Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 55 of 253
Found at i:15194057 original size:14 final size:15
Alignment explanation
Indices: 15194028--15194057 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
15194018 CAAAATTTAG
15194028 ACATGATACTTTCAC
1 ACATGATACTTTCAC
15194043 ACATGATAC-TTCAC
1 ACATGATACTTTCAC
15194057 A
1 A
15194058 TATAATAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.37, C:0.27, G:0.07, T:0.30
Consensus pattern (15 bp):
ACATGATACTTTCAC
Found at i:15194128 original size:20 final size:20
Alignment explanation
Indices: 15194103--15194144 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
15194093 TGTGACTCAG
15194103 TTTTGTGGTCCCGAAACCAC
1 TTTTGTGGTCCCGAAACCAC
*
15194123 TTTTGTGGTCCTGAAACCAC
1 TTTTGTGGTCCCGAAACCAC
15194143 TT
1 TT
15194145 CCAGACTTGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.19, C:0.26, G:0.19, T:0.36
Consensus pattern (20 bp):
TTTTGTGGTCCCGAAACCAC
Found at i:15198187 original size:42 final size:42
Alignment explanation
Indices: 15198084--15198244 Score: 157
Period size: 42 Copynumber: 3.8 Consensus size: 42
15198074 TACTGTACCA
* * * *
15198084 ATGCCATATCCCATATATGGTCTTACATGTAATCTCGTATCG
1 ATGCCATATCCCAAATATGGTCTTACACGAAATCTCATATCG
* *
15198126 ATGCCA-ATAGCCAACTATGGTCTTACACGAAATCTCATATCG
1 ATGCCATAT-CCCAAATATGGTCTTACACGAAATCTCATATCG
** * *
15198168 ATGTTATATCCCAAATATGGTCTTATA--AAATGTCTCATACCG
1 ATGCCATATCCCAAATATGGTCTTACACGAAA--TCTCATATCG
* * *
15198210 ATGCCATATCCCAGATATGATCTTACACGTAATCT
1 ATGCCATATCCCAAATATGGTCTTACACGAAATCT
15198245 TAACTAACCC
Statistics
Matches: 95, Mismatches: 18, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
40 3 0.03
41 2 0.02
42 86 0.91
43 2 0.02
44 2 0.02
ACGTcount: A:0.31, C:0.24, G:0.13, T:0.32
Consensus pattern (42 bp):
ATGCCATATCCCAAATATGGTCTTACACGAAATCTCATATCG
Found at i:15204715 original size:27 final size:27
Alignment explanation
Indices: 15204629--15204825 Score: 182
Period size: 27 Copynumber: 7.3 Consensus size: 27
15204619 TACTGAAATG
** * *
15204629 CCCTCGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTACAAAATTACCGTTTTA
* * * *
15204656 -CCTTGATTTATAGAATTACCGTTTCA
1 CCCTCGATTTACAAAATTACCGTTTTA
* *
15204682 CCCTCGACTTACAAAATTACTGTTTTA
1 CCCTCGATTTACAAAATTACCGTTTTA
* * * *
15204709 CCATCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTACAAAATTACCGTTTTA
* * * *
15204736 CCCTCAATTTATAGAATTACTGTTTTA
1 CCCTCGATTTACAAAATTACCGTTTTA
* *
15204763 CCCTTGATTTACAAAATTACCATTTTA
1 CCCTCGATTTACAAAATTACCGTTTTA
*
15204790 CCCTC-AGTTTAAAAAATTACCGTTTTA
1 CCCTCGA-TTTACAAAATTACCGTTTTA
15204817 CCCTCGATT
1 CCCTCGATT
15204826 GTGAAATTAC
Statistics
Matches: 138, Mismatches: 29, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
26 23 0.17
27 114 0.83
28 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.40
Consensus pattern (27 bp):
CCCTCGATTTACAAAATTACCGTTTTA
Found at i:15204739 original size:54 final size:53
Alignment explanation
Indices: 15204651--15204825 Score: 208
Period size: 54 Copynumber: 3.3 Consensus size: 53
15204641 AGAATTACCA
* * * * *
15204651 TTTTA-CCTTGATTTATAGAATTACCGTTTCACCCTCGACTTACAAAATTACTG
1 TTTTACCCTCGATTTATAGAATTACCATTTTACCCTC-ATTTAAAAAATTACTG
* * *
15204704 TTTTACCATCGATTTATAGAATTACCATTTTACCCTCAATTTATAGAATTACTG
1 TTTTACCCTCGATTTATAGAATTACCATTTTACCCTC-ATTTAAAAAATTACTG
* * * *
15204758 TTTTACCCTTGATTTACAAAATTACCATTTTACCCTCAGTTTAAAAAATTACCG
1 TTTTACCCTCGATTTATAGAATTACCATTTTACCCTCA-TTTAAAAAATTACTG
15204812 TTTTACCCTCGATT
1 TTTTACCCTCGATT
15204826 GTGAAATTAC
Statistics
Matches: 104, Mismatches: 16, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
53 6 0.06
54 98 0.94
ACGTcount: A:0.30, C:0.22, G:0.07, T:0.41
Consensus pattern (53 bp):
TTTTACCCTCGATTTATAGAATTACCATTTTACCCTCATTTAAAAAATTACTG
Found at i:15204789 original size:81 final size:81
Alignment explanation
Indices: 15204632--15204821 Score: 240
Period size: 81 Copynumber: 2.4 Consensus size: 81
15204622 TGAAATGCCC
* **
15204632 TCGATTTGTAGAATTACCATTTTA-CCTTGATTTATAGAATTACCGTTTCACCCTCGACTTACAA
1 TCGATTTATAGAATTACCATTTTACCCTCAATTTATAGAATTACCGTTTCACCCTCGACTTACAA
**
15204696 AATTACTGTTTTACCA
66 AATTACCATTTTACCA
* * * *
15204712 TCGATTTATAGAATTACCATTTTACCCTCAATTTATAGAATTACTGTTTTACCCTTGATTTACAA
1 TCGATTTATAGAATTACCATTTTACCCTCAATTTATAGAATTACCGTTTCACCCTCGACTTACAA
*
15204777 AATTACCATTTTACCC
66 AATTACCATTTTACCA
* * *
15204793 TC-AGTTTAAAAAATTACCGTTTTACCCTC
1 TCGA-TTTATAGAATTACCATTTTACCCTC
15204822 GATTGTGAAA
Statistics
Matches: 95, Mismatches: 13, Indels: 3
0.86 0.12 0.03
Matches are distributed among these distances:
80 24 0.25
81 71 0.75
ACGTcount: A:0.30, C:0.22, G:0.08, T:0.41
Consensus pattern (81 bp):
TCGATTTATAGAATTACCATTTTACCCTCAATTTATAGAATTACCGTTTCACCCTCGACTTACAA
AATTACCATTTTACCA
Found at i:15204867 original size:26 final size:27
Alignment explanation
Indices: 15204829--15205008 Score: 141
Period size: 27 Copynumber: 6.7 Consensus size: 27
15204819 CTCGATTGTG
**
15204829 AAATTACTGAAATACCCCT-GTAGGATA
1 AAATTACCAAAATACCCCTAGTAGG-TA
* **
15204856 GAA-TACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTAGGTA
**
15204882 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTAGGTA
* **
15204909 AAATTACCAAAATACCCTTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTAGGTA
** * ** *
15204936 AAATTACCAAAATACCATTGGTTTGTG
1 AAATTACCAAAATACCCCTAGTAGGTA
* * **
15204963 AAATTACCGAAATA-CCCTCAATTTGTA
1 AAATTACCAAAATACCCCT-AGTAGGTA
15204990 AAATTACCAAAATACCCCT
1 AAATTACCAAAATACCCCT
15205009 GATTTACAAA
Statistics
Matches: 132, Mismatches: 17, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
26 19 0.14
27 109 0.83
28 4 0.03
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTAGTAGGTA
Found at i:15204895 original size:27 final size:27
Alignment explanation
Indices: 15204859--15205033 Score: 221
Period size: 27 Copynumber: 6.5 Consensus size: 27
15204849 TAGGATAGAA
15204859 TACCAAAATACCCCTAGTTTGTAAAAT
1 TACCAAAATACCCCTAGTTTGTAAAAT
15204886 TACCAAAATACCCCTAGTTTGTAAAAT
1 TACCAAAATACCCCTAGTTTGTAAAAT
*
15204913 TACCAAAATACCCTTAGTTTGTAAAAT
1 TACCAAAATACCCCTAGTTTGTAAAAT
** * *
15204940 TACCAAAATACCATTGGTTTGTGAAAT
1 TACCAAAATACCCCTAGTTTGTAAAAT
* *
15204967 TACCGAAATA-CCCTCAATTTGTAAAAT
1 TACCAAAATACCCCT-AGTTTGTAAAAT
**
15204994 TACCAAAATACCCCT-GATTTACAAAAT
1 TACCAAAATACCCCTAG-TTTGTAAAAT
15205021 TA-CAGAAATACCC
1 TACCA-AAATACCC
15205034 TTGACTTTCT
Statistics
Matches: 130, Mismatches: 14, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
26 4 0.03
27 122 0.94
28 4 0.03
ACGTcount: A:0.41, C:0.22, G:0.08, T:0.29
Consensus pattern (27 bp):
TACCAAAATACCCCTAGTTTGTAAAAT
Found at i:15204931 original size:54 final size:53
Alignment explanation
Indices: 15204824--15205035 Score: 230
Period size: 54 Copynumber: 3.9 Consensus size: 53
15204814 TTACCCTCGA
* ** ** * *
15204824 TTGTGAAATTACTGAAATACCCCTGTAGGATAGAA-TACCAAAATACCCCTAGT
1 TTGTAAAATTACCAAAATACCCCTGTTTG-TAAAATTACCAAAATACCCTTAGT
15204877 TTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTAGT
1 TTGTAAAATTACCAAAATACCCCT-GTTTGTAAAATTACCAAAATACCCTTAGT
** * * * *
15204931 TTGTAAAATTACCAAAATACCATTGGTTTGTGAAATTACCGAAATACCCTCAAT
1 TTGTAAAATTACCAAAATACCCCT-GTTTGTAAAATTACCAAAATACCCTTAGT
**
15204985 TTGTAAAATTACCAAAATACCCCTGATTTACAAAATTA-CAGAAATACCCTT
1 TTGTAAAATTACCAAAATACCCCTG-TTTGTAAAATTACCA-AAATACCCTT
15205036 GACTTTCTAA
Statistics
Matches: 134, Mismatches: 21, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
53 27 0.20
54 107 0.80
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (53 bp):
TTGTAAAATTACCAAAATACCCCTGTTTGTAAAATTACCAAAATACCCTTAGT
Found at i:15205084 original size:27 final size:27
Alignment explanation
Indices: 15204881--15205096 Score: 112
Period size: 27 Copynumber: 7.9 Consensus size: 27
15204871 CCTAGTTTGT
** * * **
15204881 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACTGAAATACCCTTGGTTTAC
** * **
15204908 AAAATTACCAAAATACCCTTAGTTTGT
1 AAAATTACTGAAATACCCTTGGTTTAC
** * **
15204935 AAAATTACCAAAATACCATTGGTTTGT
1 AAAATTACTGAAATACCCTTGGTTTAC
* * *** **
15204962 GAAATTACCGAAATACCCTCAATTTGT
1 AAAATTACTGAAATACCCTTGGTTTAC
** * *
15204989 AAAATTACCAAAATACCCCTGATTTAC
1 AAAATTACTGAAATACCCTTGGTTTAC
* *
15205016 AAAATTACAGAAATACCCTTGACTTT-C
1 AAAATTACTGAAATACCCTTG-GTTTAC
*
15205043 TAAAAATTA-TAGAAATACCATTGGTTTAC
1 --AAAATTACT-GAAATACCCTTGGTTTAC
15205072 AAAATTACTGAAATACCCTTGGTTT
1 AAAATTACTGAAATACCCTTGGTTT
15205097 GTTGATTTAC
Statistics
Matches: 159, Mismatches: 24, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
27 133 0.84
28 7 0.04
29 19 0.12
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (27 bp):
AAAATTACTGAAATACCCTTGGTTTAC
Found at i:15205213 original size:27 final size:27
Alignment explanation
Indices: 15205149--15205213 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
15205139 ACCCCTAATA
* *
15205149 GGTAAAAAGACCGTACAGCCCCTGTAG
1 GGTAAAATGACCGTACAACCCCTGTAG
* *
15205176 GGTAAAGTGACCGTA-ATACCCCTGTAT
1 GGTAAAATGACCGTACA-ACCCCTGTAG
15205203 GGTAAAATGAC
1 GGTAAAATGAC
15205214 AAATATGCCC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
26 1 0.03
27 31 0.97
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.20
Consensus pattern (27 bp):
GGTAAAATGACCGTACAACCCCTGTAG
Found at i:15206044 original size:26 final size:26
Alignment explanation
Indices: 15206015--15206136 Score: 160
Period size: 25 Copynumber: 4.8 Consensus size: 26
15206005 GAGGAAGTGC
*
15206015 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATCG
* * * *
15206041 AAAAAGGATTATGCCTCAGTTTA-CC
1 AAAAGGGCTTATGCCCCAGTTTATCG
*
15206066 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATCG
*
15206092 AAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATCG
15206117 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
15206137 ATTAAAGAGG
Statistics
Matches: 83, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
25 53 0.64
26 30 0.36
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATCG
Found at i:15206090 original size:51 final size:50
Alignment explanation
Indices: 15206014--15206136 Score: 194
Period size: 51 Copynumber: 2.4 Consensus size: 50
15206004 GGAGGAAGTG
*
15206014 CAAAAGGGCTTATGCCCCAGTTTATTGAAAAAGGATTATGCCTCAGTTTAC
1 CAAAAGGGCTTATGCCCCAGTTTATTGAAAAAGGATT-TGCCCCAGTTTAC
* *
15206065 CAAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTAC
1 CAAAAGGGCTTATGCCCCAGTTTATTGAAAAAGGATTTGCCCCAGTTTAC
15206115 CGAAAAGGGCTT-TGCCCCAGTT
1 C-AAAAGGGCTTATGCCCCAGTT
15206137 ATTAAAGAGG
Statistics
Matches: 68, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
50 23 0.34
51 45 0.66
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.28
Consensus pattern (50 bp):
CAAAAGGGCTTATGCCCCAGTTTATTGAAAAAGGATTTGCCCCAGTTTAC
Found at i:15206340 original size:42 final size:42
Alignment explanation
Indices: 15206281--15206372 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
15206271 TAGTCTCCCC
* ** *
15206281 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATACATTGACATTACATGTGATATTG
15206323 AAATGGGCTTGCATACATACATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATACATTGACATTACATGTGATATTG
15206365 AAATGGGC
1 AAATGGGC
15206373 CTAAGGGCCA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.30, C:0.13, G:0.22, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATACATTGACATTACATGTGATATTG
Found at i:15206473 original size:31 final size:31
Alignment explanation
Indices: 15206396--15206474 Score: 133
Period size: 31 Copynumber: 2.6 Consensus size: 31
15206386 CGTTTACAGT
*
15206396 AAAA-GCTTCGGCCCAATGATATGATTTATG
1 AAAAGGCTTCGGCCCAGTGATATGATTTATG
*
15206426 AAAAGGCTTCAGCCCAGTGATATGATTTATG
1 AAAAGGCTTCGGCCCAGTGATATGATTTATG
15206457 AAAAGGCTTCGGCCCAGT
1 AAAAGGCTTCGGCCCAGT
15206475 ACACGTCAAG
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
30 4 0.09
31 41 0.91
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.27
