Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12
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: 24583705
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1509421 characters in sequence are not A, C, G, or T
File 50 of 75
Found at i:15984966 original size:254 final size:255
Alignment explanation
Indices: 15984514--15985023 Score: 697
Period size: 254 Copynumber: 2.0 Consensus size: 255
15984504 CTATCTTCAA
* * *
15984514 CCTGCTCCACTACAACCTAGGGAGGCAAGGCTGGTATCTTCGCTCTGCTTCACTGTCGGTACAGG
1 CCTGCTCCACTACAACCTAGGAAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGATACAGG
* ** * * *
15984579 AAGGCAGGATTTGCTATCTTCAACCTGCTCCACTACAACCTAGGGAGGCAAGGCTGGTATCTTCG
66 AAGGCAAGATCCGCAATCTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCTGGTATCTTCA
* * * *
15984644 ATCTGCTTCACTGTCAGTCTAGGAAGGCAATATTTGTTATCTTCAACCTGCTCCACTACAACCCA
131 ATCTGCTTCACTGTCAGTCTAGGAAGGCAAGATCTGTAATCTTCAACCTACTCCACTACAACCCA
* * *
15984709 GGGAGGCA-AGG-CT-GCTATCTTCGATCTGCTTCACTGTCGGTACAGGAAGGAAAGATCTG
196 GGGA-G-ATAGGACTCACAATCTTCGATCTGCTTCACTGTCAGTACAGGAAGGAAAGATCTG
*
15984768 CCTGCTCCACTACAACCTAGGAAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGATATAGG
1 CCTGCTCCACTACAACCTAGGAAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGATACAGG
15984833 AAGGCAAGATCCGCAATCTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCTGGTATCTTCA
66 AAGGCAAGATCCGCAATCTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCTGGTATCTTCA
* * * * ***
15984898 ATCTGCTTCACTGTC-GATGC-AGGAAGGCAAGATCTGTAATTTTTAACCTATTCCACTGCTGTC
131 ATCTGCTTCACTGTCAG-T-CTAGGAAGGCAAGATCTGTAATCTTCAACCTACTCCACTACAACC
* * * *
15984961 CAGGGAGATAGGATTCACAATCTTTGATCTGCTTCATTGTCAGTACAGGAAGGCAAGATCTG
194 CAGGGAGATAGGACTCACAATCTTCGATCTGCTTCACTGTCAGTACAGGAAGGAAAGATCTG
15985023 C
1 C
15985024 TATCTTTAAC
Statistics
Matches: 223, Mismatches: 28, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
252 1 0.00
253 5 0.02
254 175 0.78
255 42 0.19
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (255 bp):
CCTGCTCCACTACAACCTAGGAAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGATACAGG
AAGGCAAGATCCGCAATCTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCTGGTATCTTCA
ATCTGCTTCACTGTCAGTCTAGGAAGGCAAGATCTGTAATCTTCAACCTACTCCACTACAACCCA
GGGAGATAGGACTCACAATCTTCGATCTGCTTCACTGTCAGTACAGGAAGGAAAGATCTG
Found at i:15986611 original size:14 final size:15
Alignment explanation
Indices: 15986588--15986620 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
15986578 ATCGACGCTT
*
15986588 TTCCAGATAAGG-CC
1 TTCCACATAAGGTCC
15986602 TTCCACATAAGGTCC
1 TTCCACATAAGGTCC
15986617 TTCC
1 TTCC
15986621 TAGCTTGGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.24, C:0.33, G:0.15, T:0.27
Consensus pattern (15 bp):
TTCCACATAAGGTCC
Found at i:15990540 original size:27 final size:28
Alignment explanation
Indices: 15990515--15990572 Score: 82
Period size: 28 Copynumber: 2.0 Consensus size: 28
15990505 ATACGTATAG
15990515 ATTATAAAAATATAATTACA-TATATAAA
1 ATTATAAAAA-ATAATTACATTATATAAA
*
15990543 ATTTTAAAAAATAATTACATTATATTAAA
1 ATTATAAAAAATAATTACATTATA-TAAA
15990572 A
1 A
15990573 AAAATATGCG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 9 0.33
28 13 0.48
29 5 0.19
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (28 bp):
ATTATAAAAAATAATTACATTATATAAA
Found at i:15990689 original size:26 final size:26
Alignment explanation
Indices: 15990633--15990690 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
15990623 ACATAGACTT
** *
15990633 AAAAAATAGTTAAATATGAAAACTAA
1 AAAAAATAGTTAAATAAAAAAACAAA
*
15990659 AAAAAATAGTT-AATAAAAAAAGAAA
1 AAAAAATAGTTAAATAAAAAAACAAA
15990684 ACAAAAA
1 A-AAAAA
15990691 AAACTAATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 11 0.41
26 16 0.59
ACGTcount: A:0.72, C:0.03, G:0.07, T:0.17
Consensus pattern (26 bp):
AAAAAATAGTTAAATAAAAAAACAAA
Found at i:16013495 original size:9 final size:9
Alignment explanation
Indices: 16013481--16013511 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
16013471 GTTAAACGAA
16013481 TCGAGTTAT
1 TCGAGTTAT
*
16013490 TCGAGTTAA
1 TCGAGTTAT
16013499 TCGAGTTAT
1 TCGAGTTAT
16013508 TCGA
1 TCGA
16013512 ATCAACTCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:16013582 original size:9 final size:9
Alignment explanation
Indices: 16013565--16013601 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
16013555 TGAGTTTTCG
16013565 AATTCGAAT
1 AATTCGAAT
*
16013574 AACTCGAAT
1 AATTCGAAT
16013583 AATTCGAAT
1 AATTCGAAT
16013592 AATTCGAAT
1 AATTCGAAT
16013601 A
1 A
16013602 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:16014366 original size:5 final size:5
Alignment explanation
Indices: 16014356--16014391 Score: 72
Period size: 5 Copynumber: 7.2 Consensus size: 5
16014346 CTCGAAAATT
16014356 TTCGA TTCGA TTCGA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA TTCGA TTCGA T
16014392 CGAATGCTCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TTCGA
Found at i:16020758 original size:43 final size:43
Alignment explanation
Indices: 16020704--16020931 Score: 264
Period size: 43 Copynumber: 5.3 Consensus size: 43
16020694 CGCTTTAACG
* *
16020704 CAAACCCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTGCCA
1 CAAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTACCA
* * *
16020747 CAAACGCCGCTAAAGATCACGGCCTTTAGCGGCG-TTTATACTA
1 CAAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTT-TACCA
* *
16020790 CAAACGCCGCTAAAGGTCATGACCTTTAGCGGCGCTTTTGCCA
1 CAAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTACCA
* * **
16020833 CAAACGCCGCTAAAAATCATGACCTTTAGCGGCGCTTCTATTA
1 CAAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTACCA
** * * *
16020876 CAAACGCCGCTATAA-AAAATGACTTTTAGCGACGCTTTT-TCA
1 CAAACGCCGCTA-AAGATCATGACCTTTAGCGGCGCTTTTACCA
*
16020918 CAAACGCCACTAAA
1 CAAACGCCGCTAAA
16020932 AACATGCTTT
Statistics
Matches: 159, Mismatches: 23, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
41 2 0.01
42 16 0.10
43 136 0.86
44 5 0.03
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.24
Consensus pattern (43 bp):
CAAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTACCA
Found at i:16020859 original size:86 final size:86
Alignment explanation
Indices: 16020704--16020937 Score: 312
Period size: 86 Copynumber: 2.7 Consensus size: 86
16020694 CGCTTTAACG
* * * *
16020704 CAAACCCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTGCCACAAACGCCGCTAAAGATCACGG
1 CAAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTGCCACAAACGCCGCTAAAAATCATGA
*
16020769 CCTTTAGCGGCGTTTATACTA
66 CCTTTAGCGGCGCTTATACTA
*
16020790 CAAACGCCGCTAAAGGTCATGACCTTTAGCGGCGCTTTTGCCACAAACGCCGCTAAAAATCATGA
1 CAAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTGCCACAAACGCCGCTAAAAATCATGA
* *
16020855 CCTTTAGCGGCGCTTCTATTA
66 CCTTTAGCGGCGCTTATACTA
** * * * *
16020876 CAAACGCCGCTATAA-AAAATGACTTTTAGCGACGCTTTT-TCACAAACGCCACTAAAAA-CATG
1 CAAACGCCGCTA-AAGATCATGACCTTTAGCGGCGCTTTTGCCACAAACGCCGCTAAAAATCATG
16020938 CTTTTAAAAA
Statistics
Matches: 132, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
84 4 0.03
85 17 0.13
86 109 0.83
87 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.24
Consensus pattern (86 bp):
CAAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTGCCACAAACGCCGCTAAAAATCATGA
CCTTTAGCGGCGCTTATACTA
Found at i:16021993 original size:47 final size:46
Alignment explanation
Indices: 16021939--16022030 Score: 121
Period size: 46 Copynumber: 2.0 Consensus size: 46
16021929 CCCTACATGT
*
16021939 GCCATCATGTCAGATGTAGAAAAGGCTTAATATGTAATGATAAAAAG
1 GCCATCAT-TCAGATGTAGAAAAGGCTTAATATGTAATGACAAAAAG
**** *
16021986 GCCATCATTTTTTTGTGGAAAAGGCTTAATATGTAATGACAAAAA
1 GCCATCATTCAGATGTAGAAAAGGCTTAATATGTAATGACAAAAA
16022031 TGGAAGCAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
46 31 0.79
47 8 0.21
ACGTcount: A:0.40, C:0.11, G:0.20, T:0.29
Consensus pattern (46 bp):
GCCATCATTCAGATGTAGAAAAGGCTTAATATGTAATGACAAAAAG
Found at i:16024240 original size:40 final size:41
Alignment explanation
Indices: 16024137--16024242 Score: 142
Period size: 42 Copynumber: 2.6 Consensus size: 41
16024127 TTTTGCGGCA
* * *
16024137 TTTTTAAAATAGCGCCGCTAAAGCTCAATTTATAGTGGCGTTT
1 TTTTTAAAA-AGCGCCGCTAATGCTCAATCTATAGCGGCG-TT
* *
16024180 TTTTTAAGAAGCGCCGCTAATGCTCGATCTATAGCGGCG-T
1 TTTTTAAAAAGCGCCGCTAATGCTCAATCTATAGCGGCGTT
16024220 TTTTTAAAAAGCGCCGCTAATGC
1 TTTTTAAAAAGCGCCGCTAATGC
16024243 CTTTTATTTT
Statistics
Matches: 57, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
40 23 0.40
42 26 0.46
43 8 0.14
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.33
Consensus pattern (41 bp):
TTTTTAAAAAGCGCCGCTAATGCTCAATCTATAGCGGCGTT
Found at i:16024702 original size:14 final size:14
Alignment explanation
Indices: 16024683--16024716 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
16024673 AATCCTAAAT
16024683 CCCTAAC-TCTTAAC
1 CCCTAACGT-TTAAC
16024697 CCCTAACGTTTAAC
1 CCCTAACGTTTAAC
16024711 CCCTAA
1 CCCTAA
16024717 ACCCATAACT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 18 0.95
15 1 0.05
ACGTcount: A:0.29, C:0.41, G:0.03, T:0.26
Consensus pattern (14 bp):
CCCTAACGTTTAAC
Found at i:16024760 original size:21 final size:20
Alignment explanation
Indices: 16024708--16024770 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 20
16024698 CCTAACGTTT
**
16024708 AACCCCTAAACCCATAACTCAT
1 AACCCCTAAA-CCATAA-TCCC
*
16024730 AACCCCTAAACCTTAAATCCC
1 AACCCCTAAACCAT-AATCCC
*
16024751 AACCCTTAAACCATAATCCC
1 AACCCCTAAACCATAATCCC
16024771 TAAATCCATA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
20 6 0.17
21 17 0.49
22 12 0.34
ACGTcount: A:0.40, C:0.41, G:0.00, T:0.19
Consensus pattern (20 bp):
AACCCCTAAACCATAATCCC
Found at i:16025008 original size:21 final size:21
Alignment explanation
Indices: 16024984--16025072 Score: 56
Period size: 21 Copynumber: 4.2 Consensus size: 21
16024974 GTCTAACCCC
*
16024984 TAAACCCTTACCCCTAAACCT
1 TAAACCCTAACCCCTAAACCT
* * *
16025005 TAAATCCC-AACCCTTGAACCA
1 TAAA-CCCTAACCCCTAAACCT
* * ** *
16025026 TAATCCCTAATCTATAATCCT
1 TAAACCCTAACCCCTAAACCT
16025047 TAAACCC-ATACTCCCTAAACCT
1 TAAACCCTA-AC-CCCTAAACCT
16025069 TAAA
1 TAAA
16025073 ATTGTAACTC
Statistics
Matches: 48, Mismatches: 16, Indels: 7
0.68 0.23 0.10
Matches are distributed among these distances:
20 4 0.08
21 30 0.62
22 14 0.29
ACGTcount: A:0.37, C:0.36, G:0.01, T:0.26
Consensus pattern (21 bp):
TAAACCCTAACCCCTAAACCT
Found at i:16025777 original size:41 final size:41
Alignment explanation
Indices: 16025428--16025785 Score: 382
Period size: 41 Copynumber: 8.8 Consensus size: 41
16025418 CGCTTTATAA
16025428 CGCTTTTTCAAAAACGCCGCTAAAGA-CCC-AGCATTAGCGG
1 CGCTTTTTCAAAAACGCCGCTAAA-ACCCCGAGCATTAGCGG
* * * *
16025468 CGCTTTTCCAAAAATGCCGCTAAAGCCTCC-AGCATTAGCAG
1 CGCTTTTTCAAAAACGCCGCTAAAACC-CCGAGCATTAGCGG
* * * *
16025509 CGCTTTTT-AAAAGATGCCACTAAAACACCGAGCATTAGCTG
1 CGCTTTTTCAAAA-ACGCCGCTAAAACCCCGAGCATTAGCGG
* * * *
16025550 CTCTTTTTAAAAAACGCCGCTAAAACACAGAGCATTAGCGG
1 CGCTTTTTCAAAAACGCCGCTAAAACCCCGAGCATTAGCGG
* *
16025591 CGCTTTTCCAAAAACGCCGCTAAAACCCCGAGCATTAGAGG
1 CGCTTTTTCAAAAACGCCGCTAAAACCCCGAGCATTAGCGG
* * * **
16025632 CGCTTTTTAAAAAACGCCGCTAAAACACAGAGCATTAGCTA
1 CGCTTTTTCAAAAACGCCGCTAAAACCCCGAGCATTAGCGG
* * *
