Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D03
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: 53248092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1300000 characters in sequence are not A, C, G, or T
File 53 of 175
Found at i:15429846 original size:51 final size:50
Alignment explanation
Indices: 15429713--15429897 Score: 239
Period size: 51 Copynumber: 3.7 Consensus size: 50
15429703 TTATCATTCA
* *
15429713 ATACACGTAGTAGCCTTCACATAGTACTACACACGTGATC-AAGTTTTACG
1 ATACACGTAGTAGCCTTCACATAGTACTACACATGTGACCAAAGTTTT-CG
* * *
15429763 GTTCACGTAGTAGCCTTCACATAGTACTACACATGTGACAAAAGCTTTTCG
1 ATACACGTAGTAGCCTTCACATAGTACTACACATGTGACCAAAG-TTTTCG
* * * *
15429814 ATACACATAGTAGTCTTCACTTAGTACTACACATGTGACCATTA-TTTATCG
1 ATACACGTAGTAGCCTTCACATAGTACTACACATGTGACCA-AAGTTT-TCG
15429865 ATACACGTAGTAGCCTTCACATAGTACTACACA
1 ATACACGTAGTAGCCTTCACATAGTACTACACA
15429898 CGTGTTCATC
Statistics
Matches: 116, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
50 38 0.33
51 73 0.63
52 5 0.04
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.30
Consensus pattern (50 bp):
ATACACGTAGTAGCCTTCACATAGTACTACACATGTGACCAAAGTTTTCG
Found at i:15435781 original size:9 final size:9
Alignment explanation
Indices: 15435767--15435797 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
15435757 GTTAAATGAA
15435767 TCGAGTTAT
1 TCGAGTTAT
*
15435776 TCGAGTTAA
1 TCGAGTTAT
15435785 TCGAGTTAT
1 TCGAGTTAT
15435794 TCGA
1 TCGA
15435798 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:15435868 original size:9 final size:9
Alignment explanation
Indices: 15435851--15435887 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
15435841 TGAGTTTCTG
15435851 AATTCGAAT
1 AATTCGAAT
*
15435860 AACTCGAAT
1 AATTCGAAT
15435869 AATTCGAAT
1 AATTCGAAT
15435878 AATTCGAAT
1 AATTCGAAT
15435887 A
1 A
15435888 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:15436137 original size:30 final size:31
Alignment explanation
Indices: 15436101--15436160 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
15436091 AAACCTTTTA
* *
15436101 TTTTCCCGTAAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCTAAAACTTTTACTCCCTTCCCAC
*
15436131 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCTAAAACTTTTACTCCCTTCCCA
15436161 TCCCACCTCT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.20, C:0.37, G:0.02, T:0.42
Consensus pattern (31 bp):
TTTTCCCCTAAAACTTTTACTCCCTTCCCAC
Found at i:15436808 original size:5 final size:5
Alignment explanation
Indices: 15436798--15436831 Score: 68
Period size: 5 Copynumber: 6.8 Consensus size: 5
15436788 GAACAAATAT
15436798 ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG ATTC
1 ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG ATTC
15436832 AAATTTCATC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.21, C:0.21, G:0.18, T:0.41
Consensus pattern (5 bp):
ATTCG
Found at i:15438400 original size:41 final size:41
Alignment explanation
Indices: 15438245--15438390 Score: 247
Period size: 41 Copynumber: 3.6 Consensus size: 41
15438235 ACCGACACTT
* * *
15438245 AGCCTGCTAGACATAAAGTCTGATATGTTTCACTGGCATCA
1 AGCCTGCTAGACGTAATGTCTGGTATGTTTCACTGGCATCA
15438286 AGCCTGCTAGACGTAATGTCTGGTATGTTTCACTGGCATCA
1 AGCCTGCTAGACGTAATGTCTGGTATGTTTCACTGGCATCA
*
15438327 AGCCTGCTAGACGTAATGTCTGGTATGTTTCACCGGCATCA
1 AGCCTGCTAGACGTAATGTCTGGTATGTTTCACTGGCATCA
*
15438368 AGCCTGCTAGAAGTAATGTCTGG
1 AGCCTGCTAGACGTAATGTCTGG
15438391 ATTACTTCAC
Statistics
Matches: 100, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 100 1.00
ACGTcount: A:0.25, C:0.22, G:0.24, T:0.29
Consensus pattern (41 bp):
AGCCTGCTAGACGTAATGTCTGGTATGTTTCACTGGCATCA
Found at i:15439092 original size:39 final size:40
Alignment explanation
Indices: 15439018--15439093 Score: 102
Period size: 39 Copynumber: 1.9 Consensus size: 40
15439008 TTCGAATCTT
* *
15439018 ATATATATATATAATATACATATCTTTGATTAAACCTAGA
1 ATATATACATATAATATACATATATTTGATTAAACCTAGA
*
15439058 ATATATACATAT-ATATACTTATATTTG-TTCAAACCT
1 ATATATACATATAATATACATATATTTGATT-AAACCT
15439094 TGTGCACTCA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
38 2 0.06
39 19 0.59
40 11 0.34
ACGTcount: A:0.42, C:0.12, G:0.04, T:0.42
Consensus pattern (40 bp):
ATATATACATATAATATACATATATTTGATTAAACCTAGA
Found at i:15441204 original size:14 final size:14
Alignment explanation
Indices: 15441185--15441232 Score: 69
Period size: 14 Copynumber: 3.4 Consensus size: 14
15441175 GTTATAGACC
15441185 CTAAACCCTAAATA
1 CTAAACCCTAAATA
*
15441199 CTAAACCCTAAAATT
1 CTAAACCCT-AAATA
*
15441214 CTAAACCCTAAATC
1 CTAAACCCTAAATA
15441228 CTAAA
1 CTAAA
15441233 TATTATTTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
14 18 0.58
15 13 0.42
ACGTcount: A:0.48, C:0.29, G:0.00, T:0.23
Consensus pattern (14 bp):
CTAAACCCTAAATA
Found at i:15441217 original size:15 final size:15
Alignment explanation
Indices: 15441185--15441225 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
15441175 GTTATAGACC
15441185 CTAAACCCT-AAATA
1 CTAAACCCTAAAATA
*
15441199 CTAAACCCTAAAATT
1 CTAAACCCTAAAATA
15441214 CTAAACCCTAAA
1 CTAAACCCTAAA
15441226 TCCTAAATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
14 9 0.36
15 16 0.64
ACGTcount: A:0.49, C:0.29, G:0.00, T:0.22
Consensus pattern (15 bp):
CTAAACCCTAAAATA
Found at i:15441261 original size:18 final size:19
Alignment explanation
Indices: 15441221--15441262 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
15441211 ATTCTAAACC
**
15441221 CTAAATCCTAAATATTATT
1 CTAAATCCTAAATAAAATT
15441240 -TAAATCCTAAA-AAAATT
1 CTAAATCCTAAATAAAATT
15441257 CTAAAT
1 CTAAAT
15441263 TTATGACAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.50, C:0.14, G:0.00, T:0.36
Consensus pattern (19 bp):
CTAAATCCTAAATAAAATT
Found at i:15447172 original size:20 final size:20
Alignment explanation
Indices: 15447147--15447197 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
15447137 TTGTACGAGA
15447147 TTTGCACTTCGGTGCCCCTG
1 TTTGCACTTCGGTGCCCCTG
15447167 TTTGCACTTCGGTGCCCCTG
1 TTTGCACTTCGGTGCCCCTG
* *
15447187 TATACACTTCG
1 TTTGCACTTCG
15447198 ACATCCTTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.10, C:0.33, G:0.22, T:0.35
Consensus pattern (20 bp):
TTTGCACTTCGGTGCCCCTG
Found at i:15469799 original size:40 final size:41
Alignment explanation
Indices: 15469750--15469830 Score: 110
Period size: 40 Copynumber: 2.0 Consensus size: 41
15469740 GATAAAGTAG
15469750 GAAAATGCTTCCTCAAGGAAGCGCTTT-GTCCACGTGGACA
1 GAAAATGCTTCCTCAAGGAAGCGCTTTCGTCCACGTGGACA
** **
15469790 GAAAATGCTTCCTTGAGGGCGCGCTTTGCGTCCACGTGGAC
1 GAAAATGCTTCCTCAAGGAAGCGCTTT-CGTCCACGTGGAC
15469831 TAAGCGCTTC
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 23 0.66
42 12 0.34
ACGTcount: A:0.22, C:0.26, G:0.28, T:0.23
Consensus pattern (41 bp):
GAAAATGCTTCCTCAAGGAAGCGCTTTCGTCCACGTGGACA
Found at i:15470088 original size:96 final size:97
Alignment explanation
Indices: 15469924--15470138 Score: 319
Period size: 96 Copynumber: 2.2 Consensus size: 97
15469914 GATTTTAGAG
* * *
15469924 TTTTAAGGATAAAATTAAATAAATAAGGGTTTAGGGTTTCTTAATTAAATTAATTATAAATTTT-
1 TTTTAAGGAAAAAATTAAATAAATAAGGGTTTAGGGTTACTTAAGTAAATTAATTATAAATTTTA
*
15469988 AAAAAATTAGATTAGGGTTTAGTGTTTATGG-T
66 AAAAAATTAGATTAGGGTTTAGTATTTA-GGAT
* * *
15470020 TTTTAAGGAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTTA
1 TTTTAAGGAAAAAATTAAATAAATAAGGGTTTAGGGTTACTTAAGTAAATTAATTATAAATTTTA
*
15470085 AAAAAATTAGATTGGGGTTTAGTATTTAGGAT
66 AAAAAATTAGATTAGGGTTTAGTATTTAGGAT
*
15470117 TTGTAAGG-AAAAATTAAATAAA
1 TTTTAAGGAAAAAATTAAATAAA
15470139 GCTAGTTGTT
Statistics
Matches: 107, Mismatches: 10, Indels: 4
0.88 0.08 0.03
Matches are distributed among these distances:
96 73 0.68
97 34 0.32
ACGTcount: A:0.42, C:0.01, G:0.17, T:0.39
Consensus pattern (97 bp):
TTTTAAGGAAAAAATTAAATAAATAAGGGTTTAGGGTTACTTAAGTAAATTAATTATAAATTTTA
AAAAAATTAGATTAGGGTTTAGTATTTAGGAT
Found at i:15470746 original size:18 final size:18
Alignment explanation
Indices: 15470712--15470747 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
15470702 CTTAATAAAT
**
15470712 AATTTATAATTTTTTTAA
1 AATTTATAATTAATTTAA
15470730 AATTTATAATTAATTTAA
1 AATTTATAATTAATTTAA
15470748 TTAAGAAACT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
AATTTATAATTAATTTAA
Found at i:15470955 original size:36 final size:37
Alignment explanation
Indices: 15470873--15470977 Score: 142
Period size: 36 Copynumber: 2.8 Consensus size: 37
15470863 AAAAACGGGG
**
15470873 AAAGTGCTTCCTCAAGGAAGCGCTTTGTCC-ACGTGGACAC
1 AAAGTGCTTCCTTGAGGAAGCG-TTT-TCCTAC--GGACAC
15470913 AAAGTGCTTCCTTGAGGAAGCGTTTTCCTAC-GACAC
1 AAAGTGCTTCCTTGAGGAAGCGTTTTCCTACGGACAC
15470949 AAAGTGCTTCCTTGAGGAAGCGTTTTCCT
1 AAAGTGCTTCCTTGAGGAAGCGTTTTCCT
15470978 GCTTTATCCC
Statistics
Matches: 62, Mismatches: 2, Indels: 6
0.89 0.03 0.09
Matches are distributed among these distances:
36 34 0.55
38 3 0.05
39 5 0.08
40 20 0.32
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.28
Consensus pattern (37 bp):
AAAGTGCTTCCTTGAGGAAGCGTTTTCCTACGGACAC
Found at i:15473041 original size:34 final size:33
Alignment explanation
Indices: 15472978--15473041 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 33
15472968 ATCCATTATA
* *
15472978 TTTTTATTTTAAATTTTATGAATTTTTTATAAT
1 TTTTTATTTTAAATTTTATAAATTATTTATAAT
15473011 TTTTTAATTTTAAATATTT-TAAATTATTTAT
1 TTTTT-ATTTTAAAT-TTTATAAATTATTTAT
15473042 TTATATGACA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
33 5 0.19
34 19 0.70
35 3 0.11
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.66
Consensus pattern (33 bp):
TTTTTATTTTAAATTTTATAAATTATTTATAAT
Found at i:15473492 original size:19 final size:19
Alignment explanation
Indices: 15473470--15473507 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
15473460 CATTATTTAT
15473470 TATATA-TTAT-TTTTAAA
1 TATATATTTATATTTTAAA
15473487 TATATATTTATATTTTAAA
1 TATATATTTATATTTTAAA
15473506 TA
1 TA
15473508 CGCAATTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 6 0.32
18 4 0.21
19 9 0.47
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
TATATATTTATATTTTAAA
