Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 52 of 320
Found at i:15126268 original size:49 final size:46
Alignment explanation
Indices: 15126195--15126364 Score: 148
Period size: 47 Copynumber: 3.7 Consensus size: 46
15126185 CCATCAAGTT
* * * * * *
15126195 GATGCCCTGTTCCAAACATTGTCTTACACTGACTATCAAAATTGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGAC-A-C-ATATAGAGGCC
* * * *
15126244 GATGCCATGTCCCAGACATGGTCTTACACTAACACCTCTATACATG-C
1 GATGCCATGTCCCAGACATGGTCTTACACTGACA-C-ATATAGAGGCC
* *
15126291 GATGCCATGTCCCAGACATGGTCTTACACTGACACATCTCGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGACACATATAGAGGCC
* *
15126337 AATG-CATGTCCTAGACAT-GTCTTACACT
1 GATGCCATGTCCCAGACATGGTCTTACACT
15126365 TCCTTACAAA
Statistics
Matches: 100, Mismatches: 20, Indels: 7
0.79 0.16 0.06
Matches are distributed among these distances:
44 10 0.10
45 17 0.17
46 5 0.05
47 34 0.34
48 6 0.06
49 28 0.28
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.26
Consensus pattern (46 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGACACATATAGAGGCC
Found at i:15126315 original size:96 final size:91
Alignment explanation
Indices: 15126195--15126364 Score: 214
Period size: 96 Copynumber: 1.8 Consensus size: 91
15126185 CCATCAAGTT
* * * * *
15126195 GATGCCCTGTTCCAAACATTGTCTTACACTGACTATCAAAATTGAGGCCGATGCCATGTCCCAGA
1 GATGCCATGTCCCAAACATGGTCTTACACTGAC-A-C-AAATCGAGGCCAATG-CATGTCCCAGA
15126260 CATGGTCTTACACTAACACCTCTATACATGC
62 CAT-GTCTTACACTAACACCTCTATACATGC
* ** *
15126291 GATGCCATGTCCCAGACATGGTCTTACACTGACACATCTCGAGGCCAATGCATGTCCTAGACATG
1 GATGCCATGTCCCAAACATGGTCTTACACTGACACAAATCGAGGCCAATGCATGTCCCAGACATG
15126356 TCTTACACT
66 TCTTACACT
15126365 TCCTTACAAA
Statistics
Matches: 65, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
91 10 0.15
92 13 0.20
93 11 0.17
94 1 0.02
95 1 0.02
96 29 0.45
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.26
Consensus pattern (91 bp):
GATGCCATGTCCCAAACATGGTCTTACACTGACACAAATCGAGGCCAATGCATGTCCCAGACATG
TCTTACACTAACACCTCTATACATGC
Found at i:15135079 original size:15 final size:15
Alignment explanation
Indices: 15135044--15135107 Score: 62
Period size: 15 Copynumber: 4.4 Consensus size: 15
15135034 CTCCCTCTCT
*
15135044 TCTTTT-TTCCCTTC
1 TCTTTTCTTTCCTTC
*
15135058 TC-GTTCTTTCCTTC
1 TCTTTTCTTTCCTTC
*
15135072 TCTTTTCTTTCTTTC
1 TCTTTTCTTTCCTTC
15135087 T-TTCTTCTTTCCTTC
1 TCTT-TTCTTTCCTTC
*
15135102 ACTTTT
1 TCTTTT
15135108 TCCCCTCTCC
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
13 2 0.05
14 13 0.32
15 23 0.57
16 2 0.05
ACGTcount: A:0.02, C:0.31, G:0.02, T:0.66
Consensus pattern (15 bp):
TCTTTTCTTTCCTTC
Found at i:15135301 original size:3 final size:3
Alignment explanation
Indices: 15135293--15135329 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
15135283 TTTTACCCCA
* *
15135293 ATT ATT ATT ATT GTT ATT ATT ATT ATT AGT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
15135330 GAATTATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:15135330 original size:9 final size:9
Alignment explanation
Indices: 15135295--15135337 Score: 50
Period size: 9 Copynumber: 4.8 Consensus size: 9
15135285 TTACCCCAAT
*
15135295 TATTATTAT
1 TATTATTAG
* *
15135304 TGTTATTAT
1 TATTATTAG
15135313 TATTATTAG
1 TATTATTAG
15135322 TATTATTAG
1 TATTATTAG
*
15135331 AATTATT
1 TATTATT
15135338 TTTATGTTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (9 bp):
TATTATTAG
Found at i:15142969 original size:16 final size:15
Alignment explanation
Indices: 15142948--15142991 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 15
15142938 TGTACACCAC
*
15142948 TTCTCTTCTTTTCTTT
1 TTCTCTTCTTTT-TCT
15142964 TTCTCTTCTTTTTCT
1 TTCTCTTCTTTTTCT
15142979 TTCTCCTTCTTTT
1 TTCT-CTTCTTTT
15142992 AGCAAGAGAC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
15 6 0.23
16 20 0.77
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (15 bp):
TTCTCTTCTTTTTCT
Found at i:15145245 original size:20 final size:20
Alignment explanation
Indices: 15145220--15145258 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
15145210 TCCCTCTTGG
*
15145220 AAGGTGGATATCGTGATACT
1 AAGGTGGATATCGCGATACT
*
15145240 AAGGTGGATTTCGCGATAC
1 AAGGTGGATATCGCGATAC
15145259 CACTATAGGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.13, G:0.31, T:0.28
Consensus pattern (20 bp):
AAGGTGGATATCGCGATACT
Found at i:15148645 original size:22 final size:22
Alignment explanation
Indices: 15148620--15148672 Score: 81
Period size: 22 Copynumber: 2.4 Consensus size: 22
15148610 AAAAACCAGG
15148620 AAAATA-CGAAGAAAACAATAAA
1 AAAATAGC-AAGAAAACAATAAA
*
15148642 AAAATAGCAAGAAAGCAATAAA
1 AAAATAGCAAGAAAACAATAAA
15148664 AAAATAGCA
1 AAAATAGCA
15148673 GTTTTTTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
22 28 0.97
23 1 0.03
ACGTcount: A:0.70, C:0.09, G:0.11, T:0.09
Consensus pattern (22 bp):
AAAATAGCAAGAAAACAATAAA
Found at i:15148805 original size:9 final size:9
Alignment explanation
Indices: 15148793--15148830 Score: 67
Period size: 9 Copynumber: 4.2 Consensus size: 9
15148783 TATATTTGGT
15148793 TTATTTAAA
1 TTATTTAAA
15148802 TTATTTAAA
1 TTATTTAAA
15148811 TTATTTAAA
1 TTATTTAAA
*
15148820 TTATTTGAA
1 TTATTTAAA
15148829 TT
1 TT
15148831 TAAAAATTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (9 bp):
TTATTTAAA
Found at i:15149407 original size:4 final size:4
Alignment explanation
Indices: 15149398--15149450 Score: 106
Period size: 4 Copynumber: 13.2 Consensus size: 4
15149388 TTTACTTCAG
15149398 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
15149446 GTAT G
1 GTAT G
15149451 CTGTGATTTT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 49 1.00
ACGTcount: A:0.25, C:0.00, G:0.26, T:0.49
Consensus pattern (4 bp):
GTAT
Found at i:15153369 original size:22 final size:23
Alignment explanation
Indices: 15153331--15153379 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
15153321 ACATTAAATA
*
15153331 AAAAGAAAATAATAAAG-AAAAG
1 AAAAGAAAATAATAAAGCAAAAC
15153353 AAAAGAAAATACA-AAAGCAAAAC
1 AAAAGAAAATA-ATAAAGCAAAAC
15153376 AAAA
1 AAAA
15153380 CTAAAGAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 15 0.62
23 9 0.38
ACGTcount: A:0.78, C:0.06, G:0.10, T:0.06
Consensus pattern (23 bp):
AAAAGAAAATAATAAAGCAAAAC
Found at i:15153824 original size:10 final size:10
Alignment explanation
Indices: 15153809--15153865 Score: 55
Period size: 10 Copynumber: 5.7 Consensus size: 10
15153799 GTTAACATCC
15153809 ATTAATTTTA
1 ATTAATTTTA
*
15153819 AGTAATTGTT-
1 ATTAATT-TTA
*
15153829 ATTAAGTTTA
1 ATTAATTTTA
*
15153839 ATTAATTTTG
1 ATTAATTTTA
15153849 ATTAA-TTTA
1 ATTAATTTTA
15153858 AGTTAATT
1 A-TTAATT
15153866 AGGTGATTAA
Statistics
Matches: 37, Mismatches: 6, Indels: 7
0.74 0.12 0.14
Matches are distributed among these distances:
9 6 0.16
10 28 0.76
11 3 0.08
ACGTcount: A:0.37, C:0.00, G:0.09, T:0.54
Consensus pattern (10 bp):
ATTAATTTTA
Found at i:15153838 original size:20 final size:19
Alignment explanation
Indices: 15153809--15153865 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 19
15153799 GTTAACATCC
15153809 ATTAATTTTAAGTAATTGTT-
1 ATTAA-TTTAAGTAATT-TTG
*
15153829 ATTAAGTTTAATTAATTTTG
1 ATTAA-TTTAAGTAATTTTG
15153849 ATTAATTTAAGTTAATT
1 ATTAATTTAAG-TAATT
15153866 AGGTGATTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
19 7 0.22
20 25 0.78
ACGTcount: A:0.37, C:0.00, G:0.09, T:0.54
Consensus pattern (19 bp):
ATTAATTTAAGTAATTTTG
Found at i:15154338 original size:20 final size:21
Alignment explanation
Indices: 15154313--15154358 Score: 69
Period size: 20 Copynumber: 2.2 Consensus size: 21
15154303 TGAAATTTGT
15154313 TTTAAAACCA-ATGCTCAAAA-
1 TTTAAAACCAGA-GCTCAAAAC
15154333 TTTAAAACCAGAGCTCAAAAC
1 TTTAAAACCAGAGCTCAAAAC
15154354 TTTAA
1 TTTAA
15154359 GGGCATCGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
20 18 0.75
21 6 0.25
ACGTcount: A:0.48, C:0.20, G:0.07, T:0.26
Consensus pattern (21 bp):
TTTAAAACCAGAGCTCAAAAC
Found at i:15173806 original size:17 final size:17
Alignment explanation
Indices: 15173760--15173824 Score: 55
Period size: 16 Copynumber: 3.9 Consensus size: 17
15173750 ACATAAATTC
* *
15173760 AATTAATAATTGAAAACA
1 AATTTATAATTTAAAA-A
15173778 AATTTACT--TTTAAAAA
1 AATTTA-TAATTTAAAAA
*
15173794 AATTTATAATTTATAAA
1 AATTTATAATTTAAAAA
*
15173811 AA-TTCTAATTTAAA
1 AATTTATAATTTAAA
15173825 TTATTTTCTA
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
15 1 0.03
16 17 0.44
17 15 0.38
18 5 0.13
19 1 0.03
ACGTcount: A:0.54, C:0.05, G:0.02, T:0.40
Consensus pattern (17 bp):
AATTTATAATTTAAAAA
Found at i:15178278 original size:45 final size:45
Alignment explanation
Indices: 15178174--15178287 Score: 133
Period size: 45 Copynumber: 2.5 Consensus size: 45
15178164 GGGCTGGTGG
* * * *
15178174 CTTCAATCTGCTCCACTACAACTTTAGGAAGATAAGATCTGCCAT
1 CTTCAATCTGCTCCACTGCAACTTAAGGAAGATAAGATCTGACAA
* *
15178219 CTTCGATCTACTCCACTGCAAACTTCAAGG-AGATAAGATCT-ACAA
1 CTTCAATCTGCTCCACTGC-AACTT-AAGGAAGATAAGATCTGACAA
*
15178264 CTTCAATCTGCTCCACTGCTACTT
1 CTTCAATCTGCTCCACTGCAACTT
15178288 CAGGGAAATG
Statistics
Matches: 58, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
44 4 0.07
45 35 0.60
46 16 0.28
47 3 0.05
ACGTcount: A:0.30, C:0.29, G:0.12, T:0.29
Consensus pattern (45 bp):
CTTCAATCTGCTCCACTGCAACTTAAGGAAGATAAGATCTGACAA
Found at i:15178708 original size:46 final size:46
Alignment explanation
Indices: 15178652--15178755 Score: 154
Period size: 46 Copynumber: 2.3 Consensus size: 46
15178642 ATTTTTGGTT
* *
15178652 TCTTCCATCCATCCCACTGCAACTCAAGGATATAGGATTTGTATCA
1 TCTTCAATCCATCCCACTGCAACTCAAGGATATAGGATTAGTATCA
* * * *
15178698 TCTTCAATCCATCCCACTGCAACTTAGGGGTATAGGATTAGTATCT
1 TCTTCAATCCATCCCACTGCAACTCAAGGATATAGGATTAGTATCA
15178744 TCTTCAATCCAT
1 TCTTCAATCCAT
15178756 TCCGCTACAG
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 52 1.00
ACGTcount: A:0.27, C:0.27, G:0.13, T:0.33
Consensus pattern (46 bp):
TCTTCAATCCATCCCACTGCAACTCAAGGATATAGGATTAGTATCA
Found at i:15178781 original size:46 final size:46
Alignment explanation
Indices: 15178652--15178782 Score: 129
Period size: 46 Copynumber: 2.8 Consensus size: 46
