 AAAAATCGATTCAAGAAGAA
1 AAAAATCGATTCAAGAAGAA
* *
7403500 AAAAATCGATTTAA-AACAA
1 AAAAATCGATTCAAGAAGAA
7403519 TAAACAATCGATTCAA
1 -AAA-AATCGATTCAA
7403535 AACAACAAGC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
19 4 0.13
20 16 0.53
21 10 0.33
ACGTcount: A:0.58, C:0.13, G:0.09, T:0.20
Consensus pattern (20 bp):
AAAAATCGATTCAAGAAGAA
Found at i:7403497 original size:19 final size:21
Alignment explanation
Indices: 7403463--7403535 Score: 64
Period size: 20 Copynumber: 3.6 Consensus size: 21
7403453 AACAATAATG
* *
7403463 AATCAATTCAAAGAAG-CAAA
1 AATCGATTCAAAGAAGAAAAA
7403483 AATCGATTC-AAGAAGAAAAA
1 AATCGATTCAAAGAAGAAAAA
* *
7403503 AATCGATTTAAA-ACA-ATAAAC
1 AATCGATTCAAAGA-AGA-AAAA
7403524 AATCGATTCAAA
1 AATCGATTCAAA
7403536 ACAACAAGCA
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
19 6 0.14
20 21 0.48
21 17 0.39
ACGTcount: A:0.58, C:0.14, G:0.10, T:0.19
Consensus pattern (21 bp):
AATCGATTCAAAGAAGAAAAA
Found at i:7405078 original size:22 final size:22
Alignment explanation
Indices: 7405046--7405087 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
7405036 AGTATTATTA
7405046 CCCAACCCGAATACAACCAATC
1 CCCAACCCGAATACAACCAATC
* *
7405068 CCCAACTCGAATACTACCAA
1 CCCAACCCGAATACAACCAA
7405088 AGTGGAACCC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.40, C:0.43, G:0.05, T:0.12
Consensus pattern (22 bp):
CCCAACCCGAATACAACCAATC
Found at i:7405351 original size:3 final size:3
Alignment explanation
Indices: 7405343--7405439 Score: 194
Period size: 3 Copynumber: 32.3 Consensus size: 3
7405333 AAAACAAAAC
7405343 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
7405391 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
7405439 A
1 A
7405440 CAGGAAGGGA
Statistics
Matches: 94, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 94 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:7408126 original size:22 final size:21
Alignment explanation
Indices: 7408101--7408141 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
7408091 TTAAATCTCT
7408101 AAGATTACAAGATCATATCTTC
1 AAGATTAC-AGATCATATCTTC
* *
7408123 AAGATTGCATATCATATCT
1 AAGATTACAGATCATATCT
7408142 AAGACTGCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.39, C:0.17, G:0.10, T:0.34
Consensus pattern (21 bp):
AAGATTACAGATCATATCTTC
Found at i:7408150 original size:19 final size:19
Alignment explanation
Indices: 7408098--7408209 Score: 156
Period size: 19 Copynumber: 5.8 Consensus size: 19
7408088 AAATTAAATC
* *
7408098 TCTAAGATTACAAGATCATA
1 TCTAAGATTGC-ATATCATA
7408118 TCTTCAAGATTGCATATCATA
1 TC-T-AAGATTGCATATCATA
*
7408139 TCTAAGACTGCATATCATA
1 TCTAAGATTGCATATCATA
7408158 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
7408175 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
7408194 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
7408210 CTTAAAGATT
Statistics
Matches: 84, Mismatches: 4, Indels: 9
0.87 0.04 0.09
Matches are distributed among these distances:
17 17 0.20
19 47 0.56
20 3 0.04
21 10 0.12
22 7 0.08
ACGTcount: A:0.37, C:0.17, G:0.11, T:0.36
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:7408176 original size:36 final size:37
Alignment explanation
Indices: 7408112--7408209 Score: 144
Period size: 36 Copynumber: 2.6 Consensus size: 37
7408102 AGATTACAAG
7408112 ATCATATCTTCAAGATTGCATATCATATCTAAGACTGCAT
1 ATCATATC-T-AAGATTG-ATATCATATCTAAGACTGCAT
*
7408152 ATCATATCTAAGATTG-TATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGATATCATATCTAAGACTGCAT
7408188 ATCATATCTAAGATTGCATATC
1 ATCATATCTAAGATTG-ATATC
7408210 CTTAAAGATT
Statistics
Matches: 55, Mismatches: 1, Indels: 6
0.89 0.02 0.10
Matches are distributed among these distances:
36 35 0.64
38 11 0.20
39 1 0.02
40 8 0.15
ACGTcount: A:0.36, C:0.17, G:0.10, T:0.37
Consensus pattern (37 bp):
ATCATATCTAAGATTGATATCATATCTAAGACTGCAT
Found at i:7415281 original size:43 final size:43
Alignment explanation
Indices: 7415220--7415375 Score: 163
Period size: 43 Copynumber: 3.6 Consensus size: 43
7415210 GATTAACGAG
* *
7415220 ATGTGATTATGTGTAAGACCATGTCTGAGACATTGGCATCATT
1 ATGTGATTACGTGTAAGACCATATCTGAGACATTGGCATCATT
* * *
7415263 ATGTGATTACGTGTAAGACCATATTTGGGACATTGGCATCGTT
