Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr5
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: 65570391
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1216948 characters in sequence are not A, C, G, or T
File 141 of 203
Found at i:44864095 original size:12 final size:12
Alignment explanation
Indices: 44864078--44864102 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
44864068 GAGTTGATCC
44864078 AAGAGAGAGAGA
1 AAGAGAGAGAGA
44864090 AAGAGAGAGAGA
1 AAGAGAGAGAGA
44864102 A
1 A
44864103 GGCAATGGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.00, G:0.40, T:0.00
Consensus pattern (12 bp):
AAGAGAGAGAGA
Found at i:44866458 original size:40 final size:40
Alignment explanation
Indices: 44866313--44866496 Score: 200
Period size: 40 Copynumber: 4.7 Consensus size: 40
44866303 TTGAATGTTG
* *
44866313 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-A
* * * *
44866352 CCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
44866392 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
44866431 TCTGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
44866472 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
44866497 AACGAGGAGC
Statistics
Matches: 122, Mismatches: 16, Indels: 13
0.81 0.11 0.09
Matches are distributed among these distances:
39 51 0.42
40 61 0.50
41 10 0.08
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:44866518 original size:79 final size:79
Alignment explanation
Indices: 44866365--44866529 Score: 185
Period size: 79 Copynumber: 2.1 Consensus size: 79
44866355 GGACTAAGAT
* ** *
44866365 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
* *
44866430 ATCTGGGTTAAGTC
66 ATCTCGGTTAAATC
*
44866444 CCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAG
1 CCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-
* *
44866506 CTATATC-CGGTTAAATT
62 CTAAATCTCGGTTAAATC
44866523 CCGAAGG
1 CCGAAGG
44866530 TACGTGATTT
Statistics
Matches: 73, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
78 3 0.04
79 46 0.63
80 24 0.33
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
ATCTCGGTTAAATC
Found at i:44868055 original size:11 final size:11
Alignment explanation
Indices: 44868039--44868064 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
44868029 TCAAATTTGC
44868039 AAAAAAAAAGA
1 AAAAAAAAAGA
44868050 AAAAAAAAAGA
1 AAAAAAAAAGA
44868061 AAAA
1 AAAA
44868065 TGAATTGGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAGA
Found at i:44871696 original size:15 final size:15
Alignment explanation
Indices: 44871676--44871706 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
44871666 ATGAGGTATG
*
44871676 ACGAAAGTGATGGTT
1 ACGAAAGGGATGGTT
44871691 ACGAAAGGGATGGTT
1 ACGAAAGGGATGGTT
44871706 A
1 A
44871707 TGAGGTATGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.35, C:0.06, G:0.35, T:0.23
Consensus pattern (15 bp):
ACGAAAGGGATGGTT
Found at i:44874779 original size:43 final size:43
Alignment explanation
Indices: 44874721--44874802 Score: 110
Period size: 43 Copynumber: 1.9 Consensus size: 43
44874711 ATCTCATTTG
44874721 TCATATCATAATCATTTATCATATTTGCCATTTCAATATTTTC
1 TCATATCATAATCATTTATCATATTTGCCATTTCAATATTTTC
* * * * **
44874764 TCATCTCATATTCATTTCTCATCTTTTTCATTTCAATAT
1 TCATATCATAATCATTTATCATATTTGCCATTTCAATAT
44874803 CAATCACATA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 33 1.00
ACGTcount: A:0.27, C:0.21, G:0.01, T:0.51
Consensus pattern (43 bp):
TCATATCATAATCATTTATCATATTTGCCATTTCAATATTTTC
Found at i:44874795 original size:16 final size:17
Alignment explanation
Indices: 44874760--44874797 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
44874750 ATTTCAATAT
44874760 TTTCTCATCTCATATTCA
1 TTTCTCATCT-ATATTCA
*
44874778 TTTCTCATCT-TTTTCA
1 TTTCTCATCTATATTCA
44874794 TTTC
1 TTTC
44874798 AATATCAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 9 0.47
18 10 0.53
ACGTcount: A:0.16, C:0.26, G:0.00, T:0.58
Consensus pattern (17 bp):
TTTCTCATCTATATTCA
Found at i:44891365 original size:21 final size:21
Alignment explanation
Indices: 44891336--44891388 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
44891326 ATTTCTCCTT
* *
44891336 ATGTTGCAATAAACTACTTGG
1 ATGTCGCAACAAACTACTTGG
*
44891357 ATGTCGCAACAAGCTACTTGG
1 ATGTCGCAACAAACTACTTGG
44891378 ATGTCGCAACA
1 ATGTCGCAACA
44891389 CGGCTTCTAG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (21 bp):
ATGTCGCAACAAACTACTTGG
Found at i:44902126 original size:75 final size:74
Alignment explanation
Indices: 44902003--44902241 Score: 334
Period size: 75 Copynumber: 3.2 Consensus size: 74
44901993 TTGTCGGAAT
*
44902003 AGTGCCGATTCCACCATATCTTAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCTCGAATCATTG
1 AGTGCTGATTCCACCATATCTTAAATGTGAAAGGGGTTGCTAAGTGCTGATTCC-CGAATCATTG
*
44902068 GTGCTTGCTA
65 GTGGTTGCTA
* * * *
44902078 AGTGCTGATCCCACCGTATCTTAAATGTGAAAGGGGTTGCTAGGTGCTGATTCCCCTAATCATTG
1 AGTGCTGATTCCACCATATCTTAAATGTGAAAGGGGTTGCTAAGTGCTGATT-CCCGAATCATTG
*
44902143 GTGGTTTCTA
65 GTGGTTGCTA
* * *
44902153 AGTGCTAATTCCACCATATCTTTGAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCTGAATCACT
1 AGTGCTGATTCCACCATATC-TTAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCC-GAATCATT
44902218 GGTGGTTGCTA
64 GGTGGTTGCTA
* *
44902229 TGTGCTGAATCCA
1 AGTGCTGATTCCA
44902242 TCGATAATGG
Statistics
Matches: 143, Mismatches: 18, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
75 85 0.59
76 58 0.41
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.33
Consensus pattern (74 bp):
AGTGCTGATTCCACCATATCTTAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCGAATCATTGG
TGGTTGCTA
Found at i:44903834 original size:13 final size:13
Alignment explanation
Indices: 44903816--44903841 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
44903806 ACCTTCAAAG
44903816 GATATAAATGAAC
1 GATATAAATGAAC
44903829 GATATAAATGAAC
1 GATATAAATGAAC
44903842 TACCTGATGA
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:0.54, C:0.08, G:0.15, T:0.23
Consensus pattern (13 bp):
GATATAAATGAAC
Found at i:44914041 original size:41 final size:42
Alignment explanation
Indices: 44913984--44914064 Score: 137
Period size: 41 Copynumber: 2.0 Consensus size: 42
44913974 CATGGCTTGT
* *
44913984 CACACGGGCGTGTGAGGCCATTT-TAGAGGTACACGGCCTCG
1 CACACGGGCGTGTGAGGCCATTTCGAAAGGTACACGGCCTCG
44914025 CACACGGGCGTGTGAGGCCATTTCGAAAGGTACACGGCCT
1 CACACGGGCGTGTGAGGCCATTTCGAAAGGTACACGGCCT
44914065 GGCTCACGAG
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
41 23 0.62
42 14 0.38
ACGTcount: A:0.21, C:0.27, G:0.33, T:0.19
Consensus pattern (42 bp):
CACACGGGCGTGTGAGGCCATTTCGAAAGGTACACGGCCTCG
Found at i:44925394 original size:18 final size:19
Alignment explanation
Indices: 44925367--44925402 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
44925357 ATAAAATGTA
44925367 AAAAAGAAACA-CAAACAC
1 AAAAAGAAACATCAAACAC
*
44925385 AAAAATAAACATCAAACA
1 AAAAAGAAACATCAAACA
44925403 AACGCCATCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.72, C:0.19, G:0.03, T:0.06
Consensus pattern (19 bp):
AAAAAGAAACATCAAACAC
Found at i:44927958 original size:39 final size:39
Alignment explanation
Indices: 44927895--44927972 Score: 120
Period size: 39 Copynumber: 2.0 Consensus size: 39
44927885 AAAATGGTTC
*
44927895 CTGCAGAGTTGAAAGAGTTAAAAGCACGGTTGCAAGAGT
1 CTGCAGAGTTGAAAGAGTTAAAAGCACAGTTGCAAGAGT
* * *
44927934 CTGCTGAGTTGAAAGAGTTGAAAGCGCAGTTGCAAGAGT
1 CTGCAGAGTTGAAAGAGTTAAAAGCACAGTTGCAAGAGT
44927973 TGACAGATAG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.33, C:0.13, G:0.32, T:0.22
Consensus pattern (39 bp):
CTGCAGAGTTGAAAGAGTTAAAAGCACAGTTGCAAGAGT
Found at i:44929726 original size:26 final size:25
Alignment explanation
Indices: 44929641--44929727 Score: 74
Period size: 26 Copynumber: 3.4 Consensus size: 25
44929631 TTTTAGGTTT
*
44929641 TTTATATATATTATTTA-TATGAAGC
1 TTTATATATATTATTTATTAT-AAAC
* *
44929666 TGTTTTACATATTATTTATT-TAAATTTC
1 T-TTATATATATTATTTATTATAAA---C
44929694 TTT-TATATATTATTTATTATAAAC
1 TTTATATATATTATTTATTATAAAC
44929718 -TTATATATAT
1 TTTATATATAT
44929728 CTTTAAAATT
Statistics
Matches: 51, Mismatches: 4, Indels: 15
0.73 0.06 0.21
Matches are distributed among these distances:
23 2 0.04
24 8 0.16
25 3 0.06
26 29 0.57
27 7 0.14
28 2 0.04
ACGTcount: A:0.34, C:0.05, G:0.03, T:0.57
Consensus pattern (25 bp):
TTTATATATATTATTTATTATAAAC
Found at i:44929742 original size:19 final size:21
Alignment explanation
Indices: 44929695--44929756 Score: 65
Period size: 19 Copynumber: 3.0 Consensus size: 21
44929685 TTAAATTTCT
*
44929695 TTTATATATTATTTATTATAAA
1 TTTATATA-TATCTATTATAAA
*
44929717 CTTATATATATCT-TTA-AAA
1 TTTATATATATCTATTATAAA
* *
44929736 TTTATATATATATATTTTAAA
1 TTTATATATATCTATTATAAA
44929757 AACTGTTTTA
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
19 14 0.42
20 5 0.15
21 7 0.21
22 7 0.21
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (21 bp):
TTTATATATATCTATTATAAA
Found at i:44929823 original size:24 final size:24
Alignment explanation
Indices: 44929774--44929864 Score: 87
Period size: 25 Copynumber: 3.7 Consensus size: 24
44929764 TTATAAGTTA
44929774 TTTTTTA-TATTATTTATTTTAAAT
1 TTTTTTATTATTATTTATTTT-AAT
44929798 TTTTTTATTATTATTTATTATT-AT
1 TTTTTTATTATTATTTATT-TTAAT
* * * *
44929822 TTTTTTATATTTTGTTTATTTGGAAC
1 TTTTTTAT-TATTATTTATTT-TAAT
44929848 TTTTTTATTATTTATTT
1 TTTTTTATTA-TTATTT
44929865 TGAATTGTCA
Statistics
Matches: 55, Mismatches: 6, Indels: 10
0.77 0.08 0.14
Matches are distributed among these distances:
24 18 0.33
25 21 0.38
26 16 0.29
ACGTcount: A:0.23, C:0.01, G:0.03, T:0.73
Consensus pattern (24 bp):
TTTTTTATTATTATTTATTTTAAT
Found at i:44929832 original size:10 final size:11
Alignment explanation
Indices: 44929771--44929841 Score: 74
Period size: 12 Copynumber: 6.2 Consensus size: 11
44929761 GTTTTATAAG
44929771 TTATTTTTTATA
1 TTATTTTTT-TA
44929783 TTATTTATTTTA
1 TTATTT-TTTTA
*
44929795 -AATTTTTTTA
1 TTATTTTTTTA
44929805 TTATTATTTATTA
1 TTATT-TTT-TTA
44929818 TTATTTTTTTA
1 TTATTTTTTTA
44929829 -TATTTTGTTTA
1 TTATTTT-TTTA
44929840 TT
1 TT
44929842 TGGAACTTTT
Statistics
Matches: 51, Mismatches: 2, Indels: 12
0.78 0.03 0.18
Matches are distributed among these distances:
10 11 0.22
11 14 0.27
12 15 0.29
13 11 0.22
ACGTcount: A:0.24, C:0.00, G:0.01, T:0.75
Consensus pattern (11 bp):
TTATTTTTTTA