15178642 ATTTTTGGTT
* * * *
15178652 TCTTCCATCCATCCCACTGCAACTCAAGGA-TATAGGATTTGTATCA
1 TCTTCAATCCATCCCACTACAACTC-AGGAGTACAGGATTAGTATCA
* * * * *
15178698 TCTTCAATCCATCCCACTGCAACTTAGGGGTATAGGATTAGTATCT
1 TCTTCAATCCATCCCACTACAACTCAGGAGTACAGGATTAGTATCA
* * * *
15178744 TCTTCAATCCATTCCGCTACAGCTCAGTAGTACAGGATT
1 TCTTCAATCCATCCCACTACAACTCAGGAGTACAGGATT
15178783 TGTGGCTTTT
Statistics
Matches: 71, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
45 3 0.04
46 68 0.96
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.31
Consensus pattern (46 bp):
TCTTCAATCCATCCCACTACAACTCAGGAGTACAGGATTAGTATCA
Found at i:15183310 original size:5 final size:5
Alignment explanation
Indices: 15183302--15183331 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
15183292 ATGCAATCAT
15183302 AAACA AAACA AAACA AAACA AAACA AAACA
1 AAACA AAACA AAACA AAACA AAACA AAACA
15183332 CGTCAGTACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.80, C:0.20, G:0.00, T:0.00
Consensus pattern (5 bp):
AAACA
Found at i:15186619 original size:51 final size:52
Alignment explanation
Indices: 15186546--15186650 Score: 126
Period size: 51 Copynumber: 2.0 Consensus size: 52
15186536 CCATTGAATT
* * *
15186546 TATTTAATTTAATTTTAAAAATTTTACT-TTAAATGAATTAACTT-ATATAAA
1 TATTTAATCTAATTTTAAAAATTTTA-TGGTAAATAAATTAACTTAATATAAA
* *
15186597 TATTT-ATCTAATATTTGAAAATTTTATGGTAAATAAATTAACTTAATTTAAA
1 TATTTAATCTAAT-TTTAAAAATTTTATGGTAAATAAATTAACTTAATATAAA
15186649 TA
1 TA
15186651 AACTAACTTA
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
50 7 0.15
51 31 0.67
52 8 0.17
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.48
Consensus pattern (52 bp):
TATTTAATCTAATTTTAAAAATTTTATGGTAAATAAATTAACTTAATATAAA
Found at i:15186935 original size:33 final size:33
Alignment explanation
Indices: 15186895--15186972 Score: 129
Period size: 33 Copynumber: 2.3 Consensus size: 33
15186885 AATTTACATT
15186895 TGAAAATTAAAAATTTATTTAATTTAAACTGAA
1 TGAAAATTAAAAATTTATTTAATTTAAACTGAA
*
15186928 TGAAAATTAAAAATTTATTTAATTTAAATTGAA
1 TGAAAATTAAAAATTTATTTAATTTAAACTGAA
15186961 TGGATAAATTAA
1 T-GA-AAATTAA
15186973 CTTTTTCAAT
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
33 33 0.79
34 2 0.05
35 7 0.17
ACGTcount: A:0.51, C:0.01, G:0.08, T:0.40
Consensus pattern (33 bp):
TGAAAATTAAAAATTTATTTAATTTAAACTGAA
Found at i:15192722 original size:29 final size:29
Alignment explanation
Indices: 15192663--15192724 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
15192653 CGATCTTGGC
* * *
15192663 ACTTAAACTTTTTTTTTGTCACAAATGGT
1 ACTTAAACTCTTTTTTTCTCACAAATAGT
*
15192692 ACTTAAACTACTTTTTTTCTCA-AATTAGT
1 ACTTAAACT-CTTTTTTTCTCACAAATAGT
15192721 ACTT
1 ACTT
15192725 CCATTAGTCA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 18 0.64
30 10 0.36
ACGTcount: A:0.29, C:0.16, G:0.06, T:0.48
Consensus pattern (29 bp):
ACTTAAACTCTTTTTTTCTCACAAATAGT
Found at i:15193907 original size:21 final size:20
Alignment explanation
Indices: 15193881--15193926 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
15193871 TACCCCAAAT
* *
15193881 CCCCAAACATTTTTACTTTCC
1 CCCCAAA-ACTTTTACTCTCC
15193902 CCCCAAAACTTTTACTCTCC
1 CCCCAAAACTTTTACTCTCC
*
15193922 TCCCA
1 CCCCA
15193927 TCCCACCCCC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 15 0.68
21 7 0.32
ACGTcount: A:0.24, C:0.43, G:0.00, T:0.33
Consensus pattern (20 bp):
CCCCAAAACTTTTACTCTCC
Found at i:15197996 original size:12 final size:13
Alignment explanation
Indices: 15197972--15198000 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
15197962 TTGGCCTTTG
15197972 AAATTACAAATTA
1 AAATTACAAATTA
15197985 AAATTA-AAATTA
1 AAATTACAAATTA
15197997 AAAT
1 AAAT
15198001 ACACATTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (13 bp):
AAATTACAAATTA
Found at i:15200432 original size:23 final size:23
Alignment explanation
Indices: 15200390--15200433 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
15200380 TCAATATTAT
*
15200390 TTTATTAATATTTTGCTTAGATA
1 TTTATTAATATTTTACTTAGATA
* *
15200413 TTTATTATTATTTTATTTAGA
1 TTTATTAATATTTTACTTAGA
15200434 AAAAAGGTAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.30, C:0.02, G:0.07, T:0.61
Consensus pattern (23 bp):
TTTATTAATATTTTACTTAGATA
Found at i:15205074 original size:37 final size:37
Alignment explanation
Indices: 15205024--15205099 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
15205014 AAACTAAGTT
15205024 GATGGATACTCAATATACACATGGGTGATGTTTGTTA
1 GATGGATACTCAATATACACATGGGTGATGTTTGTTA
15205061 GATGGATACTCAATATACACATGGGTGATGTTTGTTA
1 GATGGATACTCAATATACACATGGGTGATGTTTGTTA
15205098 GA
1 GA
15205100 GACAAGGCTG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.30, C:0.11, G:0.25, T:0.34
Consensus pattern (37 bp):
GATGGATACTCAATATACACATGGGTGATGTTTGTTA
Found at i:15206945 original size:51 final size:51
Alignment explanation
Indices: 15206885--15206989 Score: 201
Period size: 51 Copynumber: 2.1 Consensus size: 51
15206875 TTTTCAGTGA
*
15206885 GTTACTTTGTATTTACTTAGATTTTATGTTAGCAAGCTAAATTTGATATAT
1 GTTACTTTGTATTTACTTAGATTCTATGTTAGCAAGCTAAATTTGATATAT
15206936 GTTACTTTGTATTTACTTAGATTCTATGTTAGCAAGCTAAATTTGATATAT
1 GTTACTTTGTATTTACTTAGATTCTATGTTAGCAAGCTAAATTTGATATAT
15206987 GTT
1 GTT
15206990 TTAAAGCTTG
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.29, C:0.09, G:0.14, T:0.49
Consensus pattern (51 bp):
GTTACTTTGTATTTACTTAGATTCTATGTTAGCAAGCTAAATTTGATATAT
Found at i:15208428 original size:22 final size:21
Alignment explanation
Indices: 15208394--15208434 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
15208384 TTATCACTTA
*
15208394 AAAATTTATATATATATATAT
1 AAAATATATATATATATATAT
15208415 AAAATATATA-ATATATATAT
1 AAAATATATATATATATATAT
15208435 TGTGAAAGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
AAAATATATATATATATATAT
Found at i:15209680 original size:21 final size:21
Alignment explanation
Indices: 15209646--15209686 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
15209636 TGTTTATGAT
* *
15209646 TTGATTCTACTGTTTATAAAC
1 TTGATCCTACTGTTCATAAAC
*
15209667 TTGATCCTATTGTTCATAAA
1 TTGATCCTACTGTTCATAAA
15209687 ACTAACATTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.29, C:0.15, G:0.10, T:0.46
Consensus pattern (21 bp):
TTGATCCTACTGTTCATAAAC
Found at i:15210172 original size:9 final size:8
Alignment explanation
Indices: 15210156--15210180 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
15210146 CTGCTTAATA
15210156 TCTTTTTT
1 TCTTTTTT
15210164 TCTTTTTT
1 TCTTTTTT
15210172 TCTTTTTT
1 TCTTTTTT
15210180 T
1 T
15210181 ATTTCAGGTT
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:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (8 bp):
TCTTTTTT
Found at i:15210506 original size:6 final size:6
Alignment explanation
Indices: 15210497--15210536 Score: 62
Period size: 6 Copynumber: 6.7 Consensus size: 6
15210487 AAACTCAGAG
* *
15210497 TCCGGT TCCGGT TCCGGC TCCGGC TCCGGC TCCGGC TCCG
1 TCCGGC TCCGGC TCCGGC TCCGGC TCCGGC TCCGGC TCCG
15210537 TTTCTTCACT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.00, C:0.45, G:0.33, T:0.23
Consensus pattern (6 bp):
TCCGGC
Found at i:15213229 original size:3 final size:3
Alignment explanation
Indices: 15213213--15213274 Score: 62
Period size: 3 Copynumber: 22.3 Consensus size: 3
15213203 TTCATTTCGG
* *
15213213 GAA GAA -AA -AA GAA GAA GAA GGA -AA GAA GGA GAA G-A GAA GAA G-A
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
*
15213256 GAA GAA GAA GAA GGA GAA G
1 GAA GAA GAA GAA GAA GAA G
15213275 GAGGTGGCAC
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
2 9 0.18
3 40 0.82
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:15213239 original size:14 final size:15
Alignment explanation
Indices: 15213221--15213277 Score: 75
Period size: 14 Copynumber: 4.0 Consensus size: 15
15213211 GGGAAGAAAA
*
15213221 AAGAAGAAGAAGGA-
1 AAGAAGGAGAAGGAG
15213235 AAGAAGGAGAA-GAG
1 AAGAAGGAGAAGGAG
*
15213249 AAGAA-GAGAAGAAG
1 AAGAAGGAGAAGGAG
15213263 AAGAAGGAGAAGGAG
1 AAGAAGGAGAAGGAG
15213278 GTGGCACCAG
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
13 7 0.19
14 22 0.59
15 8 0.22
ACGTcount: A:0.60, C:0.00, G:0.40, T:0.00
Consensus pattern (15 bp):
AAGAAGGAGAAGGAG
Found at i:15213240 original size:11 final size:10
Alignment explanation
Indices: 15213213--15213267 Score: 53
Period size: 11 Copynumber: 5.6 Consensus size: 10
15213203 TTCATTTCGG
*
15213213 GAAGAAAAAA
1 GAAGAAAGAA
15213223 GAAG-AAGAA
1 GAAGAAAGAA
15213232 G--GAAAGAA
1 GAAGAAAGAA
*
15213240 GGAGAAGAGAA
1 GAAGAA-AGAA
15213251 GAAGAGAAGAA
1 GAAGA-AAGAA
15213262 GAAGAA
1 GAAGAA
15213268 GGAGAAGGAG
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
7 1 0.03
8 6 0.16
9 5 0.13
10 8 0.21
11 17 0.45
12 1 0.03
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (10 bp):
GAAGAAAGAA
Found at i:15213266 original size:28 final size:28
Alignment explanation
Indices: 15213221--15213274 Score: 83
Period size: 28 Copynumber: 1.9 Consensus size: 28
15213211 GGGAAGAAAA
*
15213221 AAGAAGAAGAAGGAAAGAAGGAGAAGAG
1 AAGAAGAAGAAGAAAAGAAGGAGAAGAG
15213249 AAGAAG-AGAAGAAGAAGAAGGAGAAG
1 AAGAAGAAGAAGAA-AAGAAGGAGAAG
15213275 GAGGTGGCAC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 6 0.25
28 18 0.75
ACGTcount: A:0.61, C:0.00, G:0.39, T:0.00
Consensus pattern (28 bp):
AAGAAGAAGAAGAAAAGAAGGAGAAGAG
Found at i:15213313 original size:5 final size:6
Alignment explanation
Indices: 15213298--15213322 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
15213288 TGAGGGAAGA
15213298 AAAAAG AAAAAG AAAAAG AAAAAG A
1 AAAAAG AAAAAG AAAAAG AAAAAG A
15213323 GAAGGAGGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:15213792 original size:16 final size:15
Alignment explanation
Indices: 15213771--15213848 Score: 57
Period size: 16 Copynumber: 4.9 Consensus size: 15
15213761 ACCTTTTATA
*
15213771 AAAATAGTATAAAAAT
1 AAAATACTA-AAAAAT
15213787 AAAATACTAAAAAAT
1 AAAATACTAAAAAAT
*** *
15213802 ATCTTAATGAAAAAAT
1 AAAATACT-AAAAAAT
*
15213818 AAAATACAAAAAGAAAT
1 AAAATAC-TAAA-AAAT
*
15213835 AAAATACGAAAAAA
1 AAAATACTAAAAAA
15213849 AAATTTTGGG
Statistics