1 ATGTGATTACGTGTAAGACCATATCTGAGACATTGGCATCATT
* * * * * *
7415306 ATTTGATTTCGTGTAAGACCATAGCTG-GGCTATCGGCATGGA-T
1 ATGTGATTACGTGTAAGACCATATCTGAGAC-ATTGGCAT-CATT
* *
7415349 ATGTGATAACATGTAAGACCATATCTG
1 ATGTGATTACGTGTAAGACCATATCTG
7415376 GGATATGGCA
Statistics
Matches: 93, Mismatches: 18, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
42 2 0.02
43 91 0.98
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.33
Consensus pattern (43 bp):
ATGTGATTACGTGTAAGACCATATCTGAGACATTGGCATCATT
Found at i:7418444 original size:24 final size:24
Alignment explanation
Indices: 7418408--7418460 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
7418398 ATTGTACATA
7418408 TTTA-AAAAATAAATA-AATTTATT
1 TTTATAAAAATAAATATAA-TTATT
*
7418431 TTTATAAAGATAAATATAATTATT
1 TTTATAAAAATAAATATAATTATT
*
7418455 TGTATA
1 TTTATA
7418461 TGTACTATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 4 0.15
24 20 0.77
25 2 0.08
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (24 bp):
TTTATAAAAATAAATATAATTATT
Found at i:7418633 original size:29 final size:30
Alignment explanation
Indices: 7418583--7418650 Score: 79
Period size: 29 Copynumber: 2.3 Consensus size: 30
7418573 CACTTATATC
*
7418583 TTTATAATTTTTAGAAGATCAAA-TCA-AATT
1 TTTATTATTTTTAGAAGATCAAAGT-ATAA-T
*
7418613 TTTATTATTTTTA-AGGATCAAAGTATAAT
1 TTTATTATTTTTAGAAGATCAAAGTATAAT
7418642 TTTATTATT
1 TTTATTATT
7418651 ACTAATTTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
29 19 0.56
30 15 0.44
ACGTcount: A:0.38, C:0.04, G:0.07, T:0.50
Consensus pattern (30 bp):
TTTATTATTTTTAGAAGATCAAAGTATAAT
Found at i:7418826 original size:29 final size:32
Alignment explanation
Indices: 7418770--7418850 Score: 96
Period size: 31 Copynumber: 2.6 Consensus size: 32
7418760 ATATTGAATT
*
7418770 AAATCAAAATTTTATTGTATAAAATTATA-A-A
1 AAATCAAAACTTTA-TGTATAAAATTATACATA
* *
7418801 AAATCAAAA-TTTATGTATAATATTATACATT
1 AAATCAAAACTTTATGTATAAAATTATACATA
7418832 AAATCAAAACTTATATGTA
1 AAATCAAAACTT-TATGTA
7418851 AGTTTTAGAT
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
29 13 0.30
30 5 0.11
31 18 0.41
32 2 0.05
33 6 0.14
ACGTcount: A:0.52, C:0.06, G:0.04, T:0.38
Consensus pattern (32 bp):
AAATCAAAACTTTATGTATAAAATTATACATA
Found at i:7420809 original size:84 final size:84
Alignment explanation
Indices: 7420664--7420835 Score: 317
Period size: 84 Copynumber: 2.0 Consensus size: 84
7420654 TTGTTGCAGG
* * *
7420664 TTTTATTAATATAGATGTACTGTAATTCAGCTGATGCCAAAGAAGATGGTTCAAATTTGAACTGG
1 TTTTATTAATATAGATGTAATGTAATTCAGCTGATGCCAAAGAAGATGGTTCAAATATGAACTAG
7420729 TTTTGCATCTTCATTTTGA
66 TTTTGCATCTTCATTTTGA
7420748 TTTTATTAATATAGATGTAATGTAATTCAGCTGATGCCAAAGAAGATGGTTCAAATATGAACTAG
1 TTTTATTAATATAGATGTAATGTAATTCAGCTGATGCCAAAGAAGATGGTTCAAATATGAACTAG
7420813 TTTTGCATCTTCATTTTGA
66 TTTTGCATCTTCATTTTGA
7420832 TTTT
1 TTTT
7420836 GTTGGCAATA
Statistics
Matches: 85, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
84 85 1.00
ACGTcount: A:0.31, C:0.11, G:0.17, T:0.41
Consensus pattern (84 bp):
TTTTATTAATATAGATGTAATGTAATTCAGCTGATGCCAAAGAAGATGGTTCAAATATGAACTAG
TTTTGCATCTTCATTTTGA
Found at i:7421343 original size:14 final size:14
Alignment explanation
Indices: 7421313--7421342 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
7421303 GTTTGTTTCA
7421313 TTTAAAATAGCTTT
1 TTTAAAATAGCTTT
7421327 TTTAAAATAG-TTT
1 TTTAAAATAGCTTT
7421340 TTT
1 TTT
7421343 TTTGAAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.33, C:0.03, G:0.07, T:0.57
Consensus pattern (14 bp):
TTTAAAATAGCTTT
Found at i:7421472 original size:31 final size:33
Alignment explanation
Indices: 7421437--7421507 Score: 85
Period size: 33 Copynumber: 2.2 Consensus size: 33
7421427 AGCTTTTTTG
* *
7421437 AAATATTTT-CAGAGAATCTACC-AACAAC-AGA
1 AAATATTTTACACAGAATCAACCAAAC-ACTAGA
*
7421468 AAATATTTTACACAGATTCAACCAAACACTAGA
1 AAATATTTTACACAGAATCAACCAAACACTAGA
7421501 AAATATT
1 AAATATT
7421508 AACTTTTCCA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
31 9 0.26
32 12 0.35
33 13 0.38
ACGTcount: A:0.49, C:0.18, G:0.07, T:0.25
Consensus pattern (33 bp):
AAATATTTTACACAGAATCAACCAAACACTAGA
Found at i:7424946 original size:2 final size:2
Alignment explanation