16025673 CGCTTTTCCAAAAACGCCGCTAAATCCCAGAGCATTAGCGG
1 CGCTTTTTCAAAAACGCCGCTAAAACCCCGAGCATTAGCGG
* * * *
16025714 CACATTCTCAAAAACGCCGCTAAAGCCCCGAGCATTAGCGG
1 CGCTTTTTCAAAAACGCCGCTAAAACCCCGAGCATTAGCGG
** * * *
16025755 CGCTTTTTTGAAAATGCTGCTAAAGCCCCGA
1 CGCTTTTTCAAAAACGCCGCTAAAACCCCGA
16025786 AAGGTAAGAA
Statistics
Matches: 267, Mismatches: 46, Indels: 9
0.83 0.14 0.03
Matches are distributed among these distances:
40 29 0.11
41 234 0.88
42 4 0.01
ACGTcount: A:0.32, C:0.29, G:0.18, T:0.21
Consensus pattern (41 bp):
CGCTTTTTCAAAAACGCCGCTAAAACCCCGAGCATTAGCGG
Found at i:16025777 original size:123 final size:123
Alignment explanation
Indices: 16025427--16025778 Score: 471
Period size: 123 Copynumber: 2.9 Consensus size: 123
16025417 GCGCTTTATA
*
16025427 ACGCTTTTTCAAAAACGCCGCTAAAGACCC--AGCATTAGCGGCGCTTTTCCAAAAATGCCGCTA
1 ACGCTTTTTCAAAAACGCCGCTAAA-ACCCAGAGCATTAGCGGCGCTTTTCCAAAAACGCCGCTA
* * *
16025490 AAGCCTCC-AGCATTAGCAGCGC-TTTTTAAAAGATGCCACTAAAACACCGAGCATTAGCT
65 AAGCC-CCGAGCATTAGCGGCGCTTTTTTAAAA-ATGCCGCTAAAACACAGAGCATTAGCT
* * * *
16025549 GCTCTTTTTAAAAAACGCCGCTAAAACACAGAGCATTAGCGGCGCTTTTCCAAAAACGCCGCTAA
1 ACGCTTTTTCAAAAACGCCGCTAAAACCCAGAGCATTAGCGGCGCTTTTCCAAAAACGCCGCTAA
* * * *
16025614 AACCCCGAGCATTAGAGGCGCTTTTTAAAAAACGCCGCTAAAACACAGAGCATTAGCT
66 AGCCCCGAGCATTAGCGGCGCTTTTTTAAAAATGCCGCTAAAACACAGAGCATTAGCT
* * * *
16025672 ACGCTTTTCCAAAAACGCCGCTAAATCCCAGAGCATTAGCGGCAC-ATTCTCAAAAACGCCGCTA
1 ACGCTTTTTCAAAAACGCCGCTAAAACCCAGAGCATTAGCGGCGCTTTTC-CAAAAACGCCGCTA
* *
16025736 AAGCCCCGAGCATTAGCGGCGCTTTTTTGAAAATGCTGCTAAA
65 AAGCCCCGAGCATTAGCGGCGCTTTTTTAAAAATGCCGCTAAA
16025779 GCCCCGAAAG
Statistics
Matches: 199, Mismatches: 26, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
121 3 0.02
122 27 0.14
123 161 0.81
124 8 0.04
ACGTcount: A:0.33, C:0.28, G:0.18, T:0.21
Consensus pattern (123 bp):
ACGCTTTTTCAAAAACGCCGCTAAAACCCAGAGCATTAGCGGCGCTTTTCCAAAAACGCCGCTAA
AGCCCCGAGCATTAGCGGCGCTTTTTTAAAAATGCCGCTAAAACACAGAGCATTAGCT
Found at i:16025878 original size:39 final size:40
Alignment explanation
Indices: 16025817--16025894 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 40
16025807 TCGGCTTTAG
*
16025817 TTTTTTTCGGCGTTTTTCCAAAAAATGCCGCTAATGCTCA
1 TTTTTTGCGGCGTTTTTCCAAAAAATGCCGCTAATGCTCA
16025857 TTTTTTGCGGCGTTTTT-CAAAAAATGCCGCTAATGCTC
1 TTTTTTGCGGCGTTTTTCCAAAAAATGCCGCTAATGCTC
16025895 GATCTTTAGT
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
39 21 0.57
40 16 0.43
ACGTcount: A:0.22, C:0.22, G:0.17, T:0.40
Consensus pattern (40 bp):
TTTTTTGCGGCGTTTTTCCAAAAAATGCCGCTAATGCTCA
Found at i:16031305 original size:32 final size:32
Alignment explanation
Indices: 16031269--16031332 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
16031259 CGCAGAGAGA
16031269 TAGGGACTAACTGGGCAATAATCCCCATCCCT
1 TAGGGACTAACTGGGCAATAATCCCCATCCCT
16031301 TAGGGACTAACTGGGCAATAATCCCCATCCCT
1 TAGGGACTAACTGGGCAATAATCCCCATCCCT
16031333 AAAATGCTGC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.22
Consensus pattern (32 bp):
TAGGGACTAACTGGGCAATAATCCCCATCCCT
Found at i:16032919 original size:44 final size:44
Alignment explanation
Indices: 16032871--16033009 Score: 117
Period size: 44 Copynumber: 3.2 Consensus size: 44
16032861 TACTGCTGCC
16032871 CAGGGAGATAGAACTACTGGCTTCAATGTACTCCACTGTAACCT
1 CAGGGAGATAGAACTACTGGCTTCAATGTACTCCACTGTAACCT
* * * * ** *
16032915 CAGGGAGGTA-AAAT-CTGTCATCTTCGACCTACTCCACTGCT--GCT
1 CAGGGAGATAGAACTACTG---GCTTCAATGTACTCCACTG-TAACCT
* *
16032959 CAGGGAGAT-GAGGCTACTGGCTTCAATGTACTCCACTGTAATCT
1 CAGGGAGATAGA-ACTACTGGCTTCAATGTACTCCACTGTAACCT
16033003 CAGGGAG
1 CAGGGAG
16033010 GTAAAATCTG
Statistics
Matches: 71, Mismatches: 15, Indels: 18
0.68 0.14 0.17
Matches are distributed among these distances:
42 4 0.06
43 18 0.25
44 29 0.41
45 16 0.23
46 4 0.06
ACGTcount: A:0.26, C:0.25, G:0.24, T:0.25
Consensus pattern (44 bp):
CAGGGAGATAGAACTACTGGCTTCAATGTACTCCACTGTAACCT
Found at i:16032956 original size:88 final size:88
Alignment explanation
Indices: 16032862--16033936 Score: 413
Period size: 88 Copynumber: 12.2 Consensus size: 88
16032852 AAACTATTCT
*
16032862 ACTGCTGCCCAGGGAGATAGAACTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAA
1 ACTGCTGCTCAGGGAGATAGAACTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAA
* *
16032927 ATCTGTCATCTTCGACCTACTCC
66 ATCTGCCATCTTCGATCTACTCC
* *
16032950 ACTGCTGCTCAGGGAGAT-GAGGCTACTGGCTTCAATGTACTCCACTGTAATCTCAGGGAGGTAA
1 ACTGCTGCTCAGGGAGATAGA-ACTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAA
* *
16033014 AATCTGACATCTTCGATCTGCTCC
65 AATCTGCCATCTTCGATCTACTCC
* * * * * * * * *
16033038 ATTACTGC-CTAGGGAGATAAGATCTGTAAT--CTTCAATCTATTCCACTACT-GCC-CAGGAAG
1 ACTGCTGCTC-AGGGAGAT-AGAAC--TACTGGCTTCAATGTACTCCACT-GTAACCTCAGGGAG
* * * * * * *
16033098 ATAGAA-CTACTAGCTTCAATGTACTCC
61 GTAAAATCTGCCATCTTCGATCTACTCC
* * * * * * * *
16033125 ACTG-TAATCTCAGGGAGGTA-AAATA-TGCCATCTTCGATCTGCTTCACTACTGT----TTAGG
1 ACTGCT--GCTCAGGGAGATAGAACTACTG---GCTTCAATGTAC-TC-C-ACTGTAACCTCAGG
* * *** * * *
16033183 GAGATAAGATCTGTGGTTTTCAATCTATTCC
58 GAGGTAAAATCTGCCATCTTCGATCTACTCC
* * * *
16033214 ACTGTTTCTCAGGAAGATAGAACTACTGGCTTCAATGTACTCCACTGTAATCTCAGGGAGGTAAA
1 ACTGCTGCTCAGGGAGATAGAACTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAA
* *
16033279 ATCCGCCATCTTCGATCTACTTC
66 ATCTGCCATCTTCGATCTACTCC
* * * * * * * * *
16033302 ACTACTGCTTAGGGAGATAAGATCTGTAAT--CTTCAATCTATTCCACTACT-GCC-CAGGGAGA
1 ACTGCTGCTCAGGGAGAT-AGAAC--TACTGGCTTCAATGTACTCCACT-GTAACCTCAGGGAGG
* *** * *
16033363 TAGAA-CTGCTGGCTTCAATGTACTCC
62 TAAAATCTGCCATCTTCGATCTACTCC
* * * * ** * * * *
16033389 ACTG-TAATCTCAGGGAGGTA-AAATCCGTTATCTTCGATCTGCTCCAC--T-ACTGCTTAGGGA
1 ACTGCT--GCTCAGGGAGATAGAACTAC--TGGCTTCAATGTACTCCACTGTAAC--CTCAGGGA
** * *** * * *
16033449 AATAAGATCTGTGGTTTTCAATCTATTCC
60 GGTAAAATCTGCCATCTTCGATCTACTCC
* * *
16033478 ACTGCTGCCCAGGGAGATAGAACTACTGGCTTCAATGTACTCCACTGCAATCTCAGGGAGGTAAA
1 ACTGCTGCTCAGGGAGATAGAACTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAA
*
16033543 ATCTGCCATCTTCGACCTACTCC
66 ATCTGCCATCTTCGATCTACTCC
* ** * *
16033566 ACTGCTGCTCAGGGAGAT-GAGGCTACTGGCTTTTATGTACTCCACTGTAATCTCAGTGAGGTAA
1 ACTGCTGCTCAGGGAGATAGA-ACTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAA
* *
16033630 AATCTACCATTTTCGATCTACTCC
65 AATCTGCCATCTTCGATCTACTCC
* * * * * *
16033654 ACTACTGC-CTAGGGAGATAAGATCTGTAAT--CTTCAATCTATTCCACTGCT-GCCT-AGGGAG
1 ACTGCTGCTC-AGGGAGAT-AGAAC--TACTGGCTTCAATGTACTCCACTG-TAACCTCAGGGAG
* * * *** * *
16033714 ATAGAA-CTACTGGCTTCAATATACTCC
61 GTAAAATCTGCCATCTTCGATCTACTCC
* * * * * ** * * * *
16033741 ACTG-TAATCTTAGGGAGGTA-AAATTCGTCATCTTCGATCTGCTCCAC--T-ACTGCTTAGGGA
1 ACTGCT--GCTCAGGGAGATAGAACTAC-T-GGCTTCAATGTACTCCACTGTAAC--CTCAGGGA
* * ** * *
16033801 GATAAGATCTGTAATCTTCAATCTATTCC
60 GGTAAAATCTGCCATCTTCGATCTACTCC
* * * *
16033830 ACTGCTGCCCAGGGAGATAGAACTACTGGCTTCAATGTACTCCACTGTAATCTTAGAGAGGTAAA
1 ACTGCTGCTCAGGGAGATAGAACTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAA
* *
16033895 ATCCGCCATCTTCGATCTGCTCC
66 ATCTGCCATCTTCGATCTACTCC
* *
16033918 ACTACTGCTTAGGGAGATA
1 ACTGCTGCTCAGGGAGATA
16033937 AGTTTGGTGG
Statistics
Matches: 715, Mismatches: 203, Indels: 138
0.68 0.19 0.13
Matches are distributed among these distances:
83 1 0.00
84 9 0.01
85 6 0.01
86 9 0.01
87 98 0.14
88 440 0.62
89 124 0.17
90 16 0.02
91 12 0.02
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (88 bp):
ACTGCTGCTCAGGGAGATAGAACTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAA
ATCTGCCATCTTCGATCTACTCC
Found at i:16033052 original size:44 final size:44
Alignment explanation
Indices: 16033004--16033848 Score: 245
Period size: 44 Copynumber: 19.2 Consensus size: 44
16032994 CTGTAATCTC
* * * *
16033004 AGGGAGGTAAAATCTG-ACATCTTCGATCTGCTCCATTACTGCCT
1 AGGGAGATAAAATCTGTA-ATCTTCAATCTACTCCACTACTGCCT
* * *
16033048 AGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTACTGCCC
1 AGGGAGATAAAATCTGTAATCTTCAATCTACTCCACTACTGCCT
* * * * * *
16033092 AGGAAGATAGAA-CTACT-AGCTTCAATGTACTCCACTGTAAT--CT
1 AGGGAGATAAAATCT-GTAATCTTCAATCTACTCCAC--TACTGCCT
* * ** * * * **
16033135 CAGGGAGGTAAAATATGCCATCTTCGATCTGCTTCACTACTGTTT
1 -AGGGAGATAAAATCTGTAATCTTCAATCTACTCCACTACTGCCT
* ** * * * **
16033180 AGGGAGATAAGATCTGTGGTTTTCAATCTATTCCACT-GTTTCT
1 AGGGAGATAAAATCTGTAATCTTCAATCTACTCCACTACTGCCT
* * * * *
16033223 CAGGAAGATAGAACTACTG---GCTTCAATGTACTCCACTGTAAT--CT
1 -AGGGAGATA-AAAT-CTGTAATCTTCAATCTACTCCAC--TACTGCCT
* * ** * * *
16033267 CAGGGAGGTAAAATCCGCCATCTTCGATCTACTTCACTACTGCTT
1 -AGGGAGATAAAATCTGTAATCTTCAATCTACTCCACTACTGCCT
* * *
16033312 AGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTACTGCCC
1 AGGGAGATAAAATCTGTAATCTTCAATCTACTCCACTACTGCCT
* ** * *
16033356 AGGGAGATAGAA-CTGCT-GGCTTCAATGTACTCCACTGTAAT--CT
1 AGGGAGATAAAATCTG-TAATCTTCAATCTACTCCAC--TACTGCCT
* * * * * *
16033399 CAGGGAGGTAAAATCCGTTATCTTCGATCTGCTCCACTACTGCTT
1 -AGGGAGATAAAATCTGTAATCTTCAATCTACTCCACTACTGCCT
* * ** * * * *
16033444 AGGGAAATAAGATCTGTGGTTTTCAATCTATTCCACTGCTGCCC
1 AGGGAGATAAAATCTGTAATCTTCAATCTACTCCACTACTGCCT
* * * * ***
16033488 AGGGAGATAGAACTACTG---GCTTCAATGTACTCCACTGCAATCT
1 AGGGAGATA-AAAT-CTGTAATCTTCAATCTACTCCACTACTGCCT
* ** * * *
16033531 CAGGGAGGTAAAATCTGCCATCTTCGACCTACTCCACTGCTG-CT
1 -AGGGAGATAAAATCTGTAATCTTCAATCTACTCCACTACTGCCT
*** * ** * *
16033575 CAGGGAGATGAGGCTACTG---GCTTTTATGTACTCCACTGTAAT--CT
1 -AGGGAGAT-AAAAT-CTGTAATCTTCAATCTACTCCAC--TACTGCCT
* * *** * *
16033619 CAGTGAGGTAAAATCTACCATTTTCGATCTACTCCACTACTGCCT
1 -AGGGAGATAAAATCTGTAATCTTCAATCTACTCCACTACTGCCT
* * *
16033664 AGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCT
1 AGGGAGATAAAATCTGTAATCTTCAATCTACTCCACTACTGCCT
* * * * *
16033708 AGGGAGATAGAACTACTG---GCTTCAATATACTCCACTGTAAT-CTT
1 AGGGAGATA-AAAT-CTGTAATCTTCAATCTACTCCAC--TACTGCCT
* * * * *
16033752 AGGGAGGTAAAAT-TCGTCATCTTCGATCTGCTCCACTACTGCTT
1 AGGGAGATAAAATCT-GTAATCTTCAATCTACTCCACTACTGCCT
* * * *
16033796 AGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCC
1 AGGGAGATAAAATCTGTAATCTTCAATCTACTCCACTACTGCCT
16033840 AGGGAGATA
1 AGGGAGATA
16033849 GAACTACTGG
Statistics
Matches: 570, Mismatches: 178, Indels: 106
0.67 0.21 0.12
Matches are distributed among these distances:
41 1 0.00
42 8 0.01
43 121 0.21
44 318 0.56
45 109 0.19
46 13 0.02
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (44 bp):
AGGGAGATAAAATCTGTAATCTTCAATCTACTCCACTACTGCCT
Found at i:16033083 original size:132 final size:132
Alignment explanation
Indices: 16032916--16033583 Score: 951
Period size: 132 Copynumber: 5.1 Consensus size: 132
16032906 CTGTAACCTC
* * * * * * * *
16032916 AGGGAGGTAAAATCTGTCATCTTCGACCTACTCCACTGCTGCTCAGGGAGAT-GAGGCTACTGGC
1 AGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGA-ACTACTGGC
* *
16032980 TTCAATGTACTCCACTGTAATCTCAGGGAGGTAAAATCTGACATCTTCGATCTGCTCCATTACTG
65 TTCAATGTACTCCACTGTAATCTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTACTG
*
16033045 CCT
130 CTT
* * *
16033048 AGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTACTGCCCAGGAAGATAGAACTACTAGCT
1 AGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAACTACTGGCT
* * *
16033113 TCAATGTACTCCACTGTAATCTCAGGGAGGTAAAATATGCCATCTTCGATCTGCTTCACTACTGT
66 TCAATGTACTCCACTGTAATCTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTACTGC
16033178 TT
131 TT
** * * * * *
16033180 AGGGAGATAAGATCTGTGGTTTTCAATCTATTCCACTGTTTCTCAGGAAGATAGAACTACTGGCT
1 AGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAACTACTGGCT
* * *
16033245 TCAATGTACTCCACTGTAATCTCAGGGAGGTAAAATCCGCCATCTTCGATCTACTTCACTACTGC
66 TCAATGTACTCCACTGTAATCTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTACTGC
16033310 TT
131 TT
* *
16033312 AGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTACTGCCCAGGGAGATAGAACTGCTGGCT
1 AGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAACTACTGGCT
* **
16033377 TCAATGTACTCCACTGTAATCTCAGGGAGGTAAAATCCGTTATCTTCGATCTGCTCCACTACTGC
66 TCAATGTACTCCACTGTAATCTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTACTGC
16033442 TT
131 TT
* ** *
16033444 AGGGAAATAAGATCTGTGGTTTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAACTACTGGCT
1 AGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAACTACTGGCT
* * * *
16033509 TCAATGTACTCCACTGCAATCTCAGGGAGGTAAAATCTGCCATCTTCGACCTACTCCACTGCTGC
66 TCAATGTACTCCACTGTAATCTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTACTGC
*
16033574 TC
131 TT
16033576 AGGGAGAT
1 AGGGAGAT
16033584 GAGGCTACTG
Statistics
Matches: 478, Mismatches: 57, Indels: 2
0.89 0.11 0.00
Matches are distributed among these distances:
132 476 1.00
133 2 0.00
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (132 bp):
AGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAACTACTGGCT
TCAATGTACTCCACTGTAATCTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTACTGC
TT
Found at i:16033307 original size:220 final size:220
Alignment explanation
Indices: 16032809--16033309 Score: 489
Period size: 220 Copynumber: 2.3 Consensus size: 220
16032799 ACTTGATGCG
* * * * * * * * * *
16032809 ATCTGCTCCACTACTGCCTAGGGAAGATAAGAT-CGTAAACCTCAAACTATTCTACTGCTGCCCA
1 ATCTACTCCATTAATGCCTAGGG-AGATAAAATCCGCAATCTTCAATCTATTCCACTACTGCCCA
* * * *
16032873 GGGAGATAGAACTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGTCATCT
65 GGAAGATAGAACTACTAGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATATGCCATCT
* * *
16032938 TCGACCTACTCCACTGCTGCTCAGGGAGATGAGGCTACTGGCTTCAATGTACTCCACTGTAATCT
130 TCGACCTACTCCACTACTGCTCAGGGAGATAAGGCTACTGGCTTCAATCTACTCCACTGTAATCT
* * *
16033003 CAGGGAGGTAAAATCTGACATCTTCG
195 CAGGAAGATAAAATCTGACATCTTCA
* * * * *
16033029 ATCTGCTCCATTACTGCCTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTACTGCCCAG
1 ATCTACTCCATTAATGCCTAGGGAGATAAAATCCGCAATCTTCAATCTATTCCACTACTGCCCAG
*
16033094 GAAGATAGAACTACTAGCTTCAATGTACTCCACTGTAATCTCAGGGAGGTAAAATATGCCATCTT
66 GAAGATAGAACTACTAGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATATGCCATCTT
* * * * * * * * * *
16033159 CGATCTGCTTCACTACTGTTTAGGGAGATAAGATCT-GTGGTTTTCAATCTATTCCACTGT-TTC
131 CGACCTACTCCACTACTGCTCAGGGAGATAAG-GCTACTGG-CTTCAATCTACTCCACTGTAATC
*
16033222 TCAGGAAGATAGAA-CT-AC-TGGCTTCA
194 TCAGGAAGATAAAATCTGACAT--CTTCA
* * * *
16033248 ATGTACTCCACTGTAAT--CTCAGGGAGGTAAAATCCGCCATCTTCGATCTACTT-CACTACTGC
1 ATCTACTCCA-T-TAATGCCT-AGGGAGATAAAATCCGCAATCTTCAATCTA-TTCCACTACTGC
16033310 TTAGGGAGAT
Statistics
Matches: 234, Mismatches: 38, Indels: 18
0.81 0.13 0.06
Matches are distributed among these distances:
217 1 0.00
218 2 0.01
219 25 0.11
220 183 0.78
221 23 0.10
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (220 bp):
ATCTACTCCATTAATGCCTAGGGAGATAAAATCCGCAATCTTCAATCTATTCCACTACTGCCCAG
GAAGATAGAACTACTAGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATATGCCATCTT
CGACCTACTCCACTACTGCTCAGGGAGATAAGGCTACTGGCTTCAATCTACTCCACTGTAATCTC
AGGAAGATAAAATCTGACATCTTCA
Found at i:16033493 original size:352 final size:352
Alignment explanation
Indices: 16033201--16033935 Score: 1058
Period size: 352 Copynumber: 2.1 Consensus size: 352
16033191 ATCTGTGGTT
* * * *
16033201 TTCAATCTATTCCACTGTTTCTCAGGAAGAT-AGAACTACTGGCTTCAATGTACTCCACTGTAAT
1 TTCAACCTACTCCACTGCTGCTCAGGAAGATGAG-ACTACTGGCTTCAATGTACTCCACTGTAAT
* * *
16033265 CTCAGGGAGGTAAAATCCGCCATCTTCGATCTACTTCACTACTGCTTAGGGAGATAAGATCTGTA
65 CTCAGGGAGGTAAAATCCACCATCTTCGATCTACTCCACTACTGCCTAGGGAGATAAGATCTGTA
* *
16033330 ATCTTCAATCTATTCCACTACTGCCCAGGGAGATAGAACTGCTGGCTTCAATGTACTCCACTGTA
130 ATCTTCAATCTATTCCACTACTGCCCAGGGAGATAGAACTACTGGCTTCAATATACTCCACTGTA
*
16033395 ATCTCAGGGAGGTAAAATCCGTTATCTTCGATCTGCTCCACTACTGCTTAGGGAAATAAGATCTG
195 ATCTCAGGGAGGTAAAATCCGTCATCTTCGATCTGCTCCACTACTGCTTAGGGAAATAAGATCTG
** * * * *
16033460 TGGTTTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAACTACTGGCTTCAATGTACTCCACTG
260 TAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAAATACTGGCTTCAATCTACTCCACTA
*
16033525 CAATCTCAGGGAGGTAAAATCTGCCATC
325 CAATCTCAGGGAGATAAAATCTGCCATC
* * * **
16033553 TTCGACCTACTCCACTGCTGCTCAGGGAGATGAGGCTACTGGCTTTTATGTACTCCACTGTAATC
1 TTCAACCTACTCCACTGCTGCTCAGGAAGATGAGACTACTGGCTTCAATGTACTCCACTGTAATC
* * *
16033618 TCAGTGAGGTAAAATCTACCATTTTCGATCTACTCCACTACTGCCTAGGGAGATAAGATCTGTAA
66 TCAGGGAGGTAAAATCCACCATCTTCGATCTACTCCACTACTGCCTAGGGAGATAAGATCTGTAA
* *
16033683 TCTTCAATCTATTCCACTGCTGCCTAGGGAGATAGAACTACTGGCTTCAATATACTCCACTGTAA
131 TCTTCAATCTATTCCACTACTGCCCAGGGAGATAGAACTACTGGCTTCAATATACTCCACTGTAA
* * *
16033748 TCTTAGGGAGGTAAAATTCGTCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGT
196 TCTCAGGGAGGTAAAATCCGTCATCTTCGATCTGCTCCACTACTGCTTAGGGAAATAAGATCTGT
* * **
16033813 AATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAACTACTGGCTTCAATGTACTCCACTGT
261 AATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAAATACTGGCTTCAATCTACTCCACTAC
* * * *
16033878 AATCTTAGAGAGGTAAAATCCGCCATC
326 AATCTCAGGGAGATAAAATCTGCCATC
* * * * * *
16033905 TTCGATCTGCTCCACTACTGCTTAGGGAGAT
1 TTCAACCTACTCCACTGCTGCTCAGGAAGAT
16033936 AAGTTTGGTG
Statistics
Matches: 348, Mismatches: 34, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
352 346 0.99
353 2 0.01
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (352 bp):
TTCAACCTACTCCACTGCTGCTCAGGAAGATGAGACTACTGGCTTCAATGTACTCCACTGTAATC
TCAGGGAGGTAAAATCCACCATCTTCGATCTACTCCACTACTGCCTAGGGAGATAAGATCTGTAA
TCTTCAATCTATTCCACTACTGCCCAGGGAGATAGAACTACTGGCTTCAATATACTCCACTGTAA
TCTCAGGGAGGTAAAATCCGTCATCTTCGATCTGCTCCACTACTGCTTAGGGAAATAAGATCTGT
AATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAAATACTGGCTTCAATCTACTCCACTAC
AATCTCAGGGAGATAAAATCTGCCATC
Found at i:16033656 original size:220 final size:220
Alignment explanation
Indices: 16033343--16033804 Score: 658
Period size: 220 Copynumber: 2.1 Consensus size: 220
16033333 TTCAATCTAT
* *
16033343 TCCACTACTGCCCAGGGAGATAGAACTGCTGGCTTCAATGTACTCCACTGTAATCTCAGGGAGGT
1 TCCACTACTGCTCAGGGAGATAGAACTACTGGCTTCAATGTACTCCACTGTAATCTCAGGGAGGT
*** * * ** *
16033408 AAAATCCGTTATCTTCGATCTGCTCCACTACTGCTTAGGGAAATAAGATCTGTGGTTTTCAATCT
66 AAAATCCACCATCTTCGATCTACTCCACTACTGCCTAGGGAAATAAGATCTGTAATCTTCAATCT
*
16033473 ATTCCACTGCTGCCCAGGGAGATAGAACTACTGGCTTCAATGTACTCCACTGCAATCTCAGGGAG
131 ATTCCACTGCTGCCCAGGGAGATAGAACTACTGGCTTCAATATACTCCACTGCAATCTCAGGGAG
16033538 GTAAAA-TCTGCCATCTTCGACCTAC
196 GTAAAATTC-GCCATCTTCGACCTAC
* * ** *
16033563 TCCACTGCTGCTCAGGGAGAT-GAGGCTACTGGCTTTTATGTACTCCACTGTAATCTCAGTGAGG
1 TCCACTACTGCTCAGGGAGATAGA-ACTACTGGCTTCAATGTACTCCACTGTAATCTCAGGGAGG
* * *
16033627 TAAAATCTACCATTTTCGATCTACTCCACTACTGCCTAGGGAGATAAGATCTGTAATCTTCAATC
65 TAAAATCCACCATCTTCGATCTACTCCACTACTGCCTAGGGAAATAAGATCTGTAATCTTCAATC
* * *
16033692 TATTCCACTGCTGCCTAGGGAGATAGAACTACTGGCTTCAATATACTCCACTGTAATCTTAGGGA
130 TATTCCACTGCTGCCCAGGGAGATAGAACTACTGGCTTCAATATACTCCACTGCAATCTCAGGGA
* * *
16033757 GGTAAAATTCGTCATCTTCGATCTGC
195 GGTAAAATTCGCCATCTTCGACCTAC
*
16033783 TCCACTACTGCTTAGGGAGATA
1 TCCACTACTGCTCAGGGAGATA
16033805 AGATCTGTAA
Statistics
Matches: 212, Mismatches: 27, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
219 2 0.01
220 208 0.98
221 2 0.01
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (220 bp):
TCCACTACTGCTCAGGGAGATAGAACTACTGGCTTCAATGTACTCCACTGTAATCTCAGGGAGGT
AAAATCCACCATCTTCGATCTACTCCACTACTGCCTAGGGAAATAAGATCTGTAATCTTCAATCT
ATTCCACTGCTGCCCAGGGAGATAGAACTACTGGCTTCAATATACTCCACTGCAATCTCAGGGAG
GTAAAATTCGCCATCTTCGACCTAC
Found at i:16033668 original size:132 final size:130
Alignment explanation
Indices: 16033563--16033938 Score: 567
Period size: 132 Copynumber: 2.8 Consensus size: 130
16033553 TTCGACCTAC
* ** * *
16033563 TCCACTGCTGCTCAGGGAGAT-GAGGCTACTGGCTTTTATGTACTCCACTGTAATCTCAGTGAGG
1 TCCACTGCTGC-CAGGGAGATAGA-ACTACTGGCTTCAATGTACTCCACTGTAATCTTAGAGAGG
* * *
16033627 TAAAATCTACCATTTTCGATCTACTCCACTACTGCCTAGGGAGATAAGATCTGTAATCTTCAATC
64 TAAAATCT-CCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATC
16033692 TAT
128 TAT
* *
16033695 TCCACTGCTGCCTAGGGAGATAGAACTACTGGCTTCAATATACTCCACTGTAATCTTAGGGAGGT
1 TCCACTGCTGCC-AGGGAGATAGAACTACTGGCTTCAATGTACTCCACTGTAATCTTAGAGAGGT
16033760 AAAAT-TCGTCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATC
65 AAAATCTC--CATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATC
16033824 TAT
128 TAT
16033827 TCCACTGCTGCCCAGGGAGATAGAACTACTGGCTTCAATGTACTCCACTGTAATCTTAGAGAGGT
1 TCCACTGCTG-CCAGGGAGATAGAACTACTGGCTTCAATGTACTCCACTGTAATCTTAGAGAGGT
*
16033892 AAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAG
65 AAAAT-CTCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAG
16033939 TTTGGTGGTT
Statistics
Matches: 225, Mismatches: 12, Indels: 14
0.90 0.05 0.06
Matches are distributed among these distances:
130 1 0.00
131 2 0.01
132 217 0.96
133 4 0.02
134 1 0.00
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.30
Consensus pattern (130 bp):
TCCACTGCTGCCAGGGAGATAGAACTACTGGCTTCAATGTACTCCACTGTAATCTTAGAGAGGTA
AAATCTCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTAT
Found at i:16033713 original size:396 final size:394
Alignment explanation
Indices: 16032916--16033716 Score: 977
Period size: 396 Copynumber: 2.0 Consensus size: 394
16032906 CTGTAACCTC
* * * * * *
16032916 AGGGAGGTAAAATCTGTCATCTTCGACCTACTCCACTGCTGCTCAGGGAGATGAGGCTACTGGCT
1 AGGGAGATAAAATCTGTAATCTTCAACCTACTCCACTACTGCCCAGGGAGATGAGACTACTGGCT
* *
16032981 TCAATGTACTCCACTGTAATCTCAGGGAGGTAAAATCTGACATCTTCGATCTGCTCCATTACTGC
66 TCAATGTACTCCACTGTAATCTCAGGGAGGTAAAATCCGACATCTTCGATCTGCTCCACTACTGC
*
16033046 CTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTACTGCCCAGGAAGATAGAACTACTAG
131 CTAGGGAAATAAGATCTGTAATCTTCAATCTATTCCACTACTGCCCAGGAAGATAGAACTACTAG
* * * *
16033111 CTTCAATGTACTCCACTGTAATCTCAGGGAGGTAAAATATGCCATCTTCGATCTGCTTCACTACT
196 CTTCAATGTACTCCACTGCAATCTCAGGGAGGTAAAATATGCCATCTTCGACCTACTCCACTACT
* * * * * * *
16033176 GTTTAGGGAGATAAGATCTGTGGTTTTCAATCTATTCCACTGTTTCTCAGGAAGATAGAACTACT
261 GCTCAGGGAGATAAGATCTGTGCTTTT-AATCTACTCCACTGTATCTCAGGAAGATAAAACTACC
* * * * *
16033241 GGCTTCAATGTACTCCACTGTAATCTCAGGGAGGTAAAATCCGCCATCTTCGATCTACTTCACTA
325 AGCTTCAATCTACTCCAC-GTAATCTCAGGGAGATAAAATCCGCAATCTTCAATCTACTTCACTA
*
16033306 CTGCTT
389 CTGCCT
* * * *
16033312 AGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTACTGCCCAGGGAGAT-AGAACTGCTGGC
1 AGGGAGATAAAATCTGTAATCTTCAACCTACTCCACTACTGCCCAGGGAGATGAG-ACTACTGGC
**
16033376 TTCAATGTACTCCACTGTAATCTCAGGGAGGTAAAATCCGTTATCTTCGATCTGCTCCACTACTG
65 TTCAATGTACTCCACTGTAATCTCAGGGAGGTAAAATCCGACATCTTCGATCTGCTCCACTACTG
* ** * * * *
16033441 CTTAGGGAAATAAGATCTGTGGTTTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAACTACTG
130 CCTAGGGAAATAAGATCTGTAATCTTCAATCTATTCCACTACTGCCCAGGAAGATAGAACTACTA
