Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167893.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_16, whole genome shotgun sequence
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: 22157061
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 74000 characters in sequence are not A, C, G, or T
File 92 of 113
Found at i:19077566 original size:20 final size:21
Alignment explanation
Indices: 19077525--19077566 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
19077515 CTATCTTTGA
19077525 TTTTTTAGTTGATTTATCTAT
1 TTTTTTAGTTGATTTATCTAT
19077546 TTTTTTA-TTGGATTTAT-TAT
1 TTTTTTAGTT-GATTTATCTAT
19077566 T
1 T
19077567 AGTTTTTAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.19, C:0.02, G:0.10, T:0.69
Consensus pattern (21 bp):
TTTTTTAGTTGATTTATCTAT
Found at i:19077572 original size:21 final size:21
Alignment explanation
Indices: 19077527--19077572 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
19077517 ATCTTTGATT
*
19077527 TTTTAGTTGATTTATCTATTT
1 TTTTAGTTGATTTATCTATTG
19077548 TTTTA-TTGGATTTAT-TATTAG
1 TTTTAGTT-GATTTATCTATT-G
19077569 TTTT
1 TTTT
19077573 TAACAAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.20, C:0.02, G:0.11, T:0.67
Consensus pattern (21 bp):
TTTTAGTTGATTTATCTATTG
Found at i:19078614 original size:58 final size:58
Alignment explanation
Indices: 19078540--19078746 Score: 301
Period size: 58 Copynumber: 3.6 Consensus size: 58
19078530 AAAAAAAAGC
*
19078540 ATTTTTACA-GAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAATTTCTAAAAAAT
1 ATTTTTA-AGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAATTTCTAAAAAAT
* * * *
19078598 ATTTTTTAGGGAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAGTTTCTAAAAAAT
1 ATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAATTTCTAAAAAAT
* *
19078656 ATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAAATTTCTAAAAAAT
1 ATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT-AAAATTTCTAAAAAAT
* *
19078715 -GTTTTAAGGAAAAATTGAAAGTATCAATTTTC
1 ATTTTTAAGGAAAAGTTGAAAGTATCAATTTTC
19078747 TTTGTATAAA
Statistics
Matches: 133, Mismatches: 14, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
57 1 0.01
58 117 0.88
59 15 0.11
ACGTcount: A:0.45, C:0.07, G:0.11, T:0.37
Consensus pattern (58 bp):
ATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAATTTCTAAAAAAT
Found at i:19082708 original size:7 final size:8
Alignment explanation
Indices: 19082679--19082727 Score: 53
Period size: 8 Copynumber: 5.6 Consensus size: 8
19082669 TAATGGATGG
*
19082679 GAAAAGAT
1 GAAAAAAT
19082687 GAAAAAAAT
1 G-AAAAAAT
19082696 GAAAAAAT
1 GAAAAAAT
19082704 GAAAAAAT
1 GAAAAAAT
19082712 GGAAAACAGAT
1 -GAAAA-A-AT
19082723 GAAAA
1 GAAAA
19082728 GCGAAGAAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
8 16 0.44
9 12 0.33
10 6 0.17
11 2 0.06
ACGTcount: A:0.69, C:0.02, G:0.18, T:0.10
Consensus pattern (8 bp):
GAAAAAAT
Found at i:19082716 original size:17 final size:17
Alignment explanation
Indices: 19082678--19082727 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 17
19082668 CTAATGGATG
*
19082678 GGAAAAGATGAAAAAAAT
1 GGAAAAAATG-AAAAAAT
19082696 -GAAAAAATGAAAAAAT
1 GGAAAAAATGAAAAAAT
19082712 GGAAAACAGATGAAAA
1 GGAAAA-A-ATGAAAA
19082728 GCGAAGAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
16 7 0.25
17 13 0.46
18 1 0.04
19 7 0.25
ACGTcount: A:0.68, C:0.02, G:0.20, T:0.10
Consensus pattern (17 bp):
GGAAAAAATGAAAAAAT
Found at i:19084045 original size:46 final size:46
Alignment explanation
Indices: 19083993--19084571 Score: 590
Period size: 46 Copynumber: 12.5 Consensus size: 46
19083983 GAAGTCTTAA
19083993 ATTTTCAAATGAGAATCTTTGAGTCTTAAATGAGAATCTTTAAGAC
1 ATTTTCAAATGAGAATCTTTGAGTCTTAAATGAGAATCTTTAAGAC
*
19084039 ATTTTCAAATGAAAATCTTTGAGTCTTAAATGAGAATCTTTAAGAC
1 ATTTTCAAATGAGAATCTTTGAGTCTTAAATGAGAATCTTTAAGAC
* * *
19084085 ATTTCCAAATGAGAGTCTTTGAGCCTTAAATGAGAATCTTTAAGAC
1 ATTTTCAAATGAGAATCTTTGAGTCTTAAATGAGAATCTTTAAGAC
* * *
19084131 GTTTTCAAATGAGAATCTTTGAGTCTTAAATGAAAATTTTTAAGAC
1 ATTTTCAAATGAGAATCTTTGAGTCTTAAATGAGAATCTTTAAGAC
*
19084177 ATTTTCAAATGAGAATCTTTGGGTCTTAAATGAGAATCTTTAAGGA-
1 ATTTTCAAATGAGAATCTTTGAGTCTTAAATGAGAATCTTTAA-GAC
* * * *
19084223 GTTTTCAAATGAAAATCTTTAAGACATTTCCAAATGAG--TCTTTAAG--
1 ATTTTCAAATGAGAATCTTTGAGTC--TT--AAATGAGAATCTTTAAGAC
* * * * *
19084269 -TCTT-AAATGAGAATCCTTAAGATATTTTCAAATGAGAATCTATAAGAC
1 ATTTTCAAATGAGAAT-CTT-TGA-GTCTT-AAATGAGAATCTTTAAGAC
* * *
19084317 ATTTTTAAATGAGAATATTTGAATCTTAAATGAGAATCTTTAAGAC
1 ATTTTCAAATGAGAATCTTTGAGTCTTAAATGAGAATCTTTAAGAC
* * * * * *
19084363 GTTTTCAAATAAAAATCTTTAAGATGTTTTCAAATGAGGATATTT--GA-
1 ATTTTCAAATGAGAATCTTT--GA-GTCTT-AAATGAGAATCTTTAAGAC
* * *
19084410 GTTTT-AAATGAGAAT-TTTAAGACATTTCCAAATGAGAATCTTTAAGAC
1 ATTTTCAAATGAGAATCTTTGAGTC--TT--AAATGAGAATCTTTAAGAC
* * *
19084458 ATTTTTAAATGAGAATATTTAAGT-TTCAAATGAGAATCTTTAAGAC
1 ATTTTCAAATGAGAATCTTTGAGTCTT-AAATGAGAATCTTTAAGAC
* * *
19084504 GTTTTCAAATGAGCATCTTTGAGTCTTAAATGAGAACCTTTAAGAC
1 ATTTTCAAATGAGAATCTTTGAGTCTTAAATGAGAATCTTTAAGAC
19084550 ATTTTCAAATGAGAATCTTTGA
1 ATTTTCAAATGAGAATCTTTGA
19084572 CATGTAAAAC
Statistics
Matches: 447, Mismatches: 59, Indels: 54
0.80 0.11 0.10
Matches are distributed among these distances:
42 1 0.00
43 1 0.00
44 19 0.04
45 24 0.05
46 312 0.70
47 18 0.04
48 19 0.04
49 18 0.04
50 35 0.08
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.37
Consensus pattern (46 bp):
ATTTTCAAATGAGAATCTTTGAGTCTTAAATGAGAATCTTTAAGAC
Found at i:19084146 original size:71 final size:70
Alignment explanation
Indices: 19084020--19084569 Score: 470
Period size: 71 Copynumber: 7.8 Consensus size: 70
19084010 TTTGAGTCTT
* *
19084020 AAATGAGAATCTTTAAGACATTTTCAAATGAAAATCTTT-GAGTCTTAAATGAGAATCTTTAAGA
1 AAATGAGAATCTTTAAGAC-TTTT-AAATGAGAATCTTTAGAGTTTTAAATGAGAATCTTTAAGA
*
19084084 CATTTCC
64 CATTTTC
* * *
19084091 AAATGAGAGTCTTTGAG-C-CTTAAATGAGAATCTTTAAGACGTTTTCAAATGAGAATCTTT--G
1 AAATGAGAATCTTTAAGACTTTTAAATGAGAATCTTT-AGA-GTTTT-AAATGAGAATCTTTAAG
* *
19084152 A-GTCTT-
63 ACATTTTC
* * * *
19084158 AAATGAAAATTTTTAAGACATTTTCAAATGAGAATCTTT-GGGTCTTAAATGAGAATCTTTAAGG
1 AAATGAGAATCTTTAAGAC-TTTT-AAATGAGAATCTTTAGAGTTTTAAATGAGAATCTTTAA-G
*
19084222 A-GTTTTC
63 ACATTTTC
* * * *
19084229 AAATGAAAATCTTTAAGACATTTCCAAATGAG--TCTTTA-AGTCTTAAATGAGAATCCTTAAGA
1 AAATGAGAATCTTTAAGAC-TTT-TAAATGAGAATCTTTAGAGTTTTAAATGAGAATCTTTAAGA
*
19084291 TATTTTC
64 CATTTTC
* * * *
19084298 AAATGAGAATCTATAAGACATTTTTAAATGAGAATATTT-GAATCTTAAATGAGAATCTTTAAGA
1 AAATGAGAATCTTTAAGAC--TTTTAAATGAGAATCTTTAGAGTTTTAAATGAGAATCTTTAAGA
*
19084362 CGTTTTC
64 CATTTTC
* * * * *
19084369 AAATAAAAATCTTTAAGATGTTTTCAAATGAGGATATTT-GAGTTTTAAATGAGAAT-TTTAAGA
1 AAATGAGAATCTTTAAGA-CTTTT-AAATGAGAATCTTTAGAGTTTTAAATGAGAATCTTTAAGA
*
19084432 CATTTCC
64 CATTTTC
* *
19084439 AAATGAGAATCTTTAAGACATTTTTAAATGAGAATATTTA-AGTTTCAAATGAGAATCTTTAAGA
1 AAATGAGAATCTTTAAGAC--TTTTAAATGAGAATCTTTAGAGTTTTAAATGAGAATCTTTAAGA
*
19084503 CGTTTTC
64 CATTTTC
* * * * *
19084510 AAATGAGCATCTTT--GAGTCTTAAATGAGAACCTTTAAGACATTTTCAAATGAGAATCTTT
1 AAATGAGAATCTTTAAGACTTTTAAATGAGAATCTTT-AGA-GTTTT-AAATGAGAATCTTT
19084570 GACATGTAAA
Statistics
Matches: 397, Mismatches: 53, Indels: 58
0.78 0.10 0.11
Matches are distributed among these distances:
67 55 0.14
68 12 0.03
69 62 0.16
70 79 0.20
71 189 0.48
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.37
Consensus pattern (70 bp):
AAATGAGAATCTTTAAGACTTTTAAATGAGAATCTTTAGAGTTTTAAATGAGAATCTTTAAGACA
TTTTC
Found at i:19085130 original size:40 final size:41
Alignment explanation
Indices: 19085067--19085242 Score: 162
Period size: 40 Copynumber: 4.2 Consensus size: 41
19085057 ATGATTGTCA
*
19085067 AGGAGCCTTTTATTTTTTCAAAGTTGTGGTGCCTCTATTTAG
1 AGGAG-CTTTTATTTATTCAAAGTTGTGGTGCCTCTATTTAG
* * * *
19085109 ATGAGCTTTTA-TTATTCAAAGTCGTTGTGCCTCTCTTTAG
1 AGGAGCTTTTATTTATTCAAAGTTGTGGTGCCTCTATTTAG
* * *
19085149 AGGATCATTTATTTTTTGCAAAGTCAT-TGG-GCCTCTATTTAG
1 AGGAGCTTTTATTTATT-CAAAGT--TGTGGTGCCTCTATTTAG
* * *
19085191 AGGAGC-TTTATTTATTTTCGAAAGTTGTTGAGCCTCTATTTAT
1 AGGAGCTTTTATTTA--TTC-AAAGTTGTGGTGCCTCTATTTAG
19085234 AGGAGCTTT
1 AGGAGCTTT
19085243 GTTTAATAAA
Statistics
Matches: 108, Mismatches: 16, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
40 33 0.31
41 18 0.17
42 29 0.27
43 26 0.24
44 2 0.02
ACGTcount: A:0.22, C:0.14, G:0.20, T:0.44
Consensus pattern (41 bp):
AGGAGCTTTTATTTATTCAAAGTTGTGGTGCCTCTATTTAG
Found at i:19085183 original size:42 final size:39
Alignment explanation
Indices: 19085075--19085242 Score: 151
Period size: 42 Copynumber: 4.1 Consensus size: 39
19085065 CAAGGAGCCT
*
19085075 TTTATTTTTTCAAAGT-TGTGGTGCCTCTATTTAGATGAGC
1 TTTATTTTTTCAAAGTCT-TGG-GCCTCTATTTAGAGGAGC
* * * *
19085115 TTT-TATTATTCAAAGTCGTTGTGCCTCTCTTTAGAGGATC
1 TTTAT-TTTTTCAAAGTC-TTGGGCCTCTATTTAGAGGAGC
19085155 ATTTATTTTTTGCAAAGTCATTGGGCCTCTATTTAGAGGAGC
1 -TTTATTTTTT-CAAAGTC-TTGGGCCTCTATTTAGAGGAGC
* * *
19085197 TTTATTTATTTTCGAAAGTTGTTGAGCCTCTATTTATAGGAGC
1 TTTA-TT-TTTTC-AAAG-TCTTGGGCCTCTATTTAGAGGAGC
19085240 TTT
1 TTT
19085243 GTTTAATAAA
Statistics
Matches: 105, Mismatches: 13, Indels: 17
0.78 0.10 0.13
Matches are distributed among these distances:
39 1 0.01
40 28 0.27
41 13 0.12
42 31 0.30
43 31 0.30
44 1 0.01
ACGTcount: A:0.21, C:0.14, G:0.19, T:0.46
Consensus pattern (39 bp):
TTTATTTTTTCAAAGTCTTGGGCCTCTATTTAGAGGAGC
Found at i:19085226 original size:43 final size:42
Alignment explanation
Indices: 19085081--19085247 Score: 171
Period size: 43 Copynumber: 4.0 Consensus size: 42
19085071 GCCTTTTATT
* * *
19085081 TTTTCAAAGTTGTGGTGCCTCTATTTAGATGAGC--T-TTTA
1 TTTTCAAAGTCGTTGTGCCTCTATTTAGAGGAGCTTTATTTA
* *
19085120 TTATTCAAAGTCGTTGTGCCTCTCTTTAGAGGATCATTTATTT-
1 TT-TTCAAAGTCGTTGTGCCTCTATTTAGAGGAGC-TTTATTTA
* * *
19085163 TTTGCAAAGTCATTGGGCCTCTATTTAGAGGAGCTTTATTTA
1 TTTTCAAAGTCGTTGTGCCTCTATTTAGAGGAGCTTTATTTA
* * * *
19085205 TTTTCGAAAGTTGTTGAGCCTCTATTTATAGGAGCTTTGTTTA
1 TTTTC-AAAGTCGTTGTGCCTCTATTTAGAGGAGCTTTATTTA
19085248 ATAAAAAAAA
Statistics
Matches: 105, Mismatches: 16, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
39 2 0.02
40 27 0.26
41 7 0.07
42 31 0.30
43 35 0.33
44 3 0.03
ACGTcount: A:0.22, C:0.14, G:0.20, T:0.45
Consensus pattern (42 bp):
TTTTCAAAGTCGTTGTGCCTCTATTTAGAGGAGCTTTATTTA
Found at i:19086573 original size:59 final size:58
Alignment explanation
Indices: 19086507--19086916 Score: 545
Period size: 59 Copynumber: 7.0 Consensus size: 58
19086497 GAAAAAATAT
* * * *
19086507 AAAATAAAATTTTTAAAAAAGCATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
1 AAAATAAAATTTCTAAAAAA-TATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTG
* * * * *
19086566 AAAATAAAATTTTTAAAAAAGCATTTTTGAGGAAAAGTTGACAGTACCAATTTTTCTTG
1 AAAATAAAATTTCTAAAAAA-TATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTG
* * *
19086625 AAAATAAAATTTCTAAAAAATATTTTTTTAGGAAAAGTTAAAAGTATCAATTTTCCTTG
1 AAAATAAAATTTCTAAAAAATA-TTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTG
* * * *
19086684 AACATAAAATTTTTAAAAAATATTTTTAA-GAAACAGTTGAAAGTATCAATTCTACTTG
1 AAAATAAAATTTCTAAAAAATATTTTTAAGGAAA-AGTTGAAAGTATCAATTTTTCTTG
* *
19086742 AAAATAAAATTTCTAAAAAATATTTTTTAGGAAAAGTTGAAAGTATCAATTTTTCTTA
1 AAAATAAAATTTCTAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTG
* * *
19086800 AAAATAAGATTTGTAAAAAATATTTTTTAAGGAAAAGTTGAAAATATCAATTTTTCTTG
1 AAAATAAAATTTCTAAAAAATA-TTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTG
* *
19086859 AAAATAAAAATTTCTAAAAAAT-GTTTTAAGGAAAAATTGAAAGTATCAATTTTTCTTG
1 AAAAT-AAAATTTCTAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTG
19086917 TATAAAAGCA
Statistics
Matches: 314, Mismatches: 32, Indels: 11
0.88 0.09 0.03
Matches are distributed among these distances:
57 4 0.01
58 128 0.41
59 168 0.54
60 14 0.04
ACGTcount: A:0.46, C:0.06, G:0.11, T:0.37
Consensus pattern (58 bp):
AAAATAAAATTTCTAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTG
Found at i:19086751 original size:117 final size:115
Alignment explanation
Indices: 19086507--19086916 Score: 561
Period size: 117 Copynumber: 3.5 Consensus size: 115
19086497 GAAAAAATAT
* * *
19086507 AAAATAAAATTTTTAAAAAAGCATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATA
1 AAAATAAAATTTCTAAAAAA-TATTTTTTAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATA
* * * *
19086572 AAATTTTTAAAAAAGCATTTTTGAGGAAAAGTTGACAGTACCAATTTTTCTTG
65 AAATTTTTAAAAAA-TATTTTT-AAGAAAAGTTGAAAGTATCAATTTTTCTTG
* *
19086625 AAAATAAAATTTCTAAAAAATATTTTTTTAGGAAAAGTTAAAAGTATCAATTTTCCTTGAACATA
1 AAAATAAAATTTCTAAAAAATA-TTTTTTAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATA
* *
19086690 AAATTTTTAAAAAATATTTTTAAGAAACAGTTGAAAGTATCAATTCTACTTG
65 AAATTTTTAAAAAATATTTTTAAGAAA-AGTTGAAAGTATCAATTTTTCTTG
* *
19086742 AAAATAAAATTTCTAAAAAATATTTTTTAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAA
1 AAAATAAAATTTCTAAAAAATATTTTTTAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAA
* * *
19086807 GATTTGTAAAAAATATTTTTTAAGGAAAAGTTGAAAATATCAATTTTTCTTG
66 AATTTTTAAAAAATA-TTTTTAA-GAAAAGTTGAAAGTATCAATTTTTCTTG
* * * *
19086859 AAAATAAAAATTTCTAAAAAAT-GTTTTAAGGAAAAATTGAAAGTATCAATTTTTCTTG
1 AAAAT-AAAATTTCTAAAAAATATTTTTTAGGAAAAGTTGAAAGTATCAATTTTCCTTG
19086917 TATAAAAGCA
Statistics
Matches: 263, Mismatches: 24, Indels: 11
0.88 0.08 0.04
Matches are distributed among these distances:
116 57 0.22
117 114 0.43
118 92 0.35
ACGTcount: A:0.46, C:0.06, G:0.11, T:0.37
Consensus pattern (115 bp):
AAAATAAAATTTCTAAAAAATATTTTTTAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAA
AATTTTTAAAAAATATTTTTAAGAAAAGTTGAAAGTATCAATTTTTCTTG
Found at i:19088694 original size:1 final size:1
Alignment explanation
Indices: 19088688--19088743 Score: 67
Period size: 1 Copynumber: 56.0 Consensus size: 1
19088678 ATAATGGGTG
* * * * *
19088688 AAAAAAAGAAAAAAAAAGAGAAAAAAAAGAAAAAAAAAAAAAAGAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
19088744 TGAAAGAATG
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
1 45 1.00
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (1 bp):
A
Found at i:19088703 original size:10 final size:10
Alignment explanation
Indices: 19088688--19088748 Score: 81
Period size: 10 Copynumber: 6.1 Consensus size: 10
19088678 ATAATGGGTG
19088688 AAAAAAAGAA
1 AAAAAAAGAA
19088698 AAAAAAAGAGA
1 AAAAAAAGA-A
19088709 AAAAAAAGAA
1 AAAAAAAGAA
19088719 AAAAAAA-AA
1 AAAAAAAGAA
19088728 AAAGAAAA-AA
1 AAA-AAAAGAA
*
19088738 AAAAAATGAA
1 AAAAAAAGAA
19088748 A
1 A
19088749 GAATGGGAAA
Statistics
Matches: 47, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
9 8 0.17
10 29 0.62
11 10 0.21
ACGTcount: A:0.89, C:0.00, G:0.10, T:0.02
Consensus pattern (10 bp):
AAAAAAAGAA
Found at i:19088714 original size:21 final size:19
Alignment explanation
Indices: 19088688--19088743 Score: 78
Period size: 21 Copynumber: 2.8 Consensus size: 19
19088678 ATAATGGGTG
19088688 AAAAAAAGAAAAAAAAAGAGA
1 AAAAAAAGAAAAAAAAA-A-A
19088709 AAAAAAAGAAAAAAAAAAA
1 AAAAAAAGAAAAAAAAAAA
19088728 AAAGAAAA-AAAAAAAA
1 AAA-AAAAGAAAAAAAA
19088744 TGAAAGAATG
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
19 12 0.35
20 5 0.15
21 17 0.50
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (19 bp):
AAAAAAAGAAAAAAAAAAA
Found at i:19088720 original size:26 final size:24
Alignment explanation
Indices: 19088688--19088748 Score: 88
Period size: 25 Copynumber: 2.5 Consensus size: 24
19088678 ATAATGGGTG
19088688 AAAAAAAGAAAAAAAAAGAGAAAAA
1 AAAAAAAGAAAAAAAAA-AGAAAAA
19088713 AAAGAAAA-AAAAAAAAAAGAAAAA
1 AAA-AAAAGAAAAAAAAAAGAAAAA
19088737 AAAAAAATGAAA
1 AAAAAAA-GAAA
19088749 GAATGGGAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
23 4 0.12
24 10 0.30
25 15 0.45
26 4 0.12
ACGTcount: A:0.89, C:0.00, G:0.10, T:0.02
Consensus pattern (24 bp):
AAAAAAAGAAAAAAAAAAGAAAAA
Found at i:19090057 original size:21 final size:21
Alignment explanation
Indices: 19090033--19090088 Score: 69
Period size: 21 Copynumber: 2.6 Consensus size: 21
19090023 TCAAATGAGA
*
19090033 AAATGTGAAATTTTGAGTCTT
1 AAATGAGAAATTTTGAGTCTT
*
19090054 AAATAAG-AATCTTTGAGTCTT
1 AAATGAGAAAT-TTTGAGTCTT
19090075 AAATGAGAATATTT
1 AAATGAGAA-ATTT
19090089 AAGTTTCAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
20 3 0.10
21 21 0.72
22 3 0.10
23 2 0.07
ACGTcount: A:0.39, C:0.05, G:0.16, T:0.39
Consensus pattern (21 bp):
AAATGAGAAATTTTGAGTCTT
Found at i:19090589 original size:42 final size:42
Alignment explanation
Indices: 19090527--19090753 Score: 244
Period size: 42 Copynumber: 5.4 Consensus size: 42
19090517 GATTGTTAAA
* * *
19090527 GAGCATTTTATTTTTCAAAAGTTATGATGCCTCTATTTAGAG
1 GAGCATTTTATTTTTTAAAAGTTGTGGTGCCTCTATTTAGAG
19090569 GAGCATTTTATTTTTTAAAAGTTGTGGTGCCTCTATTTAGAGGAG
1 GAGCATTTTATTTTTTAAAAGTTGTGGTGCCTCTATTT--A-GAG
* * *
19090614 CAGAGCATTTTA-TTTTTCAAAGTTGTGGTGTCTCTATTTAGAT
1 --GAGCATTTTATTTTTTAAAAGTTGTGGTGCCTCTATTTAGAG
* * * * *
19090657 GAGCACTTTA-TTTTTCAAAGTTGTGGTGCCTCTGTTTAAAA
1 GAGCATTTTATTTTTTAAAAGTTGTGGTGCCTCTATTTAGAG
* * * *
19090698 GAGCATTTTATTTTTCAAAAGTTGTTGTGCCTCTATTCAAAG
1 GAGCATTTTATTTTTTAAAAGTTGTGGTGCCTCTATTTAGAG
*
19090740 GAGTA-TTTATTTTT
1 GAGCATTTTATTTTT
19090754 CTTAAAATCA
Statistics
Matches: 160, Mismatches: 19, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
41 54 0.34
42 64 0.40
43 2 0.01
44 2 0.01
45 3 0.02
46 25 0.16
47 10 0.06
ACGTcount: A:0.25, C:0.11, G:0.19, T:0.44
Consensus pattern (42 bp):
GAGCATTTTATTTTTTAAAAGTTGTGGTGCCTCTATTTAGAG
Found at i:19090749 original size:41 final size:42
Alignment explanation
Indices: 19090522--19090754 Score: 276
Period size: 41 Copynumber: 5.5 Consensus size: 42
19090512 GACATGATTG
* *
19090522 TTAAA-GAGCATTTTATTTTTCAAAAGTTATGATGCCTCTAT
1 TTAAAGGAGCATTTTATTTTTCAAAAGTTGTGGTGCCTCTAT
* *
19090563 TTAGAGGAGCATTTTATTTTTTAAAAGTTGTGGTGCCTCTAT
1 TTAAAGGAGCATTTTATTTTTCAAAAGTTGTGGTGCCTCTAT
*
19090605 TTAGAGGAGCAGAGCATTTTATTTTTC-AAAGTTGTGGTGTCTCTAT
1 TTA-A--AG--GAGCATTTTATTTTTCAAAAGTTGTGGTGCCTCTAT
* * * *
19090651 TTAGATGAGCACTTTATTTTTC-AAAGTTGTGGTGCCTCTGT
1 TTAAAGGAGCATTTTATTTTTCAAAAGTTGTGGTGCCTCTAT
* *
19090692 TTAAAAGAGCATTTTATTTTTCAAAAGTTGTTGTGCCTCTAT
1 TTAAAGGAGCATTTTATTTTTCAAAAGTTGTGGTGCCTCTAT
* *
19090734 TCAAAGGAGTA-TTTATTTTTC
1 TTAAAGGAGCATTTTATTTTTC
19090755 TTAAAATCAT
Statistics
Matches: 165, Mismatches: 20, Indels: 14
0.83 0.10 0.07
Matches are distributed among these distances:
41 65 0.39
42 61 0.37
43 1 0.01
45 2 0.01
46 21 0.13
47 15 0.09
ACGTcount: A:0.26, C:0.12, G:0.18, T:0.44
Consensus pattern (42 bp):
TTAAAGGAGCATTTTATTTTTCAAAAGTTGTGGTGCCTCTAT
Found at i:19091559 original size:25 final size:26
Alignment explanation
Indices: 19091530--19091578 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
19091520 TGAGATTCTT
* *
19091530 AAAAATTTC-AAATGATAAATTTTTA
1 AAAAATCTCTAAATGAGAAATTTTTA
*
19091555 AAAAATCTCTAGATGAGAAATTTT
1 AAAAATCTCTAAATGAGAAATTTT
19091579 CTCTAAATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 8 0.40
26 12 0.60
ACGTcount: A:0.49, C:0.06, G:0.08, T:0.37
Consensus pattern (26 bp):
AAAAATCTCTAAATGAGAAATTTTTA
Found at i:19091962 original size:55 final size:54
Alignment explanation
Indices: 19091837--19091964 Score: 134
Period size: 55 Copynumber: 2.3 Consensus size: 54
19091827 AAAAATAAAT
* * *
19091837 AAAGAGAAAATATTTCTAAATTGACCAAAATGATGGAAAATTTAGAATCCAACA
1 AAAGAGAAAATATTTTTAAATAGACCAAAATGATGGAAAATTTAAAATCCAACA
* * * * *
19091891 AAAAAGAAGAGA-ATTTTTAAATAGGCCCAAATGGTGGAAAATTTAAAAATTTCAA-A
1 AAAGAGAA-A-ATATTTTTAAATAGACCAAAATGATGGAAAATTT-AAAA-TCCAACA
19091947 AAAGAGAAAATATTTTTA
1 AAAGAGAAAATATTTTTA
19091965 GTTTGATCAA
Statistics
Matches: 60, Mismatches: 9, Indels: 9
0.77 0.12 0.12
Matches are distributed among these distances:
54 8 0.13
55 36 0.60
56 12 0.20
57 4 0.07
ACGTcount: A:0.52, C:0.08, G:0.14, T:0.26
Consensus pattern (54 bp):
AAAGAGAAAATATTTTTAAATAGACCAAAATGATGGAAAATTTAAAATCCAACA
Found at i:19093154 original size:50 final size:49
Alignment explanation
Indices: 19093090--19093184 Score: 138
Period size: 50 Copynumber: 1.9 Consensus size: 49
19093080 TCTCAAATAT
**
19093090 TTATTACTAAAAGTATTATTTGATAAAAAATAATTTTTCTAATTTTCAAC
1 TTATTACTAAAAGTATTATTTGAT-AAAAATAATTTTAATAATTTTCAAC
*
19093140 TTATTAAC-AAAAGTATTATTTGATATAAATAATTTTAATAATTTT
1 TTATT-ACTAAAAGTATTATTTGATAAAAATAATTTTAATAATTTT
19093185 TAATAATTTA
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
49 18 0.44
50 21 0.51
51 2 0.05
ACGTcount: A:0.43, C:0.05, G:0.04, T:0.47
Consensus pattern (49 bp):
TTATTACTAAAAGTATTATTTGATAAAAATAATTTTAATAATTTTCAAC
Found at i:19093187 original size:10 final size:10
Alignment explanation
Indices: 19093167--19093199 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
19093157 ATTTGATATA
19093167 AATAA-TTTT
1 AATAATTTTT
19093176 AATAATTTTT
1 AATAATTTTT
19093186 AATAATTTATT
1 AATAATTT-TT
19093197 AAT
1 AAT
19093200 TTAAAAATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 5 0.23
10 12 0.55
11 5 0.23
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (10 bp):
AATAATTTTT
Found at i:19097786 original size:30 final size:30
Alignment explanation
Indices: 19097752--19097825 Score: 78
Period size: 30 Copynumber: 2.5 Consensus size: 30
19097742 TATTACACCA
*
19097752 AAATAAGTCCTTAAACTTTAATTTGTATCC-
1 AAATAAGTCCTTAAACTTGAATTTGTA-CCT
* * **
19097782 AAATAAGACTTTATCCTTGAATTTGTACCT
1 AAATAAGTCCTTAAACTTGAATTTGTACCT
*
19097812 AAATAAATCCTTAA
1 AAATAAGTCCTTAA
19097826 CATAAATCAA
Statistics
Matches: 34, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
29 2 0.06
30 32 0.94
ACGTcount: A:0.39, C:0.16, G:0.07, T:0.38
Consensus pattern (30 bp):
AAATAAGTCCTTAAACTTGAATTTGTACCT
Found at i:19097900 original size:30 final size:29
Alignment explanation
Indices: 19097861--19097919 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
19097851 AATGACATAC
*
19097861 TTGGATACAAATCAAAGAATAAGGGCTTAT
1 TTGGATAC-AATAAAAGAATAAGGGCTTAT
* * *
19097891 TTGGGTACAATAAAAGTATATGGGCTTAT
1 TTGGATACAATAAAAGAATAAGGGCTTAT
19097920 CTAAATAAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 18 0.72
30 7 0.28
ACGTcount: A:0.39, C:0.08, G:0.22, T:0.31
Consensus pattern (29 bp):
TTGGATACAATAAAAGAATAAGGGCTTAT
Found at i:19100401 original size:2 final size:2
Alignment explanation
Indices: 19100394--19100420 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
19100384 GAACATCTAA
19100394 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
19100421 AAAGAAAGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:19101840 original size:2 final size:2