Matches: 48, Mismatches: 11, Indels: 7
0.73 0.17 0.11
Matches are distributed among these distances:
15 13 0.27
16 24 0.50
17 11 0.23
ACGTcount: A:0.71, C:0.05, G:0.05, T:0.19
Consensus pattern (15 bp):
AAAATACTAAAAAAT
Found at i:15213834 original size:17 final size:18
Alignment explanation
Indices: 15213811--15213852 Score: 68
Period size: 17 Copynumber: 2.4 Consensus size: 18
15213801 TATCTTAATG
15213811 AAAAAATAAAATAC-AAA
1 AAAAAATAAAATACGAAA
*
15213828 AAGAAATAAAATACGAAA
1 AAAAAATAAAATACGAAA
15213846 AAAAAAT
1 AAAAAAT
15213853 TTTGGGGGGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 13 0.59
18 9 0.41
ACGTcount: A:0.79, C:0.05, G:0.05, T:0.12
Consensus pattern (18 bp):
AAAAAATAAAATACGAAA
Found at i:15214073 original size:150 final size:147
Alignment explanation
Indices: 15213884--15214423 Score: 778
Period size: 150 Copynumber: 3.6 Consensus size: 147
15213874 GAGGGTTTTT
*
15213884 TACTAAAATAATAT-AAAAATAAAATACAAAAATAGTATATTTTAAAAAATAAAATCTGAAAATT
1 TACTAAAATAATATAAAAAATAAAATACAAAAATAGTATATTTTAAAAAATAAAATCCGAAAA-T
**
15213948 TTAAAAATACAAACAAAAGGCCAAAATTAGGGTTATTTACTAAATTAATAAAATAATACTAAAAT
65 AAAAAAATACAAACAAAAGGCCAAAATTAGGGTTATTTACTAAATTAATAAAA-AA-ACTAAAAT
*
15214013 AATACATTTAAAACATTATG
128 AATACATTTGAAACATTATG
** *
15214033 TACTAAAATAATATAAAAAATAAAATATGAAAATAGTATATTTTAAAAAATAAAATCCAAAAATT
1 TACTAAAATAATATAAAAAATAAAATACAAAAATAGTATATTTTAAAAAATAAAATCCGAAAA-T
* *
15214098 TAAAAAATACAAACAAAAGGCCAAAATCAGGGTTATTTACTAAATTAATAAAAAAACTAAAATAA
65 AAAAAAATACAAACAAAAGGCCAAAATTAGGGTTATTTACTAAATTAATAAAAAAACTAAAATAA
*
15214163 TACATTTGAAACATAATG
130 TACATTTGAAACATTATG
* * * *
15214181 TACTAAAATAATATAAAAAAATAAAATACGAAAATATTATATATTAAAAAATAAAATCTGAAAAT
1 TACTAAAATAATAT-AAAAAATAAAATACAAAAATAGTATATTTTAAAAAATAAAATCCGAAAAT
* * *
15214246 AAAAAAATACCAAC-AAAGTGCCAAAATTAGGGTTATTTATTAAATTAATATAAAAAACACTTAA
65 AAAAAAATACAAACAAAAG-GCCAAAATTAGGGTTATTTACTAAATT-A-ATAAAAAA-ACTAAA
*
15214310 ATAATACATTTGAAACATTATT
126 ATAATACATTTGAAACATTATG
* *
15214332 TACTAAAATAATATAAGAAAATAAAATAAAAAAATAATATATTTTAAAAAATAAAATCCGAAAAT
1 TACTAAAATAATATAA-AAAATAAAATACAAAAATAGTATATTTTAAAAAATAAAATCCGAAAAT
* *
15214397 AAAAAAATACCAACAAAGGGCCAAAAT
65 AAAAAAATACAAACAAAAGGCCAAAAT
15214424 CACCGAACAA
Statistics
Matches: 357, Mismatches: 26, Indels: 14
0.90 0.07 0.04
Matches are distributed among these distances:
147 4 0.01
148 78 0.22
149 61 0.17
150 107 0.30
151 104 0.29
152 3 0.01
ACGTcount: A:0.59, C:0.08, G:0.06, T:0.27
Consensus pattern (147 bp):
TACTAAAATAATATAAAAAATAAAATACAAAAATAGTATATTTTAAAAAATAAAATCCGAAAATA
AAAAAATACAAACAAAAGGCCAAAATTAGGGTTATTTACTAAATTAATAAAAAAACTAAAATAAT
ACATTTGAAACATTATG
Found at i:15214114 original size:21 final size:21
Alignment explanation
Indices: 15214074--15214115 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
15214064 AATAGTATAT
15214074 TTTAAAAAATAAAATCCAAAAA
1 TTTAAAAAATAAAA-CCAAAAA
15214096 TTTAAAAAATACAAA-CAAAA
1 TTTAAAAAATA-AAACCAAAA
15214116 GGCCAAAATC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.26
22 11 0.58
23 3 0.16
ACGTcount: A:0.69, C:0.10, G:0.00, T:0.21
Consensus pattern (21 bp):
TTTAAAAAATAAAACCAAAAA
Found at i:15214317 original size:299 final size:297
Alignment explanation
Indices: 15213884--15214425 Score: 847
Period size: 299 Copynumber: 1.8 Consensus size: 297
15213874 GAGGGTTTTT
* *
15213884 TACTAAAATAATATAAAAATAAAATACAAAAATAGTATATTTTAAAAAATAAAATCTGAAAATTT
1 TACTAAAATAATATAAAAATAAAATACAAAAATAGTATATATTAAAAAATAAAATCTGAAAATTA
* * *
15213949 TAAAAATACAAACAAAAGGCCAAAATTAGGGTTATTTACTAAATTAATAAAATAATACTAAAATA
66 AAAAAATACAAACAAAAGGCCAAAATTAGGGTTATTTACTAAATTAATAAAAAAACACTAAAATA
** *
15214014 ATACATTTAAAACATTATGTACTAAAATAATATAA-AAAATAAAATATGAAAATAGTATATTTTA
131 ATACATTTAAAACATTATGTACTAAAATAATATAAGAAAATAAAATAAAAAAATAATATATTTTA
*
15214078 AAAAATAAAATCCAAAAATTTAAAAAATACAAACAAAAGGCCAAAATCAGGGTTATTTACTAAAT
196 AAAAATAAAATCCAAAAA-TAAAAAAATACAAACAAAAGGCCAAAATCAGGGTTATTTACTAAAT
15214143 TAATAAAAAAACTAAAATAATACATTTGAAACATAATG
260 TAATAAAAAAACTAAAATAATACATTTGAAACATAATG
* *
15214181 TACTAAAATAATATAAAAAAATAAAATACGAAAATATTATATATTAAAAAATAAAATCTGAAAA-
1 TACTAAAATAATAT--AAAAATAAAATACAAAAATAGTATATATTAAAAAATAAAATCTGAAAAT
* * *
15214245 TAAAAAAATACCAAC-AAAGTGCCAAAATTAGGGTTATTTATTAAATTAATATAAAAAACACTTA
64 TAAAAAAATACAAACAAAAG-GCCAAAATTAGGGTTATTTACTAAATTAATA-AAAAAACACTAA
* *
15214309 AATAATACATTTGAAACATTATTTACTAAAATAATATAAGAAAATAAAATAAAAAAATAATATAT
127 AATAATACATTTAAAACATTATGTACTAAAATAATATAAGAAAATAAAATAAAAAAATAATATAT
* * *
15214374 TTTAAAAAATAAAATCCGAAAATAAAAAAATACCAACAAAGGGCCAAAATCA
192 TTTAAAAAATAAAATCCAAAAATAAAAAAATACAAACAAAAGGCCAAAATCA
15214426 CCGAACAAAA
Statistics
Matches: 221, Mismatches: 19, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
297 18 0.08
298 42 0.19
299 118 0.53
300 43 0.19
ACGTcount: A:0.59, C:0.08, G:0.06, T:0.27
Consensus pattern (297 bp):
TACTAAAATAATATAAAAATAAAATACAAAAATAGTATATATTAAAAAATAAAATCTGAAAATTA
AAAAAATACAAACAAAAGGCCAAAATTAGGGTTATTTACTAAATTAATAAAAAAACACTAAAATA
ATACATTTAAAACATTATGTACTAAAATAATATAAGAAAATAAAATAAAAAAATAATATATTTTA
AAAAATAAAATCCAAAAATAAAAAAATACAAACAAAAGGCCAAAATCAGGGTTATTTACTAAATT
AATAAAAAAACTAAAATAATACATTTGAAACATAATG
Found at i:15214354 original size:13 final size:13
Alignment explanation
Indices: 15214336--15214372 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
15214326 ATTATTTACT
*
15214336 AAAATAATATAAG
1 AAAATAATATAAA
*
15214349 AAAATAAAATAAA
1 AAAATAATATAAA
15214362 AAAATAATATA
1 AAAATAATATA
15214373 TTTTAAAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.22
Consensus pattern (13 bp):
AAAATAATATAAA
Found at i:15214357 original size:151 final size:150
Alignment explanation
Indices: 15213884--15214423 Score: 779
Period size: 151 Copynumber: 3.6 Consensus size: 150
15213874 GAGGGTTTTT
*
15213884 TACTAAAATAATAT-AAAAATAAAATACAAAAATAGTATATTTTAAAAAATAAAATCTGAAAATT
1 TACTAAAATAATATAAAAAATAAAATACAAAAATAGTATATTTTAAAAAATAAAATCCGAAAATT
** *
15213948 TTAAAAATACAAACAAAAGGCCAAAATTAGGGTTATTTACTAAATTAATA-AAATAATACTAAAA
66 AAAAAAATACAAACAAAAGGCCAAAATTAGGGTTATTTACTAAATTAATATAAA-AAAACTAAAA
*
15214012 TAATACATTTAAAACATTATG
130 TAATACATTTGAAACATTATG
** *
15214033 TACTAAAATAATATAAAAAATAAAATATGAAAATAGTATATTTTAAAAAATAAAATCCAAAAATT
1 TACTAAAATAATATAAAAAATAAAATACAAAAATAGTATATTTTAAAAAATAAAATCCGAAAATT
* *
15214098 TAAAAAATACAAACAAAAGGCCAAAATCAGGGTTATTTACTAAATT-A-ATAAAAAAACTAAAAT
66 AAAAAAATACAAACAAAAGGCCAAAATTAGGGTTATTTACTAAATTAATATAAAAAAACTAAAAT
*
15214161 AATACATTTGAAACATAATG
131 AATACATTTGAAACATTATG
* * * *
15214181 TACTAAAATAATATAAAAAAATAAAATACGAAAATATTATATATTAAAAAATAAAATCTGAAAA-
1 TACTAAAATAATAT-AAAAAATAAAATACAAAAATAGTATATTTTAAAAAATAAAATCCGAAAAT
* * *
15214245 TAAAAAAATACCAAC-AAAGTGCCAAAATTAGGGTTATTTATTAAATTAATATAAAAAACACTTA
65 TAAAAAAATACAAACAAAAG-GCCAAAATTAGGGTTATTTACTAAATTAATATAAAAAA-ACTAA
*
15214309 AATAATACATTTGAAACATTATT
128 AATAATACATTTGAAACATTATG
* *
15214332 TACTAAAATAATATAAGAAAATAAAATAAAAAAATAATATATTTTAAAAAATAAAATCCGAAAA-
1 TACTAAAATAATATAA-AAAATAAAATACAAAAATAGTATATTTTAAAAAATAAAATCCGAAAAT
* *
15214396 TAAAAAAATACCAACAAAGGGCCAAAAT
65 TAAAAAAATACAAACAAAAGGCCAAAAT
15214424 CACCGAACAA
Statistics
Matches: 355, Mismatches: 27, Indels: 16
0.89 0.07 0.04
Matches are distributed among these distances:
147 4 0.01
148 81 0.23
149 63 0.18
150 100 0.28
151 104 0.29
152 3 0.01
ACGTcount: A:0.59, C:0.08, G:0.06, T:0.27
Consensus pattern (150 bp):
TACTAAAATAATATAAAAAATAAAATACAAAAATAGTATATTTTAAAAAATAAAATCCGAAAATT
AAAAAAATACAAACAAAAGGCCAAAATTAGGGTTATTTACTAAATTAATATAAAAAAACTAAAAT
AATACATTTGAAACATTATG
Found at i:15216751 original size:50 final size:50
Alignment explanation
Indices: 15216682--15216782 Score: 166
Period size: 50 Copynumber: 2.0 Consensus size: 50
15216672 CACCACAGCA
* *
15216682 TGACACTCCTCCTGGCTCAAGTTCATTGATGCAATTCGAGCCATATGACT
1 TGACACTCCTCCCGGCTCAAGTTCATCGATGCAATTCGAGCCATATGACT
* *
15216732 TGACACTCCTCCCGGCTCAAGTTTATCGATGCCATTCGAGCCATATGACT
1 TGACACTCCTCCCGGCTCAAGTTCATCGATGCAATTCGAGCCATATGACT
15216782 T
1 T
15216783 CTCTTCCATT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.23, C:0.30, G:0.18, T:0.30
Consensus pattern (50 bp):
TGACACTCCTCCCGGCTCAAGTTCATCGATGCAATTCGAGCCATATGACT
Found at i:15217081 original size:26 final size:26
Alignment explanation
Indices: 15217052--15217134 Score: 80
Period size: 26 Copynumber: 3.0 Consensus size: 26
15217042 ATTAAAACAC
15217052 TAAATACATTACAATATTAATCTAAT
1 TAAATACATTACAATATTAATCTAAT
*
15217078 TAAATACATTA-ATTTAATTGGAA-CATTAAT
1 TAAATACATTACA-AT-ATT--AATC--TAAT
*
15217108 TAAATACATTACAACATTAATCTAAT
1 TAAATACATTACAATATTAATCTAAT
15217134 T
1 T
15217135 GGAACAAACT
Statistics
Matches: 46, Mismatches: 3, Indels: 16
0.71 0.05 0.25
Matches are distributed among these distances:
25 1 0.02
26 17 0.37
27 5 0.11
28 2 0.04
29 5 0.11
30 15 0.33
31 1 0.02
ACGTcount: A:0.48, C:0.11, G:0.02, T:0.39
Consensus pattern (26 bp):
TAAATACATTACAATATTAATCTAAT
Found at i:15217105 original size:17 final size:17
Alignment explanation
Indices: 15217083--15217140 Score: 53
Period size: 17 Copynumber: 3.2 Consensus size: 17
15217073 CTAATTAAAT
15217083 ACATTAATTTAATTGGA
1 ACATTAATTTAATTGGA
**
15217100 ACATTAATTAAATACATTACA
1 ACATTAATT---TA-ATTGGA
*
15217121 ACATTAATCTAATTGGA
1 ACATTAATTTAATTGGA
15217138 ACA
1 ACA
15217141 AACTTTGCAA
Statistics
Matches: 32, Mismatches: 5, Indels: 8
0.71 0.11 0.18
Matches are distributed among these distances:
17 16 0.50
18 2 0.06
20 2 0.06
21 12 0.38
ACGTcount: A:0.47, C:0.12, G:0.07, T:0.34
Consensus pattern (17 bp):
ACATTAATTTAATTGGA
Found at i:15220470 original size:16 final size:16
Alignment explanation
Indices: 15220449--15220481 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
15220439 ATAGTTTTTT
*
15220449 ACTAACAATGATAATA
1 ACTAACAATAATAATA
15220465 ACTAACAATAATAATA
1 ACTAACAATAATAATA
15220481 A
1 A
15220482 GGGTTTTGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.61, C:0.12, G:0.03, T:0.24
Consensus pattern (16 bp):
ACTAACAATAATAATA
Found at i:15220472 original size:42 final size:41
Alignment explanation
Indices: 15220404--15220507 Score: 122