Consensus pattern (31 bp):
AAAAGGCTTCGGCCCAGTGATATGATTTATG
Found at i:15207354 original size:28 final size:27
Alignment explanation
Indices: 15207293--15207381 Score: 133
Period size: 28 Copynumber: 3.1 Consensus size: 27
15207283 AAAGCATGAC
*
15207293 TATAAATGTGAATTGGGTCTGATGGGCCA
1 TATAAATGTG-ATTGGGCCT-ATGGGCCA
15207322 TATAAATGTGATTTGGGCCTATGGGCCA
1 TATAAATGTGA-TTGGGCCTATGGGCCA
15207350 TATAAATGTGATTGGGCCTAGTGGGCCA
1 TATAAATGTGATTGGGCCTA-TGGGCCA
15207378 TATA
1 TATA
15207382 CAGGTATGTG
Statistics
Matches: 57, Mismatches: 1, Indels: 5
0.90 0.02 0.08
Matches are distributed among these distances:
27 9 0.16
28 31 0.54
29 17 0.30
ACGTcount: A:0.27, C:0.12, G:0.29, T:0.31
Consensus pattern (27 bp):
TATAAATGTGATTGGGCCTATGGGCCA
Found at i:15210589 original size:31 final size:31
Alignment explanation
Indices: 15210554--15210617 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
15210544 CCTTTTCATA
15210554 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
** *
15210585 TTTCATATTTCATATTACTGGGCTGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
15210616 TT
1 TT
15210618 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:15210879 original size:23 final size:24
Alignment explanation
Indices: 15210830--15210927 Score: 148
Period size: 23 Copynumber: 4.2 Consensus size: 24
15210820 GGCCTAGCTT
* * *
15210830 CTTTTAATAACTAGGGCAAAAGAC
1 CTTTTAATAACTGGGGCATAAGCC
15210854 CTTTTAATAACT-GGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
15210877 C-TTTAATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
15210900 C-TTTAATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
15210923 CTTTT
1 CTTTT
15210928 TCACTTCCTC
Statistics
Matches: 70, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
22 10 0.14
23 45 0.64
24 15 0.21
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.30
Consensus pattern (24 bp):
CTTTTAATAACTGGGGCATAAGCC
Found at i:15211002 original size:20 final size:20
Alignment explanation
Indices: 15210977--15211043 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
15210967 TTATGATTAC
*
15210977 ATCATGTGTATATCATACAT
1 ATCATGTGCATATCATACAT
15210997 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
15211017 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
15211037 ACCATGT
1 ATCATGT
15211044 CTATCAAAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:15211112 original size:25 final size:25
Alignment explanation
Indices: 15211080--15211127 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
15211070 ATACATAAAC
* * *
15211080 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
15211105 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
15211128 CATGTTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:15215444 original size:25 final size:25
Alignment explanation
Indices: 15215415--15215462 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
15215405 TTATAACATG
* * *
15215415 AAAATGACCTTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
15215440 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
15215463 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.27
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:15215565 original size:20 final size:20
Alignment explanation
Indices: 15215499--15215565 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
15215489 ATTTTGATAG
*
15215499 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
15215519 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
*
15215539 ACATGATATGTATGATATAC
1 ACATGATATGTATGATATGC
15215559 ACATGAT
1 ACATGAT
15215566 GTAATCATAA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:15215646 original size:23 final size:23
Alignment explanation
Indices: 15215616--15215710 Score: 129
Period size: 23 Copynumber: 4.1 Consensus size: 23
15215606 AGGAAGTGAA
*
15215616 AAAGGGCTTATGCCCTAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
15215639 AAAGGGCTTATGCCCCAATTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
15215662 AAAGGGCTTATG-CCTAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
* *
15215684 AAAAGGGCTTTTACCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
15215708 AAA
1 AAA
15215711 AGAGGCTAGG
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
22 8 0.13
23 46 0.73
24 9 0.14
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.33
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:15215689 original size:46 final size:46
Alignment explanation
Indices: 15215616--15215710 Score: 147
Period size: 46 Copynumber: 2.1 Consensus size: 46
15215606 AGGAAGTGAA
*
15215616 AAAGGGCTTATGCCCTAGTTATTAAAGGGCTTATGCCCCAATTATT
1 AAAGGGCTTATGCCCTAGTTATTAAAGGGCTTATACCCCAATTATT
* *
15215662 AAAGGGCTTATG-CCTAGTTATTAAAAGGGCTTTTACCCCAGTTATT
1 AAAGGGCTTATGCCCTAGTTATT-AAAGGGCTTATACCCCAATTATT
15215708 AAA
1 AAA
15215711 AGAGGCTAGG
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
45 10 0.22
46 35 0.78
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.33
Consensus pattern (46 bp):
AAAGGGCTTATGCCCTAGTTATTAAAGGGCTTATACCCCAATTATT
Found at i:15215960 original size:31 final size:31
Alignment explanation
Indices: 15215925--15215988 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
15215915 CGTTTACAGT
15215925 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
15215956 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
15215987 AA
1 AA
15215989 TATGAAAAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:15218862 original size:29 final size:29
Alignment explanation
Indices: 15218803--15218886 Score: 125
Period size: 29 Copynumber: 2.9 Consensus size: 29
15218793 TACATGCATC
**
15218803 TGGCCCATTAGGCCC-AATCTTATTCACA
1 TGGCCCATTAGGCCCAAATCACATTCACA
**
15218831 TGGCCCATTAGGCCCAAATCACATTCGTA
1 TGGCCCATTAGGCCCAAATCACATTCACA
15218860 TGGCCCATTAGGCCCAAATCACATTCA
1 TGGCCCATTAGGCCCAAATCACATTCA
15218887 TATACATGCT
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
28 15 0.30
29 35 0.70
ACGTcount: A:0.27, C:0.32, G:0.15, T:0.25
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATTCACA
Found at i:15219126 original size:16 final size:16
Alignment explanation
Indices: 15219105--15219142 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
15219095 CAAACTTTCA
15219105 GCTTTTCAGCATTTTG
1 GCTTTTCAGCATTTTG
*
15219121 GCTTTTCGGCATTTTG
1 GCTTTTCAGCATTTTG
15219137 GCTTTT
1 GCTTTT
15219143 GCCTATCTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.08, C:0.18, G:0.21, T:0.53
Consensus pattern (16 bp):
GCTTTTCAGCATTTTG
Found at i:15221692 original size:12 final size:12
Alignment explanation
Indices: 15221675--15221704 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
15221665 ACACTTCTGA
*
15221675 GGCCTCAGCCAC
1 GGCCTCAGACAC
15221687 GGCCTCAGACAC
1 GGCCTCAGACAC
15221699 GGCCTC
1 GGCCTC
15221705 TTTCACCTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.17, C:0.47, G:0.27, T:0.10
Consensus pattern (12 bp):
GGCCTCAGACAC
Found at i:15223384 original size:29 final size:28
Alignment explanation
Indices: 15223313--15223408 Score: 120
Period size: 29 Copynumber: 3.4 Consensus size: 28
15223303 AAGTCTACAT
* *
15223313 ACATGCATATGGCCCACTAGGCCCAATC
1 ACATTCATATGGCCCATTAGGCCCAATC
* * *
15223341 TCATTCATATAGCCCATTTGGCCCATATC
1 ACATTCATATGGCCCATTAGGCCCA-ATC
*
15223370 ACATTCGTATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCC-AATC
15223399 ACATTCATAT
1 ACATTCATAT
15223409 ACATGCTTTC
Statistics
Matches: 56, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
28 20 0.36
29 35 0.62
30 1 0.02
ACGTcount: A:0.28, C:0.31, G:0.14, T:0.27
Consensus pattern (28 bp):
ACATTCATATGGCCCATTAGGCCCAATC
Found at i:15225069 original size:42 final size:43
Alignment explanation
Indices: 15225010--15225102 Score: 109
Period size: 42 Copynumber: 2.2 Consensus size: 43
15225000 GATTTAGGTA
* ** *
15225010 TAAGACCATGTCTGGGACATCGGCATCG-TATCTGAATT-CGTG
1 TAAGACCATATCTGGGACAGAGGCATCGATAT-TGAATTACATG
* *
15225052 TAAGACCCTATCTGGGACAGAGGTATCGATATTGAATTACATG
1 TAAGACCATATCTGGGACAGAGGCATCGATATTGAATTACATG
15225095 TAAGACCA
1 TAAGACCA
15225103 CGTCTGAGGC
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
42 29 0.69
43 13 0.31
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (43 bp):
TAAGACCATATCTGGGACAGAGGCATCGATATTGAATTACATG
Found at i:15236961 original size:21 final size:21
Alignment explanation
Indices: 15236935--15236975 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
15236925 TGCATATTCT
15236935 AATTTCATAAACTAATTTACG
1 AATTTCATAAACTAATTTACG
15236956 AATTTCATAAACTAATTTAC
1 AATTTCATAAACTAATTTAC
15236976 TAAATCAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.44, C:0.15, G:0.02, T:0.39
Consensus pattern (21 bp):
AATTTCATAAACTAATTTACG
Found at i:15259611 original size:34 final size:31
Alignment explanation
Indices: 15259544--15259611 Score: 91
Period size: 31 Copynumber: 2.1 Consensus size: 31
15259534 CATATAAAAC
* *
15259544 ATGGTCTTACTCGCACACATATATCGATGCT
1 ATGGTCTTACTCGCACACACATATCGATCCT
15259575 ATGGTCTTACTCGCACATCACATATCAGAATCCT
1 ATGGTCTTACTCGCACA-CACATATC-G-ATCCT
15259609 ATG
1 ATG
15259612 CCATGACATA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
31 17 0.53
32 7 0.22
33 1 0.03
34 7 0.22
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.31
Consensus pattern (31 bp):
ATGGTCTTACTCGCACACACATATCGATCCT
Found at i:15260206 original size:15 final size:15
Alignment explanation
Indices: 15260183--15260214 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
15260173 TCAAAAATTC
15260183 CAATACAAAACATAT
1 CAATACAAAACATAT
*
15260198 CAATCCAAAACATAT
1 CAATACAAAACATAT
15260213 CA
1 CA
15260215 TTTATATTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.56, C:0.25, G:0.00, T:0.19
Consensus pattern (15 bp):
CAATACAAAACATAT
Found at i:15264627 original size:50 final size:50
Alignment explanation
Indices: 15264505--15265049 Score: 395
Period size: 50 Copynumber: 10.9 Consensus size: 50
15264495 ACCAAAGTTC
* * * * *
15264505 TCTGGTACGCATAGTAGCTTGCACTTAGTACTA-ACATGCGACCTATAA--A
1 TCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGA-CT-TAACCA
* * * * *
15264554 TCTGGTACACGTAGTAGCTTGCACTTGGTACTACACACATGACTTAACCA
1 TCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGACTTAACCA
* * ***
15264604 TCTGATACACGTAGTAGCCTGCACTTAGTACTACA-ACGTGA-TCAAAGT
1 TCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGACTTAACCA
* * * * * * * * *
15264652 TAATGGGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCTATCAA
1 T-CT-GATACACATAGTAGCCTGCACTTAGTACTACACACGTGACTTAACCA
* * *
15264704 CCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACTTAACCA
1 TCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGACTTAACCA
* * **
15264754 TCTGATACACATAGTAGCC-GACACTTAGTACTACACATGTGA-TCGAAGTTA
1 TCTGATACACATAGTAGCCTG-CACTTAGTACTACACACGTGACT-TAA-CCA
* * * * * * * *
15264805 ACGGATACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
1 TCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGACTTAACCA
* ** *
15264855 TCTGGTACATGTAGTAGCCTGCACTTAGTACTACACATGTGACTTAACCA
1 TCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGACTTAACCA
* * * **
15264905 TCTGATACACATAGTAGCCTACACTTTGTACTACACACGTGA-TCGAAGTTA
1 TCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGACT-TAA-CCA
* * * ** * * * * * *
15264956 ACGGGTATGCATAGTAGCCTGCACTTAGTACTGCACATGCGACCTATCAA
1 TCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGACTTAACCA
* * *
15265006 TCTGGTATACGTAGTAGCCTGCACTTAGTACTACACACGTGACT
1 TCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGACT
15265050 CACAACGAAT
Statistics
Matches: 386, Mismatches: 95, Indels: 29
0.76 0.19 0.06
Matches are distributed among these distances:
48 7 0.02
49 41 0.11
50 259 0.67
51 77 0.20
52 2 0.01
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (50 bp):
TCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGACTTAACCA
Found at i:15264871 original size:151 final size:151
Alignment explanation
Indices: 15264508--15265049 Score: 883
Period size: 151 Copynumber: 3.6 Consensus size: 151
15264498 AAAGTTCTCT
* *
15264508 GGTACGCATAGTAGCTTGCACTTAGTACTA-ACATGCGACCTATAAATCTGGTACACGTAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
* * * *
15264572 TTGCACTTGGTACTACACACATGACTTAACCATCTGATACACGTAGTAGCCTG-CACTTAGTACT
66 CTGCACTTAGTACTACACACGTGACTTAACCATCTGATACACATAGTAGCC-GACACTTAGTACT
* *
15264636 ACA-ACGTGATCAAAGTTAATG
130 ACACACGTGATCGAAGTTAACG
* *
15264657 GGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCTATCAACCTGGTACACGTAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
15264722 CTGCACTTAGTACTACACACGTGACTTAACCATCTGATACACATAGTAGCCGACACTTAGTACTA
66 CTGCACTTAGTACTACACACGTGACTTAACCATCTGATACACATAGTAGCCGACACTTAGTACTA
*
15264787 CACATGTGATCGAAGTTAACG
131 CACACGTGATCGAAGTTAACG
* *
15264808 GATACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACATGTAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
* * *
15264873 CTGCACTTAGTACTACACATGTGACTTAACCATCTGATACACATAGTAGCCTACACTTTGTACTA
66 CTGCACTTAGTACTACACACGTGACTTAACCATCTGATACACATAGTAGCCGACACTTAGTACTA
15264938 CACACGTGATCGAAGTTAACG
131 CACACGTGATCGAAGTTAACG
* * *
15264959 GGTATGCATAGTAGCCTGCACTTAGTACTGCACATGCGACCTATCAATCTGGTATACGTAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
15265024 CTGCACTTAGTACTACACACGTGACT
66 CTGCACTTAGTACTACACACGTGACT
15265050 CACAACGAAT
Statistics
Matches: 365, Mismatches: 25, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
149 29 0.08
150 93 0.25
151 243 0.67
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (151 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
CTGCACTTAGTACTACACACGTGACTTAACCATCTGATACACATAGTAGCCGACACTTAGTACTA
CACACGTGATCGAAGTTAACG
Found at i:15264971 original size:101 final size:99
Alignment explanation
Indices: 15264516--15265048 Score: 446
Period size: 101 Copynumber: 5.3 Consensus size: 99
15264506 CTGGTACGCA
* * * ** * * * * *
15264516 TAGTAGCTTGCACTTAGTACTA-ACATGCGACCTATAAATCTGGTACACGTAGTAGCTTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACAAATCAA-CGGGTACGCATAGTAGCCTGCACTT
* ** *
15264580 GGTACTACACACATGACTTAACCATCTGATACACG
65 AGTACTACACATGTGACTTAACAATCTGATACACG
* * *
15264615 TAGTAGCCTGCACTTAGTACTACA-ACGTGATCAAAGTTAATGGGTACGCATAGTAGCCTACACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CAAA-TCAACGGGTACGCATAGTAGCCTGCACT
* * * * *
15264679 TAGTACTACACATGCGACCTATCAACCTGGTACACG
64 TAGTACTACACATGTGACTTAACAATCTGATACACG
* * * * * *
15264715 TAGTAGCCTGCACTTAGTACTACACACGTGACTTAACCATCTGATACACATAGTAGCC-GACACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGAC-AAATCAACGGGTACGCATAGTAGCCTG-CACT
* * * * *
15264779 TAGTACTACACATGTGA-TCGAAGTTAA-CGGATACGCA
64 TAGTACTACACATGTGACT-TAA--CAATCTGATACACG
* * ** * ***
15264816 TAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACATGTAGTAGCCTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACAAATCAA-CGGGTACGCATAGTAGCCTGCACTT
* *
15264881 AGTACTACACATGTGACTTAACCATCTGATACACA
65 AGTACTACACATGTGACTTAACAATCTGATACACG
* * * * *
15264916 TAGTAGCCTACACTTTGTACTACACACGTGATCGAAGTTAACGGGTATGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-C-AAATCAACGGGTACGCATAGTAGCCTGCACT
* * * * * *
15264981 TAGTACTGCACATGCGACCTATCAATCTGGTATACG
64 TAGTACTACACATGTGACTTAACAATCTGATACACG
15265017 TAGTAGCCTGCACTTAGTACTACACACGTGAC
1 TAGTAGCCTGCACTTAGTACTACACACGTGAC
15265049 TCACAACGAA
Statistics
Matches: 343, Mismatches: 76, Indels: 29
0.77 0.17 0.06
Matches are distributed among these distances:
99 26 0.08
100 148 0.43
101 162 0.47
102 7 0.02
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACAAATCAACGGGTACGCATAGTAGCCTGCACTTA
GTACTACACATGTGACTTAACAATCTGATACACG
Found at i:15268442 original size:42 final size:44
Alignment explanation
Indices: 15268347--15268442 Score: 110
Period size: 44 Copynumber: 2.2 Consensus size: 44
15268337 ATGTGTTTTT
* * *
15268347 GTGTAAGACCACGTCTGGGACGTTCGCATCGACTTCTGTTTTAC
1 GTGTAAGACCACGTCTAGGACGATCGCATCGACTTCTGATTTAC
*
15268391 GTGTAAGACCATGTCTAGGAC-ATCGACATC-A-TATCTGATTT-C
1 GTGTAAGACCACGTCTAGGACGATCG-CATCGACT-TCTGATTTAC
15268433 GTGTAAGACC
1 GTGTAAGACC
15268443 CTACTTGGGA
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
42 12 0.26
43 11 0.24
44 23 0.50
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.30
Consensus pattern (44 bp):
GTGTAAGACCACGTCTAGGACGATCGCATCGACTTCTGATTTAC
Found at i:15269367 original size:109 final size:111
Alignment explanation
Indices: 15269235--15269455 Score: 428
Period size: 109 Copynumber: 2.0 Consensus size: 111
15269225 TCCACTGAAG
15269235 GGGGTTGAGCATTCAGGTTCGCTCGGACGAACTCCGTGTACCACTCATTCATCATGTAGGGAAAG
1 GGGGTTGAGCATTCAGGTTCGCTCGGACGAACTCCGTGTACCACTCATTCATCATGTAGGGAAAG
15269300 GACTTTCAAGCCCCTTCTCCT-CTCTCTGACTAACCTTTGAAGGTT
66 GACTTTCAAGCCCCTTCTCCTCCTCTCTGACTAACCTTTGAAGGTT
15269345 GGGGTTGAGCA-TCAGGTTCGCTCGGACGAACTCCGTGTACCACTCATTCATCATGTAGGGAAAG
1 GGGGTTGAGCATTCAGGTTCGCTCGGACGAACTCCGTGTACCACTCATTCATCATGTAGGGAAAG
15269409 GACTTTCAAGCCCCTTCTCCTCCTCTCTGACTAACCTTTGAAGGTT
66 GACTTTCAAGCCCCTTCTCCTCCTCTCTGACTAACCTTTGAAGGTT
15269455 G
1 G
15269456 ATTATCAGAT
Statistics
Matches: 110, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
109 74 0.67
110 36 0.33
ACGTcount: A:0.21, C:0.28, G:0.23, T:0.29
Consensus pattern (111 bp):
GGGGTTGAGCATTCAGGTTCGCTCGGACGAACTCCGTGTACCACTCATTCATCATGTAGGGAAAG
GACTTTCAAGCCCCTTCTCCTCCTCTCTGACTAACCTTTGAAGGTT
Found at i:15269919 original size:13 final size:13
Alignment explanation
Indices: 15269901--15269927 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
15269891 GAAGTAATCA
15269901 CACACGGGCGTGT
1 CACACGGGCGTGT
15269914 CACACGGGCGTGT
1 CACACGGGCGTGT
15269927 C
1 C
15269928 CCTGCCAAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.33, G:0.37, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:15282855 original size:27 final size:27
Alignment explanation
Indices: 15282825--15282930 Score: 115
Period size: 27 Copynumber: 3.9 Consensus size: 27
15282815 CTAAATTAAA
*
15282825 AAAATGACTATTTTTCCCTTATGTGGT
1 AAAATGACTATTTTGCCCTTATGTGGT
* *
15282852 AAAATGACTGTTTTGCCTTTATGTGGT
1 AAAATGACTATTTTGCCCTTATGTGGT
** * **
15282879 AAAATGACTGA-AATGCCCCTACATGGT
1 AAAATGACT-ATTTTGCCCTTATGTGGT
*
15282906 AAATTGACTATTTTGCCCTTATGTG
1 AAAATGACTATTTTGCCCTTATGTG
15282931 ATATATGTTT
Statistics
Matches: 61, Mismatches: 16, Indels: 4
0.75 0.20 0.05
Matches are distributed among these distances:
26 1 0.02
27 60 0.98
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.39
Consensus pattern (27 bp):
AAAATGACTATTTTGCCCTTATGTGGT
Found at i:15284736 original size:58 final size:57
Alignment explanation
Indices: 15284664--15284797 Score: 137
Period size: 57 Copynumber: 2.3 Consensus size: 57
15284654 AAAGATTTAA
* * * *
15284664 CCTGGACAT-GTAATCCTGTTATAATCTCTCTCGAGCATATGTTACA-ATTAGGGCTTAG
1 CCTGGAC-TGGTAATCCTGTT-TAAGCTCTCTCGAGCATACGTTACATAAT-GGACTTAG
** * * * *
15284722 CCTGGACTGGTAATCCTAATTGAGCTCTTTTGAGCATACGTTACATAATGGATTTAG
1 CCTGGACTGGTAATCCTGTTTAAGCTCTCTCGAGCATACGTTACATAATGGACTTAG
15284779 CCTGGACTGGTAATCCTGT
1 CCTGGACTGGTAATCCTGT
15284798 AATATGATAT
Statistics
Matches: 62, Mismatches: 12, Indels: 5
0.78 0.15 0.06
Matches are distributed among these distances:
57 44 0.71
58 18 0.29
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.34
Consensus pattern (57 bp):
CCTGGACTGGTAATCCTGTTTAAGCTCTCTCGAGCATACGTTACATAATGGACTTAG
Found at i:15291562 original size:15 final size:15
Alignment explanation
Indices: 15291542--15291597 Score: 87
Period size: 15 Copynumber: 3.7 Consensus size: 15
15291532 GTATCTTGGG
15291542 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
15291557 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
15291572 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
15291587 TTTCTTTATTC
1 TTTCTTTATTC
15291598 GGTTTCCTTG
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
14 2 0.05
15 33 0.89
16 2 0.05
ACGTcount: A:0.12, C:0.16, G:0.11, T:0.61
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:15302788 original size:17 final size:19
Alignment explanation
Indices: 15302746--15302791 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
15302736 ATGAAATTTT
*
15302746 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
15302765 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
15302783 AA-TATTATT
1 AATTATTATT
15302792 GTATGTATGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 7 0.28
18 4 0.16
19 14 0.56
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.43
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:15305470 original size:49 final size:49
Alignment explanation
Indices: 15305365--15305552 Score: 241
Period size: 49 Copynumber: 3.8 Consensus size: 49
15305355 TGAGGTCGCA
** * * *
15305365 TGTGTAGTACTAAGTGCAGGCTACTATACGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAA-T-TGGTCACG
* * *
15305416 CGTGTAGTACTAAGTGTAGGCTACTACGTGTACCGGATAATTGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATTGGTCACG
* *
15305465 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATTGGTCACG
* * *
15305514 TGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATA
15305553 GCTTTGGCTA
Statistics
Matches: 121, Mismatches: 16, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
49 87 0.72
50 1 0.01
51 33 0.27
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATTGGTCACG
Found at i:15309540 original size:23 final size:22
Alignment explanation
Indices: 15309508--15309550 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
15309498 CAATCTCTTG
*
15309508 ATATTTATTTCATTATTATATT
1 ATATTTATTTCATTACTATATT
*
15309530 ATATTATATTTTATTACTATA
1 ATATT-TATTTCATTACTATA
15309551 AAAATCTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (22 bp):
ATATTTATTTCATTACTATATT
Found at i:15320944 original size:39 final size:39
Alignment explanation
Indices: 15320896--15320982 Score: 129
Period size: 39 Copynumber: 2.2 Consensus size: 39
15320886 GACTTTAAGC
*
15320896 CCGGATATATTTCCAGCACATAGCCTGCGGACCTGAAGT
1 CCGGATATATTTCCAGCACATAGCCTGCGGACCTCAAGT
* * *
15320935 CCGGATATATTTCCCGCATATAGCCTGCGGACTTCAAGT
1 CCGGATATATTTCCAGCACATAGCCTGCGGACCTCAAGT
*
15320974 CCAGATATA
1 CCGGATATA
15320983 ATTTTCAAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 43 1.00
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (39 bp):
CCGGATATATTTCCAGCACATAGCCTGCGGACCTCAAGT
Found at i:15327702 original size:39 final size:39
Alignment explanation
Indices: 15327592--15327715 Score: 176
Period size: 39 Copynumber: 3.2 Consensus size: 39
15327582 CTTTAAGCAT
** * * *
15327592 GGATATATTTCTAGCACATAGCCTGCGGACCTGAAGTCC
1 GGATATATTTCCCGCATATAGCCTGCGGACTTTAAGTCC
15327631 GGATATATTTCCCGCATATAGCCTGCGGACTTTAAGTCC
1 GGATATATTTCCCGCATATAGCCTGCGGACTTTAAGTCC
* *
15327670 GGATATATTTCCCGCATATAGCCTACGAACTTTAAGTCC
1 GGATATATTTCCCGCATATAGCCTGCGGACTTTAAGTCC
*
15327709 AGATATA
1 GGATATA
15327716 ATTTTCAAAT
Statistics
Matches: 77, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 77 1.00
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.29
Consensus pattern (39 bp):
GGATATATTTCCCGCATATAGCCTGCGGACTTTAAGTCC
Found at i:15332343 original size:40 final size:40
Alignment explanation
Indices: 15332288--15332549 Score: 357
Period size: 40 Copynumber: 6.6 Consensus size: 40
15332278 TATTCGGATG
*
15332288 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
15332328 ATAACCGGGCTAAGTCCCGAAGGTATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
15332368 ATAACCGGGCTAAGTCCCAAAGGCATTTGTACGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * * *
15332408 ATATCTGGGCTAACTCCCGAAGGCATTTGTGCAAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
15332448 ATATCCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
15332488 ATAACCGGGTTAAATCCCGAAGGCATTTGAGCGAG-TAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