Found at i:15473803 original size:12 final size:12
Alignment explanation
Indices: 15473788--15473822 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
15473778 ATTATATGCG
15473788 AAATTTGAGTTT
1 AAATTTGAGTTT
* *
15473800 AAATTTTATTTT
1 AAATTTGAGTTT
15473812 AAATTTGAGTT
1 AAATTTGAGTT
15473823 CGTATTTGAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.34, C:0.00, G:0.11, T:0.54
Consensus pattern (12 bp):
AAATTTGAGTTT
Found at i:15481645 original size:51 final size:52
Alignment explanation
Indices: 15481555--15481662 Score: 148
Period size: 51 Copynumber: 2.1 Consensus size: 52
15481545 ATAAACGGTG
* *
15481555 AAAATGAAGAAATGAGAAACTTTTGAAAATTATTATGGTTTTCTCCAAAATA
1 AAAATAAAGAAATGAGAAACATTTGAAAATTATTATGGTTTTCTCCAAAATA
* * *
15481607 AAAATAAAGAAATGA-AATCATTTGAAAATGTA-TGTGGTTTTCTCCAAAATG
1 AAAATAAAGAAATGAGAAACATTTGAAAAT-TATTATGGTTTTCTCCAAAATA
15481658 AAAAT
1 AAAAT
15481663 GGTCTGGAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
51 34 0.68
52 16 0.32
ACGTcount: A:0.47, C:0.07, G:0.14, T:0.31
Consensus pattern (52 bp):
AAAATAAAGAAATGAGAAACATTTGAAAATTATTATGGTTTTCTCCAAAATA
Found at i:15481804 original size:28 final size:26
Alignment explanation
Indices: 15481772--15481824 Score: 70
Period size: 28 Copynumber: 2.0 Consensus size: 26
15481762 TTAGAATTGG
15481772 ATTGAGAAGATTATTTAATTGGAAATAT
1 ATTGAGAAGATTATTT--TTGGAAATAT
* *
15481800 ATTGAGATGTTTATTTTTGGAAATA
1 ATTGAGAAGATTATTTTTGGAAATA
15481825 CAAAAACAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 9 0.39
28 14 0.61
ACGTcount: A:0.38, C:0.00, G:0.19, T:0.43
Consensus pattern (26 bp):
ATTGAGAAGATTATTTTTGGAAATAT
Found at i:15482392 original size:125 final size:125
Alignment explanation
Indices: 15482170--15482525 Score: 613
Period size: 125 Copynumber: 2.8 Consensus size: 125
15482160 TTATCAAAGT
* * * *
15482170 ATGGTGTTTAGAGCAAGTGCTGAGTGGGTAAGGTATTAAGTGTGACTAAGAATGTAAGTCAGGAA
1 ATGGTGTTTAGAGCAAGTTCTGAGTGGGTAAGGTATTAACTGTGACTAAGAATGTAAGTCTGCAA
* *
15482235 GTGCGCCTTTCGGTGAAGTCTACATTCAGCGAGCTTGGTGGTTTGGTGGACTCCCTTGTA
66 GTGCGCCTTTCGGCGAAGTCTACATTCGGCGAGCTTGGTGGTTTGGTGGACTCCCTTGTA
*
15482295 ATGGTGTTTAGAGCAAGTTCTGAGTGGGTAAGGTATTAACTCTGACTAAGAATGTAAGTCTGCAA
1 ATGGTGTTTAGAGCAAGTTCTGAGTGGGTAAGGTATTAACTGTGACTAAGAATGTAAGTCTGCAA
15482360 GTGCGCCTTTCGGCGAAGTCTACATTCGGCGAGCTTGGTGGTTTGGTGGACTCCCTTGTA
66 GTGCGCCTTTCGGCGAAGTCTACATTCGGCGAGCTTGGTGGTTTGGTGGACTCCCTTGTA
*
15482420 ATGGTGTTTAGAGCAAGTTTTGAGTGGGTAAGGTATTAACTGTGACTAAGAATGTAAGTCTGCAA
1 ATGGTGTTTAGAGCAAGTTCTGAGTGGGTAAGGTATTAACTGTGACTAAGAATGTAAGTCTGCAA
* * *
15482485 GTGCGCCTTTCGGCGAAGTCTACATTAGGTGAGTTTGGTGG
66 GTGCGCCTTTCGGCGAAGTCTACATTCGGCGAGCTTGGTGG
15482526 ACTCCCTTGT
Statistics
Matches: 219, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
125 219 1.00
ACGTcount: A:0.23, C:0.14, G:0.32, T:0.31
Consensus pattern (125 bp):
ATGGTGTTTAGAGCAAGTTCTGAGTGGGTAAGGTATTAACTGTGACTAAGAATGTAAGTCTGCAA
GTGCGCCTTTCGGCGAAGTCTACATTCGGCGAGCTTGGTGGTTTGGTGGACTCCCTTGTA
Found at i:15491692 original size:16 final size:18
Alignment explanation
Indices: 15491666--15491699 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
15491656 TTTAATTAAC
15491666 TAAATTAA-TTTCTCAAA
1 TAAATTAATTTTCTCAAA
15491683 TAAA-TAATTTTCTCAAA
1 TAAATTAATTTTCTCAAA
15491700 CACAATTCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 3 0.19
17 13 0.81
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (18 bp):
TAAATTAATTTTCTCAAA
Found at i:15507143 original size:8 final size:8
Alignment explanation
Indices: 15507130--15507163 Score: 68
Period size: 8 Copynumber: 4.2 Consensus size: 8
15507120 ACCTTAGCAG
15507130 GATCTTTT
1 GATCTTTT
15507138 GATCTTTT
1 GATCTTTT
15507146 GATCTTTT
1 GATCTTTT
15507154 GATCTTTT
1 GATCTTTT
15507162 GA
1 GA
15507164 CCTCACAGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.15, C:0.12, G:0.15, T:0.59
Consensus pattern (8 bp):
GATCTTTT
Found at i:15513773 original size:25 final size:24
Alignment explanation
Indices: 15513728--15513774 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
15513718 GAGTAGTCTG
*
15513728 TAAAGCCTTTTTGACGAATTATCT
1 TAAAGCCTTTATGACGAATTATCT
* *
15513752 TAAAGGCCTTTATGGCGTATTAT
1 TAAA-GCCTTTATGACGAATTAT
15513775 TCGGAAAGCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 4 0.21
25 15 0.79
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.40
Consensus pattern (24 bp):
TAAAGCCTTTATGACGAATTATCT
Found at i:15514051 original size:51 final size:50
Alignment explanation
Indices: 15513955--15514051 Score: 115
Period size: 51 Copynumber: 1.9 Consensus size: 50
15513945 AGTTACCTAT
* * *
15513955 AAAGCCTTTGTGGAAAATTATCTGAAAGGCATATGTGGTGTATTATTCAG
1 AAAGCCTTAGTGGAAAATTATCTGAAAGGCATATGTGGCGAATTATTCAG
* * *
15514005 AAAGCCTTAGTGGCAAAGTTATCTGTAAA-GCCTTTGTGGCGAATTAT
1 AAAGCCTTAGTGG-AAAATTATCTG-AAAGGCATATGTGGCGAATTAT
15514052 CTGAAAGGCC
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
50 12 0.31
51 24 0.62
52 3 0.08
ACGTcount: A:0.31, C:0.12, G:0.24, T:0.33
Consensus pattern (50 bp):
AAAGCCTTAGTGGAAAATTATCTGAAAGGCATATGTGGCGAATTATTCAG
Found at i:15514069 original size:25 final size:24
Alignment explanation
Indices: 15513955--15514076 Score: 93
Period size: 25 Copynumber: 4.9 Consensus size: 24
15513945 AGTTACCTAT
* **
15513955 AAAGCCTTTGTGGAAAATTATCTG
1 AAAGCCTATGTGGCGAATTATCTG
* * * *
15513979 AAAGGCATATGTGGTGTATTATTCAG
1 AAA-GCCTATGTGGCGAATTA-TCTG
*
15514005 AAAGCCT-TAGTGGCAAAGTTATCTG
1 AAAGCCTAT-GTGGCGAA-TTATCTG
*
15514030 TAAAGCCTTTGTGGCGAATTATCTG
1 -AAAGCCTATGTGGCGAATTATCTG
*
15514055 AAAGGCCTATGTGGCGTATTAT
1 AAA-GCCTATGTGGCGAATTAT
15514077 TCGGACAGCC
Statistics
Matches: 77, Mismatches: 14, Indels: 13
0.74 0.13 0.12
Matches are distributed among these distances:
24 7 0.09
25 46 0.60
26 23 0.30
27 1 0.01
ACGTcount: A:0.30, C:0.13, G:0.25, T:0.33
Consensus pattern (24 bp):
AAAGCCTATGTGGCGAATTATCTG
Found at i:15514122 original size:76 final size:76
Alignment explanation
Indices: 15513724--15514102 Score: 384
Period size: 76 Copynumber: 5.0 Consensus size: 76
15513714 AGACGAGTAG
* * * * *
15513724 TCTGTAAAGCCTTTTTGACGAATTATCTTAAAGGCCTTTATGGCGTATTATTCGGAAAGCCTTTG
1 TCTGTAAAGCCTTTGTGGCGAATTATCTGAAAGGCCTTTGTGGCGTATTATTCGGAAAGCCTTAG
*
15513789 TGGTG-AGTAA
66 TGGTGAAGTTA
* ** * * * * * * *
15513799 TTTGTAAAATCTTTATGGCAAATTATCTGAATGGTCTTTGTGGCGTATTATTTGGGAAGCCTTTG
1 TCTGTAAAGCCTTTGTGGCGAATTATCTGAAAGGCCTTTGTGGCGTATTATTCGGAAAGCCTTAG
* *
15513864 TAGTG-AGTAA
66 TGGTGAAGTTA
* * * * * * * *
15513874 TCTGTAAAGCCTTTGTGGTGAATTATTTGAATGGTCTTTGTAGTGTATTATTCAGAAAGCTTTAG
1 TCTGTAAAGCCTTTGTGGCGAATTATCTGAAAGGCCTTTGTGGCGTATTATTCGGAAAGCCTTAG
* *
15513939 TAGTAAAGTTA
66 TGGTGAAGTTA
* * ** * * * *
15513950 CCTATAAAGCCTTTGTGGAAAATTATCTGAAAGGCATATGTGGTGTATTATTCAGAAAGCCTTAG
1 TCTGTAAAGCCTTTGTGGCGAATTATCTGAAAGGCCTTTGTGGCGTATTATTCGGAAAGCCTTAG
**
15514015 TGGCAAAGTTA
66 TGGTGAAGTTA
* *
15514026 TCTGTAAAGCCTTTGTGGCGAATTATCTGAAAGGCCTATGTGGCGTATTATTCGGACAGCCTTAG
1 TCTGTAAAGCCTTTGTGGCGAATTATCTGAAAGGCCTTTGTGGCGTATTATTCGGAAAGCCTTAG
15514091 TGGTGAAGTTA
66 TGGTGAAGTTA
15514102 T
1 T
15514103 GTGGGAATCC
Statistics
Matches: 251, Mismatches: 52, Indels: 1
0.83 0.17 0.00
Matches are distributed among these distances:
75 117 0.47
76 134 0.53
ACGTcount: A:0.27, C:0.12, G:0.24, T:0.37
Consensus pattern (76 bp):
TCTGTAAAGCCTTTGTGGCGAATTATCTGAAAGGCCTTTGTGGCGTATTATTCGGAAAGCCTTAG
TGGTGAAGTTA
Found at i:15514130 original size:76 final size:76
Alignment explanation
Indices: 15513918--15514135 Score: 220
Period size: 76 Copynumber: 2.9 Consensus size: 76
15513908 TCTTTGTAGT
* * * * ** * ** *
15513918 GTATTATTCAGAAAGCTTTAGTAGTAAAGTTACCTATAAAGCCTTTGTGGAAAATTATCTGAAAG
1 GTATTATTCAGAAAGCCTTAGTGGCAAAGTTATCTGGAAAGCCATTGTGGCGAATCATCTGAAAG
*
15513983 GCATATGTGGT
66 GCATATGTGGC
* * *
15513994 GTATTATTCAGAAAGCCTTAGTGGCAAAGTTATCTGTAAAGCCTTTGTGGCGAATTATCTGAAAG
1 GTATTATTCAGAAAGCCTTAGTGGCAAAGTTATCTGGAAAGCCATTGTGGCGAATCATCTGAAAG
*
15514059 GCCTATGTGGC
66 GCATATGTGGC
* * ** * * * *
15514070 GTATTATTCGGACAGCCTTAGTGGTGAAGTTATGTGGGAATCCATTGTGGCGAGTCATCTGGAAA
1 GTATTATTCAGAAAGCCTTAGTGGCAAAGTTATCTGGAAAGCCATTGTGGCGAATCATCT-GAAA
15514135 G
65 G
15514136 ATTGTATGGA
Statistics
Matches: 121, Mismatches: 20, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
76 116 0.96
77 5 0.04
ACGTcount: A:0.29, C:0.13, G:0.26, T:0.32
Consensus pattern (76 bp):
GTATTATTCAGAAAGCCTTAGTGGCAAAGTTATCTGGAAAGCCATTGTGGCGAATCATCTGAAAG
GCATATGTGGC
Found at i:15520584 original size:13 final size:13
Alignment explanation
Indices: 15520566--15520590 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15520556 TAATGGTATA
15520566 TTGAATCCATGAC
1 TTGAATCCATGAC
15520579 TTGAATCCATGA
1 TTGAATCCATGA
15520591 AAATTTAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TTGAATCCATGAC
Found at i:15522087 original size:47 final size:47
Alignment explanation
Indices: 15522005--15522220 Score: 306
Period size: 47 Copynumber: 4.6 Consensus size: 47
15521995 TTAAACCCAT
*
15522005 ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
15522054 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
** *
15522101 ATGTGAAAGTGTATATGCGTGATAAGGCTTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * *
15522148 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAATGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
15522195 ATGTGAAAGTGCATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
15522221 TCCCGAAGGG
Statistics
Matches: 150, Mismatches: 17, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
47 139 0.93
49 11 0.07
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.29
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:15529469 original size:6 final size:6
Alignment explanation
Indices: 15529422--15529450 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
15529412 GCCCGTTTTT
15529422 AATTAA AATTAA AATTAA AATTAA AATTA
1 AATTAA AATTAA AATTAA AATTAA AATTA
15529451 TTTTTTTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (6 bp):
AATTAA
Found at i:15529488 original size:22 final size:23
Alignment explanation