Period size: 42 Copynumber: 2.5 Consensus size: 41
15220394 TAATTAGGTT
** *
15220404 TTTTTTACTAACAAT-T-ATAACCAACAATCCTAATAATAG
1 TTTTTTACTAACAATATAATAACCAACAATAATAATAAGAG
* *
15220443 TTTTTTACTAACAATGATAATAACTAACAATAATAATAAGGG
1 TTTTTTACTAACAAT-ATAATAACCAACAATAATAATAAGAG
*
15220485 TTTTGTACTAACAATAATAATAA
1 TTTTTTACTAACAAT-ATAATAA
15220508 GGTTTTTTAC
Statistics
Matches: 55, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
39 15 0.27
41 1 0.02
42 39 0.71
ACGTcount: A:0.46, C:0.12, G:0.06, T:0.36
Consensus pattern (41 bp):
TTTTTTACTAACAATATAATAACCAACAATAATAATAAGAG
Found at i:15220518 original size:25 final size:26
Alignment explanation
Indices: 15220465--15220532 Score: 120
Period size: 25 Copynumber: 2.7 Consensus size: 26
15220455 AATGATAATA
15220465 ACTAACAATAATAATAAGGGTTTTGT
1 ACTAACAATAATAATAAGGGTTTTGT
*
15220491 ACTAACAATAATAATAA-GGTTTTTT
1 ACTAACAATAATAATAAGGGTTTTGT
15220516 ACTAACAATAATAATAA
1 ACTAACAATAATAATAA
15220533 CTAACAACAA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
25 24 0.59
26 17 0.41
ACGTcount: A:0.49, C:0.09, G:0.09, T:0.34
Consensus pattern (26 bp):
ACTAACAATAATAATAAGGGTTTTGT
Found at i:15220555 original size:23 final size:23
Alignment explanation
Indices: 15220525--15220572 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
15220515 TACTAACAAT
15220525 AATAATAACTAACAACAAAAA-AC
1 AATAATAA-TAACAACAAAAACAC
*
15220548 AATAATAATAACAGCAAAAACAC
1 AATAATAATAACAACAAAAACAC
15220571 AA
1 AA
15220573 GAACAATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 11 0.48
23 12 0.52
ACGTcount: A:0.69, C:0.17, G:0.02, T:0.12
Consensus pattern (23 bp):
AATAATAATAACAACAAAAACAC
Found at i:15220580 original size:23 final size:22
Alignment explanation
Indices: 15220534--15220580 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
15220524 TAATAATAAC
* *
15220534 TAACAACAAAAAACAATAATAA
1 TAACAACAAAAAACAAGAACAA
*
15220556 TAACAGCAAAAACACAAGAACAA
1 TAACAACAAAAA-ACAAGAACAA
15220579 TA
1 TA
15220581 TAAAAAACCA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 11 0.52
23 10 0.48
ACGTcount: A:0.68, C:0.17, G:0.04, T:0.11
Consensus pattern (22 bp):
TAACAACAAAAAACAAGAACAA
Found at i:15231744 original size:22 final size:21
Alignment explanation
Indices: 15231719--15231760 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
15231709 AATATAATGG
*
15231719 CAAAATGACAGTAAAACAATAT
1 CAAAATGACAAT-AAACAATAT
*
15231741 CAAAATGGCAATAAACAATA
1 CAAAATGACAATAAACAATA
15231761 GTGAAAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.60, C:0.14, G:0.10, T:0.17
Consensus pattern (21 bp):
CAAAATGACAATAAACAATAT
Found at i:15239732 original size:21 final size:21
Alignment explanation
Indices: 15239708--15239752 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
15239698 ATACTATATA
*
15239708 TATACATATTATATATATTCT
1 TATACATATTATATATATTAT
** *
15239729 TATAGTTGTTATATATATTAT
1 TATACATATTATATATATTAT
15239750 TAT
1 TAT
15239753 TGTTGTTCCT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.56
Consensus pattern (21 bp):
TATACATATTATATATATTAT
Found at i:15239757 original size:21 final size:21
Alignment explanation
Indices: 15239716--15239759 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
15239706 TATATACATA
*
15239716 TTATATATATTCTTATAGTTG
1 TTATATATATTATTATAGTTG
*
15239737 TTATATATATTATTATTGTTG
1 TTATATATATTATTATAGTTG
15239758 TT
1 TT
15239760 CCTAATATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.27, C:0.02, G:0.09, T:0.61
Consensus pattern (21 bp):
TTATATATATTATTATAGTTG
Found at i:15242122 original size:4 final size:4
Alignment explanation
Indices: 15242113--15242152 Score: 71
Period size: 4 Copynumber: 10.0 Consensus size: 4
15242103 TTCTACTACC
*
15242113 CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT TTTT CTTT
1 CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT
15242153 TTACTTCTCC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.78
Consensus pattern (4 bp):
CTTT
Found at i:15244630 original size:18 final size:19
Alignment explanation
Indices: 15244593--15244635 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
15244583 TATATTATTT
*
15244593 TTAAAAAATATATAATACA
1 TTAAAAAATATATAAAACA
15244612 -TAAAAAATACTA-AAAACA
1 TTAAAAAATA-TATAAAACA
15244630 TTAAAA
1 TTAAAA
15244636 TAAATGTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 14 0.67
19 7 0.33
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.26
Consensus pattern (19 bp):
TTAAAAAATATATAAAACA
Found at i:15244875 original size:32 final size:34
Alignment explanation
Indices: 15244809--15244880 Score: 94
Period size: 32 Copynumber: 2.1 Consensus size: 34
15244799 GAAATGATAG
*
15244809 CAAAATAGTGAAAAAAAAAAGAAATAAAGTAGCAA
1 CAAAATAGT-AAAAAAAAAAGAAATAAAGAAGCAA
*
15244844 CAAAATAGT-AAAAAAAAAGCAA-AAAGAAGCAA
1 CAAAATAGTAAAAAAAAAAGAAATAAAGAAGCAA
*
15244876 GAAAA
1 CAAAA
15244881 CAATAGGTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
32 13 0.38
33 12 0.35
35 9 0.26
ACGTcount: A:0.71, C:0.07, G:0.14, T:0.08
Consensus pattern (34 bp):
CAAAATAGTAAAAAAAAAAGAAATAAAGAAGCAA
Found at i:15245323 original size:29 final size:30
Alignment explanation
Indices: 15245288--15245346 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 30
15245278 TATTGTCTAA
* *
15245288 TGTGCAATTTTATATAT-AAATTTTGATTT
1 TGTGCAATTTTATACATGAAAATTTGATTT
15245317 TGTGCAATTTTATACATGAAAATTTGATTT
1 TGTGCAATTTTATACATGAAAATTTGATTT
15245347 GATCAAATTC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 16 0.59
30 11 0.41
ACGTcount: A:0.32, C:0.05, G:0.12, T:0.51
Consensus pattern (30 bp):
TGTGCAATTTTATACATGAAAATTTGATTT
Found at i:15245479 original size:12 final size:12
Alignment explanation
Indices: 15245462--15245486 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
15245452 AACATTTATT
15245462 TCTTTAAATGTG
1 TCTTTAAATGTG
15245474 TCTTTAAATGTG
1 TCTTTAAATGTG
15245486 T
1 T
15245487 ATGATTGAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.08, G:0.16, T:0.52
Consensus pattern (12 bp):
TCTTTAAATGTG
Found at i:15245832 original size:16 final size:16
Alignment explanation
Indices: 15245811--15245877 Score: 80
Period size: 16 Copynumber: 4.1 Consensus size: 16
15245801 TCACATAATT
*
15245811 TACATAATTTACATAA
1 TACATAACTTACATAA
15245827 TACATAACTTACATAA
1 TACATAACTTACATAA
* *
15245843 TTTAAAAAACTTACATAA
1 --TACATAACTTACATAA
*
15245861 TACATAACTAACATAA
1 TACATAACTTACATAA
15245877 T
1 T
15245878 TTAAAGATCA
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
16 29 0.67
18 14 0.33
ACGTcount: A:0.52, C:0.15, G:0.00, T:0.33
Consensus pattern (16 bp):
TACATAACTTACATAA
Found at i:15245846 original size:34 final size:31
Alignment explanation
Indices: 15245798--15246126 Score: 195
Period size: 31 Copynumber: 10.4 Consensus size: 31
15245788 GTTTACTAGC
*
15245798 AACTCACATAATTTACATAATTTACATAATACAT
1 AACTTACATAATTTA-A-AA-TTACATAATACAT
15245832 AACTTACATAATTTAAAAAACTTACATAATACAT
1 AACTTACATAATTT--AAAA-TTACATAATACAT
* *
15245866 AACTAACATAATTTAAAGA-T-CA-AATTTCAT
1 AACTTACATAATTTAAA-ATTACATAA-TACAT
* * *
15245896 AACTTAACATAATTTAAAGATGA-A-ATTTCAT
1 AACTT-ACATAATTTAAA-ATTACATAATACAT
*
15245927 AACTTAACATAATTTAAAGA-T-CA-AATTTCAT
1 AACTT-ACATAATTTAAA-ATTACATAA-TACAT
* *
15245958 AACTTACATAATTCATAATTTACATAATACAT
1 AACTTACATAATTTA-AAATTACATAATACAT
15245990 AACTTACATAATTTAAAAAACTTACATAATACAT
1 AACTTACATAATTT--AAAA-TTACATAATACAT
* *
15246024 AACTAACATAATTTAAAGA-T-CA-AATTTCAT
1 AACTTACATAATTTAAA-ATTACATAA-TACAT
* * *
15246054 AACTTAACATAATTTAAAGATGA-A-ATTTCAT
1 AACTT-ACATAATTTAAA-ATTACATAATACAT
*
15246085 AACTTAACATAATTTAAAGA-T-CA-AATTTCAT
1 AACTT-ACATAATTTAAA-ATTACATAA-TACAT
15246116 AACTTACATAA
1 AACTTACATAA
15246127 CTTACATAAT
Statistics
Matches: 251, Mismatches: 21, Indels: 50
0.78 0.07 0.16
Matches are distributed among these distances:
29 4 0.02
30 39 0.16
31 103 0.41
32 29 0.12
33 6 0.02
34 68 0.27
35 1 0.00
36 1 0.00
ACGTcount: A:0.50, C:0.14, G:0.02, T:0.34
Consensus pattern (31 bp):
AACTTACATAATTTAAAATTACATAATACAT
Found at i:15245864 original size:25 final size:24
Alignment explanation
Indices: 15245811--15245867 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
15245801 TCACATAATT
* *
15245811 TACATAATTTACATAATACATAAC
1 TACATAATTTAAAAAATACATAAC
15245835 TTACATAATTTAAAAAACTTACATAA-
1 -TACATAATTTAAAAAA--TACATAAC
15245861 TACATAA
1 TACATAA
15245868 CTAACATAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 21 0.75
27 7 0.25
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (24 bp):
TACATAATTTAAAAAATACATAAC
Found at i:15245907 original size:31 final size:31
Alignment explanation
Indices: 15245863--15246126 Score: 335
Period size: 31 Copynumber: 8.5 Consensus size: 31
15245853 TTACATAATA
15245863 CATAAC-TAACATAATTTAAAGATCAAATTT
1 CATAACTTAACATAATTTAAAGATCAAATTT
*
15245893 CATAACTTAACATAATTTAAAGATGAAATTT
1 CATAACTTAACATAATTTAAAGATCAAATTT
15245924 CATAACTTAACATAATTTAAAGATCAAATTT
1 CATAACTTAACATAATTTAAAGATCAAATTT
* ** *
15245955 CATAACTT-ACATAATTCATAATTTACATAA-TA
1 CATAACTTAACATAATTTA-AAGAT-CA-AATTT
* *
15245987 CATAACTT-ACATAATTTAAAAAACTTACATAA-TA
1 CATAACTTAACATAATTT-AAAGA--T-CA-AATTT
15246021 CATAAC-TAACATAATTTAAAGATCAAATTT
1 CATAACTTAACATAATTTAAAGATCAAATTT
*
15246051 CATAACTTAACATAATTTAAAGATGAAATTT
1 CATAACTTAACATAATTTAAAGATCAAATTT
15246082 CATAACTTAACATAATTTAAAGATCAAATTT
1 CATAACTTAACATAATTTAAAGATCAAATTT
15246113 CATAACTT-ACATAA
1 CATAACTTAACATAA
15246127 CTTACATAAT
Statistics
Matches: 211, Mismatches: 13, Indels: 20
0.86 0.05 0.08
Matches are distributed among these distances:
29 2 0.01
30 30 0.14
31 126 0.60
32 21 0.10
33 8 0.04
34 24 0.11
ACGTcount: A:0.49, C:0.13, G:0.03, T:0.34
Consensus pattern (31 bp):
CATAACTTAACATAATTTAAAGATCAAATTT
Found at i:15245974 original size:16 final size:16
Alignment explanation
Indices: 15245953--15246036 Score: 96
Period size: 16 Copynumber: 5.1 Consensus size: 16
15245943 AAGATCAAAT
15245953 TTCATAACTTACATAA
1 TTCATAACTTACATAA
*
15245969 TTCATAATTTACATAA
1 TTCATAACTTACATAA
*
15245985 TACATAACTTACATAA
1 TTCATAACTTACATAA
* *
15246001 TTTAAAAAACTTACATAA
1 -TT-CATAACTTACATAA