* *
16033506 GCTTCAATGTACTCCACTGCAATCTCAGGGAGGTAAAATCTGCCATCTTCGACCTACTCCACTGC
195 GCTTCAATGTACTCCACTGCAATCTCAGGGAGGTAAAATATGCCATCTTCGACCTACTCCACTAC
* * * *
16033571 TGCTCAGGGAGATGAGGCTACTG-GCTTTT-ATGTACTCCACTGTAATCTCAGTG-AGGTAAAAT
260 TGCTCAGGGAGAT-AAGAT-CTGTGCTTTTAATCTACTCCACTGT-ATCTCAG-GAAGATAAAA-
** * * * * *
16033633 CTACCATTTTCGATCTACTCCAC-TACTGC-CTAGGGAGATAAGATCTGTAATCTTCAATCTA-T
320 CTACCAGCTTCAATCTACTCCACGTAAT-CTC-AGGGAGATAAAATCCGCAATCTTCAATCTACT
*
16033695 TCCACTGCTGCCT
383 T-CACTACTGCCT
16033708 AGGGAGATA
1 AGGGAGATA
16033717 GAACTACTGG
Statistics
Matches: 343, Mismatches: 53, Indels: 18
0.83 0.13 0.04
Matches are distributed among these distances:
395 20 0.06
396 294 0.86
397 26 0.08
398 3 0.01
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.30
Consensus pattern (394 bp):
AGGGAGATAAAATCTGTAATCTTCAACCTACTCCACTACTGCCCAGGGAGATGAGACTACTGGCT
TCAATGTACTCCACTGTAATCTCAGGGAGGTAAAATCCGACATCTTCGATCTGCTCCACTACTGC
CTAGGGAAATAAGATCTGTAATCTTCAATCTATTCCACTACTGCCCAGGAAGATAGAACTACTAG
CTTCAATGTACTCCACTGCAATCTCAGGGAGGTAAAATATGCCATCTTCGACCTACTCCACTACT
GCTCAGGGAGATAAGATCTGTGCTTTTAATCTACTCCACTGTATCTCAGGAAGATAAAACTACCA
GCTTCAATCTACTCCACGTAATCTCAGGGAGATAAAATCCGCAATCTTCAATCTACTTCACTACT
GCCT
Found at i:16034098 original size:100 final size:99
Alignment explanation
Indices: 16033951--16034152 Score: 264
Period size: 100 Copynumber: 2.0 Consensus size: 99
16033941 TGGTGGTTTT
* * * * *
16033951 AATCCTTTTAATTATAATGTTGGGGAACACGATTCACCATTGTAGCTTCAATCAGTTCCACTGCA
1 AATCCTTTTAATTATAATGTCGGCGAACAAGATTCACCATCGTAGCTTCAATCAGATCCACTGCA
*
16034016 CCA-CTAGGAAAGTAAGATTCACCGTTGCGGCTTC
66 CCACCAAGG-AAGTAAGATTCACCGTTGCGGCTTC
* * * *
16034050 AATCTTTTTAATTGA-AATGTCGGCGAAGCAAGATTCACCGTCGTAGCTTCAATCTGATCTACTG
1 AATCCTTTTAATT-ATAATGTCGGCGAA-CAAGATTCACCATCGTAGCTTCAATCAGATCCACTG
*
16034114 CACCACCAAGGAAGTAAGATTCACTGTTGCGGCTTC
64 CACCACCAAGGAAGTAAGATTCACCGTTGCGGCTTC
16034150 AAT
1 AAT
16034153 GTAAGATTCA
Statistics
Matches: 89, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
99 22 0.25
100 63 0.71
101 4 0.04
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.30
Consensus pattern (99 bp):
AATCCTTTTAATTATAATGTCGGCGAACAAGATTCACCATCGTAGCTTCAATCAGATCCACTGCA
CCACCAAGGAAGTAAGATTCACCGTTGCGGCTTC
Found at i:16034156 original size:26 final size:26
Alignment explanation
Indices: 16034127--16034178 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
16034117 CACCAAGGAA
16034127 GTAAGATTCACTGTTGCGGCTTCAAT
1 GTAAGATTCACTGTTGCGGCTTCAAT
16034153 GTAAGATTCACTGTTGCGGCTTCAAT
1 GTAAGATTCACTGTTGCGGCTTCAAT
16034179 CTTTTTAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.35
Consensus pattern (26 bp):
GTAAGATTCACTGTTGCGGCTTCAAT
Found at i:16034253 original size:126 final size:126
Alignment explanation
Indices: 16034027--16034278 Score: 317
Period size: 126 Copynumber: 2.0 Consensus size: 126
16034017 CACTAGGAAA
*
16034027 GTAAGATTCACCGTTGCGGCTTCAATCTTTTTAATTGAAATGTCGGCGAAGCAAGATTCACCGTC
1 GTAAGATTCACCGTTGCGGCTTCAATCTTTTTAATTGAAATGTCGGCGAAGCAAGATTCACCATC
* * *
16034092 GTAGCTTCAATCTGATCTACTGCACCACCAAGGAAGTAAGATTCACT-GTTGCGGCTTCAAT
66 GTAGCTTCAATCTGACCCACTACACCACCAAGGAAGTAAGATTC-CTCGTTGCGGCTTCAAT
* * * * **
16034153 GTAAGATTCACTGTTGCGGCTTCAATCTTTTTAATTGCAATGTCGGGGTAGCAAGATTTGCCATC
1 GTAAGATTCACCGTTGCGGCTTCAATCTTTTTAATTGAAATGTCGGCGAAGCAAGATTCACCATC
* * * * * ** * *
16034218 GTAGCTTTAATCTGCCCCGCTACATCGCCTGGGAAGTAAGATTCGTCGTTGTGGCTTCAAT
66 GTAGCTTCAATCTGACCCACTACACCACCAAGGAAGTAAGATTCCTCGTTGCGGCTTCAAT
16034279 CTTTTAAATT
Statistics
Matches: 106, Mismatches: 19, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
125 1 0.01
126 105 0.99
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.31
Consensus pattern (126 bp):
GTAAGATTCACCGTTGCGGCTTCAATCTTTTTAATTGAAATGTCGGCGAAGCAAGATTCACCATC
GTAGCTTCAATCTGACCCACTACACCACCAAGGAAGTAAGATTCCTCGTTGCGGCTTCAAT
Found at i:16034330 original size:50 final size:50
Alignment explanation
Indices: 16034171--16034330 Score: 124
Period size: 50 Copynumber: 3.2 Consensus size: 50
16034161 CACTGTTGCG
* * *
16034171 GCTTCAATCTTTTTAATTGCAATGTCGGGGTAGCAAGATTTGCCATCGTA
1 GCTTCAATCTTTTAAATTGCAATGTCGGGGAAGCAAGATTTGCCGTCGTA
* ******* * * * * * * * *
16034221 GCTTTAATCTGCCCCGCTAC-ATCGCCTGGGAAGTAAGATTCGTCGTTGTG
1 GCTTCAATCTTTTAAATTGCAAT-GTCGGGGAAGCAAGATTTGCCGTCGTA
16034271 GCTTCAATCTTTTAAATTGCAATGTCGGGGAAGCAAGATTTGCCGTCGTA
1 GCTTCAATCTTTTAAATTGCAATGTCGGGGAAGCAAGATTTGCCGTCGTA
*
16034321 GCTTTAATCT
1 GCTTCAATCT
16034331 GCCCCACTGC
Statistics
Matches: 73, Mismatches: 35, Indels: 4
0.65 0.31 0.04
Matches are distributed among these distances:
49 2 0.03
50 69 0.95
51 2 0.03
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.34
Consensus pattern (50 bp):
GCTTCAATCTTTTAAATTGCAATGTCGGGGAAGCAAGATTTGCCGTCGTA
Found at i:16034495 original size:43 final size:43
Alignment explanation
Indices: 16034407--16034589 Score: 233
Period size: 43 Copynumber: 4.2 Consensus size: 43
16034397 AGATCTGTTT
* * *
16034407 TCTTCGATCCACTTTGCC-ACCAGTATGGGAAGACAAGATCTGCA
1 TCTTCGATCCAC-TT-CCTACCAATATAGGAAAACAAGATCTGCA
16034451 TCTTCGATCCACTTCCTACCAATATAGGAAAACAAGATCTGCA
1 TCTTCGATCCACTTCCTACCAATATAGGAAAACAAGATCTGCA
* **
16034494 TCTTTGATCCACTTTTTACCAATATAGGAAAACAAGATCTGCA
1 TCTTCGATCCACTTCCTACCAATATAGGAAAACAAGATCTGCA
* * * * *
16034537 TCTTTGATCCACTTCCTACCAATATAGGAAGACAGGACCTACTA
1 TCTTCGATCCACTTCCTACCAATATAGGAAAACAAGATCTGC-A
16034581 TCTTCGATC
1 TCTTCGATC
16034590 TATTTCACGC
Statistics
Matches: 124, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
42 2 0.02
43 101 0.81
44 21 0.17
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.28
Consensus pattern (43 bp):
TCTTCGATCCACTTCCTACCAATATAGGAAAACAAGATCTGCA
Found at i:16035190 original size:49 final size:49
Alignment explanation
Indices: 16035137--16035301 Score: 118
Period size: 49 Copynumber: 3.2 Consensus size: 49
16035127 GGAAAAATTG
16035137 AAATTTTGTTGAGAGCAAAGCTCTAAACAAACAAATCAATCAAGATAGC
1 AAATTTTGTTGAGAGCAAAGCTCTAAACAAACAAATCAATCAAGATAGC
** * * * * * * * *
16035186 AAATTTTACTGAGATACGAGATG-TATAAGATGAAAAAGATTATCAAAATGGAAAAATTG-
1 AAATTTTGTTGAGA-GC-A-AAGCTCTAA-A-CAAACA-A--ATC--AAT--CAAGATAGC
16035245 AAATTTTGTTGAGAGCAAAGCTCTAAACAAACAAATCAATCAAGATAGC
1 AAATTTTGTTGAGAGCAAAGCTCTAAACAAACAAATCAATCAAGATAGC
16035294 AAATTTTG
1 AAATTTTG
16035302 CTAGAATACA
Statistics
Matches: 82, Mismatches: 20, Indels: 28
0.63 0.15 0.22
Matches are distributed among these distances:
48 5 0.06
49 20 0.24
50 4 0.05
51 5 0.06
52 6 0.07
53 4 0.05
54 2 0.02
55 4 0.05
56 6 0.07
57 5 0.06
58 4 0.05
59 12 0.15
60 5 0.06
ACGTcount: A:0.47, C:0.12, G:0.16, T:0.25
Consensus pattern (49 bp):
AAATTTTGTTGAGAGCAAAGCTCTAAACAAACAAATCAATCAAGATAGC
Found at i:16036128 original size:9 final size:9
Alignment explanation
Indices: 16036109--16036166 Score: 53
Period size: 9 Copynumber: 6.1 Consensus size: 9
16036099 TGTAGAGGTT
16036109 TTTTGTTTTG
1 TTTT-TTTTG
16036119 TTTTTTTTG
1 TTTTTTTTG
* *
16036128 TCTCTTTTG
1 TTTTTTTTG
16036137 TTCTTTTTTTG
1 -T-TTTTTTTG
* *
16036148 TGTTTTTGG
1 TTTTTTTTG
16036157 TTTTTTTTG
1 TTTTTTTTG
16036166 T
1 T
16036167 CTCCACTGAA
Statistics
Matches: 38, Mismatches: 8, Indels: 5
0.75 0.16 0.10
Matches are distributed among these distances:
9 26 0.68
10 6 0.16
11 6 0.16
ACGTcount: A:0.00, C:0.05, G:0.16, T:0.79
Consensus pattern (9 bp):
TTTTTTTTG
Found at i:16036145 original size:20 final size:19
Alignment explanation
Indices: 16036114--16036169 Score: 71
Period size: 18 Copynumber: 3.0 Consensus size: 19
16036104 AGGTTTTTTG
16036114 TTTT-GTTTTTTTTGTCTC
1 TTTTGGTTTTTTTTGTCTC
* *
16036132 TTTTGTTCTTTTTTTGTGT-
1 TTTTGGT-TTTTTTTGTCTC
16036151 TTTTGGTTTTTTTTGTCTC
1 TTTTGGTTTTTTTTGTCTC
16036170 CACTGAACCG
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
18 14 0.45
19 7 0.23
20 10 0.32
ACGTcount: A:0.00, C:0.09, G:0.14, T:0.77
Consensus pattern (19 bp):
TTTTGGTTTTTTTTGTCTC
Found at i:16051120 original size:20 final size:20
Alignment explanation
Indices: 16051073--16051122 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
16051063 TTGTACGAGA
16051073 TATACACTTCGGTGCCTCTG
1 TATACACTTCGGTGCCTCTG
* *
16051093 TTTGCACTTCGGTGCCTCTG
1 TATACACTTCGGTGCCTCTG
16051113 TATACACTTC
1 TATACACTTC
16051123 AGTGTCCATG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.14, C:0.30, G:0.18, T:0.38
Consensus pattern (20 bp):
TATACACTTCGGTGCCTCTG
Found at i:16065099 original size:36 final size:36
Alignment explanation
Indices: 16065046--16065190 Score: 283
Period size: 36 Copynumber: 4.1 Consensus size: 36
16065036 CTATATAGGA
16065046 TTACTT-AAAAAATGATGGAAGAATGAGTTTATGTT
1 TTACTTAAAAAAATGATGGAAGAATGAGTTTATGTT
16065081 TTACTTAAAAAAATGATGGAAGAATGAGTTTATGTT
1 TTACTTAAAAAAATGATGGAAGAATGAGTTTATGTT
16065117 TTACTTAAAAAAATGATGGAAGAATGAGTTTATGTT
1 TTACTTAAAAAAATGATGGAAGAATGAGTTTATGTT
16065153 TTACTTAAAAAAATGATGGAAGAATGAGTTTATGTT
1 TTACTTAAAAAAATGATGGAAGAATGAGTTTATGTT
16065189 TT
1 TT
16065191 CGGACTGTTT
Statistics
Matches: 109, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
35 6 0.06
36 103 0.94
ACGTcount: A:0.41, C:0.03, G:0.19, T:0.37
Consensus pattern (36 bp):
TTACTTAAAAAAATGATGGAAGAATGAGTTTATGTT
Found at i:16065309 original size:26 final size:25
Alignment explanation
Indices: 16065278--16065349 Score: 90
Period size: 26 Copynumber: 2.8 Consensus size: 25
16065268 GATTTTCTTG
*
16065278 AAATTTTATTGGGGGTAAAATCGTTA
1 AAATTTTATT-GGGGTAAAATCGTCA
*
16065304 AAATTTTATTAGGGGTAAAATTGTCA
1 AAATTTTATT-GGGGTAAAATCGTCA
* *
16065330 AAATCTTACTGGGGTAAAAT
1 AAATTTTATTGGGGTAAAAT
16065350 TGGGGTGAGA
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
25 10 0.24
26 31 0.76
ACGTcount: A:0.38, C:0.06, G:0.21, T:0.36
Consensus pattern (25 bp):
AAATTTTATTGGGGTAAAATCGTCA
Found at i:16070157 original size:39 final size:39
Alignment explanation
Indices: 16070102--16070271 Score: 180
Period size: 39 Copynumber: 4.4 Consensus size: 39
16070092 TGAATATTGG
* * * *
16070102 GATATATTCTTGAATGTTATGCGATTATACGAGTATTAT
1 GATATATGCTTAAATGTTATGTGATTATATGAGTATTAT
** *
16070141 GATATATGCTTAAATGTTATGTGAGTT-TAAAAGTATTGT
1 GATATATGCTTAAATGTTATGTGA-TTATATGAGTATTAT
*
16070180 GATATATGCTTAAATGTTATGTGATTATTTGAGTATTAT
1 GATATATGCTTAAATGTTATGTGATTATATGAGTATTAT
* *** * * * *
16070219 GATATATGATGGTATGTTAGGTGATTATATGTGTAATAG
1 GATATATGCTTAAATGTTATGTGATTATATGAGTATTAT
16070258 GATATATGCTTAAA
1 GATATATGCTTAAA
16070272 AGTGAATATG
Statistics
Matches: 106, Mismatches: 23, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
38 2 0.02
39 102 0.96
40 2 0.02
ACGTcount: A:0.32, C:0.04, G:0.21, T:0.44
Consensus pattern (39 bp):
GATATATGCTTAAATGTTATGTGATTATATGAGTATTAT
Found at i:16070202 original size:22 final size:22
Alignment explanation
Indices: 16070140--16070204 Score: 61
Period size: 22 Copynumber: 3.2 Consensus size: 22
16070130 ACGAGTATTA
16070140 TGATATATGCTTAAATGTTATG
1 TGATATATGCTTAAATGTTATG
* *
16070162 TG----A-GTTTAAAAG-TATTG
1 TGATATATGCTTAAATGTTA-TG
16070179 TGATATATGCTTAAATGTTATG
1 TGATATATGCTTAAATGTTATG
16070201 TGAT
1 TGAT
16070205 TATTTGAGTA
Statistics
Matches: 32, Mismatches: 4, Indels: 14
0.64 0.08 0.28
Matches are distributed among these distances:
16 2 0.06
17 11 0.34
18 1 0.03