Indices: 15529435--15529490 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 23
15529425 TAAAATTAAA
* * *
15529435 ATTAAAATTAAAATTATTTTTTT
1 ATTAAAATTAAAACTATATTGTT
*
15529458 AATAAAATTAAAACTA-ATTGTT
1 ATTAAAATTAAAACTATATTGTT
15529480 ATTAAAATTAA
1 ATTAAAATTAA
15529491 TTGTTAGTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 14 0.50
23 14 0.50
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (23 bp):
ATTAAAATTAAAACTATATTGTT
Found at i:15529503 original size:16 final size:16
Alignment explanation
Indices: 15529466--15529505 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
15529456 TTAATAAAAT
* *
15529466 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
15529482 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
15529498 TAAAATTA
1 TAAAATTA
15529506 TCAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:15529650 original size:66 final size:66
Alignment explanation
Indices: 15529494--15529691 Score: 313
Period size: 65 Copynumber: 3.1 Consensus size: 66
15529484 AAATTAATTG
*
15529494 TTAGTAAAATTATCAAATTATTAATTGTTAATTGTATTAATTGTTGTAAT-AAATCTAACATTTG
1 TTAGTAAATTTATCAAATTATTAATTGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTTG
15529558 A
66 A
*
15529559 TTAGTAAATTTATCAAATTATTAATTGTTAATTGTATTAATTGTTATAATAAAATCTAACATTTG
1 TTAGTAAATTTATCAAATTATTAATTGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTTG
15529624 A
66 A
*
15529625 TTAGTAAATTTATC-AA--ATT-A---TTAATTGTATTAATTGTTGTAACAAAATCTAACATTTG
1 TTAGTAAATTTATCAAATTATTAATTGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTTG
15529683 A
66 A
15529684 TTAGTAAA
1 TTAGTAAA
15529692 ACAAACTTGA
Statistics
Matches: 128, Mismatches: 4, Indels: 8
0.91 0.03 0.06
Matches are distributed among these distances:
59 45 0.35
62 1 0.01
63 3 0.02
65 50 0.39
66 29 0.23
ACGTcount: A:0.41, C:0.05, G:0.09, T:0.45
Consensus pattern (66 bp):
TTAGTAAATTTATCAAATTATTAATTGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTTG
A
Found at i:15530642 original size:18 final size:20
Alignment explanation
Indices: 15530621--15530657 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
15530611 ATTTATATAC
15530621 TTTTAAA-AA-ATATAAAGT
1 TTTTAAAGAATATATAAAGT
15530639 TTTTAAAGAATATATAAAG
1 TTTTAAAGAATATATAAAG
15530658 AAATTTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
19 2 0.12
20 8 0.47
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (20 bp):
TTTTAAAGAATATATAAAGT
Found at i:15533230 original size:5 final size:5
Alignment explanation
Indices: 15533220--15533244 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
15533210 GATACACAAA
15533220 TTTAT TTTAT TTTAT TTTAT TTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT
15533245 GGGGATATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTAT
Found at i:15534891 original size:18 final size:20
Alignment explanation
Indices: 15534840--15534891 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
15534830 TAAATTATAT
* *
15534840 TATCACATTATATAATTCTA
1 TATCACATAATATAATACTA
*
15534860 TATCACATACTATAATACTA
1 TATCACATAATATAATACTA
15534880 -AT-ACATAATATA
1 TATCACATAATATA
15534892 TTAATTATTA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
18 9 0.32
19 2 0.07
20 17 0.61
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (20 bp):
TATCACATAATATAATACTA
Found at i:15535582 original size:10 final size:10
Alignment explanation
Indices: 15535567--15535593 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
15535557 TAATATATTA
15535567 ATTATTAATT
1 ATTATTAATT
15535577 ATTATTAATT
1 ATTATTAATT
15535587 ATTATTA
1 ATTATTA
15535594 TACTGATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (10 bp):
ATTATTAATT
Found at i:15535696 original size:19 final size:18
Alignment explanation
Indices: 15535663--15535698 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
15535653 TATATAATGC
15535663 TATATAATATATTAATAT
1 TATATAATATATTAATAT
*
15535681 TATATATATGTATTAATA
1 TATATA-ATATATTAATA
15535699 GTTTTAGTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (18 bp):
TATATAATATATTAATAT
Found at i:15536105 original size:16 final size:17
Alignment explanation
Indices: 15536084--15536119 Score: 65
Period size: 16 Copynumber: 2.2 Consensus size: 17
15536074 GTAAAGATAA
15536084 TAATATTAAT-AAAAAT
1 TAATATTAATAAAAAAT
15536100 TAATATTAATAAAAAAT
1 TAATATTAATAAAAAAT
15536117 TAA
1 TAA
15536120 ACATTAATCA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
TAATATTAATAAAAAAT
Found at i:15538793 original size:54 final size:54
Alignment explanation
Indices: 15538649--15538795 Score: 176
Period size: 56 Copynumber: 2.7 Consensus size: 54
15538639 CACATGACGC
* * *
15538649 CATAGT-CCTAGACTAGGTCTTACACTATATGGT-TCTCTTATCCTCATATGATGT
1 CATAGTACC-AGACTAGGTCTTACACTATATGGTCT-TCCTATCCCCATATGATCT
*
15538703 CATAGCCACCATGACTAGGTCTTACACTATATGGTCTTCACT-TCCCCATATGATACT
1 CATAG-TACCA-GACTAGGTCTTACACTATATGGTCTTC-CTATCCCCATATGAT-CT
15538760 -ATAGTACCAGACTAGGTCTTACACTATATGGTCTTC
1 CATAGTACCAGACTAGGTCTTACACTATATGGTCTTC
15538796 TTGCCATGGC
Statistics
Matches: 82, Mismatches: 5, Indels: 12
0.83 0.05 0.12
Matches are distributed among these distances:
54 32 0.39
55 5 0.06
56 42 0.51
57 3 0.04
ACGTcount: A:0.26, C:0.25, G:0.14, T:0.35
Consensus pattern (54 bp):
CATAGTACCAGACTAGGTCTTACACTATATGGTCTTCCTATCCCCATATGATCT
Found at i:15543519 original size:40 final size:40
Alignment explanation
Indices: 15543454--15543713 Score: 290
Period size: 40 Copynumber: 6.5 Consensus size: 40
15543444 AAAATTATCA
* *
15543454 AAGTATAAATAGGGGCACGTATGTGTAA-TATGGGGTACCG
1 AAGTACAAACAGGGGCACGTATGTGTAATTA-GGGGTACCG
* * * * * *
15543494 AAGTGCAAATAGAGGCACGTGTGTGTAATTAGAGATACCG
1 AAGTACAAACAGGGGCACGTATGTGTAATTAGGGGTACCG
* *
15543534 AAGTACAAATAGGGGCACGTATGTGCAATTAGGGGTACCG
1 AAGTACAAACAGGGGCACGTATGTGTAATTAGGGGTACCG
* * * * *
15543574 ACGTACAAACAGGGGCACTTGTGTGTAATTAGGAGTACTG
1 AAGTACAAACAGGGGCACGTATGTGTAATTAGGGGTACCG
* * *
15543614 AAGTACAAACATGGGCACGTATGTGCAATAAGGGGTACC-
1 AAGTACAAACAGGGGCACGTATGTGTAATTAGGGGTACCG
* * ** *
15543653 AAGTACAAACAGGGGCACGTATATGAAATCGGGGGTACCA
1 AAGTACAAACAGGGGCACGTATGTGTAATTAGGGGTACCG
15543693 AAGTACAAACAGGGGCACGTA
1 AAGTACAAACAGGGGCACGTA
15543714 CGTGCAATCA
Statistics
Matches: 186, Mismatches: 32, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
39 34 0.18
40 150 0.81
41 2 0.01
ACGTcount: A:0.35, C:0.15, G:0.30, T:0.20
Consensus pattern (40 bp):
AAGTACAAACAGGGGCACGTATGTGTAATTAGGGGTACCG
Found at i:15546136 original size:16 final size:17
Alignment explanation
Indices: 15546099--15546142 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 17
15546089 CTGTTTAAAA
15546099 AATTTGAATTTACTTCCC
1 AATTT-AATTTACTTCCC
*
15546117 AATTTAATTTA-TTTCC
1 AATTTAATTTACTTCCC
15546133 AATTT-ATTTA
1 AATTTAATTTA
15546143 ATTTTTTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
15 5 0.20
16 9 0.36
17 6 0.24
18 5 0.20
ACGTcount: A:0.32, C:0.14, G:0.02, T:0.52
Consensus pattern (17 bp):
AATTTAATTTACTTCCC
Found at i:15549546 original size:80 final size:80
Alignment explanation
Indices: 15549422--15549602 Score: 240
Period size: 80 Copynumber: 2.3 Consensus size: 80
15549412 AGGTATAGAT
* * * * ** *
15549422 AGGGGCACGTATCT-ATAATCAGGGGTACTGAAGTACAAATAGGGGCACGTGTGTGTTGTCAGGG
1 AGGGGCACGTATGTGA-AATCAGGGGTACTCAAGTACAAACAGGGGCACATGTGTGTAATCAAGG
15549486 GAACCAAAGTACAAAC
65 GAACCAAAGTACAAAC
15549502 AGGGGCACGTATGTGAAATCAGGGGTA-TCATAGTACAAACAGGGGCACATGTGTGTAATCAAGG
1 AGGGGCACGTATGTGAAATCAGGGGTACTCA-AGTACAAACAGGGGCACATGTGTGTAATCAAGG
* *
15549566 GTACCGAAGTACAAAC
65 GAACCAAAGTACAAAC
*
15549582 AGGGGCACGTATGTGCAATCA
1 AGGGGCACGTATGTGAAATCA
15549603 ATATAATTAA
Statistics
Matches: 89, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
79 2 0.02
80 86 0.97
81 1 0.01
ACGTcount: A:0.33, C:0.17, G:0.31, T:0.19
Consensus pattern (80 bp):
AGGGGCACGTATGTGAAATCAGGGGTACTCAAGTACAAACAGGGGCACATGTGTGTAATCAAGGG
AACCAAAGTACAAAC
Found at i:15549603 original size:40 final size:40
Alignment explanation
Indices: 15549422--15549602 Score: 211
Period size: 40 Copynumber: 4.5 Consensus size: 40
15549412 AGGTATAGAT
* * * *
15549422 AGGGGCACGTATCTATAATCAGGGGTACTGAAGTACAAAT
1 AGGGGCACGTATGTGTAATCAGGGGTACCGAAGTACAAAC
* ** * *
15549462 AGGGGCACGTGTGTGTTGTCAGGGGAACCAAAGTACAAAC
1 AGGGGCACGTATGTGTAATCAGGGGTACCGAAGTACAAAC
* *
15549502 AGGGGCACGTATGTGAAATCAGGGGTATC-ATAGTACAAAC
1 AGGGGCACGTATGTGTAATCAGGGGTACCGA-AGTACAAAC
* * *
15549542 AGGGGCACATGTGTGTAATCAAGGGTACCGAAGTACAAAC
1 AGGGGCACGTATGTGTAATCAGGGGTACCGAAGTACAAAC
*
15549582 AGGGGCACGTATGTGCAATCA
1 AGGGGCACGTATGTGTAATCA
15549603 ATATAATTAA
Statistics
Matches: 116, Mismatches: 23, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
39 1 0.01
40 114 0.98
41 1 0.01
ACGTcount: A:0.33, C:0.17, G:0.31, T:0.19
Consensus pattern (40 bp):
AGGGGCACGTATGTGTAATCAGGGGTACCGAAGTACAAAC
Found at i:15549675 original size:18 final size:18
Alignment explanation
Indices: 15549641--15549678 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
15549631 TGGTTATAAG
*
15549641 ATGAAAATATTTATATAC
1 ATGAAAATATTGATATAC
15549659 ATGAAAAT-TTGATTATAC
1 ATGAAAATATTGA-TATAC
15549677 AT
1 AT
15549679 TCTAAATACT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 3 0.17
18 15 0.83
ACGTcount: A:0.47, C:0.05, G:0.08, T:0.39
Consensus pattern (18 bp):
ATGAAAATATTGATATAC
Found at i:15550760 original size:39 final size:39
Alignment explanation
Indices: 15550706--15550803 Score: 153
Period size: 39 Copynumber: 2.5 Consensus size: 39
15550696 TAATTTAGTT
* *
15550706 TGAGTGTTTAATTATGTCATAATTTGAACATCATTAATA
1 TGAGTTTTTAATTATGTCATAATTTGAACAACATTAATA
15550745 TGAGTTTTTAATTATGTCATAATTTGAACAACATTAATA
1 TGAGTTTTTAATTATGTCATAATTTGAACAACATTAATA
* *
15550784 AG-GGTTTTAATTATGTCATA
1 TGAGTTTTTAATTATGTCATA
15550804 GTTTAGGATA
Statistics
Matches: 55, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
38 17 0.31
39 38 0.69
ACGTcount: A:0.36, C:0.07, G:0.13, T:0.44
Consensus pattern (39 bp):
TGAGTTTTTAATTATGTCATAATTTGAACAACATTAATA
Found at i:15553901 original size:17 final size:18
Alignment explanation