Found at i:44929839 original size:11 final size:10
Alignment explanation
Indices: 44929772--44929840 Score: 57
Period size: 11 Copynumber: 6.1 Consensus size: 10
44929762 TTTTATAAGT
44929772 TATTTTTTATA
1 TATTTTTT-TA
44929783 TTATTTATTTTA
1 -TATTT-TTTTA
*
44929795 AATTTTTTTA
1 TATTTTTTTA
44929805 TTATTATTTATTA
1 -TATT-TTT-TTA
44929818 TTATTTTTTTA
1 -TATTTTTTTA
44929829 TATTTTGTTTA
1 TATTTT-TTTA
44929840 T
1 T
44929841 TTGGAACTTT
Statistics
Matches: 50, Mismatches: 2, Indels: 11
0.79 0.03 0.17
Matches are distributed among these distances:
10 11 0.22
11 15 0.30
12 13 0.26
13 11 0.22
ACGTcount: A:0.25, C:0.00, G:0.01, T:0.74
Consensus pattern (10 bp):
TATTTTTTTA
Found at i:44934467 original size:41 final size:41
Alignment explanation
Indices: 44934409--44934506 Score: 144
Period size: 41 Copynumber: 2.4 Consensus size: 41
44934399 GGATACTTGA
*
44934409 CAGCTTGTGTGAGCAGCATCGTGTAACTACATTACGACCAAT
1 CAGCTTGTGTGAGCAGCACCGTGTAACTACATTACGACC-AT
* * *
44934451 -AGCTTATGTGAGCAGCACCGTGTAACTACATTACTACCGT
1 CAGCTTGTGTGAGCAGCACCGTGTAACTACATTACGACCAT
44934491 CAGCTTGTGTGAGCAG
1 CAGCTTGTGTGAGCAG
44934507 ACCCACTTGT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
40 1 0.02
41 49 0.98
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (41 bp):
CAGCTTGTGTGAGCAGCACCGTGTAACTACATTACGACCAT
Found at i:44936761 original size:11 final size:11
Alignment explanation
Indices: 44936745--44936774 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
44936735 ATTAACCAAA
44936745 TAATTCAAACT
1 TAATTCAAACT
44936756 TAATTCAAACT
1 TAATTCAAACT
*
44936767 TGATTCAA
1 TAATTCAA
44936775 GCCTAACTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.43, C:0.17, G:0.03, T:0.37
Consensus pattern (11 bp):
TAATTCAAACT
Found at i:44937950 original size:51 final size:51
Alignment explanation
Indices: 44937847--44937959 Score: 117
Period size: 51 Copynumber: 2.2 Consensus size: 51
44937837 ATTGATATAA
*
44937847 TAATAAATTTAGCTCATAAAATTTACACATATCATCAATTTACTCTTAATT
1 TAATAAATTTAGCTCATAAAATTTACACATATCATCAATTTACTCATAATT
* * * *
44937898 TAATAAATTTAG-TC-TGAAATATTTACACGT-TCTGTCAATTTAGTCATGATT
1 TAATAAATTTAGCTCAT-AAA-ATTTACACATATC-ATCAATTTACTCATAATT
44937949 T-ATCAAATTTA
1 TAAT-AAATTTA
44937960 ACTTGCAAAA
Statistics
Matches: 53, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
49 1 0.02
50 9 0.17
51 43 0.81
ACGTcount: A:0.38, C:0.13, G:0.06, T:0.42
Consensus pattern (51 bp):
TAATAAATTTAGCTCATAAAATTTACACATATCATCAATTTACTCATAATT
Found at i:44941142 original size:31 final size:33
Alignment explanation
Indices: 44941104--44941164 Score: 92
Period size: 31 Copynumber: 1.9 Consensus size: 33
44941094 TAATCGAAAG
44941104 AATTATAAAT-TTAATT-TAA-AATATTTTAAAA
1 AATTATAAATATT-ATTATAATAATATTTTAAAA
44941135 AATTATAAATATTATTATAATAATATTTTA
1 AATTATAAATATTATTATAATAATATTTTA
44941165 TTTTTTATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
31 13 0.48
32 5 0.19
33 9 0.33
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (33 bp):
AATTATAAATATTATTATAATAATATTTTAAAA
Found at i:44945610 original size:25 final size:25
Alignment explanation
Indices: 44945572--44945638 Score: 75
Period size: 25 Copynumber: 2.7 Consensus size: 25
44945562 GCCATTAGGG
*
44945572 TTACCGAT-TTCAGCTCG-AGAGAGC
1 TTACCGTTATTCAGCTCGCA-AGAGC
*
44945596 TTACCGTTATTCAGCTCGCATGAGC
1 TTACCGTTATTCAGCTCGCAAGAGC
* *
44945621 TTACTGTTACTCAGCTCG
1 TTACCGTTATTCAGCTCG
44945639 TATGATCTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
24 7 0.19
25 29 0.78
26 1 0.03
ACGTcount: A:0.21, C:0.27, G:0.21, T:0.31
Consensus pattern (25 bp):
TTACCGTTATTCAGCTCGCAAGAGC
Found at i:44945643 original size:25 final size:26
Alignment explanation
Indices: 44945592--44945694 Score: 99
Period size: 25 Copynumber: 4.2 Consensus size: 26
44945582 CAGCTCGAGA
* * *
44945592 GAGCTTACCG-TTATTCAGCTCGCAT
1 GAGCTTACTGATTACTCAGCTCGTAT
44945617 GAGCTTACTG-TTACTCAGCTCGTAT
1 GAGCTTACTGATTACTCAGCTCGTAT
* *
44945642 GATCTTACTGATTA--CAGCTCGTAC
1 GAGCTTACTGATTACTCAGCTCGTAT
* * *
44945666 GAGCATACAGATT-CTTAGCTCGTAT
1 GAGCTTACTGATTACTCAGCTCGTAT
44945691 GAGC
1 GAGC
44945695 ATACATGTAC
Statistics
Matches: 65, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
24 19 0.29
25 43 0.66
26 3 0.05
ACGTcount: A:0.23, C:0.24, G:0.20, T:0.32
Consensus pattern (26 bp):
GAGCTTACTGATTACTCAGCTCGTAT
Found at i:44963276 original size:20 final size:20
Alignment explanation
Indices: 44963253--44963325 Score: 65
Period size: 20 Copynumber: 4.1 Consensus size: 20
44963243 TAAAGTGTAT
44963253 ACAAAGGCACCGAAGTGCAA
1 ACAAAGGCACCGAAGTGCAA
44963273 ACAAAGGCA-C----TG---
1 ACAAAGGCACCGAAGTGCAA
44963285 A-AAAGGCACCGAAGTGCAA
1 ACAAAGGCACCGAAGTGCAA
* *
44963304 ACAAAGGCACTGAAGTGAAA
1 ACAAAGGCACCGAAGTGCAA
44963324 AC
1 AC
44963326 CCCGTACAAG
Statistics
Matches: 42, Mismatches: 2, Indels: 18
0.68 0.03 0.29
Matches are distributed among these distances:
11 7 0.17
12 2 0.05
15 2 0.05
16 2 0.05
19 2 0.05
20 27 0.64
ACGTcount: A:0.47, C:0.22, G:0.25, T:0.07
Consensus pattern (20 bp):
ACAAAGGCACCGAAGTGCAA
Found at i:44963293 original size:31 final size:31
Alignment explanation
Indices: 44963255--44963317 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
44963245 AAGTGTATAC
44963255 AAAGGCACCGAAGTGCAAACAAAGGCACTGA
1 AAAGGCACCGAAGTGCAAACAAAGGCACTGA
44963286 AAAGGCACCGAAGTGCAAACAAAGGCACTGA
1 AAAGGCACCGAAGTGCAAACAAAGGCACTGA
44963317 A
1 A
44963318 GTGAAAACCC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.46, C:0.22, G:0.25, T:0.06
Consensus pattern (31 bp):
AAAGGCACCGAAGTGCAAACAAAGGCACTGA
Found at i:44968061 original size:39 final size:39
Alignment explanation
Indices: 44967960--44968963 Score: 1800
Period size: 39 Copynumber: 25.6 Consensus size: 39
44967950 TTGAATGATG
* *
44967960 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-CAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-T-ACTAAT
* * * *
44967999 ATCCGGACTAAGATCCGAAGGCATTTGAGAGAGATACTAAT
1 -TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
44968040 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
44968079 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
44968118 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
44968157 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
44968196 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
44968235 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
44968274 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
44968313 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
44968352 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
44968391 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
44968430 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
44968469 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
44968508 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
44968547 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
44968586 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
44968625 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
44968664 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
44968703 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
44968742 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
44968781 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
44968820 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
* *
44968859 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
* *
44968898 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
* *
44968937 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAG-CCCGAAGGCATTTG
44968964 AACGAGGAGC
Statistics
Matches: 941, Mismatches: 18, Indels: 10
0.97 0.02 0.01
Matches are distributed among these distances:
39 853 0.91
40 78 0.08
41 9 0.01
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (39 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:44972809 original size:12 final size:12
Alignment explanation
Indices: 44972792--44972816 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
44972782 CATTCCGAAG
44972792 TATATATATACA
1 TATATATATACA
44972804 TATATATATACA
1 TATATATATACA
44972816 T
1 T
44972817 TAAGTATGCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (12 bp):
TATATATATACA
Found at i:44973353 original size:27 final size:28
Alignment explanation
Indices: 44973265--44973362 Score: 126
Period size: 27 Copynumber: 3.5 Consensus size: 28
44973255 CATGAGATTG
* * * *
44973265 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
44973294 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
44973322 GCACTAAGTGTGCGAG-TTGGTTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
44973349 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
44973363 GACTTAATAT
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
27 23 0.37
28 22 0.35
29 18 0.29
ACGTcount: A:0.26, C:0.13, G:0.30, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:44973373 original size:27 final size:27
Alignment explanation
Indices: 44973293--44973375 Score: 87
Period size: 27 Copynumber: 3.0 Consensus size: 27
44973283 TAAATTGTAC
* *
44973293 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* **
44973321 AGCACTAAGTGTGCGAGTTGGTTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
44973348 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
44973375 A
1 A
44973376 CTTTTGAATC
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
27 28 0.58
28 20 0.42
ACGTcount: A:0.29, C:0.12, G:0.27, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:44981222 original size:12 final size:12
Alignment explanation
Indices: 44981205--44981231 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
44981195 ATTCCGAAGT
44981205 ATATATATATAC
1 ATATATATATAC
44981217 ATATATATATAC
1 ATATATATATAC
44981229 ATA
1 ATA
44981232 AGTATGCCCA
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:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATATATATAC
Found at i:44981746 original size:28 final size:28
Alignment explanation
Indices: 44981678--44981831 Score: 238
Period size: 28 Copynumber: 5.5 Consensus size: 28
44981668 CATGAGATTG
* * * *
44981678 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
44981707 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
44981735 GCACTAAGTGTGCGAGTTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATATA
44981763 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
44981791 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
44981818 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
44981832 GACTTAATAT
Statistics
Matches: 118, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
27 24 0.20
28 76 0.64
29 18 0.15
ACGTcount: A:0.27, C:0.12, G:0.28, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:44983905 original size:50 final size:50
Alignment explanation
Indices: 44983847--44983952 Score: 149
Period size: 50 Copynumber: 2.1 Consensus size: 50
44983837 TATTGAGGTT
* * * *
44983847 ATGAGAGGTCCCCCGTAAGATCATGTCTAGGACATGGCGTTGGCACCGAG
1 ATGAGAGGTCCCCCGTAAAACCATGTCTAGGACATGGCATGGGCACCGAG
* * *
44983897 ATGAGAGGTCCCCCGTAAAACCATGTTTGGGACATGGCATGGGCACCGAT
1 ATGAGAGGTCCCCCGTAAAACCATGTCTAGGACATGGCATGGGCACCGAG
44983947 ATGAGA
1 ATGAGA
44983953 ATTTCTCATG
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.26, C:0.23, G:0.31, T:0.20
Consensus pattern (50 bp):
ATGAGAGGTCCCCCGTAAAACCATGTCTAGGACATGGCATGGGCACCGAG
Found at i:44984241 original size:20 final size:20
Alignment explanation
Indices: 44984216--44984254 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
44984206 TGAGTTATTT
44984216 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAAG-AGAGTAAGTAAAC
44984236 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAGAGTAAGTAAA
44984255 GAAGAAGTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.56, C:0.05, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAC
Found at i:44986863 original size:130 final size:133
Alignment explanation
Indices: 44986625--44986863 Score: 403
Period size: 130 Copynumber: 1.8 Consensus size: 133
44986615 CCCCCTTATA
44986625 AAACATAAACAATTAAAGTTAACATTAAAAACAGAAATTAAAGTGAAAAATAAAAATTTTAAAAT
1 AAACATAAACAATTAAAGTTAACATTAAAAACAGAAATTAAAGTG-AAAATAAAAA-TTTAAAAT
*
44986690 TAATTAGAAAATTTCTTCTCAAAAGATTACATTAAATTAATGCCCAGGAACGGTTGGAAGGGTCA
64 TAATCAGAAAATTTCTTCTCAAAAGATTACATTAAATTAATGCCCAGGAACGGTTGGAAGGGTCA
44986755 ATATT
129 ATATT
* * *
44986760 AAACATAAACAATTAAAGTTAACATTAAATATAGAAGTTAAAGTG-AAA-AAAAA-TTAAAATTA
1 AAACATAAACAATTAAAGTTAACATTAAAAACAGAAATTAAAGTGAAAATAAAAATTTAAAATTA
44986822 ATCAGAAAATTTCTTCTCAAAAGATTACATTAAATTAATGCC
66 ATCAGAAAATTTCTTCTCAAAAGATTACATTAAATTAATGCC
44986864 TAGAAAAGGT
Statistics
Matches: 100, Mismatches: 4, Indels: 5
0.92 0.04 0.05
Matches are distributed among these distances:
130 50 0.50
132 5 0.05
133 3 0.03
135 42 0.42
ACGTcount: A:0.52, C:0.10, G:0.10, T:0.28
Consensus pattern (133 bp):
AAACATAAACAATTAAAGTTAACATTAAAAACAGAAATTAAAGTGAAAATAAAAATTTAAAATTA
ATCAGAAAATTTCTTCTCAAAAGATTACATTAAATTAATGCCCAGGAACGGTTGGAAGGGTCAAT
ATT
Found at i:44990274 original size:36 final size:36
Alignment explanation
Indices: 44990216--44990285 Score: 104
Period size: 36 Copynumber: 1.9 Consensus size: 36
44990206 ACAATAAAGT
* * *
44990216 CAGCATGAAAAGTAAACTTATCAACTCTTACCAAAA
1 CAGCAGGAAAAATAAACCTATCAACTCTTACCAAAA
*
44990252 CAGCAGGAAAAATAGACCTATCAACTCTTACCAA
1 CAGCAGGAAAAATAAACCTATCAACTCTTACCAA
44990286 GACATCCTCT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.46, C:0.24, G:0.10, T:0.20
Consensus pattern (36 bp):
CAGCAGGAAAAATAAACCTATCAACTCTTACCAAAA
Found at i:44997829 original size:40 final size:40
Alignment explanation
Indices: 44997778--44998054 Score: 446
Period size: 40 Copynumber: 6.9 Consensus size: 40
44997768 ATAACCGCAA
* * * *
44997778 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
44997818 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* * *
44997858 GCATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
44997898 GCACAAATGCCTTCGGGTTTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
44997938 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
44997978 GCACAAATGCCTTCGGGTCTTAGCCTGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
44998018 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAA
44998055 ATGCTCATGC
Statistics
Matches: 221, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 221 1.00
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.27
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:45002138 original size:37 final size:37
Alignment explanation
Indices: 45002097--45002169 Score: 137
Period size: 37 Copynumber: 2.0 Consensus size: 37
45002087 AAAGAGAAAT
45002097 AGATGCTTCAACTTAACAAGTTAGAAGAATTCTAAAC
1 AGATGCTTCAACTTAACAAGTTAGAAGAATTCTAAAC
*
45002134 AGATGCTTCAACTTAACGAGTTAGAAGAATTCTAAA
1 AGATGCTTCAACTTAACAAGTTAGAAGAATTCTAAA
45002170 TGTCTTCATA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.27
Consensus pattern (37 bp):
AGATGCTTCAACTTAACAAGTTAGAAGAATTCTAAAC
Found at i:45002911 original size:22 final size:19
Alignment explanation
Indices: 45002880--45002926 Score: 58
Period size: 22 Copynumber: 2.3 Consensus size: 19
45002870 AAAGATGATA
45002880 ATTATTAATATATAATTATATCT
1 ATTA-TAATATAT-ATTA-AT-T
45002903 ATTATAATATATATTAATT
1 ATTATAATATATATTAATT
45002922 ATTAT
1 ATTAT
45002927 CAATTTTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.25
20 2 0.08
21 4 0.17
22 8 0.33
23 4 0.17
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (19 bp):
ATTATAATATATATTAATT
Found at i:45002922 original size:16 final size:15
Alignment explanation
Indices: 45002882--45002923 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
45002872 AGATGATAAT
45002882 TATTAATATATAATTA
1 TATTAAT-TATAATTA
45002898 TATCT-ATTATAATATA
1 TAT-TAATTATAAT-TA
45002914 TATTAATTAT
1 TATTAATTAT
45002924 TATCAATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
15 7 0.30
16 15 0.65
17 1 0.04
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTAATTATAATTA
Found at i:45003313 original size:67 final size:67
Alignment explanation
Indices: 45003191--45003324 Score: 205
Period size: 67 Copynumber: 2.0 Consensus size: 67
45003181 AAAACCCTTA
* * * *
45003191 AGTGTCGAAACCTCCTAACAATTCCCTAGCCACAACATCGTCTAGCTGATTGGTCAACAGCACCC
1 AGTGTCGAAACCTCCTAACAATTCCCTAGCCACAACATCGCCCAGCTAATCGGTCAACAGCACCC
45003256 CG
66 CG
* * *
45003258 AGTGTCGAAACCTCCTAACAATTTCCTAGCCACAGCATCGCCCAGCTAATCGGTCAGCAGCACCC
1 AGTGTCGAAACCTCCTAACAATTCCCTAGCCACAACATCGCCCAGCTAATCGGTCAACAGCACCC
45003323 CG
66 CG
45003325 CGCCTACCCA
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
67 60 1.00
ACGTcount: A:0.28, C:0.36, G:0.17, T:0.19
Consensus pattern (67 bp):
AGTGTCGAAACCTCCTAACAATTCCCTAGCCACAACATCGCCCAGCTAATCGGTCAACAGCACCC
CG
Found at i:45003611 original size:25 final size:25
Alignment explanation
Indices: 45003558--45003611 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 25
45003548 ATTTTGATTT
* *
45003558 AATTATCTAATTTTTCAATTTATTG
1 AATTATCTAATTTTTCAATTAATTA
45003583 AATTAT-TAATATTTT-ATATTAATTA
1 AATTATCTAAT-TTTTCA-ATTAATTA
45003608 AATT
1 AATT
45003612 TTTTAGAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
24 5 0.20
25 20 0.80
ACGTcount: A:0.39, C:0.04, G:0.02, T:0.56
Consensus pattern (25 bp):
AATTATCTAATTTTTCAATTAATTA
Found at i:45010067 original size:34 final size:33
Alignment explanation
Indices: 45010016--45010092 Score: 120
Period size: 34 Copynumber: 2.3 Consensus size: 33
45010006 AATAATAGTT
*
45010016 CAGT-TCAGTTGGGCCTTAGCCCATTACAGTGA
1 CAGTATCAGTTGAGCCTTAGCCCATTACAGTGA
45010048 CAGTATCAGTGTGAGCCTTAGCCCATTACAGTGA
1 CAGTATCAGT-TGAGCCTTAGCCCATTACAGTGA
*
45010082 CAGTACCAGTT
1 CAGTATCAGTT
45010093 CAGACATGCA
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
32 4 0.10
33 6 0.15
34 31 0.76
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (33 bp):
CAGTATCAGTTGAGCCTTAGCCCATTACAGTGA
Found at i:45010401 original size:27 final size:27
Alignment explanation
Indices: 45010368--45010462 Score: 156
Period size: 27 Copynumber: 3.6 Consensus size: 27
45010358 TTAAACATAC
*
45010368 AGTCATTTTATAACATAGGGGCATAAT
1 AGTCATTTTATAACATAAGGGCATAAT
45010395 AGTCATTTTATAACATAAGGGCATAAT
1 AGTCATTTTATAACATAAGGGCATAAT
*
45010422 AGTCATTTTATAACATAATGGCATAA-
1 AGTCATTTTATAACATAAGGGCATAAT
*
45010448 CGTCATTTTATAACA
1 AGTCATTTTATAACA
45010463 GTTTGAGGGT
Statistics
Matches: 65, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
26 14 0.22
27 51 0.78
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.35
Consensus pattern (27 bp):
AGTCATTTTATAACATAAGGGCATAAT
Found at i:45010579 original size:23 final size:23
Alignment explanation
Indices: 45010550--45010604 Score: 101
Period size: 23 Copynumber: 2.4 Consensus size: 23
45010540 GTTGGGCCCA
*
45010550 AGGCCCATAATGCGGGCCCATGT
1 AGGCCCACAATGCGGGCCCATGT
45010573 AGGCCCACAATGCGGGCCCATGT
1 AGGCCCACAATGCGGGCCCATGT
45010596 AGGCCCACA
1 AGGCCCACA
45010605 CACTCGTGTG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.24, C:0.35, G:0.29, T:0.13
Consensus pattern (23 bp):
AGGCCCACAATGCGGGCCCATGT
Found at i:45017958 original size:27 final size:27
Alignment explanation
Indices: 45017920--45018048 Score: 199
Period size: 27 Copynumber: 4.8 Consensus size: 27
45017910 ATAACATTAA
*
45017920 GCATAA-AGTCATTTTCTAACATAGGG
1 GCATAATAGTCATTTTATAACATAGGG
45017946 GCATAATAGTCATTTTATAACATAGGG
1 GCATAATAGTCATTTTATAACATAGGG
45017973 GCATAATAGTCATTTTATAACATAGGG
1 GCATAATAGTCATTTTATAACATAGGG
* *
45018000 GCATAACAATCATTTTATAACATAGGG
1 GCATAATAGTCATTTTATAACATAGGG
*
45018027 GCATAACCA-TCATTTTATAACA
1 GCATAA-TAGTCATTTTATAACA
45018049 GTTTGGGGGT
Statistics
Matches: 98, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
26 6 0.06
27 90 0.92
28 2 0.02
ACGTcount: A:0.38, C:0.15, G:0.16, T:0.32
Consensus pattern (27 bp):
GCATAATAGTCATTTTATAACATAGGG
Found at i:45018772 original size:30 final size:31
Alignment explanation
Indices: 45018727--45018788 Score: 99
Period size: 30 Copynumber: 2.0 Consensus size: 31
45018717 CTAAAGGCAG
45018727 AAGAAGAAAGAAATATTGATTCGCATAAAGA
1 AAGAAGAAAGAAATATTGATTCGCATAAAGA
* *
45018758 AAGAA-AAATAAATATTGATTCGCTTAAAGA
1 AAGAAGAAAGAAATATTGATTCGCATAAAGA
45018788 A
1 A
45018789 CTTACCGAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 24 0.83
31 5 0.17
ACGTcount: A:0.55, C:0.06, G:0.16, T:0.23
Consensus pattern (31 bp):
AAGAAGAAAGAAATATTGATTCGCATAAAGA
Found at i:45020399 original size:50 final size:50
Alignment explanation
Indices: 45020253--45020486 Score: 319
Period size: 50 Copynumber: 4.7 Consensus size: 50
45020243 CATGCCAAAT
** * * * *
45020253 CCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATATCAATGCCCATG
1 CCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCAGTGCCAACG
** *
45020304 CCATGTCCCAGACATGGTCTTA-GGGGGACCTCTCATCTCGGTGCCAACG
1 CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAGTGCCAACG
* * *
45020353 CCATGTCCGAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAATG
1 CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAGTGCCAACG
45020403 CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAGTGCCAACG
1 CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAGTGCCAACG
* *
45020453 CCATGTCCCAAACATGGTCTTACAT-AGACCTCTC
1 CCATGTCCCAGACATGGTCTTACATGGGACCTCTC
45020487 TACCCAAATG
Statistics
Matches: 164, Mismatches: 18, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
49 43 0.26
50 99 0.60
51 22 0.13
ACGTcount: A:0.22, C:0.32, G:0.21, T:0.26
Consensus pattern (50 bp):
CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAGTGCCAACG
Found at i:45030236 original size:50 final size:50
Alignment explanation
Indices: 45030112--45030355 Score: 301
Period size: 50 Copynumber: 4.9 Consensus size: 50
45030102 GATCATAACA
* * * * ** *
45030112 TGCCAAAGTCATGTTCCTGACATGGTCTTACATGGGATGTTCTCATACT-AG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCAT-CTCGG
* * * **
45030163 TGCCCATGCCATGTTCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * * *
45030213 TGCCAAGGCCATGTCCCAAACATGGTCTTACATGGGACTTCTCATCTGGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
45030263 TGACAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
45030313 TGCCAACGACATGTCCCAGACATGGTCTTACATGGGACCTCTC
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC
45030356 TACCCAAATG
Statistics
Matches: 168, Mismatches: 24, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
49 2 0.01
50 135 0.80
51 31 0.18
ACGTcount: A:0.21, C:0.29, G:0.23, T:0.27
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:45035002 original size:12 final size:13
Alignment explanation
Indices: 45034985--45035013 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
45034975 AGATGAGCAA
45034985 AATTTGGC-TTTT
1 AATTTGGCTTTTT
45034997 AATTTGGCTTTTT
1 AATTTGGCTTTTT
45035010 AATT
1 AATT
45035014 CATTTAATCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.50
13 8 0.50
ACGTcount: A:0.21, C:0.07, G:0.14, T:0.59
Consensus pattern (13 bp):
AATTTGGCTTTTT
Found at i:45036270 original size:17 final size:17
Alignment explanation
Indices: 45036237--45036271 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
45036227 CTACAGGGGT
* *
45036237 CACACAGCCGTGTGACA
1 CACACAGCCGGGAGACA
45036254 CACACAGCCGGGAGACA
1 CACACAGCCGGGAGACA
45036271 C
1 C
45036272 GCCCGTGTCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.31, C:0.37, G:0.26, T:0.06
Consensus pattern (17 bp):
CACACAGCCGGGAGACA
Found at i:45037625 original size:24 final size:25
Alignment explanation
Indices: 45037598--45037651 Score: 65
Period size: 26 Copynumber: 2.2 Consensus size: 25
45037588 GTACATGTAT
45037598 GCTCAT-ACGAGCTGTAAATGGTAA
1 GCTCATCACGAGCTGTAAATGGTAA
* * *
45037622 GCTCTTCCGCGAGCTGTAAATGGTAT
1 GCTCAT-CACGAGCTGTAAATGGTAA
45037648 GCTC
1 GCTC
45037652 TTCCGAGATG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 5 0.20
26 20 0.80
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.28
Consensus pattern (25 bp):
GCTCATCACGAGCTGTAAATGGTAA
Found at i:45037634 original size:26 final size:26
Alignment explanation
Indices: 45037605--45037656 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
45037595 TATGCTCATA
45037605 CGAGCTGTAAATGGTAAGCTCTTCCG
1 CGAGCTGTAAATGGTAAGCTCTTCCG
*
45037631 CGAGCTGTAAATGGTATGCTCTTCCG
1 CGAGCTGTAAATGGTAAGCTCTTCCG
45037657 AGATGAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.21, C:0.23, G:0.27, T:0.29
Consensus pattern (26 bp):
CGAGCTGTAAATGGTAAGCTCTTCCG
Found at i:45037708 original size:25 final size:26
Alignment explanation
Indices: 45037680--45037738 Score: 70
Period size: 25 Copynumber: 2.3 Consensus size: 26
45037670 TAAACTCCTC
45037680 CGAGCTGAA-TAACCG-TAAGCTCATA
1 CGAGCTGAAGT-ACCGATAAGCTCATA
*
45037705 CGAGCT-AAGTATCGATAAGCTCATA
1 CGAGCTGAAGTACCGATAAGCTCATA
*
45037730 TGAGCTGAA
1 CGAGCTGAA
45037739 ATCGATAACA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
24 5 0.17
25 22 0.76
26 2 0.07
ACGTcount: A:0.36, C:0.20, G:0.22, T:0.22
Consensus pattern (26 bp):
CGAGCTGAAGTACCGATAAGCTCATA
Found at i:45039262 original size:45 final size:44
Alignment explanation
Indices: 45039145--45039273 Score: 177
Period size: 44 Copynumber: 2.9 Consensus size: 44
45039135 CGCCTAAATG
* * * *
45039145 AATGAGTAAGACCATAGTTGAAAGACGTTATGGCATCAGGATAA
1 AATGAGTAAGACCATAGCTGAAAGATGCTATGGCATCATGATAA
*
45039189 AATGAGTAAGACCATAACTGAAAGATGCTATGGCATCATGATAGA
1 AATGAGTAAGACCATAGCTGAAAGATGCTATGGCATCATGATA-A
* * *
45039234 AATGAGTAAGACCATGGCTAAAAAATGCTATGGCATCATG
1 AATGAGTAAGACCATAGCTGAAAGATGCTATGGCATCATG
45039274 GTACTTAGGA
Statistics
Matches: 75, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
44 38 0.51
45 37 0.49
ACGTcount: A:0.41, C:0.13, G:0.23, T:0.22
Consensus pattern (44 bp):
AATGAGTAAGACCATAGCTGAAAGATGCTATGGCATCATGATAA
Found at i:45039289 original size:45 final size:45
Alignment explanation
Indices: 45039173--45039290 Score: 112
Period size: 45 Copynumber: 2.6 Consensus size: 45
45039163 TGAAAGACGT
* * * * *
45039173 TATGGCATCAGGATA-AAATGAGTAAGACCATAACTGAAAGATGC
1 TATGGCATCATGATACAAAGGACTAAGACCATAACTAAAAAATGC
* * * **
45039217 TATGGCATCATGATAGAAATGAGTAAGACCATGGCTAAAAAATGC
1 TATGGCATCATGATACAAAGGACTAAGACCATAACTAAAAAATGC
* **
45039262 TATGGCATCATGGTACTTAGGACTAAGAC
1 TATGGCATCATGATACAAAGGACTAAGAC
45039291 TATTGCTGAA
Statistics
Matches: 62, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
44 14 0.23
45 48 0.77
ACGTcount: A:0.40, C:0.14, G:0.23, T:0.23
Consensus pattern (45 bp):
TATGGCATCATGATACAAAGGACTAAGACCATAACTAAAAAATGC
Found at i:45041610 original size:46 final size:46
Alignment explanation
Indices: 45041437--45041611 Score: 172
Period size: 46 Copynumber: 3.8 Consensus size: 46
45041427 AGTTTTGAGT
* * * * * *
45041437 TCCTGCATGTGTTACGGACTCGAGAATACATGAATAGTTTTCGAA-C
1 TCCTGCATATGTTGCAGACTCAAGAATACATGAATA-TGTTCTAAGC
* * * * *
45041483 TCTTGCATATGTTGCAGATTCAAGAATATAGGAATAGGTTCTAAGC
1 TCCTGCATATGTTGCAGACTCAAGAATACATGAATATGTTCTAAGC
* *
45041529 TCTTGCATATATTGCAGACTCAAGAATACATGAATATGTTCTAAGC
1 TCCTGCATATGTTGCAGACTCAAGAATACATGAATATGTTCTAAGC
* * * * *
45041575 CCCTGCATATGTTGCGGACTCGAGAATATAAGAATAT
1 TCCTGCATATGTTGCAGACTCAAGAATACATGAATAT
45041612 TAAGCCCTAG
Statistics
Matches: 105, Mismatches: 23, Indels: 2
0.81 0.18 0.02
Matches are distributed among these distances:
45 5 0.05
46 100 0.95
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.31
Consensus pattern (46 bp):
TCCTGCATATGTTGCAGACTCAAGAATACATGAATATGTTCTAAGC
Found at i:45045170 original size:30 final size:29
Alignment explanation
Indices: 45045136--45045215 Score: 92
Period size: 30 Copynumber: 2.7 Consensus size: 29
45045126 GAGAATGTAA
45045136 TGCTCACACAAGCTGACAGTATTTCAAT-G-T
1 TGCTCACACAAGCTGACA-T-TTT-AATGGAT
*
45045166 TGCTCAGACAAGCTGACATTTTAATGGAAT
1 TGCTCACACAAGCTGACATTTTAATGG-AT
*
45045196 TGCTCACACAAGATGACATT
1 TGCTCACACAAGCTGACATT
45045216 GTATCGAGGT
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
27 3 0.07
28 4 0.09
29 1 0.02
30 36 0.82
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (29 bp):
TGCTCACACAAGCTGACATTTTAATGGAT
Found at i:45048429 original size:40 final size:40
Alignment explanation
Indices: 45048385--45048646 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
45048375 GCTCCTCGTT
* *
45048385 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
45048425 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
45048465 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
45048504 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
45048543 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
45048582 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
45048623 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
45048647 CATCATTCAA
Statistics
Matches: 205, Mismatches: 9, Indels: 17
0.89 0.04 0.07
Matches are distributed among these distances:
38 2 0.01
39 128 0.62
40 64 0.31
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:45058510 original size:21 final size:22
Alignment explanation
Indices: 45058464--45058512 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
45058454 CTATAAACAT
* *
45058464 TAAACCTCAAACCCTAAAATCA
1 TAAACCTCAAACACTAAAATAA
*
45058486 -AAACCTCAAACATTAAAA-AA
1 TAAACCTCAAACACTAAAATAA
45058506 TAAACCT
1 TAAACCT
45058513 ATAACCCTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 22 0.96
ACGTcount: A:0.55, C:0.27, G:0.00, T:0.18
Consensus pattern (22 bp):
TAAACCTCAAACACTAAAATAA
Found at i:45060301 original size:40 final size:40
Alignment explanation
Indices: 45060236--45060346 Score: 111
Period size: 40 Copynumber: 2.8 Consensus size: 40
45060226 TTGCACAATT
**
45060236 GTGCCCCTGTTTGCATTTC-GATGCCCCTGTAT-ACACTTTG
1 GTGCCCCTGTTTGCACGTCAG-TGCCCCTGT-TCACACTTTG
* *
45060276 GTGTCCCTGTTTGCACGTCAGTGCCCCTGTTCGCACTTTG
1 GTGCCCCTGTTTGCACGTCAGTGCCCCTGTTCACACTTTG
* **
45060316 GTGCCCCAGACTGCACGT-ATGTGCCCCTGTT
1 GTGCCCCTGTTTGCACGTCA-GTGCCCCTGTT
45060347 TTGCATCTAC
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
39 2 0.03
40 57 0.95
41 1 0.02
ACGTcount: A:0.11, C:0.32, G:0.23, T:0.33
Consensus pattern (40 bp):
GTGCCCCTGTTTGCACGTCAGTGCCCCTGTTCACACTTTG
Found at i:45060303 original size:20 final size:19
Alignment explanation
Indices: 45060280--45060347 Score: 55
Period size: 20 Copynumber: 3.4 Consensus size: 19
45060270 ACTTTGGTGT
45060280 CCCTGTTTGCACGTCAGTGC
1 CCCTGTTTGCACGT-AGTGC
* * *
45060300 CCCTGTTCGCACTTTGGTGC
1 CCCTGTTTGCAC-GTAGTGC
* **
45060320 CCCAGACTGCACGTATGTGC
1 CCCTGTTTGCACGTA-GTGC
45060340 CCCTGTTT
1 CCCTGTTT
45060348 TGCATCTACG
Statistics
Matches: 34, Mismatches: 12, Indels: 4
0.68 0.24 0.08
Matches are distributed among these distances:
19 1 0.03
20 32 0.94
21 1 0.03
ACGTcount: A:0.10, C:0.35, G:0.24, T:0.31
Consensus pattern (19 bp):
CCCTGTTTGCACGTAGTGC
Found at i:45064284 original size:3 final size:3
Alignment explanation
Indices: 45064278--45064347 Score: 140
Period size: 3 Copynumber: 23.3 Consensus size: 3
45064268 GTGGCTTGTT
45064278 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
45064326 TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA T