Indices: 7424939--7424963 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
7424929 ACTAATTCCA
7424939 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
7424964 AATGTGTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7434934 original size:26 final size:26
Alignment explanation
Indices: 7434905--7435014 Score: 193
Period size: 26 Copynumber: 4.2 Consensus size: 26
7434895 TGGTACAAAT
7434905 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
7434931 TGATAATGGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
7434957 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
7434983 TGATAATGGTTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
7435009 TGATAA
1 TGATAA
7435015 GAATTTCATG
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 80 1.00
ACGTcount: A:0.33, C:0.06, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:7437076 original size:137 final size:136
Alignment explanation
Indices: 7436794--7437068 Score: 505
Period size: 137 Copynumber: 2.0 Consensus size: 136
7436784 GAGTAGTCTC
* *
7436794 CCCAAATGGGCTTGCATATGTTATTGATGTTGTATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCCAAATGGGCTTGCATATGTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
7436859 ATTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
66 ATTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
7436924 CTGTTA
131 CTGTTA
7436930 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATG-TTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
* *
7436995 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGTTCTGGCCCAGTACC
65 TATTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
7437060 ACTGTTA
130 ACTGTTA
7437067 CC
1 CC
7437069 TGAATGGGTT
Statistics
Matches: 134, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
136 20 0.15
137 114 0.85
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (136 bp):
CCCAAATGGGCTTGCATATGTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
ATTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
CTGTTA
Found at i:7440265 original size:20 final size:20
Alignment explanation
Indices: 7440236--7440281 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
7440226 CGATTGATCC
* *
7440236 AAAACTTTACACACATAACA
1 AAAACATTACAAACATAACA
* *
7440256 AAAACATTACAAACTTATCA
1 AAAACATTACAAACATAACA
7440276 AAAACA
1 AAAACA
7440282 ACATTGAACA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.59, C:0.22, G:0.00, T:0.20
Consensus pattern (20 bp):
AAAACATTACAAACATAACA
Found at i:7442926 original size:17 final size:16
Alignment explanation
Indices: 7442904--7442945 Score: 57
Period size: 17 Copynumber: 2.6 Consensus size: 16
7442894 CTGTTTTTAA
7442904 ATATATTAATAAATTAT
1 ATATATTAATAAATT-T
*
7442921 ATATATTAATTAATTT
1 ATATATTAATAAATTT
*
7442937 ATATTTTAA
1 ATATATTAA
7442946 ACTGTTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 9 0.39
17 14 0.61
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
ATATATTAATAAATTT
Found at i:7444243 original size:32 final size:32
Alignment explanation
Indices: 7444197--7444276 Score: 90
Period size: 32 Copynumber: 2.5 Consensus size: 32
7444187 TTTCAATCAT
*
7444197 TTCAATATCCAACAAGCTT-AAAACATAATAAA
1 TTCAATATCCAACAA-ATTCAAAACATAATAAA
** * *
7444229 TTCAATATGTAACAAATTCAAGACATAATAAT
1 TTCAATATCCAACAAATTCAAAACATAATAAA
*
7444261 TTCAAAATCCAACAAA
1 TTCAATATCCAACAAA
7444277 CTAAAATTTC
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
31 2 0.05
32 37 0.95
ACGTcount: A:0.53, C:0.17, G:0.04, T:0.26
Consensus pattern (32 bp):
TTCAATATCCAACAAATTCAAAACATAATAAA
Found at i:7446226 original size:5 final size:5
Alignment explanation
Indices: 7446216--7446242 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
7446206 CTCTGTGTTC
7446216 TTTAT TTTAT TTTAT TTTAT TTTAT TT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TT
7446243 CCACAATTCG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:7448798 original size:24 final size:24
Alignment explanation
Indices: 7448770--7448816 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
7448760 CTTAGAAAGA
* *
7448770 GAGATTTGTCTTTGCCTGAGAAAT
1 GAGATTTGCCTTTACCTGAGAAAT
7448794 GAGATTTGCCTTTACCTGAGAAA