Indices: 15553868--15553901 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
15553858 AAAGGTAATG
15553868 TAGTAAGTTCATAGAACT
1 TAGTAAGTTCATAGAACT
*
15553886 TAGTGAGTTC-TAGAAC
1 TAGTAAGTTCATAGAAC
15553902 AGACATTAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.35, C:0.12, G:0.21, T:0.32
Consensus pattern (18 bp):
TAGTAAGTTCATAGAACT
Found at i:15559862 original size:37 final size:37
Alignment explanation
Indices: 15559815--15559924 Score: 177
Period size: 37 Copynumber: 3.0 Consensus size: 37
15559805 GGATGTATAG
15559815 CTCTTATGAGCATTTGGCGTGTTATCGGTTGGATTAA
1 CTCTTATGAGCATTTGGCGTGTTATCGGTTGGATTAA
* *
15559852 CTCTTATGAGCATTTGGCGTGTTATCGGTTGTATTAG
1 CTCTTATGAGCATTTGGCGTGTTATCGGTTGGATTAA
* *
15559889 CTCTTATGATCATTTGGCATGTT-TCGGTTGGATTAA
1 CTCTTATGAGCATTTGGCGTGTTATCGGTTGGATTAA
15559925 TTGTGTACTC
Statistics
Matches: 67, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
36 11 0.16
37 56 0.84
ACGTcount: A:0.18, C:0.14, G:0.25, T:0.43
Consensus pattern (37 bp):
CTCTTATGAGCATTTGGCGTGTTATCGGTTGGATTAA
Found at i:15585892 original size:29 final size:28
Alignment explanation
Indices: 15585856--15585933 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
15585846 TCATGAGATT
15585856 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
15585886 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
15585913 TGGCACTAAGTGTGCGTGGTT
1 -GGCACTAAGTGTGCG-GGTT
15585934 GATTACTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:15586151 original size:174 final size:174
Alignment explanation
Indices: 15585886--15586213 Score: 575
Period size: 174 Copynumber: 1.9 Consensus size: 174
15585876 AAATTGTACA
*
15585886 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTACTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAGCACTATG
* * *
15585951 TGTGCGAACCCAATATATATTTTCTATAAATTATTTAAATTAAGGGTGCGACCTTACCGAGTCGA
66 TGCGCGAACCCAATATATATTTTCTATAAATTATTTAAATGAAGGGTGCGACCTTACCGAGTCAA
15586016 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* * *
15586060 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAGCACTATG
* *
15586125 TGCGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGCGCGAACCCAATATATATTTTCTATAAATTATTTAAATGAAGGGTGCGACCTTACCGAGTCAA
15586190 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
15586214 ACCTTGAGTT
Statistics
Matches: 145, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
174 145 1.00
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAGCACTATG
TGCGCGAACCCAATATATATTTTCTATAAATTATTTAAATGAAGGGTGCGACCTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:15600180 original size:41 final size:40
Alignment explanation
Indices: 15600073--15600191 Score: 123
Period size: 40 Copynumber: 3.0 Consensus size: 40
15600063 TGATCGAATG
* * * *
15600073 TAATACAGACTTTACGTCTAGCAGGCTTGATGCCGATGAA
1 TAATTCAGACTATACGTCTAGCAGGCTTAATGCCGGTGAA
*
15600113 TAATTCAGACTTTACGTCTAGCAGGCTTAATGCCGGTG-A
1 TAATTCAGACTATACGTCTAGCAGGCTTAATGCCGGTGAA
* * * * *
15600152 TACATTTCGGACTATAGGTCTAGTAGGCTAAAAGCCGGTG
1 TA-A-TTCAGACTATACGTCTAGCAGGCTTAATGCCGGTG
15600192 TACTGAATCA
Statistics
Matches: 68, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
39 3 0.04
40 36 0.53
41 29 0.43
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (40 bp):
TAATTCAGACTATACGTCTAGCAGGCTTAATGCCGGTGAA
Found at i:15600556 original size:20 final size:20
Alignment explanation
Indices: 15600531--15600602 Score: 63
Period size: 20 Copynumber: 3.4 Consensus size: 20
15600521 ATATGATGAA
15600531 TATGTATATATATTCGAATG
1 TATGTATATATATTCGAATG
*
15600551 TATGTATTAGCTATGTATTCGAATA
1 TATGTA-TA--TA--TATTCGAATG
* *
15600576 TGTATATATATATTCGAATG
1 TATGTATATATATTCGAATG
*
15600596 TAGGTAT
1 TATGTAT
15600603 TAGCTATGTA
Statistics
Matches: 40, Mismatches: 7, Indels: 10
0.70 0.12 0.18
Matches are distributed among these distances:
20 19 0.47
21 2 0.05
22 2 0.05
23 2 0.05
24 2 0.05
25 13 0.32
ACGTcount: A:0.33, C:0.06, G:0.17, T:0.44
Consensus pattern (20 bp):
TATGTATATATATTCGAATG
Found at i:15600584 original size:45 final size:43
Alignment explanation
Indices: 15600528--15600614 Score: 147
Period size: 45 Copynumber: 2.0 Consensus size: 43
15600518 TGTATATGAT
*
15600528 GAATATGTATATATATTCGAATGTATGTATTAGCTATGTATTC
1 GAATATGTATATATATTCGAATGTAGGTATTAGCTATGTATTC
15600571 GAATATGTATATATATATTCGAATGTAGGTATTAGCTATGTATT
1 GAATATG--TATATATATTCGAATGTAGGTATTAGCTATGTATT
15600615 TAGGTATAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
43 7 0.17
45 34 0.83
ACGTcount: A:0.33, C:0.06, G:0.17, T:0.44
Consensus pattern (43 bp):
GAATATGTATATATATTCGAATGTAGGTATTAGCTATGTATTC
Found at i:15600614 original size:25 final size:25
Alignment explanation
Indices: 15600541--15600614 Score: 95
Period size: 25 Copynumber: 3.2 Consensus size: 25
15600531 TATGTATATA
15600541 TATTCGAATGTATGTATTAGCTATG
1 TATTCGAATGTATGTATTAGCTATG
*
15600566 TATTCGAA--TATGTA-TA--TATA
1 TATTCGAATGTATGTATTAGCTATG
*
15600586 TATTCGAATGTAGGTATTAGCTATG
1 TATTCGAATGTATGTATTAGCTATG
15600611 TATT
1 TATT
15600615 TAGGTATAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
20 11 0.27
22 7 0.17
23 8 0.20
25 15 0.37
ACGTcount: A:0.31, C:0.07, G:0.18, T:0.45
Consensus pattern (25 bp):
TATTCGAATGTATGTATTAGCTATG
Found at i:15607308 original size:22 final size:22
Alignment explanation
Indices: 15607283--15607326 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
15607273 AACATAACAC
15607283 ATCATGTTCTCTAGTATGCATA
1 ATCATGTTCTCTAGTATGCATA
15607305 ATCATGTTCTCTAGTATGCATA
1 ATCATGTTCTCTAGTATGCATA
15607327 CATATATCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.27, C:0.18, G:0.14, T:0.41
Consensus pattern (22 bp):
ATCATGTTCTCTAGTATGCATA
Found at i:15620334 original size:50 final size:50
Alignment explanation
Indices: 15620210--15620453 Score: 231
Period size: 50 Copynumber: 4.7 Consensus size: 50
15620200 GGTAAAGAGA
* * *
15620210 TCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCATCATTGAGATTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-C--CGAG---ATGAGAAG
* *
15620266 TCCCATGTAAGGCTATGTCTGGGACATGGCGTTGGCACCGAGATGAGAAG
1 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAAG
* *
15620316 TCTCATGTAAGACCATGTCTGGGACATGGCGTTGGCACAGAGATGAG-AG
1 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAAG
*** * * * *
15620365 ATCCCCCCATAAGACCATGTCTGGGACATGGC-ATGGTCACCTATATGAGAAC
1 -T-CCCATGTAAGACCATGTCTGGGACATGGCGTTGG-CACCGAGATGAGAAG
* * * *
15620417 TCCGATGTAAGACCATATCTGGGATATGGCATTGGCA
1 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA
15620454 GTACAAGAAA
Statistics
Matches: 158, Mismatches: 25, Indels: 16
0.79 0.13 0.08
Matches are distributed among these distances:
49 2 0.01
50 79 0.50
51 38 0.24
52 1 0.01
53 3 0.02
55 1 0.01
56 34 0.22
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAAG
Found at i:15626266 original size:24 final size:24
Alignment explanation
Indices: 15626233--15626279 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
15626223 TGAAAATATA
15626233 GTTTGACGGGACTGTAAACACGAG
1 GTTTGACGGGACTGTAAACACGAG
* *
15626257 GTTTGCCGGGATTGTAAACACGA
1 GTTTGACGGGACTGTAAACACGA
15626280 AAAAATGAGA
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:0.17, G:0.32, T:0.23
Consensus pattern (24 bp):
GTTTGACGGGACTGTAAACACGAG
Found at i:15630036 original size:31 final size:34
Alignment explanation
Indices: 15629963--15630041 Score: 92
Period size: 35 Copynumber: 2.4 Consensus size: 34
15629953 TAATAACTTT
*
15629963 AATATTAAATTAATAAAATATTTATATACAAAATA
1 AATATTAAATTAATAAAATATCTATATA-AAAATA
* *
15629998 AACATTAAATTAATAATATA-CTAT-T-AAAATA
1 AATATTAAATTAATAAAATATCTATATAAAAATA
*
15630029 AGTATTAAATTAA
1 AATATTAAATTAA
15630042 GCTTAATATT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
31 17 0.44
33 1 0.03
34 3 0.08
35 18 0.46
ACGTcount: A:0.58, C:0.04, G:0.01, T:0.37
Consensus pattern (34 bp):
AATATTAAATTAATAAAATATCTATATAAAAATA
Found at i:15647470 original size:28 final size:29
Alignment explanation
Indices: 15647408--15647470 Score: 69
Period size: 28 Copynumber: 2.2 Consensus size: 29
15647398 ATTGCTATTG
*
15647408 TTTAATTGAATATGTGTTTTTCTCTGGAA
1 TTTAATTGAATATGTGTTTATCTCTGGAA
**
15647437 -AAAATTGAATATGTG-TTATCAT-TGGAA
1 TTTAATTGAATATGTGTTTATC-TCTGGAA
15647464 TTTAATT
1 TTTAATT
15647471 CTTAAAAAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 5
0.73 0.14 0.14
Matches are distributed among these distances:
27 9 0.33
28 18 0.67
ACGTcount: A:0.32, C:0.05, G:0.16, T:0.48
Consensus pattern (29 bp):
TTTAATTGAATATGTGTTTATCTCTGGAA
Found at i:15654172 original size:18 final size:18
Alignment explanation
Indices: 15654128--15654165 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
15654118 TAAATTAAGA
15654128 GTTATATTTTAATTTCAT
1 GTTATATTTTAATTTCAT
15654146 GTTATATTTTAATTTCAT
1 GTTATATTTTAATTTCAT
15654164 GT
1 GT
15654166 ATTATTTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.26, C:0.05, G:0.08, T:0.61
Consensus pattern (18 bp):
GTTATATTTTAATTTCAT
Found at i:15654749 original size:40 final size:39
Alignment explanation
Indices: 15654686--15654766 Score: 108
Period size: 40 Copynumber: 2.1 Consensus size: 39
15654676 GACATGGACA
* * * *
15654686 CAAATCGCGCTTATGTGGGCGCGATTTGTTACCACGTCAG
1 CAAAGCGCGCTGACGTGGACGCGATTTGTTACCACGT-AG
*
15654726 CAAAGCGCGCTGACGTGGACGCGATTTGTTGCCACGTAG
1 CAAAGCGCGCTGACGTGGACGCGATTTGTTACCACGTAG
15654765 CA
1 CA
15654767 CGCCCCTGGG
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
39 4 0.11
40 32 0.89
ACGTcount: A:0.21, C:0.26, G:0.30, T:0.23
Consensus pattern (39 bp):
CAAAGCGCGCTGACGTGGACGCGATTTGTTACCACGTAG
Found at i:15654831 original size:22 final size:21
Alignment explanation
Indices: 15654802--15654844 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
15654792 TTTTTCCCAT
**
15654802 GTTAGGTTTTTGGTTTTTAGG
1 GTTAGGTTTAGGGTTTTTAGG
15654823 GTTAGGGTTTAGGGTTTTTAGG
1 GTTA-GGTTTAGGGTTTTTAGG
15654845 ATTTTTAGGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.12, C:0.00, G:0.37, T:0.51
Consensus pattern (21 bp):
GTTAGGTTTAGGGTTTTTAGG
Found at i:15662616 original size:23 final size:23