45064348 GTTTTGGTTT
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 67 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:45072291 original size:48 final size:47
Alignment explanation
Indices: 45072205--45072311 Score: 126
Period size: 48 Copynumber: 2.2 Consensus size: 47
45072195 TTTGCATGTA
* * * *
45072205 TATATATTCTTTCTTTCTATCTGTTTGTGTATATATATA-TTTTCTTT
1 TATATATTCTTCCTTTCTATCTATATGTGTATACATATACTTTT-TTT
* *
45072252 TCATATATTCTTCCTTTCTATCTATATGTGTGTGCATATACTTTTTTT
1 T-ATATATTCTTCCTTTCTATCTATATGTGTATACATATACTTTTTTT
45072300 TATATAATTCTT
1 TATAT-ATTCTT
45072312 TCTATCTTCC
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
47 5 0.10
48 42 0.82
49 4 0.08
ACGTcount: A:0.21, C:0.13, G:0.07, T:0.60
Consensus pattern (47 bp):
TATATATTCTTCCTTTCTATCTATATGTGTATACATATACTTTTTTT
Found at i:45077602 original size:19 final size:19
Alignment explanation
Indices: 45077578--45077631 Score: 90
Period size: 19 Copynumber: 2.8 Consensus size: 19
45077568 AACCTTCAAG
* *
45077578 GATATGCAATCTTTGATAT
1 GATATGCAATCTTAGATAA
45077597 GATATGCAATCTTAGATAA
1 GATATGCAATCTTAGATAA
45077616 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
45077632 AGATAAGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.37, C:0.11, G:0.17, T:0.35
Consensus pattern (19 bp):
GATATGCAATCTTAGATAA
Found at i:45077657 original size:22 final size:22
Alignment explanation
Indices: 45077592--45077654 Score: 69
Period size: 19 Copynumber: 3.0 Consensus size: 22
45077582 TGCAATCTTT
*
45077592 GATATGATATGCAATCTT---A
1 GATAAGATATGCAATCTTAGAA
45077611 GATAAGATATGCAATCTTAGAA
1 GATAAGATATGCAATCTTAGAA
* *
45077633 GATAAGATTTTGTAATCTTAGA
1 GATAAGA-TATGCAATCTTAGA
45077655 GATTTAATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
19 17 0.46
22 8 0.22
23 12 0.32
ACGTcount: A:0.40, C:0.08, G:0.17, T:0.35
Consensus pattern (22 bp):
GATAAGATATGCAATCTTAGAA
Found at i:45078601 original size:25 final size:24
Alignment explanation
Indices: 45078562--45078612 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 24
45078552 CATCGTAACA
*
45078562 TTATTTTAAATTTATCATGT-ATAT
1 TTATTTTAAACTTATCAT-TAATAT
45078586 TTATTTTAAAACTTATCATTAATAT
1 TTATTTT-AAACTTATCATTAATAT
45078611 TT
1 TT
45078613 TAAATTTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 8 0.33
25 16 0.67
ACGTcount: A:0.35, C:0.06, G:0.02, T:0.57
Consensus pattern (24 bp):
TTATTTTAAACTTATCATTAATAT
Found at i:45082572 original size:48 final size:48
Alignment explanation
Indices: 45082519--45082618 Score: 191
Period size: 48 Copynumber: 2.1 Consensus size: 48
45082509 TTTGATTTCT
45082519 TTTCCAAATGAACACAAAATTCAAGAACCCCACAACGTAACAACACTC
1 TTTCCAAATGAACACAAAATTCAAGAACCCCACAACGTAACAACACTC
*
45082567 TTTCCAAATGAACACAAAATTCAAGAACCCCACAACGTAACAACCCTC
1 TTTCCAAATGAACACAAAATTCAAGAACCCCACAACGTAACAACACTC
45082615 TTTC
1 TTTC
45082619 AATCTTTTTT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 51 1.00
ACGTcount: A:0.43, C:0.32, G:0.06, T:0.19
Consensus pattern (48 bp):
TTTCCAAATGAACACAAAATTCAAGAACCCCACAACGTAACAACACTC
Found at i:45084864 original size:24 final size:24
Alignment explanation
Indices: 45084836--45084887 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
45084826 TTTCAAGAAG
* *
45084836 ATTTAATATTTATGAGTATAATAT
1 ATTTAACATTTATGAGCATAATAT
* *
45084860 ATTTAGCATTTATTAGCATAATAT
1 ATTTAACATTTATGAGCATAATAT
45084884 ATTT
1 ATTT
45084888 GACTTTGATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.04, G:0.08, T:0.50
Consensus pattern (24 bp):
ATTTAACATTTATGAGCATAATAT
Found at i:45088790 original size:19 final size:20
Alignment explanation
Indices: 45088754--45088792 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
45088744 TTATCTTTTC
* *
45088754 TTTTCTTTTTTTAGAATAAA
1 TTTTATTTTTTTACAATAAA
45088774 TTTTATTTTTTT-CAATAAA
1 TTTTATTTTTTTACAATAAA
45088793 GTAGTGTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.62
Consensus pattern (20 bp):
TTTTATTTTTTTACAATAAA
Found at i:45089324 original size:14 final size:15
Alignment explanation
Indices: 45089291--45089332 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 15
45089281 GATCTGGGTT
45089291 CAAATAATTTTTGTAC
1 CAAA-AATTTTTGTAC
45089307 CAAAAATTTTTGTA-
1 CAAAAATTTTTGTAC
45089321 CAAAAAGTTTTT
1 CAAAAA-TTTTT
45089333 TTTGTACCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.24
15 15 0.60
16 4 0.16
ACGTcount: A:0.40, C:0.10, G:0.07, T:0.43
Consensus pattern (15 bp):
CAAAAATTTTTGTAC
Found at i:45090180 original size:25 final size:24
Alignment explanation
Indices: 45090127--45090181 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
45090117 AATCATTTTA
* *
45090127 TTTTTTAAATTTGCTTTATTTCTT
1 TTTTTTAAATTTGCTTTAGTTATT
*
45090151 CTTTTTAGAATTT-CTTTTAGTTATT
1 TTTTTTA-AATTTGC-TTTAGTTATT
45090176 TTTTTT
1 TTTTTT
45090182 CAATAAAAGG
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
24 7 0.28
25 18 0.72
ACGTcount: A:0.16, C:0.07, G:0.05, T:0.71
Consensus pattern (24 bp):
TTTTTTAAATTTGCTTTAGTTATT
Found at i:45104431 original size:16 final size:17
Alignment explanation
Indices: 45104399--45104442 Score: 63
Period size: 16 Copynumber: 2.6 Consensus size: 17
45104389 TTAATCACTT
45104399 TAATATTAAATTTAATC
1 TAATATTAAATTTAATC
*
45104416 TAATATTATA-TTAATC
1 TAATATTAAATTTAATC
*
45104432 TAATATAAAAT
1 TAATATTAAAT
45104443 ATTATATTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 14 0.61
17 9 0.39
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (17 bp):
TAATATTAAATTTAATC
Found at i:45104470 original size:28 final size:23
Alignment explanation
Indices: 45104401--45104498 Score: 92
Period size: 23 Copynumber: 4.1 Consensus size: 23
45104391 AATCACTTTA
*
45104401 ATATTAAATTTAATCT--AATATT
1 ATATT-AATTTAATATAAAATATT
*
45104423 ATATTAATCTAATATAAAATATT
1 ATATTAATTTAATATAAAATATT
45104446 ATATTAATTTAATCACTTGATAAATATT
1 ATATTAATTTAAT-A--T-A-AAATATT
* *
45104474 ATATTAATTTAATATTAAATCTT
1 ATATTAATTTAATATAAAATATT
45104497 AT
1 AT
45104499 TAAAATAATA
Statistics
Matches: 64, Mismatches: 5, Indels: 13
0.78 0.06 0.16
Matches are distributed among these distances:
21 8 0.12
22 5 0.08
23 26 0.41
24 1 0.02
25 1 0.02
26 1 0.02
27 2 0.03
28 20 0.31
ACGTcount: A:0.46, C:0.05, G:0.01, T:0.48
Consensus pattern (23 bp):
ATATTAATTTAATATAAAATATT
Found at i:45110253 original size:26 final size:26
Alignment explanation
Indices: 45110223--45110291 Score: 129
Period size: 26 Copynumber: 2.7 Consensus size: 26
45110213 CTCATTTGTG
*
45110223 AGTCATCTTGAGACAATCTCTCTGAA
1 AGTCATCTTGGGACAATCTCTCTGAA
45110249 AGTCATCTTGGGACAATCTCTCTGAA
1 AGTCATCTTGGGACAATCTCTCTGAA
45110275 AGTCATCTTGGGACAAT
1 AGTCATCTTGGGACAAT
45110292 GCATGATTAG
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 42 1.00
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (26 bp):
AGTCATCTTGGGACAATCTCTCTGAA
Found at i:45112483 original size:39 final size:40
Alignment explanation
Indices: 45112380--45112564 Score: 189
Period size: 40 Copynumber: 4.7 Consensus size: 40
45112370 TTGAATGATG
* * * * *
45112380 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCACGAAGGCATTTGTGC-GAGTTACTAAA
* * *
45112420 TCCGGACTAAGATC-CGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCACGAAGGCATTTGTGCGAGTTACTAAA
*
45112460 TCCGGGCTAAG-CATGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCACGAAGGCATTTGTGCGAGTTACTAAA
* * *
45112499 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCACGAAGGCATTTGTGCGAGTTACTA-AA
* *
45112540 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCACGAAGGCATTTG
45112565 AATGAGTAGC
Statistics
Matches: 122, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
38 1 0.01
39 33 0.27
40 77 0.63
41 11 0.09
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCACGAAGGCATTTGTGCGAGTTACTAAA
Found at i:45112586 original size:79 final size:79
Alignment explanation
Indices: 45112433--45112597 Score: 174
Period size: 79 Copynumber: 2.1 Consensus size: 79
45112423 GGACTAAGAT
* * * **
45112433 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCATGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCACGAAGGCATTTGAACGAGTTACTAA
*
45112498 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * * *
45112512 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAATGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CACGAAGGCATTTGAACGAGTTA-C
* *
45112575 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
45112591 CCGAAGG
1 CCGAAGG
45112598 TACGTGATTT
Statistics
Matches: 71, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.66
80 22 0.31
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCACGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:45115047 original size:20 final size:20
Alignment explanation
Indices: 45115024--45115063 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
45115014 TAATTACTTT
*
45115024 AATATTAAATTAATATAATA
1 AATACTAAATTAATATAATA
* *
45115044 AATACTATATTAATTTAATA
1 AATACTAAATTAATATAATA
45115064 TTAAATCTTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (20 bp):
AATACTAAATTAATATAATA
Found at i:45121390 original size:148 final size:148
Alignment explanation
Indices: 45121117--45121417 Score: 503
Period size: 148 Copynumber: 2.0 Consensus size: 148
45121107 TCCAGTGTGA
* * *
45121117 GTATCGATACTTTTACCTAGAATGCTAAAATTTCACAAGTTAAAACTTTTTTCATGCTCAAAACA
1 GTATTGATACTTTTACCCAGAATGCTAAAATTTCACAAGTTAAAACATTTTTCATGCTCAAAACA
* * * *
45121182 TATTCCTACTCAACATACAAATAATATCTATTTTAACCAAGCATACTATCATCTTTTAACCATGC
66 TATTCCTACTCAACATACAAATAATACCAAATTAAACCAAGCATACTATCATCTTTTAACCATGC
45121247 TACATGCCATATTAACAC
131 TACATGCCATATTAACAC
45121265 GTATTGATACTTTTACCCAGAATGCTAAAATTTCACAAGTTAAAACATTTTTCATGCTCAAAACA
1 GTATTGATACTTTTACCCAGAATGCTAAAATTTCACAAGTTAAAACATTTTTCATGCTCAAAACA
* * *
45121330 TATTCCTACTCAACATACAAATAATGCCAAATTAAACCAAGCATGCTATCATCTTTTAACCATTC
66 TATTCCTACTCAACATACAAATAATACCAAATTAAACCAAGCATACTATCATCTTTTAACCATGC
45121395 TACATGCCATATTAACAC
131 TACATGCCATATTAACAC
*
45121413 ATATT
1 GTATT
45121418 TGTTAAGCAA
Statistics
Matches: 142, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
148 142 1.00
ACGTcount: A:0.38, C:0.22, G:0.06, T:0.34
Consensus pattern (148 bp):
GTATTGATACTTTTACCCAGAATGCTAAAATTTCACAAGTTAAAACATTTTTCATGCTCAAAACA
TATTCCTACTCAACATACAAATAATACCAAATTAAACCAAGCATACTATCATCTTTTAACCATGC
TACATGCCATATTAACAC