** *
15332528 ATATTC-GGCTAATTCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
15332550 TACTTGGATT
Statistics
Matches: 197, Mismatches: 24, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
39 16 0.08
40 181 0.92
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.26
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:15336599 original size:40 final size:40
Alignment explanation
Indices: 15336545--15336766 Score: 322
Period size: 40 Copynumber: 5.6 Consensus size: 40
15336535 TATTCGGATG
* *
15336545 ATAACCGGGCTAAGTCCCGAAGGTATTTGTGCGAGTTACG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
15336585 ATAACCGAGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
15336625 ATAACCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
15336665 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * **
15336705 ATAACCGGGCTAAATCCCGAAGGCGTTTAAGCGAG-TAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
* *
15336745 ATATCC-GGCTAATTCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
15336767 TACTTGGTTT
Statistics
Matches: 167, Mismatches: 14, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
39 17 0.10
40 150 0.90
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:15355177 original size:48 final size:48
Alignment explanation
Indices: 15355061--15355471 Score: 473
Period size: 48 Copynumber: 8.6 Consensus size: 48
15355051 TGAGATTCCG
* * * *
15355061 TGTAAGTCCATGTCTGGGACATGGCATCGGC-ATCCGAGA-AGTGTGCCTG
1 TGTAAGACCATGTCTGGGACATGGCATCGACGAT--GATATA-TGTGCCTA
*
15355110 TGTAAGACCATGTCGGGGACATGGCATCGACGATGATATATGTGCCTA
1 TGTAAGACCATGTCTGGGACATGGCATCGACGATGATATATGTGCCTA
* *
15355158 TGTAAGACCATGTTTGGGACATGGCATCGATGATGATATATGTGCCTA
1 TGTAAGACCATGTCTGGGACATGGCATCGACGATGATATATGTGCCTA
* * * *
15355206 TGTAAGACCATGTCTGGGACATGACATCGGCAATGATATATGTGCCTG
1 TGTAAGACCATGTCTGGGACATGGCATCGACGATGATATATGTGCCTA
* * * *
15355254 TGTAAGA-CATGTCTAGGATATGGCATCGGCGATGATATATGTGCCTG
1 TGTAAGACCATGTCTGGGACATGGCATCGACGATGATATATGTGCCTA
*
15355301 TGTAAGACCATGTCTGGGACATGGCAT-TAGCGATGATATATGTGCC-A
1 TGTAAGACCATGTCTGGGACATGGCATCGA-CGATGATATATGTGCCTA
*
15355348 GTGTAAGACCATGTCTAGGACATGGCATC-AGCGATGATATATGTGCC-A
1 -TGTAAGACCATGTCTGGGACATGGCATCGA-CGATGATATATGTGCCTA
* * **
15355396 TTGTAAGACCATGTCTGGGACATGGCATTG--GA-AATTATATGTAGATTCA
1 -TGTAAGACCATGTCTGGGACATGGCATCGACGATGA-TATATGT-GCCT-A
15355445 TGTAAGACCATGTCTGGGACATGGCAT
1 TGTAAGACCATGTCTGGGACATGGCAT
15355472 TGGTACTTTA
Statistics
Matches: 321, Mismatches: 30, Indels: 23
0.86 0.08 0.06
Matches are distributed among these distances:
45 1 0.00
46 9 0.03
47 44 0.14
48 235 0.73
49 30 0.09
50 2 0.01
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (48 bp):
TGTAAGACCATGTCTGGGACATGGCATCGACGATGATATATGTGCCTA
Found at i:15355451 original size:191 final size:191
Alignment explanation
Indices: 15355061--15355471 Score: 532
Period size: 191 Copynumber: 2.1 Consensus size: 191
15355051 TGAGATTCCG
* * *
15355061 TGTAAGTCCATGTCTGGGACATGGCATCGGC-ATCCGAGA-AGTGTGCCTGTGTAAGACCATGTC
1 TGTAAGACCATGTCTAGGACATGGCATCGGCGAT--GATATA-TGTGCCTGTGTAAGACCATGTC
* * * *
15355124 GGGGACATGGCATCGACGATGATATATGTGCCTATGTAAGACCATGTTTGGGACATGGCATCGAT
63 GGGGACATGGCATAGACGATGATATATGTGCCTATGTAAGACCATGTCTAGGACATGGCATCGAC
* * *
15355189 GATGATATATGTGCCTATGTAAGACCATGTCTGGGACATGACATCGGCAATGATATATGTGCCTG
128 GATGATATATGTGCCTATGTAAGACCATGTCTGGGACATGACATCGGAAAT-ATATATGTGACTA
* *
15355254 TGTAAGA-CATGTCTAGGATATGGCATCGGCGATGATATATGTGCCTGTGTAAGACCATGTCTGG
1 TGTAAGACCATGTCTAGGACATGGCATCGGCGATGATATATGTGCCTGTGTAAGACCATGTCGGG
15355318 GACATGGCATTAG-CGATGATATATGTGCC-AGTGTAAGACCATGTCTAGGACATGGCATC-AGC
66 GACATGGCA-TAGACGATGATATATGTGCCTA-TGTAAGACCATGTCTAGGACATGGCATCGA-C
* * *
15355380 GATGATATATGTGCC-ATTGTAAGACCATGTCTGGGACATGGCATTGGAAAT-TATATGTAGATT
128 GATGATATATGTGCCTA-TGTAAGACCATGTCTGGGACATGACATCGGAAATATATATGT-GACT
15355443 CA
191 -A
*
15355445 TGTAAGACCATGTCTGGGACATGGCAT
1 TGTAAGACCATGTCTAGGACATGGCAT
15355472 TGGTACTTTA
Statistics
Matches: 192, Mismatches: 17, Indels: 19
0.84 0.07 0.08
Matches are distributed among these distances:
189 7 0.04
190 5 0.03
191 131 0.68
192 41 0.21
193 8 0.04
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (191 bp):
TGTAAGACCATGTCTAGGACATGGCATCGGCGATGATATATGTGCCTGTGTAAGACCATGTCGGG
GACATGGCATAGACGATGATATATGTGCCTATGTAAGACCATGTCTAGGACATGGCATCGACGAT
GATATATGTGCCTATGTAAGACCATGTCTGGGACATGACATCGGAAATATATATGTGACTA
Found at i:15357436 original size:39 final size:40
Alignment explanation
Indices: 15357333--15357517 Score: 191
Period size: 40 Copynumber: 4.7 Consensus size: 40
15357323 TTGAATGATG
* * *
15357333 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* *
15357372 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
15357413 TCCGGGCTAAG-CCTGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
15357452 TCCGGGTTAAGTCCCGAAGGCAATTGTGCAAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
15357491 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
15357518 AACGAGTAGC
Statistics
Matches: 121, Mismatches: 18, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
39 35 0.29
40 76 0.63
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:15357470 original size:79 final size:81
Alignment explanation
Indices: 15357333--15357517 Score: 209
Period size: 79 Copynumber: 2.3 Consensus size: 81
15357323 TTGAATGATG
* *
15357333 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
*
15357397 TGTGCGAGATACTA-A
66 TGTGCAAGATACTATA
* * * * **
15357412 TTCCGGGCTAAG-CCTGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
15357474 ATTGTGCAAGTTACTATA
64 ATTGTGCAAGATACTATA
* *
15357492 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
15357518 AACGAGTAGC
Statistics
Matches: 88, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
78 1 0.01
79 55 0.62
80 32 0.36
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCAAGATACTATA
Found at i:15357539 original size:79 final size:79
Alignment explanation
Indices: 15357386--15357550 Score: 183
Period size: 79 Copynumber: 2.1 Consensus size: 79
15357376 GGACTAAGAT
* * * * **
15357386 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCTGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCAAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
15357451 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
15357465 CCGAAGGCAATTGTGCAAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCAAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
15357528 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
15357544 CCGAAGG
1 CCGAAGG
15357551 TACGTGATTT
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
78 2 0.03
79 46 0.64
80 24 0.33
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCAAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:15364044 original size:40 final size:39
Alignment explanation
Indices: 15363960--15364144 Score: 203
Period size: 40 Copynumber: 4.6 Consensus size: 39
15363950 TTGAATGATG
* * * *
15363960 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
15364000 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
*
15364040 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
* *
15364079 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
*
15364120 -CCGGGCTATGTCCTGAAGGCATTTG
1 TCCGGGCTAAGTCC-GAAGGCATTTG
15364145 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
39 37 0.30
40 76 0.62
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:15364096 original size:79 final size:81
Alignment explanation
Indices: 15363960--15364144 Score: 218
Period size: 79 Copynumber: 2.3 Consensus size: 81
15363950 TTGAATGATG
* *
15363960 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
15364024 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
15364039 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
15364101 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* * *
15364119 ACCGGGCTATGTCCTGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
15364145 AACGAGTAGC
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 32 0.36
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:15364166 original size:79 final size:79
Alignment explanation
Indices: 15364013--15364177 Score: 192
Period size: 79 Copynumber: 2.1 Consensus size: 79
15364003 GGACTAAGAT
* * **
15364013 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
15364078 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
15364092 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCTGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
15364155 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
15364171 CCGAAGG
1 CCGAAGG
15364178 TACGTGATTT
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 24 0.33
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:15367265 original size:65 final size:65
Alignment explanation
Indices: 15367153--15367281 Score: 204
Period size: 65 Copynumber: 2.0 Consensus size: 65
15367143 CCATTAAAAA
* * * * * *
15367153 TCTGAATCTCTCTTAGACTGACCATCAATCTGTAGGTGAAATGCAGTACTAAAAATGCAACCTCG
1 TCTGAATCTCTCTCAAACTAACCATCAATCTATAGGTAAAATACAGTACTAAAAATGCAACCTCG
15367218 TCTGAATCTCTCTCAAACTAACCATCAATCTATAGGTAAAATACAGTACTAAAAATGCAACCTC
1 TCTGAATCTCTCTCAAACTAACCATCAATCTATAGGTAAAATACAGTACTAAAAATGCAACCTC
15367282 ATACTCAGAG
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
65 58 1.00
ACGTcount: A:0.36, C:0.24, G:0.12, T:0.27
Consensus pattern (65 bp):
TCTGAATCTCTCTCAAACTAACCATCAATCTATAGGTAAAATACAGTACTAAAAATGCAACCTCG
Found at i:15382557 original size:51 final size:49
Alignment explanation
Indices: 15382491--15382666 Score: 187
Period size: 50 Copynumber: 3.5 Consensus size: 49
15382481 TGAGGTCGCA
*
15382491 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCTGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCT--AAACTGTGATCACG
* *
15382542 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-TTATA-TGGTGAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCTAAACT-GTGA--TCACG
* * * * * * *
15382592 TGTGTTGTACTAAGTGCAAGCTACTACATGTACC-AGACTGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCTAAACTG-TGATCACG
15382641 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
15382667 TGCGTACTAG
Statistics
Matches: 106, Mismatches: 13, Indels: 14
0.80 0.10 0.11
Matches are distributed among these distances:
47 1 0.01
48 6 0.06
49 27 0.25
50 38 0.36
51 34 0.32
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.31
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCTAAACTGTGATCACG
Found at i:15385988 original size:13 final size:13
Alignment explanation
Indices: 15385970--15386002 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
15385960 ACAGTTAAAT
15385970 TTTCACACGAGAC
1 TTTCACACGAGAC
15385983 TTTCACACGAGAC
1 TTTCACACGAGAC
15385996 TTTCACA
1 TTTCACA
15386003 AATGTCAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.30, C:0.30, G:0.12, T:0.27
Consensus pattern (13 bp):
TTTCACACGAGAC
Found at i:15399149 original size:39 final size:39
Alignment explanation
Indices: 15399098--15399321 Score: 283
Period size: 39 Copynumber: 5.8 Consensus size: 39
15399088 TGAGGTCCGC
*
15399098 AGGC-TTTATGCTGGTATTATATCTGGGCTAAGTCCCGA
1 AGGCATTTATGCTGGTATTATATCCGGGCTAAGTCCCGA
* * *
15399136 AGGCATTTGTGCTGGTGTTATATCCGGGCTAAGTCCAGA
1 AGGCATTTATGCTGGTATTATATCCGGGCTAAGTCCCGA
* *
15399175 AGGCATTTGTGCTGGTGTTATATCCGGGCTAAGTCCCGA
1 AGGCATTTATGCTGGTATTATATCCGGGCTAAGTCCCGA
* * * *
15399214 AGGCATTTGTACTGATGTTATAT-CGAGGCTAAGTCCCGA
1 AGGCATTTATGCTGGTATTATATCCG-GGCTAAGTCCCGA
* * *
15399253 AGGCATTTATGCTGGTATTATATCTGGGCTAAAGTCTCGC
1 AGGCATTTATGCTGGTATTATATCCGGGCT-AAGTCCCGA
*
15399293 AGGC-TTTATGCTTGTATTATATCCGGGCT
1 AGGCATTTATGCTGGTATTATATCCGGGCT
15399322 TAAAGTCTCG
Statistics
Matches: 166, Mismatches: 16, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
38 6 0.04