Alignment explanation
Indices: 19101833--19101865 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
19101823 AGCCTTATTC
19101833 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
19101866 AAACAAGTGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:19105286 original size:19 final size:19
Alignment explanation
Indices: 19105238--19105287 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
19105228 TAGAAAATTT
* *
19105238 AAATTATTTAATATTTATA
1 AAATTATTAAATAATTATA
*
19105257 AAATTAATAAATAATTA-A
1 AAATTATTAAATAATTATA
19105275 AAATTTATTAAAT
1 AAA-TTATTAAAT
19105288 TATTTTTAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
18 4 0.15
19 22 0.85
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
AAATTATTAAATAATTATA
Found at i:19105337 original size:24 final size:23
Alignment explanation
Indices: 19105310--19105366 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 23
19105300 AAATATTAGT
19105310 TTTATTAA-AAATAATTAAAAAATA
1 TTTATTAATAAA-AA-TAAAAAATA
**
19105334 TTTATTATATAAAAATAAAATTTA
1 TTTATTA-ATAAAAATAAAAAATA
19105358 TTTATTAAT
1 TTTATTAAT
19105367 TAATTTATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
23 2 0.07
24 21 0.72
25 3 0.10
26 3 0.10
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (23 bp):
TTTATTAATAAAAATAAAAAATA
Found at i:19105373 original size:16 final size:17
Alignment explanation
Indices: 19105351--19105406 Score: 55
Period size: 16 Copynumber: 3.4 Consensus size: 17
19105341 TATAAAAATA
19105351 AAATTTATTTAT-TAAT
1 AAATTTATTTATCTAAT
*
19105367 TAATTTA-TTATCTAAT
1 AAATTTATTTATCTAAT
* *
19105383 AAATTTTATTT-TATATT
1 AAA-TTTATTTATCTAAT
19105400 AAATTTA
1 AAATTTA
19105407 AAAAATATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
15 4 0.12
16 16 0.48
17 11 0.33
18 2 0.06
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (17 bp):
AAATTTATTTATCTAAT
Found at i:19107034 original size:32 final size:32
Alignment explanation
Indices: 19106995--19107066 Score: 99
Period size: 32 Copynumber: 2.2 Consensus size: 32
19106985 GTCAACAAAC
* *
19106995 CCCTTGAAGTAGTCAAGAACAAGTCTATCTGA
1 CCCTTGAAGCAGTCAAGAACAAATCTATCTGA
* * *
19107027 CCTTTGAAGCATTCAAGAATAAATCTATCTGA
1 CCCTTGAAGCAGTCAAGAACAAATCTATCTGA
19107059 CCCTTGAA
1 CCCTTGAA
19107067 ACAGATTTTT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.35, C:0.22, G:0.15, T:0.28
Consensus pattern (32 bp):
CCCTTGAAGCAGTCAAGAACAAATCTATCTGA
Found at i:19115389 original size:30 final size:30
Alignment explanation
Indices: 19115339--19115407 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 30
19115329 ATTTGCTCAT
* * *
19115339 TTTGCATTTTAGTCTAGTTATTATGTGTC-
1 TTTGCATTTGAGGCTAGTTATAATGTGTCA
* *
19115368 TTTGCATTTGAGGCTTAGTTATAATTTTTCA
1 TTTGCATTTGAGGC-TAGTTATAATGTGTCA
19115399 TTTGCATTT
1 TTTGCATTT
19115408 TATTCATTGT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
29 12 0.36
30 12 0.36
31 9 0.27
ACGTcount: A:0.19, C:0.10, G:0.16, T:0.55
Consensus pattern (30 bp):
TTTGCATTTGAGGCTAGTTATAATGTGTCA
Found at i:19115503 original size:29 final size:31
Alignment explanation
Indices: 19115465--19115527 Score: 87
Period size: 32 Copynumber: 2.1 Consensus size: 31
19115455 ATCACTTGTA
19115465 TTTTTTTTTGTT-ATTTAGCA-TA-TTAATT
1 TTTTTTTTTGTTAATTTAGCATTAGTTAATT
*
19115493 TTTTTTCTTTGTTAATTTTGCATTAGTTAATT
1 TTTTTT-TTTGTTAATTTAGCATTAGTTAATT
19115525 TTT
1 TTT
19115528 CATTTTCTCA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
28 6 0.20
29 6 0.20
30 7 0.23
31 2 0.07
32 9 0.30
ACGTcount: A:0.19, C:0.05, G:0.08, T:0.68
Consensus pattern (31 bp):
TTTTTTTTTGTTAATTTAGCATTAGTTAATT
Found at i:19119304 original size:24 final size:22
Alignment explanation
Indices: 19119266--19119402 Score: 64
Period size: 24 Copynumber: 5.8 Consensus size: 22
19119256 GATTTTTTTC
* * *
19119266 ATTACTATCATTATTTTTGTGTT
1 ATTATTAT-ATTATTATTCTGTT
19119289 ACTATATTATATTATTATTCTGTT
1 A-T-TATTATATTATTATTCTGTT
*
19119313 ATTATTATATGT-TATATTAC-ATT
1 ATTATTATAT-TAT-TATT-CTGTT
* *
19119336 AGTATGTTATATTATTACTAT-TATT
1 A-T-TATTATATTATTA-T-TCTGTT
* *
19119361 ATTACTTATATTATTATTATTATT
1 ATTA-TTATATTATTATT-CTGTT
19119385 ATTATTATTATTATTATT
1 ATTATTA-TATTATTATT
19119403 ATTATTACTA
Statistics
Matches: 93, Mismatches: 6, Indels: 29
0.73 0.05 0.23
Matches are distributed among these distances:
22 10 0.11
23 15 0.16
24 49 0.53
25 18 0.19
26 1 0.01
ACGTcount: A:0.31, C:0.05, G:0.04, T:0.60
Consensus pattern (22 bp):
ATTATTATATTATTATTCTGTT
Found at i:19119343 original size:18 final size:17
Alignment explanation
Indices: 19119316--19119349 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
19119306 TTCTGTTATT
19119316 ATTATATGTTATATTAC
1 ATTATATGTTATATTAC
19119333 ATTAGTATGTTATATTA
1 ATTA-TATGTTATATTA
19119350 TTACTATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.35, C:0.03, G:0.09, T:0.53
Consensus pattern (17 bp):
ATTATATGTTATATTAC
Found at i:19119360 original size:3 final size:3
Alignment explanation
Indices: 19119345--19119420 Score: 109
Period size: 3 Copynumber: 25.3 Consensus size: 3
19119335 TAGTATGTTA
*
19119345 TAT TAT TAC TAT TAT TAT TACT TA- TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT
* *
19119390 TAT TAT TAT TAT TAT TAT TAC TAT TCT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
19119421 TTACATTATT
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
2 2 0.03
3 60 0.92
4 3 0.05
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:19119362 original size:12 final size:12
Alignment explanation
Indices: 19119293--19119420 Score: 98
Period size: 12 Copynumber: 11.3 Consensus size: 12
19119283 TGTGTTACTA
19119293 TATTA-TATTAT
1 TATTACTATTAT
*
19119304 TATT-CTGTTAT
1 TATTACTATTAT
19119315 TATTA-TATGT-T
1 TATTACTAT-TAT
*
19119326 ATATTAC-ATTAG
1 -TATTACTATTAT
19119338 TATGT--TA-TAT
1 TAT-TACTATTAT
19119348 TATTACTATTAT
1 TATTACTATTAT
19119360 TATTAC--TTA-
1 TATTACTATTAT
*
19119369 TATTATTATTAT
1 TATTACTATTAT
*
19119381 TATTATTATTAT
1 TATTACTATTAT
*
19119393 TATTATTATTAT
1 TATTACTATTAT
*
19119405 TATTACTATTCT
1 TATTACTATTAT
19119417 TATT
1 TATT
19119421 TTACATTATT
Statistics
Matches: 96, Mismatches: 7, Indels: 27
0.74 0.05 0.21
Matches are distributed among these distances:
9 6 0.06
10 8 0.08
11 26 0.27
12 56 0.58
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.61
Consensus pattern (12 bp):
TATTACTATTAT
Found at i:19120233 original size:19 final size:19
Alignment explanation
Indices: 19120209--19120253 Score: 72
Period size: 19 Copynumber: 2.3 Consensus size: 19
19120199 GAAGCGTAGG
19120209 TTTTTATTTTTTCATTTTA
1 TTTTTATTTTTTCATTTTA
*
19120228 TTTTTATTTTTTGATTTTA
1 TTTTTATTTTTTCATTTTA
19120247 TATTTTA
1 T-TTTTA
19120254 AATTATTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 19 0.79
20 5 0.21
ACGTcount: A:0.18, C:0.02, G:0.02, T:0.78
Consensus pattern (19 bp):
TTTTTATTTTTTCATTTTA
Found at i:19120288 original size:13 final size:13
Alignment explanation
Indices: 19120209--19120292 Score: 53
Period size: 13 Copynumber: 5.8 Consensus size: 13
19120199 GAAGCGTAGG
19120209 TTTTTATTTT-TT
1 TTTTTATTTTATT
*
19120221 CATTTTATTTTTATT
1 -TTTTTA-TTTTATT
*
19120236 TTTTGATTTTATAT
1 TTTTTATTTTAT-T
19120250 TTTAAATTATTTTAAGCTT
1 TTT---TTATTTT-A--TT
*
19120269 ATTTTATTTTATT
1 TTTTTATTTTATT
19120282 TTTTTATTTTA
1 TTTTTATTTTA
19120293 CTGACTTTAT
Statistics
Matches: 56, Mismatches: 6, Indels: 18
0.70 0.08 0.22
Matches are distributed among these distances:
13 23 0.41
14 12 0.21
15 3 0.05
16 7 0.12
17 6 0.11
18 1 0.02
19 3 0.05
20 1 0.02
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.74
Consensus pattern (13 bp):
TTTTTATTTTATT
Found at i:19120319 original size:20 final size:20
Alignment explanation
Indices: 19120282--19120320 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
19120272 TTATTTTATT
* * *
19120282 TTTTTATTTTACTGACTTTA
1 TTTTTATTTGAATAACTTTA
19120302 TTTTTATTTGAATAACTTT
1 TTTTTATTTGAATAACTTT
19120321 TATTATTTTG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.23, C:0.08, G:0.05, T:0.64
Consensus pattern (20 bp):
TTTTTATTTGAATAACTTTA
Found at i:19120358 original size:22 final size:22
Alignment explanation
Indices: 19120317--19120359 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
19120307 ATTTGAATAA
19120317 CTTTTATTATTTTGTAAAAATT
1 CTTTTATTATTTTGTAAAAATT
*
19120339 CTTTCTATTATTTTTTAAAAA
1 CTTT-TATTATTTTGTAAAAA
19120360 CAAAAGAGGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.33, C:0.07, G:0.02, T:0.58
Consensus pattern (22 bp):
CTTTTATTATTTTGTAAAAATT
Found at i:19125008 original size:13 final size:13
Alignment explanation
Indices: 19124992--19125031 Score: 57
Period size: 12 Copynumber: 3.2 Consensus size: 13
19124982 TGTAAAAATT
19124992 AAAAAAAAAGG-A
1 AAAAAAAAAGGAA
19125004 AAAAAAAAA-GAA
1 AAAAAAAAAGGAA
19125016 AAAGAAAAAAGGAA
1 AAA-AAAAAAGGAA
19125030 AA
1 AA
19125032 CTTAAGCTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 1 0.04
12 13 0.52
13 6 0.24
14 5 0.20
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAGGAA
Found at i:19127204 original size:8 final size:8
Alignment explanation
Indices: 19127188--19127242 Score: 71
Period size: 8 Copynumber: 7.2 Consensus size: 8
19127178 TTGTATTTAA
19127188 TTTTAATT
1 TTTTAATT
*
19127196 TTTTGATT
1 TTTTAATT
*
19127204 TTTTGA-T
1 TTTTAATT
19127211 TTTTAATT
1 TTTTAATT
19127219 TTTTAA-T
1 TTTTAATT
19127226 TTTTAA-T
1 TTTTAATT
19127233 TTTTAATT
1 TTTTAATT
19127241 TT
1 TT
19127243 CTATTCTTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
7 20 0.47
8 23 0.53
ACGTcount: A:0.22, C:0.00, G:0.04, T:0.75
Consensus pattern (8 bp):
TTTTAATT
Found at i:19127213 original size:15 final size:15
Alignment explanation
Indices: 19127188--19127242 Score: 76
Period size: 15 Copynumber: 3.7 Consensus size: 15
19127178 TTGTATTTAA
*
19127188 TTTTAATTTTTTGATT
1 TTTTAA-TTTTTAATT
*
19127204 TTTTGATTTTTAATT
1 TTTTAATTTTTAATT
19127219 TTTTAATTTTTAA-T
1 TTTTAATTTTTAATT
19127233 TTTTAATTTT
1 TTTTAATTTT
19127243 CTATTCTTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
14 11 0.31
15 20 0.56
16 5 0.14
ACGTcount: A:0.22, C:0.00, G:0.04, T:0.75
Consensus pattern (15 bp):
TTTTAATTTTTAATT
Found at i:19127220 original size:6 final size:7
Alignment explanation
Indices: 19127183--19127242 Score: 68
Period size: 7 Copynumber: 8.3 Consensus size: 7
19127173 GTAATTTGTA
19127183 TTTAA-T
1 TTTAATT
19127189 TTTAATTT
1 TTTAA-TT
*
19127197 TTTGATTT
1 TTT-AATT
*
19127205 TTTGATT
1 TTTAATT
19127212 TTTAATTT
1 TTTAA-TT
19127220 TTTAATT
1 TTTAATT
19127227 TTTAATT
1 TTTAATT
19127234 TTTAATT
1 TTTAATT
19127241 TT
1 TT
19127243 CTATTCTTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
6 5 0.11
7 24 0.52
8 16 0.35
9 1 0.02
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.73
Consensus pattern (7 bp):
TTTAATT
Found at i:19127264 original size:15 final size:16
Alignment explanation
Indices: 19127239--19127268 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
19127229 TAATTTTTAA
19127239 TTTTCTATTCTTTTTC
1 TTTTCTATTCTTTTTC
19127255 TTTT-TATTCTTTTT
1 TTTTCTATTCTTTTT
19127269 TATGTTTTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.07, C:0.13, G:0.00, T:0.80
Consensus pattern (16 bp):
TTTTCTATTCTTTTTC