Alignment explanation
Indices: 15662597--15662640 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
15662587 TAAATTTTGA
15662597 ATTATTTAGTGATAATATTTACG
1 ATTATTTAGTGATAATATTTACG
15662620 ATTATTTAGTGATAATATTTA
1 ATTATTTAGTGATAATATTTA
15662641 AGAAAAATCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.36, C:0.02, G:0.11, T:0.50
Consensus pattern (23 bp):
ATTATTTAGTGATAATATTTACG
Found at i:15662617 original size:13 final size:13
Alignment explanation
Indices: 15662599--15662640 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
15662589 AATTTTGAAT
15662599 TATTTAGTGATAA
1 TATTTAGTGATAA
*
15662612 TATTTA-CGAT--
1 TATTTAGTGATAA
15662622 TATTTAGTGATAA
1 TATTTAGTGATAA
15662635 TATTTA
1 TATTTA
15662641 AGAAAAATCT
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
10 6 0.25
11 3 0.12
12 3 0.12
13 12 0.50
ACGTcount: A:0.36, C:0.02, G:0.12, T:0.50
Consensus pattern (13 bp):
TATTTAGTGATAA
Found at i:15670063 original size:16 final size:16
Alignment explanation
Indices: 15670027--15670065 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
15670017 ACTACGTTTG
*
15670027 AAAAAAATAAAATACA
1 AAAAAAATAAAATAAA
15670043 AAAAAAATAAAA-AAA
1 AAAAAAATAAAATAAA
*
15670058 ATAAAAAT
1 AAAAAAAT
15670066 GTATATTGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 9 0.43
16 12 0.57
ACGTcount: A:0.85, C:0.03, G:0.00, T:0.13
Consensus pattern (16 bp):
AAAAAAATAAAATAAA
Found at i:15670669 original size:23 final size:23
Alignment explanation
Indices: 15670643--15670689 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
15670633 TAAATTTTGA
*
15670643 ATTATTTAGGGATAATATTTAGG
1 ATTATTTAGGGATAATACTTAGG
* *
15670666 ATTATTTAGTGATAGTACTTAGG
1 ATTATTTAGGGATAATACTTAGG
15670689 A
1 A
15670690 AAAATCTAGC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.34, C:0.02, G:0.21, T:0.43
Consensus pattern (23 bp):
ATTATTTAGGGATAATACTTAGG
Found at i:15673654 original size:97 final size:97
Alignment explanation
Indices: 15673488--15673682 Score: 381
Period size: 97 Copynumber: 2.0 Consensus size: 97
15673478 GTTTATTATC
15673488 TCCATCTTGTACTCTTCGTTGGTTTGCCGAATTAGTAAAATTTTCTTTGCCTGTAGTTTTTATTC
1 TCCATCTTGTACTCTTCGTTGGTTTGCCGAATTAGTAAAATTTTCTTTGCCTGTAGTTTTTATTC
15673553 TTTTCAGAGGAGTTTTTCATATAATATTTGGG
66 TTTTCAGAGGAGTTTTTCATATAATATTTGGG
*
15673585 TCCATCTTGTACTCTTCGTTGGTTTGCCGAATTAGTAAAGTTTTCTTTGCCTGTAGTTTTTATTC
1 TCCATCTTGTACTCTTCGTTGGTTTGCCGAATTAGTAAAATTTTCTTTGCCTGTAGTTTTTATTC
15673650 TTTTCAGAGGAGTTTTTCATATAATATTTGGG
66 TTTTCAGAGGAGTTTTTCATATAATATTTGGG
15673682 T
1 T
15673683 TCGATCTTCT
Statistics
Matches: 97, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
97 97 1.00
ACGTcount: A:0.19, C:0.14, G:0.18, T:0.49
Consensus pattern (97 bp):
TCCATCTTGTACTCTTCGTTGGTTTGCCGAATTAGTAAAATTTTCTTTGCCTGTAGTTTTTATTC
TTTTCAGAGGAGTTTTTCATATAATATTTGGG
Found at i:15674542 original size:16 final size:18
Alignment explanation
Indices: 15674510--15674545 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
15674500 TTTAATGCCT
15674510 TATATTATGTTATATTTA
1 TATATTATGTTATATTTA
15674528 TATATTATG-TA-ATTTA
1 TATATTATGTTATATTTA
15674544 TA
1 TA
15674546 ACATAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 7 0.39
17 2 0.11
18 9 0.50
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (18 bp):
TATATTATGTTATATTTA
Found at i:15678738 original size:44 final size:42
Alignment explanation
Indices: 15678665--15678771 Score: 128
Period size: 44 Copynumber: 2.5 Consensus size: 42
15678655 AGGATTCTGA
* *
15678665 TATATGA-TATCGTGTAAGAGCACGTCTGGGACGTTGGCATCG
1 TATATGATTA-CGTGTAAGACCACGTCTGGGACATTGGCATCG
* *
15678707 -ATTTGAGATTTACGTGTAAGACCATGTCTGGGACATTGGCATCG
1 TATAT--GA-TTACGTGTAAGACCACGTCTGGGACATTGGCATCG
15678751 TATATGATTACGTGTAAGACC
1 TATATGATTACGTGTAAGACC
15678772 TTATCCAAGA
Statistics
Matches: 55, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
41 3 0.05
42 14 0.25
43 4 0.07
44 29 0.53
45 5 0.09
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (42 bp):
TATATGATTACGTGTAAGACCACGTCTGGGACATTGGCATCG
Found at i:15683419 original size:6 final size:6
Alignment explanation
Indices: 15683397--15683431 Score: 52
Period size: 6 Copynumber: 5.5 Consensus size: 6
15683387 TTTCTTATGA
15683397 TTTCAT TTATCCAT TTTCAT TTTCAT TTTCAT TTT
1 TTTCAT TT-T-CAT TTTCAT TTTCAT TTTCAT TTT
15683432 AGAGAAAACT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 20 0.74
7 2 0.07
8 5 0.19
ACGTcount: A:0.17, C:0.17, G:0.00, T:0.66
Consensus pattern (6 bp):
TTTCAT
Found at i:15685649 original size:23 final size:23
Alignment explanation
Indices: 15685597--15685657 Score: 63
Period size: 23 Copynumber: 2.6 Consensus size: 23
15685587 TTTATACTTA
15685597 AATTATACCTTAATTAAGCTTAATT
1 AATTATA--TTAATTAAGCTTAATT
*
15685622 AATTAGT-TTAATTAAGACTTTATT
1 AATTA-TATTAATTAAG-CTTAATT
15685646 -ATTATATTAATT
1 AATTATATTAATT
15685658 TATCTATTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
22 1 0.03
23 19 0.59
24 6 0.19
25 5 0.16
26 1 0.03
ACGTcount: A:0.39, C:0.07, G:0.05, T:0.49
Consensus pattern (23 bp):
AATTATATTAATTAAGCTTAATT
Found at i:15688893 original size:85 final size:86
Alignment explanation
Indices: 15688718--15688933 Score: 283
Period size: 85 Copynumber: 2.5 Consensus size: 86
15688708 CTTAAGGGTG
* ** * *
15688718 CAAAAAGCCCTCAAACTTTTTCAAAAGAAGTAATTAAGTCCCTGTTTTTTTTATTCACTCATTTG
1 CAAAAAGCCCTCAAACTTTTTCAAAA-AA-AAATTAAG-CCCTGTACTTTTTATTCACTCAATTA
15688783 GGCACTTGAACTTTCAAAATGCAT
63 GGCACTTGAACTTTCAAAATGCAT
*
15688807 CAAAAAAGCTCTCAAACTTTTTCAAAAAAAAATTAAGCCCT-TACTTTTT-TTCACTCAATTAGG
1 C-AAAAAGCCCTCAAACTTTTTCAAAAAAAAATTAAGCCCTGTACTTTTTATTCACTCAATTAGG
* *
15688870 TACTTGGACTTTCAAAATGCAT
65 CACTTGAACTTTCAAAATGCAT
15688892 CAAAAAGACCCTCAAACTTTTTCAAAAAAAGCAATTAAGCCC
1 CAAAAAG-CCCTCAAACTTTTTCAAAAAAA--AATTAAGCCC
15688934 CTGCTTTTAC
Statistics
Matches: 114, Mismatches: 9, Indels: 10
0.86 0.07 0.08
Matches are distributed among these distances:
84 6 0.05
85 54 0.47
86 6 0.05
87 14 0.12
88 7 0.06
89 3 0.03
90 24 0.21
ACGTcount: A:0.38, C:0.21, G:0.09, T:0.32
Consensus pattern (86 bp):
CAAAAAGCCCTCAAACTTTTTCAAAAAAAAATTAAGCCCTGTACTTTTTATTCACTCAATTAGGC
ACTTGAACTTTCAAAATGCAT
Found at i:15688952 original size:85 final size:85
Alignment explanation
Indices: 15688786--15688953 Score: 216
Period size: 85 Copynumber: 2.0 Consensus size: 85
15688776 TCATTTGGGC
* *
15688786 ACTTGAACTTTCAAAATGCATCAAAAAAGCTCTCAAACTTTTTCAAAAAAAAATTAAGCCCTTAC
1 ACTTGAACTTTCAAAATGCATCAAAAAAGCCCTCAAACTTTTTCAAAAAAAAATTAAGCCCCTAC
** **
15688851 TTTTTTTCACTCAATTAGGT
66 TTTTACTCACAAAATTAGGT
*
15688871 ACTTGGACTTTCAAAATGCATC-AAAAAGACCCTCAAACTTTTTCAAAAAAAGCAATTAAGCCCC
1 ACTTGAACTTTCAAAATGCATCAAAAAAG-CCCTCAAACTTTTTCAAAAAAA--AATTAAGCCCC
*
15688935 TGCTTTTACT-A-AAAATTAG
63 TACTTTTACTCACAAAATTAG
15688954 AAAAAAAATT
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
84 6 0.08
85 48 0.67
86 1 0.01
87 17 0.24
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (85 bp):
ACTTGAACTTTCAAAATGCATCAAAAAAGCCCTCAAACTTTTTCAAAAAAAAATTAAGCCCCTAC
TTTTACTCACAAAATTAGGT
Found at i:15689169 original size:59 final size:58
Alignment explanation
Indices: 15689037--15689184 Score: 138
Period size: 59 Copynumber: 2.5 Consensus size: 58
15689027 TAAAAATTAT
* * * *
15689037 AAATATATATAAATAGTAAAAGATATATAAAAAATTCTCAAATTTTATAAAAATTGTAAAAA
1 AAAT-TATA-AAATA-T-AAAGAAATATAAAAAATTATAAAATTTTATAAAAATCGTAAAAA
* * *
15689099 AAATTATAAAATATAGAGAAATATAAAAAAGTTATAAAATTTTAT-AAAGTCGT-AAGA
1 AAATTATAAAATATAAAGAAATATAAAAAA-TTATAAAATTTTATAAAAATCGTAAAAA
* *
15689156 AAATTATACAAAATTTAAAGACATATAAA
1 AAATTAT--AAAATATAAAGAAATATAAA
15689185 TTTCGTAAAA
Statistics
Matches: 73, Mismatches: 10, Indels: 9
0.79 0.11 0.10
Matches are distributed among these distances:
57 10 0.14
58 20 0.27
59 30 0.41
60 5 0.07
61 4 0.05
62 4 0.05
ACGTcount: A:0.59, C:0.03, G:0.07, T:0.30
Consensus pattern (58 bp):
AAATTATAAAATATAAAGAAATATAAAAAATTATAAAATTTTATAAAAATCGTAAAAA
Found at i:15689429 original size:10 final size:10
Alignment explanation
Indices: 15689416--15689467 Score: 74
Period size: 10 Copynumber: 5.4 Consensus size: 10
15689406 TTTTAATAAA
15689416 TTTTAAATTT
1 TTTTAAATTT
15689426 TTTTAAATTT
1 TTTTAAATTT
15689436 TTTTAAATTT
1 TTTTAAATTT
15689446 TTTT--ATTT
1 TTTTAAATTT
15689454 TTTCT-AATTT
1 TTT-TAAATTT
15689464 TTTT
1 TTTT
15689468 TCTAATTTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
8 7 0.17
9 2 0.05
10 31 0.77
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (10 bp):
TTTTAAATTT
Found at i:15689430 original size:20 final size:20
Alignment explanation
Indices: 15689405--15689450 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
15689395 AAAATTCTAA
15689405 TTTTT-AATAAATTTTAAATT
1 TTTTTAAAT-AATTTTAAATT
**
15689425 TTTTTAAATTTTTTTAAATT
1 TTTTTAAATAATTTTAAATT
15689445 TTTTTA
1 TTTTTA
15689451 TTTTTTCTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 20 0.87
21 3 0.13
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (20 bp):
TTTTTAAATAATTTTAAATT
Found at i:15689447 original size:28 final size:29
Alignment explanation
Indices: 15689399--15689479 Score: 78
Period size: 28 Copynumber: 2.8 Consensus size: 29
15689389 ATAAAAAAAA
*
15689399 TTCT-AATTTTTAATAAA-TTTTAAATTTT
1 TTCTAAATTTTT-TTAAATTTTTAAATTTT
**
15689427 TT-TAAATTTTTTTAAATTTTTTTATTTT
1 TTCTAAATTTTTTTAAATTTTTAAATTTT
* *
15689455 TTCTAATTTTTTTTCTAATTTTTAA
1 TTCTAAATTTTTTT-AAATTTTTAA
15689480 TAAGAGTAGG
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
27 5 0.12
28 20 0.48
29 10 0.24
30 7 0.17
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.68
Consensus pattern (29 bp):
TTCTAAATTTTTTTAAATTTTTAAATTTT
Found at i:15689456 original size:20 final size:20
Alignment explanation
Indices: 15689416--15689467 Score: 74
Period size: 18 Copynumber: 2.7 Consensus size: 20
15689406 TTTTAATAAA
15689416 TTTTAAATTTTTTTAAATTT
1 TTTTAAATTTTTTTAAATTT
15689436 TTTTAAATTTTTTT--ATTT
1 TTTTAAATTTTTTTAAATTT
15689454 TTTCT-AATTTTTTT
1 TTT-TAAATTTTTTT
15689468 TCTAATTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