39 148 0.89
40 12 0.07
ACGTcount: A:0.21, C:0.18, G:0.27, T:0.33
Consensus pattern (39 bp):
AGGCATTTATGCTGGTATTATATCCGGGCTAAGTCCCGA
Found at i:15399487 original size:18 final size:18
Alignment explanation
Indices: 15399464--15399499 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
15399454 AAGTTGGTCA
15399464 GGTATGTATTATATACTT
1 GGTATGTATTATATACTT
15399482 GGTATGTATTATATACTT
1 GGTATGTATTATATACTT
15399500 TTATATGTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.06, G:0.17, T:0.50
Consensus pattern (18 bp):
GGTATGTATTATATACTT
Found at i:15404676 original size:39 final size:39
Alignment explanation
Indices: 15404625--15404819 Score: 286
Period size: 39 Copynumber: 5.0 Consensus size: 39
15404615 TGAGGTCCGC
15404625 AGGC-TTTATGCTGGTATTATATCCGGGCTAAGTCCCGA
1 AGGCATTTATGCTGGTATTATATCCGGGCTAAGTCCCGA
* * *
15404663 AGGCATTTGTGCTGGTGTTATATACGGGCTAAGTCCCGA
1 AGGCATTTATGCTGGTATTATATCCGGGCTAAGTCCCGA
* *
15404702 AGGCATTTGTGCTGGTGTTATATCCGGGCTAAGTCCCGA
1 AGGCATTTATGCTGGTATTATATCCGGGCTAAGTCCCGA
*
15404741 AGGCATTTATGCTGGTATTATATCCGGGCTAAAGTCCCGC
1 AGGCATTTATGCTGGTATTATATCCGGGCT-AAGTCCCGA
*
15404781 AGGC-TTTATGCTGGCATTATATCCGGGCCTAAAGTCCCG
1 AGGCATTTATGCTGGTATTATATCCGGG-CT-AAGTCCCG
15404820 CATGCTTTCT
Statistics
Matches: 146, Mismatches: 8, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
38 4 0.03
39 119 0.82
40 23 0.16
ACGTcount: A:0.21, C:0.22, G:0.28, T:0.30
Consensus pattern (39 bp):
AGGCATTTATGCTGGTATTATATCCGGGCTAAGTCCCGA
Found at i:15408492 original size:28 final size:28
Alignment explanation
Indices: 15408460--15408529 Score: 99
Period size: 28 Copynumber: 2.5 Consensus size: 28
15408450 AATGAGATTG
15408460 GCACTAAGTGTGCGAGTTT-AAT-TGTATA
1 GCACTAAGTGTGCGAGTTTGAATAT-TA-A
*
15408488 GCACTAAGTGTGCGAGTTTGACTATTAA
1 GCACTAAGTGTGCGAGTTTGAATATTAA
15408516 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
15408530 GACTTACTAT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
28 34 0.87
29 4 0.10
30 1 0.03
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.31
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGAATATTAA
Found at i:15416295 original size:28 final size:28
Alignment explanation
Indices: 15416263--15416332 Score: 99
Period size: 28 Copynumber: 2.5 Consensus size: 28
15416253 AATGAGATTG
15416263 GCACTAAGTGTGCGAGTTT-AAT-TGTATA
1 GCACTAAGTGTGCGAGTTTGAATAT-TA-A
*
15416291 GCACTAAGTGTGCGAGTTTGACTATTAA
1 GCACTAAGTGTGCGAGTTTGAATATTAA
15416319 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
15416333 GACTTACTAT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
28 34 0.87
29 4 0.10
30 1 0.03
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.31
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGAATATTAA
Found at i:15417757 original size:16 final size:16
Alignment explanation
Indices: 15417736--15417776 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
15417726 ACGTTTGGTT
15417736 GGCTGTAATGGAATAG
1 GGCTGTAATGGAATAG
*
15417752 GGCTGTAATTGAATAG
1 GGCTGTAATGGAATAG
*
15417768 AGCTGTAAT
1 GGCTGTAAT
15417777 AAGTAATTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.32, C:0.07, G:0.32, T:0.29
Consensus pattern (16 bp):
GGCTGTAATGGAATAG
Found at i:15420910 original size:47 final size:47
Alignment explanation
Indices: 15420856--15421281 Score: 672
Period size: 47 Copynumber: 9.1 Consensus size: 47
15420846 GATTTTATGA
** * * * * *
15420856 GATGAATGTGAATGTGTATATATGAGATAAGGCCTAATGGTCAATGT
1 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
* * **
15420903 GATGAATGTGAACATGCATATGTGTGATAAAGCCTAATGGAAAATGT
1 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
*
15420950 GATGAATGTGAACATGCATATGTGTGATAAGGCCGGATGGCCAATGT
1 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
15420997 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
15421044 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
*
15421091 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
* * *
15421138 GATGAATGTGAACATGTATATATGTGACAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
15421185 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
** **
15421232 GATGAATGTGAACATGCATATGTGTGATAAGGTAGAATGGATAATGT
1 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
15421279 GAT
1 GAT
15421282 AAACGTGGAA
Statistics
Matches: 355, Mismatches: 24, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 355 1.00
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.27
Consensus pattern (47 bp):
GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
Found at i:15421046 original size:22 final size:22
Alignment explanation
Indices: 15421019--15421140 Score: 65
Period size: 22 Copynumber: 5.3 Consensus size: 22
15421009 CATGCATATG
15421019 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* *
15421041 TGTGATGAATG-TGAACAT-G-CATA
1 TGTGAT-AAGGCCG-A-ATGGCCA-A
15421064 TGTGTGATAAGGCCGAATGGCCAA
1 --TGTGATAAGGCCGAATGGCCAA
* * *
15421088 TGTGATGAATG-TGAACAT-GCATATA
1 TGTGAT-AAGGCCG-A-ATGGC-CA-A
15421113 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
15421135 TGTGAT
1 TGTGAT
15421141 GAATGTGAAC
Statistics
Matches: 74, Mismatches: 10, Indels: 32
0.64 0.09 0.28
Matches are distributed among these distances:
22 23 0.31
23 17 0.23
24 17 0.23
25 17 0.23
ACGTcount: A:0.32, C:0.13, G:0.30, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:15428260 original size:25 final size:25
Alignment explanation
Indices: 15428226--15428276 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
15428216 CCCCTAGGGT
15428226 TAATTTTGTCTGAAAAGCATGTTGA
1 TAATTTTGTCTGAAAAGCATGTTGA
15428251 TAATTTTGTCTGAAAAGCATGTTGA
1 TAATTTTGTCTGAAAAGCATGTTGA
15428276 T
1 T
15428277 TTAAATCTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (25 bp):
TAATTTTGTCTGAAAAGCATGTTGA
Found at i:15428394 original size:27 final size:27
Alignment explanation
Indices: 15428356--15428440 Score: 109
Period size: 27 Copynumber: 3.1 Consensus size: 27
15428346 AAGCGTCCTA
15428356 GTGGCTATGCCACAATTATCTGATCTG
1 GTGGCTATGCCACAATTATCTGATCTG
* *
15428383 GTGGCTCTGCCACATATT-TCTGTTCTG
1 GTGGCTATGCCACA-ATTATCTGATCTG
* *
15428410 GTGGCTTTGCCACGATTATCTGTATCTG
1 GTGGCTATGCCACAATTATCTG-ATCTG
15428438 GTG
1 GTG
15428441 ACTGTCACAT
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
26 3 0.06
27 37 0.74
28 10 0.20
ACGTcount: A:0.15, C:0.22, G:0.25, T:0.38
Consensus pattern (27 bp):
GTGGCTATGCCACAATTATCTGATCTG
Found at i:15431321 original size:15 final size:16
Alignment explanation
Indices: 15431296--15431325 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
15431286 TTCAAGTTAA
15431296 GATGTTGAAGGAAGAT
1 GATGTTGAAGGAAGAT
15431312 GATG-TGAAGGAAGA
1 GATGTTGAAGGAAGA
15431326 AGAAGCAAAA
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:0.40, C:0.00, G:0.40, T:0.20
Consensus pattern (16 bp):
GATGTTGAAGGAAGAT
Found at i:15435431 original size:57 final size:57
Alignment explanation
Indices: 15435325--15435460 Score: 184
Period size: 57 Copynumber: 2.4 Consensus size: 57
15435315 ATGATTAGGG
15435325 TTTAG-CTAGGACTGGTAATCCTAATCGAGCCCCTATGAGAATACATTATATAATGGA
1 TTTAGCCTA-GACTGGTAATCCTAATCGAGCCCCTATGAGAATACATTATATAATGGA
* * * * * * **
15435382 TTTGGCTTTGACTAGTAATCCTAGTCGAGCCCCTCTGAGAATATGTTATATAATGGA
1 TTTAGCCTAGACTGGTAATCCTAATCGAGCCCCTATGAGAATACATTATATAATGGA
15435439 TTTAGCCTAGACTGGTAATCCT
1 TTTAGCCTAGACTGGTAATCCT
15435461 GCTATACAAT
Statistics
Matches: 66, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
57 65 0.98
58 1 0.02
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (57 bp):
TTTAGCCTAGACTGGTAATCCTAATCGAGCCCCTATGAGAATACATTATATAATGGA
Found at i:15436341 original size:15 final size:16
Alignment explanation
Indices: 15436311--15436343 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
15436301 GGCTTCATTT
15436311 TGTCTACACGGGTGTG
1 TGTCTACACGGGTGTG
*
15436327 TGTCTAGAC-GGTGTG
1 TGTCTACACGGGTGTG
15436342 TG
1 TG
15436344 ACACAAGGCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.12, C:0.15, G:0.39, T:0.33
Consensus pattern (16 bp):
TGTCTACACGGGTGTG
Found at i:15436552 original size:74 final size:74
Alignment explanation
Indices: 15436441--15436580 Score: 235
Period size: 74 Copynumber: 1.9 Consensus size: 74
15436431 ACGGGCAGAG
* * *
15436441 ACACGGGCGTATGTCTTGGCTGTGTGAAACCTACACCTAATTTCAAATTGAATTAATCCACCACA
1 ACACGGGCATATGTCTTGGCCGTGTGAAACCTACACCTAATTTCAAATTGAATTAATCAACCACA
15436506 CGGCTTAGA
66 CGGCTTAGA
* *
15436515 ACACGGGCATATGTCTTGGCCGTGTGAAACCTGCACCTAATTTCAAATTGAATTAATTAACCACA
1 ACACGGGCATATGTCTTGGCCGTGTGAAACCTACACCTAATTTCAAATTGAATTAATCAACCACA
15436580 C
66 C
15436581 AGCCTAGCAC
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
74 61 1.00
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (74 bp):
ACACGGGCATATGTCTTGGCCGTGTGAAACCTACACCTAATTTCAAATTGAATTAATCAACCACA
CGGCTTAGA
Found at i:15436609 original size:74 final size:74
Alignment explanation
Indices: 15436441--15436609 Score: 203
Period size: 74 Copynumber: 2.3 Consensus size: 74
15436431 ACGGGCAGAG
* * * * *
15436441 ACACGGGCGTATGTCTTGGCTGTGTGAAACCTACACCTAATTTCAAATTGAATTAATCCACCACA
1 ACACGGGCATATGGCATGGCCGTGTGAAACCTACACCTAATTTCAAATTGAATTAATCAACCACA
* *
15436506 CGGCTTAGA
66 CAGCCTAGA
* * * *
15436515 ACACGGGCATATGTCTTGGCCGTGTGAAACCTGCACCTAATTTCAAATTGAATTAATTAACCACA
1 ACACGGGCATATGGCATGGCCGTGTGAAACCTACACCTAATTTCAAATTGAATTAATCAACCACA
*
15436580 CAGCCTAGC
66 CAGCCTAGA
* * *
15436589 ACATGGGCGTGTGGCATGGCC
1 ACACGGGCATATGGCATGGCC
15436610 TTGTATGCAA
Statistics
Matches: 82, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
74 82 1.00
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.25
Consensus pattern (74 bp):
ACACGGGCATATGGCATGGCCGTGTGAAACCTACACCTAATTTCAAATTGAATTAATCAACCACA
CAGCCTAGA
Found at i:15441876 original size:29 final size:29
Alignment explanation
Indices: 15441842--15441901 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
15441832 TGATAAGGCC
15441842 TAATGGCCGATGTGATAAATGTGAAAGTG
1 TAATGGCCGATGTGATAAATGTGAAAGTG
*
15441871 TAATGGCCGATGTGATGAATGTGAAAGTG
1 TAATGGCCGATGTGATAAATGTGAAAGTG
15441900 TA
1 TA
15441902 TATATGTGAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.33, C:0.07, G:0.32, T:0.28
Consensus pattern (29 bp):
TAATGGCCGATGTGATAAATGTGAAAGTG
Found at i:15441886 original size:76 final size:76
Alignment explanation
Indices: 15441804--15441948 Score: 281
Period size: 76 Copynumber: 1.9 Consensus size: 76
15441794 TTAGGATTCT
15441804 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATAAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATAAATGTGAAAG
15441869 TGTAATGGCCG
66 TGTAATGGCCG
*
15441880 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATAAATGTGAAAG
15441945 TGTA
66 TGTA
15441949 TATATGTGAC
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 68 1.00
ACGTcount: A:0.33, C:0.07, G:0.30, T:0.30
Consensus pattern (76 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATAAATGTGAAAG
TGTAATGGCCG
Found at i:15441924 original size:47 final size:47
Alignment explanation
Indices: 15441871--15442008 Score: 195
Period size: 47 Copynumber: 2.9 Consensus size: 47
15441861 TGTGAAAGTG
15441871 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* *
15441918 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* * * ** * *
15441965 GAGTGGCCAACATGATGGATGTGAAAGTGTATAAATGTGATAAG
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
15442009 TCCCGAAGGG
Statistics
Matches: 80, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 80 1.00
ACGTcount: A:0.33, C:0.09, G:0.31, T:0.28
Consensus pattern (47 bp):
TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
Found at i:15442183 original size:37 final size:37
Alignment explanation
Indices: 15442127--15442205 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
15442117 CCGAGCTCTA
* * *
15442127 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