Found at i:19128050 original size:11 final size:11
Alignment explanation
Indices: 19128034--19128058 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
19128024 TAAAATCTGA
19128034 AAATTTTCTAG
1 AAATTTTCTAG
19128045 AAATTTTCTAG
1 AAATTTTCTAG
19128056 AAA
1 AAA
19128059 AAAATTGCTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (11 bp):
AAATTTTCTAG
Found at i:19128082 original size:20 final size:20
Alignment explanation
Indices: 19128057--19128094 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
19128047 ATTTTCTAGA
*
19128057 AAAAAATTGCTAAAAATTTG
1 AAAAAATTCCTAAAAATTTG
19128077 AAAAAATTCCTAAAAATT
1 AAAAAATTCCTAAAAATT
19128095 ATAGGATTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.58, C:0.08, G:0.05, T:0.29
Consensus pattern (20 bp):
AAAAAATTCCTAAAAATTTG
Found at i:19128600 original size:42 final size:42
Alignment explanation
Indices: 19128479--19128870 Score: 264
Period size: 41 Copynumber: 9.4 Consensus size: 42
19128469 TTGTTTTTTT
* * * *
19128479 TTTTGAAAAAGTAAACAAAACTCCTTTAAACA-AAGGCTCAATGAC
1 TTTTGAAAAA-T-AA-AATACTCCTTTAAACAGAA-GCACCATAAC
* * * *
19128524 TTTTG-AAAATAAATTAAGCTTCTGTAAATAGAAGCACCATAAC
1 TTTTGAAAAATAAAAT-A-CTCCTTTAAACAGAAGCACCATAAC
*
19128567 TTTTGAAAAATAAAATACTCCTTTAAATAGAAGCACCATAAC
1 TTTTGAAAAATAAAATACTCCTTTAAACAGAAGCACCATAAC
** * * * *
19128609 TTTTG-AAAATAAAATGTTCCTATAAACAGAGGCACCACAAT
1 TTTTGAAAAATAAAATACTCCTTTAAACAGAAGCACCATAAC
* * * * * *
19128650 TTTTGAAAAATAAATTACTTCTTTAAACAAAAGCTCAACAAC
1 TTTTGAAAAATAAAATACTCCTTTAAACAGAAGCACCATAAC
* * * *
19128692 TTTTG-AAATTAAATTGCT-CTTCTAAACA-AAGGCACCACAAC
1 TTTTGAAAAATAAAATACTCCTT-TAAACAGAA-GCACCATAAC
* *
19128733 TTTTGAAAAATAAAATACTCCTCTAAACAGAGGCACCATAAC
1 TTTTGAAAAATAAAATACTCCTTTAAACAGAAGCACCATAAC
* * ** * * *
19128775 -TTTGAAAAGTAAAATGCTCCTCCATATAGAGGCACCATAA-
1 TTTTGAAAAATAAAATACTCCTTTAAACAGAAGCACCATAAC
* * * * *
19128815 ATTTGAAAATTAAAATGCTTCTTTAAACA-AAGGCACCACAA-
1 TTTTGAAAAATAAAATACTCCTTTAAACAGAA-GCACCATAAC
* *
19128856 GTTTGAAAAGTAAAA
1 TTTTGAAAAATAAAA
19128871 AGCTCATTGA
Statistics
Matches: 282, Mismatches: 53, Indels: 28
0.78 0.15 0.08
Matches are distributed among these distances:
40 6 0.02
41 143 0.51
42 87 0.31
43 26 0.09
44 15 0.05
45 5 0.02
ACGTcount: A:0.45, C:0.17, G:0.10, T:0.27
Consensus pattern (42 bp):
TTTTGAAAAATAAAATACTCCTTTAAACAGAAGCACCATAAC
Found at i:19128618 original size:24 final size:24
Alignment explanation
Indices: 19128549--19128619 Score: 59
Period size: 24 Copynumber: 3.2 Consensus size: 24
19128539 AAGCTTCTGT
19128549 AAATAGAAGCACCATAACTTTTGA
1 AAATAGAAGCACCATAACTTTTGA
*
19128573 AAA-ATAA--A--AT-ACTCCTTT--
1 AAATAGAAGCACCATAACT--TTTGA
19128591 AAATAGAAGCACCATAACTTTTGA
1 AAATAGAAGCACCATAACTTTTGA
19128615 AAATA
1 AAATA
19128620 AAATGTTCCT
Statistics
Matches: 35, Mismatches: 2, Indels: 20
0.61 0.04 0.35
Matches are distributed among these distances:
18 6 0.17
19 5 0.14
20 3 0.09
21 2 0.06
22 3 0.09
23 5 0.14
24 11 0.31
ACGTcount: A:0.49, C:0.15, G:0.08, T:0.27
Consensus pattern (24 bp):
AAATAGAAGCACCATAACTTTTGA
Found at i:19128644 original size:41 final size:41
Alignment explanation
Indices: 19128522--19128875 Score: 273
Period size: 41 Copynumber: 8.5 Consensus size: 41
19128512 AGGCTCAATG
* * * * * *
19128522 ACTTTTGAAAATAAATTAAGCTTCTGTAAATAGAAGCACCATA
1 ACTTTTGAAAATAAA--ATGCTCCTCTAAACAGAGGCACCACA
* * * * *
19128565 ACTTTTGAAAAATAAAATACTCCTTTAAATAGAAGCACCATA
1 ACTTTTG-AAAATAAAATGCTCCTCTAAACAGAGGCACCACA
* *
19128607 ACTTTTGAAAATAAAATGTTCCTATAAACAGAGGCACCACA
1 ACTTTTGAAAATAAAATGCTCCTCTAAACAGAGGCACCACA
* * * * * * * * *
19128648 ATTTTTGAAAAATAAATTACTTCTTTAAACAAAAGCTCAACA
1 ACTTTTG-AAAATAAAATGCTCCTCTAAACAGAGGCACCACA
* * * *
19128690 ACTTTTGAAATTAAATTGCTCTTCTAAACAAAGGCACCACA
1 ACTTTTGAAAATAAAATGCTCCTCTAAACAGAGGCACCACA
* *
19128731 ACTTTTGAAAAATAAAATACTCCTCTAAACAGAGGCACCATA
1 ACTTTTG-AAAATAAAATGCTCCTCTAAACAGAGGCACCACA
* * * *
19128773 AC-TTTGAAAAGTAAAATGCTCCTCCATATAGAGGCACCATA
1 ACTTTTGAAAA-TAAAATGCTCCTCTAAACAGAGGCACCACA
* * * *
19128814 A-ATTTGAAAATTAAAATGCTTCTTTAAACAAAGGCACCACA
1 ACTTTTGAAAA-TAAAATGCTCCTCTAAACAGAGGCACCACA
* *
19128855 A-GTTTGAAAAGTAAAAAGCTC
1 ACTTTTGAAAA-TAAAATGCTC
19128876 ATTGATGATC
Statistics
Matches: 255, Mismatches: 51, Indels: 12
0.80 0.16 0.04
Matches are distributed among these distances:
40 4 0.02
41 146 0.57
42 90 0.35
43 7 0.03
44 8 0.03
ACGTcount: A:0.44, C:0.18, G:0.10, T:0.27
Consensus pattern (41 bp):
ACTTTTGAAAATAAAATGCTCCTCTAAACAGAGGCACCACA
Found at i:19128675 original size:83 final size:83
Alignment explanation
Indices: 19128479--19128875 Score: 345
Period size: 83 Copynumber: 4.7 Consensus size: 83
19128469 TTGTTTTTTT
* * * * *
19128479 TTTTGAAAAAGTAAACAAAACTCCTTTAAACA-AAGGCTCAATGACTTTTGAAAATAAATTAAGC
1 TTTTGAAAAA-T-AA-AATACTCCTTTAAACAGAA-GCACCATAACTTTTGAAAATAAA--ATGC
* * * * *
19128543 TTCTGTAAATAGAAGCACCATAAC
60 TCCTCTAAACAGAGGCACCACAAC
* * *
19128567 TTTTGAAAAATAAAATACTCCTTTAAATAGAAGCACCATAACTTTTGAAAATAAAATGTTCCTAT
1 TTTTGAAAAATAAAATACTCCTTTAAACAGAAGCACCATAACTTTTGAAAATAAAATGCTCCTCT
*
19128632 AAACAGAGGCACCACAAT
66 AAACAGAGGCACCACAAC
* * * * * * * * *
19128650 TTTTGAAAAATAAATTACTTCTTTAAACAAAAGCTCAACAACTTTTGAAATTAAATTGCTCTTCT
1 TTTTGAAAAATAAAATACTCCTTTAAACAGAAGCACCATAACTTTTGAAAATAAAATGCTCCTCT
*
19128715 AAACAAAGGCACCACAAC
66 AAACAGAGGCACCACAAC
* *
19128733 TTTTGAAAAATAAAATACTCCTCTAAACAGAGGCACCATAAC-TTTGAAAAGTAAAATGCTCCTC
1 TTTTGAAAAATAAAATACTCCTTTAAACAGAAGCACCATAACTTTTGAAAA-TAAAATGCTCCTC
* * * *
19128797 CATATAGAGGCACCATAA-
65 TAAACAGAGGCACCACAAC
* * * * * * *
19128815 ATTTGAAAATTAAAATGCTTCTTTAAACA-AAGGCACCACAA-GTTTGAAAAGTAAAAAGCTC
1 TTTTGAAAAATAAAATACTCCTTTAAACAGAA-GCACCATAACTTTTGAAAA-TAAAATGCTC
19128876 ATTGATGATC
Statistics
Matches: 254, Mismatches: 51, Indels: 14
0.80 0.16 0.04
Matches are distributed among these distances:
81 1 0.00
82 57 0.22
83 147 0.58
85 34 0.13
86 4 0.02
87 1 0.00
88 10 0.04
ACGTcount: A:0.45, C:0.18, G:0.11, T:0.27
Consensus pattern (83 bp):
TTTTGAAAAATAAAATACTCCTTTAAACAGAAGCACCATAACTTTTGAAAATAAAATGCTCCTCT
AAACAGAGGCACCACAAC
Found at i:19129181 original size:20 final size:20
Alignment explanation
Indices: 19129144--19129181 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
19129134 CATATCCAAA
*
19129144 ATTTCAAAGCTTCTCATTCG
1 ATTTCAAAGCTTCACATTCG
*
19129164 ATTTCAAAGGTTCACATT
1 ATTTCAAAGCTTCACATT
19129182 TGACAAATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.29, C:0.21, G:0.11, T:0.39
Consensus pattern (20 bp):
ATTTCAAAGCTTCACATTCG
Found at i:19129269 original size:43 final size:43
Alignment explanation
Indices: 19129196--19129288 Score: 111
Period size: 43 Copynumber: 2.2 Consensus size: 43
19129186 AAATTTGGGG
* *
19129196 TTCACATCCAAAAAGTTTAAGCTATTTCATTTGAATTTTAGAGA
1 TTCACATCCAAAAAGTTAAAGCTATTTCATTTGAATTTGA-AGA
*
19129240 TTCACATCC-AAAAGTTCAAAG-T-TTCTCATTTGAGTTTGAAGA
1 TTCACATCCAAAAAGTT-AAAGCTATT-TCATTTGAATTTGAAGA
19129282 TTCACAT
1 TTCACAT
19129289 TCGACAAATT
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
42 12 0.27
43 20 0.45
44 12 0.27
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.38
Consensus pattern (43 bp):
TTCACATCCAAAAAGTTAAAGCTATTTCATTTGAATTTGAAGA
Found at i:19129789 original size:79 final size:78
Alignment explanation
Indices: 19129696--19129959 Score: 267
Period size: 79 Copynumber: 3.3 Consensus size: 78
19129686 GCTTCTCAAC
* *
19129696 ATTTTAGAACAAATTTTGTCAATTGATCCTGATTATTTTCATCACTTGATCACCATTCATAGGCT
1 ATTTTAGAATAAATTTTGTCAATTGATCCT-ATTATTTTCATCACTTGATCACCATTCACAGGCT
*
19129761 TTTCAACACTAGCA
65 TTTCAGCACTAGCA
* * * *
19129775 ATTTTAGAGTAAATTTTGTCAATTGATCCATATTATGTTCATCACTTGATCACTATTCACAAGCT
1 ATTTTAGAATAAATTTTGTCAATTGATCC-TATTATTTTCATCACTTGATCACCATTCACAGGCT
* *
19129840 TCTCAGCACTAACA
65 TTTCAGCACTAGCA
** * * * * * * * *
19129854 ATTCCAAAATGAATTTTATCCATTGATCCACATTATTTTCATCATTTGACCACCATTGACAGGCT
1 ATTTTAGAATAAATTTTGTCAATTGATCC-TATTATTTTCATCACTTGATCACCATTCACAGGCT
* *
19129919 TTTTAGCACTAGCC
65 TTTCAGCACTAGCA
** * * *
19129933 ATTCCAAAATAAATTTTTTCCATTGAT
1 ATTTTAGAATAAATTTTGTCAATTGAT
19129960 TCTCATCATT
Statistics
Matches: 155, Mismatches: 29, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
79 154 0.99
80 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.09, T:0.39
Consensus pattern (78 bp):
ATTTTAGAATAAATTTTGTCAATTGATCCTATTATTTTCATCACTTGATCACCATTCACAGGCTT
TTCAGCACTAGCA
Found at i:19130556 original size:11 final size:10
Alignment explanation
Indices: 19130540--19130596 Score: 53
Period size: 10 Copynumber: 5.8 Consensus size: 10
19130530 CATTTTCATA
*
19130540 TTTTTTATAT
1 TTTTTTTTAT
* *
19130550 TTTTTTTCAC
1 TTTTTTTTAT
19130560 TTTTTTTT-T
1 TTTTTTTTAT
*
19130569 TTTTTTTTCT
1 TTTTTTTTAT
* *
19130579 TTTTGTTTCT
1 TTTTTTTTAT
19130589 TTTTTTTT
1 TTTTTTTT
19130597 TCCATCTTTC
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
9 8 0.21
10 31 0.79
ACGTcount: A:0.05, C:0.07, G:0.02, T:0.86
Consensus pattern (10 bp):
TTTTTTTTAT
Found at i:19130573 original size:10 final size:10
Alignment explanation
Indices: 19130549--19130596 Score: 62
Period size: 10 Copynumber: 4.8 Consensus size: 10
19130539 ATTTTTTATA
*
19130549 TTTTTTTTCAC
1 TTTTTTTTC-T
19130560 TTTTTTTT-T
1 TTTTTTTTCT
19130569 TTTTTTTTCT
1 TTTTTTTTCT
*
19130579 TTTTGTTTCT
1 TTTTTTTTCT
19130589 TTTTTTTT
1 TTTTTTTT
19130597 TCCATCTTTC
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
9 8 0.24
10 17 0.52
11 8 0.24
ACGTcount: A:0.02, C:0.08, G:0.02, T:0.88
Consensus pattern (10 bp):
TTTTTTTTCT
Found at i:19130591 original size:20 final size:18
Alignment explanation
Indices: 19130549--19130596 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
19130539 ATTTTTTATA
**
19130549 TTTTTTTTCACTTTTTTT
1 TTTTTTTTTTCTTTTTTT
19130567 TTTTTTTTTTCTTTTTGTT
1 TTTTTTTTTTCTTTTT-TT
19130586 TCTTTTTTTTT
1 T-TTTTTTTTT
19130597 TCCATCTTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 14 0.54
19 3 0.12
20 9 0.35
ACGTcount: A:0.02, C:0.08, G:0.02, T:0.88
Consensus pattern (18 bp):
TTTTTTTTTTCTTTTTTT
Found at i:19134531 original size:6 final size:7
Alignment explanation
Indices: 19134511--19134536 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
19134501 AAAAGTTTAA
19134511 TTATTTT
1 TTATTTT
19134518 TTATTTT
1 TTATTTT
19134525 TTATTTT
1 TTATTTT
19134532 TTATT
1 TTATT
19134537 GAAAATATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
TTATTTT
Found at i:19135756 original size:19 final size:19
Alignment explanation
Indices: 19135714--19135762 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
19135704 AAAATGGATG
*
19135714 CCGAAAACTAGAAGCTTCG
1 CCGAAAACTAGAAGCTTCA
*
19135733 TCGAAAACTAGAAGCTTCA
1 CCGAAAACTAGAAGCTTCA
*
19135752 CCGAAATCTAG
1 CCGAAAACTAG
19135763 GAAAGTTGCC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.39, C:0.24, G:0.18, T:0.18
Consensus pattern (19 bp):
CCGAAAACTAGAAGCTTCA
Found at i:19136456 original size:3 final size:3
Alignment explanation
Indices: 19136443--19136579 Score: 99
Period size: 3 Copynumber: 46.3 Consensus size: 3
19136433 TGTATTACTA
* * *
19136443 TAT TA- TAT TAT TATT TGT TAT TAT TAT ATGT TA- TAT TA- TAT TAC
1 TAT TAT TAT TAT TA-T TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT
*