* *
15246019 TACATAACTAACATAA
1 TTCATAACTTACATAA
15246035 TT
1 TT
15246037 TAAAGATCAA
Statistics
Matches: 55, Mismatches: 11, Indels: 4
0.79 0.16 0.06
Matches are distributed among these distances:
16 41 0.75
17 2 0.04
18 12 0.22
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.36
Consensus pattern (16 bp):
TTCATAACTTACATAA
Found at i:15246056 original size:127 final size:125
Alignment explanation
Indices: 15245829--15246098 Score: 384
Period size: 127 Copynumber: 2.1 Consensus size: 125
15245819 TTACATAATA
* *
15245829 CATAACTTACATAATTTAAAAAACTTACATAATACATAACTAACATAATTTAAAGATCAAATTTC
1 CATAACTTACATAA-TTAAAAAACTTACATAATACATAACTAACATAATTTAAAAATCAAATTAC
*
15245894 ATAACTTAACATAATTTAAAGATGAAATTTCATAACTTAACATAATTTAAAGATCAAATTT
65 ATAACTTAACATAATTTAAAGATCAAATTTCATAACTTAACATAATTTAAAGATCAAATTT
* * * *
15245955 CATAACTTACATAATT-CATAATTTACATAATACATAACTTACATAATTTAAAAAACTTACATAA
1 CATAACTTACATAATTAAAAAACTTACATAATACATAACTAACATAATTT-AAAAA--T-CA-AA
*
15246019 -TACATAAC-TAACATAATTTAAAGATCAAATTTCATAACTTAACATAATTTAAAGATGAAATTT
61 TTACATAACTTAACATAATTTAAAGATCAAATTTCATAACTTAACATAATTTAAAGATCAAATTT
15246082 CATAACTTAACATAATT
1 CATAACTT-ACATAATT
15246099 TAAAGATCAA
Statistics
Matches: 130, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
124 29 0.22
125 6 0.05
126 14 0.11
127 62 0.48
128 17 0.13
129 2 0.02
ACGTcount: A:0.50, C:0.13, G:0.03, T:0.34
Consensus pattern (125 bp):
CATAACTTACATAATTAAAAAACTTACATAATACATAACTAACATAATTTAAAAATCAAATTACA
TAACTTAACATAATTTAAAGATCAAATTTCATAACTTAACATAATTTAAAGATCAAATTT
Found at i:15246085 original size:158 final size:160
Alignment explanation
Indices: 15245798--15246136 Score: 646
Period size: 158 Copynumber: 2.1 Consensus size: 160
15245788 GTTTACTAGC
* *
15245798 AACTCACATAATTTACATAATTTACATAATACATAACTTACATAATTTAAAAAACTTACATAATA
1 AACTTACATAACTTACATAATTTACATAATACATAACTTACATAATTTAAAAAACTTACATAATA
15245863 CATAACTAACATAATTTAAAGATCAAATTTCATAACTTAACATAATTTAAAGATGAAATTTCATA
66 CATAACTAACATAATTTAAAGATCAAATTTCATAACTTAACATAATTTAAAGATGAAATTTCATA
15245928 ACTTAACATAATTTAAAGATCAAATTTCAT
131 ACTTAACATAATTTAAAGATCAAATTTCAT
15245958 AACTTACATAA-TT-CATAATTTACATAATACATAACTTACATAATTTAAAAAACTTACATAATA
1 AACTTACATAACTTACATAATTTACATAATACATAACTTACATAATTTAAAAAACTTACATAATA
15246021 CATAACTAACATAATTTAAAGATCAAATTTCATAACTTAACATAATTTAAAGATGAAATTTCATA
66 CATAACTAACATAATTTAAAGATCAAATTTCATAACTTAACATAATTTAAAGATGAAATTTCATA
15246086 ACTTAACATAATTTAAAGATCAAATTTCAT
131 ACTTAACATAATTTAAAGATCAAATTTCAT
15246116 AACTTACATAACTTACATAAT
1 AACTTACATAACTTACATAAT
15246137 ACATAAATAT
Statistics
Matches: 176, Mismatches: 1, Indels: 4
0.97 0.01 0.02
Matches are distributed among these distances:
158 156 0.89
159 4 0.02
160 16 0.09
ACGTcount: A:0.49, C:0.14, G:0.02, T:0.35
Consensus pattern (160 bp):
AACTTACATAACTTACATAATTTACATAATACATAACTTACATAATTTAAAAAACTTACATAATA
CATAACTAACATAATTTAAAGATCAAATTTCATAACTTAACATAATTTAAAGATGAAATTTCATA
ACTTAACATAATTTAAAGATCAAATTTCAT
Found at i:15251916 original size:16 final size:17
Alignment explanation
Indices: 15251895--15251927 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
15251885 TGCATTGAAG
15251895 TGTTTT-TTGAAAACCA
1 TGTTTTATTGAAAACCA
15251911 TGTTTTCATTGAAAACC
1 TGTTTT-ATTGAAAACC
15251928 CTTCTTGATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.42
Consensus pattern (17 bp):
TGTTTTATTGAAAACCA
Found at i:15252706 original size:60 final size:59
Alignment explanation
Indices: 15252586--15252722 Score: 152
Period size: 60 Copynumber: 2.3 Consensus size: 59
15252576 CAGTGTTAAC
* *
15252586 TGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAACCCCTTACAGTATCAGAGTATAT
1 TGGGCC-TAGCCCATATCAATATGAATCTGGGCCATAACCCATTACAG-ATCAGAGTATAT
* * * *
15252647 TGGGCCTAGCCCATATCAGTATGAATCTGGGTCGTAGCCCTATTACA-AGTC-GAGATATAT
1 TGGGCCTAGCCCATATCAATATGAATCTGGGCCATAACCC-ATTACAGA-TCAGAG-TATAT
*
15252707 TGGGCCTTGCCCATAT
1 TGGGCCTAGCCCATAT
15252723 TAACATAGTT
Statistics
Matches: 66, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
59 4 0.06
60 51 0.77
61 11 0.17
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.29
Consensus pattern (59 bp):
TGGGCCTAGCCCATATCAATATGAATCTGGGCCATAACCCATTACAGATCAGAGTATAT
Found at i:15253090 original size:26 final size:25
Alignment explanation
Indices: 15253061--15253124 Score: 65
Period size: 26 Copynumber: 2.4 Consensus size: 25
15253051 CAAAATTAAC
*
15253061 CCTAGGGGTATAACGGTCATTTTGCA
1 CCTAGGGGTATAACGGTAATTTT-CA
* * *
15253087 CCTAGGAGTAAAATGGTAATTTTCA
1 CCTAGGGGTATAACGGTAATTTTCA
15253112 CACTTAGGGGTAT
1 C-C-TAGGGGTAT
15253125 TTTAGTAAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
25 3 0.10
26 20 0.67
27 7 0.23
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (25 bp):
CCTAGGGGTATAACGGTAATTTTCA
Found at i:15255656 original size:44 final size:44
Alignment explanation
Indices: 15255587--15255684 Score: 153
Period size: 44 Copynumber: 2.2 Consensus size: 44
15255577 GTGAAAAAAG
*
15255587 CACCGCTAAAAGTCTTGATCTTTTGTAGCTTTTTTTCAAATAAA
1 CACCGCTAAAAGTCTTGATCATTTGTAGCTTTTTTTCAAATAAA
* *
15255631 CACCTCTAAAAGTCTTGATCATTTGTAGCTTTTTTTCAGATAAA
1 CACCGCTAAAAGTCTTGATCATTTGTAGCTTTTTTTCAAATAAA
*
15255675 CGCCG-TAAAA
1 CACCGCTAAAA
15255685 TTTAGCGGCG
Statistics
Matches: 49, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
43 5 0.10
44 44 0.90
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.38
Consensus pattern (44 bp):
CACCGCTAAAAGTCTTGATCATTTGTAGCTTTTTTTCAAATAAA
Found at i:15257103 original size:11 final size:11
Alignment explanation
Indices: 15257087--15257117 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
15257077 AAGTATGGGT
15257087 AGGTATGGGAA
1 AGGTATGGGAA
*
15257098 AGGTATGGGCA
1 AGGTATGGGAA
15257109 AGGTATGGG
1 AGGTATGGG
15257118 GTATGGGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.29, C:0.03, G:0.48, T:0.19
Consensus pattern (11 bp):
AGGTATGGGAA
Found at i:15261194 original size:18 final size:18
Alignment explanation
Indices: 15261171--15261227 Score: 96
Period size: 18 Copynumber: 3.2 Consensus size: 18
15261161 CCCAACTACT
*
15261171 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
*
15261189 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
15261207 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
15261225 GTA
1 GTA
15261228 AACGGTCGTA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.26
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:15261788 original size:11 final size:11
Alignment explanation
Indices: 15261772--15261802 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
15261762 AAGTATGGGT
15261772 AGGTATGGGAA
1 AGGTATGGGAA
*
15261783 AGGTATGGGCA
1 AGGTATGGGAA
15261794 AGGTATGGG
1 AGGTATGGG
15261803 GTATGGGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.29, C:0.03, G:0.48, T:0.19
Consensus pattern (11 bp):
AGGTATGGGAA
Found at i:15265441 original size:43 final size:43
Alignment explanation
Indices: 15265369--15265467 Score: 144
Period size: 43 Copynumber: 2.3 Consensus size: 43
15265359 GGTTATGTTC
* * * *
15265369 TATGAGAAAAGCGTCGTTAAATGTCATGCTTTTTAGCGGCGTT
1 TATGGGAAAAGTGTCGTTAAAGGTCATGCTTTTTAGCAGCGTT
* *
15265412 TATGGTAAAAGTGTCGTTAAAGGTTATGCTTTTTAGCAGCGTT
1 TATGGGAAAAGTGTCGTTAAAGGTCATGCTTTTTAGCAGCGTT
15265455 TATGGGAAAAGTG
1 TATGGGAAAAGTG
15265468 CCGCTAAATT
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 49 1.00
ACGTcount: A:0.27, C:0.10, G:0.27, T:0.35
Consensus pattern (43 bp):
TATGGGAAAAGTGTCGTTAAAGGTCATGCTTTTTAGCAGCGTT
Found at i:15266552 original size:36 final size:36
Alignment explanation
Indices: 15266483--15266552 Score: 97
Period size: 37 Copynumber: 1.9 Consensus size: 36
15266473 TTTTTATTTC
** *
15266483 ATATTATTTCAATTTTTTTATTTTTAATTAATAAAT
1 ATATTATTTCAAAATTTTTATTTTTAATAAATAAAT
15266519 ATATTATTTTCAAAATTTTTATTTTT-ATAAATAA
1 ATATTA-TTTCAAAATTTTTATTTTTAATAAATAA
15266553 CTCTTTTATG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
36 13 0.43
37 17 0.57
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.59
Consensus pattern (36 bp):
ATATTATTTCAAAATTTTTATTTTTAATAAATAAAT
Found at i:15266805 original size:18 final size:18
Alignment explanation
Indices: 15266745--15266806 Score: 65
Period size: 18 Copynumber: 3.5 Consensus size: 18
15266735 AAAATGTAGA
* *
15266745 TGAAAAAATAATGATATT
1 TGAAATAATAATTATATT
* *
15266763 TGAAAT-AT-TTTATATA
1 TGAAATAATAATTATATT
15266779 TGAAAATAATAATTATATT
1 TG-AAATAATAATTATATT
15266798 TGAAATAAT
1 TGAAATAAT
15266807 TACTTCATTT
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
16 7 0.20
17 6 0.17
18 14 0.40
19 8 0.23
ACGTcount: A:0.52, C:0.00, G:0.08, T:0.40
Consensus pattern (18 bp):
TGAAATAATAATTATATT
Found at i:15268159 original size:16 final size:17
Alignment explanation
Indices: 15268128--15268161 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
15268118 TTTTTTTACA
*
15268128 AAAATAGTATAAAAAAT
1 AAAATACTATAAAAAAT
15268145 AAAATACTA-AAAAAAT
1 AAAATACTATAAAAAAT
15268161 A
1 A
15268162 TCTTAATGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.21
Consensus pattern (17 bp):
AAAATACTATAAAAAAT
Found at i:15268484 original size:151 final size:146
Alignment explanation
Indices: 15268228--15268619 Score: 547
Period size: 151 Copynumber: 2.6 Consensus size: 146
15268218 CGGGTTTTTT
* *
15268228 TACTAAAATAATATAAAAATAAAATATGAAAATAGTATATTTTAAAAAATAAAATCCTAAAAT-A
1 TACTAAAATAATATAAAAATAAAATACGAAAATAAT-TATTTTAAAAAATAAAAT-CTAAAATAA
15268292 AAAAATACAAACAAAGGGCCAAAATCAAGATTTTTTACTAAATTAATATAAAAAAACTAAAATAA
64 AAAAATACAAACAAAGGGCCAAAATCAAGATTTTTTACTAAATTAATATAAAAAAACTAAAATAA
*
15268357 TAAATTTGAAATATTATG
129 TAAATTTGAAACATTATG
*
15268375 TACTAAAATAATATAAAAATAAAATA-AAAAATAATTATTTTAAAAAATAAAATCTGAAAATAAA
1 TACTAAAATAATATAAAAATAAAATACGAAAATAATTATTTTAAAAAATAAAATCT-AAAATAAA
* *
15268439 AAAATACAAATAAAACAAAGGGCCAAAATCAGGGTTTTTTACTAAATTAATATAAAAAAACTAAA
65 AAAATAC-----AAACAAAGGGCCAAAATCAAGATTTTTTACTAAATTAATATAAAAAAACTAAA
*
15268504 ATAATACATTTGAAACATTATG
125 ATAATAAATTTGAAACATTATG
* *
15268526 TACTAAAATAATATAAAAATAAAATACGAAAATAGCA-TATTTAAAAAAAATAAAATCCAAAAAT
1 TACTAAAATAATATAAAAATAAAATACGAAAATA--ATTATTT-TAAAAAATAAAAT-CTAAAAT