21 1 0.03
22 15 0.47
23 2 0.06
ACGTcount: A:0.32, C:0.03, G:0.20, T:0.45
Consensus pattern (22 bp):
TGATATATGCTTAAATGTTATG
Found at i:16073654 original size:14 final size:14
Alignment explanation
Indices: 16073634--16073674 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
16073624 AAAATTCAAT
*
16073634 ATAAATCCTAAGCA
1 ATAAATCCTAAACA
*
16073648 TTAAATCCTAAACA
1 ATAAATCCTAAACA
*
16073662 ATAAATTCTAAAC
1 ATAAATCCTAAAC
16073675 TGGAAACTAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.51, C:0.20, G:0.02, T:0.27
Consensus pattern (14 bp):
ATAAATCCTAAACA
Found at i:16074220 original size:16 final size:16
Alignment explanation
Indices: 16074199--16074250 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
16074189 TTTGGTTCGC
16074199 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
16074215 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* *
16074231 TGTAATGGAATAGAGG
1 TGTATTGGATTAGAGG
16074247 TGTA
1 TGTA
16074251 ATAGCAAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.29, C:0.00, G:0.37, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:16074336 original size:39 final size:43
Alignment explanation
Indices: 16074231--16074340 Score: 129
Period size: 45 Copynumber: 2.6 Consensus size: 43
16074221 GGATTAGAGG
16074231 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTT--A
* * ***
16074276 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGG-T-
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTA
16074316 TG-AATGGAATAGAGGTGTAATAGCA
1 TGTAATGGAATAGAGGTGTAATAGCA
16074341 TAATGGAAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
39 20 0.35
40 2 0.04
43 1 0.02
44 11 0.19
45 23 0.40
ACGTcount: A:0.34, C:0.05, G:0.29, T:0.32
Consensus pattern (43 bp):
TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTA
Found at i:16074507 original size:18 final size:17
Alignment explanation
Indices: 16074486--16074520 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
16074476 TTATTATTAA
*
16074486 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
16074504 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
16074521 TCTTANNNNN
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:16082999 original size:3 final size:3
Alignment explanation
Indices: 16082991--16083026 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
16082981 TATTAGGCTC
* *
16082991 ATT ATT ATT ATT ATT ATT ATT ATT ATC ATT AAT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
16083027 TTCGTATTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:16083360 original size:25 final size:26
Alignment explanation
Indices: 16083309--16083362 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 26
16083299 GTATACTTAT
*
16083309 ATACATTTTATAATACATAGATGTAC
1 ATACATTTTATAATACATAGATATAC
** *
16083335 ATACA-TTTATAATTTATATATATAC
1 ATACATTTTATAATACATAGATATAC
16083360 ATA
1 ATA
16083363 TATATTTGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
25 19 0.79
26 5 0.21
ACGTcount: A:0.44, C:0.09, G:0.04, T:0.43
Consensus pattern (26 bp):
ATACATTTTATAATACATAGATATAC
Found at i:16083928 original size:72 final size:72
Alignment explanation
Indices: 16083817--16083959 Score: 216
Period size: 72 Copynumber: 2.0 Consensus size: 72
16083807 TCTTTTCAAA
* * * * *
16083817 CTCAAGTTTTAAATGATCTCGGGAATTAAGAAGAAATCGTGTCCTAACTTATTGGGCATGATCCT
1 CTCAAGTTTTAAACGATCTCGAGAATTAAGAAGAAATCGTGTCATAACTTACTGGGCATGATCCC
16083882 TTTTTTT
66 TTTTTTT
*
16083889 CTCAAGTTTTAAACGATCTTGAGAATTAAGAA-AAGATCGTGTCATAACTTACTGGGCATGATCC
1 CTCAAGTTTTAAACGATCTCGAGAATTAAGAAGAA-ATCGTGTCATAACTTACTGGGCATGATCC
16083953 CTTTTTT
65 CTTTTTT
16083960 AAATCTGAGA
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
71 2 0.03
72 62 0.97
ACGTcount: A:0.29, C:0.16, G:0.17, T:0.37
Consensus pattern (72 bp):
CTCAAGTTTTAAACGATCTCGAGAATTAAGAAGAAATCGTGTCATAACTTACTGGGCATGATCCC
TTTTTTT
Found at i:16089167 original size:18 final size:19
Alignment explanation
Indices: 16089138--16089187 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 19
16089128 TAAAAAATAG
*
16089138 GAAAAAATAAGAAAG-AAA
1 GAAAAAAGAAGAAAGAAAA
*
16089156 GAAAGAAGAAG-AAGAAAA
1 GAAAAAAGAAGAAAGAAAA
16089174 GAAAAAAGAA-AAAG
1 GAAAAAAGAAGAAAG
16089188 GAGAGGCCAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 3 0.11
18 24 0.89
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (19 bp):
GAAAAAAGAAGAAAGAAAA
Found at i:16090585 original size:100 final size:99
Alignment explanation
Indices: 16090406--16090722 Score: 490
Period size: 100 Copynumber: 3.2 Consensus size: 99
16090396 AAGTCGCAGC
*
16090406 GGAACAGATTGAAGCTACAATAGCGAATCTTGCTTCCCTGACATTGCAGTTAAATAGATTGAAGC
1 GGAACAGATTGAAGCTACAACAGCGAATCTTGCTTCCCTGACATTGCAGTTAAATAGATTGAAGC
*
16090471 TACAACAGTGAATCTTACTTCTCTGGCGGTGTAGT
66 TACAACAGCGAATCTTACTTCTCTGGC-GTGTAGT
16090506 GGAACAGATTGAAGCTACAACAGCGAATCTTGCTTCCCTGACATTGCAGTTAAATAGATTGAAGC
1 GGAACAGATTGAAGCTACAACAGCGAATCTTGCTTCCCTGACATTGCAGTTAAATAGATTGAAGC
* * *
16090571 TACAACAGCAAATCTTACTTCACTAGCAGTGTAGT
66 TACAACAGCGAATCTTACTTCTCTGGC-GTGTAGT
* * *
16090606 GGAACAAATTGAAGCTACAACAGTGAATCTTGCTTCCCCGACATTGCAGTTAAATAGATTGAAGC
1 GGAACAGATTGAAGCTACAACAGCGAATCTTGCTTCCCTGACATTGCAGTTAAATAGATTGAAGC
* * *
16090671 TACAATAGCGAATCTTATTTCTCTGGCATGGTAGT
66 TACAACAGCGAATCTTACTTCTCTGGCGT-GTAGT
* *
16090706 TGAACAGATTAAAGCTA
1 GGAACAGATTGAAGCTA
16090723 AAGGTAGCGA
Statistics
Matches: 198, Mismatches: 18, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
99 1 0.01
100 197 0.99
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (99 bp):
GGAACAGATTGAAGCTACAACAGCGAATCTTGCTTCCCTGACATTGCAGTTAAATAGATTGAAGC
TACAACAGCGAATCTTACTTCTCTGGCGTGTAGT
Found at i:16090715 original size:50 final size:50
Alignment explanation
Indices: 16090407--16090773 Score: 340
Period size: 50 Copynumber: 7.3 Consensus size: 50
16090397 AGTCGCAGCG
* * *
16090407 GAACAGATTGAAGCTACAATAGCGAATCTTGCTTCCCTGACATTGCAGTT
1 GAACAGATTGAAGCTACAACAGCGAATCTTGCTTCCCTGGCATTGTAGTT
* * * * * ** *
16090457 AAATAGATTGAAGCTACAACAGTGAATCTTACTTCTCTGGCGGTGTAGTG
1 GAACAGATTGAAGCTACAACAGCGAATCTTGCTTCCCTGGCATTGTAGTT
* *
16090507 GAACAGATTGAAGCTACAACAGCGAATCTTGCTTCCCTGACATTGCAGTT
1 GAACAGATTGAAGCTACAACAGCGAATCTTGCTTCCCTGGCATTGTAGTT
* * * * * * * *
16090557 AAATAGATTGAAGCTACAACAGCAAATCTTACTTCACTAGCAGTGTAGTG
1 GAACAGATTGAAGCTACAACAGCGAATCTTGCTTCCCTGGCATTGTAGTT
* * * * *
16090607 GAACAAATTGAAGCTACAACAGTGAATCTTGCTTCCCCGACATTGCAGTT
1 GAACAGATTGAAGCTACAACAGCGAATCTTGCTTCCCTGGCATTGTAGTT
* * * ** * *
16090657 AAATAGATTGAAGCTACAATAGCGAATCTTATTTCTCTGGCATGGTAGTT
1 GAACAGATTGAAGCTACAACAGCGAATCTTGCTTCCCTGGCATTGTAGTT
* * * * * *
16090707 GAACAGATTAAAGCTA-AAGGTAGCGAATCTTGTTTCCTTGGCGTTGTAGTG
1 GAACAGATTGAAGCTACAA--CAGCGAATCTTGCTTCCCTGGCATTGTAGTT
* *
16090758 GAATAGATTAAAGCTA
1 GAACAGATTGAAGCTA
16090774 AAGCGGAGTA
Statistics
Matches: 249, Mismatches: 66, Indels: 3
0.78 0.21 0.01
Matches are distributed among these distances:
49 2 0.01
50 207 0.83
51 40 0.16
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (50 bp):
GAACAGATTGAAGCTACAACAGCGAATCTTGCTTCCCTGGCATTGTAGTT
Found at i:16090737 original size:51 final size:51
Alignment explanation
Indices: 16090676--16090776 Score: 141
Period size: 51 Copynumber: 2.0 Consensus size: 51
16090666 GAAGCTACAA
*
16090676 TAGCGAATCTTATTT-CTCTGGCATGGTAGTTGAACAGATTAAAGCTAAAGG
1 TAGCGAATCTTATTTCCT-TGGCATGGTAGTGGAACAGATTAAAGCTAAAGG
* * * *
16090727 TAGCGAATCTTGTTTCCTTGGCGTTGTAGTGGAATAGATTAAAGCTAAAG
1 TAGCGAATCTTATTTCCTTGGCATGGTAGTGGAACAGATTAAAGCTAAAG
16090777 CGGAGTAGAT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
51 42 0.95
52 2 0.05
ACGTcount: A:0.30, C:0.13, G:0.25, T:0.33
Consensus pattern (51 bp):
TAGCGAATCTTATTTCCTTGGCATGGTAGTGGAACAGATTAAAGCTAAAGG
Found at i:16091095 original size:123 final size:123
Alignment explanation
Indices: 16090860--16091096 Score: 325
Period size: 123 Copynumber: 1.9 Consensus size: 123
16090850 CCTTGACGTT
* *
16090860 GTAGCGGAACAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTGGTGTTGCAGTGGAATTGAT
1 GTAGCGGAACAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTGGCGTTGCAGTGGAATAGAT
* * * * * *
16090925 TAAAGCTGAAGTGGAGCCGATTAAAGTTGAAGGTAGCGAATCCTATCTCTTTGCTATC
66 TAAAGATGAAATAGAGCCGATTAAAGCTGAAGGCAGCGAAACCTATCTCTTTGCTATC
* * *
16090983 GTAGTGGAACAGATTAAAGCTAAAGGTAGCGAATCTTGTTT-CCTCGGCGTTGTAGTGGAATAGG
1 GTAGCGGAACAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCT-GGCGTTGCAGTGGAATAGA
* *
16091047 TTAAAGATGAAATAGAGCGGATTAAAGCTGAAGGCATC-AAACCTTATCTC
65 TTAAAGATGAAATAGAGCCGATTAAAGCTGAAGGCAGCGAAACC-TATCTC
16091097 CCTGGCGTTA
Statistics
Matches: 99, Mismatches: 13, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
122 7 0.07
123 92 0.93
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.28
Consensus pattern (123 bp):
GTAGCGGAACAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTGGCGTTGCAGTGGAATAGAT
TAAAGATGAAATAGAGCCGATTAAAGCTGAAGGCAGCGAAACCTATCTCTTTGCTATC
Found at i:16092371 original size:17 final size:18
Alignment explanation
Indices: 16092334--16092373 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
16092324 CTTGTTTTTC
*
16092334 TTATTTTAATCTTTCTAT
1 TTATTTTAATCTTTATAT
*
16092352 TTATTTT-ATCTTTATTT
1 TTATTTTAATCTTTATAT
16092369 TTATT
1 TTATT
16092374 ATTGTTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.72
Consensus pattern (18 bp):
TTATTTTAATCTTTATAT
Found at i:16093192 original size:3 final size:3
Alignment explanation
Indices: 16093184--16093227 Score: 70
Period size: 3 Copynumber: 14.7 Consensus size: 3
16093174 TTTGATGTTT
* *
16093184 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TCA TTA ATA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
16093228 TTCGTATTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:16093450 original size:22 final size:22
Alignment explanation
Indices: 16093425--16093467 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
16093415 ACACCAAAAC
*
16093425 AGGCTTTTAGCGACACTTTTTT
1 AGGCCTTTAGCGACACTTTTTT
* *
16093447 AGGCCTTTAGCGGCGCTTTTT
1 AGGCCTTTAGCGACACTTTTT
16093468 AGCGCAGCTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.14, C:0.21, G:0.23, T:0.42
Consensus pattern (22 bp):
AGGCCTTTAGCGACACTTTTTT
Found at i:16093657 original size:43 final size:43
Alignment explanation
Indices: 16093562--16093693 Score: 239
Period size: 43 Copynumber: 3.1 Consensus size: 43
16093552 TTTAGAGAAA
*
16093562 AAACGCCGCTAAAGACCAAGACCTTTAGTGGCGC-TTTTCCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTTCCAC
*
16093604 AATCGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTTCCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTTCCAC
16093647 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTTCCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTTCCAC
16093690 AAAC
1 AAAC
16093694 NNNNNNNNNN
Statistics
Matches: 86, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
42 32 0.37
43 54 0.63
ACGTcount: A:0.29, C:0.32, G:0.18, T:0.21
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTTCCAC
Found at i:16100888 original size:44 final size:43
Alignment explanation
Indices: 16100741--16101410 Score: 426
Period size: 44 Copynumber: 15.6 Consensus size: 43
16100731 NNNNNNACCA
* ***