18 16 0.52
19 1 0.03
20 14 0.45
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (20 bp):
TTTTAAATTTTTTTAAATTT
Found at i:15689466 original size:12 final size:12
Alignment explanation
Indices: 15689451--15689477 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
15689441 AATTTTTTTA
15689451 TTTTTTCTAATT
1 TTTTTTCTAATT
15689463 TTTTTTCTAATT
1 TTTTTTCTAATT
15689475 TTT
1 TTT
15689478 AATAAGAGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.15, C:0.07, G:0.00, T:0.78
Consensus pattern (12 bp):
TTTTTTCTAATT
Found at i:15689468 original size:19 final size:18
Alignment explanation
Indices: 15689416--15689468 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 18
15689406 TTTTAATAAA
* *
15689416 TTTTAAATTTTTTTAAATT
1 TTTTTAATTTTTTT-TATT
*
15689435 TTTTTAAATTTTTTTATT
1 TTTTTAATTTTTTTTATT
15689453 TTTTCTAATTTTTTTT
1 TTTT-TAATTTTTTTT
15689469 CTAATTTTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
18 7 0.24
19 22 0.76
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (18 bp):
TTTTTAATTTTTTTTATT
Found at i:15689480 original size:19 final size:18
Alignment explanation
Indices: 15689415--15689480 Score: 51
Period size: 19 Copynumber: 3.5 Consensus size: 18
15689405 TTTTTAATAA
* *
15689415 ATTTTAAATTTTTTTAAAT
1 ATTTTTAATTTTTTT-TAT
* *
15689434 TTTTTTAAATTTTTTTAT
1 ATTTTTAATTTTTTTTAT
* *
15689452 TTTTTCTAATTTTTTTTCT
1 ATTTT-TAATTTTTTTTAT
15689471 AATTTTTAAT
1 -ATTTTTAAT
15689481 AAGAGTAGGG
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
18 7 0.18
19 27 0.71
20 4 0.11
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (18 bp):
ATTTTTAATTTTTTTTAT
Found at i:15689782 original size:20 final size:19
Alignment explanation
Indices: 15689759--15689798 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
15689749 CATATTAAAT
15689759 AGTTTAAAAATAATTTTTAA
1 AGTTTAAAAA-AATTTTTAA
* *
15689779 AGTTTTAAAAAGTTTTTAA
1 AGTTTAAAAAAATTTTTAA
15689798 A
1 A
15689799 AAACGTATAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.45
Consensus pattern (19 bp):
AGTTTAAAAAAATTTTTAA
Found at i:15690524 original size:23 final size:21
Alignment explanation
Indices: 15690479--15690531 Score: 61
Period size: 23 Copynumber: 2.4 Consensus size: 21
15690469 TATTATTTGA
**
15690479 ATTTTTAAAATTTATAATTAT
1 ATTTTTAAAATTTATAAAAAT
*
15690500 ATATTTTAGAATTTTATAAAAAT
1 AT-TTTTA-AAATTTATAAAAAT
15690523 ATTTTTAAA
1 ATTTTTAAA
15690532 CCTTTTTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
21 4 0.15
22 10 0.37
23 13 0.48
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (21 bp):
ATTTTTAAAATTTATAAAAAT
Found at i:15690587 original size:20 final size:20
Alignment explanation
Indices: 15690541--15690588 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
15690531 ACCTTTTTTA
15690541 ATTATTTTTATATATTATAT
1 ATTATTTTTATATATTATAT
* *
15690561 ATGATTTTTATAT-TTTTAT
1 ATTATTTTTATATATTATAT
15690580 ATTTATTTT
1 A-TTATTTT
15690589 AAATAAACCT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 6 0.25
20 18 0.75
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (20 bp):
ATTATTTTTATATATTATAT
Found at i:15694966 original size:42 final size:42
Alignment explanation
Indices: 15694914--15695013 Score: 157
Period size: 42 Copynumber: 2.4 Consensus size: 42
15694904 GCTCTCGGTA
15694914 TCGCACACTTAGTGCCCGTTATTCAACATC-TCCATTTTAATT
1 TCGCACACTTAGTGCCCGTTATTCAACATCGT-CATTTTAATT
* * *
15694956 TCGCACACTTAGTGCCCTTTATTCAACCTCGTCATTTTAGTT
1 TCGCACACTTAGTGCCCGTTATTCAACATCGTCATTTTAATT
15694998 TCGCACACTTAGTGCC
1 TCGCACACTTAGTGCC
15695014 GTTCATATAA
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
42 53 0.98
43 1 0.02
ACGTcount: A:0.21, C:0.30, G:0.12, T:0.37
Consensus pattern (42 bp):
TCGCACACTTAGTGCCCGTTATTCAACATCGTCATTTTAATT
Found at i:15696816 original size:17 final size:18
Alignment explanation
Indices: 15696794--15696828 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
15696784 ATAACGGTAC
15696794 GTCAGCA-AGATACATAT
1 GTCAGCACAGATACATAT
*
15696811 GTCAGCACAGCTACATAT
1 GTCAGCACAGATACATAT
15696829 TATTATTCGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.37, C:0.23, G:0.17, T:0.23
Consensus pattern (18 bp):
GTCAGCACAGATACATAT
Found at i:15700357 original size:18 final size:17
Alignment explanation
Indices: 15700330--15700373 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
15700320 CTTGTTAATC
**
15700330 ATTTTTTACATTTTTTA
1 ATTTTTTACAAATTTTA
15700347 ATTTTTGTACAAATTTTA
1 ATTTTT-TACAAATTTTA
15700365 ATGTTTTTA
1 AT-TTTTTA
15700374 ATAATTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 6 0.26
18 13 0.57
19 4 0.17
ACGTcount: A:0.27, C:0.05, G:0.05, T:0.64
Consensus pattern (17 bp):
ATTTTTTACAAATTTTA
Found at i:15703777 original size:24 final size:25
Alignment explanation
Indices: 15703725--15703771 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
15703715 TAGCCCTTTT
* *
15703725 GAGCTTTCCGTTATATAGTTCTTGC
1 GAGCTTCCCGTTATATAGCTCTTGC
15703750 GAGCTTCCCGTTA-ATAGCTCTT
1 GAGCTTCCCGTTATATAGCTCTT
15703772 CGGAGCATCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 8 0.40
25 12 0.60
ACGTcount: A:0.17, C:0.23, G:0.19, T:0.40
Consensus pattern (25 bp):
GAGCTTCCCGTTATATAGCTCTTGC
Found at i:15703958 original size:25 final size:25
Alignment explanation
Indices: 15703930--15703984 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
15703920 TGGCTCACTT
*
15703930 GAGCTT-CCGAATATATGGCTATTCG
1 GAGCTTCCCGAATA-ATGGCTATTCA
* *
15703955 GAGCTTCCCGATTAATGGCTCTTCA
1 GAGCTTCCCGAATAATGGCTATTCA
15703980 GAGCT
1 GAGCT
15703985 ACTCGTTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 20 0.77
26 6 0.23
ACGTcount: A:0.22, C:0.24, G:0.24, T:0.31
Consensus pattern (25 bp):
GAGCTTCCCGAATAATGGCTATTCA
Found at i:15704011 original size:49 final size:50
Alignment explanation
Indices: 15703956--15704082 Score: 136
Period size: 49 Copynumber: 2.6 Consensus size: 50
15703946 GGCTATTCGG
* * **
15703956 AGCTTCCCGATTAATGGCTCTTCA-GAGCTACTCGTTAT-TGGCTTGCATA
1 AGCTTCCCGATTAATGGCTCTT-ATGAGCTACCCGTTATATAGCCCGCATA
* *
15704005 AGCTTCCCGATT-ATGGCTCTTATGAGCTTCCCGTTATATAGCCCGGATA
1 AGCTTCCCGATTAATGGCTCTTATGAGCTACCCGTTATATAGCCCGCATA
**
15704054 AGCTTCCC-ATTACATGGCTCACATGAGCT
1 AGCTTCCCGATTA-ATGGCTCTTATGAGCT
15704083 TTCTGTTATA
Statistics
Matches: 66, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
47 1 0.02
48 24 0.36
49 27 0.41
50 14 0.21
ACGTcount: A:0.21, C:0.27, G:0.20, T:0.32
Consensus pattern (50 bp):
AGCTTCCCGATTAATGGCTCTTATGAGCTACCCGTTATATAGCCCGCATA
Found at i:15708813 original size:21 final size:23
Alignment explanation
Indices: 15708789--15708836 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 23
15708779 TTGGAATTAT
15708789 ATTTTATTT-TTTTA-ATTAAAA
1 ATTTTATTTATTTTACATTAAAA
15708810 ATTTTATTTATTTTATCATTAAAA
1 ATTTTATTTATTTTA-CATTAAAA
15708834 ATT
1 ATT
15708837 AATCTTTATA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
21 9 0.38
22 5 0.21
24 10 0.42
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (23 bp):
ATTTTATTTATTTTACATTAAAA
Found at i:15718381 original size:21 final size:21
Alignment explanation
Indices: 15718346--15718412 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
15718336 CTTCAATCCC
*
15718346 CAATTTCAAATTTTATATTTT
1 CAATTTCAAATTTTAAATTTT
15718367 CAATCTTCAAA-TTTAAATTTT
1 CAAT-TTCAAATTTTAAATTTT
** * *
15718388 CAATTTTTAATTTTGAATTTC
1 CAATTTCAAATTTTAAATTTT
15718409 CAAT
1 CAAT
15718413 CCTCAATCCT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
20 4 0.10
21 29 0.74
22 6 0.15
ACGTcount: A:0.34, C:0.12, G:0.01, T:0.52
Consensus pattern (21 bp):
CAATTTCAAATTTTAAATTTT
Found at i:15718393 original size:28 final size:28
Alignment explanation
Indices: 15718330--15718394 Score: 71
Period size: 28 Copynumber: 2.3 Consensus size: 28
15718320 ATTCTCAATC
* *
15718330 TTCAATCTTCAATCCCCAATTTCAAATT
1 TTCAATTTTCAATCCCAAATTTCAAATT
*
15718358 TT-ATATTTTCAATCTTCAAATTT-AAATT
1 TTCA-ATTTTCAATC-CCAAATTTCAAATT
15718386 TTCAATTTT
1 TTCAATTTT
15718395 TAATTTTGAA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
27 1 0.03
28 23 0.74
29 7 0.23
ACGTcount: A:0.32, C:0.18, G:0.00, T:0.49
Consensus pattern (28 bp):
TTCAATTTTCAATCCCAAATTTCAAATT
Found at i:15718401 original size:6 final size:7
Alignment explanation
Indices: 15718317--15718412 Score: 52
Period size: 7 Copynumber: 13.7 Consensus size: 7
15718307 TCTTTCTTCC
*
15718317 TCAATTC
1 TCAATTT
*
15718324 TCAATCT
1 TCAATTT
*
15718331 TCAATCT
1 TCAATTT
**
15718338 TCAATCC
1 TCAATTT
*
15718345 CCAA-TT
1 TCAATTT
15718351 TCAAATTT
1 TC-AATTT
15718359 T-ATATTT
1 TCA-ATTT
*
15718366 TCAATCT
1 TCAATTT
*
15718373 TCAAATT
1 TCAATTT
*
15718380 TAAATTT
1 TCAATTT
15718387 TCAATTT
1 TCAATTT
*
15718394 TTAATTT
1 TCAATTT
*
15718401 TGAATTT
1 TCAATTT
*
15718408 CCAAT
1 TCAAT
15718413 CCTCAATCCT
Statistics
Matches: 68, Mismatches: 17, Indels: 8
0.73 0.18 0.09
Matches are distributed among these distances:
6 2 0.03
7 62 0.91
8 4 0.06
ACGTcount: A:0.32, C:0.19, G:0.01, T:0.48
Consensus pattern (7 bp):
TCAATTT
Found at i:15718512 original size:38 final size:38
Alignment explanation
Indices: 15718468--15718549 Score: 164
Period size: 38 Copynumber: 2.2 Consensus size: 38
15718458 CTCTTTGGTT
15718468 TTATTCTTTTCTTATAAAATTTTAAATGGCAAATCAAC
1 TTATTCTTTTCTTATAAAATTTTAAATGGCAAATCAAC
15718506 TTATTCTTTTCTTATAAAATTTTAAATGGCAAATCAAC
1 TTATTCTTTTCTTATAAAATTTTAAATGGCAAATCAAC
15718544 TTATTC
1 TTATTC
15718550 GTTTGGATGA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 44 1.00
ACGTcount: A:0.35, C:0.13, G:0.05, T:0.46
Consensus pattern (38 bp):
TTATTCTTTTCTTATAAAATTTTAAATGGCAAATCAAC
Found at i:15719142 original size:8 final size:8
Alignment explanation
Indices: 15719129--15719164 Score: 72
Period size: 8 Copynumber: 4.5 Consensus size: 8
15719119 ATTTATCAAC
15719129 TTTTATTA
1 TTTTATTA
15719137 TTTTATTA
1 TTTTATTA
15719145 TTTTATTA
1 TTTTATTA
15719153 TTTTATTA
1 TTTTATTA
15719161 TTTT
1 TTTT
15719165 GAATTTCTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (8 bp):
TTTTATTA
Found at i:15721606 original size:22 final size:22