Found at i:45123290 original size:65 final size:65
Alignment explanation
Indices: 45123186--45123580 Score: 790
Period size: 65 Copynumber: 6.1 Consensus size: 65
45123176 AATTGAATTA
45123186 ACAACACTCTTTGTTTAACCCTAAAAAGTAAGAATATTACCTTAATTTGATGAAAACGAAGATCT
1 ACAACACTCTTTGTTTAACCCTAAAAAGTAAGAATATTACCTTAATTTGATGAAAACGAAGATCT
45123251 ACAACACTCTTTGTTTAACCCTAAAAAGTAAGAATATTACCTTAATTTGATGAAAACGAAGATCT
1 ACAACACTCTTTGTTTAACCCTAAAAAGTAAGAATATTACCTTAATTTGATGAAAACGAAGATCT
45123316 ACAACACTCTTTGTTTAACCCTAAAAAGTAAGAATATTACCTTAATTTGATGAAAACGAAGATCT
1 ACAACACTCTTTGTTTAACCCTAAAAAGTAAGAATATTACCTTAATTTGATGAAAACGAAGATCT
45123381 ACAACACTCTTTGTTTAACCCTAAAAAGTAAGAATATTACCTTAATTTGATGAAAACGAAGATCT
1 ACAACACTCTTTGTTTAACCCTAAAAAGTAAGAATATTACCTTAATTTGATGAAAACGAAGATCT
45123446 ACAACACTCTTTGTTTAACCCTAAAAAGTAAGAATATTACCTTAATTTGATGAAAACGAAGATCT
1 ACAACACTCTTTGTTTAACCCTAAAAAGTAAGAATATTACCTTAATTTGATGAAAACGAAGATCT
45123511 ACAACACTCTTTGTTTAACCCTAAAAAGTAAGAATATTACCTTAATTTGATGAAAACGAAGATCT
1 ACAACACTCTTTGTTTAACCCTAAAAAGTAAGAATATTACCTTAATTTGATGAAAACGAAGATCT
45123576 ACAAC
1 ACAAC
45123581 TCTAATTCGG
Statistics
Matches: 330, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 330 1.00
ACGTcount: A:0.42, C:0.17, G:0.11, T:0.30
Consensus pattern (65 bp):
ACAACACTCTTTGTTTAACCCTAAAAAGTAAGAATATTACCTTAATTTGATGAAAACGAAGATCT
Found at i:45137866 original size:20 final size:20
Alignment explanation
Indices: 45137824--45137880 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 20
45137814 ATTCATATAT
* **
45137824 ATTTA-TTTTTATTTGCTTT
1 ATTTATTTTTTATTTTCTGG
45137843 ATTTATTTTTTATTTTCTGG
1 ATTTATTTTTTATTTTCTGG
45137863 ATTTATATCTTTTATTTT
1 ATTTAT-T-TTTTATTTT
45137881 ATTTTATTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.16
20 17 0.53
21 1 0.03
22 9 0.28
ACGTcount: A:0.18, C:0.05, G:0.05, T:0.72
Consensus pattern (20 bp):
ATTTATTTTTTATTTTCTGG
Found at i:45137899 original size:47 final size:48
Alignment explanation
Indices: 45137800--45137900 Score: 109
Period size: 49 Copynumber: 2.1 Consensus size: 48
45137790 TTATTTTTTA
* * *
45137800 TTTTTATTTTTTGTATTCATATATATTTATTTTTATTTGCTTTATTTAT
1 TTTTTATTTTCTGGATTCATATATATTTATTTTTATTT-CTTTATGTAT
* *
45137849 TTTTTATTTTCTGGATTTATATCT-TTTA-TTTTATTT-TATTATGTACT
1 TTTTTATTTTCTGGATTCATATATATTTATTTTTATTTCT-TTATGTA-T
45137896 TTTTT
1 TTTTT
45137901 GTTATGTTTT
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
45 1 0.02
46 6 0.13
47 14 0.31
48 4 0.09
49 20 0.44
ACGTcount: A:0.19, C:0.05, G:0.05, T:0.71
Consensus pattern (48 bp):
TTTTTATTTTCTGGATTCATATATATTTATTTTTATTTCTTTATGTAT
Found at i:45147701 original size:22 final size:23
Alignment explanation
Indices: 45147673--45147715 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
45147663 GCAATCTTAG
45147673 ATATGA-TATGTAATATTAGAAT
1 ATATGATTATGTAATATTAGAAT
* *
45147695 ATATGATTTTGTAATCTTAGA
1 ATATGATTATGTAATATTAGA
45147716 GATTTAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.40, C:0.02, G:0.14, T:0.44
Consensus pattern (23 bp):
ATATGATTATGTAATATTAGAAT
Found at i:45149758 original size:3 final size:3
Alignment explanation
Indices: 45149713--45149738 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
45149703 ATAATAATAA
45149713 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
45149739 CTACTACTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:45155149 original size:28 final size:28
Alignment explanation
Indices: 45155086--45155208 Score: 167
Period size: 28 Copynumber: 4.4 Consensus size: 28
45155076 ATATTAAGTC
*
45155086 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
45155113 TGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
45155141 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
45155169 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
45155198 CGCACACTTAG
1 CGCACACTTAG
45155209 CGCCAATCTC
Statistics
Matches: 85, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
27 21 0.25
28 48 0.56
29 16 0.19
ACGTcount: A:0.33, C:0.28, G:0.12, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:45160118 original size:25 final size:25
Alignment explanation
Indices: 45160078--45160291 Score: 107
Period size: 25 Copynumber: 8.5 Consensus size: 25
45160068 AATAAACACG
* *
45160078 AATT-TCTGAAAAGCCTTTGTGACA
1 AATTCTCTAAAAAGCCTTTGTGGCA
45160102 AATTCTCTAAAAAGCCTTTCG-GGCA
1 AATTCTCTAAAAAGCCTTT-GTGGCA
* * *
45160127 AATTCTTTAGAAAA--CTTTTTGTCAA
1 AATTCTCTA-AAAAGCCTTTGTGGC-A
* * * *
45160152 TAATTCTCTAAAAGGCTTTTATGGCG
1 -AATTCTCTAAAAAGCCTTTGTGGCA
** * * *
45160178 AATTCTCTGGAAAGCTTTTTTGGAA
1 AATTCTCTAAAAAGCCTTTGTGGCA
*
45160203 AATTCTTTAGAAAAGCCTTTGTGGCA
1 AATTCTCTA-AAAAGCCTTTGTGGCA
* ** * **
45160229 AATT-TTTGGAAAGCCTTTGCGGTG
1 AATTCTCTAAAAAGCCTTTGTGGCA
* * *
45160253 AA-TCTTCTAGAAAGCCTTTGTAGCG
1 AATTC-TCTAAAAAGCCTTTGTGGCA
45160278 AATTCTCTAGAAAA
1 AATTCTCTA-AAAA
45160292 TTCGTAGTGT
Statistics
Matches: 143, Mismatches: 34, Indels: 24
0.71 0.17 0.12
Matches are distributed among these distances:
23 1 0.01
24 24 0.17
25 78 0.55
26 34 0.24
27 6 0.04
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.36
Consensus pattern (25 bp):
AATTCTCTAAAAAGCCTTTGTGGCA
Found at i:45168182 original size:90 final size:90
Alignment explanation
Indices: 45168026--45168311 Score: 281
Period size: 90 Copynumber: 3.2 Consensus size: 90
45168016 AAGTTACAGT
* * * * * **
45168026 TTAATACGTTGCCAAATGGTTGT-GAGTGCACAACATAATTGTAGATGAGAGCTGTCAGAATGTG
1 TTAATATGTTGCCAGATGGTTGTGGA-TGCACAACAAAATTGCAGATAAGAGCTGTCAGAAAATG
45168090 GGTGGATGAACCACCAATGTTGCAGG
65 GGTGGATGAACCACCAATGTTGCAGG
* * *
45168116 TTAATATGTTGCCAGATGGTTGTGGATACACAACAAAATTGCATATAAGAGTTGTCAGAAAATGG
1 TTAATATGTTGCCAGATGGTTGTGGATGCACAACAAAATTGCAGATAAGAGCTGTCAGAAAATGG
* *
45168181 GTGGATGAACCACCAGTGTTGTAGG
66 GTGGATGAACCACCAATGTTGCAGG
* * * * * * * * * * **
45168206 TTAATATGCTGCTAGATGGTTGTGAATGCACAACATATTTGTAGATAAAAACTGCCAGATAATCT
1 TTAATATGTTGCCAGATGGTTGTGGATGCACAACAAAATTGCAGATAAGAGCTGTCAGAAAATGG
* *
45168271 ATGGATGAACCACCAGA-GTTGCAGA
66 GTGGATGAACCACCA-ATGTTGCAGG
*
45168296 TTATTAAT-TTGCCAGA
1 TTAAT-ATGTTGCCAGA
45168312 ACTTCCTGTT
Statistics
Matches: 159, Mismatches: 34, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
90 155 0.97
91 4 0.03
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (90 bp):
TTAATATGTTGCCAGATGGTTGTGGATGCACAACAAAATTGCAGATAAGAGCTGTCAGAAAATGG
GTGGATGAACCACCAATGTTGCAGG
Found at i:45168823 original size:13 final size:13
Alignment explanation
Indices: 45168805--45168839 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
45168795 AAGGGGGCGT
45168805 GTGGTCCACCCGC
1 GTGGTCCACCCGC
*
45168818 GTGGTCCACCCGT
1 GTGGTCCACCCGC
45168831 GTGGTCCAC
1 GTGGTCCAC
45168840 ATGCTCATGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.09, C:0.40, G:0.31, T:0.20
Consensus pattern (13 bp):
GTGGTCCACCCGC
Found at i:45170111 original size:13 final size:13
Alignment explanation
Indices: 45170095--45170123 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
45170085 GTACATCTCG
45170095 ATGACAAGAAGTT
1 ATGACAAGAAGTT
45170108 ATGACAAGAAGTT
1 ATGACAAGAAGTT
45170121 ATG
1 ATG
45170124 TCACTCTCTT
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:0.45, C:0.07, G:0.24, T:0.24
Consensus pattern (13 bp):
ATGACAAGAAGTT
Found at i:45175682 original size:16 final size:17
Alignment explanation
Indices: 45175655--45175686 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
45175645 AATAAATTTT
45175655 TTATATAAATTTAACAA
1 TTATATAAATTTAACAA
45175672 TTATA-AAATTTAACA
1 TTATATAAATTTAACA
45175687 GCAAAAATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (17 bp):
TTATATAAATTTAACAA
Found at i:45176070 original size:26 final size:26
Alignment explanation
Indices: 45176041--45176091 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
45176031 AATATGAATT
* * *
45176041 TAATTTCTAATTTTAGTTTTTTAAGG
1 TAATCTCTAATTTTAATTTTGTAAGG
*
45176067 TAATCTCTAGTTTTAATTTTGTAAG
1 TAATCTCTAATTTTAATTTTGTAAG
45176092 AATTTAAACC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.27, C:0.06, G:0.12, T:0.55
Consensus pattern (26 bp):
TAATCTCTAATTTTAATTTTGTAAGG
Found at i:45179018 original size:21 final size:21
Alignment explanation
Indices: 45178992--45179033 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
45178982 GAAAAAAAAA
45178992 AGGCTTCATCCTCTTTGTTTT
1 AGGCTTCATCCTCTTTGTTTT
45179013 AGGCTTCATCCTCTTTGTTTT
1 AGGCTTCATCCTCTTTGTTTT
45179034 TCTTGACCGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.10, C:0.24, G:0.14, T:0.52
Consensus pattern (21 bp):
AGGCTTCATCCTCTTTGTTTT
Found at i:45181165 original size:141 final size:141
Alignment explanation
Indices: 45180890--45181201 Score: 516
Period size: 141 Copynumber: 2.2 Consensus size: 141
45180880 AATAGCCGAT
45180890 ATAAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATAAATGTGAAAGTGTAT
1 ATAAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATAAATGTGAAAGTGTAT
* *
45180955 ATATGTGATAAGGCCTAATGGCCGATGTGATAAATGTGAAAGTGTATATATGTGATAAGGCCTAA
66 ATATGTGATAAGGCCTAATGGCCGATGTGATAAATGTGAAAGTGTATATATGTGACAAGGCCGAA
* * *
45181020 TGGCCGATGTG
131 TGGCCAACGTA
45181031 ATAAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATAAATGTGAAAGTGTAT
1 ATAAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATAAATGTGAAAGTGTAT
* *
45181096 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAG
66 ATATGTGATAAGGCCTAATGGCCGATGTGATAAATGTGAAAGTGTATATATGTGACAAGGCCGAA
45181161 TGGCCAACGTA
131 TGGCCAACGTA
** * * *
45181172 ATGGATGTGGAAGTGCATAAATGTGATAAG
1 ATAAATGTGAAAGTGTATATATGTGATAAG
45181202 TCCCGAAAGG
Statistics
Matches: 159, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
141 159 1.00
ACGTcount: A:0.34, C:0.09, G:0.29, T:0.29
Consensus pattern (141 bp):
ATAAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATAAATGTGAAAGTGTAT
ATATGTGATAAGGCCTAATGGCCGATGTGATAAATGTGAAAGTGTATATATGTGACAAGGCCGAA
TGGCCAACGTA
Found at i:45181186 original size:47 final size:47
Alignment explanation
Indices: 45180875--45181157 Score: 518
Period size: 47 Copynumber: 6.1 Consensus size: 47
45180865 ATAGTAAGGG
*
45180875 GGCCTAATAGCCGA--T-ATAAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATAAATGTGAAAGTGTATATATGTGATAA
45180919 GGCCTAATGGCCGATGTGATAAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATAAATGTGAAAGTGTATATATGTGATAA