1 GAGATTTGCCTTTACCTGAGAAA
7448817 GAAAGAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.34
Consensus pattern (24 bp):
GAGATTTGCCTTTACCTGAGAAAT
Found at i:7450307 original size:44 final size:44
Alignment explanation
Indices: 7450239--7450329 Score: 164
Period size: 44 Copynumber: 2.1 Consensus size: 44
7450229 TTGAGGCATC
*
7450239 CGAGTATCCGAGCTCATTGAGTTGGTCTGAGTTCATTACGGATG
1 CGAGCATCCGAGCTCATTGAGTTGGTCTGAGTTCATTACGGATG
*
7450283 CGAGCATCCGAGCTCATTGAGTTGGTCTGAGTTCATTATGGATG
1 CGAGCATCCGAGCTCATTGAGTTGGTCTGAGTTCATTACGGATG
7450327 CGA
1 CGA
7450330 TACATGTAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.31
Consensus pattern (44 bp):
CGAGCATCCGAGCTCATTGAGTTGGTCTGAGTTCATTACGGATG
Found at i:7455319 original size:40 final size:40
Alignment explanation
Indices: 7455275--7455354 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
7455265 CATGTTACGG
*
7455275 GTTATATATTCTAGTGCAACGGGATCTCTCATGTATGCTA
1 GTTATATATTCTAGTGCAACGGAATCTCTCATGTATGCTA
7455315 GTTATATATTCTAGTGCAACGGAATCTCTCATGTATGCTA
1 GTTATATATTCTAGTGCAACGGAATCTCTCATGTATGCTA
7455355 TGGTTTTCTC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.38
Consensus pattern (40 bp):
GTTATATATTCTAGTGCAACGGAATCTCTCATGTATGCTA
Found at i:7458167 original size:18 final size:19
Alignment explanation
Indices: 7458144--7458184 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
7458134 GGCCTGTTAG
*
7458144 AAAACC-AAAAAAACCAAA
1 AAAACCAAAAAAAAACAAA
7458162 AAAACCAAAAAAAAACAAA
1 AAAACCAAAAAAAAACAAA
7458181 AAAA
1 AAAA
7458185 TAAACCAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.83, C:0.17, G:0.00, T:0.00
Consensus pattern (19 bp):
AAAACCAAAAAAAAACAAA
Found at i:7458174 original size:12 final size:12
Alignment explanation
Indices: 7458159--7458201 Score: 54
Period size: 11 Copynumber: 3.7 Consensus size: 12
7458149 CAAAAAAACC
7458159 AAAAAAACC-AA
1 AAAAAAACCAAA
7458170 AAAAAAA-CAAA
1 AAAAAAACCAAA
7458181 AAAATAAACCAAA
1 AAAA-AAACCAAA
*
7458194 ATAAAAAC
1 AAAAAAAC
7458202 AATAAAAGTC
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
10 1 0.04
11 13 0.46
12 7 0.25
13 7 0.25
ACGTcount: A:0.81, C:0.14, G:0.00, T:0.05
Consensus pattern (12 bp):
AAAAAAACCAAA
Found at i:7458189 original size:23 final size:23
Alignment explanation
Indices: 7458159--7458208 Score: 75
Period size: 24 Copynumber: 2.2 Consensus size: 23
7458149 CAAAAAAACC
7458159 AAAAAAACCAAAA-AAAAACAAA
1 AAAAAAACCAAAATAAAAACAAA
*
7458181 AAAATAAACCAAAATAAAAACAAT
1 AAAA-AAACCAAAATAAAAACAAA
7458205 AAAA
1 AAAA
7458209 GTCCATTAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 4 0.16
23 9 0.36
24 12 0.48
ACGTcount: A:0.82, C:0.12, G:0.00, T:0.06
Consensus pattern (23 bp):
AAAAAAACCAAAATAAAAACAAA
Found at i:7458198 original size:10 final size:9
Alignment explanation
Indices: 7458144--7458184 Score: 64
Period size: 9 Copynumber: 4.4 Consensus size: 9
7458134 GGCCTGTTAG
7458144 AAAACCAAA
1 AAAACCAAA
7458153 AAAACCAAA
1 AAAACCAAA
7458162 AAAACCAAAA
1 AAAACC-AAA
*
7458172 AAAAACAAA
1 AAAACCAAA
7458181 AAAA
1 AAAA
7458185 TAAACCAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
9 22 0.73
10 8 0.27
ACGTcount: A:0.83, C:0.17, G:0.00, T:0.00
Consensus pattern (9 bp):
AAAACCAAA
Found at i:7459415 original size:19 final size:21
Alignment explanation
Indices: 7459378--7459416 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
7459368 TTGGTTACTC
*
7459378 ATATAGCATTACTTTATTTTT
1 ATATAGCATTACTTAATTTTT
7459399 ATATA-CATTA-TTAATTTT
1 ATATAGCATTACTTAATTTT
7459417 GATTTTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 7 0.41
20 5 0.29
21 5 0.29
ACGTcount: A:0.33, C:0.08, G:0.03, T:0.56
Consensus pattern (21 bp):
ATATAGCATTACTTAATTTTT
Found at i:7463869 original size:137 final size:136
Alignment explanation
Indices: 7463623--7463908 Score: 500
Period size: 137 Copynumber: 2.1 Consensus size: 136
7463613 CATTGGGCCT
** *
7463623 AAGCCCATTCAGGCAACAGTGGTACTGGGCCAGAGCCCTTTTCAAATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGCAACAGTGGTACTGGGCCAGAGCCCTTTTCAAATTACAATAAACTGAGCCTT
*
7463688 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAAT-AA
7463753 CATATGC
130 CATATGC
* * *