19136487 TAT TA- TAT TA- TAT TAGT GTAT TA- TAT TAT TAC TAT TAT TAT TACT
1 TAT TAT TAT TAT TAT TA-T -TAT TAT TAT TAT TAT TAT TAT TAT TA-T
* * * * *
19136532 TA- TAT AAT AAT AAT AAT GAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
19136579 T
1 T
19136580 TTACGTTATT
Statistics
Matches: 111, Mismatches: 11, Indels: 24
0.76 0.08 0.16
Matches are distributed among these distances:
2 14 0.13
3 86 0.77
4 9 0.08
5 2 0.02
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:19136464 original size:13 final size:13
Alignment explanation
Indices: 19136435--19136572 Score: 58
Period size: 13 Copynumber: 10.7 Consensus size: 13
19136425 ATTATTTTTG
*
19136435 TATTACTATAT-T
1 TATTATTATATGT
*
19136447 ATATTATTATTTGT
1 -TATTATTATATGT
19136461 TATTATTATATGT
1 TATTATTATATGT
19136474 TA-TATTATA--T
1 TATTATTATATGT
*
19136484 TACTATTATAT-T
1 TATTATTATATGT
* *
19136496 ATATTAGTGTAT-T
1 -TATTATTATATGT
*
19136509 ATATTATTACTATTAT
1 -TATTATTA-TA-TGT
**
19136525 TATTACTTATATAA
1 TATTA-TTATATGT
* *
19136539 TAATAATA-ATGAT
1 TATTATTATATG-T
*
19136552 TATTATTAT-TAT
1 TATTATTATATGT
19136564 TATTATTAT
1 TATTATTAT
19136573 TATTATTTTA
Statistics
Matches: 99, Mismatches: 16, Indels: 21
0.73 0.12 0.15
Matches are distributed among these distances:
10 3 0.03
11 7 0.07
12 20 0.20
13 48 0.48
14 9 0.09
15 8 0.08
16 4 0.04
ACGTcount: A:0.36, C:0.03, G:0.04, T:0.57
Consensus pattern (13 bp):
TATTATTATATGT
Found at i:19136495 original size:44 final size:44
Alignment explanation
Indices: 19136435--19136579 Score: 122
Period size: 44 Copynumber: 3.3 Consensus size: 44
19136425 ATTATTTTTG
* * *
19136435 TATTACTA-TATTATATTATTATTTGT-TATTATTATATGTTA-TAT
1 TATTATTACTATTATATTA-TATTAGTGTATTA-TAT-TATTACTAT
19136479 TA-TATTACTATTATATTATATTAGTGTATTATATTATTACTAT
1 TATTATTACTATTATATTATATTAGTGTATTATATTATTACTAT
* * * *
19136522 TATTATTACT-TATATAATAATAATAATG-ATTATTATTATTATTAT
1 TATTATTACTAT-TAT-ATTATATTAGTGTATTA-TATTATTACTAT
*
19136567 TATTATTATTATT
1 TATTATTACTATT
19136580 TTACGTTATT
Statistics
Matches: 85, Mismatches: 8, Indels: 15
0.79 0.07 0.14
Matches are distributed among these distances:
42 4 0.05
43 19 0.22
44 31 0.36
45 30 0.35
46 1 0.01
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.58
Consensus pattern (44 bp):
TATTATTACTATTATATTATATTAGTGTATTATATTATTACTAT
Found at i:19137361 original size:19 final size:19
Alignment explanation
Indices: 19137334--19137376 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
19137324 GAAGTACAGG
*
19137334 TTTTCTTTTTCCATTTTAT
1 TTTTATTTTTCCATTTTAT
**
19137353 TTTTATTTTTTGATTTTAT
1 TTTTATTTTTCCATTTTAT
19137372 TTTTA
1 TTTTA
19137377 AAATTATTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.14, C:0.07, G:0.02, T:0.77
Consensus pattern (19 bp):
TTTTATTTTTCCATTTTAT
Found at i:19137432 original size:20 final size:19
Alignment explanation
Indices: 19137395--19137459 Score: 55
Period size: 18 Copynumber: 3.5 Consensus size: 19
19137385 TTAAGCTTAT
**
19137395 TTTA-TTTTATTTTTATAA
1 TTTATTTTTATTTGAATAA
19137413 CTTTATTTTTATTTGAATAA
1 -TTTATTTTTATTTGAATAA
*
19137433 TTT-TTATTATTTGTAA-AA
1 TTTATTTTTATTTG-AATAA
*
19137451 ATTATTTTT
1 TTTATTTTT
19137460 GTTATTTTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
18 13 0.34
19 13 0.34
20 12 0.32
ACGTcount: A:0.29, C:0.02, G:0.03, T:0.66
Consensus pattern (19 bp):
TTTATTTTTATTTGAATAA
Found at i:19141302 original size:18 final size:19
Alignment explanation
Indices: 19141258--19141309 Score: 79
Period size: 18 Copynumber: 2.7 Consensus size: 19
19141248 TTGTTTTAGT
*
19141258 TTTTTTGTACTATTTATGTA
1 TTTTTTGCAC-ATTTATGTA
19141278 TTTTTTGCACATTTATGTA
1 TTTTTTGCACATTTATGTA
19141297 -TTTTTGCACATTT
1 TTTTTTGCACATTT
19141310 TTCTTCACCC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
18 13 0.42
19 9 0.29
20 9 0.29
ACGTcount: A:0.19, C:0.10, G:0.10, T:0.62
Consensus pattern (19 bp):
TTTTTTGCACATTTATGTA
Found at i:19141699 original size:15 final size:12
Alignment explanation
Indices: 19141666--19141692 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
19141656 AGTTTGCATT
19141666 TTAGTCTAGTTA
1 TTAGTCTAGTTA
19141678 TTAGTCTAGTTA
1 TTAGTCTAGTTA
19141690 TTA
1 TTA
19141693 TGTGTCTTTG
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:0.26, C:0.07, G:0.15, T:0.52
Consensus pattern (12 bp):
TTAGTCTAGTTA
Found at i:19144664 original size:20 final size:19
Alignment explanation
Indices: 19144628--19144683 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 19
19144618 TTGGAGAATT
* *
19144628 ATAAAAAATTAAAAAAAGA
1 ATAAAAAAATAATAAAAGA
*
19144647 ATAAAAAAGATAATAAAATA
1 ATAAAAAA-ATAATAAAAGA
*
19144667 ATAATAATAATAATAAA
1 ATAA-AAAAATAATAAA
19144684 TTTTCATAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
19 8 0.26
20 20 0.65
21 3 0.10
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.21
Consensus pattern (19 bp):
ATAAAAAAATAATAAAAGA
Found at i:19144838 original size:14 final size:14
Alignment explanation
Indices: 19144801--19144832 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
19144791 TGTTTTTTTT
19144801 AAACCTTAAAATCA
1 AAACCTTAAAATCA
*
19144815 AAACCTTAAAATTA
1 AAACCTTAAAATCA
19144829 AAAC
1 AAAC
19144833 GCTAAACCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.59, C:0.19, G:0.00, T:0.22
Consensus pattern (14 bp):
AAACCTTAAAATCA
Found at i:19145024 original size:29 final size:29
Alignment explanation
Indices: 19144992--19145060 Score: 79
Period size: 29 Copynumber: 2.3 Consensus size: 29
19144982 CCCTGAGACC
19144992 AAACCCTAAAATCCTTAAAACTC-AAA-TCA
1 AAACCCTAAAATCC--AAAACTCAAAACTCA
*
19145021 AAACCCTAAACTCCAAAACTCTAAAATCTCA
1 AAACCCTAAAATCCAAAACTC-AAAA-CTCA
19145052 AAACCCTAA
1 AAACCCTAA
19145061 CTTTTAAAAG
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
27 7 0.20
29 16 0.46
31 12 0.34
ACGTcount: A:0.51, C:0.30, G:0.00, T:0.19
Consensus pattern (29 bp):
AAACCCTAAAATCCAAAACTCAAAACTCA
Found at i:19145037 original size:15 final size:16
Alignment explanation
Indices: 19145018--19145060 Score: 61
Period size: 15 Copynumber: 2.8 Consensus size: 16
19145008 AAAACTCAAA
*
19145018 TCAAAACCCTAAACTC
1 TCAAAACCCTAAAATC
*
19145034 -CAAAACTCTAAAATC
1 TCAAAACCCTAAAATC
19145049 TCAAAACCCTAA
1 TCAAAACCCTAA
19145061 CTTTTAAAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
15 13 0.57
16 10 0.43
ACGTcount: A:0.49, C:0.33, G:0.00, T:0.19
Consensus pattern (16 bp):
TCAAAACCCTAAAATC
Found at i:19150311 original size:11 final size:11
Alignment explanation
Indices: 19150295--19150319 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
19150285 AATAATTTAA
19150295 AAAAAAAACAT
1 AAAAAAAACAT
19150306 AAAAAAAACAT
1 AAAAAAAACAT
19150317 AAA
1 AAA
19150320 GATTTTTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.84, C:0.08, G:0.00, T:0.08
Consensus pattern (11 bp):
AAAAAAAACAT
Found at i:19151941 original size:33 final size:33
Alignment explanation
Indices: 19151899--19152134 Score: 116
Period size: 33 Copynumber: 7.2 Consensus size: 33
19151889 GCCTTCAATG
*
19151899 AGATTTAAGCCCAGTTTATCTAGCACTAAAGAA
1 AGATTTAAGCCCAGTTTATCTAGCACCAAAGAA
* *
19151932 AGATTTAAGCCCTAGATTAGT-TGGCA-CAAA-AA
1 AGATTTAAGCCC-AGTTTA-TCTAGCACCAAAGAA
* * * * *
19151964 A-TTCTTAAGCCTAGTTTAGT-TGGCCCTCAATG--
1 AGAT-TTAAGCCCAGTTTA-TCTAGCAC-CAAAGAA
* *
19151996 AGATTTAAGTCCAGTTTATCTAACACCAAAGAA
1 AGATTTAAGCCCAGTTTATCTAGCACCAAAGAA
* * * *
19152029 AGATTTAATCCTAGTTTAGCTGGTC-CCAAATG-A
1 AGATTTAAGCCCAGTTTATCTAG-CACCAAA-GAA
* * *** *
19152062 AGTTTTAAGCCCAGTTTAACTAGTC-TTTAAG-G
1 AGATTTAAGCCCAGTTTATCTAG-CACCAAAGAA
** *
19152094 AGATTTAAGCTTAGTTTATCTAACACCAAAGAA
1 AGATTTAAGCCCAGTTTATCTAGCACCAAAGAA
19152127 AGATTTAA
1 AGATTTAA
19152135 TCCTAACTTA
Statistics
Matches: 150, Mismatches: 39, Indels: 28
0.69 0.18 0.13
Matches are distributed among these distances:
31 18 0.12
32 48 0.32
33 72 0.48
34 11 0.07
35 1 0.01
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.31
Consensus pattern (33 bp):
AGATTTAAGCCCAGTTTATCTAGCACCAAAGAA
Found at i:19152004 original size:32 final size:32
Alignment explanation
Indices: 19151869--19152013 Score: 86
Period size: 32 Copynumber: 4.5 Consensus size: 32
19151859 TTTGCATAAA
** *
19151869 ATTTAAGCCTAGTTTAACTGGCCTTCAATGAG
1 ATTTAAGCCTAGTTTAGTTGGCCCTCAATGAG
* * * *
19151901 ATTTAAGCCCAGTTTA-TCTAGCACT-AAAGAAAG
1 ATTTAAGCCTAGTTTAGT-TGGCCCTCAATG--AG
* * * *
19151934 ATTTAAGCCCTAGATTAGTTGG--CACAA-AAA
1 ATTTAAG-CCTAGTTTAGTTGGCCCTCAATGAG
19151964 ATTCTTAAGCCTAGTTTAGTTGGCCCTCAATGAG
1 A-T-TTAAGCCTAGTTTAGTTGGCCCTCAATGAG
19151998 ATTTAAGTCC-AGTTTA
1 ATTTAAG-CCTAGTTTA
19152014 TCTAACACCA
Statistics
Matches: 85, Mismatches: 16, Indels: 24
0.68 0.13 0.19
Matches are distributed among these distances:
30 2 0.02
31 17 0.20
32 36 0.42
33 18 0.21
34 11 0.13
35 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Consensus pattern (32 bp):
ATTTAAGCCTAGTTTAGTTGGCCCTCAATGAG
Found at i:19152110 original size:98 final size:97
Alignment explanation
Indices: 19151870--19152177 Score: 354
Period size: 98 Copynumber: 3.2 Consensus size: 97
19151860 TTGCATAAAA
* * * *
19151870 TTTAAGCCTAGTTTAACTGGCCTTCAATGAGATTTAAGCCCAGTTTATCTAGCACTAAAGAAAGA
1 TTTAAGCCCAGTTTAACTGGCCTTCAATGAGATTTAAGCTCAGTTTATCTAACACCAAAGAAAGA
* * * *
19151935 TTTAAGCCCTAGATTAGTTGGCACAAA--AAAT
66 TTTAA-TCCTAGATTAGCTGGCCCAAATGAAGT
* ** *
19151966 TCTTAAGCCTAGTTTAGTTGGCCCTCAATGAGATTTAAG-TCCAGTTTATCTAACACCAAAGAAA
1 T-TTAAGCCCAGTTTAACTGGCCTTCAATGAGATTTAAGCT-CAGTTTATCTAACACCAAAGAAA
*
19152030 GATTTAATCCTAGTTTAGCTGGTCCCAAATGAAGT
64 GATTTAATCCTAGATTAGCTGG-CCCAAATGAAGT
* * * * *
19152065 TTTAAGCCCAGTTTAACTAGTCTTTAAGGAGATTTAAGCTTAGTTTATCTAACACCAAAGAAAGA
1 TTTAAGCCCAGTTTAACTGGCCTTCAATGAGATTTAAGCTCAGTTTATCTAACACCAAAGAAAGA
*
19152130 TTTAATCCTA-ACTTAGCTAGCCCAAAATGAAGT
66 TTTAATCCTAGA-TTAGCTGGCCC-AAATGAAGT
*
19152163 TTTAAACCCAGTTTA
1 TTTAAGCCCAGTTTA
19152178 GTTCGCTCTC
Statistics
Matches: 181, Mismatches: 23, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
96 13 0.07
97 70 0.39
98 93 0.51
99 5 0.03
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (97 bp):
TTTAAGCCCAGTTTAACTGGCCTTCAATGAGATTTAAGCTCAGTTTATCTAACACCAAAGAAAGA
TTTAATCCTAGATTAGCTGGCCCAAATGAAGT
Found at i:19152273 original size:33 final size:33
Alignment explanation
Indices: 19152236--19152307 Score: 108
Period size: 33 Copynumber: 2.2 Consensus size: 33
19152226 TAAGCACTAG
*
19152236 TGAAAGTTAAAGCCCAGTTTATTTGGCCCTTAA
1 TGAAAGTTAAAGCCCAGTTTATTTGGCCCTCAA
* *
19152269 TGAAATTTTAAGCCCAGTTTATTTGGCCCTCAA
1 TGAAAGTTAAAGCCCAGTTTATTTGGCCCTCAA
*
19152302 AGAAAG
1 TGAAAG
19152308 ATTTAAGCGT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (33 bp):
TGAAAGTTAAAGCCCAGTTTATTTGGCCCTCAA
Found at i:19152322 original size:34 final size:33
Alignment explanation
Indices: 19152245--19152324 Score: 106
Period size: 33 Copynumber: 2.4 Consensus size: 33
19152235 GTGAAAGTTA
* * *
19152245 AAGCCCAGTTTATTTGGCCCTTAATGAAATTTT
1 AAGCCCAGTTTATTTGGCCCTCAAAGAAAATTT
19152278 AAGCCCAGTTTATTTGGCCCTCAAAGAAAGATTT
1 AAGCCCAGTTTATTTGGCCCTCAAAGAAA-ATTT
**
19152312 AAGCGTAGTTTAT
1 AAGCCCAGTTTAT
19152325 CTAGTACCAA
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
33 27 0.66
34 14 0.34
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.35