16100741 CAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGA-TCGCATC
1 CAGATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAATC
* * ** *
16100783 CAG-TCTTATCT-TCCTGAAGTTACAGTGGAGCAAACAGAAGAAGC
1 CAGATCTTATCTCT-CTGAAGTTGCAGTGGAGCAGA-TTAA-AATC
* * * * * *
16100827 TA-ATCCTATTTCACTGAAATTGCAGTGGAGCAGATTAAAACC
1 CAGATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAATC
** ***
16100869 ACAGATCTTATCTCTCTGAAGTTGCAGTAAAGCAGA-TCGCATC
1 -CAGATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAATC
* * * ** *
16100912 CAG-TCTTATCTCCCTAAAGTTACAGTGGAGCAGACAGAAGAAGC
1 CAGATCTTATCTCTCTGAAGTTGCAGTGGAGCAGA-TTAA-AATC
* * *
16100956 CA-ATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATC
1 CAGATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAATC
* * *
16100998 ACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCT--CATC
1 -CAGATCTTATCTCTCTGAAGTTGCAGTGGAGCAGAT-TAAAATC
* * ** *
16101041 CAG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAAACAGAAGAAGC
1 CAGATCTTATCTCTCTGAAGTTGCAGTGGAGCAGA-TTAA-AATC
* * * * *
16101085 CA-ATCCTATCTCACTGAAGTTGTAGTGGAGCGGATTAAAACC
1 CAGATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAATC
* *
16101127 ACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCT--CATC
1 -CAGATCTTATCTCTCTGAAGTTGCAGTGGAGCAGAT-TAAAATC
* * ** *
16101170 CAG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAAACAGAAGAAGC
1 CAGATCTTATCTCTCTGAAGTTGCAGTGGAGCAGA-TTAA-AATC
* * * * *
16101214 CA-ATCCTATCTCACTGAAGTTGTAGTGGAGCGGATTAAAACC
1 CAGATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAATC
* * ***
16101256 ACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCA-AATCGCATC
1 -CAGATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAATC
* * * *
16101299 TA-ATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGAAAC
1 CAGATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATT-AA-AATC
* *
16101343 CA-ATCCTATCT-TCCTGAAGTTGCAGTGAAGCAGATTAAAAT-
1 CAGATCTTATCTCT-CTGAAGTTGCAGTGGAGCAGATTAAAATC
*
16101384 GATGGATCTTATCTCTCTGAAGTTGCA
1 CA--GATCTTATCTCTCTGAAGTTGCA
16101411 ATAGAACAGA
Statistics
Matches: 474, Mismatches: 116, Indels: 74
0.71 0.17 0.11
Matches are distributed among these distances:
40 1 0.00
41 136 0.29
42 28 0.06
43 29 0.06
44 277 0.58
45 3 0.01
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (43 bp):
CAGATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAATC
Found at i:16100941 original size:85 final size:84
Alignment explanation
Indices: 16100744--16101410 Score: 341
Period size: 85 Copynumber: 7.8 Consensus size: 84
16100734 NNNACCACAG
* * *** * * *
16100744 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGA-TCGCATCCAG-TCTTATCTTCCTGAAGTTACA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCCAGATCTTATCTCCCTGAAGTTGCA
* * *
16100807 GTGGAGCAAACAGA-AGAAGCTA
66 GT--A--AAGCAGATAGAATCCA
* * * * *
16100829 ATCCTATTTCACTGAAATTGCAGTGGAGCAGATTAAAACCACAGATCTTATCTCTCTGAAGTTGC
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACC-CAGATCTTATCTCCCTGAAGTTGC
* *
16100894 AGTAAAGCAGATCGCATCCA
65 AGTAAAGCAGATAGAATCCA
* * * ** * *
16100914 GTCTTATCTCCCTAAAGTTACAGTGGAGCAGACAGAAGAAGCCA-ATCCTATCTCCCTGAAGTTG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAA-AACCCAGATCTTATCTCCCTGAAGTTG
** * *
16100978 CAGTGGAGCGGATTAAAATCACAA
64 CAGTAAAGCAGA-TAGAATC-C-A
* * * *
16101002 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCT--CATCCAG-TCTTATCTCCCTGAAGTTGC
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT-TAAAACCCAGATCTTATCTCCCTGAAGTTGC
* *
16101064 AGTGGAGCAAACAGA-AGAAGCCA
65 AGT--A--AAGCAGATAGAATCCA
* * * * *
16101087 ATCCTATCTCACTGAAGTTGTAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTGC
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACC-CAGATCTTATCTCCCTGAAGTTGC
* ***
16101152 AGTAGAGCAGATCTCATCCA
65 AGTAAAGCAGATAGAATCCA
* * ** * * *
16101172 GTCTTATCTCCCTGAAGTTGCAGTGGAGCAAACAGAAGAAGCCA-ATCCTATCTCACTGAAGTTG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAA-AACCCAGATCTTATCTCCCTGAAGTTG
* ** * * *
16101236 TAGTGGAGCGGATTAAAACCACA
64 CAGTAAAGCAGA-TAGAATC-CA
* * * *** * * *
16101259 GATCTTATCTCTCTGAAGTTGCAGTAGAGCA-AATCGCATCTA-ATCTTATCTCCCTAAAGTTGC
1 -ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCCAGATCTTATCTCCCTGAAGTTGC
** *
16101322 AGTGGAGCAGATTAAAGAAACCA
65 AGTAAAGCAGA-T--AGAATCCA
* * * ** *
16101345 ATCCTATCTTCCTGAAGTTGCAGTGAAGCAGATTAAAA-TGATGGATCTTATCTCTCTGAAGTTG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCCA--GATCTTATCTCCCTGAAGTTG
16101409 CA
64 CA
16101411 ATAGAACAGA
Statistics
Matches: 439, Mismatches: 112, Indels: 59
0.72 0.18 0.10
Matches are distributed among these distances:
84 12 0.03
85 253 0.58
86 29 0.07
87 24 0.05
88 117 0.27
89 4 0.01
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (84 bp):
ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCCAGATCTTATCTCCCTGAAGTTGCA
GTAAAGCAGATAGAATCCA
Found at i:16100973 original size:129 final size:129
Alignment explanation
Indices: 16100737--16101427 Score: 1062
Period size: 129 Copynumber: 5.4 Consensus size: 129
16100727 NNNNNNNNNN
*
16100737 ACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTTCCTGAAG
1 ACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAG
* * * * *
16100802 TTACAGTGGAGCAAACAGAAGAAGCTAATCCTATTTCACTGAAATTGCAGTGGAGCAGATTAAA
66 TTGCAGTGGAGCAAACAGAAGAAGCCAATCCTATCTCACTGAAGTTGCAGTGGAGCGGATTAAA
* *
16100866 ACCACAGATCTTATCTCTCTGAAGTTGCAGTAAAGCAGATCGCATCCAGTCTTATCTCCCTAAAG
1 ACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAG
* * *
16100931 TTACAGTGGAGCAGACAGAAGAAGCCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAA
66 TTGCAGTGGAGCAAACAGAAGAAGCCAATCCTATCTCACTGAAGTTGCAGTGGAGCGGATTAAA
* * *
16100995 ATCACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCTCATCCAGTCTTATCTCCCTGAAG
1 ACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAG
*
16101060 TTGCAGTGGAGCAAACAGAAGAAGCCAATCCTATCTCACTGAAGTTGTAGTGGAGCGGATTAAA
66 TTGCAGTGGAGCAAACAGAAGAAGCCAATCCTATCTCACTGAAGTTGCAGTGGAGCGGATTAAA
*
16101124 ACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCTCATCCAGTCTTATCTCCCTGAAG
1 ACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAG
*
16101189 TTGCAGTGGAGCAAACAGAAGAAGCCAATCCTATCTCACTGAAGTTGTAGTGGAGCGGATTAAA
66 TTGCAGTGGAGCAAACAGAAGAAGCCAATCCTATCTCACTGAAGTTGCAGTGGAGCGGATTAAA
* * * *
16101253 ACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAAATCGCATCTAATCTTATCTCCCTAAAG
1 ACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAG
** * * *
16101318 TTGCAGTGGAGCAGATTA-AAGAAACCAATCCTATCTTC-CTGAAGTTGCAGTGAAGCAGATTAA
66 TTGCAGTGGAGCA-AACAGAAGAAGCCAATCCTATC-TCACTGAAGTTGCAGTGGAGCGGATTAA
16101381 A
129 A
** ** * *
16101382 ATGATGGATCTTATCTCTCTGAAGTTGCAATAGAACAGATCGCATC
1 ACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATC
16101428 AGACTTTATT
Statistics
Matches: 522, Mismatches: 38, Indels: 4
0.93 0.07 0.01
Matches are distributed among these distances:
129 518 0.99
130 4 0.01
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (129 bp):
ACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAG
TTGCAGTGGAGCAAACAGAAGAAGCCAATCCTATCTCACTGAAGTTGCAGTGGAGCGGATTAAA
Found at i:16101596 original size:46 final size:45
Alignment explanation
Indices: 16101544--16101651 Score: 121
Period size: 46 Copynumber: 2.4 Consensus size: 45
16101534 GCTACAGATA
*
16101544 TTATCTCTCTGAAGTTGAAGTAGAGCAGA-TCACACCATAACAAGTC
1 TTATCTCTCTGAAGTTGAAGTAGAGCAGACTCA-A-CATAACAAATC
* * * * *
16101590 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAACAAATC
1 TTATCTCTCTGAAGTTGAAGTAGAGCAGACTCAACATAACAAATC
16101635 TTATCT-TCCTGAAGTTG
1 TTATCTCT-CTGAAGTTG
16101652 TAGTGGAGTA
Statistics
Matches: 53, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
45 24 0.45
46 27 0.51
47 2 0.04
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.29
Consensus pattern (45 bp):
TTATCTCTCTGAAGTTGAAGTAGAGCAGACTCAACATAACAAATC
Found at i:16101646 original size:45 final size:45
Alignment explanation
Indices: 16101580--16102022 Score: 214
Period size: 45 Copynumber: 9.8 Consensus size: 45
16101570 AGATCACACC
* * *
16101580 ATAACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG
1 ATAACAAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAG
* * *
16101625 ATAACAAATCTTATCTTCCTGAAGTTGTAGTGGAGTAGGTTGAAG
1 ATAACAAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAG
* * * * *
16101670 ATAACCAATCCTATCTCCCTGAAGTTACAGTGAAGCAGATTGAAG
1 ATAACAAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAG
* * * * * * * *
16101715 CT-ACTATTCTTATACCTCC-AAAGTTGCAGTAGG-TC-GAATTAAATCTACC
1 ATAACAAATCTTAT-CTTCCTGAAGTTGCAGT-GGAGCAG-ATT-GA---A-G
* * * * *
16101764 ATAACGAGTCTTATC-TCCTTGAAGTTGCAATGGAGTAGACTGAAG
1 ATAACAAATCTTATCTTCC-TGAAGTTGCAGTGGAGCAGATTGAAG
* * *
16101809 ATAACAAATCTTA-CCT-CTGAAGTTAC-GTCGCAGCAAAGCAGGTTGAAG
1 ATAACAAATCTTATCTTCCTGAAGTTGCAGT-G--G---AGCAGATTGAAG
** * *
16101857 -TAACAAA-CGTTATCCCCCTAAAGTTGCAGTAGG-GCAGATTGAAT
1 ATAACAAATC-TTATCTTCCTGAAGTTGCAGT-GGAGCAGATTGAAG
* *
16101901 AT-ACAAACCTTATC-TCCTTGAAGTTGCAGTGGAGCAGGTTGAA-
1 ATAACAAATCTTATCTTCC-TGAAGTTGCAGTGGAGCAGATTGAAG
* * * * * * *
16101944 ATTACGAGTCTTATCTCCCTGAAATTGCAGTGGAACAGACTGAAG
1 ATAACAAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAG
* * * *
16101989 ATAGCAAGTCTTAT-TTCTCTAAAGTTACAGTGGA
1 ATAACAAATCTTATCTTC-CTGAAGTTGCAGTGGA
16102023 ACGGATGAAA
Statistics
Matches: 299, Mismatches: 67, Indels: 64
0.70 0.16 0.15
Matches are distributed among these distances:
42 1 0.00
43 16 0.05
44 94 0.31
45 123 0.41
46 2 0.01
47 10 0.03
48 16 0.05
49 13 0.04
50 23 0.08
51 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (45 bp):
ATAACAAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAG
Found at i:16101907 original size:44 final size:44
Alignment explanation
Indices: 16101845--16101943 Score: 121
Period size: 44 Copynumber: 2.2 Consensus size: 44
16101835 GTCGCAGCAA
*
16101845 AGCAGGTTGAAGTAACAAACGTTATCCCCCTAAAGTTGCAGTAGG
1 AGCAGGTTGAAGTAACAAACCTTATCCCCCTAAAGTTGCAGT-GG
* * * *
16101890 -GCAGATTGAA-TATACAAACCTTATCTCCTTGAAGTTGCAGTGG
1 AGCAGGTTGAAGTA-ACAAACCTTATCCCCCTAAAGTTGCAGTGG
16101933 AGCAGGTTGAA
1 AGCAGGTTGAA
16101944 ATTACGAGTC
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
43 4 0.09
44 42 0.91
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.25
Consensus pattern (44 bp):
AGCAGGTTGAAGTAACAAACCTTATCCCCCTAAAGTTGCAGTGG
Found at i:16102835 original size:17 final size:18
Alignment explanation
Indices: 16102798--16102837 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
16102788 CTTGTTTTTC
*
16102798 TTATTTTAATCTTTCTAT
1 TTATTTTAATCTTTATAT
*
16102816 TTATTTT-ATCTTTATTT
1 TTATTTTAATCTTTATAT
16102833 TTATT
1 TTATT
16102838 ATTGTTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.72
Consensus pattern (18 bp):
TTATTTTAATCTTTATAT
Found at i:16103574 original size:25 final size:26
Alignment explanation
Indices: 16103523--16103585 Score: 65
Period size: 25 Copynumber: 2.4 Consensus size: 26
16103513 GTATACTTAT
*
16103523 ATACATTTTATAATACATAGATGTAC
1 ATACATTTTATAATACATAGATATAC
** *
16103549 ATACA-TTTATAATTTATATATATAC
1 ATACATTTTATAATACATAGATATAC
*
16103574 ATAAATATTTAT
1 ATACAT-TTTAT
16103586 TATATTTCAC