15442164 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
15442201 AAGAC
1 AAGAC
15442206 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:15448741 original size:16 final size:16
Alignment explanation
Indices: 15448720--15448750 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
15448710 GTAACGCCCT
15448720 AAAAATATCGAAATCC
1 AAAAATATCGAAATCC
*
15448736 AAAAATCTCGAAATC
1 AAAAATATCGAAATC
15448751 TTAAATTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.19, G:0.06, T:0.19
Consensus pattern (16 bp):
AAAAATATCGAAATCC
Found at i:15458402 original size:50 final size:50
Alignment explanation
Indices: 15458344--15458445 Score: 195
Period size: 50 Copynumber: 2.0 Consensus size: 50
15458334 CTTTTCACCA
15458344 TTAATTCATCCAAGGACAGTTGACATTTAACAAGTAAAAGAAAATGGAAC
1 TTAATTCATCCAAGGACAGTTGACATTTAACAAGTAAAAGAAAATGGAAC
*
15458394 TTAATTCATCCAAGGACAGTTGACATTTAACAAGTAACAGAAAATGGAAC
1 TTAATTCATCCAAGGACAGTTGACATTTAACAAGTAAAAGAAAATGGAAC
15458444 TT
1 TT
15458446 TACTTTACTT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.44, C:0.15, G:0.16, T:0.25
Consensus pattern (50 bp):
TTAATTCATCCAAGGACAGTTGACATTTAACAAGTAAAAGAAAATGGAAC
Found at i:15463400 original size:11 final size:11
Alignment explanation
Indices: 15463386--15463410 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
15463376 TTCCATAGAC
15463386 AATAAAATAAT
1 AATAAAATAAT
15463397 AATAAAATAAT
1 AATAAAATAAT
15463408 AAT
1 AAT
15463411 TTACTCATCA
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:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
AATAAAATAAT
Found at i:15464101 original size:45 final size:45
Alignment explanation
Indices: 15464004--15464262 Score: 252
Period size: 45 Copynumber: 5.8 Consensus size: 45
15463994 TGGAATTGAA
* ** * * * *
15464004 TAAGACCATAGGTGAAAGAAATTATGGCATTAT-ATCAGAAATAAG
1 TAAGACCATAGCTGAAAGACGTTATGGCATCATGATTA-TAATGAG
* * *
15464049 TACGACCATAGTTGAAAGACGTTATGGCATAATGATTATAATGAG
1 TAAGACCATAGCTGAAAGACGTTATGGCATCATGATTATAATGAG
* * ** *
15464094 TAAGACCATAGCTAAAAGACGTTAGGGCATCACAATTCTAATGAG
1 TAAGACCATAGCTGAAAGACGTTATGGCATCATGATTATAATGAG
* * *
15464139 TAATACCATAGCTGAAAGACGTTATGGCATCATGATTGTAACGAG
1 TAAGACCATAGCTGAAAGACGTTATGGCATCATGATTATAATGAG
* ** * **
15464184 TAAGACCATAGCTAAAAGACGTTATGGCATCACAATTCTAACAAG
1 TAAGACCATAGCTGAAAGACGTTATGGCATCATGATTATAATGAG
* * *
15464229 TAAGACCATA-ATGAAAGATGCTATGGCATCATGA
1 TAAGACCATAGCTGAAAGACGTTATGGCATCATGA
15464263 GTCAGATGAA
Statistics
Matches: 178, Mismatches: 35, Indels: 3
0.82 0.16 0.01
Matches are distributed among these distances:
44 18 0.10
45 157 0.88
46 3 0.02
ACGTcount: A:0.41, C:0.15, G:0.20, T:0.25
Consensus pattern (45 bp):
TAAGACCATAGCTGAAAGACGTTATGGCATCATGATTATAATGAG
Found at i:15464104 original size:90 final size:90
Alignment explanation
Indices: 15464042--15464262 Score: 300
Period size: 90 Copynumber: 2.5 Consensus size: 90
15464032 ATTATATCAG
* * *
15464042 AAATAAGTACGACCATAGTTGAAAGACGTTATGGCATAATGATTATAATGAGTAAGACCATAGCT
1 AAATAAGTAAGACCATAGCTGAAAGACGTTATGGCATAATGATTATAACGAGTAAGACCATAGCT
*
15464107 AAAAGACGTTAGGGCATCACAATTC
66 AAAAGACGTTATGGCATCACAATTC
* * * * *
15464132 TAATGAGTAATACCATAGCTGAAAGACGTTATGGCATCATGATTGTAACGAGTAAGACCATAGCT
1 AAATAAGTAAGACCATAGCTGAAAGACGTTATGGCATAATGATTATAACGAGTAAGACCATAGCT
15464197 AAAAGACGTTATGGCATCACAATTC
66 AAAAGACGTTATGGCATCACAATTC
* * * * * *
15464222 TAACAAGTAAGACCATA-ATGAAAGATGCTATGGCATCATGA
1 AAATAAGTAAGACCATAGCTGAAAGACGTTATGGCATAATGA
15464263 GTCAGATGAA
Statistics
Matches: 116, Mismatches: 15, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
89 21 0.18
90 95 0.82
ACGTcount: A:0.40, C:0.15, G:0.20, T:0.24
Consensus pattern (90 bp):
AAATAAGTAAGACCATAGCTGAAAGACGTTATGGCATAATGATTATAACGAGTAAGACCATAGCT
AAAAGACGTTATGGCATCACAATTC
Found at i:15464299 original size:89 final size:89
Alignment explanation
Indices: 15464046--15464301 Score: 255
Period size: 90 Copynumber: 2.9 Consensus size: 89
15464036 TATCAGAAAT
* * * * * * *
15464046 AAGTACGACCATAGTTGAAAGACGTTATGGCATAATGATTATAATGAGTAAGACCATAGCTAAAA
1 AAGTAAGACCATAGATGAAAGACGCTATGGCATCATGA-TGTAACGAATAAGACCATAGCTAAAA
** * *
15464111 GACGTTAGGGCATCACAATTCTAAT
65 GACACTATGGCATCACAATTCTAAC
* * * * *
15464136 GAGTAATACCATAGCTGAAAGACGTTATGGCATCATGATTGTAACGAGTAAGACCATAGCTAAAA
1 AAGTAAGACCATAGATGAAAGACGCTATGGCATCATGA-TGTAACGAATAAGACCATAGCTAAAA
**
15464201 GACGTTATGGCATCACAATTCTAAC
65 GACACTATGGCATCACAATTCTAAC
* * * * *
15464226 AAGTAAGACCATA-ATGAAAGATGCTATGGCATCATGA-GTCAGATGAATAAGACCATGGTTGAA
1 AAGTAAGACCATAGATGAAAGACGCTATGGCATCATGATGT-A-ACGAATAAGACCATAGCTAAA
15464289 AGACACTATGGCA
64 AGACACTATGGCA
15464302 ACACGACGTA
Statistics
Matches: 143, Mismatches: 21, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
87 2 0.01
88 1 0.01
89 48 0.34
90 92 0.64
ACGTcount: A:0.39, C:0.16, G:0.21, T:0.24
Consensus pattern (89 bp):
AAGTAAGACCATAGATGAAAGACGCTATGGCATCATGATGTAACGAATAAGACCATAGCTAAAAG
ACACTATGGCATCACAATTCTAAC
Found at i:15464528 original size:19 final size:19
Alignment explanation
Indices: 15464504--15464568 Score: 67
Period size: 21 Copynumber: 3.2 Consensus size: 19
15464494 ATGTTAATGC
15464504 CATATGTGATTATATGTTT
1 CATATGTGATTATATGTTT
* *
15464523 CATATGTCTATAAATATGTTT
1 CATATGT-GAT-TATATGTTT
*
15464544 GCCTTATGTGATTATATGTTT
1 --CATATGTGATTATATGTTT
15464565 CATA
1 CATA
15464569 GGTCTATAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
19 10 0.28
20 2 0.06
21 16 0.44
22 2 0.06
23 6 0.17
ACGTcount: A:0.28, C:0.09, G:0.14, T:0.49
Consensus pattern (19 bp):
CATATGTGATTATATGTTT
Found at i:15464541 original size:21 final size:21
Alignment explanation
Indices: 15464515--15464584 Score: 72
Period size: 21 Copynumber: 3.3 Consensus size: 21
15464505 ATATGTGATT
15464515 ATATGTTTCATATGTCTATAA
1 ATATGTTTCATATGTCTATAA
* * *
15464536 ATATGTTTGCCTTATGT-GAT-T
1 ATATGTTT--CATATGTCTATAA
*
15464557 ATATGTTTCATAGGTCTATAA
1 ATATGTTTCATATGTCTATAA
15464578 ATATGTT
1 ATATGTT
15464585 AACTACTGAT
Statistics
Matches: 38, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
19 5 0.13
20 2 0.05
21 23 0.61
22 2 0.05
23 6 0.16
ACGTcount: A:0.29, C:0.09, G:0.14, T:0.49
Consensus pattern (21 bp):
ATATGTTTCATATGTCTATAA
Found at i:15464555 original size:42 final size:42
Alignment explanation
Indices: 15464501--15464584 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
15464491 TGAATGTTAA
*
15464501 TGCCATATGTGATTATATGTTTCATATGTCTATAAATATGTT
1 TGCCATATGTGATTATATGTTTCATAGGTCTATAAATATGTT
*
15464543 TGCCTTATGTGATTATATGTTTCATAGGTCTATAAATATGTT
1 TGCCATATGTGATTATATGTTTCATAGGTCTATAAATATGTT
15464585 AACTACTGAT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.27, C:0.10, G:0.15, T:0.48
Consensus pattern (42 bp):
TGCCATATGTGATTATATGTTTCATAGGTCTATAAATATGTT
Found at i:15469484 original size:50 final size:51
Alignment explanation
Indices: 15469389--15469491 Score: 138
Period size: 50 Copynumber: 2.0 Consensus size: 51
15469379 GTTCAACGGG
* *
15469389 CATGAAAAGGAAAGGAATGGTAAGTGTTCAAATGAACTATATCATG-TAAT
1 CATGAAAAGGAAAGAAATGGTAAGTCTTCAAATGAACTATATCATGTTAAT
** *
15469439 CATGAAAAGGATTGAAATGGTAAG-CTTCAAATGAAGTATACTCATGTTAAT
1 CATGAAAAGGAAAGAAATGGTAAGTCTTCAAATGAACTATA-TCATGTTAAT
15469490 CA
1 CA
15469492 AAATGATGAA
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
49 14 0.30
50 26 0.57
51 6 0.13
ACGTcount: A:0.43, C:0.10, G:0.20, T:0.27
Consensus pattern (51 bp):
CATGAAAAGGAAAGAAATGGTAAGTCTTCAAATGAACTATATCATGTTAAT
Found at i:15481350 original size:26 final size:26
Alignment explanation
Indices: 15481296--15481378 Score: 87
Period size: 26 Copynumber: 3.2 Consensus size: 26
15481286 GGTTGTTAAG
* * * *
15481296 ACCCCGATTTGTATAATTATCAAAAT
1 ACCCTGATTTGTAAAATTACCGAAAT
*
15481322 ACCCTGATTTGTAAAATTACCGAATT
1 ACCCTGATTTGTAAAATTACCGAAAT
*
15481348 ACCCTTG-TAGTGTAAAATTACCGAAAT
1 ACCC-TGAT-TTGTAAAATTACCGAAAT
15481375 ACCC
1 ACCC
15481379 ATATAGGGTA
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
26 26 0.54
27 22 0.46
ACGTcount: A:0.36, C:0.22, G:0.11, T:0.31
Consensus pattern (26 bp):
ACCCTGATTTGTAAAATTACCGAAAT
Found at i:15481366 original size:27 final size:27
Alignment explanation
Indices: 15481331--15481392 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
15481321 TACCCTGATT
* * *
15481331 TGTAAAATTACCGAATTACCCTTGTAG
1 TGTAAAATTACCGAAATACCCATATAG
15481358 TGTAAAATTACCGAAATACCCATATAG
1 TGTAAAATTACCGAAATACCCATATAG
*
15481385 GGTAAAAT
1 TGTAAAAT
15481393 GACTATTTTG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.40, C:0.16, G:0.15, T:0.29
Consensus pattern (27 bp):
TGTAAAATTACCGAAATACCCATATAG
Found at i:15482844 original size:27 final size:27
Alignment explanation
Indices: 15482814--15482991 Score: 91
Period size: 27 Copynumber: 6.6 Consensus size: 27
15482804 ATATTGAGCC
* * *
15482814 CGCACACTCAGTGCTA-TACAATCAACT
1 CGCACACTTAGTGCTACGA-AATCAAAT
*
15482841 CGCACACTTAGTGCCACGAAATCAAAT
1 CGCACACTTAGTGCTACGAAATCAAAT
* * *
15482868 CGCACACTTAGTGCTAC-ATAGTTAGACT
1 CGCACACTTAGTGCTACGA-AATCA-AAT
** *
15482896 CGCACACTTAGTGC--CGCATGGTCAATT
1 CGCACACTTAGTGCTACG-A-AATCAAAT
* **
15482923 CGCACACTTAGTGC-ATC-ATATTCATTT
1 CGCACACTTAGTGCTA-CGA-AATCAAAT
* * *
15482950 CGCACACTTAGTGCAAC-ATAGTCGAAT
1 CGCACACTTAGTGCTACGA-AATCAAAT
15482977 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
15482992 GTACAATTTA
Statistics
Matches: 124, Mismatches: 19, Indels: 16
0.78 0.12 0.10
Matches are distributed among these distances:
26 2 0.02
27 98 0.79
28 23 0.19
29 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACGAAATCAAAT
Found at i:15482907 original size:55 final size:55
Alignment explanation
Indices: 15482814--15482991 Score: 197
Period size: 54 Copynumber: 3.3 Consensus size: 55
15482804 ATATTGAGCC
* *
15482814 CGCACACTCAGTGCTATACA-A-TCAACTCGCACACTTAGTGCCACGA-AATCAAAT
1 CGCACACTTAGTGCTAT-CATATTCAACTCGCACACTTAGTGCCAC-ATAGTCAAAT
* * *
15482868 CGCACACTTAGTGCTA-CATAGTT-AGACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTATCATA-TTCA-ACTCGCACACTTAGTGCCACATAGTCAAAT
** * *
15482923 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
15482977 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
15482992 GTACAATTTA
Statistics
Matches: 104, Mismatches: 12, Indels: 15
0.79 0.09 0.11
Matches are distributed among these distances:
52 2 0.02
53 1 0.01
54 57 0.55
55 44 0.42
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
Found at i:15486196 original size:26 final size:25
Alignment explanation
Indices: 15486139--15486197 Score: 70
Period size: 26 Copynumber: 2.4 Consensus size: 25
15486129 GCTTACGAAT
15486139 TGGCATG-ATTTGGTATAGATTATA
1 TGGCATGAATTTGGTATAGATTATA
*
15486163 -AGCATGAATTTGGTTGATA-ATTATA
1 TGGCATGAATTTGG-T-ATAGATTATA
15486188 TGGCATGAAT
1 TGGCATGAAT
15486198 GGTGTATGCT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
23 5 0.17
24 6 0.21
25 7 0.24
26 11 0.38
ACGTcount: A:0.32, C:0.05, G:0.24, T:0.39
Consensus pattern (25 bp):
TGGCATGAATTTGGTATAGATTATA
Found at i:15490347 original size:33 final size:33
Alignment explanation
Indices: 15490309--15490371 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
15490299 TACAGTAATG
* *
15490309 GTCTAGGCCTAAGCCCTATTCATTAACAGTACA
1 GTCTAGGCCTAAGCCCTATGCAGTAACAGTACA
15490342 GTCTAGGCCTAAGCCCTATGCAGTAACAGT
1 GTCTAGGCCTAAGCCCTATGCAGTAACAGT
15490372 GTGGGCCTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (33 bp):
GTCTAGGCCTAAGCCCTATGCAGTAACAGTACA
Found at i:15495453 original size:48 final size:48
Alignment explanation
Indices: 15495312--15495731 Score: 391
Period size: 48 Copynumber: 8.7 Consensus size: 48
15495302 ATGCCAATGA
* * * *
15495312 CATGTCCCAGACATGGTCTTACACTGGCTTTCATAT-ATCGGTGCCGATGC
1 CATGTCCCAAACATGGTCTTACACTAGCTCTCATATCA--AG-GCCGATGC
* *
15495362 CATGTTCCAAACAT-GTCTTACACTAGC-C-CATAAGTCAAGGCCGACGC
1 CATGTCCCAAACATGGTCTTACACTAGCTCTCAT-A-TCAAGGCCGATGC
* * *