45180966 GGCCTAATGGCCGATGTGATAAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATAAATGTGAAAGTGTATATATGTGATAA
45181013 GGCCTAATGGCCGATGTGATAAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATAAATGTGAAAGTGTATATATGTGATAA
45181060 GGCCTAATGGCCGATGTGATAAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATAAATGTGAAAGTGTATATATGTGATAA
* *
45181107 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAA
1 GGCCTAATGGCCGATGTGATAAATGTGAAAGTGTATATATGTGATAA
45181154 GGCC
1 GGCC
45181158 GAGTGGCCAA
Statistics
Matches: 233, Mismatches: 3, Indels: 3
0.97 0.01 0.01
Matches are distributed among these distances:
44 13 0.06
46 1 0.00
47 219 0.94
ACGTcount: A:0.34, C:0.10, G:0.28, T:0.29
Consensus pattern (47 bp):
GGCCTAATGGCCGATGTGATAAATGTGAAAGTGTATATATGTGATAA
Found at i:45181196 original size:47 final size:47
Alignment explanation
Indices: 45180893--45181197 Score: 304
Period size: 47 Copynumber: 6.5 Consensus size: 47
45180883 AGCCGATATA
* * * * * *
45180893 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATA
1 AATGTGAAAGTGTATATATGTGACAAGGCCGAATGGCCAACGTAATG
* * * * * *
45180940 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATA
1 AATGTGAAAGTGTATATATGTGACAAGGCCGAATGGCCAACGTAATG
* * * * * *
45180987 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATA
1 AATGTGAAAGTGTATATATGTGACAAGGCCGAATGGCCAACGTAATG
* * * * * *
45181034 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATA
1 AATGTGAAAGTGTATATATGTGACAAGGCCGAATGGCCAACGTAATG
* * * * *
45181081 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGACAAGGCCGAATGGCCAACGTAATG
*
45181128 AATGTGAAAGTGTATATATGTGACAAGGCCGAGTGGCCAACGTAATG
1 AATGTGAAAGTGTATATATGTGACAAGGCCGAATGGCCAACGTAATG
* * * *
45181175 GATGTGGAAGTGCATAAATGTGA
1 AATGTGAAAGTGTATATATGTGA
45181198 TAAGTCCCGA
Statistics
Matches: 247, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 247 1.00
ACGTcount: A:0.34, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGACAAGGCCGAATGGCCAACGTAATG
Found at i:45181376 original size:37 final size:37
Alignment explanation
Indices: 45181320--45181398 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
45181310 CCGAGCTCTA
* * *
45181320 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
45181357 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
45181394 AAGAC
1 AAGAC
45181399 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:45185435 original size:26 final size:26
Alignment explanation
Indices: 45185387--45185461 Score: 89
Period size: 26 Copynumber: 2.9 Consensus size: 26
45185377 TCTCATCCCT
*
45185387 ATTTTACCCC-AGCAAAATTTTGACA
1 ATTTTACCCCTAGTAAAATTTTGACA
* * * *
45185412 ATTTTACCCTTGGTTAAATTTTGACG
1 ATTTTACCCCTAGTAAAATTTTGACA
*
45185438 ATTTTGCCCCTAGTAAAATTTTGA
1 ATTTTACCCCTAGTAAAATTTTGA
45185462 GAAAATATGT
Statistics
Matches: 40, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
25 9 0.22
26 31 0.77
ACGTcount: A:0.29, C:0.19, G:0.12, T:0.40
Consensus pattern (26 bp):
ATTTTACCCCTAGTAAAATTTTGACA
Found at i:45192014 original size:55 final size:51
Alignment explanation
Indices: 45191935--45192163 Score: 203
Period size: 50 Copynumber: 4.5 Consensus size: 51
45191925 GGGAATGAGA
* **
45191935 TCCCATGTAAGACCATGTCGGGGACCATTGGCATAATTATTGAGATTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACCA-TGGCATAAGCATTGAG---ATGAGAGG
* **
45191990 TCCCATGTAAGACCATGTCTGGGA-CATGGCGTTGGCATTGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACCATGGCATAAGCATTGAGATGAGAGG
* * ** **
45192040 TCTCATGTAAGACCATGTCTGGGA-CATGGCGTTGGCAGCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACCATGGCATAAGCATTGAGATGAGAGG
* ** ** * * **
45192090 TCCCCTGTAAGACCATGTCTGGGA-CATGGCATGGGCACCGATATTAGAAC
1 TCCCATGTAAGACCATGTCTGGGACCATGGCATAAGCATTGAGATGAGAGG
*
45192140 TCCCATGTAAGACCATATCTGGGA
1 TCCCATGTAAGACCATGTCTGGGA
45192164 TATGGTATTG
Statistics
Matches: 154, Mismatches: 20, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
50 118 0.77
53 11 0.07
54 2 0.01
55 23 0.15
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (51 bp):
TCCCATGTAAGACCATGTCTGGGACCATGGCATAAGCATTGAGATGAGAGG
Found at i:45192056 original size:50 final size:50
Alignment explanation
Indices: 45191982--45192177 Score: 257
Period size: 50 Copynumber: 3.9 Consensus size: 50
45191972 TATTGAGATT
**
45191982 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCATTGAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCAGCGAG
*
45192032 ATGAGAGGTCTCATGTAAGACCATGTCTGGGACATGGCGTTGGCAGCGAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCAGCGAG
* * * * *
45192082 ATGAGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAT
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCAGCGAG
* ** * * **
45192132 ATTAGAACTCCCATGTAAGACCATATCTGGGATATGGTATTGGCAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCAG
45192178 TACAGAAAAC
Statistics
Matches: 128, Mismatches: 18, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 128 1.00
ACGTcount: A:0.26, C:0.19, G:0.32, T:0.23
Consensus pattern (50 bp):
ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCAGCGAG
Found at i:45201029 original size:42 final size:38
Alignment explanation
Indices: 45200953--45201033 Score: 101
Period size: 42 Copynumber: 2.0 Consensus size: 38
45200943 TTTTTTCCTA
*
45200953 GAAAAAAGAATTTAAAAAGAAGAAAATCTTGGGTTGTT
1 GAAAAAAGAATTTAAAAAGAAGAAAATATTGGGTTGTT
45200991 GAAAAAAGAATTTTAAAAAGGAGAAGATAAA-ATTGGGTTGTT
1 GAAAAAAGAA-TTT-AAAA--AGAAGA-AAATATTGGGTTGTT
45201033 G
1 G
45201034 GATTTACCCT
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
38 10 0.27
39 3 0.08
40 4 0.11
42 17 0.46
43 3 0.08
ACGTcount: A:0.49, C:0.01, G:0.23, T:0.26
Consensus pattern (38 bp):
GAAAAAAGAATTTAAAAAGAAGAAAATATTGGGTTGTT
Found at i:45204573 original size:102 final size:101
Alignment explanation
Indices: 45204439--45204666 Score: 314
Period size: 102 Copynumber: 2.2 Consensus size: 101
45204429 ATTTAATATA
*
45204439 AAAGGGGTTGCTAAGTGCTGATTCCTCCAAGGGGTTGCTAAATGCTGATTCCCCGAATCATTGGT
1 AAAGGGGTTGCTAAGTGCTGATT-CTCCAAGGGGTTGCTAAATGCTCATTCCCCGAATCATTGGT
* * * **
45204504 GGTTACTAAGTGTTGATTCCC-TCGTATTTTAAATGTG
65 GGTTACTAAGTGCTGA-TCCCACCGTATCTTAAATGAC
* * * *
45204541 AAGGGGGTTGCTAAGTGCGGATTCTCCTAAGGGGTTGCTAAGTGCTCATTCCCCGACTCATTGGT
1 AAAGGGGTTGCTAAGTGCTGATTCTCC-AAGGGGTTGCTAAATGCTCATTCCCCGAATCATTGGT
* *
45204606 GGTTGCTAAGTGCTGATCCCACCGTATCTTAATTGAC
65 GGTTACTAAGTGCTGATCCCACCGTATCTTAAATGAC
45204643 AAAGGGGTTGCTAAGTGCTGATTC
1 AAAGGGGTTGCTAAGTGCTGATTC
45204667 CCTGAATCAC
Statistics
Matches: 110, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
101 8 0.07
102 102 0.93
ACGTcount: A:0.21, C:0.19, G:0.27, T:0.32
Consensus pattern (101 bp):
AAAGGGGTTGCTAAGTGCTGATTCTCCAAGGGGTTGCTAAATGCTCATTCCCCGAATCATTGGTG
GTTACTAAGTGCTGATCCCACCGTATCTTAAATGAC
Found at i:45212107 original size:102 final size:102
Alignment explanation
Indices: 45211927--45212255 Score: 473
Period size: 102 Copynumber: 3.2 Consensus size: 102
45211917 AATATAAAGG
* * * * *
45211927 GGGTTGCTAAGTGCTGATTCCCCCAAGGGATTGCTAAGTGCTGATTCCCTGAATCATTGGCGGTT
1 GGGTTGCTAAGTGTTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTT
*
45211992 GCTAAGTGTTGATTCCCCCGTATTTTAAATGTGAAGA
66 GCTAAGTGCTGATTCCCCCGTATTTTAAATGTGAAGA
* *
45212029 GGGTTGCTAAGTGTTGATTCTCCTAAGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTT
1 GGGTTGCTAAGTGTTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTT
* * * *
45212094 GCTAGGTGCTGATTCCACCGTATTTTAAATGTGAGGT
66 GCTAAGTGCTGATTCCCCCGTATTTTAAATGTGAAGA
* * **
45212131 GGGTTGCTAGGTGTTGATTCCCCCAAGGGGTTGCTAAGTACTGATTTTCCGACTCATTGGTGGTT
1 GGGTTGCTAAGTGTTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTT
*
45212196 GCTAAGTGCTGA-TCCCACCGTATCTTAAATGTGAA-A
66 GCTAAGTGCTGATTCCC-CCGTATTTTAAATGTGAAGA
45212232 GGGGTTGCTAAGTGTTGATTCCCC
1 -GGGTTGCTAAGTGTTGATTCCCC
45212256 GAATCACTGG
Statistics
Matches: 201, Mismatches: 24, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
101 3 0.01
102 198 0.99
ACGTcount: A:0.19, C:0.19, G:0.28, T:0.33
Consensus pattern (102 bp):
GGGTTGCTAAGTGTTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTT
GCTAAGTGCTGATTCCCCCGTATTTTAAATGTGAAGA
Found at i:45213639 original size:36 final size:36
Alignment explanation
Indices: 45213577--45213667 Score: 96
Period size: 36 Copynumber: 2.4 Consensus size: 36
45213567 GTTTCAAAAA
*
45213577 TAATATTATTTTAATAGTTTGATATTAAATTAA-AT
1 TAATATTATCTTAATAGTTTGATATTAAATTAATAT
* *
45213612 TAATACTTATCTTAATAGTGTT-TTATTAATTTAATAT
1 TAATA-TTATCTTAATAGT-TTGATATTAAATTAATAT
45213649 TAAGATGATTATCTTAATA
1 T-A-AT-ATTATCTTAATA
45213668 TTAAATTCAA
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
35 5 0.11
36 22 0.47
37 5 0.11
38 1 0.02
39 13 0.28
40 1 0.02
ACGTcount: A:0.40, C:0.03, G:0.07, T:0.51
Consensus pattern (36 bp):
TAATATTATCTTAATAGTTTGATATTAAATTAATAT
Found at i:45213747 original size:12 final size:12
Alignment explanation
Indices: 45213726--45213758 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
45213716 AATAAGATTA
45213726 AATATTAAATTT
1 AATATTAAATTT
*
45213738 AATCTTAAATTT
1 AATATTAAATTT
45213750 AATATTAAA
1 AATATTAAA
45213759 GTGATTAAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (12 bp):
AATATTAAATTT
Found at i:45217179 original size:35 final size:35
Alignment explanation
Indices: 45217103--45217219 Score: 135
Period size: 35 Copynumber: 3.3 Consensus size: 35
45217093 TATATCGATC
* * * *
45217103 ATCCAACCAAAACACACCAGATACTCATAAGAGATA
1 ATCCATCCGAAACACACCA-ATGCTCATAAGAGCTA
*
45217139 ATCCATTCGAAACACACCAATGCTCATAAGAGCTA
1 ATCCATCCGAAACACACCAATGCTCATAAGAGCTA
* ** *
45217174 GTCCATCCGCGACACACCAATGCTCATAAGAGCAA
1 ATCCATCCGAAACACACCAATGCTCATAAGAGCTA
*
45217209 ATCCAACCGAA
1 ATCCATCCGAA
45217220 TCATACAAAA
Statistics
Matches: 67, Mismatches: 14, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
35 51 0.76
36 16 0.24
ACGTcount: A:0.42, C:0.31, G:0.12, T:0.15
Consensus pattern (35 bp):
ATCCATCCGAAACACACCAATGCTCATAAGAGCTA
Found at i:45231251 original size:21 final size:22
Alignment explanation
Indices: 45231211--45231253 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
45231201 CCCTCTTTAC
*
45231211 CCTATTTTTAAACATCAAAACA
1 CCTATTTTTAAACATAAAAACA
*
45231233 CCTATTTTT-AACCTAAAAACA
1 CCTATTTTTAAACATAAAAACA
45231254 TATTAGTTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.44, C:0.23, G:0.00, T:0.33
Consensus pattern (22 bp):