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
25 20 0.67
26 5 0.17
27 5 0.17
ACGTcount: A:0.44, C:0.08, G:0.03, T:0.44
Consensus pattern (26 bp):
ATACATTTTATAATACATAGATATAC
Found at i:16105070 original size:29 final size:30
Alignment explanation
Indices: 16105037--16105098 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
16105027 TATTTTGACC
16105037 ACATAAA-TTTGAATTACACCAAAGCCATA
1 ACATAAATTTTGAATTACACCAAAGCCATA
16105066 ACATAAATTTTGAATTACACCAAAGCCATA
1 ACATAAATTTTGAATTACACCAAAGCCATA
16105096 ACA
1 ACA
16105099 GTTTCACATT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 7 0.22
30 25 0.78
ACGTcount: A:0.48, C:0.21, G:0.06, T:0.24
Consensus pattern (30 bp):
ACATAAATTTTGAATTACACCAAAGCCATA
Found at i:16106216 original size:21 final size:21
Alignment explanation
Indices: 16106174--16106216 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
16106164 ACTATCATAC
*
16106174 CCAAAAGGTATTCCGAACAAT
1 CCAAAAGGTATTCCAAACAAT
*
16106195 CCAAAAGGTATTCCAAATAAT
1 CCAAAAGGTATTCCAAACAAT
16106216 C
1 C
16106217 TCATTCGTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.44, C:0.23, G:0.12, T:0.21
Consensus pattern (21 bp):
CCAAAAGGTATTCCAAACAAT
Found at i:16112824 original size:72 final size:72
Alignment explanation
Indices: 16112732--16112874 Score: 232
Period size: 72 Copynumber: 2.0 Consensus size: 72
16112722 GCCTATATGC
* *
16112732 AGATTAAACAAATCAGAACATACTAGTTCCACATATAGTTTAACAGATCAAAAACATGCTATTGG
1 AGATAAAACAAATCAGAACATACTAATTCCACATATAGTTTAACAGATCAAAAACATGCTATTGG
16112797 CATATTT
66 CATATTT
* * * *
16112804 AGATAAAACATATCATAACATACTAATTGCACATATAGTTTAATAGATCAAAAACATGCTATTGG
1 AGATAAAACAAATCAGAACATACTAATTCCACATATAGTTTAACAGATCAAAAACATGCTATTGG
16112869 CATATT
66 CATATT
16112875 CGGCCATCAC
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
72 65 1.00
ACGTcount: A:0.44, C:0.15, G:0.10, T:0.30
Consensus pattern (72 bp):
AGATAAAACAAATCAGAACATACTAATTCCACATATAGTTTAACAGATCAAAAACATGCTATTGG
CATATTT
Found at i:16112860 original size:36 final size:36
Alignment explanation
Indices: 16112748--16112860 Score: 104
Period size: 36 Copynumber: 3.1 Consensus size: 36
16112738 AACAAATCAG
* *
16112748 AACATACTAGTTCCACATATAGTTTAACAGATCAAA
1 AACATACTAATTGCACATATAGTTTAACAGATCAAA
* * * ** * *
16112784 AACATGCT-ATTGGCATATTTAGATAAAACATATC-AT
1 AACATACTAATT-GCACATATAG-TTTAACAGATCAAA
*
16112820 AACATACTAATTGCACATATAGTTTAATAGATCAAA
1 AACATACTAATTGCACATATAGTTTAACAGATCAAA
16112856 AACAT
1 AACAT
16112861 GCTATTGGCA
Statistics
Matches: 56, Mismatches: 17, Indels: 8
0.69 0.21 0.10
Matches are distributed among these distances:
35 9 0.16
36 36 0.64
37 11 0.20
ACGTcount: A:0.45, C:0.16, G:0.09, T:0.30
Consensus pattern (36 bp):
AACATACTAATTGCACATATAGTTTAACAGATCAAA
Found at i:16119176 original size:15 final size:15
Alignment explanation
Indices: 16119156--16119187 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
16119146 CTTCATTTGT
16119156 TTGACATACATCGGG
1 TTGACATACATCGGG
16119171 TTGACATACATCGGG
1 TTGACATACATCGGG
16119186 TT
1 TT
16119188 TGTAATACCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (15 bp):
TTGACATACATCGGG
Found at i:16124446 original size:24 final size:24
Alignment explanation
Indices: 16124419--16124464 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
16124409 AGAACATTCC
* *
16124419 CAAAAGGAAATGCAGGAGCAGCTT
1 CAAAAGCAAATGAAGGAGCAGCTT
*
16124443 CAAAAGCAAATGAATGAGCAGC
1 CAAAAGCAAATGAAGGAGCAGC
16124465 AAAAAATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.46, C:0.17, G:0.26, T:0.11
Consensus pattern (24 bp):
CAAAAGCAAATGAAGGAGCAGCTT
Found at i:16134630 original size:17 final size:17
Alignment explanation
Indices: 16134610--16134646 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
16134600 AGAGTCTTTT
16134610 AAACCCTAGAGTTCACC
1 AAACCCTAGAGTTCACC
* *
16134627 AAACCTTAGAGTTCTCC
1 AAACCCTAGAGTTCACC
16134644 AAA
1 AAA
16134647 TGGTGAATTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.38, C:0.30, G:0.11, T:0.22
Consensus pattern (17 bp):
AAACCCTAGAGTTCACC
Found at i:16135624 original size:14 final size:13
Alignment explanation
Indices: 16135588--16135630 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
16135578 AATCCAAGTC
16135588 AAATAAAATAAATTA
1 AAATAAAAT-AA-TA
16135603 AAAT-AAATAACTA
1 AAATAAAATAA-TA
16135616 AAATAAAATAATA
1 AAATAAAATAATA
16135629 AA
1 AA
16135631 TCAAATATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
13 12 0.46
14 10 0.38
15 4 0.15
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.23
Consensus pattern (13 bp):
AAATAAAATAATA
Found at i:16138900 original size:195 final size:195
Alignment explanation
Indices: 16138561--16138948 Score: 686
Period size: 195 Copynumber: 2.0 Consensus size: 195
16138551 CGAAACATAA
* *
16138561 AGCTAATGCTGTCCAACACACCACACATATATATCCCAGTGAATGGAGCTTGGCTCATATTCCCT
1 AGCTAATGCTCTCCAACACACCACACATATATATCCCAGTGAATGGAGCTTGGCTCACATTCCCT
* *
16138626 TATCTCTCCAAAACTGTCCCTAGGCCTCATCGCCTCATATATCACAACACATATATATGAGAACC
66 TATCTCTCCAAAACTGTCCCTAGGCCTCATCACCCCATATATCACAACACATATATATGAGAACC
*
16138691 CACAATCTTATGAAATGCCAACTATATCCAATGGTCTCATTAAGTCACAAGGCCAAAATATCCTT
131 CACAATCCTATGAAATGCCAACTATATCCAATGGTCTCATTAAGTCACAAGGCCAAAATATCCTT
16138756 AGCTAATGCTCTCCAACACACCACACATATATATCCCAGTGAATGGAGCTTGGCTCACATTCCCT
1 AGCTAATGCTCTCCAACACACCACACATATATATCCCAGTGAATGGAGCTTGGCTCACATTCCCT
* * * *
16138821 TATCTTTCCAAGACTGTCCCTAGGCCTCATCACCCCATATATCATAACACATATATATGAGAACT
66 TATCTCTCCAAAACTGTCCCTAGGCCTCATCACCCCATATATCACAACACATATATATGAGAACC
*
16138886 CACAATCCTATGAAATGTCAACTATATCCAATGGTCTCATTAAGTCACAAGGCCAAAATATCC
131 CACAATCCTATGAAATGCCAACTATATCCAATGGTCTCATTAAGTCACAAGGCCAAAATATCC
16138949 ATATTGTCAT
Statistics
Matches: 183, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
195 183 1.00
ACGTcount: A:0.33, C:0.29, G:0.12, T:0.27
Consensus pattern (195 bp):
AGCTAATGCTCTCCAACACACCACACATATATATCCCAGTGAATGGAGCTTGGCTCACATTCCCT
TATCTCTCCAAAACTGTCCCTAGGCCTCATCACCCCATATATCACAACACATATATATGAGAACC
CACAATCCTATGAAATGCCAACTATATCCAATGGTCTCATTAAGTCACAAGGCCAAAATATCCTT
Found at i:16141460 original size:19 final size:18
Alignment explanation
Indices: 16141433--16141483 Score: 50
Period size: 19 Copynumber: 2.8 Consensus size: 18
16141423 ATTTTTAAAA
*
16141433 TAAAAAATAAAATTACTCT
1 TAAATAATAAAATTA-TCT
* *
16141452 TAAATAATATAATTTATTT
1 TAAATAATA-AAATTATCT
16141471 TAAATAA-AAAATT
1 TAAATAATAAAATT
16141484 TTTACCCAAG
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
17 4 0.15
18 1 0.04
19 17 0.63
20 5 0.19
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (18 bp):
TAAATAATAAAATTATCT
Found at i:16147378 original size:2 final size:2
Alignment explanation
Indices: 16147371--16147401 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
16147361 TACTGAAAAT
16147371 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
16147402 GCAGAGGGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:16158140 original size:3 final size:3
Alignment explanation
Indices: 16158132--16158170 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
16158122 TGATTACAAA
16158132 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
16158171 ACTTCTAATA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:16162964 original size:36 final size:36
Alignment explanation
Indices: 16162912--16162982 Score: 115
Period size: 36 Copynumber: 2.0 Consensus size: 36
16162902 GTTTTGTTTC
* *
16162912 ATCCTAAAACCTTAATTCGAAGTTAGTTACAAATCT
1 ATCCTAAAACCCTAATTCGAAGTTAATTACAAATCT
*
16162948 ATCCTAAAACCCTAATTTGAAGTTAATTACAAATC
1 ATCCTAAAACCCTAATTCGAAGTTAATTACAAATC
16162983 CTAAAGCGAG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.41, C:0.20, G:0.07, T:0.32
Consensus pattern (36 bp):
ATCCTAAAACCCTAATTCGAAGTTAATTACAAATCT
Found at i:16165274 original size:629 final size:629
Alignment explanation
Indices: 16164077--16165334 Score: 2516
Period size: 629 Copynumber: 2.0 Consensus size: 629
16164067 TAAGTGACTC
16164077 TCCGGCTAACGACCACCCAAGACACACCCCGACCTTATAACACCTCAATCTTATCTAATTAATAT
1 TCCGGCTAACGACCACCCAAGACACACCCCGACCTTATAACACCTCAATCTTATCTAATTAATAT
16164142 TTATTAATGCGGAAGAAAACTATGAGCCAATTTTAAACTTTTCTTAGGTAATTTACACTAAGGGC
66 TTATTAATGCGGAAGAAAACTATGAGCCAATTTTAAACTTTTCTTAGGTAATTTACACTAAGGGC
16164207 ATTTTTGTCATTTTACCACCATGGTAAAACTAACTTGATTTTAGATTTAAGAGTTTACCGACCTT
131 ATTTTTGTCATTTTACCACCATGGTAAAACTAACTTGATTTTAGATTTAAGAGTTTACCGACCTT
16164272 CTTTTAGTCAAACTATGCAAGCCTAAAAAAAATTCAACTTAATTTGAGTTCGTTTACTATGTCTA
196 CTTTTAGTCAAACTATGCAAGCCTAAAAAAAATTCAACTTAATTTGAGTTCGTTTACTATGTCTA
16164337 ATTCAAGTTTTATTATCAAGGACTAAATTGTAACAAATACAAACTATCACGACCTATTACAAACT
261 ATTCAAGTTTTATTATCAAGGACTAAATTGTAACAAATACAAACTATCACGACCTATTACAAACT
16164402 ATAAATTACGTGTGTTTCTATCAAATTTTACCCATTACGAGACTAATTCTAAAATTTTAGAAAGT
326 ATAAATTACGTGTGTTTCTATCAAATTTTACCCATTACGAGACTAATTCTAAAATTTTAGAAAGT
16164467 TTCCTTATCATCTAAAGCTCTAATTAGTCTAATTAAATTTCAAGACTAAATTGTAACTTAAACAA
391 TTCCTTATCATCTAAAGCTCTAATTAGTCTAATTAAATTTCAAGACTAAATTGTAACTTAAACAA
16164532 ATTAGAATACCTATTTAAAAAGACAAAAATTCAAACCCCCAAAACCCACACGGCCATTTCCCCCA
456 ATTAGAATACCTATTTAAAAAGACAAAAATTCAAACCCCCAAAACCCACACGGCCATTTCCCCCA
16164597 AACCGAATGTCATTAAATGACTATCTTCGATTCATGAAAAACTTTTAGACCCATCGCACACGCTC
521 AACCGAATGTCATTAAATGACTATCTTCGATTCATGAAAAACTTTTAGACCCATCGCACACGCTC
16164662 GTGTGTGATAGCTCCAGTCTCCACTAGGGCCACTGGCCCGACGA
586 GTGTGTGATAGCTCCAGTCTCCACTAGGGCCACTGGCCCGACGA
16164706 TCCGGCTAACGACCACCCAAGACACACCCCGACCTTATAACACCTCAATCTTATCTAATTAATAT
1 TCCGGCTAACGACCACCCAAGACACACCCCGACCTTATAACACCTCAATCTTATCTAATTAATAT
16164771 TTATTAATGCGGAAGAAAACTATGAGCCAATTTTAAACTTTTCTTAGGTAATTTACACTAAGGGC
66 TTATTAATGCGGAAGAAAACTATGAGCCAATTTTAAACTTTTCTTAGGTAATTTACACTAAGGGC
16164836 ATTTTTGTCATTTTACCACCATGGTAAAACTAACTTGATTTTAGATTTAAGAGTTTACCGACCTT
131 ATTTTTGTCATTTTACCACCATGGTAAAACTAACTTGATTTTAGATTTAAGAGTTTACCGACCTT
16164901 CTTTTAGTCAAACTATGCAAGCCTAAAAAAAATTCAACTTAATTTGAGTTCGTTTACTATGTCTA
196 CTTTTAGTCAAACTATGCAAGCCTAAAAAAAATTCAACTTAATTTGAGTTCGTTTACTATGTCTA
16164966 ATTCAAGTTTTATTATCAAGGACTAAATTGTAACAAATACAAACTATCACGACCTATTACAAACT
261 ATTCAAGTTTTATTATCAAGGACTAAATTGTAACAAATACAAACTATCACGACCTATTACAAACT
16165031 ATAAATTACGTGTGTTTCTATCAAATTTTACCCATTACGAGACTAATTCTAAAATTTTAGAAAGT
326 ATAAATTACGTGTGTTTCTATCAAATTTTACCCATTACGAGACTAATTCTAAAATTTTAGAAAGT
16165096 TTCCTTATCATCTAAAGCTCTAATTAGTCTAATTAAATTTCAAGACTAAATTGTAACTTAAACAA
391 TTCCTTATCATCTAAAGCTCTAATTAGTCTAATTAAATTTCAAGACTAAATTGTAACTTAAACAA
16165161 ATTAGAATACCTATTTAAAAAGACAAAAATTCAAACCCCCAAAACCCACACGGCCATTTCCCCCA
456 ATTAGAATACCTATTTAAAAAGACAAAAATTCAAACCCCCAAAACCCACACGGCCATTTCCCCCA
16165226 AACCGAATGTCATTAAATGACTATCTTCGATTCATGAAAAACTTTTAGACCCATCGCACACGCTC
521 AACCGAATGTCATTAAATGACTATCTTCGATTCATGAAAAACTTTTAGACCCATCGCACACGCTC
16165291 GTGTGTGATAGCTCCAGTCTCCACTAGGGCCACTGGCCCGACGA
586 GTGTGTGATAGCTCCAGTCTCCACTAGGGCCACTGGCCCGACGA
16165335 CCCGCCCGAA
Statistics
Matches: 629, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
629 629 1.00
ACGTcount: A:0.35, C:0.22, G:0.11, T:0.31
Consensus pattern (629 bp):
TCCGGCTAACGACCACCCAAGACACACCCCGACCTTATAACACCTCAATCTTATCTAATTAATAT
TTATTAATGCGGAAGAAAACTATGAGCCAATTTTAAACTTTTCTTAGGTAATTTACACTAAGGGC
ATTTTTGTCATTTTACCACCATGGTAAAACTAACTTGATTTTAGATTTAAGAGTTTACCGACCTT