15495409 CATGTCCCAGACATGGTCTTACACTAGCTCTCATCTCAATGCCGATGC
1 CATGTCCCAAACATGGTCTTACACTAGCTCTCATATCAAGGCCGATGC
* * * *
15495457 CATAGT-CAAAACATGGTCTTACACTAGCTCACATATCGAGGTCGATGC
1 CAT-GTCCCAAACATGGTCTTACACTAGCTCTCATATCAAGGCCGATGC
* * * * * *
15495505 CATGTCCCAGACATGGTCTTACACTAGCTCTCATCTTAATGTCGATTC
1 CATGTCCCAAACATGGTCTTACACTAGCTCTCATATCAAGGCCGATGC
* * * * * * * * *
15495553 CATATTCTAAACATGGCCTTACATTGGCTCACATATCGAGGCTGATGC
1 CATGTCCCAAACATGGTCTTACACTAGCTCTCATATCAAGGCCGATGC
* * * * *
15495601 CATGTCCCATACATGGTCTTACACTAGCTCTCATCTCAATGCCAATGT
1 CATGTCCCAAACATGGTCTTACACTAGCTCTCATATCAAGGCCGATGC
* * * *
15495649 CATGACCCAAACATGGTCTTACACTAGCTCACATATCGAGGCTGATGC
1 CATGTCCCAAACATGGTCTTACACTAGCTCTCATATCAAGGCCGATGC
* * *
15495697 CATGTCCCAGACATGGTCTTACACTACCTCCCATA
1 CATGTCCCAAACATGGTCTTACACTAGCTCTCATA
15495732 ACCCTAGTAT
Statistics
Matches: 294, Mismatches: 68, Indels: 18
0.77 0.18 0.05
Matches are distributed among these distances:
47 24 0.08
48 238 0.81
49 16 0.05
50 16 0.05
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.27
Consensus pattern (48 bp):
CATGTCCCAAACATGGTCTTACACTAGCTCTCATATCAAGGCCGATGC
Found at i:15495514 original size:96 final size:96
Alignment explanation
Indices: 15495312--15495722 Score: 528
Period size: 96 Copynumber: 4.3 Consensus size: 96
15495302 ATGCCAATGA
* * * ** *
15495312 CATGTCCCAGACATGGTCTTACACTGGCTTTCATATATCGGTGCCGATGCCATGTTCCAAACAT-
1 CATGTCCCAGACATGGTCTTACACTAGCTCTC--ATCTCAATGCCGATGCCATGATCCAAACATG
* * *
15495376 GTCTTACACTAGC-C-CATAAGTCAAGGCCGACGC
64 GTCTTACACTAGCTCACAT-A-TCGAGGCTGATGC
*
15495409 CATGTCCCAGACATGGTCTTACACTAGCTCTCATCTCAATGCCGATGCCAT-AGTCAAAACATGG
1 CATGTCCCAGACATGGTCTTACACTAGCTCTCATCTCAATGCCGATGCCATGA-TCCAAACATGG
15495473 TCTTACACTAGCTCACATATCGAGG-TCGATGC
65 TCTTACACTAGCTCACATATCGAGGCT-GATGC
* * * *
15495505 CATGTCCCAGACATGGTCTTACACTAGCTCTCATCTTAATGTCGATTCCAT-ATTCTAAACATGG
1 CATGTCCCAGACATGGTCTTACACTAGCTCTCATCTCAATGCCGATGCCATGA-TCCAAACATGG
* * *
15495569 CCTTACATTGGCTCACATATCGAGGCTGATGC
65 TCTTACACTAGCTCACATATCGAGGCTGATGC
* * * *
15495601 CATGTCCCATACATGGTCTTACACTAGCTCTCATCTCAATGCCAATGTCATGACCCAAACATGGT
1 CATGTCCCAGACATGGTCTTACACTAGCTCTCATCTCAATGCCGATGCCATGATCCAAACATGGT
15495666 CTTACACTAGCTCACATATCGAGGCTGATGC
66 CTTACACTAGCTCACATATCGAGGCTGATGC
15495697 CATGTCCCAGACATGGTCTTACACTA
1 CATGTCCCAGACATGGTCTTACACTA
15495723 CCTCCCATAA
Statistics
Matches: 277, Mismatches: 30, Indels: 15
0.86 0.09 0.05
Matches are distributed among these distances:
95 24 0.09
96 216 0.78
97 34 0.12
98 3 0.01
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.27
Consensus pattern (96 bp):
CATGTCCCAGACATGGTCTTACACTAGCTCTCATCTCAATGCCGATGCCATGATCCAAACATGGT
CTTACACTAGCTCACATATCGAGGCTGATGC
Found at i:15506023 original size:48 final size:49
Alignment explanation
Indices: 15505907--15506334 Score: 251
Period size: 48 Copynumber: 8.8 Consensus size: 49
15505897 AGGGTAAGAT
* * * * *
15505907 GTCGATGCCATGTCCTAGACATGGTCTTACACTGGCTTTCATATA-TCG-G
1 GTCGATGCCATGTCCCAAACATGGTCTTACACTAGC-CTCATA-ACACGAG
* * * *
15505956 TGCCAATGCCATGTTCCAAACATGGTCTTA-ACCTAGCCT-ATAAGACGAG
1 -GTCGATGCCATGTCCCAAACATGGTCTTACA-CTAGCCTCATAACACGAG
* * *
15506005 GTCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCAT--CTCAAT
1 GTCGATGCCATGTCCCAAACATGGTCTTACACTAGC-CTCATAACACGAG
* * *
15506053 GTCGATACCATGTTCCAAACATGGTCTTACACTAG-CTCA-AATATCGAG
1 GTCGATGCCATGTCCCAAACATGGTCTTACACTAGCCTCATAACA-CGAG
* * * * *
15506101 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCAT--CTCAAT
1 GTCGATGCCATGTCCCAAACATGGTCTTACACTAGC-CTCATAACACGAG
* * * * *
15506149 GCCGATGTCATGTTCCAAACATGGTCTTACACTAGCTCACATATCA--AG
1 GTCGATGCCATGTCCCAAACATGGTCTTACACTAGC-CTCATAACACGAG
* * * * * * * *
15506197 GCCGATGCAATGTCCCAGACATGGTCTTATATTAGCTCTCAT--CTCAAT
1 GTCGATGCCATGTCCCAAACATGGTCTTACACTAGC-CTCATAACACGAG
* * * * *
15506245 GTTGATGCCATGTTCCAAACATGGTCTTACACT-GGCTCACATA-TCGAG
1 GTCGATGCCATGTCCCAAACATGGTCTTACACTAGCCTCATA-ACACGAG
* ** *
15506293 G-CTGATACCATGTTTCAGACATGGTCTTACACTAGCTCTCAT
1 GTC-GATGCCATGTCCCAAACATGGTCTTACACTAGC-CTCAT
15506335 TGTAACACCC
Statistics
Matches: 295, Mismatches: 61, Indels: 44
0.74 0.15 0.11
Matches are distributed among these distances:
46 9 0.03
47 2 0.01
48 238 0.81
49 7 0.02
50 39 0.13
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.29
Consensus pattern (49 bp):
GTCGATGCCATGTCCCAAACATGGTCTTACACTAGCCTCATAACACGAG
Found at i:15506101 original size:96 final size:96
Alignment explanation
Indices: 15505909--15506334 Score: 552
Period size: 96 Copynumber: 4.4 Consensus size: 96
15505899 GGTAAGATGT
* * * * ** *
15505909 CGATGCCATGTCCTAGACATGGTCTTACACTGGCTTTCATATATCGGTGCCAATGCCATGTTCCA
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTC--ATCTCAATGCCGATGCCATGTTCCA
* *
15505974 AACATGGTCTTA-ACCTAGC-CTATAAGA-CGAGGT
64 AACATGGTCTTACA-CTAGCTC-A-AATATCGAGGC
* * *
15506007 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATCTCAATGTCGATACCATGTTCCAAA
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTCAATGCCGATGCCATGTTCCAAA
15506072 CATGGTCTTACACTAGCTCAAATATCGAGGC
66 CATGGTCTTACACTAGCTCAAATATCGAGGC
*
15506103 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTCAATGCCGATGTCATGTTCCAAA
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTCAATGCCGATGCCATGTTCCAAA
* *
15506168 CATGGTCTTACACTAGCTCACATATCAAGGC
66 CATGGTCTTACACTAGCTCAAATATCGAGGC
* * * **
15506199 CGATGCAATGTCCCAGACATGGTCTTATATTAGCTCTCATCTCAATGTTGATGCCATGTTCCAAA
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTCAATGCCGATGCCATGTTCCAAA
* *
15506264 CATGGTCTTACACTGGCTCACATATCGAGGC
66 CATGGTCTTACACTAGCTCAAATATCGAGGC
* * **
15506295 TGATACCATGTTTCAGACATGGTCTTACACTAGCTCTCAT
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCAT
15506335 TGTAACACCC
Statistics
Matches: 292, Mismatches: 33, Indels: 8
0.88 0.10 0.02
Matches are distributed among these distances:
95 3 0.01
96 253 0.87
97 2 0.01
98 34 0.12
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.29
Consensus pattern (96 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTCAATGCCGATGCCATGTTCCAAA
CATGGTCTTACACTAGCTCAAATATCGAGGC
Found at i:15506167 original size:144 final size:144
Alignment explanation
Indices: 15505916--15506334 Score: 387
Period size: 144 Copynumber: 2.9 Consensus size: 144
15505906 TGTCGATGCC
* * * * * * *
15505916 ATGTCCTAGACATGGTCTTACACTGGCTTTCATATATC-GGTGCCAATGCCATGTTCCAAACATG
1 ATGTCCCAAACATGGTCTTACACTAGC--TCAAATATCAAG-GCCGATGCCATGTCCCAAACATG
* * * * *
15505980 GTCTTA-ACCTAGC-C-TATAAGACGAGGTCGATGCCATGTCCCAAACATGGTCTTACACTAGCT
63 GTCTTACA-CTAGCTCACAT-A-TCAAGGCCGATGCCATGTTCCAAACATGGTCTTACACTAGCT
* * * *
15506042 CTCATCTCAATGTCGATACC
125 CTCATATCAAGGCCGATACA
* * *
15506062 ATGTTCCAAACATGGTCTTACACTAGCTCAAATATCGAGGCCGATGCCATGTCCCAGACATGGTC
1 ATGTCCCAAACATGGTCTTACACTAGCTCAAATATCAAGGCCGATGCCATGTCCCAAACATGGTC
* * * * *
15506127 TTACACTAGCTCTCATCTCAATGCCGATGTCATGTTCCAAACATGGTCTTACACTAGCTCACATA
66 TTACACTAGCTCACATATCAAGGCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATA
*
15506192 TCAAGGCCGATGCA
131 TCAAGGCCGATACA
* * * ** * * ** *
15506206 ATGTCCCAGACATGGTCTTATATTAGCTCTCATCTCAATGTTGATGCCATGTTCCAAACATGGTC
1 ATGTCCCAAACATGGTCTTACACTAGCTCAAATATCAAGGCCGATGCCATGTCCCAAACATGGTC
* * * * * *
15506271 TTACACTGGCTCACATATCGAGGCTGATACCATGTTTCAGACATGGTCTTACACTAGCTCTCAT
66 TTACACTAGCTCACATATCAAGGCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCAT
15506335 TGTAACACCC
Statistics
Matches: 222, Mismatches: 47, Indels: 10
0.80 0.17 0.04
Matches are distributed among these distances:
144 194 0.87
145 3 0.01
146 25 0.11
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.29
Consensus pattern (144 bp):
ATGTCCCAAACATGGTCTTACACTAGCTCAAATATCAAGGCCGATGCCATGTCCCAAACATGGTC
TTACACTAGCTCACATATCAAGGCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATA
TCAAGGCCGATACA
Found at i:15508512 original size:49 final size:50
Alignment explanation
Indices: 15508446--15508719 Score: 196
Period size: 50 Copynumber: 5.4 Consensus size: 50
15508436 TACGCATAGC
*
15508446 AGCCTGCACTTAGTACTACACATGCGACC-AACAATCCAG-TACACGTAGT
1 AGCCTGCACTTAGTACTACACACGCGACCTAACAAT-CAGATACACGTAGT
* * * *
15508495 AGCCTACACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGT
1 AGCCTGCACTTAGTACTACACACGCGACCTAACAATCAGATACACGTAGT
* * ** * *** * * * *
15508545 ATCCCGCACTTAGTACTACACACATGA-TTGAAGTTGTCGGGTACGCATAGT
1 AGCCTGCACTTAGTACTACACACGCGACCT-AA-CAATCAGATACACGTAGT
* * * * * * *
15508596 ATCCTGCACTTAGTACTAGACATGCGACCTAACTATCTGGTACATGTAGT
1 AGCCTGCACTTAGTACTACACACGCGACCTAACAATCAGATACACGTAGT
* * * * *
15508646 AGCCTGCACTTAGTACTACACACGTGACCTAA-AACCATTTTAAACACATAGT
1 AGCCTGCACTTAGTACTACACACGCGACCTAACAATCA---GATACACGTAGT
*
15508698 AGCCTGCACATAGTACTACACA
1 AGCCTGCACTTAGTACTACACA
15508720 TGTGTTCTCA
Statistics
Matches: 175, Mismatches: 42, Indels: 13
0.76 0.18 0.06
Matches are distributed among these distances:
49 31 0.18
50 80 0.46
51 35 0.20
52 29 0.17
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (50 bp):
AGCCTGCACTTAGTACTACACACGCGACCTAACAATCAGATACACGTAGT
Found at i:15508555 original size:50 final size:50
Alignment explanation
Indices: 15508340--15508719 Score: 230
Period size: 51 Copynumber: 7.5 Consensus size: 50
15508330 TTGGTGCACA
* ** * **
15508340 TAGTAGCCTGCACTTAGTACTACATC-TGTGATCAAAACCGTCTCTTAC-CG
1 TAGTAGCCTGCACTTAGTACTACA-CACGTGA-CCTAACCATCTGATACACG
* * * * * * * * * * *
15508390 ATAGTGGCCTGCACTTAGTACCATACATGTGATCGAAGCTATCGGGTACGCA
1 -TAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-CCATCTGATACACG
* * * * *
15508442 TAGCAGCCTGCACTTAGTACTACACATGCGACC-AACAATC-CAGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGA-TACACG
*
15508491 TAGTAGCCTACACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
* * * * *** * * * *
15508541 TAGTATCCCGCACTTAGTACTACACACATGA-TTGAAGTTGTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCT-AA-CCATCTGATACACG
* * * * * * *
15508592 TAGTATCCTGCACTTAGTACTAGACATGCGACCTAACTATCTGGTACATG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
* * * *
15508642 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAAAACCATTTTAAACACA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCT--AACCATCTGATACACG
*
15508694 TAGTAGCCTGCACATAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
15508720 TGTGTTCTCA
Statistics
Matches: 253, Mismatches: 65, Indels: 21
0.75 0.19 0.06
Matches are distributed among these distances:
49 38 0.15
50 84 0.33
51 95 0.38
52 36 0.14
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
Found at i:15508719 original size:151 final size:149
Alignment explanation
Indices: 15508340--15508721 Score: 416
Period size: 151 Copynumber: 2.5 Consensus size: 149
15508330 TTGGTGCACA
* * * *
15508340 TAGTAGCCTGCACTTAGTACTACATC-TGTGATC-AAAACCGTCTCTT-AC-CGATAGTGGCCTG
1 TAGTAGCCTGCACTTAGTACTACA-CACGTGACCTAAAACCAT-T-TTAACAC-ATAGTAGCCTG
**
15508401 CACTTAGTACCATACATGTGATCGAAGCTATCGGGTACGCATAGCAGCCTGCACTTAGTACTACA
62 CACTTAGTA-C-TACACATGATCGAAGCTATCGGGTACGCATAGCAGCCTGCACTTAGTACTACA
15508466 CATGCGACCAACAATCCAGTACACG
125 CATGCGACCAACAATCCAGTACACG
* * * * * *
15508491 TAGTAGCCTACACTTAGTACTACACACGTGACCT--AACCATCTGATACACGTAGTATCCCGCAC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAAAACCATTTTA-ACACATAGTAGCCTGCAC
* * * * * *
15508554 TTAGTACTACACACATGATTGAAGTTGTCGGGTACGCATAGTATCCTGCACTTAGTACTAGACAT
65 TTAGTACT--ACACATGATCGAAGCTATCGGGTACGCATAGCAGCCTGCACTTAGTACTACACAT
* ** *
15508619 GCGACCTAACTATCTGGTACATG
128 GCGACC-AACAATCCAGTACACG
15508642 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAAAACCATTTTAAACACATAGTAGCCTGCAC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAAAACCATTTT-AACACATAGTAGCCTGCAC
*
15508707 ATAGTACTACACATG
65 TTAGTACTACACATG
15508722 TGTTCTCACA
Statistics
Matches: 191, Mismatches: 29, Indels: 22
0.79 0.12 0.09
Matches are distributed among these distances:
148 2 0.01
149 1 0.01
150 77 0.40
151 81 0.42