CCTATTTTTAAACATAAAAACA
Found at i:45239016 original size:8 final size:8
Alignment explanation
Indices: 45239005--45239046 Score: 84
Period size: 8 Copynumber: 5.2 Consensus size: 8
45238995 ATCCCAACTC
45239005 CCCACTAA
1 CCCACTAA
45239013 CCCACTAA
1 CCCACTAA
45239021 CCCACTAA
1 CCCACTAA
45239029 CCCACTAA
1 CCCACTAA
45239037 CCCACTAA
1 CCCACTAA
45239045 CC
1 CC
45239047 ACATATTTCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 34 1.00
ACGTcount: A:0.36, C:0.52, G:0.00, T:0.12
Consensus pattern (8 bp):
CCCACTAA
Found at i:45246017 original size:23 final size:23
Alignment explanation
Indices: 45245991--45246042 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
45245981 CATGGGGGTT
45245991 CAAACACGAGACCTCAAGGCAAG
1 CAAACACGAGACCTCAAGGCAAG
*
45246014 CAAACACGAGACCTCAAGGTAAG
1 CAAACACGAGACCTCAAGGCAAG
*
45246037 CTAACA
1 CAAACA
45246043 TTTTACCACT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.44, C:0.29, G:0.19, T:0.08
Consensus pattern (23 bp):
CAAACACGAGACCTCAAGGCAAG
Found at i:45247643 original size:34 final size:34
Alignment explanation
Indices: 45247600--45247668 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
45247590 AAAATATGGC
45247600 AATCAATTCCTATCAGTGGCCAACTAAACACTAT
1 AATCAATTCCTATCAGTGGCCAACTAAACACTAT
45247634 AATCAATTCCTATCAGTGGCCAACTAAACACTAT
1 AATCAATTCCTATCAGTGGCCAACTAAACACTAT
45247668 A
1 A
45247669 CATATGGTGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.39, C:0.26, G:0.09, T:0.26
Consensus pattern (34 bp):
AATCAATTCCTATCAGTGGCCAACTAAACACTAT
Found at i:45252320 original size:18 final size:18
Alignment explanation
Indices: 45252297--45252331 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
45252287 ATGATGTGCC
45252297 AAACTATTTTCATGCTTG
1 AAACTATTTTCATGCTTG
*
45252315 AAACTATTTTTATGCTT
1 AAACTATTTTCATGCTT
45252332 CTTGTTCTAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.14, G:0.09, T:0.49
Consensus pattern (18 bp):
AAACTATTTTCATGCTTG
Found at i:45255839 original size:25 final size:25
Alignment explanation
Indices: 45255736--45255850 Score: 115
Period size: 25 Copynumber: 4.6 Consensus size: 25
45255726 GTACATGTAT
*
45255736 GCTCATACGAGCTGTA-AACGGTAA
1 GCTCATACGAGCTGAATAACGGTAA
* *
45255760 GCTCCTCCGAGCTGAATAACGGTAA
1 GCTCATACGAGCTGAATAACGGTAA
* * * * * *
45255785 GTTCCTCCAAGTTGAATAACGATAA
1 GCTCATACGAGCTGAATAACGGTAA
* *
45255810 GCTCATACGAGATGAGTAACGGTAA
1 GCTCATACGAGCTGAATAACGGTAA
*
45255835 GCTCATAAGAGCTGAA
1 GCTCATACGAGCTGAA
45255851 ATTGATAACC
Statistics
Matches: 73, Mismatches: 17, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
24 13 0.18
25 60 0.82
ACGTcount: A:0.34, C:0.21, G:0.23, T:0.22
Consensus pattern (25 bp):
GCTCATACGAGCTGAATAACGGTAA
Found at i:45259897 original size:18 final size:18
Alignment explanation
Indices: 45259861--45259902 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
45259851 CTTAAAATTT
45259861 TAACTAATTAATACCTAA
1 TAACTAATTAATACCTAA
* *
45259879 TTACTAATT-ATACGTTAA
1 TAACTAATTAATAC-CTAA
45259897 TAACTA
1 TAACTA
45259903 CAAATTATAC
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.45, C:0.14, G:0.02, T:0.38
Consensus pattern (18 bp):
TAACTAATTAATACCTAA
Found at i:45266509 original size:18 final size:17
Alignment explanation
Indices: 45266476--45266510 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
45266466 TGAACTTGAT
*
45266476 AAATGATATTTGAAATG
1 AAATGATATATGAAATG
45266493 AAATGATTATATGAAATG
1 AAATGA-TATATGAAATG
45266511 GTACCATATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.49, C:0.00, G:0.17, T:0.34
Consensus pattern (17 bp):
AAATGATATATGAAATG
Found at i:45275121 original size:28 final size:27
Alignment explanation
Indices: 45275064--45275215 Score: 232
Period size: 27 Copynumber: 5.6 Consensus size: 27
45275054 TAAATTGTGC
* *
45275064 AGCACTAAGTGTGCGAATTGAATATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
45275091 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
45275119 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
45275146 AGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGT-TGACTATGT
* *
45275174 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
45275201 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
45275216 GACTTAATAT
Statistics
Matches: 118, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
27 66 0.56
28 52 0.44
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:45275129 original size:55 final size:55
Alignment explanation
Indices: 45275064--45275215 Score: 241
Period size: 55 Copynumber: 2.8 Consensus size: 55
45275054 TAAATTGTGC
* *
45275064 AGCACTAAGTGTGCGAATTGAATATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
* *
45275119 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
* * *
45275174 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCG
45275216 GACTTAATAT
Statistics
Matches: 90, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 90 1.00
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
Found at i:45305559 original size:20 final size:19
Alignment explanation
Indices: 45305513--45305580 Score: 54
Period size: 20 Copynumber: 3.7 Consensus size: 19
45305503 TTATGTGTTG
45305513 ATATTGAAATGAAA-A-GA
1 ATATTGAAATGAAATATGA
**
45305530 AT-GGGAAATGAAATATGA
1 ATATTGAAATGAAATATGA
**
45305548 A-ATGATGAAATGGGATATGA
1 ATAT--TGAAATGAAATATGA
45305568 ATATTGAAATGAA
1 ATATTGAAATGAA
45305581 TTCATGTATT
Statistics
Matches: 37, Mismatches: 8, Indels: 10
0.67 0.15 0.18
Matches are distributed among these distances:
16 9 0.24
17 3 0.08
18 3 0.08
19 7 0.19
20 13 0.35
21 2 0.05
ACGTcount: A:0.51, C:0.00, G:0.24, T:0.25
Consensus pattern (19 bp):
ATATTGAAATGAAATATGA
Found at i:45313636 original size:69 final size:69
Alignment explanation
Indices: 45313525--45314557 Score: 2048
Period size: 69 Copynumber: 15.0 Consensus size: 69
45313515 GTGCATTTAA
*
45313525 ACATAGCTCTTTTGGAATCAACTACATGATAAACCATTTCATAAGAAATTACGTACTTTAATTTA
1 ACATAGCTCTTTTGGAATTAACTACATGATAAACCATTTCATAAGAAATTACGTACTTTAATTTA
45313590 TAAG
66 TAAG
45313594 ACATAGCTCTTTTGGAATTAACTACATGATAAACCATTTCATAAGAAATTACGTACTTTAATTTA
1 ACATAGCTCTTTTGGAATTAACTACATGATAAACCATTTCATAAGAAATTACGTACTTTAATTTA
45313659 TAAG
66 TAAG
45313663 ACATAGCTCTTTTGGAATTAACTACATGATAAACCATTTCATAAGAAATTACGTACTTTAATTTA
1 ACATAGCTCTTTTGGAATTAACTACATGATAAACCATTTCATAAGAAATTACGTACTTTAATTTA
45313728 TAAG
66 TAAG
45313732 ACATAGCTCTTTTGGAATTAACTACATGATAAACCATTTCATAAGAAATTACGTACTTTAATTTA
1 ACATAGCTCTTTTGGAATTAACTACATGATAAACCATTTCATAAGAAATTACGTACTTTAATTTA
45313797 TAAG
66 TAAG
45313801 ACATAGCTCTTTTGGAATTAACTACATGATAAACCATTTCATAAGAAATTACGTACTTTAATTTA
1 ACATAGCTCTTTTGGAATTAACTACATGATAAACCATTTCATAAGAAATTACGTACTTTAATTTA
45313866 TAAG
66 TAAG
45313870 ACATAGCTCTTTTGGAATTAACTACATGATAAACCATTTCATAAGAAATTACGTACTTTAATTTA
1 ACATAGCTCTTTTGGAATTAACTACATGATAAACCATTTCATAAGAAATTACGTACTTTAATTTA
45313935 TAAG
66 TAAG
45313939 ACATAGCTCTTTTGGAATTAACTACATGATAAACCATTTCATAAGAAATTACGTACTTTAATTTA
1 ACATAGCTCTTTTGGAATTAACTACATGATAAACCATTTCATAAGAAATTACGTACTTTAATTTA
45314004 TAAG
66 TAAG
45314008 ACATAGCTCTTTTGGAATTAACTACATGATAAACCATTTCATAAGAAATTACGTACTTTAATTTA
1 ACATAGCTCTTTTGGAATTAACTACATGATAAACCATTTCATAAGAAATTACGTACTTTAATTTA
45314073 TAAG
66 TAAG
45314077 ACATAGCTCTTTTGGAATTAACTACATGATAAACCATTTCATAAGAAATTACGTACTTTAATTTA
1 ACATAGCTCTTTTGGAATTAACTACATGATAAACCATTTCATAAGAAATTACGTACTTTAATTTA
45314142 TAAG
66 TAAG
45314146 ACATAGCTCTTTTGGAATTAACTACATGATAAACCATTTCATAAGAAATTACGTACTTTAATTTA
1 ACATAGCTCTTTTGGAATTAACTACATGATAAACCATTTCATAAGAAATTACGTACTTTAATTTA
45314211 TAAG
66 TAAG
45314215 ACATAGCTCTTTTGGAATTAACTACATGATAAACCATTTCATAAGAAATTACGTACTTTAATTTA
1 ACATAGCTCTTTTGGAATTAACTACATGATAAACCATTTCATAAGAAATTACGTACTTTAATTTA
45314280 TAAG
66 TAAG
45314284 ACATAGCTCTTTTGGAATTAACTACATGATAAACCATTTCATAAGAAATTACGTACTTTAATTTA
1 ACATAGCTCTTTTGGAATTAACTACATGATAAACCATTTCATAAGAAATTACGTACTTTAATTTA
45314349 TAAG
66 TAAG
45314353 ACATAGCTCTTTTGGAATTAACTACATGATAAACCATTTCATAAGAAATTACGTACTTTAATTTA
1 ACATAGCTCTTTTGGAATTAACTACATGATAAACCATTTCATAAGAAATTACGTACTTTAATTTA
45314418 TAAG
66 TAAG
45314422 ACATAGCTCTTTTGGAATTAACTACATGATAAACCATTTCATAAGAAATTACGTACTTTAATTTA
1 ACATAGCTCTTTTGGAATTAACTACATGATAAACCATTTCATAAGAAATTACGTACTTTAATTTA
45314487 TAAG
66 TAAG
*
45314491 ACATAGCTCTTTTGGAATTAACTACATGATAAACCATTTCATAAGAAATTACATACTTTAATTTA
1 ACATAGCTCTTTTGGAATTAACTACATGATAAACCATTTCATAAGAAATTACGTACTTTAATTTA
45314556 TA
66 TA
45314558 CCACCTTTTC
Statistics
Matches: 962, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 962 1.00
ACGTcount: A:0.39, C:0.15, G:0.10, T:0.36
Consensus pattern (69 bp):
ACATAGCTCTTTTGGAATTAACTACATGATAAACCATTTCATAAGAAATTACGTACTTTAATTTA
TAAG
Found at i:45315000 original size:26 final size:26
Alignment explanation
Indices: 45314970--45315062 Score: 114
Period size: 26 Copynumber: 3.6 Consensus size: 26
45314960 TACATGGTTT
**
45314970 CTCACACGAGCTGTGAAATGGGTTTG
1 CTCACACGAGCTGTGAAATGGGCCTG
* *
45314996 CTCACACCAGCAGTGAAATGGGCCTG
1 CTCACACGAGCTGTGAAATGGGCCTG
* * *
45315022 CTCACATGGGCTGTGAAATGGGCCTA
1 CTCACACGAGCTGTGAAATGGGCCTG
*
45315048 CTCACATGAGCTGTG
1 CTCACACGAGCTGTG
45315063 GGTCGGAATA
Statistics
Matches: 57, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 57 1.00
ACGTcount: A:0.24, C:0.25, G:0.29, T:0.23
Consensus pattern (26 bp):
CTCACACGAGCTGTGAAATGGGCCTG
Found at i:45316966 original size:6 final size:6
Alignment explanation
Indices: 45316925--45316975 Score: 57
Period size: 6 Copynumber: 8.3 Consensus size: 6
45316915 TAATTTTAAA
* * * *
45316925 ATTTTT AGTTTT ATTTTT AGTTTC ATTTTT ATTTTT GTTTTT CATTTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT -ATTTTT
45316974 AT
1 AT
45316976 CTTTGCCTTT
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
6 31 0.86
7 5 0.14
ACGTcount: A:0.16, C:0.04, G:0.06, T:0.75
Consensus pattern (6 bp):
ATTTTT
Found at i:45316967 original size:19 final size:17
Alignment explanation
Indices: 45316933--45316980 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 17
45316923 AAATTTTTAG
45316933 TTTTATTTTTAGTTTCAT
1 TTTTATTTTT-GTTTCAT
45316951 TTTTATTTTTGTTTTTCAT
1 TTTTATTTTTG--TTTCAT
*
45316970 TTTTATCTTTG
1 TTTTATTTTTG
45316981 CCTTTACTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 1 0.04
18 10 0.37
19 16 0.59
ACGTcount: A:0.12, C:0.06, G:0.06, T:0.75
Consensus pattern (17 bp):
TTTTATTTTTGTTTCAT
Done.