* *
15268590 AAAAAAAATACCAACAAATGGCCAAAATCA
62 -AAAAAAATACAAACAAAGGGCCAAAATCA
15268620 CCGAAAAAAA
Statistics
Matches: 221, Mismatches: 11, Indels: 23
0.87 0.04 0.09
Matches are distributed among these distances:
144 2 0.01
145 23 0.10
146 16 0.07
147 26 0.12
150 17 0.08
151 97 0.44
152 6 0.03
153 5 0.02
154 18 0.08
155 11 0.05
ACGTcount: A:0.61, C:0.08, G:0.05, T:0.26
Consensus pattern (146 bp):
TACTAAAATAATATAAAAATAAAATACGAAAATAATTATTTTAAAAAATAAAATCTAAAATAAAA
AAATACAAACAAAGGGCCAAAATCAAGATTTTTTACTAAATTAATATAAAAAAACTAAAATAATA
AATTTGAAACATTATG
Found at i:15268593 original size:18 final size:18
Alignment explanation
Indices: 15268568--15268608 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
15268558 TAGCATATTT
*
15268568 AAAAA-AAATAAAAT-CC
1 AAAAATAAAAAAAATACC
15268584 AAAAATAAAAAAAATACC
1 AAAAATAAAAAAAATACC
15268602 AACAAAT
1 AA-AAAT
15268609 GGCCAAAATC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 5 0.24
17 8 0.38
18 4 0.19
19 4 0.19
ACGTcount: A:0.76, C:0.12, G:0.00, T:0.12
Consensus pattern (18 bp):
AAAAATAAAAAAAATACC
Found at i:15270913 original size:65 final size:66
Alignment explanation
Indices: 15270796--15270968 Score: 172
Period size: 65 Copynumber: 2.6 Consensus size: 66
15270786 CTTTGGGTCT
* ** * *
15270796 TATCCACTGCAGTACAACACTTC-TCTCGGCTCGTATCCACCGTTGTACAGCACTACCC-CCGCC
1 TATCCACTACAGTACTCCACTCCTTC-CGGCTCGTATCCACCGTAGTACAGCACTACCCACCGCC
15270859 CG
65 CG
* * * ** *
15270861 TATCTACTACAGTACTCCACTCCTTCCGGCTCGTATCCACTGTAGTATAGCACTACCCATGGCCT
1 TATCCACTACAGTACTCCACTCCTTCCGGCTCGTATCCACCGTAGTACAGCACTACCCACCGCCC
15270926 G
66 G
** * *
15270927 TATCCACTGTAGTACTCCACTCC-TCCTGGGTTGTATCCACCG
1 TATCCACTACAGTACTCCACTCCTTCC-GGCTCGTATCCACCG
15270969 CAGCATGGTA
Statistics
Matches: 88, Mismatches: 17, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
65 50 0.57
66 38 0.43
ACGTcount: A:0.20, C:0.38, G:0.16, T:0.27
Consensus pattern (66 bp):
TATCCACTACAGTACTCCACTCCTTCCGGCTCGTATCCACCGTAGTACAGCACTACCCACCGCCC
G
Found at i:15270962 original size:33 final size:33
Alignment explanation
Indices: 15270871--15270966 Score: 99
Period size: 33 Copynumber: 2.9 Consensus size: 33
15270861 TATCTACTAC
*
15270871 AGTACTCCACTCCTTCC-GGCTCGTATCCACTGT
1 AGTACTCCACTCC-TCCTGGCTTGTATCCACTGT
* * *
15270904 AGTA-TAGCACTACC-CATGGCCTGTATCCACTGT
1 AGTACT-CCACT-CCTCCTGGCTTGTATCCACTGT
*
15270937 AGTACTCCACTCCTCCTGGGTTGTATCCAC
1 AGTACTCCACTCCTCCTGGCTTGTATCCAC
15270967 CGCAGCATGG
Statistics
Matches: 50, Mismatches: 8, Indels: 10
0.74 0.12 0.15
Matches are distributed among these distances:
32 4 0.08
33 43 0.86
34 3 0.06
ACGTcount: A:0.19, C:0.35, G:0.17, T:0.29
Consensus pattern (33 bp):
AGTACTCCACTCCTCCTGGCTTGTATCCACTGT
Found at i:15277739 original size:128 final size:128
Alignment explanation
Indices: 15277511--15277757 Score: 422
Period size: 128 Copynumber: 1.9 Consensus size: 128
15277501 GACAGTGTTC
**
15277511 GATGCAATAGTTGGTTCCACAAAATCAATTCCTGATGGGAAAAGATTGCTCCATGCTTCATTGAA
1 GATGCAATAGTTGGTTCCACAAAATCAATTCCCAATGGGAAAAGATTGCTCCATGCTTCATTGAA
*
15277576 GAAACATCTGTCAGGTGTTTCTTATATGAACTCATCGTTGAAACCATAGTTTGACCAGAGTTT
66 GAAACATCTGTCAGGTGTTTCTTATATGAACTCATCATTGAAACCATAGTTTGACCAGAGTTT
** * *
15277639 GATGCAATAGTTGGTTCCGTAAAATCAATTCCCAATGGGAAACGATTTCTCCATGCTTCATTGAA
1 GATGCAATAGTTGGTTCCACAAAATCAATTCCCAATGGGAAAAGATTGCTCCATGCTTCATTGAA
*
15277704 GAAACATCTGTTAGGTGTTTCTTATATGAACTCATCATTGAAACCATAGTTTGA
66 GAAACATCTGTCAGGTGTTTCTTATATGAACTCATCATTGAAACCATAGTTTGA
15277758 TCACGTGAAG
Statistics
Matches: 111, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
128 111 1.00
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.33
Consensus pattern (128 bp):
GATGCAATAGTTGGTTCCACAAAATCAATTCCCAATGGGAAAAGATTGCTCCATGCTTCATTGAA
GAAACATCTGTCAGGTGTTTCTTATATGAACTCATCATTGAAACCATAGTTTGACCAGAGTTT
Found at i:15284500 original size:44 final size:44
Alignment explanation
Indices: 15284446--15284536 Score: 128
Period size: 44 Copynumber: 2.1 Consensus size: 44
15284436 GTTGAAGTAA
* * * * *
15284446 AATAGAAGTTGTGATAGTTATACATTTAAAAGTAATTACAATTT
1 AATAAAAGTTGTGATAATTACACATCTAAAAATAATTACAATTT
*
15284490 AATAAAAGTTGTGATAATTACACATCTAAAAATAATTATAATTT
1 AATAAAAGTTGTGATAATTACACATCTAAAAATAATTACAATTT
15284534 AAT
1 AAT
15284537 TTACAGCTAA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.47, C:0.05, G:0.10, T:0.37
Consensus pattern (44 bp):
AATAAAAGTTGTGATAATTACACATCTAAAAATAATTACAATTT
Found at i:15284801 original size:21 final size:23
Alignment explanation
Indices: 15284761--15284803 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
15284751 GTTGAATATG
*
15284761 TTAAAAATGTTTTAATTATAATT
1 TTAAAAATGTTCTAATTATAATT
15284784 TTAAAAAT-TTCT-ATTATAAT
1 TTAAAAATGTTCTAATTATAAT
15284804 ATTTGAATTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 8 0.42
22 3 0.16
23 8 0.42
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (23 bp):
TTAAAAATGTTCTAATTATAATT
Found at i:15284807 original size:23 final size:25
Alignment explanation
Indices: 15284755--15284807 Score: 60
Period size: 23 Copynumber: 2.3 Consensus size: 25
15284745 TTATATGTTG
* *
15284755 AATATGTTAAAAATGTTTTAATTAT
1 AATATTTTAAAAATGTTCTAATTAT
15284780 -A-ATTTTAAAAAT-TTCT-ATTAT
1 AATATTTTAAAAATGTTCTAATTAT
15284801 AATATTT
1 AATATTT
15284808 GAATTGATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
21 5 0.21
22 4 0.17
23 14 0.58
24 1 0.04
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (25 bp):
AATATTTTAAAAATGTTCTAATTAT
Found at i:15286738 original size:42 final size:42
Alignment explanation
Indices: 15286665--15286746 Score: 103
Period size: 42 Copynumber: 2.0 Consensus size: 42
15286655 GCCCAAAGGC
*
15286665 TGAACAGAAGCTCATGAAAGCTAAACAAAAACCCATAAGGAT
1 TGAACAAAAGCTCATGAAAGCTAAACAAAAACCCATAAGGAT
* * * *
15286707 TGAACAAAAGCTCGT-AAGAGCTGAACGAAAACTCATAAGG
1 TGAACAAAAGCTCATGAA-AGCTAAACAAAAACCCATAAGG
15286747 GTAAACAGAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
41 2 0.06
42 32 0.94
ACGTcount: A:0.48, C:0.18, G:0.20, T:0.15
Consensus pattern (42 bp):
TGAACAAAAGCTCATGAAAGCTAAACAAAAACCCATAAGGAT
Found at i:15286798 original size:21 final size:21
Alignment explanation
Indices: 15286748--15286815 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 21
15286738 CTCATAAGGG
*
15286748 TAAACAGAAGCTTAGTAGAGT
1 TAAACAGAAGCTCAGTAGAGT
* * *
15286769 TGAATAGAATCTCA-TATGAGT
1 TAAACAGAAGCTCAGTA-GAGT
*
15286790 TAAACAGAAGCTC-GTGAGAGC
1 TAAACAGAAGCTCAGT-AGAGT
15286811 TAAAC
1 TAAAC
15286816 GGAAAGTAAA
Statistics
Matches: 36, Mismatches: 8, Indels: 6
0.72 0.16 0.12
Matches are distributed among these distances:
20 2 0.06
21 33 0.92
22 1 0.03
ACGTcount: A:0.41, C:0.13, G:0.22, T:0.24
Consensus pattern (21 bp):
TAAACAGAAGCTCAGTAGAGT
Found at i:15287379 original size:49 final size:49
Alignment explanation
Indices: 15287322--15287419 Score: 196
Period size: 49 Copynumber: 2.0 Consensus size: 49
15287312 GCTTATGCTG
15287322 CCTCAGTCATCTCATTTAAGCTTAATTACTCTTTAAGTCCTCCCTTATT
1 CCTCAGTCATCTCATTTAAGCTTAATTACTCTTTAAGTCCTCCCTTATT
15287371 CCTCAGTCATCTCATTTAAGCTTAATTACTCTTTAAGTCCTCCCTTATT
1 CCTCAGTCATCTCATTTAAGCTTAATTACTCTTTAAGTCCTCCCTTATT
15287420 TACCATTTAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.22, C:0.29, G:0.06, T:0.43
Consensus pattern (49 bp):
CCTCAGTCATCTCATTTAAGCTTAATTACTCTTTAAGTCCTCCCTTATT
Found at i:15288313 original size:15 final size:17
Alignment explanation
Indices: 15288288--15288321 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
15288278 AATGTATCAC
15288288 TTTTTTAAAAT-ATTTA
1 TTTTTTAAAATAATTTA
15288304 TTTTTT-AAATAATTTA
1 TTTTTTAAAATAATTTA
15288320 TT
1 TT
15288322 ATACCCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTTTTAAAATAATTTA
Found at i:15294300 original size:35 final size:35
Alignment explanation
Indices: 15294252--15294414 Score: 168
Period size: 35 Copynumber: 4.7 Consensus size: 35
15294242 CCATGGAAAA
* *
15294252 TTGTGAAATGTAGGTATGCTATTAACCATAATGAG
1 TTGTGAAATGTAGGTATGGTATTATCCATAATGAG
* *
15294287 TTGTGAAACGTAGGTATGGTATTATCCA-CATCGAG
1 TTGTGAAATGTAGGTATGGTATTATCCATAAT-GAG
** * *
15294322 TTAAGAAACGTAGGTATGGTATTATCCATACTGAG
1 TTGTGAAATGTAGGTATGGTATTATCCATAATGAG
** ** **
15294357 TTAAGAAATGTAGGTATGACATT-TCCCATACCGAG
1 TTGTGAAATGTAGGTATGGTATTAT-CCATAATGAG
15294392 TTGTGAAATGTAGGTATGGTATT
1 TTGTGAAATGTAGGTATGGTATT
15294415 TCAATGAGGA
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
34 3 0.03
35 105 0.96
36 1 0.01
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.33
Consensus pattern (35 bp):
TTGTGAAATGTAGGTATGGTATTATCCATAATGAG
Found at i:15294345 original size:70 final size:69
Alignment explanation
Indices: 15294256--15294414 Score: 185
Period size: 70 Copynumber: 2.3 Consensus size: 69
15294246 GGAAAATTGT
* ** **
15294256 GAAATGTAGGTATGCTATTAACCATAATGAGTTGTGAAACGTAGGTATGGTATTATCCACAT-CG
1 GAAATGTAGGTATGGTATTAACCATAATGAGTTAAGAAACGTAGGTATGACATT-TCC-CATACG
15294320 AGTTAA
64 AGTTAA
* * * *
15294326 GAAACGTAGGTATGGTATTATCCATACTGAGTTAAGAAATGTAGGTATGACATTTCCCATACCGA
1 GAAATGTAGGTATGGTATTAACCATAATGAGTTAAGAAACGTAGGTATGACATTTCCCATA-CGA
**
15294391 GTTGT
65 GTTAA
15294396 GAAATGTAGGTATGGTATT
1 GAAATGTAGGTATGGTATT
15294415 TCAATGAGGA
Statistics
Matches: 75, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
68 3 0.04
69 3 0.04
70 69 0.92
ACGTcount: A:0.33, C:0.11, G:0.24, T:0.32
Consensus pattern (69 bp):
GAAATGTAGGTATGGTATTAACCATAATGAGTTAAGAAACGTAGGTATGACATTTCCCATACGAG
TTAA
Found at i:15301726 original size:35 final size:35
Alignment explanation
Indices: 15301687--15301848 Score: 202
Period size: 35 Copynumber: 4.7 Consensus size: 35
15301677 CCATGGAAAA
*
15301687 TTGTGAAACGTAGGTATGGTATTAACCATACTGAG
1 TTGTGAAACGTAGGTATGGTATTATCCATACTGAG
* * *
15301722 TTGTGAAACGTAAGTATGGTATTTTCCATATTGAG
1 TTGTGAAACGTAGGTATGGTATTATCCATACTGAG
**
15301757 TTAAGAAACGTAGGTATGGTATTATCCA-ACTGAG
1 TTGTGAAACGTAGGTATGGTATTATCCATACTGAG
** * *
15301791 TTAAGAAACGTAGGTATGGCATT-TCCCATACCGAG
1 TTGTGAAACGTAGGTATGGTATTAT-CCATACTGAG
*
15301826 TTGTGAAATGTAGGTATGGTATT
1 TTGTGAAACGTAGGTATGGTATT
15301849 TCAATGAGGA