Alignment explanation
Indices: 15721565--15721606 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
15721555 TTAGAATTAT
*
15721565 AATTTTAATTATGTTTAATTGA
1 AATTTTAATTATGTTCAATTGA
15721587 AATTTTAATTAT-TTACAATT
1 AATTTTAATTATGTT-CAATT
15721607 CAATACAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 2 0.11
22 16 0.89
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.55
Consensus pattern (22 bp):
AATTTTAATTATGTTCAATTGA
Found at i:15724943 original size:2 final size:2
Alignment explanation
Indices: 15724934--15724963 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
15724924 TCACAACCAT
15724934 CA CA -A CA CA CA CA CA CA CA CA CA CA CA CA C
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA C
15724964 TCATTCCCCG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:15725623 original size:9 final size:9
Alignment explanation
Indices: 15725609--15725637 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
15725599 TGAATTTTAC
15725609 AATTTGAAT
1 AATTTGAAT
15725618 AATTTGAAT
1 AATTTGAAT
15725627 AATTTGAAT
1 AATTTGAAT
15725636 AA
1 AA
15725638 CATATTTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.48, C:0.00, G:0.10, T:0.41
Consensus pattern (9 bp):
AATTTGAAT
Found at i:15735420 original size:26 final size:26
Alignment explanation
Indices: 15735384--15735436 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
15735374 TTGAATAAAA
15735384 AGGGGTTGCTAAGTGCTGATTCCCTG
1 AGGGGTTGCTAAGTGCTGATTCCCTG
15735410 AGGGGTTGCTAAGTGCTGATTCCCTG
1 AGGGGTTGCTAAGTGCTGATTCCCTG
15735436 A
1 A
15735437 ATTATTGACT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.17, C:0.19, G:0.34, T:0.30
Consensus pattern (26 bp):
AGGGGTTGCTAAGTGCTGATTCCCTG
Found at i:15735562 original size:85 final size:84
Alignment explanation
Indices: 15735448--15735648 Score: 260
Period size: 85 Copynumber: 2.4 Consensus size: 84
15735438 TTATTGACTC
* * ** *
15735448 TAAAGGTGGTTGCTAAGTGCTGATCCCACCGTATTTTTAATTGTGAAATGAGTTGCTA-GATGTT
1 TAAAGGTGGTTGCTAAGTGCTGATTCCACCGAATCCTTAATTGTGAAAGGAGTTGCTATG-TGTT
** *
15735512 GATTCCCCGTATCGTTGAAT
65 GATTCCCCGTATCACTAAAT
*
15735532 ATAAAGGTGGTTGCTAAGTGCTGATTCCACCGAATCCTTAATTGTGAAAGGGGTTGCTATGTGTT
1 -TAAAGGTGGTTGCTAAGTGCTGATTCCACCGAATCCTTAATTGTGAAAGGAGTTGCTATGTGTT
15735597 GATTCCCCGTATCACTAAAT
65 GATTCCCCGTATCACTAAAT
* * * *
15735617 TTATGGTGGTTGCTAAGTGCGGAATCCACCGA
1 TAAAGGTGGTTGCTAAGTGCTGATTCCACCGA
15735649 GTAACGGATA
Statistics
Matches: 102, Mismatches: 13, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
84 28 0.27
85 73 0.72
86 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.34
Consensus pattern (84 bp):
TAAAGGTGGTTGCTAAGTGCTGATTCCACCGAATCCTTAATTGTGAAAGGAGTTGCTATGTGTTG
ATTCCCCGTATCACTAAAT
Found at i:15735589 original size:43 final size:42
Alignment explanation
Indices: 15735413--15735636 Score: 156
Period size: 43 Copynumber: 5.3 Consensus size: 42
15735403 TTCCCTGAGG
* ** * * *
15735413 GGTTGCTAAGTGCTGATTCCCTGAATTATTGACTCTAAAGGT
1 GGTTGCTAAGTGCTGATTCCCCGAATCCTTAATTGTAAAGGT
* * **
15735455 GGTTGCTAAGTGCTGATCCCACCGTATTTTTAATTGTGAAA--T
1 GGTTGCTAAGTGCTGATTCC-CCGAATCCTTAATTGT-AAAGGT
* * * *
15735497 GAGTTGCT-AGATGTTGATTCCCCGTATCGTTGAA-TATAAAGGT
1 G-GTTGCTAAG-TGCTGATTCCCCGAATCCTT-AATTGTAAAGGT
15735540 GGTTGCTAAGTGCTGATTCCACCGAATCCTTAATTGTGAAAGG-
1 GGTTGCTAAGTGCTGATTCC-CCGAATCCTTAATTGT-AAAGGT
* * * * *
15735583 GGTTGCTATGTGTTGATTCCCCGTATCACTAAATT-T-ATGGT
1 GGTTGCTAAGTGCTGATTCCCCGAATC-CTTAATTGTAAAGGT
15735624 GGTTGCTAAGTGC
1 GGTTGCTAAGTGC
15735637 GGAATCCACC
Statistics
Matches: 146, Mismatches: 23, Indels: 27
0.74 0.12 0.14
Matches are distributed among these distances:
40 3 0.02
41 14 0.10
42 57 0.39
43 64 0.44
44 8 0.05
ACGTcount: A:0.23, C:0.17, G:0.25, T:0.36
Consensus pattern (42 bp):
GGTTGCTAAGTGCTGATTCCCCGAATCCTTAATTGTAAAGGT
Found at i:15739152 original size:28 final size:29
Alignment explanation
Indices: 15739120--15739178 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
15739110 TCCTTTTTGT
*
15739120 TTTTA-TTTATAACATTTGAATGCATGGA
1 TTTTATTTTATAACATTTGAATGCAAGGA
15739148 TTTTATTTTATAACATTTGAATGCAAGGA
1 TTTTATTTTATAACATTTGAATGCAAGGA
15739177 TT
1 TT
15739179 AAGGATTGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
28 5 0.17
29 24 0.83
ACGTcount: A:0.32, C:0.07, G:0.14, T:0.47
Consensus pattern (29 bp):
TTTTATTTTATAACATTTGAATGCAAGGA
Found at i:15742453 original size:28 final size:29
Alignment explanation
Indices: 15742393--15742456 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
15742383 TAGGGTCCTG
* *
15742393 ATTAAATTAGTTCCTTTATTATTAAATAG
1 ATTAAATTAGTTCCTTTACTATTAAATAA
*
15742422 ATTAATTTAG-TCCTTATACTATTAAA-AA
1 ATTAAATTAGTTCCTT-TACTATTAAATAA
15742450 ATTAAAT
1 ATTAAAT
15742457 AAGATAAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
28 12 0.40
29 18 0.60
ACGTcount: A:0.42, C:0.08, G:0.05, T:0.45
Consensus pattern (29 bp):
ATTAAATTAGTTCCTTTACTATTAAATAA
Found at i:15744865 original size:26 final size:26
Alignment explanation
Indices: 15744829--15744883 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
15744819 TAAGATTTTG
*
15744829 ATTTTGATTTCTGTTATCTCCTTTAC
1 ATTTAGATTTCTGTTATCTCCTTTAC
15744855 ATTTAGATTTCTGTTATCTCCTTTAC
1 ATTTAGATTTCTGTTATCTCCTTTAC
15744881 ATT
1 ATT
15744884 GATAAATAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.18, C:0.18, G:0.07, T:0.56
Consensus pattern (26 bp):
ATTTAGATTTCTGTTATCTCCTTTAC
Found at i:15748867 original size:13 final size:13
Alignment explanation
Indices: 15748851--15748879 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
15748841 CCAAATTACA
15748851 TACAATAATTAAT
1 TACAATAATTAAT
15748864 TACAATAATTAAT
1 TACAATAATTAAT
15748877 TAC
1 TAC
15748880 CATTGATTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.38
Consensus pattern (13 bp):
TACAATAATTAAT
Found at i:15751748 original size:20 final size:20
Alignment explanation
Indices: 15751720--15751773 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
15751710 TATTGGAGTT
* *
15751720 TGAATCGATTTAAACAATAA
1 TGAACCGATTCAAACAATAA
15751740 TGAACCGATTCAAACAATAA
1 TGAACCGATTCAAACAATAA
** *
15751760 ACAATCGATTCAAA
1 TGAACCGATTCAAA
15751774 GAAGCAAAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.50, C:0.17, G:0.09, T:0.24
Consensus pattern (20 bp):
TGAACCGATTCAAACAATAA
Found at i:15752743 original size:32 final size:31
Alignment explanation
Indices: 15752692--15752752 Score: 77
Period size: 32 Copynumber: 1.9 Consensus size: 31
15752682 TCTTCTTTTT
* *
15752692 AGCTAAATTTGACCCTCAACCATTTTAAAATG
1 AGCTAAATTTGACCATCAACC-TTCTAAAATG
* *
15752724 AGCTGAATTTGGCCATCAACCTTCTAAAA
1 AGCTAAATTTGACCATCAACCTTCTAAAA
15752753 AAAAGTCAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
31 7 0.28
32 18 0.72
ACGTcount: A:0.36, C:0.23, G:0.11, T:0.30
Consensus pattern (31 bp):
AGCTAAATTTGACCATCAACCTTCTAAAATG
Found at i:15756468 original size:63 final size:62
Alignment explanation
Indices: 15756275--15756478 Score: 214
Period size: 63 Copynumber: 3.3 Consensus size: 62
15756265 AATATCTCTC
* * * *
15756275 ACACGGCCTGGACATATGCCCATGTCCCTGGCCCATATGACTC-GAATTTACAAAAAATGAGTT
1 ACACGGCCTGGACACA-GCCCATGTCCCTGGCCCGTGTGACTCTG-ATTCACAAAAAATGAGTT
** * * * **
15756338 ACATAGCCTGAACACAGGCCTATGTCCTTGATCCGTGTGACTCTGATTCACAAAAAATGAGTT
1 ACACGGCCTGGACACA-GCCCATGTCCCTGGCCCGTGTGACTCTGATTCACAAAAAATGAGTT
* * * *
15756401 ACACGGCCTGGACACACGTCCGTGTCCCTGGCCCGTGTGACTCTGAGTCACAAATAATGAGTT
1 ACACGGCCTGGACACA-GCCCATGTCCCTGGCCCGTGTGACTCTGATTCACAAAAAATGAGTT
*
15756464 ACACGGACT-GACACA
1 ACACGGCCTGGACACA
15756479 TAGCCGTGTA
Statistics
Matches: 115, Mismatches: 25, Indels: 3
0.80 0.17 0.02
Matches are distributed among these distances:
62 6 0.05
63 108 0.94
64 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.23
Consensus pattern (62 bp):
ACACGGCCTGGACACAGCCCATGTCCCTGGCCCGTGTGACTCTGATTCACAAAAAATGAGTT
Found at i:15758107 original size:13 final size:13
Alignment explanation
Indices: 15758089--15758113 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15758079 GCAATTATAT
15758089 ATTTATTTAATGA
1 ATTTATTTAATGA
15758102 ATTTATTTAATG
1 ATTTATTTAATG
15758114 TTGACTCAAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (13 bp):
ATTTATTTAATGA
Found at i:15758290 original size:50 final size:50
Alignment explanation
Indices: 15758220--15758350 Score: 181
Period size: 50 Copynumber: 2.6 Consensus size: 50
15758210 GAGGTCCCAT
*
15758220 GTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAAGTCCCCC
1 GTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAACTCCCCC
* * * * **
15758270 GTAAGACCATGTCTGAGACATGACATGGGCACCGATATGAGAACTCCCTT
1 GTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAACTCCCCC
* *
15758320 GTAAGACCATATCTGGGATATGGCATTGGCA
1 GTAAGACCATGTCTGGGACATGGCATTGGCA
15758351 GTACAAGAAA
Statistics
Matches: 69, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 69 1.00
ACGTcount: A:0.28, C:0.23, G:0.27, T:0.21
Consensus pattern (50 bp):
GTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAACTCCCCC
Found at i:15767251 original size:31 final size:31
Alignment explanation
Indices: 15767213--15767761 Score: 377
Period size: 31 Copynumber: 17.9 Consensus size: 31
15767203 TATATTGCCG
* *
15767213 AATTAATTCGTATATAATTATACATTGCTGA
1 AATTAATTTGTATATGATTATACATTGCTGA
* * * *
15767244 AATTAATTTATATATGGTTATACGTTG-TTA
1 AATTAATTTGTATATGATTATACATTGCTGA
15767274 ACATTGAA-TTGTATATGGA-TATA-AGTTGCTG-
1 A-ATT-AATTTGTATAT-GATTATACA-TTGCTGA
* * *
15767305 AATTAATTCGTATATGGTTGTACATTGCTGA
1 AATTAATTTGTATATGATTATACATTGCTGA
* *
15767336 AATTTATTTGTATATGATTATACATT-ATCGA
1 AATTAATTTGTATATGATTATACATTGCT-GA
* ** *
15767367 AATTGATTTGTATATGAAGATA-AGTTGCCG-
1 AATTAATTTGTATATGATTATACA-TTGCTGA
* * **
15767397 AATTAATTCGTATATAATTATACATTTTTGA
1 AATTAATTTGTATATGATTATACATTGCTGA
* *
15767428 AATTAATTTGTATATGGTTATACATTGTTGA
1 AATTAATTTGTATATGATTATACATTGCTGA
15767459 AATTGAA-TTGTATATGGA-TATA-AGTTGCTG-
1 AATT-AATTTGTATAT-GATTATACA-TTGCTGA
* * * *
15767489 AATTAATTCGTATATGGTTGTACGTTGCTGA
1 AATTAATTTGTATATGATTATACATTGCTGA
* * * *