7463760 AAGCCCATTTGGGTAACAGTGGTACTGGGCTAGAGCCCTTTTCAGATTACAATAAACTGAGCCTT
1 AAGCCCATTTGGGCAACAGTGGTACTGGGCCAGAGCCCTTTTCAAATTACAATAAACTGAGCCTT
7463825 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
7463890 ATATGC
131 ATATGC
7463896 AAGCCCATTTGGG
1 AAGCCCATTTGGG
7463909 GAGACTACTC
Statistics
Matches: 142, Mismatches: 7, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
136 22 0.15
137 120 0.85
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.24
Consensus pattern (136 bp):
AAGCCCATTTGGGCAACAGTGGTACTGGGCCAGAGCCCTTTTCAAATTACAATAAACTGAGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
ATATGC
Found at i:7465708 original size:26 final size:26
Alignment explanation
Indices: 7465672--7465781 Score: 159
Period size: 26 Copynumber: 4.2 Consensus size: 26
7465662 CATGAATTTC
*
7465672 TTATCATGAAACATTTACCTAAACCA
1 TTATCATGAAACATTTACCTAACCCA
7465698 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* * *
7465724 TTATCATGGAATATTTACCTAATCCA
1 TTATCATGAAACATTTACCTAACCCA
*
7465750 TTATCAT-AGAATATTTACCTAACCCA
1 TTATCATGA-AACATTTACCTAACCCA
7465776 TTATCA
1 TTATCA
7465782 ATTTGTATCA
Statistics
Matches: 77, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.38, C:0.23, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:7466419 original size:46 final size:46
Alignment explanation
Indices: 7466367--7466633 Score: 356
Period size: 46 Copynumber: 5.8 Consensus size: 46
7466357 GTGTGCTCTC
* *
7466367 TGATATGGAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACG
*
7466413 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACG
* *
7466459 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACC
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACG
* *
7466505 TGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACG
*** * * *
7466551 TGACGGGAAAATGAATAAGACAATGGTTGAAAGATACCATGGCAACA
1 TGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACG
* * * *
7466598 TGACA-GAAAACGAGTAAAACCATAGTTGAAAGATAC
1 TGATATG-AAATGAGTAAGACCATGGTTGAAAGATAC
7466634 TATGACATCA
Statistics
Matches: 203, Mismatches: 17, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
46 162 0.80
47 41 0.20
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.21
Consensus pattern (46 bp):
TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACG
Found at i:7468610 original size:15 final size:15
Alignment explanation
Indices: 7468581--7468633 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
7468571 CATATTGTCA
* *
7468581 TTATTATTTCATATT
1 TTATTTTTTCTTATT
*
7468596 TTATTTTTTGTTATT
1 TTATTTTTTCTTATT
*
7468611 TTATTATTTCTT-TT
1 TTATTTTTTCTTATT
7468625 ATTATTTTT
1 -TTATTTTT
7468634 GGCACTTTCA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
14 2 0.06
15 29 0.94
ACGTcount: A:0.19, C:0.04, G:0.02, T:0.75
Consensus pattern (15 bp):
TTATTTTTTCTTATT
Found at i:7473041 original size:2 final size:2
Alignment explanation
Indices: 7473034--7473073 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
7473024 GTGTGCTAAA
7473034 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7473074 TAAATTAGTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7475120 original size:4 final size:4
Alignment explanation
Indices: 7475102--7475193 Score: 71
Period size: 4 Copynumber: 22.8 Consensus size: 4
7475092 CTCAAATTTC
* * * * *
7475102 TCTT T-TT TATT TCTT TCTT TCTT TCCT TCTT TCTT TCTC ACGTT TGCTC
1 TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCTT TC-TT T-CTT
** *
7475151 TCTAT T-AG TCTT TCTA TCTT TCTT TCTT TCTT TCTT TCTT TCT
1 TCT-T TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCT
7475194 CACGTTTGCT
Statistics
Matches: 68, Mismatches: 15, Indels: 10
0.73 0.16 0.11
Matches are distributed among these distances:
3 4 0.06
4 59 0.87
5 4 0.06
6 1 0.01
ACGTcount: A:0.05, C:0.25, G:0.03, T:0.66
Consensus pattern (4 bp):
TCTT
Found at i:7475225 original size:54 final size:54
Alignment explanation
Indices: 7475103--7475225 Score: 176
Period size: 54 Copynumber: 2.3 Consensus size: 54
7475093 TCAAATTTCT
* *
7475103 CTTTTTTATTTCTTTCTTTCTTTCCTTCTTTCTTTCTCACGTTTGCTCTCTATTA
1 CTTTTCTA-TTCTTTCTTTCTTTCCTTCTTTCTTTCTCACGTTTGCTCTCTATAA
* * *