Statistics
Matches: 110, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
33 1 0.01
34 30 0.27
35 79 0.72
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.33
Consensus pattern (35 bp):
TTGTGAAACGTAGGTATGGTATTATCCATACTGAG
Found at i:15301808 original size:69 final size:70
Alignment explanation
Indices: 15301691--15301848 Score: 210
Period size: 69 Copynumber: 2.3 Consensus size: 70
15301681 GGAAAATTGT
** * * **
15301691 GAAACGTAGGTATGGTATTAACCATACTGAGTTGTGAAACGTAAGTATGGTATTTTCCATATTGA
1 GAAACGTAGGTATGGTATTAACCATACTGAGTTAAGAAACGTAAGTATGGCATTTCCCATACCGA
15301756 GTTAA
66 GTTAA
* *
15301761 GAAACGTAGGTATGGTATTATCCA-ACTGAGTTAAGAAACGTAGGTATGGCATTTCCCATACCGA
1 GAAACGTAGGTATGGTATTAACCATACTGAGTTAAGAAACGTAAGTATGGCATTTCCCATACCGA
**
15301825 GTTGT
66 GTTAA
*
15301830 GAAATGTAGGTATGGTATT
1 GAAACGTAGGTATGGTATT
15301849 TCAATGAGGA
Statistics
Matches: 77, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
69 54 0.70
70 23 0.30
ACGTcount: A:0.32, C:0.11, G:0.25, T:0.32
Consensus pattern (70 bp):
GAAACGTAGGTATGGTATTAACCATACTGAGTTAAGAAACGTAAGTATGGCATTTCCCATACCGA
GTTAA
Found at i:15312600 original size:266 final size:266
Alignment explanation
Indices: 15312126--15312659 Score: 987
Period size: 266 Copynumber: 2.0 Consensus size: 266
15312116 TTTTCCATGC
15312126 GTACATGCAATTGCTACATGTGCCTCAACATGTTTGGATTGCATCATCTAATAACATGTAGTTGT
1 GTACATGCAATTGCTACATGTGCCTCAACATGTTTGGATTGCATCATCTAATAACATGTAGTTGT
*
15312191 GAAGATAAAGATGATGACTCTAGCTATAAAGAAGATGAGGAGGTAGTGCACCCATCGATGCCTTG
66 GAAGATAAAGATGATGACTCTAGCTATAAAGAAGATAAGGAGGTAGTGCACCCATCGATGCCTTG
*
15312256 TGTTGAGTTGGAGTTGATGACGATTCCATCAAGGCATGTACTATCAACCTAGAATTAATGCAGGG
131 TGTTGAGTTGGAGTTGATGACGACTCCATCAAGGCATGTACTATCAACCTAGAATTAATGCAGGG
*
15312321 TTGTCTTGGCCTCCTCCTACAACGTTGCCTACTCATTTCCTTCTTCGAAAGTAGATATGACTTAT
196 TCGTCTTGGCCTCCTCCTACAACGTTGCCTACTCATTTCCTTCTTCGAAAGTAGATATGACTTAT
15312386 TGCAAT
261 TGCAAT
* * *
15312392 GTACATGCAATTGCTACATGTGCCTCGACATGTTTGGATTGCATGATCTAATAGCATGTAGTTGT
1 GTACATGCAATTGCTACATGTGCCTCAACATGTTTGGATTGCATCATCTAATAACATGTAGTTGT
*
15312457 GAAGATAAAGATGATGACTCTAGCTATGAAGAAGATAAGGAGGTAGTGCACCCATCGATGCCTTG
66 GAAGATAAAGATGATGACTCTAGCTATAAAGAAGATAAGGAGGTAGTGCACCCATCGATGCCTTG
*
15312522 TGTTGAGTTGGAGTTGATGACGACTCCATCAAGGCATGTACTATCGACCTAGAATTAATGCAGGG
131 TGTTGAGTTGGAGTTGATGACGACTCCATCAAGGCATGTACTATCAACCTAGAATTAATGCAGGG
15312587 TCGTCTTGGCCTCCTCCTACAACGTTGCCTACTCATTTCCTTCTTCGAAAGTAGATATGACTTAT
196 TCGTCTTGGCCTCCTCCTACAACGTTGCCTACTCATTTCCTTCTTCGAAAGTAGATATGACTTAT
*
15312652 TGCGAT
261 TGCAAT
15312658 GT
1 GT
15312660 CTAAATAATG
Statistics
Matches: 259, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
266 259 1.00
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.31
Consensus pattern (266 bp):
GTACATGCAATTGCTACATGTGCCTCAACATGTTTGGATTGCATCATCTAATAACATGTAGTTGT
GAAGATAAAGATGATGACTCTAGCTATAAAGAAGATAAGGAGGTAGTGCACCCATCGATGCCTTG
TGTTGAGTTGGAGTTGATGACGACTCCATCAAGGCATGTACTATCAACCTAGAATTAATGCAGGG
TCGTCTTGGCCTCCTCCTACAACGTTGCCTACTCATTTCCTTCTTCGAAAGTAGATATGACTTAT
TGCAAT
Found at i:15314013 original size:16 final size:17
Alignment explanation
Indices: 15313988--15314030 Score: 54
Period size: 16 Copynumber: 2.5 Consensus size: 17
15313978 ATTCGGCTTG
15313988 ATTATATAAATATAAAAA-
1 ATTATA-AAAT-TAAAAAC
15314006 ATTATAAAATTAAAAAC
1 ATTATAAAATTAAAAAC
15314023 ATTA-AAAA
1 ATTATAAAA
15314031 CTCAATAACA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 10 0.42
17 8 0.33
18 6 0.25
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (17 bp):
ATTATAAAATTAAAAAC
Found at i:15327010 original size:25 final size:25
Alignment explanation
Indices: 15326982--15327030 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
15326972 TACAACTCGA
**
15326982 ATGAGATTCCTGTTATATGGCTCAC
1 ATGAGATTCCCATTATATGGCTCAC
*
15327007 ATGAGCTTCCCATTATATGGCTCA
1 ATGAGATTCCCATTATATGGCTCA
15327031 AGAGAGAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.35
Consensus pattern (25 bp):
ATGAGATTCCCATTATATGGCTCAC
Found at i:15327983 original size:42 final size:42
Alignment explanation
Indices: 15327916--15328012 Score: 131
Period size: 42 Copynumber: 2.3 Consensus size: 42
15327906 ACGGTTAGAG
* *
15327916 ACATGGGCGTGTGTCTCAGCCGTGTGTGGCATACGGCCTCAC
1 ACATGGGCGTGTGTCTCAGCCGTGTGTGACACACGGCCTCAC
* * * *
15327958 ACATGGGTGTGTGTCTCGGCTGTGTGTGACACATGGCCTCAC
1 ACATGGGCGTGTGTCTCAGCCGTGTGTGACACACGGCCTCAC
*
15328000 ACATGGGCATGTG
1 ACATGGGCGTGTG
15328013 ATTTGGCCAT
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.15, C:0.25, G:0.34, T:0.26
Consensus pattern (42 bp):
ACATGGGCGTGTGTCTCAGCCGTGTGTGACACACGGCCTCAC
Found at i:15329358 original size:9 final size:9
Alignment explanation
Indices: 15329344--15329387 Score: 56
Period size: 9 Copynumber: 5.0 Consensus size: 9
15329334 TAAAAACTTA
15329344 GAGAGAATT
1 GAGAGAATT
15329353 GAGAGAA-T
1 GAGAGAATT
15329361 -AGATGAATT
1 GAGA-GAATT
*
15329370 GAGAAAATT
1 GAGAGAATT
15329379 GAGAGAATT
1 GAGAGAATT
15329388 ACGAGAATGA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
7 3 0.10
8 4 0.13
9 20 0.67
10 3 0.10
ACGTcount: A:0.48, C:0.00, G:0.30, T:0.23
Consensus pattern (9 bp):
GAGAGAATT
Found at i:15332622 original size:16 final size:16
Alignment explanation
Indices: 15332601--15332632 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
15332591 ACCAAGCAGA
*
15332601 AATTCATGCACGTAAG
1 AATTCATGCACATAAG
15332617 AATTCATGCACATAAG
1 AATTCATGCACATAAG
15332633 TCTTGCGGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.19, G:0.16, T:0.25
Consensus pattern (16 bp):
AATTCATGCACATAAG
Found at i:15338433 original size:46 final size:46
Alignment explanation
Indices: 15338381--15338648 Score: 315
Period size: 46 Copynumber: 5.8 Consensus size: 46
15338371 TATTTGGGCA
*
15338381 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * * * * * *
15338427 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAAATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT--TATGGATGCGA-ACG
* * * *
15338474 TCCGAACTCGTTGAGTTGAGTCCAAGTTCAATTATGGATGTGAACA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *
15338520 TCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAACA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *
15338566 TCCGAACTCGTAGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * * *
15338612 CCCGAGCTCGTTGAGTTGAGTTCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
15338649 GCGGGTTACA
Statistics
Matches: 187, Mismatches: 30, Indels: 10
0.82 0.13 0.04
Matches are distributed among these distances:
45 1 0.01
46 152 0.81
47 33 0.18
48 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:15339406 original size:21 final size:21
Alignment explanation
Indices: 15339380--15339421 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
15339370 AAGTTATGGA
15339380 ATCGAAGCTTGATGAGTCTAT
1 ATCGAAGCTTGATGAGTCTAT
*
15339401 ATCGAATCTTGATGAGTCTAT
1 ATCGAAGCTTGATGAGTCTAT
15339422 TTTCATATGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.29, C:0.14, G:0.21, T:0.36
Consensus pattern (21 bp):
ATCGAAGCTTGATGAGTCTAT
Found at i:15340044 original size:16 final size:16
Alignment explanation
Indices: 15340023--15340054 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
15340013 ACCATGGAGA
*
15340023 AATTCATGCACGTAAG
1 AATTCATGCACATAAG
15340039 AATTCATGCACATAAG
1 AATTCATGCACATAAG
15340055 TCTTGCGGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.19, G:0.16, T:0.25
Consensus pattern (16 bp):
AATTCATGCACATAAG
Found at i:15341573 original size:28 final size:28
Alignment explanation
Indices: 15341533--15341594 Score: 97
Period size: 28 Copynumber: 2.2 Consensus size: 28
15341523 GTCTGAATAC
* *
15341533 TGTTCTAGCTTTTGACATTTTCATTTCT
1 TGTTTTAGCTTTTGACATTTTCACTTCT
15341561 TGTTTTAGCTTTTGACATTTTCACTTCT
1 TGTTTTAGCTTTTGACATTTTCACTTCT
*
15341589 TCTTTT
1 TGTTTT
15341595 TCTTTCTTCT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.13, C:0.18, G:0.10, T:0.60
Consensus pattern (28 bp):
TGTTTTAGCTTTTGACATTTTCACTTCT
Found at i:15341601 original size:13 final size:14
Alignment explanation
Indices: 15341585--15341617 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
15341575 ACATTTTCAC
*
15341585 TTCTTCTTTT-TCT
1 TTCTTCTTTTATAT
15341598 TTCTTCTTTTATAT
1 TTCTTCTTTTATAT
15341612 TTCTTC
1 TTCTTC
15341618 CTCACAATCG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 10 0.56
14 8 0.44
ACGTcount: A:0.06, C:0.21, G:0.00, T:0.73
Consensus pattern (14 bp):
TTCTTCTTTTATAT
Found at i:15342258 original size:15 final size:16
Alignment explanation
Indices: 15342238--15342268 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
15342228 TTAAAACTTA
15342238 ATTTAAT-TTATTTTT
1 ATTTAATATTATTTTT
15342253 ATTTAATATTATTTTT
1 ATTTAATATTATTTTT
15342269 TAACATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
ATTTAATATTATTTTT
Found at i:15345041 original size:18 final size:19
Alignment explanation
Indices: 15345008--15345047 Score: 73
Period size: 18 Copynumber: 2.2 Consensus size: 19
15344998 AATATTAAGA
15345008 AAACTTTTATTTTTATTTT
1 AAACTTTTATTTTTATTTT
15345027 AAACTTTTA-TTTTATTTT
1 AAACTTTTATTTTTATTTT
15345045 AAA
1 AAA
15345048 AAAAAATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (19 bp):
AAACTTTTATTTTTATTTT
Found at i:15349309 original size:134 final size:134
Alignment explanation
Indices: 15349069--15349315 Score: 476
Period size: 134 Copynumber: 1.8 Consensus size: 134
15349059 CGTTCGATGA
15349069 TATAAGAAAATAGAAAAGAGAGGGAGTAAGCATAAAGCCTAGTAAGAAGTATGCAAATATATAGC
1 TATAAGAAAATAGAAAAGAGAGGGAGTAAGCATAAAGCCTAGTAAGAAGTATGCAAATATATAGC
15349134 AACAACTAAACCATTCATCAACATGCTCTTAATATAAAATAGTTATAAGCATAGCTATTTAGGTG
66 AACAACTAAACCATTCATCAACATGCTCTTAATATAAAATAGTTATAAGCATAGCTATTTAGGTG
15349199 ACAC
131 ACAC
*
15349203 TATAAGAAAATAGAAAAGAGAGGGAGTAAGCATAAAGCTTAGTAAGAAGTATGCAAATATATAGC
1 TATAAGAAAATAGAAAAGAGAGGGAGTAAGCATAAAGCCTAGTAAGAAGTATGCAAATATATAGC
*
15349268 AACAACTATACCATTCATCAACATGCTCTTAATATAAAATAGTTATAA
66 AACAACTAAACCATTCATCAACATGCTCTTAATATAAAATAGTTATAA
15349316 ATATAACTTA
Statistics
Matches: 111, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