153 29 0.15
154 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.26
Consensus pattern (149 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTAAAACCATTTTAACACATAGTAGCCTGCACT
TAGTACTACACATGATCGAAGCTATCGGGTACGCATAGCAGCCTGCACTTAGTACTACACATGCG
ACCAACAATCCAGTACACG
Found at i:15515563 original size:13 final size:13
Alignment explanation
Indices: 15515545--15515570 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15515535 ATATTATAAT
15515545 TATTTTATGTTAA
1 TATTTTATGTTAA
15515558 TATTTTATGTTAA
1 TATTTTATGTTAA
15515571 AAATAAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (13 bp):
TATTTTATGTTAA
Found at i:15516994 original size:40 final size:40
Alignment explanation
Indices: 15516946--15517231 Score: 468
Period size: 40 Copynumber: 7.2 Consensus size: 40
15516936 AGACTAAGAT
15516946 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
15516986 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
* * *
15517026 CCGAAGGAATTTGTGCTAGTTACTATAACCGGACTAAGAT-
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAG-TC
* *
15517066 CTGAAGGCATTTGTGCTAGTTACTATAACCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
15517106 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
*
15517146 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAACTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
* * *
15517186 CCGAAGGCATTTGTGCGAGTTGCTATATCC-GGCTAAATC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
15517225 CCGAAGG
1 CCGAAGG
15517232 TACTTGGGTT
Statistics
Matches: 232, Mismatches: 12, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
39 16 0.07
40 215 0.93
41 1 0.00
ACGTcount: A:0.24, C:0.22, G:0.25, T:0.29
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
Found at i:15523767 original size:13 final size:13
Alignment explanation
Indices: 15523749--15523774 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15523739 ATATTATAAT
15523749 TATTTTATGTTAA
1 TATTTTATGTTAA
15523762 TATTTTATGTTAA
1 TATTTTATGTTAA
15523775 AAATAAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (13 bp):
TATTTTATGTTAA
Found at i:15525193 original size:40 final size:40
Alignment explanation
Indices: 15525145--15525430 Score: 398
Period size: 40 Copynumber: 7.2 Consensus size: 40
15525135 AGACTAAGAT
* *
15525145 CCGAAGGCATTTGTGCTAATTACTATATCCGGGCTAAGTT
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
*
15525185 TCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
* * *
15525225 CCGAAGGCATTTGTGCTAGTTACTATAACTGGACTAAGAT-
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAG-TC
* * *
15525265 CCGAAGACATTTGTGCTAGTTACTATAACCGGACTAAGAT-
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAG-TC
15525305 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
* *
15525345 CCGAAGGCATTTGTGCTAGTTACTATATCTGGGCTAACTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
* * *
15525385 CCGAAGGCATTTGTGCGAGTTGCTATATCC-GGCTAAATC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
*
15525424 CTGAAGG
1 CCGAAGG
15525431 TACTTGGGTT
Statistics
Matches: 225, Mismatches: 19, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
39 15 0.07
40 209 0.93
41 1 0.00
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.30
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
Found at i:15525342 original size:120 final size:119
Alignment explanation
Indices: 15525136--15525430 Score: 450
Period size: 120 Copynumber: 2.5 Consensus size: 119
15525126 ATGATAACCA
* * *
15525136 GACTAAGATCCGAAGGCATTTGTGCTAATTACTATATCCGGGCTAAGTTTCGAAGGCATTTGTGC
1 GACTAAGATCCGAAGGCATTTGTGCTAGTTACTATATCC-GGCTAAGATCCGAAGGCATTTGTGC
15525201 TAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATAACTG
65 TAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATAACTG
* *
15525256 GACTAAGATCCGAAGACATTTGTGCTAGTTACTATAACCGGACTAAGATCCGAAGGCATTTGTGC
1 GACTAAGATCCGAAGGCATTTGTGCTAGTTACTATATCCGG-CTAAGATCCGAAGGCATTTGTGC
*
15525321 TAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATATCTG
65 TAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATAACTG
* * * *
15525376 GGCTAA-CTCCCGAAGGCATTTGTGCGAGTTGCTATATCCGGCTAA-ATCCTGAAGG
1 GACTAAGAT-CCGAAGGCATTTGTGCTAGTTACTATATCCGGCTAAGATCC-GAAGG
15525431 TACTTGGGTT
Statistics
Matches: 160, Mismatches: 12, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
118 4 0.03
119 12 0.08
120 144 0.90
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (119 bp):
GACTAAGATCCGAAGGCATTTGTGCTAGTTACTATATCCGGCTAAGATCCGAAGGCATTTGTGCT
AGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATAACTG
Found at i:15541121 original size:79 final size:81
Alignment explanation
Indices: 15540985--15541169 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
15540975 TTGAATGATG
* *
15540985 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCCAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
15541049 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
15541064 TTCCGGGCTAAG-CCCGAAGGCATTTGT-CCGAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCCAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
15541126 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
15541144 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
15541170 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 59 0.65
80 31 0.34
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCCAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:15541176 original size:40 final size:39
Alignment explanation
Indices: 15540986--15541169 Score: 203
Period size: 40 Copynumber: 4.6 Consensus size: 39
15540976 TGAATGATGT
* * * *
15540986 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-AA
* * *
15541026 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
*
15541066 CCGGGCTAAG-CCCGAAGGCATTTGTCCGAGTTACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
15541104 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
15541145 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
15541170 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 34 0.27
40 80 0.65
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:15541191 original size:79 final size:79
Alignment explanation
Indices: 15541038--15541202 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
15541028 GGACTAAGAT
* **
15541038 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTCCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
15541103 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
15541117 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
15541180 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
15541196 CCGAAGG
1 CCGAAGG
15541203 TATGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:15550252 original size:28 final size:28
Alignment explanation
Indices: 15550189--15550342 Score: 256
Period size: 28 Copynumber: 5.5 Consensus size: 28
15550179 ATATTAAGTC
* *
15550189 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
15550216 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
15550244 CGGACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
15550272 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAACT
15550300 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
15550328 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
15550343 GTACAATTTA
Statistics
Matches: 120, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
27 22 0.18
28 98 0.82
ACGTcount: A:0.33, C:0.28, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:15550838 original size:14 final size:14
Alignment explanation
Indices: 15550819--15550848 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
15550809 TGGGCATACT
*
15550819 TATGTATATGTATA
1 TATGTATATATATA
15550833 TATGTATATATATA
1 TATGTATATATATA
15550847 TA
1 TA
15550849 CTTCGGAATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (14 bp):
TATGTATATATATA
Found at i:15565443 original size:29 final size:29
Alignment explanation
Indices: 15565384--15565443 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
15565374 CTACAATTTA
* *
15565384 ACTTTCTACCAGTTCTACACTTCTTATGT
1 ACTTTCTACCAGTTCTACACTTCTCACGT
15565413 ACTTTCTACCAGTTCTACACTTCTCACGT
1 ACTTTCTACCAGTTCTACACTTCTCACGT
15565442 AC
1 AC
15565444 AATTCTCCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.22, C:0.32, G:0.07, T:0.40
Consensus pattern (29 bp):
ACTTTCTACCAGTTCTACACTTCTCACGT
Found at i:15566011 original size:40 final size:40
Alignment explanation
Indices: 15565937--15566012 Score: 107
Period size: 40 Copynumber: 1.9 Consensus size: 40
15565927 CTAATTTTAC
* * **
15565937 CACCACCATTATTTTTCATCTCACCAAAGTCAATCTCATA
1 CACCACCATCATTTTTAATCTCACCAAAACCAATCTCATA
*
15565977 CACCACCATCATTTTTAATCTCACTAAAACCAATCT
1 CACCACCATCATTTTTAATCTCACCAAAACCAATCT
15566013 TACTAATCCA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.34, C:0.33, G:0.01, T:0.32
Consensus pattern (40 bp):
CACCACCATCATTTTTAATCTCACCAAAACCAATCTCATA
Found at i:15584189 original size:25 final size:25
Alignment explanation
Indices: 15584161--15584227 Score: 82
Period size: 25 Copynumber: 2.7 Consensus size: 25
15584151 TTATGTACAT
* *
15584161 GTATGCTCATGCGAGCTATGAATTG
1 GTATGCTCATACGAGCTATGAATCG
*
15584186 GTATGCTC-TCACGAGCTGTGAATCG
1 GTATGCTCAT-ACGAGCTATGAATCG
*
15584211 GTAAGCTCATACGAGCT
1 GTATGCTCATACGAGCT
15584228 GCAAATTCGA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
24 1 0.03
25 34 0.94
26 1 0.03
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (25 bp):
GTATGCTCATACGAGCTATGAATCG
Found at i:15584228 original size:25 final size:25
Alignment explanation
Indices: 15584165--15584279 Score: 76
Period size: 25 Copynumber: 4.6 Consensus size: 25
15584155 GTACATGTAT
* * * *
15584165 GCTCATGCGAGCTATGAATTGGTAT
1 GCTCATACGAGCTGTGAATCGGTAA
15584190 GCTC-TCACGAGCTGTGAATCGGTAA
1 GCTCAT-ACGAGCTGTGAATCGGTAA
**
15584215 GCTCATACGAGCTGCAAATTC-G-AA
1 GCTCATACGAGCTGTGAA-TCGGTAA
** * *
15584239 GCTCATAC-ATGCTGCAAATTGGGAA
1 GCTCATACGA-GCTGTGAATCGGTAA
*
15584264 GCTCATATGAGCTGTG
1 GCTCATACGAGCTGTG
15584280 GTGTGTCTGT
Statistics
Matches: 73, Mismatches: 10, Indels: 14
0.75 0.10 0.14
Matches are distributed among these distances:
23 2 0.03
24 20 0.27
25 47 0.64
26 4 0.05
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (25 bp):
GCTCATACGAGCTGTGAATCGGTAA
Found at i:15584244 original size:24 final size:25
Alignment explanation
Indices: 15584213--15584277 Score: 89
Period size: 24 Copynumber: 2.6 Consensus size: 25
15584203 GTGAATCGGT
15584213 AAGCTCATACGAGCTGCAAATT-CG
1 AAGCTCATACGAGCTGCAAATTGCG
*
15584237 AAGCTCATAC-ATGCTGCAAATTGGG
1 AAGCTCATACGA-GCTGCAAATTGCG
*
15584262 AAGCTCATATGAGCTG
1 AAGCTCATACGAGCTG
15584278 TGGTGTGTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
23 1 0.03
24 20 0.56
25 14 0.39
26 1 0.03
ACGTcount: A:0.32, C:0.22, G:0.23, T:0.23
Consensus pattern (25 bp):
AAGCTCATACGAGCTGCAAATTGCG
Found at i:15585018 original size:12 final size:12
Alignment explanation
Indices: 15585001--15585041 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
15584991 CAGTGGTATT
15585001 ACTATAATTCAA
1 ACTATAATTCAA
15585013 ACTATAA-T--A
1 ACTATAATTCAA
*
15585022 ACAATAATTCAA
1 ACTATAATTCAA
15585034 ACTATAAT
1 ACTATAAT
15585042 AACAATAATG
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
9 7 0.29
10 1 0.04
11 1 0.04
12 15 0.62
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.32
Consensus pattern (12 bp):
ACTATAATTCAA
Found at i:15585028 original size:21 final size:21
Alignment explanation
Indices: 15585004--15585050 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
15584994 TGGTATTACT
15585004 ATAATTCAAACTATAATAACA
1 ATAATTCAAACTATAATAACA
15585025 ATAATTCAAACTATAATAACA
1 ATAATTCAAACTATAATAACA
15585046 ATAAT
1 ATAAT
15585051 GAAATATAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.57, C:0.13, G:0.00, T:0.30
Consensus pattern (21 bp):
ATAATTCAAACTATAATAACA
Done.