7475158 GTCTTTCTA-TCTTTCTTTCTTTCTTTCTTTCTTTCTCACGTTTGCTCTCTGTAA
1 CT-TTTCTATTCTTTCTTTCTTTCCTTCTTTCTTTCTCACGTTTGCTCTCTATAA
7475212 CTTTTCTATTCTTT
1 CTTTTCTATTCTTT
7475226 ACTCATTATT
Statistics
Matches: 60, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
53 6 0.10
54 48 0.80
55 1 0.02
56 5 0.08
ACGTcount: A:0.07, C:0.25, G:0.05, T:0.63
Consensus pattern (54 bp):
CTTTTCTATTCTTTCTTTCTTTCCTTCTTTCTTTCTCACGTTTGCTCTCTATAA
Found at i:7475237 original size:14 final size:14
Alignment explanation
Indices: 7475218--7475248 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
7475208 GTAACTTTTC
7475218 TATTCTTTACTCAT
1 TATTCTTTACTCAT
*
7475232 TATTCTTTATTCAT
1 TATTCTTTACTCAT
7475246 TAT
1 TAT
7475249 ACTATATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.23, C:0.16, G:0.00, T:0.61
Consensus pattern (14 bp):
TATTCTTTACTCAT
Found at i:7475670 original size:3 final size:3
Alignment explanation
Indices: 7475664--7475733 Score: 63
Period size: 3 Copynumber: 22.7 Consensus size: 3
7475654 TAAGAAAATG
* *
7475664 TAA TAA TAA TAA TAG TAA TAA TACA GTAG TAA TAA TAA TAA -AA GGT-A
1 TAA TAA TAA TAA TAA TAA TAA TA-A -TAA TAA TAA TAA TAA TAA --TAA
*
7475711 TAA TAA TAA TAA TAG TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TA
7475734 CAACAATAAT
Statistics
Matches: 55, Mismatches: 6, Indels: 12
0.75 0.08 0.16
Matches are distributed among these distances:
2 3 0.05
3 48 0.87
4 2 0.04
5 2 0.04
ACGTcount: A:0.59, C:0.01, G:0.09, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:7475722 original size:47 final size:45
Alignment explanation
Indices: 7475647--7475735 Score: 142
Period size: 47 Copynumber: 1.9 Consensus size: 45
7475637 GGAAGAAAAT
*
7475647 GTAATAATAAGAAAATGTAATAATAATAATAGTAATAATACAGTA
1 GTAATAATAAGAAAATATAATAATAATAATAGTAATAATACAGTA
*
7475692 GTAATAATAATAAAAGGTATAATAATAATAATAGTAATAATACA
1 GTAATAATAAGAAAA--TATAATAATAATAATAGTAATAATACA
7475736 ACAATAATGA
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
45 14 0.35
47 26 0.65
ACGTcount: A:0.58, C:0.02, G:0.10, T:0.29
Consensus pattern (45 bp):
GTAATAATAAGAAAATATAATAATAATAATAGTAATAATACAGTA
Found at i:7475806 original size:21 final size:23
Alignment explanation
Indices: 7475782--7475834 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 23
7475772 AATATTTCAT
7475782 AAATATATACAT-AT-ATATTAA
1 AAATATATACATGATAATATTAA
* *
7475803 AAATAAATATATGATAATATTAA
1 AAATATATACATGATAATATTAA
*
7475826 AAGTATATA
1 AAATATATA
7475835 TGTAATATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
21 10 0.38
22 2 0.08
23 14 0.54
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.36
Consensus pattern (23 bp):
AAATATATACATGATAATATTAA
Found at i:7475862 original size:18 final size:19
Alignment explanation
Indices: 7475830--7475882 Score: 72
Period size: 18 Copynumber: 2.8 Consensus size: 19
7475820 TATTAAAAGT
*
7475830 ATATATGTAATATATACACA
1 ATATAT-TAAAATATACACA
*
7475850 ATATA-TAAAATATACATA
1 ATATATTAAAATATACACA
7475868 ATATATTAAAATATA
1 ATATATTAAAATATA
7475883 GACATAATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
18 16 0.53
19 9 0.30
20 5 0.17
ACGTcount: A:0.57, C:0.06, G:0.02, T:0.36
Consensus pattern (19 bp):
ATATATTAAAATATACACA
Found at i:7479701 original size:28 final size:28
Alignment explanation
Indices: 7479669--7479722 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
7479659 ATTACAAAAA
7479669 TTATAA-AAATATAGAAAAAAATTAAATT
1 TTATAAGAAAT-TAGAAAAAAATTAAATT
**
7479697 TTATAAGAAATTATTAAAAAATTAAA
1 TTATAAGAAATTAGAAAAAAATTAAA
7479723 ATTATTAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 19 0.83
29 4 0.17
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (28 bp):
TTATAAGAAATTAGAAAAAAATTAAATT
Found at i:7479876 original size:2 final size:2
Alignment explanation
Indices: 7479871--7479900 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
7479861 AAAAATTCAA
7479871 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7479901 CTTTTTAATC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7480280 original size:20 final size:19
Alignment explanation
Indices: 7480253--7480304 Score: 72
Period size: 19 Copynumber: 2.7 Consensus size: 19
7480243 ACATGTGGTT