15767520 AATTTATTTGTATATGGTTATACATT-ATCAA
1 AATTAATTTGTATATGATTATACATTGCT-GA
* ** *
15767551 AATTTATTTGTATATGAAGATA-AGTTGC-CA
1 AATTAATTTGTATATGATTATACA-TTGCTGA
* **
15767581 AATTGATTTGTATATGATTATATTTTGCTGA
1 AATTAATTTGTATATGATTATACATTGCTGA
* *
15767612 AATTAATTTGTATATGGTTATACATTGTTGA
1 AATTAATTTGTATATGATTATACATTGCTGA
* *
15767643 AATTGAA-TTGTATATGGA-TATA-AGTTACCG-
1 AATT-AATTTGTATAT-GATTATACA-TTGCTGA
* *
15767673 AATTAATTCGTATATGATTATACATTGC-CA
1 AATTAATTTGTATATGATTATACATTGCTGA
* ** *
15767703 AACTTGATTCATATAT-AGTTATACATTGCCG-
1 AA-TTAATTTGTATATGA-TTATACATTGCTGA
*
15767734 AATTGATTTGTATATGATTATACATTGC
1 AATTAATTTGTATATGATTATACATTGC
15767762 GGACTTTGAT
Statistics
Matches: 407, Mismatches: 74, Indels: 75
0.73 0.13 0.13
Matches are distributed among these distances:
29 10 0.02
30 135 0.33
31 252 0.62
32 10 0.02
ACGTcount: A:0.34, C:0.07, G:0.16, T:0.44
Consensus pattern (31 bp):
AATTAATTTGTATATGATTATACATTGCTGA
Found at i:15767313 original size:92 final size:91
Alignment explanation
Indices: 15767207--15767749 Score: 647
Period size: 92 Copynumber: 5.9 Consensus size: 91
15767197 TATATATATA
* * *
15767207 TTGCCGAATTAATTCGTATATAATTATACATTGCTGAAATTAATTTATATATGGTTATACGTTGT
1 TTGCCGAATTAATTCGTATATGATTATACATTGCTGAAATTAATTTGTATATGGTTATACATTGT
15767272 TAACATTGAATTGTATATGGATATAAG
66 TAA-ATTGAATTGTATATGGATATAAG
* * * * * *
15767299 TTGCTGAATTAATTCGTATATGGTTGTACATTGCTGAAATTTATTTGTATATGATTATACATTAT
1 TTGCCGAATTAATTCGTATATGATTATACATTGCTGAAATTAATTTGTATATGGTTATACATTGT
* * * *
15767364 CGAAATTGATTTGTATATGAAGATAAG
66 -TAAATTGAATTGTATATGGATATAAG
* **
15767391 TTGCCGAATTAATTCGTATATAATTATACATTTTTGAAATTAATTTGTATATGGTTATACATTGT
1 TTGCCGAATTAATTCGTATATGATTATACATTGCTGAAATTAATTTGTATATGGTTATACATTGT
15767456 TGAAATTGAATTGTATATGGATATAAG
66 T-AAATTGAATTGTATATGGATATAAG
* * * * * *
15767483 TTGCTGAATTAATTCGTATATGGTTGTACGTTGCTGAAATTTATTTGTATATGGTTATACATTAT
1 TTGCCGAATTAATTCGTATATGATTATACATTGCTGAAATTAATTTGTATATGGTTATACATTGT
* * * * *
15767548 CAAAATTTATTTGTATATGAAGATAAG
66 -TAAATTGAATTGTATATGGATATAAG
* * * **
15767575 TTGCCAAATTGATTTGTATATGATTATATTTTGCTGAAATTAATTTGTATATGGTTATACATTGT
1 TTGCCGAATTAATTCGTATATGATTATACATTGCTGAAATTAATTTGTATATGGTTATACATTGT
15767640 TGAAATTGAATTGTATATGGATATAAG
66 T-AAATTGAATTGTATATGGATATAAG
* * * ** *
15767667 TTACCGAATTAATTCGTATATGATTATACATTGC-CAAACTTGATTCATATATAGTTATACATTG
1 TTGCCGAATTAATTCGTATATGATTATACATTGCTGAAA-TTAATTTGTATATGGTTATACATTG
*** *
15767731 CCGAATTGATTTGTATATG
65 TTAAATTGAATTGTATATG
15767750 ATTATACATT
Statistics
Matches: 376, Mismatches: 70, Indels: 11
0.82 0.15 0.02
Matches are distributed among these distances:
91 18 0.05
92 356 0.95
93 2 0.01
ACGTcount: A:0.33, C:0.07, G:0.16, T:0.44
Consensus pattern (91 bp):
TTGCCGAATTAATTCGTATATGATTATACATTGCTGAAATTAATTTGTATATGGTTATACATTGT
TAAATTGAATTGTATATGGATATAAG
Found at i:15767519 original size:184 final size:184
Alignment explanation
Indices: 15767207--15767750 Score: 803
Period size: 184 Copynumber: 3.0 Consensus size: 184
15767197 TATATATATA
** * *
15767207 TTGCCGAATTAATTCGTATATAATTATACATTGCTGAAATTAATTTATATATGGTTATACGTTGT
1 TTGCCGAATTAATTCGTATATAATTATACATTTTTGAAATTAATTTGTATATGGTTATACATTGT
15767272 T-AACATTGAATTGTATATGGATATAAGTTGCTGAATTAATTCGTATATGGTTGTACATTGCTGA
66 TGAA-ATTGAATTGTATATGGATATAAGTTGCTGAATTAATTCGTATATGGTTGTACATTGCTGA
15767336 AATTTATTTGTATATGATTATACATTATCGAAATTGATTTGTATATGAAGATAAG
130 AATTTATTTGTATATGATTATACATTATCGAAATTGATTTGTATATGAAGATAAG
15767391 TTGCCGAATTAATTCGTATATAATTATACATTTTTGAAATTAATTTGTATATGGTTATACATTGT
1 TTGCCGAATTAATTCGTATATAATTATACATTTTTGAAATTAATTTGTATATGGTTATACATTGT
*
15767456 TGAAATTGAATTGTATATGGATATAAGTTGCTGAATTAATTCGTATATGGTTGTACGTTGCTGAA
66 TGAAATTGAATTGTATATGGATATAAGTTGCTGAATTAATTCGTATATGGTTGTACATTGCTGAA
* * *
15767521 ATTTATTTGTATATGGTTATACATTATCAAAATTTATTTGTATATGAAGATAAG
131 ATTTATTTGTATATGATTATACATTATCGAAATTGATTTGTATATGAAGATAAG
* * * *
15767575 TTGCCAAATTGATTTGTATATGATTAT--ATTTTGCTGAAATTAATTTGTATATGGTTATACATT
1 TTGCCGAATTAATTCGTATATAATTATACATTTT--TGAAATTAATTTGTATATGGTTATACATT
* * * * *
15767638 GTTGAAATTGAATTGTATATGGATATAAGTTACCGAATTAATTCGTATATGATTATACATTGC-C
64 GTTGAAATTGAATTGTATATGGATATAAGTTGCTGAATTAATTCGTATATGGTTGTACATTGCTG
* ** **
15767702 AAACTTGATTCATATAT-AGTTATACATTGCCG-AATTGATTTGTATATGA
129 AAA-TTTATTTGTATATGA-TTATACATTATCGAAATTGATTTGTATATGA
15767751 TTATACATTG
Statistics
Matches: 329, Mismatches: 26, Indels: 11
0.90 0.07 0.03
Matches are distributed among these distances:
182 5 0.02
183 19 0.06
184 303 0.92
185 2 0.01
ACGTcount: A:0.33, C:0.07, G:0.16, T:0.44
Consensus pattern (184 bp):
TTGCCGAATTAATTCGTATATAATTATACATTTTTGAAATTAATTTGTATATGGTTATACATTGT
TGAAATTGAATTGTATATGGATATAAGTTGCTGAATTAATTCGTATATGGTTGTACATTGCTGAA
ATTTATTTGTATATGATTATACATTATCGAAATTGATTTGTATATGAAGATAAG
Found at i:15767696 original size:61 final size:61
Alignment explanation
Indices: 15767231--15767760 Score: 363
Period size: 61 Copynumber: 8.6 Consensus size: 61
15767221 CGTATATAAT
* *
15767231 TATACATTGCTGAAATTAATTTATATATGGTTATACGTTGTT-AACATTGAATTGTATATGGA
1 TATACATTGCTG-AATTAATTTGTATATGGTTATACATTGTTGAA-ATTGAATTGTATATGGA
* * * * *
15767293 TATA-AGTTGCTGAATTAATTCGTATATGGTTGTACATTGCTGAAATTTATTTGTATAT-GA
1 TATACA-TTGCTGAATTAATTTGTATATGGTTATACATTGTTGAAATTGAATTGTATATGGA
* * *** ** *
15767353 TTATACATT-ATCGAAATTGATTTGTATATGAAGATA-AGTTGCCG-AATT-AATTCGTATAT-A
1 -TATACATTGCT-G-AATTAATTTGTATATGGTTATACA-TTGTTGAAATTGAATT-GTATATGG
15767413 A
61 A
**
15767414 TTATACATTTTTGAAATTAATTTGTATATGGTTATACATTGTTGAAATTGAATTGTATATGGA
1 -TATACATTGCTG-AATTAATTTGTATATGGTTATACATTGTTGAAATTGAATTGTATATGGA
* * * * * * *
15767477 TATA-AGTTGCTGAATTAATTCGTATATGGTTGTACGTTGCTGAAATTTATTTGTATATGGT
1 TATACA-TTGCTGAATTAATTTGTATATGGTTATACATTGTTGAAATTGAATTGTATATGGA
* ** * *** *
15767538 TATACATTATCAAAATTTATTTGTATATGAAGATA-A--GTTGCCAAATTGATTTGTATAT-GA
1 TATACATT-GCTGAATTAATTTGTATATGGTTATACATTGTTG--AAATTGAATTGTATATGGA
**
15767598 TTATATTTTGCTGAAATTAATTTGTATATGGTTATACATTGTTGAAATTGAATTGTATATGGA
1 -TATACATTGCTG-AATTAATTTGTATATGGTTATACATTGTTGAAATTGAATTGTATATGGA
* * * * ** * * *
15767661 TATA-AGTTACCGAATTAATTCGTATATGATTATACATTG-CCAAACTTG-ATTCATATATAGT
1 TATACA-TTGCTGAATTAATTTGTATATGGTTATACATTGTTGAAA-TTGAATT-GTATATGGA
* * *
15767722 TATACATTGCCGAATTGATTTGTATATGATTATACATTG
1 TATACATTGCTGAATTAATTTGTATATGGTTATACATTG
15767761 CGGACTTTGA
Statistics
Matches: 370, Mismatches: 70, Indels: 57
0.74 0.14 0.11
Matches are distributed among these distances:
59 3 0.01
60 14 0.04
61 245 0.66
62 97 0.26
63 7 0.02
64 4 0.01
ACGTcount: A:0.33, C:0.07, G:0.16, T:0.44
Consensus pattern (61 bp):
TATACATTGCTGAATTAATTTGTATATGGTTATACATTGTTGAAATTGAATTGTATATGGA
Found at i:15767771 original size:61 final size:63
Alignment explanation
Indices: 15767551--15767806 Score: 165
Period size: 61 Copynumber: 4.2 Consensus size: 63
15767541 ACATTATCAA
* ** ** ** *
15767551 AATTTATTTGTATATGAAGATA-AGTTGCCAAA-TTGATTTGTATATG-AT-TATATTTTGCTG
1 AATTGATTTGTATATGATTATACA-TTGCCAAACTTGATTCATATATGAATATATACATTGCCG
* * ** * * * *
15767611 AAATTAATTTGTATATGGTTATACATTGTTGAAA-TTGAATT-GTATATGGATATA-A-GTTACC
1 -AATTGATTTGTATATGATTATACATTG-CCAAACTTG-ATTCATATATGAATATATACATTGCC
15767672 G
63 G
* * *
15767673 AATTAATTCGTATATGATTATACATTGCCAAACTTGATTCATATAT-AGT-TATACATTGCCG
1 AATTGATTTGTATATGATTATACATTGCCAAACTTGATTCATATATGAATATATACATTGCCG
** * * **
15767734 AATTGATTTGTATATGATTATACATTG-CGGACTTTGATTCGTATATGAATATATATATTGTTG
1 AATTGATTTGTATATGATTATACATTGCCAAAC-TTGATTCATATATGAATATATACATTGCCG
15767797 AATTGATTTG
1 AATTGATTTG
15767807 AGCATTAGAT
Statistics
Matches: 156, Mismatches: 27, Indels: 22
0.76 0.13 0.11
Matches are distributed among these distances:
59 2 0.01
60 11 0.07
61 96 0.62
62 20 0.13
63 25 0.16
64 2 0.01
ACGTcount: A:0.33, C:0.07, G:0.16, T:0.44
Consensus pattern (63 bp):
AATTGATTTGTATATGATTATACATTGCCAAACTTGATTCATATATGAATATATACATTGCCG
Found at i:15767778 original size:31 final size:30
Alignment explanation
Indices: 15767678--15767786 Score: 121
Period size: 31 Copynumber: 3.6 Consensus size: 30
15767668 TACCGAATTA
*
15767678 ATTCGTATATGATTATACATTGCCAAACTTG
1 ATTCGTATATGATTATACATTG-CAGACTTG
* * *
15767709 ATTCATATAT-AGTTATACATTGCCGAATTG
1 ATTCGTATATGA-TTATACATTGCAGACTTG
* *
15767739 ATTTGTATATGATTATACATTGCGGACTTTG
1 ATTCGTATATGATTATACATTGCAGAC-TTG
*
15767770 ATTCGTATATGAATATA
1 ATTCGTATATGATTATA
15767787 TATATTGTTG
Statistics
Matches: 65, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
30 27 0.42
31 38 0.58
ACGTcount: A:0.32, C:0.12, G:0.15, T:0.41
Consensus pattern (30 bp):
ATTCGTATATGATTATACATTGCAGACTTG
Found at i:15768035 original size:41 final size:41
Alignment explanation
Indices: 15767927--15768048 Score: 131
Period size: 43 Copynumber: 2.9 Consensus size: 41
15767917 GAGGTGTGAT
* *
15767927 TTCGTGTAAGACCATGTCTGGGACATTGGCATCGAAGTAAGAA
1 TTCGTGTAAGACCTTGTCTGGGACATTGGCATCG-A-TATGAA
**
15767970 AACGTGTAAGA-CTATGTCTGGGACATTGGCATCGTATATG-A
1 TTCGTGTAAGACCT-TGTCTGGGACATTGGCATCG-ATATGAA
* * *
15768011 TTCGTATAAGACCTTGTCTAGGACAGTGGCATCGATAT
1 TTCGTGTAAGACCTTGTCTGGGACATTGGCATCGATAT
15768049 TCGTTAACAT
Statistics
Matches: 67, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
40 4 0.06
41 27 0.40
42 6 0.09
43 30 0.45
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (41 bp):
TTCGTGTAAGACCTTGTCTGGGACATTGGCATCGATATGAA
Found at i:15769603 original size:63 final size:63
Alignment explanation
Indices: 15769536--15769664 Score: 177
Period size: 63 Copynumber: 2.0 Consensus size: 63
15769526 AATATCTCTC
* * * *
15769536 ACATGGCCTGGACACACACCTGTGTCTCTAACCCATGTGACTCTGTTTCACAAATAGTGAGTT
1 ACATGGCCTGGACACACACCTGTGTCCCTAACCCATGTGACTCTGATTCACAAACAGTAAGTT
* ** * *
15769599 ACATGGCCTGGACACACACCTGTTTCCCTGGCCCGTGTGACTCTGATTCATAAACAGTAAGTT
1 ACATGGCCTGGACACACACCTGTGTCCCTAACCCATGTGACTCTGATTCACAAACAGTAAGTT
15769662 ACA
1 ACA
15769665 CGGCTTGTCA
Statistics
Matches: 57, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
63 57 1.00
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (63 bp):
ACATGGCCTGGACACACACCTGTGTCCCTAACCCATGTGACTCTGATTCACAAACAGTAAGTT
Done.