Consensus pattern (33 bp):
AAGCCCAGTTTATTTGGCCCTCAAAGAAAATTT
Found at i:19152442 original size:36 final size:36
Alignment explanation
Indices: 19152395--19152871 Score: 216
Period size: 37 Copynumber: 13.0 Consensus size: 36
19152385 ACTTTATTTG
* *
19152395 ACTTGTGGTGTTGTCCCAATCGATTCTTTATTTTTT
1 ACTTGCGGTGTTGTCCCAGTCGATTCTTTATTTTTT
* * *
19152431 ACTTGCCGTGTTGTCTC-GATCGACTCTTTATTTTTT
1 ACTTGCGGTGTTGTCCCAG-TCGATTCTTTATTTTTT
* * *** *
19152467 GATTTACGGTGTTGTCTTGGTCG-TTCTTGT-TTATTTG
1 -ACTTGCGGTGTTGTCCCAGTCGATTCTT-TATT-TTTT
* * * * * *
19152504 ACTTGTGGTATTGTCCTAGTTGATTCTTTAACTTTTG
1 ACTTGCGGTGTTGTCCCAGTCGATTCTTT-ATTTTTT
* * *
19152541 ACTTACGGTGTTATCCCGGTCGA-TCTTTATTTTTT
1 ACTTGCGGTGTTGTCCCAGTCGATTCTTTATTTTTT
* * * * *
19152576 GACTTGCGATGTTATCCCAGTCGAATCTTTATCTTCTG
1 -ACTTGCGGTGTTGTCCCAGTCGATTCTTTAT-TTTTT
* * *
19152614 ACTTGTGGTGTTGTTCC-GATTGATTCTTTATTTTTTT
1 ACTTGCGGTGTTGTCCCAG-TCGATTCTTTA-TTTTTT
* * * * *
19152651 ACTTGTGATGTTGTCTCAGTCGATTCTTTATCTTCTG
1 ACTTGCGGTGTTGTCCCAGTCGATTCTTTAT-TTTTT
* * * **
19152688 ACTTGTGATGTTGTCCTAGTTTTTATT-TTTATTTTTT
1 ACTTGCGGTGTTGTCCCAG--TCGATTCTTTATTTTTT
* * * * *
19152725 AACTTGCGATATTGTCCTAGTTGACTCTTCTTATTTTTT
1 -ACTTGCGGTGTTGTCCCAGTCGATTC-T-TTATTTTTT
** * *
19152764 AACTTATGGTGTTGTCTC-GATCG-TTCTTTACTTTTTG
1 -ACTTGCGGTGTTGTCCCAG-TCGATTCTTTA-TTTTTT
* * *
19152801 ACTTGCGATGTTG-CCCAATCGATTCTTTACTTTTTG
1 ACTTGCGGTGTTGTCCCAGTCGATTCTTTA-TTTTTT
* * ** **
19152837 ACTTGTGATGTTGTCTTAGTTAATTCTTTATTTTT
1 ACTTGCGGTGTTGTCCCAGTCGATTCTTTATTTTT
19152872 CTCACTCGTG
Statistics
Matches: 338, Mismatches: 77, Indels: 52
0.72 0.16 0.11
Matches are distributed among these distances:
35 10 0.03
36 127 0.38
37 141 0.42
38 33 0.10
39 27 0.08
ACGTcount: A:0.14, C:0.16, G:0.18, T:0.52
Consensus pattern (36 bp):
ACTTGCGGTGTTGTCCCAGTCGATTCTTTATTTTTT
Found at i:19152479 original size:37 final size:36
Alignment explanation
Indices: 19152401--19152483 Score: 103
Period size: 36 Copynumber: 2.3 Consensus size: 36
19152391 TTTGACTTGT
* * *
19152401 GGTGTTGTCCCAATCGATTCTTTATTTTTTACTTGC
1 GGTGTTGTCTCAATCGACTCTTTATTTTTTACTTAC
* * *
19152437 CGTGTTGTCTCGATCGACTCTTTATTTTTTGATTTAC
1 GGTGTTGTCTCAATCGACTCTTTATTTTTT-ACTTAC
19152474 GGTGTTGTCT
1 GGTGTTGTCT
19152484 TGGTCGTTCT
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
36 26 0.67
37 13 0.33
ACGTcount: A:0.12, C:0.18, G:0.19, T:0.51
Consensus pattern (36 bp):
GGTGTTGTCTCAATCGACTCTTTATTTTTTACTTAC
Found at i:19152541 original size:37 final size:37
Alignment explanation
Indices: 19152500--19152921 Score: 243
Period size: 37 Copynumber: 11.4 Consensus size: 37
19152490 TTCTTGTTTA
* * *
19152500 TTTGACTTGTGGTATTGTCCTAGTTGATTCTTTAACT
1 TTTGACTTGTGATGTTGTCCTAGTTGATTCTTTATCT
** * * ** * *
19152537 TTTGACTTACGGTGTTATCCCGGTCGA-TCTTTATTT
1 TTTGACTTGTGATGTTGTCCTAGTTGATTCTTTATCT
* * * * *
19152573 TTTGACTTGCGATGTTATCCCAGTCGAATCTTTATCT
1 TTTGACTTGTGATGTTGTCCTAGTTGATTCTTTATCT
* * * *
19152610 TCTGACTTGTGGTGTTGTTCCGA-TTGATTCTTTATTT
1 TTTGACTTGTGATGTTG-TCCTAGTTGATTCTTTATCT
* *
19152647 TTTTACTTGTGATGTTGT-CTCAGTCGATTCTTTATCT
1 TTTGACTTGTGATGTTGTCCT-AGTTGATTCTTTATCT
* * *
19152684 TCTGACTTGTGATGTTGTCCTAGTTTTTATT-TTTATTT
1 TTTGACTTGTGATGTTGTCCTAG--TTGATTCTTTATCT
* * * * *
19152722 TTTAACTTGCGATATTGTCCTAGTTGACTCTTCTTATTT
1 TTTGACTTGTGATGTTGTCCTAGTTGATTC-T-TTATCT
* * * * *
19152761 TTTAACTTATGGTGTTGT-CTCGATCG-TTCTTTA-CTT
1 TTTGACTTGTGATGTTGTCCTAG-TTGATTCTTTATC-T
* * * *
19152797 TTTGACTTGCGATGTTG-CCCAATCGATTCTTTA-CTT
1 TTTGACTTGTGATGTTGTCCTAGTTGATTCTTTATC-T
* * *
19152833 TTTGACTTGTGATGTTGTCTTAGTTAATTCTTTATTT
1 TTTGACTTGTGATGTTGTCCTAGTTGATTCTTTATCT
* * * * *
19152870 TTCTCACTCGTGATGTCGTCCTAGTCAT-TTTCTTTATCA
1 TT-TGACTTGTGATGTTGTCCTAGT--TGATTCTTTATCT
19152909 TTTGACTTGTGAT
1 TTTGACTTGTGAT
19152922 TTAATCCCAA
Statistics
Matches: 297, Mismatches: 69, Indels: 37
0.74 0.17 0.09
Matches are distributed among these distances:
35 4 0.01
36 81 0.27
37 111 0.37
38 64 0.22
39 36 0.12
40 1 0.00
ACGTcount: A:0.15, C:0.17, G:0.17, T:0.51
Consensus pattern (37 bp):
TTTGACTTGTGATGTTGTCCTAGTTGATTCTTTATCT
Found at i:19152605 original size:73 final size:74
Alignment explanation
Indices: 19152391--19152840 Score: 326
Period size: 73 Copynumber: 6.1 Consensus size: 74
19152381 AATCACTTTA
** * *
19152391 TTTGACTTGTGGTGTTGTCCCAATCGATTCTTTATTTTTT-ACTTGCCG-TGTTGTCTC-GATCG
1 TTTGACTTACGGTGTTGTCCCGATCGATTCTTTATTTTTTGACTTG-CGATGTTGTCCCAG-TCG
* *
19152453 ACTCTTTATTT
64 ATTCTTTATCT
* ** * * * * * * *
19152464 TTTGATTTACGGTGTTGTCTTGGTCG-TTCTTGT-TTATTTGACTTGTGGTATTGTCCTAGTTGA
1 TTTGACTTACGGTGTTGTCCCGATCGATTCTT-TATTTTTTGACTTGCGATGTTGTCCCAGTCGA
*
19152527 TTCTTTAACT
65 TTCTTTATCT
* * * *
19152537 TTTGACTTACGGTGTTATCCCGGTCGA-TCTTTATTTTTTGACTTGCGATGTTATCCCAGTCGAA
1 TTTGACTTACGGTGTTGTCCCGATCGATTCTTTATTTTTTGACTTGCGATGTTGTCCCAGTCGAT
19152601 TCTTTATCT
66 TCTTTATCT
* ** * * * * *
19152610 TCTGACTTGTGGTGTTGTTCCGATTGATTCTTTATTTTTTTACTTGTGATGTTGTCTCAGTCGAT
1 TTTGACTTACGGTGTTGTCCCGATCGATTCTTTATTTTTTGACTTGCGATGTTGTCCCAGTCGAT
19152675 TCTTTATCT
66 TCTTTATCT
* ** * * * ** * * * *
19152684 TCTGACTTGTGATGTTGTCCTAGTTTTTATT-TTTATTTTTTAACTTGCGATATTGTCCTAGTTG
1 TTTGACTTACGGTGTTGTCC-CG-ATCGATTCTTTATTTTTTGACTTGCGATGTTGTCCCAGTCG
* *
19152748 ACTCTTCTTATTT
64 ATTC-T-TTATCT
* * * * *
19152761 TTTAACTTATGGTGTTGTCTCGATCG-TTCTTTACTTTTTGACTTGCGATGTTG-CCCAATCGAT
1 TTTGACTTACGGTGTTGTCCCGATCGATTCTTTATTTTTTGACTTGCGATGTTGTCCCAGTCGAT
19152824 TCTTTA-CTT
66 TCTTTATC-T
19152833 TTTGACTT
1 TTTGACTT
19152841 GTGATGTTGT
Statistics
Matches: 292, Mismatches: 72, Indels: 27
0.75 0.18 0.07
Matches are distributed among these distances:
72 23 0.08
73 119 0.41
74 70 0.24
75 53 0.18
76 7 0.02
77 20 0.07
ACGTcount: A:0.14, C:0.17, G:0.18, T:0.52
Consensus pattern (74 bp):
TTTGACTTACGGTGTTGTCCCGATCGATTCTTTATTTTTTGACTTGCGATGTTGTCCCAGTCGAT
TCTTTATCT
Found at i:19152730 original size:38 final size:38
Alignment explanation
Indices: 19152640--19152779 Score: 115
Period size: 38 Copynumber: 3.7 Consensus size: 38
19152630 CGATTGATTC
* *
19152640 TTTATTTTTTTACTTGTGATGTTGT-CTCAG--TCGATT
1 TTTATTTTTTAACTTGTGATGTTGTCCT-AGTTTCTATT
* * * *
19152676 CTTTATCTTCTGACTTGTGATGTTGTCCTAGTTTTTATT
1 -TTTATTTTTTAACTTGTGATGTTGTCCTAGTTTCTATT
* * * *
19152715 TTTATTTTTTAACTTGCGATATTGTCCTAGTTGACTCTT
1 TTTATTTTTTAACTTGTGATGTTGTCCTAGTT-TCTATT
* * *
19152754 CTTATTTTTTAACTTATGGTGTTGTC
1 TTTATTTTTTAACTTGTGATGTTGTC
19152780 TCGATCGTTC
Statistics
Matches: 81, Mismatches: 18, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
37 24 0.30
38 29 0.36
39 28 0.35
ACGTcount: A:0.15, C:0.14, G:0.15, T:0.56
Consensus pattern (38 bp):
TTTATTTTTTAACTTGTGATGTTGTCCTAGTTTCTATT
Found at i:19152823 original size:149 final size:149
Alignment explanation
Indices: 19152566--19152857 Score: 358
Period size: 149 Copynumber: 2.0 Consensus size: 149
19152556 CCGGTCGATC
* * * *
19152566 TTTATTTTTTGACTTGCGATGTTATCCCAGTCGAATCTTTATCTTCTGACTTGTGGTGTTGTTCC
1 TTTATTTTTTAACTTGCGATATTATCCCAGTCGAATCTTTATCTTCTAACTTATGGTGTTGTTCC
* * * * * *
19152631 GATTGATTCTTTATTTTTTTACTTGTGATGTTGTCTCAGTCGATTCTTTA-TCTTCTGACTTGTG
66 GATCGATTCTTTACTTTTTGACTTGCGATGTTGTCCCAATCGATTCTTTACT-TTCTGACTTGTG
19152695 ATGTTGTCCTAGTTTTTATT
130 ATGTTGTCCTAGTTTTTATT
* * * * * *
19152715 TTTATTTTTTAACTTGCGATATTGTCCTAGTTGACTCTTCTTATTTTTTAACTTATGGTGTTG-T
1 TTTATTTTTTAACTTGCGATATTATCCCAGTCGAATC-T-TTATCTTCTAACTTATGGTGTTGTT
*
19152779 CTCGATCG-TTCTTTACTTTTTGACTTGCGATGTTG-CCCAATCGATTCTTTACTTTTTGACTTG
64 C-CGATCGATTCTTTACTTTTTGACTTGCGATGTTGTCCCAATCGATTCTTTACTTTCTGACTTG
*
19152842 TGATGTTGTCTTAGTT
128 TGATGTTGTCCTAGTT
19152858 AATTCTTTAT
Statistics
Matches: 121, Mismatches: 18, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
149 69 0.57
150 28 0.23
151 24 0.20
ACGTcount: A:0.15, C:0.16, G:0.17, T:0.53
Consensus pattern (149 bp):
TTTATTTTTTAACTTGCGATATTATCCCAGTCGAATCTTTATCTTCTAACTTATGGTGTTGTTCC
GATCGATTCTTTACTTTTTGACTTGCGATGTTGTCCCAATCGATTCTTTACTTTCTGACTTGTGA
TGTTGTCCTAGTTTTTATT
Found at i:19152921 original size:38 final size:37
Alignment explanation
Indices: 19152833--19152921 Score: 88
Period size: 38 Copynumber: 2.4 Consensus size: 37
19152823 TTCTTTACTT
* * * **
19152833 TTTGACTTGTGATGTTGTCTTAGTTAATTCTTTATTT
1 TTTGACTTGTGATGTCGTCCTAGTCAATTCTTTATCA
* * *
19152870 TTCTCACTCGTGATGTCGTCCTAGTCATTTTCTTTATCA
1 TT-TGACTTGTGATGTCGTCCTAGTCA-ATTCTTTATCA
19152909 TTTGACTTGTGAT
1 TTTGACTTGTGAT
19152922 TTAATCCCAA
Statistics
Matches: 40, Mismatches: 10, Indels: 3
0.75 0.19 0.06
Matches are distributed among these distances:
37 2 0.05
38 28 0.70
39 10 0.25
ACGTcount: A:0.16, C:0.16, G:0.16, T:0.53
Consensus pattern (37 bp):
TTTGACTTGTGATGTCGTCCTAGTCAATTCTTTATCA
Found at i:19155698 original size:31 final size:31
Alignment explanation
Indices: 19155663--19155725 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
19155653 AATTTTAAGA
19155663 TAATTTTTTAACTTAAAGATTTCCTTGATAC
1 TAATTTTTTAACTTAAAGATTTCCTTGATAC
*
19155694 TAATTTTTTAACTTAAAGATTTCTTTGATAC
1 TAATTTTTTAACTTAAAGATTTCCTTGATAC
19155725 T
1 T
19155726 CCTAAATAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.32, C:0.11, G:0.06, T:0.51
Consensus pattern (31 bp):
TAATTTTTTAACTTAAAGATTTCCTTGATAC
Found at i:19163485 original size:32 final size:32
Alignment explanation
Indices: 19163448--19163560 Score: 199
Period size: 32 Copynumber: 3.5 Consensus size: 32
19163438 GTTTCAATTT
19163448 AAGTGTCAATATGCATGGCTTGTTAAAGAAAC
1 AAGTGTCAATATGCATGGCTTGTTAAAGAAAC
* *
19163480 GAGTGTCAATATGCATGGTTTGTTAAAGAAAC
1 AAGTGTCAATATGCATGGCTTGTTAAAGAAAC
*
19163512 AAATGTCAATATGCATGGCTTGTTAAAGAAAC
1 AAGTGTCAATATGCATGGCTTGTTAAAGAAAC
19163544 AAGTGTCAATATGCATG
1 AAGTGTCAATATGCATG
19163561 CATATTGTGA
Statistics
Matches: 75, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 75 1.00
ACGTcount: A:0.37, C:0.12, G:0.22, T:0.29
Consensus pattern (32 bp):
AAGTGTCAATATGCATGGCTTGTTAAAGAAAC
Found at i:19165410 original size:134 final size:130
Alignment explanation
Indices: 19165151--19165499 Score: 350
Period size: 134 Copynumber: 2.6 Consensus size: 130
19165141 CGCCACCATT
* * * *
19165151 TTAGCGGCATTTCTATCTTT-AAA-ACGTCGCTAAATTAGTTGCATTTTTATGAGAAAAAGTTGT
1 TTAGCAGCATTTGTATCTTTCAAACAC-T-GCTAATTTAG-TGCATTTTTATGAGAAAAAGCTGT
* * *
19165214 TACTTTGGTGACATTTGTAACTAAAAATGCCACTACTTTAAAGGCGTTTGTATATGAAAATGCCT
63 TGCTTTGGTG-CGTTTGTAACTAAAAATG-CACTACTTTAAAGGCGTTTGTATATAAAAATGCCT
19165279 CTATA
126 CTATA
* * *
19165284 TTAGC-GACGTTTGTATCTTTCAAATATTGCTAATTTAGTGACATTTTTATGAGAAAAACGCTGT
1 TTAGCAG-CATTTGTATCTTTCAAACACTGCTAATTTAGTG-CATTTTTATGAGAAAAA-GCTGT
* * * *
19165348 TGCTTTGGCTGCGTTTGTAACTTAAACCATG-GCTACTTTAGCA-GCGTTTGTATCTAAAAATGC
63 TGCTTTGG-TGCGTTTGTAAC-TAAA-AATGCACTACTTTA-AAGGCGTTTGTATATAAAAATGC
19165411 CTCTATA
124 CTCTATA
* * * * *
19165418 TTAGCAGCATTTGTATCTTTGAGACGCTGCTAATTTAGTGGCCTTTTT-TGAGAAAAATGCCGTT
1 TTAGCAGCATTTGTATCTTTCAAACACTGCTAATTTAGT-GCATTTTTATGAGAAAAA-GCTGTT
19165482 GCTTTGGTAGCGTTTGTA
64 GCTTTGGT-GCGTTTGTA
19165500 TAAAAAACGT
Statistics
Matches: 183, Mismatches: 21, Indels: 24
0.80 0.09 0.11
Matches are distributed among these distances:
132 4 0.02
133 72 0.39
134 94 0.51
135 10 0.05
136 3 0.02
ACGTcount: A:0.27, C:0.15, G:0.19, T:0.39