7480253 TTTTTTTAATTTTTTAAAA
1 TTTTTTTAATTTTTTAAAA
7480272 TTTTATTT-ATTTATTTAAAA
1 TTTT-TTTAATTT-TTTAAAA
7480292 -TTTTTTAATTTTT
1 TTTTTTTAATTTTT
7480305 AAATATTTGA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
18 5 0.17
19 15 0.50
20 10 0.33
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (19 bp):
TTTTTTTAATTTTTTAAAA
Found at i:7482545 original size:3 final size:3
Alignment explanation
Indices: 7482531--7482563 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
7482521 TTAATTGATA
*
7482531 AAG AAG ACG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
7482564 GGGTTTGAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.64, C:0.03, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:7486851 original size:37 final size:38
Alignment explanation
Indices: 7486800--7486937 Score: 111
Period size: 37 Copynumber: 3.5 Consensus size: 38
7486790 TTCATGGATC
7486800 GTTTTTAATATAATTATAATACAATTACAAATATACAT
1 GTTTTTAATATAATTATAATACAATTACAAATATACAT
* * * *
7486838 GTTTTTGA-ATAATTATAAAATAAAATCA-AATTATTATAACACAC
1 GTTTTTAATATAATTAT--AATACAATTACAA--A-TAT---ACAT
** *
7486882 AATTATAATATAATTATAATACAATTACAAATATACAT
1 GTTTTTAATATAATTATAATACAATTACAAATATACAT
*
7486920 GTTTTTGA-ATAATTATAA
1 GTTTTTAATATAATTATAA
7486938 AATAAAATCA
Statistics
Matches: 75, Mismatches: 15, Indels: 21
0.68 0.14 0.19
Matches are distributed among these distances:
37 18 0.24
38 16 0.21
39 8 0.11
40 1 0.01
41 6 0.08
42 1 0.01
43 8 0.11
44 9 0.12
45 8 0.11
ACGTcount: A:0.49, C:0.07, G:0.04, T:0.40
Consensus pattern (38 bp):
GTTTTTAATATAATTATAATACAATTACAAATATACAT
Found at i:7486940 original size:82 final size:82
Alignment explanation
Indices: 7486805--7486973 Score: 311
Period size: 82 Copynumber: 2.1 Consensus size: 82
7486795 GGATCGTTTT
7486805 TAATATAATTATAATACAATTACAAATATACATGTTTTTGAATAATTATAAAATAAAATCAAATT
1 TAATATAATTATAATACAATTACAAATATACATGTTTTTGAATAATTATAAAATAAAATCAAATT
7486870 ATTATAACACACAATTA
66 ATTATAACACACAATTA
7486887 TAATATAATTATAATACAATTACAAATATACATGTTTTTGAATAATTATAAAATAAAATCAAATT
1 TAATATAATTATAATACAATTACAAATATACATGTTTTTGAATAATTATAAAATAAAATCAAATT
* *
7486952 ATTGTAATACACAATTA
66 ATTATAACACACAATTA
*
7486969 AAATA
1 TAATA
7486974 ATCTCGTACA
Statistics
Matches: 84, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
82 84 1.00
ACGTcount: A:0.53, C:0.08, G:0.03, T:0.37
Consensus pattern (82 bp):
TAATATAATTATAATACAATTACAAATATACATGTTTTTGAATAATTATAAAATAAAATCAAATT
ATTATAACACACAATTA
Found at i:7499200 original size:11 final size:11
Alignment explanation
Indices: 7499182--7499224 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
7499172 TATTTTTTTT
7499182 TACTATTTTGC
1 TACTATTTTGC
* *
7499193 TACCATTTCGC
1 TACTATTTTGC
* *
7499204 TGCTATGTTGC
1 TACTATTTTGC
7499215 TACTATTTTG
1 TACTATTTTG
7499225 TTATTATTGT
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.16, C:0.21, G:0.14, T:0.49
Consensus pattern (11 bp):
TACTATTTTGC
Found at i:7499433 original size:12 final size:12
Alignment explanation
Indices: 7499416--7499449 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
7499406 TATGTTTTTT
*
7499416 AAAAATTATATA
1 AAAAATAATATA
7499428 AAAAATAATATA
1 AAAAATAATATA
7499440 AAAAATAATA
1 AAAAATAATA
7499450 CGACTGGGCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (12 bp):
AAAAATAATATA
Found at i:7501989 original size:15 final size:16
Alignment explanation
Indices: 7501971--7502003 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
7501961 TCAATTCGAC
7501971 TTGACTCGAA-TTTAT
1 TTGACTCGAATTTTAT
7501986 TTGACTCGAATTTTAT
1 TTGACTCGAATTTTAT
7502002 TT
1 TT
7502004 AAACTTAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.24, C:0.12, G:0.12, T:0.52
Consensus pattern (16 bp):
TTGACTCGAATTTTAT
Found at i:7508836 original size:15 final size:16
Alignment explanation
Indices: 7508811--7508842 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
7508801 CATTTGTTCA
7508811 TTTTCTGTTTTTATTT
1 TTTTCTGTTTTTATTT
7508827 TTTTCT-TTTTTATTT
1 TTTTCTGTTTTTATTT
7508842 T
1 T
7508843 ATTTTGAATC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.06, C:0.06, G:0.03, T:0.84
Consensus pattern (16 bp):
TTTTCTGTTTTTATTT