134 111 1.00
ACGTcount: A:0.47, C:0.13, G:0.16, T:0.24
Consensus pattern (134 bp):
TATAAGAAAATAGAAAAGAGAGGGAGTAAGCATAAAGCCTAGTAAGAAGTATGCAAATATATAGC
AACAACTAAACCATTCATCAACATGCTCTTAATATAAAATAGTTATAAGCATAGCTATTTAGGTG
ACAC
Found at i:15352433 original size:24 final size:24
Alignment explanation
Indices: 15352404--15352465 Score: 81
Period size: 24 Copynumber: 2.6 Consensus size: 24
15352394 CAACCGTATT
* * *
15352404 TGCACACATAGTGCTA-ATTACAC
1 TGCACACATAGTGCCATAGTAAAC
15352427 TCGCACACATAGTGCCATAGTAAAC
1 T-GCACACATAGTGCCATAGTAAAC
15352452 TGCACACATAGTGC
1 TGCACACATAGTGC
15352466 ATTGGATTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
23 1 0.03
24 27 0.79
25 6 0.18
ACGTcount: A:0.34, C:0.27, G:0.16, T:0.23
Consensus pattern (24 bp):
TGCACACATAGTGCCATAGTAAAC
Found at i:15355922 original size:30 final size:30
Alignment explanation
Indices: 15355888--15355979 Score: 86
Period size: 30 Copynumber: 3.2 Consensus size: 30
15355878 GATTTAGTCC
15355888 TCGTAATTAAACATTTAATCGATAAAATTT
1 TCGTAATTAAACATTTAATCGATAAAATTT
* * * **
15355918 TCGT-ATCAAA-ATTT--TC-ACACGACATAC
1 TCGTAATTAAACATTTAATCGATA--AAATTT
15355945 TCGTAATTAAACATTTAATCGATAAAATTT
1 TCGTAATTAAACATTTAATCGATAAAATTT
15355975 TCGTA
1 TCGTA
15355980 TCAAAATTTT
Statistics
Matches: 45, Mismatches: 10, Indels: 14
0.65 0.14 0.20
Matches are distributed among these distances:
25 2 0.04
26 2 0.04
27 7 0.16
28 9 0.20
29 9 0.20
30 12 0.27
31 2 0.04
32 2 0.04
ACGTcount: A:0.40, C:0.15, G:0.08, T:0.37
Consensus pattern (30 bp):
TCGTAATTAAACATTTAATCGATAAAATTT
Found at i:15355959 original size:57 final size:57
Alignment explanation
Indices: 15355887--15356000 Score: 228
Period size: 57 Copynumber: 2.0 Consensus size: 57
15355877 CGATTTAGTC
15355887 CTCGTAATTAAACATTTAATCGATAAAATTTTCGTATCAAAATTTTCACACGACATA
1 CTCGTAATTAAACATTTAATCGATAAAATTTTCGTATCAAAATTTTCACACGACATA
15355944 CTCGTAATTAAACATTTAATCGATAAAATTTTCGTATCAAAATTTTCACACGACATA
1 CTCGTAATTAAACATTTAATCGATAAAATTTTCGTATCAAAATTTTCACACGACATA
15356001 TCTTTCATAA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.40, C:0.18, G:0.07, T:0.35
Consensus pattern (57 bp):
CTCGTAATTAAACATTTAATCGATAAAATTTTCGTATCAAAATTTTCACACGACATA
Found at i:15375140 original size:16 final size:16
Alignment explanation
Indices: 15375119--15375173 Score: 92
Period size: 16 Copynumber: 3.4 Consensus size: 16
15375109 GTTTGGTTCA
*
15375119 CTGTAATGGAATAGGG
1 CTGTAATGGAATAGAG
15375135 CTGTAATGGAATAGAG
1 CTGTAATGGAATAGAG
*
15375151 CTGTAATTGAATAGAG
1 CTGTAATGGAATAGAG
15375167 CTGTAAT
1 CTGTAAT
15375174 AAGTAATTCA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 37 1.00
ACGTcount: A:0.35, C:0.07, G:0.29, T:0.29
Consensus pattern (16 bp):
CTGTAATGGAATAGAG
Found at i:15379057 original size:14 final size:15
Alignment explanation
Indices: 15379038--15379067 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
15379028 CTGCTTAAAA
15379038 AAATAAAAAAA-TTT
1 AAATAAAAAAACTTT
15379052 AAATAAAAAAACTTT
1 AAATAAAAAAACTTT
15379067 A
1 A
15379068 TCCGAAAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (15 bp):
AAATAAAAAAACTTT
Found at i:15398403 original size:35 final size:35
Alignment explanation
Indices: 15398361--15398430 Score: 106
Period size: 35 Copynumber: 2.0 Consensus size: 35
15398351 GCTACTTTTA
15398361 CTATTTTAATTTTAAATTAGTTAA-TTATATATATT
1 CTATTTTAATTTTAAATTAGTTAATTTA-ATATATT
* *
15398396 CTATTTTAGTTTTAAGTTAGTTAATTTAATATATT
1 CTATTTTAATTTTAAATTAGTTAATTTAATATATT
15398431 ATTAGCATTG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
35 29 0.91
36 3 0.09
ACGTcount: A:0.34, C:0.03, G:0.06, T:0.57
Consensus pattern (35 bp):
CTATTTTAATTTTAAATTAGTTAATTTAATATATT
Found at i:15398696 original size:10 final size:9
Alignment explanation
Indices: 15398680--15398709 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
15398670 TCATTTCTTA
15398680 TTTTTATTT
1 TTTTTATTT
15398689 TATTTTATTT
1 T-TTTTATTT
15398699 TTTTTATTT
1 TTTTTATTT
15398708 TT
1 TT
15398710 AAACTTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (9 bp):
TTTTTATTT
Found at i:15409348 original size:4 final size:4
Alignment explanation
Indices: 15409339--15409377 Score: 78
Period size: 4 Copynumber: 9.8 Consensus size: 4
15409329 CTTCGCCTAA
15409339 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
15409378 AATAAAAAGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 35 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:15410362 original size:88 final size:87
Alignment explanation
Indices: 15410213--15410942 Score: 987
Period size: 88 Copynumber: 8.3 Consensus size: 87
15410203 GAATTCGTAA
* *
15410213 GCCTTAACCCCTTAAGTAGTAGGGTAACAGGCTAAAAATTACAGATCTTGTCTCCCTAAGCAGTA
1 GCCTTAACCCC-TAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTGTCTCCCTAAGCAGTA
*
15410278 GTGAAGCAGATCGAAGACGAAGG
65 GTGGAGCAGATCGAAGACGAAGG
* * * *
15410301 GCCTTAACCCTCTAAGCAGTAAGGTAATAGGCTGAAAATTACAAATCTCGTCTCCCTAAGCAGTA
1 GCCTTAACCC-CTAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTGTCTCCCTAAGCAGTA
*
15410366 GTGGACCTA-ATCGAAGACGAAGG
65 GTGGAGC-AGATCGAAGACGAAGG
* * *
15410389 GCCTTAACCCTCTAAGTAGTAGGGTAACAGGCTAAAAATTACAGATCTCGTCTCCCTAAGCAGTA
1 GCCTTAACCC-CTAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTGTCTCCCTAAGCAGTA
* * *
15410454 GTGGACCAGATTGAAGAAGAAGG
65 GTGGAGCAGATCGAAGACGAAGG
* * *
15410477 GCCTTAACCCCCTAAGCAGTAGGATAACAGGCTGAAAATTACAAATCTTGTCTCCCTAAGCAATA
1 GCCTTAA-CCCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTGTCTCCCTAAGCAGTA
*
15410542 GTGGAGCAGATCGAAGACTAAGG
65 GTGGAGCAGATCGAAGACGAAGG
*
15410565 GCCTTAACCCCTTAAGTAGTAGGGTAACAGGCTGAAAATTACAGATCTTGTCTCCCTAAGCAGTA
1 GCCTTAACCCC-TAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTGTCTCCCTAAGCAGTA
* *
15410630 GTGGACCAGATCGAAGACAAAGG
65 GTGGAGCAGATCGAAGACGAAGG
* *
15410653 GCCTTAACCCCTTAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTCGTTTCCCTAAGCAGTA
1 GCCTTAACCCC-TAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTGTCTCCCTAAGCAGTA
15410718 GTGGAGCAGATCGAAGACGAAGG
65 GTGGAGCAGATCGAAGACGAAGG
* * * * *
15410741 GCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTGAAAATTACAAATCTTGTCTCCTTAAGTAGCA
1 GCCTTAA-CCCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTGTCTCCCTAAGCAGTA
* * *
15410806 GTGGAGTAGATCGAAGACAAATG
65 GTGGAGCAGATCGAAGACGAAGG
* * * * *
15410829 GCCTTAAACCCTTAAGCAGTAGGGTAACAGGCTGAAAATTATAGATCTTATCACCATAAGCAGTA
1 GCCTT-AACCCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTGTCTCCCTAAGCAGT-
* * * *
15410894 AG-GAAACAGATCGAAGGCGATGG
64 AGTGGAGCAGATCGAAGACGAAGG
15410917 GCCTTAACCCCCTAAGCAGTAGGGTA
1 GCCTTAA-CCCCTAAGCAGTAGGGTA
15410943 GAGCAGATTG
Statistics
Matches: 570, Mismatches: 63, Indels: 18
0.88 0.10 0.03
Matches are distributed among these distances:
87 7 0.01
88 550 0.96
89 13 0.02
ACGTcount: A:0.34, C:0.21, G:0.23, T:0.21
Consensus pattern (87 bp):
GCCTTAACCCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTGTCTCCCTAAGCAGTAG
TGGAGCAGATCGAAGACGAAGG
Found at i:15410933 original size:44 final size:46
Alignment explanation
Indices: 15410885--15410980 Score: 142
Period size: 46 Copynumber: 2.1 Consensus size: 46
15410875 CTTATCACCA
*
15410885 TAAGCAGTAAGG-A-AACAGATCGAAGGCGATGGGCCTTAACCCCC
1 TAAGCAGTAAGGTAGAACAGATCGAAGACGATGGGCCTTAACCCCC
* * *
15410929 TAAGCAGTAGGGTAGAGCAGATTGAAGACGATGGGCCTTAACCCCC
1 TAAGCAGTAAGGTAGAACAGATCGAAGACGATGGGCCTTAACCCCC
15410975 TAAGCA
1 TAAGCA
15410981 ATAGGGTAAC
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
44 11 0.24
45 1 0.02
46 34 0.74
ACGTcount: A:0.33, C:0.23, G:0.28, T:0.16
Consensus pattern (46 bp):
TAAGCAGTAAGGTAGAACAGATCGAAGACGATGGGCCTTAACCCCC
Found at i:15410961 original size:46 final size:46
Alignment explanation
Indices: 15410900--15410988 Score: 151
Period size: 46 Copynumber: 1.9 Consensus size: 46
15410890 AGTAAGGAAA
* *
15410900 CAGATCGAAGGCGATGGGCCTTAACCCCCTAAGCAGTAGGGTAGAG
1 CAGATCGAAGACGATGGGCCTTAACCCCCTAAGCAATAGGGTAGAG
*
15410946 CAGATTGAAGACGATGGGCCTTAACCCCCTAAGCAATAGGGTA
1 CAGATCGAAGACGATGGGCCTTAACCCCCTAAGCAATAGGGTA
15410989 ACAGGCTGAA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.30, C:0.24, G:0.29, T:0.17
Consensus pattern (46 bp):
CAGATCGAAGACGATGGGCCTTAACCCCCTAAGCAATAGGGTAGAG
Found at i:15410979 original size:134 final size:135
Alignment explanation
Indices: 15410828--15411077 Score: 403
Period size: 134 Copynumber: 1.9 Consensus size: 135
15410818 GAAGACAAAT
* *
15410828 GGCCTTAAACCCTTAAGCAGTAGGGTAACAGGCTGAAAATTATAGATCTTATCACCATAAGCAGT
1 GGCCTTAAACCCCTAAGCAATAGGGTAACAGGCTGAAAATTATAGATCTTATCACCATAAGCAGT
* **
15410893 AAGGAAACAGATCGAAGGCGATGGGCCTTAACCCCC-TAAGCAGTAGGGTAGAGCAGATTGAAGA
66 AAGGAAACAGATCGAAGACGATAAGCCTTAACCCCCTTAAGCAGTAGGGTAGAGCAGATTGAAGA
15410957 CGATG
131 CGATG
* * *
15410962 GGCCTTAACCCCCTAAGCAATAGGGTAACAGGCTGAAAATTATAGATCTTATCACCCTAAGTAGT
1 GGCCTTAAACCCCTAAGCAATAGGGTAACAGGCTGAAAATTATAGATCTTATCACCATAAGCAGT
* *
15411027 AAGGGAATAGATCGAAGACGATAAGCCTTAACCCCCTTAAGCAGTAGGGTA
66 AAGGAAACAGATCGAAGACGATAAGCCTTAACCCCCTTAAGCAGTAGGGTA
15411078 ACAGGTTGAA
Statistics
Matches: 105, Mismatches: 10, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
134 91 0.87
135 14 0.13
ACGTcount: A:0.35, C:0.20, G:0.24, T:0.20
Consensus pattern (135 bp):
GGCCTTAAACCCCTAAGCAATAGGGTAACAGGCTGAAAATTATAGATCTTATCACCATAAGCAGT
AAGGAAACAGATCGAAGACGATAAGCCTTAACCCCCTTAAGCAGTAGGGTAGAGCAGATTGAAGA
CGATG
Found at i:15411231 original size:45 final size:45
Alignment explanation
Indices: 15411179--15411286 Score: 162
Period size: 45 Copynumber: 2.4 Consensus size: 45
15411169 ATTGAGGTCA
*
15411179 CAAGTCTTATCTTCCTAAAGTTGCAGTGAAGCAGACTAAAAATAG
1 CAAGTCTTATCTCCCTAAAGTTGCAGTGAAGCAGACTAAAAATAG
* * * * *
15411224 CAGGTCTTATCTCCCTGAAGTTGCGGTGGAGCAGACTAAAGATAG
1 CAAGTCTTATCTCCCTAAAGTTGCAGTGAAGCAGACTAAAAATAG
15411269 CAAGTCTTATCTCCCTAA
1 CAAGTCTTATCTCCCTAA
15411287 GCAATAGTGG
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 55 1.00
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.27
Consensus pattern (45 bp):
CAAGTCTTATCTCCCTAAAGTTGCAGTGAAGCAGACTAAAAATAG
Done.