Consensus pattern (130 bp):
TTAGCAGCATTTGTATCTTTCAAACACTGCTAATTTAGTGCATTTTTATGAGAAAAAGCTGTTGC
TTTGGTGCGTTTGTAACTAAAAATGCACTACTTTAAAGGCGTTTGTATATAAAAATGCCTCTATA
Found at i:19166056 original size:21 final size:20
Alignment explanation
Indices: 19166005--19166057 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
19165995 CAACTGTTGA
*
19166005 AATTTTGCACGTTCTTGCTC
1 AATTTTGCACGTTCTTCCTC
* *
19166025 CATTCTAGCACGTTCTTCCTC
1 AATT-TTGCACGTTCTTCCTC
19166046 AATTTTGGCACG
1 AATTTT-GCACG
19166058 CTCATGTTCT
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
20 4 0.15
21 22 0.85
ACGTcount: A:0.17, C:0.28, G:0.15, T:0.40
Consensus pattern (20 bp):
AATTTTGCACGTTCTTCCTC
Found at i:19169511 original size:19 final size:19
Alignment explanation
Indices: 19169487--19169532 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
19169477 ATAGGATACA
19169487 TCCATCGATAATAAATCGG
1 TCCATCGATAATAAATCGG
*
19169506 TCCATCGATAATAAATTGG
1 TCCATCGATAATAAATCGG
19169525 TCCATCGA
1 TCCATCGA
19169533 CTTTTACTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.35, C:0.22, G:0.15, T:0.28
Consensus pattern (19 bp):
TCCATCGATAATAAATCGG
Found at i:19175062 original size:52 final size:52
Alignment explanation
Indices: 19175001--19175102 Score: 152
Period size: 52 Copynumber: 2.0 Consensus size: 52
19174991 TGTAGAATGG
* * * *
19175001 TATTGTATGATATTAGGGGGCTGAATTGA-ATGCTGAATGGTTTGCTGAACCT
1 TATTGTATGATATTAAGAGGCTGAA-TCATATACTGAATGGTTTGCTGAACCT
19175053 TATTGTATGATATTAAGAGGCTGAATCATATACTGAATGGTTTGCTGAAC
1 TATTGTATGATATTAAGAGGCTGAATCATATACTGAATGGTTTGCTGAAC
19175103 TATGTCTGAT
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
51 2 0.04
52 43 0.96
ACGTcount: A:0.28, C:0.10, G:0.25, T:0.36
Consensus pattern (52 bp):
TATTGTATGATATTAAGAGGCTGAATCATATACTGAATGGTTTGCTGAACCT
Found at i:19179428 original size:19 final size:20
Alignment explanation
Indices: 19179393--19179434 Score: 77
Period size: 19 Copynumber: 2.1 Consensus size: 20
19179383 AAAGGGAGGG
19179393 AACCTACAACTCTTATGGTT
1 AACCTACAACTCTTATGGTT
19179413 AACCTACAAC-CTTATGGTT
1 AACCTACAACTCTTATGGTT
19179432 AAC
1 AAC
19179435 ATTCATACGA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 12 0.55
20 10 0.45
ACGTcount: A:0.33, C:0.26, G:0.10, T:0.31
Consensus pattern (20 bp):
AACCTACAACTCTTATGGTT
Found at i:19180248 original size:32 final size:32
Alignment explanation
Indices: 19180210--19180272 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 32
19180200 ACCTTAAAGC
* *
19180210 ATTCAAGAACAAATTTACCTAACCTTTGAAGA
1 ATTCAAGAACAAATCTACCTAAACTTTGAAGA
* * *
19180242 ATTCAAGAGCAAGTCTGCCTAAACTTTGAAG
1 ATTCAAGAACAAATCTACCTAAACTTTGAAG
19180273 CAGATTTTAC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.40, C:0.19, G:0.14, T:0.27
Consensus pattern (32 bp):
ATTCAAGAACAAATCTACCTAAACTTTGAAGA
Found at i:19180347 original size:32 final size:32
Alignment explanation
Indices: 19180311--19180378 Score: 95
Period size: 32 Copynumber: 2.1 Consensus size: 32
19180301 GAGAGTCTTG
19180311 AAGCATTCAAGAACAAGTCTGGA-C-AACCCTTA
1 AAGCATTCAAGAACAAGTCT--ACCTAACCCTTA
*
19180343 AAGCATTCAAGAATAAGTCTACCTAACCCTTA
1 AAGCATTCAAGAACAAGTCTACCTAACCCTTA
19180375 AAGC
1 AAGC
19180379 GGATTTTTGC
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
30 1 0.03
31 1 0.03
32 31 0.94
ACGTcount: A:0.41, C:0.25, G:0.13, T:0.21
Consensus pattern (32 bp):
AAGCATTCAAGAACAAGTCTACCTAACCCTTA
Found at i:19183908 original size:16 final size:16
Alignment explanation
Indices: 19183861--19183914 Score: 56
Period size: 16 Copynumber: 3.3 Consensus size: 16
19183851 TATTGATGAG
19183861 ATAAAAAAAT-TATAAA
1 ATAAAAAAATATA-AAA
* *
19183877 ATATAATAATATTAAAA
1 ATAAAAAAATA-TAAAA
*
19183894 ATAAAAAAATATAAAT
1 ATAAAAAAATATAAAA
19183910 ATAAA
1 ATAAA
19183915 GATGTAATAT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
16 17 0.55
17 12 0.39
18 2 0.06
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (16 bp):
ATAAAAAAATATAAAA
Found at i:19191081 original size:8 final size:8
Alignment explanation
Indices: 19191068--19191092 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
19191058 CAAAAATAAT
19191068 TATAAATA
1 TATAAATA
19191076 TATAAATA
1 TATAAATA
19191084 TATAAATA
1 TATAAATA
19191092 T
1 T
19191093 GCAATATAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (8 bp):
TATAAATA
Found at i:19191505 original size:16 final size:16
Alignment explanation
Indices: 19191458--19191511 Score: 56
Period size: 16 Copynumber: 3.3 Consensus size: 16
19191448 TATTGATGAG
19191458 ATAAAAAAAT-TATAAA
1 ATAAAAAAATATA-AAA
* *
19191474 ATATAATAATATTAAAA
1 ATAAAAAAATA-TAAAA
*
19191491 ATAAAAAAATATAAAT
1 ATAAAAAAATATAAAA
19191507 ATAAA
1 ATAAA
19191512 GATGTAATAT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
16 17 0.55
17 12 0.39
18 2 0.06
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (16 bp):
ATAAAAAAATATAAAA
Found at i:19194483 original size:141 final size:141
Alignment explanation
Indices: 19194229--19194512 Score: 559
Period size: 141 Copynumber: 2.0 Consensus size: 141
19194219 TATAAAAGTT
19194229 TAAATGTCGGGGTTAGGCATCGTCGTTAGATTAACTAAATTAAGAAGGTATGGTGTTAAGGATTT
1 TAAATGTCGGGGTTAGGCATCGTCGTTAGATTAACTAAATTAAGAAGGTATGGTGTTAAGGATTT
19194294 GGTGTCAATCACAATAAGTACCCGATAACAACTGCAAAATAATAACAATGACTTACTCAGAATAC
66 GGTGTCAATCACAATAAGTACCCGATAACAACTGCAAAATAATAACAATGACTTACTCAGAATAC
19194359 GCATCAGATCA
131 GCATCAGATCA
19194370 TAAATGTCGGGGTTAGGCATCGTCGTTAGATTAACTAAATTAAGAAGGTATGGTGTTAAGGATTT
1 TAAATGTCGGGGTTAGGCATCGTCGTTAGATTAACTAAATTAAGAAGGTATGGTGTTAAGGATTT
*
19194435 GGTGTCAATCACAATAAGTACCCGATAACAACTGCAAAATAATAACAATGACTTACTCATAATAC
66 GGTGTCAATCACAATAAGTACCCGATAACAACTGCAAAATAATAACAATGACTTACTCAGAATAC
19194500 GCATCAGATCA
131 GCATCAGATCA
19194511 TA
1 TA
19194513 GAATAGAGTA
Statistics
Matches: 142, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
141 142 1.00
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.27
Consensus pattern (141 bp):
TAAATGTCGGGGTTAGGCATCGTCGTTAGATTAACTAAATTAAGAAGGTATGGTGTTAAGGATTT
GGTGTCAATCACAATAAGTACCCGATAACAACTGCAAAATAATAACAATGACTTACTCAGAATAC
GCATCAGATCA
Found at i:19195823 original size:16 final size:16
Alignment explanation
Indices: 19195776--19195829 Score: 56
Period size: 16 Copynumber: 3.3 Consensus size: 16
19195766 TATTGATGAG
19195776 ATAAAAAAAT-TATAAA
1 ATAAAAAAATATA-AAA
* *
19195792 ATATAATAATATTAAAA
1 ATAAAAAAATA-TAAAA
*
19195809 ATAAAAAAATATAAAT
1 ATAAAAAAATATAAAA
19195825 ATAAA
1 ATAAA
19195830 GATGTAATAA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
16 17 0.55
17 12 0.39
18 2 0.06
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (16 bp):
ATAAAAAAATATAAAA
Found at i:19198231 original size:21 final size:20
Alignment explanation
Indices: 19198194--19198232 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
19198184 AAGGATAATT
*
19198194 TTATAATATAATGAATAAGA
1 TTATAATATAATAAATAAGA
*
19198214 TTATATATATCATAAATAA
1 TTATA-ATATAATAAATAA
19198233 TGTGGAAGAC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.54, C:0.03, G:0.05, T:0.38
Consensus pattern (20 bp):
TTATAATATAATAAATAAGA
Found at i:19208900 original size:49 final size:49
Alignment explanation
Indices: 19208774--19208945 Score: 172
Period size: 47 Copynumber: 3.5 Consensus size: 49
19208764 AAAACATATG
* * * * *
19208774 AGATTTTTAAAATTGTTGAGCCTCTGCCGAAAAAAGCTTTTTCAAGAT-
1 AGATTTTAAAAATTGTTAAGCCTCTGCTGAGAAGAGCTTTTTCAAGATA
* * * * *
19208822 GGATTTT-AAAGTTGTTAGGCCTCTACTGAGATGAGCTTTTTCAAGATA
1 AGATTTTAAAAATTGTTAAGCCTCTGCTGAGAAGAGCTTTTTCAAGATA
*
19208870 AGATTTTAAAAATTGTTAAGCCTCTGCTGAGAGGAGCTTTTTTCAA-ATTTTA
1 AGATTTTAAAAATTGTTAAGCCTCTGCTGAGAAGAGC-TTTTTCAAGA---TA
19208922 A-ATTTTGAAAAATTGTTAAGCCTC
1 AGATTTT-AAAAATTGTTAAGCCTC
19208946 AAGTGAAATG
Statistics
Matches: 103, Mismatches: 14, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
47 32 0.31
48 12 0.12
49 26 0.25
50 8 0.08
51 5 0.05
52 20 0.19
ACGTcount: A:0.31, C:0.13, G:0.18, T:0.38
Consensus pattern (49 bp):
AGATTTTAAAAATTGTTAAGCCTCTGCTGAGAAGAGCTTTTTCAAGATA
Found at i:19209206 original size:20 final size:21
Alignment explanation
Indices: 19209139--19209230 Score: 66
Period size: 21 Copynumber: 4.3 Consensus size: 21
19209129 CCGGTCATAG
19209139 AAAAAAATA-ATAAATAAAATA
1 AAAAAAATATATAAA-AAAATA
* * * *
19209160 ATAATATTAT-TAAATACAATA
1 AAAAAAATATATAAA-AAAATA
*
19209181 ATAAAAAT-TA-AACAAAAATA
1 AAAAAAATATATAA-AAAAATA
19209201 AAAAAAATATATAAAAAAATA
1 AAAAAAATATATAAAAAAATA
19209222 TAACAAAAA
1 -AA-AAAAA
19209231 AAAGAGGGAT
Statistics
Matches: 56, Mismatches: 8, Indels: 12
0.74 0.11 0.16
Matches are distributed among these distances:
20 15 0.27
21 32 0.57
22 4 0.07
23 5 0.09
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (21 bp):
AAAAAAATATATAAAAAAATA
Found at i:19209229 original size:12 final size:11
Alignment explanation
Indices: 19209178--19209231 Score: 58
Period size: 12 Copynumber: 4.9 Consensus size: 11
19209168 ATTAAATACA
*
19209178 ATAATAAAAAT
1 ATAAAAAAAAT
*
19209189 -TAAACAAAA-
1 ATAAAAAAAAT
19209198 ATAAAAAAAAT
1 ATAAAAAAAAT
19209209 ATATAAAAAAAT
1 ATA-AAAAAAAT
19209221 ATAACAAAAAA
1 ATAA-AAAAAA
19209232 AAGAGGGATG
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
10 15 0.42
11 4 0.11
12 17 0.47
ACGTcount: A:0.78, C:0.04, G:0.00, T:0.19
Consensus pattern (11 bp):
ATAAAAAAAAT
Found at i:19211183 original size:32 final size:32
Alignment explanation
Indices: 19211111--19211184 Score: 94
Period size: 32 Copynumber: 2.3 Consensus size: 32
19211101 AGTTAATAAG
* *
19211111 ACCCTTAAAGCATTCAAGAACAAATTTACCTA
1 ACCCTTGAAGAATTCAAGAACAAATTTACCTA
* * *
19211143 ACCCTTGAAGAATTCAAGAACAAGTTTGCCTG
1 ACCCTTGAAGAATTCAAGAACAAATTTACCTA
*
19211175 ACCTTTGAAG
1 ACCCTTGAAG
19211185 CAGATTTTAC
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.38, C:0.23, G:0.14, T:0.26
Consensus pattern (32 bp):
ACCCTTGAAGAATTCAAGAACAAATTTACCTA
Found at i:19211278 original size:105 final size:105
Alignment explanation
Indices: 19211093--19211285 Score: 246
Period size: 105 Copynumber: 1.8 Consensus size: 105
19211083 TTCGTTTGTT
* * * *
19211093 CAAGATCAAGTTAATAAGACCCTTAAAGCATTCAAGAACAAATTTACCTAACCCTTGAAGAATTC
1 CAAGATCAAGTCAACAAGACCCTTAAAGCATTCAAAAACAAATTTACCTAACCCTTAAAGAATTC
* *
19211158 AAGAACAAGTTTGCCTGACCTTTGAAGCAGATTTTACATC
66 AAGAACAAGTCTGCCTAACCTTTGAAGCAGATTTTACATC
** * * *
19211198 CAAGATCAAGTCAACAAGAGTCTTGAAGCATTCAAAAACAAGTTT-CGAC-AACCCTTAAAGCAT
1 CAAGATCAAGTCAACAAGACCCTTAAAGCATTCAAAAACAAATTTAC--CTAACCCTTAAAGAAT
*
19211261 TCAAGAATAAGTCTGCCTAACCTTT
64 TCAAGAACAAGTCTGCCTAACCTTT
19211286 AAAGTGGATT
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
104 1 0.01
105 72 0.97
106 1 0.01
ACGTcount: A:0.39, C:0.22, G:0.13, T:0.25
Consensus pattern (105 bp):
CAAGATCAAGTCAACAAGACCCTTAAAGCATTCAAAAACAAATTTACCTAACCCTTAAAGAATTC
AAGAACAAGTCTGCCTAACCTTTGAAGCAGATTTTACATC
Found at i:19214778 original size:16 final size:17
Alignment explanation
Indices: 19214736--19214779 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 17
19214726 TATTGATGAG
19214736 ATAAAAAA-ATTATAAA
1 ATAAAAAATATTATAAA
*
19214752 ATATAATAATATTA-AAA
1 ATA-AAAAATATTATAAA
19214769 ATAAAAAATAT
1 ATAAAAAATAT
19214780 AAATATAAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