Found at i:7509642 original size:3 final size:3
Alignment explanation
Indices: 7509634--7509694 Score: 61
Period size: 3 Copynumber: 20.7 Consensus size: 3
7509624 AAACCCTAGT
* * * * * *
7509634 TTA TTA TTA TTA -TA TTA TTA TTA TCA TTA ATA TCA TCA TCA TTG TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
7509681 TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TT
7509695 TACACTGTTA
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
2 2 0.04
3 47 0.96
ACGTcount: A:0.33, C:0.07, G:0.02, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:7509732 original size:15 final size:16
Alignment explanation
Indices: 7509707--7509736 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
7509697 CACTGTTATT
7509707 CTTATTATTATCGTTA
1 CTTATTATTATCGTTA
7509723 CTTA-TATTATCGTT
1 CTTATTATTATCGTT
7509737 TGCATCACTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.23, C:0.13, G:0.07, T:0.57
Consensus pattern (16 bp):
CTTATTATTATCGTTA
Found at i:7513410 original size:3 final size:3
Alignment explanation
Indices: 7513402--7513426 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
7513392 TTACGGTTGC
7513402 GGT GGT GGT GGT GGT GGT GGT GGT G
1 GGT GGT GGT GGT GGT GGT GGT GGT G
7513427 ATAGCAGTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.68, T:0.32
Consensus pattern (3 bp):
GGT
Found at i:7527426 original size:38 final size:38
Alignment explanation
Indices: 7527311--7527431 Score: 108
Period size: 38 Copynumber: 3.3 Consensus size: 38
7527301 GTCCCTCGAT
* *
7527311 CACACCTCGTATGAGTTGTTTGAGCTCATCCAACCAAA
1 CACACCACATATGAGTTGTTTGAGCTCATCCAACCAAA
* *** * * *
7527349 CACACCACATACGACCAAG-TAG-GCCCATCCAGCC---
1 CACACCACATATGA-GTTGTTTGAGCTCATCCAACCAAA
*
7527383 CACACCTCATATGAGTTGTTTGAGCTCATCCAACCAAA
1 CACACCACATATGAGTTGTTTGAGCTCATCCAACCAAA
7527421 CACACCACATA
1 CACACCACATA
7527432 GGACCAAGTA
Statistics
Matches: 59, Mismatches: 18, Indels: 12
0.66 0.20 0.13
Matches are distributed among these distances:
33 1 0.02
34 14 0.24
35 10 0.17
37 10 0.17
38 23 0.39
39 1 0.02
ACGTcount: A:0.32, C:0.35, G:0.13, T:0.20
Consensus pattern (38 bp):
CACACCACATATGAGTTGTTTGAGCTCATCCAACCAAA
Found at i:7527428 original size:72 final size:72
Alignment explanation
Indices: 7527311--7527460 Score: 273
Period size: 72 Copynumber: 2.1 Consensus size: 72
7527301 GTCCCTCGAT
*
7527311 CACACCTCGTATGAGTTGTTTGAGCTCATCCAACCAAACACACCACATACGACCAAGTAGGCCCA
1 CACACCTCATATGAGTTGTTTGAGCTCATCCAACCAAACACACCACATACGACCAAGTAGGCCCA
7527376 TCCAGCC
66 TCCAGCC
*
7527383 CACACCTCATATGAGTTGTTTGAGCTCATCCAACCAAACACACCACATAGGACCAAGTAGGCCCA
1 CACACCTCATATGAGTTGTTTGAGCTCATCCAACCAAACACACCACATACGACCAAGTAGGCCCA
7527448 TCCAGCC
66 TCCAGCC
7527455 CTACAC
1 C-ACAC
7527461 ACCTTATAAC
Statistics
Matches: 75, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
72 71 0.95
73 4 0.05
ACGTcount: A:0.31, C:0.36, G:0.15, T:0.18
Consensus pattern (72 bp):
CACACCTCATATGAGTTGTTTGAGCTCATCCAACCAAACACACCACATACGACCAAGTAGGCCCA
TCCAGCC
Found at i:7533017 original size:26 final size:26
Alignment explanation
Indices: 7532981--7533116 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
7532971 CATGATATTC
7532981 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
7533007 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
7533033 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
7533059 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
7533085 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
7533111 TTATCA
1 TTATCA
7533117 ATTTGTATCA
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 104 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:7539049 original size:26 final size:26
Alignment explanation
Indices: 7539000--7539065 Score: 71
Period size: 26 Copynumber: 2.5 Consensus size: 26
7538990 GAAGTAACTA
**
7539000 GTATAAAACAAATTAAAATGAATAAT
1 GTATAAAACAAATTAAAACAAATAAT
7539026 GTATAAAAC-AATCTAAAACAAATAAT
1 GTATAAAACAAAT-TAAAACAAATAAT
* * *
7539052 ATACAAAGCAAATT
1 GTATAAAACAAATT
7539066 TAAATAATTA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
25 3 0.09
26 27 0.82
27 3 0.09
ACGTcount: A:0.61, C:0.09, G:0.06, T:0.24
Consensus pattern (26 bp):
GTATAAAACAAATTAAAACAAATAAT
Done.