16 10 0.42
17 10 0.42
18 4 0.17
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (17 bp):
ATAAAAAATATTATAAA
Found at i:19217425 original size:6 final size:6
Alignment explanation
Indices: 19217409--19217506 Score: 51
Period size: 6 Copynumber: 15.7 Consensus size: 6
19217399 TTTCTTGTTT
**
19217409 TTTTATA TTTTTA TTTTTGTA TTTTGTA -TTTTA TTTTTA -TTTTA TTTACA
1 TTTT-TA TTTTTA -TTTT-TA TTTT-TA TTTTTA TTTTTA TTTTTA TTTTTA
* * *
19217459 TTTTTA TTATTGTTA TTGTTT- TTTTTA TATATA TTTTT- CTTTTA TTTT
1 TTTTTA -T-TT-TTA TT-TTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTT
19217507 ATCTTATGTA
Statistics
Matches: 71, Mismatches: 10, Indels: 21
0.70 0.10 0.21
Matches are distributed among these distances:
5 14 0.20
6 29 0.41
7 19 0.27
8 6 0.08
9 3 0.04
ACGTcount: A:0.18, C:0.02, G:0.04, T:0.76
Consensus pattern (6 bp):
TTTTTA
Found at i:19217456 original size:15 final size:15
Alignment explanation
Indices: 19217414--19217537 Score: 55
Period size: 15 Copynumber: 8.3 Consensus size: 15
19217404 TGTTTTTTTA
*
19217414 TATTTTTATTTT-TG
1 TATTTTTATTTTATT
19217428 TATTTTGTATTTTATT
1 TATTTT-TATTTTATT
* *
19217444 TTTATTTTATTTACATT
1 TAT-TTTTATTT-TATT
*
19217461 T-TTATTATTGTTATT
1 TATTTTTATT-TTATT
* *
19217476 GT-TTTTT-TTATATA
1 -TATTTTTATTTTATT
*
19217490 TATTTTTCTTTTATT
1 TATTTTTATTTTATT
* *
19217505 T-TATCTTA-TGTATT
1 TAT-TTTTATTTTATT
19217519 TATTATTTA-TTTATT
1 TATT-TTTATTTTATT
19217534 TATT
1 TATT
19217538 ACTACTATTT
Statistics
Matches: 84, Mismatches: 15, Indels: 21
0.70 0.12 0.17
Matches are distributed among these distances:
13 1 0.01
14 22 0.26
15 39 0.46
16 15 0.18
17 7 0.08
ACGTcount: A:0.20, C:0.02, G:0.04, T:0.73
Consensus pattern (15 bp):
TATTTTTATTTTATT
Found at i:19217483 original size:37 final size:34
Alignment explanation
Indices: 19217403--19217488 Score: 86
Period size: 34 Copynumber: 2.4 Consensus size: 34
19217393 GCCCATTTTC
*
19217403 TTGTTTTTTTATATTTTTATTTTTGTATTTTGTA
1 TTGTTTTTTTATATTTTTAATTTTGTATTTTGTA
*
19217437 TT-TTATTTTTATTTTATTTACATTTT-TATTATTGTTA
1 TTGTT-TTTTTATATT-TTTA-ATTTTGTATT-TTG-TA
19217474 TTGTTTTTTTTATAT
1 TTG-TTTTTTTATAT
19217489 ATATTTTTCT
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
33 2 0.05
34 11 0.26
35 8 0.19
36 7 0.17
37 4 0.10
38 8 0.19
39 2 0.05
ACGTcount: A:0.17, C:0.01, G:0.06, T:0.76
Consensus pattern (34 bp):
TTGTTTTTTTATATTTTTAATTTTGTATTTTGTA
Found at i:19217495 original size:33 final size:31
Alignment explanation
Indices: 19217435--19217496 Score: 79
Period size: 33 Copynumber: 1.9 Consensus size: 31
19217425 TTGTATTTTG
*
19217435 TATTTTATTTTTATTTTATTTACATTTTTAT
1 TATTTTATTTTTATTTTATATACATTTTTAT
* *
19217466 TATTGTTATTGTTTTTTTTATATATATTTTT
1 TATT-TTATT-TTTATTTTATATACATTTTT
19217497 CTTTTATTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 4 0.15
32 5 0.19
33 17 0.65
ACGTcount: A:0.21, C:0.02, G:0.03, T:0.74
Consensus pattern (31 bp):
TATTTTATTTTTATTTTATATACATTTTTAT
Found at i:19217625 original size:22 final size:23
Alignment explanation
Indices: 19217594--19217651 Score: 66
Period size: 22 Copynumber: 2.6 Consensus size: 23
19217584 AATATATTTA
*
19217594 TATATATTTATCTGATTATAT-GT
1 TATA-ATTTATCTGATTATATAAT
*
19217617 TATAATTTATCT-ATTATTTAAT
1 TATAATTTATCTGATTATATAAT
*
19217639 TTTAATTTATCTG
1 TATAATTTATCTG
19217652 TTAATTTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 6 0.20
22 20 0.67
23 4 0.13
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.59
Consensus pattern (23 bp):
TATAATTTATCTGATTATATAAT
Found at i:19218565 original size:21 final size:22
Alignment explanation
Indices: 19218528--19218647 Score: 50
Period size: 23 Copynumber: 5.2 Consensus size: 22
19218518 AGTTATACCA
*
19218528 ATTTTTTTA-TATATATT-TTTT
1 ATTTATTTATTAT-TATTATTTT
19218549 ATTTATTTATTATTATTATTATT
1 ATTTATTTATTATTATTATT-TT
* * *
19218572 AGATTAGGTTTATTTAATATTCTTTT
1 A-TTTA--TTTA-TTATTATTATTTT
* *
19218598 ATTT-TTATATTTATTTTTGTTTT
1 ATTTATT-TA-TTATTATTATTTT
* *
19218621 ACTTTTCTTTATTTTTATT-TTTT
1 A--TTTATTTATTATTATTATTTT
19218644 ATTT
1 ATTT
19218648 TCACTTTATT
Statistics
Matches: 78, Mismatches: 10, Indels: 22
0.71 0.09 0.20
Matches are distributed among these distances:
21 15 0.19
22 7 0.09
23 22 0.28
24 9 0.12
25 7 0.09
26 9 0.12
27 9 0.12
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.72
Consensus pattern (22 bp):
ATTTATTTATTATTATTATTTT
Found at i:19218626 original size:12 final size:11
Alignment explanation
Indices: 19218594--19218677 Score: 55
Period size: 13 Copynumber: 7.4 Consensus size: 11
19218584 TTTAATATTC
19218594 TTTTATTTTTA
1 TTTTATTTTTA
*
19218605 TATTTATTTTTG
1 T-TTTATTTTTA
*
19218617 TTTTACTTTT-
1 TTTTATTTTTA
*
19218627 CTTTATTTTTA
1 TTTTATTTTTA
*
19218638 TTTTTTATTTTCA
1 --TTTTATTTTTA
* *
19218651 CTTTA-TTTTG
1 TTTTATTTTTA
19218661 TTTTATTATTTTA
1 TTTTA-T-TTTTA
19218674 TTTT
1 TTTT
19218678 CTTTAAATAA
Statistics
Matches: 55, Mismatches: 11, Indels: 12
0.71 0.14 0.15
Matches are distributed among these distances:
10 15 0.27
11 13 0.24
12 10 0.18
13 17 0.31
ACGTcount: A:0.15, C:0.05, G:0.02, T:0.77
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:19218659 original size:24 final size:24
Alignment explanation
Indices: 19218627--19218672 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
19218617 TTTTACTTTT
*
19218627 CTTTATTTT-TATTTTTTATTTTCA
1 CTTTATTTTGT-TTTATTATTTTCA
19218651 CTTTATTTTGTTTTATTATTTT
1 CTTTATTTTGTTTTATTATTTT
19218673 ATTTTCTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 19 0.95
25 1 0.05
ACGTcount: A:0.15, C:0.07, G:0.02, T:0.76
Consensus pattern (24 bp):
CTTTATTTTGTTTTATTATTTTCA
Found at i:19218664 original size:29 final size:28
Alignment explanation
Indices: 19218601--19218678 Score: 81
Period size: 29 Copynumber: 2.8 Consensus size: 28
19218591 TTCTTTTATT
*
19218601 TTTATATTTA-TTTTTGTTTT-ACTTTTC
1 TTTAT-TTTATTTTTTATTTTCACTTTTC
19218628 TTTATTTTTATTTTTTATTTTCACTTTAT-
1 TTTA-TTTTATTTTTTATTTTCACTTT-TC
*
19218657 TTTGTTTTATTATTTTATTTTC
1 TTTATTTTATT-TTTTATTTTC
19218679 TTTAAATAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
27 8 0.18
28 17 0.39
29 18 0.41
30 1 0.02
ACGTcount: A:0.15, C:0.06, G:0.03, T:0.76
Consensus pattern (28 bp):
TTTATTTTATTTTTTATTTTCACTTTTC
Found at i:19218666 original size:34 final size:34
Alignment explanation
Indices: 19218594--19218677 Score: 82
Period size: 34 Copynumber: 2.4 Consensus size: 34
19218584 TTTAATATTC
* ***
19218594 TTTTATTTTTA-TATTTATTTTTGTTTTACTTTT
1 TTTTATTTTTATTTTTTATTTTCACTTTACTTTT
*
19218627 CTTTATTTTTATTTTTTATTTTCACTTTA-TTTT
1 TTTTATTTTTATTTTTTATTTTCACTTTACTTTT
19218660 GTTTTATTATTTTATTTT
1 -TTTTA-T-TTTTATTTT
19218678 CTTTAAATAA
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
33 14 0.34
34 17 0.41
35 1 0.02
36 9 0.22
ACGTcount: A:0.15, C:0.05, G:0.02, T:0.77
Consensus pattern (34 bp):
TTTTATTTTTATTTTTTATTTTCACTTTACTTTT
Found at i:19218816 original size:59 final size:59
Alignment explanation
Indices: 19218692--19219033 Score: 379
Period size: 60 Copynumber: 5.7 Consensus size: 59
19218682 AAATAAAATC
** * * *
19218692 CAAAAAAAATATTTTT-GGGGAAAGTTGAAAGTATCAATTTTCCTTGAAAACAAGTTTTT
1 CAAAAAAAATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAA-ATTTT
19218751 CAAAAAAAAATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTT
1 C-AAAAAAAATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTT
* * *
19218811 CAAAAAAAGTTTTTTTTGAGG-AAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAATTTT
1 CAAAAAAA-ATATTTTT-AGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTT
** * ** * **
19218871 CAAAAAAGGT-TTTTATGAGG-AAAGGTTGAAAGTATCAATTTTCCTCGAAATTAAAAATT
1 CAAAAAAAATATTTT-T-AGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTT
* * * * *
19218930 CTAAAAAAATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTCCTCAACACTAAAGTTTC
1 CAAAAAAAATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA-TTTT
*
19218990 CAAAAAAAA-ATATTTTGGGAAAAAGTTGAAAGTATCAATTTTCC
1 CAAAAAAAATAT-TTTTAGGAAAAAGTTGAAAGTATCAATTTTCC
19219034 CTTATACAAG
Statistics
Matches: 245, Mismatches: 29, Indels: 17
0.84 0.10 0.06
Matches are distributed among these distances:
58 7 0.03
59 87 0.36
60 115 0.47
61 36 0.15
ACGTcount: A:0.44, C:0.09, G:0.13, T:0.34
Consensus pattern (59 bp):
CAAAAAAAATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTT
Found at i:19219016 original size:178 final size:179
Alignment explanation
Indices: 19218710--19219033 Score: 467
Period size: 178 Copynumber: 1.8 Consensus size: 179
19218700 ATATTTTTGG
* ***
19218710 GGAAAGTTGAAAGTATCAATTTTCCTTGAAAACAAGTTTTTCAAAAAAAAATATTTTTAGGAAAA
1 GGAAAGTTGAAAGTATCAATTTTCCTCGAAAACAAGAAATTCAAAAAAAAATATTTTTAGGAAAA
* * ** *
19218775 AGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAGTTTTTTTTGAGGAAAAGTTG
66 AGTTGAAAGTATCAATTTTCCTCAAAAATAAATTTCCAAAAAAAGAATATTTTGAGGAAAAGTTG
19218840 AAAGTATCAATTTTCCTTAAGAATAAATTTTCAAAAAAGGTTTTTATGA
131 AAAGTATCAATTTTCCTTAAGAATAAATTTTCAAAAAAGGTTTTTATGA
** *
19218889 GGAAAGGTTGAAAGTATCAATTTTCCTCGAAATTAA-AAATTC-TAAAAAAATATTTTTAGGAAA
1 GGAAA-GTTGAAAGTATCAATTTTCCTCGAAAACAAGAAATTCAAAAAAAAATATTTTTAGGAAA
* *
19218952 AAGTTGAAAGTATCAATTTTCCTCAACACTAAAGTTTCCAAAAAAA-AATATTTTG-GGAAAAAG
65 AAGTTGAAAGTATCAATTTTCCTCAAAAATAAA-TTTCCAAAAAAAGAATATTTTGAGG-AAAAG
19219015 TTGAAAGTATCAATTTTCC
128 TTGAAAGTATCAATTTTCC
19219034 CTTATACAAG
Statistics
Matches: 128, Mismatches: 14, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
177 2 0.02
178 80 0.62
179 19 0.15
180 27 0.21
ACGTcount: A:0.44, C:0.09, G:0.13, T:0.34
Consensus pattern (179 bp):
GGAAAGTTGAAAGTATCAATTTTCCTCGAAAACAAGAAATTCAAAAAAAAATATTTTTAGGAAAA
AGTTGAAAGTATCAATTTTCCTCAAAAATAAATTTCCAAAAAAAGAATATTTTGAGGAAAAGTTG
AAAGTATCAATTTTCCTTAAGAATAAATTTTCAAAAAAGGTTTTTATGA
Found at i:19221486 original size:20 final size:20
Alignment explanation
Indices: 19221461--19221500 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
19221451 ACACCGCATC
19221461 AGAATTAGAGCTTGCAAAAA
1 AGAATTAGAGCTTGCAAAAA
* * *
19221481 AGAATTTGAGTTTGGAAAAA
1 AGAATTAGAGCTTGCAAAAA
19221501 GGACCAAGTT
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:0.47, C:0.05, G:0.23, T:0.25
Consensus pattern (20 bp):
AGAATTAGAGCTTGCAAAAA
Found at i:19227059 original size:16 final size:16
Alignment explanation
Indices: 19227012--19227065 Score: 56
Period size: 16 Copynumber: 3.3 Consensus size: 16
19227002 TATTGATGAG
19227012 ATAAAAAAAT-TATAAA
1 ATAAAAAAATATA-AAA
* *
19227028 ATATAATAATATTAAAA
1 ATAAAAAAATA-TAAAA
*
19227045 ATAAAAAAATATAAAT
1 ATAAAAAAATATAAAA
19227061 ATAAA
1 ATAAA
19227066 GATGTAATTG
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
16 17 0.55
17 12 0.39
18 2 0.06
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (16 bp):
ATAAAAAAATATAAAA
Found at i:19229930 original size:19 final size:20
Alignment explanation
Indices: 19229908--19229945 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
19229898 AAAGACGATA
*
19229908 ATAAAAATTA-AACAAAAAT
1 ATAAAAAATAGAACAAAAAT
19229927 ATAAAAAATAGAACAAAAA
1 ATAAAAAATAGAACAAAAA
19229946 AAGAGGGATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.76, C:0.05, G:0.03, T:0.16
Consensus pattern (20 bp):
ATAAAAAATAGAACAAAAAT
Done.