CTTTTAGTCAAACTATGCAAGCCTAAAAAAAATTCAACTTAATTTGAGTTCGTTTACTATGTCTA
ATTCAAGTTTTATTATCAAGGACTAAATTGTAACAAATACAAACTATCACGACCTATTACAAACT
ATAAATTACGTGTGTTTCTATCAAATTTTACCCATTACGAGACTAATTCTAAAATTTTAGAAAGT
TTCCTTATCATCTAAAGCTCTAATTAGTCTAATTAAATTTCAAGACTAAATTGTAACTTAAACAA
ATTAGAATACCTATTTAAAAAGACAAAAATTCAAACCCCCAAAACCCACACGGCCATTTCCCCCA
AACCGAATGTCATTAAATGACTATCTTCGATTCATGAAAAACTTTTAGACCCATCGCACACGCTC
GTGTGTGATAGCTCCAGTCTCCACTAGGGCCACTGGCCCGACGA
Found at i:16165535 original size:26 final size:27
Alignment explanation
Indices: 16165490--16165546 Score: 71
Period size: 26 Copynumber: 2.1 Consensus size: 27
16165480 TATTTTAAAA
** * *
16165490 TATTTTTAAAATACTTTTTTTATTTTT
1 TATTTTTAAAATACAATTTTTAGTGTT
16165517 TATTTTTAAAATA-AATTTTTAGTGTT
1 TATTTTTAAAATACAATTTTTAGTGTT
16165543 TATT
1 TATT
16165547 AAAAAATGGG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 13 0.50
27 13 0.50
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.65
Consensus pattern (27 bp):
TATTTTTAAAATACAATTTTTAGTGTT
Found at i:16165963 original size:15 final size:15
Alignment explanation
Indices: 16165943--16165971 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
16165933 ATGTCTCACA
16165943 CACCGTGTTATCAAT
1 CACCGTGTTATCAAT
16165958 CACCGTGTTATCAA
1 CACCGTGTTATCAA
16165972 GCAACAATAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.31
Consensus pattern (15 bp):
CACCGTGTTATCAAT
Found at i:16168786 original size:23 final size:23
Alignment explanation
Indices: 16168755--16168805 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
16168745 ACCTACTTTC
* *
16168755 TTACTGTAGTAATTTTCGGGGTA
1 TTACAGTAGTAATTTTCGGGATA
16168778 TTACAGTAGTAATTTTCGGGATA
1 TTACAGTAGTAATTTTCGGGATA
16168801 TTACA
1 TTACA
16168806 AGCTCAACGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.27, C:0.10, G:0.22, T:0.41
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGGGATA
Found at i:16171927 original size:39 final size:39
Alignment explanation
Indices: 16171811--16171927 Score: 171
Period size: 39 Copynumber: 3.0 Consensus size: 39
16171801 ATGTAACCAC
* * * *
16171811 GGCACGAAAGTGCTATCAGGAGTACCGAAGTACAACAGG
1 GGCACGTAAGTGCGATCAGGGGTACCGAAGTACAACAGT
* *
16171850 GGCACGTAAGTGTGATCAGGGGTGCCGAAGTACAACAGT
1 GGCACGTAAGTGCGATCAGGGGTACCGAAGTACAACAGT
*
16171889 GGCATGTAAGTGCGATCAGGGGTACCGAAGTACAACAGT
1 GGCACGTAAGTGCGATCAGGGGTACCGAAGTACAACAGT
16171928 TTTCTACTAA
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 69 1.00
ACGTcount: A:0.32, C:0.19, G:0.33, T:0.16
Consensus pattern (39 bp):
GGCACGTAAGTGCGATCAGGGGTACCGAAGTACAACAGT
Found at i:16184424 original size:35 final size:35
Alignment explanation
Indices: 16184385--16184452 Score: 127
Period size: 35 Copynumber: 1.9 Consensus size: 35
16184375 ATTTGCTCTA
*
16184385 TGCAACTTTAGAGAGATAGGATTGGTTTCTTTTAT
1 TGCAACTTCAGAGAGATAGGATTGGTTTCTTTTAT
16184420 TGCAACTTCAGAGAGATAGGATTGGTTTCTTTT
1 TGCAACTTCAGAGAGATAGGATTGGTTTCTTTT
16184453 GTCTGCTCCA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.25, C:0.10, G:0.24, T:0.41
Consensus pattern (35 bp):
TGCAACTTCAGAGAGATAGGATTGGTTTCTTTTAT
Found at i:16187756 original size:42 final size:42
Alignment explanation
Indices: 16187694--16187774 Score: 144
Period size: 42 Copynumber: 1.9 Consensus size: 42
16187684 CGATTAAGAG
*
16187694 AGCGATGAAGAAAGCGAGATCGAGGTACAAAAGGTCCGAAAC
1 AGCGATGAAGAAAGCAAGATCGAGGTACAAAAGGTCCGAAAC
*
16187736 AGCGATGAAGAGAGCAAGATCGAGGTACAAAAGGTCCGA
1 AGCGATGAAGAAAGCAAGATCGAGGTACAAAAGGTCCGA
16187775 TTCAGTGATA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.42, C:0.16, G:0.32, T:0.10
Consensus pattern (42 bp):
AGCGATGAAGAAAGCAAGATCGAGGTACAAAAGGTCCGAAAC
Found at i:16192680 original size:14 final size:14
Alignment explanation
Indices: 16192661--16192695 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
16192651 TCTATTCTTG
*
16192661 AAAAAAA-AAGGAA
1 AAAAAAAGAAAGAA
16192674 AAAAAAAGAAAGAA
1 AAAAAAAGAAAGAA
16192688 AAAAAAAG
1 AAAAAAAG
16192696 GGGAATAAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 7 0.35
14 13 0.65
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (14 bp):
AAAAAAAGAAAGAA
Found at i:16194979 original size:44 final size:43
Alignment explanation
Indices: 16194822--16194979 Score: 120
Period size: 44 Copynumber: 3.6 Consensus size: 43
16194812 AGCTACCAGT
* * *
16194822 AACTTCAGAGAGATAAGATTTGTGGTTTTAATCCGCTCCACTGC
1 AACTTCAGGGAGATAAGA-TTGTGGTCTTAATCTGCTCCACTGC
* * * ** * *
16194866 AACTTCAAGGAGATAGGATTG-GTTTCTTCTGTCTGCTCCATTGG
1 AACTTCAGGGAGATAAGATTGTG-GTCTT-AATCTGCTCCACTGC
* * * *
16194910 AACTTCACGCAGATAAGACCTGTGGTGTTAATCTGCTCCACTGC
1 AACTTCAGGGAGATAAGA-TTGTGGTCTTAATCTGCTCCACTGC
* *
16194954 AACTTTAGGGAGATAGGATTAGTGGT
1 AACTTCAGGGAGATAAGATT-GTGGT
16194980 TTCATCGATC
Statistics
Matches: 84, Mismatches: 25, Indels: 10
0.71 0.21 0.08
Matches are distributed among these distances:
42 1 0.01
43 7 0.08
44 70 0.83
45 5 0.06
46 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (43 bp):
AACTTCAGGGAGATAAGATTGTGGTCTTAATCTGCTCCACTGC
Found at i:16205940 original size:17 final size:18
Alignment explanation
Indices: 16205907--16205941 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
16205897 AAAATGTCGC
16205907 ACCCAATGAGTTAGGGCG
1 ACCCAATGAGTTAGGGCG
16205925 ACCCAATGAG-TAGGGCG
1 ACCCAATGAGTTAGGGCG
16205942 TAACATTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.29, C:0.23, G:0.34, T:0.14
Consensus pattern (18 bp):
ACCCAATGAGTTAGGGCG
Found at i:16207725 original size:6 final size:6
Alignment explanation
Indices: 16207704--16207744 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
16207694 AAACCAATGC
*
16207704 GAAAATA GAGAAA GAAAAA GAAAAA GAAAAA GAAAATA GAA
1 GAAAA-A GAAAAA GAAAAA GAAAAA GAAAAA GAAAA-A GAA
16207745 CCAACAAGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
6 23 0.74
7 8 0.26
ACGTcount: A:0.76, C:0.00, G:0.20, T:0.05
Consensus pattern (6 bp):
GAAAAA
Found at i:16208217 original size:12 final size:14
Alignment explanation
Indices: 16208191--16208231 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 14
16208181 TTAATTTTTA
*
16208191 TTTATTTTTGTG-T
1 TTTATTTTAGTGTT
16208204 TTTATTTTAG-GTT
1 TTTATTTTAGTGTT
*
16208217 TTTATTTTGGTGTT
1 TTTATTTTAGTGTT
16208231 T
1 T
16208232 ACTGGGCTCG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 1 0.04
13 19 0.79
14 4 0.17
ACGTcount: A:0.10, C:0.00, G:0.17, T:0.73
Consensus pattern (14 bp):
TTTATTTTAGTGTT
Found at i:16209135 original size:16 final size:16
Alignment explanation
Indices: 16209114--16209144 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
16209104 CGGAGGAAGC
16209114 AAAATATGTAAATAAT
1 AAAATATGTAAATAAT
16209130 AAAATATGTAAATAA
1 AAAATATGTAAATAA
16209145 GAAGGGTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (16 bp):
AAAATATGTAAATAAT
Found at i:16215354 original size:23 final size:23
Alignment explanation
Indices: 16215328--16215375 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
16215318 ATTGGGCTAG
*
16215328 GGTTTAATGGGTAATTCGGGTTA
1 GGTTTAATGAGTAATTCGGGTTA
* * *
16215351 GGTTTAGTTAGTATTTCGGGTTA
1 GGTTTAATGAGTAATTCGGGTTA
16215374 GG
1 GG
16215376 GTATTTTATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.19, C:0.04, G:0.35, T:0.42
Consensus pattern (23 bp):
GGTTTAATGAGTAATTCGGGTTA
Found at i:16216547 original size:18 final size:20
Alignment explanation
Indices: 16216501--16216554 Score: 85
Period size: 21 Copynumber: 2.8 Consensus size: 20
16216491 ATTTTCAAAG
16216501 ATATGCAATCTTAGATATGA
1 ATATGCAATCTTAGATATGA
16216521 TATATGCAATCTTAGATATG-
1 -ATATGCAATCTTAGATATGA
16216541 A-ATGCAATCTTAGA
1 ATATGCAATCTTAGA
16216555 AGATATGATT
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
18 13 0.39
19 1 0.03
21 19 0.58
ACGTcount: A:0.39, C:0.11, G:0.15, T:0.35
Consensus pattern (20 bp):
ATATGCAATCTTAGATATGA
Found at i:16216558 original size:21 final size:21
Alignment explanation
Indices: 16216503--16216562 Score: 67
Period size: 21 Copynumber: 3.0 Consensus size: 21
16216493 TTTCAAAGAT
16216503 ATGCAATCTTAGATATGATAT--
1 ATGCAATCTTAGA-A-GATATGA
16216524 ATGCAATCTT---AGATATGA
1 ATGCAATCTTAGAAGATATGA
16216542 ATGCAATCTTAGAAGATATGA
1 ATGCAATCTTAGAAGATATGA
16216563 TTTTGTAATC
Statistics
Matches: 34, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
16 5 0.15
17 1 0.03
18 10 0.29
21 18 0.53
ACGTcount: A:0.40, C:0.10, G:0.17, T:0.33
Consensus pattern (21 bp):
ATGCAATCTTAGAAGATATGA
Found at i:16218924 original size:16 final size:16
Alignment explanation
Indices: 16218899--16218932 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
16218889 TGTGTTTTTT
*
16218899 TTTTGGCTGCATGACA
1 TTTTGACTGCATGACA
*
16218915 TTTTGACTGCATGGCA
1 TTTTGACTGCATGACA
16218931 TT
1 TT
16218933 GCATCATAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.18, C:0.18, G:0.24, T:0.41
Consensus pattern (16 bp):
TTTTGACTGCATGACA
Found at i:16223959 original size:9 final size:9
Alignment explanation
Indices: 16223945--16223977 Score: 66
Period size: 9 Copynumber: 3.7 Consensus size: 9
16223935 AGGGCACCTT
16223945 AAAAAATCA
1 AAAAAATCA
16223954 AAAAAATCA
1 AAAAAATCA
16223963 AAAAAATCA
1 AAAAAATCA
16223972 AAAAAA
1 AAAAAA
16223978 AAAGAAAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.82, C:0.09, G:0.00, T:0.09
Consensus pattern (9 bp):
AAAAAATCA
Found at i:16225279 original size:45 final size:45
Alignment explanation
Indices: 16225225--16226386 Score: 1326
Period size: 45 Copynumber: 25.8 Consensus size: 45
16225215 AAACAGCAGG
** * * *
16225225 CTTGTCTTCCTGTATTGACAGCGAAGTAGATCAAAAACAGCAGAT
1 CTTGTCTTCCTGTATTGGTAGCGAAGTAGATCAAAGATAACAGAT
* * *
16225270 CTTGTCTTCCTGTATTGGTAGCGAAGCAGATCAAAAATAGCAGAT
1 CTTGTCTTCCTGTATTGGTAGCGAAGTAGATCAAAGATAACAGAT
* * * * * *
16225315 ATTGTATTCATGTATTGATAGCGAAGTAGATCGAAA-ACAACAAAT
1 CTTGTCTTCCTGTATTGGTAGCGAAGTAGATC-AAAGATAACAGAT
16225360 CTTGTCTT-CTGATATTGGTAGCGAAGTAGATCAAAGATAACAGAT
1 CTTGTCTTCCTG-TATTGGTAGCGAAGTAGATCAAAGATAACAGAT
* * * * *
16225405 CTTGTCTTCTTGTATTGGCAGCAAACTAGATCAAAGATAGCAGAT
1 CTTGTCTTCCTGTATTGGTAGCGAAGTAGATCAAAGATAACAGAT
* * * *
16225450 CTTGTCTTCCTATATTGGTAGCGAAATAGATCGAAGATAACAGAC
1 CTTGTCTTCCTGTATTGGTAGCGAAGTAGATCAAAGATAACAGAT
* * *
16225495 CTTATCTTCCTATATTGGTAGCGAAGTAGATCGAAGATAACAGAT
1 CTTGTCTTCCTGTATTGGTAGCGAAGTAGATCAAAGATAACAGAT
* * ** * *
16225540 TTTGTCTTCATGTATTGACAGTGAAGTAAATCAAAGATAACAGAT
1 CTTGTCTTCCTGTATTGGTAGCGAAGTAGATCAAAGATAACAGAT
*
16225585 CTTGTCTTCCTATATTGGTAGCGAAGTAGATCAAAGATAACAGAT
1 CTTGTCTTCCTGTATTGGTAGCGAAGTAGATCAAAGATAACAGAT
* * * *
16225630 CTTGTCTTCCTATATTGGCAACGAAGTAGATCAAAGATAGCAGAT
1 CTTGTCTTCCTGTATTGGTAGCGAAGTAGATCAAAGATAACAGAT
* * *
16225675 CTTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGATAACATAT
1 CTTGTCTTCCTGTATTGGTAGCGAAGTAGATCAAAGATAACAGAT
* * * * *
16225720 CTTGTCTTTCTATATTGGTTGCGAAGTAGATCGAAGATAATAGAT
1 CTTGTCTTCCTGTATTGGTAGCGAAGTAGATCAAAGATAACAGAT
* * *
16225765 CTTGTCTTCATGTATTGGCAGTGAAGTAGATCAAAGATAACAGAT
1 CTTGTCTTCCTGTATTGGTAGCGAAGTAGATCAAAGATAACAGAT
* * * * *
16225810 CTTCTCTTTCTGTACCT-GAAGTGAAGTAGATCAAAGATAACAGAT
1 CTTGTCTTCCTGTA-TTGGTAGCGAAGTAGATCAAAGATAACAGAT
* *
16225855 CTTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGATAACAGAT
1 CTTGTCTTCCTGTATTGGTAGCGAAGTAGATCAAAGATAACAGAT
* * * *
16225900 CTTGTCTTCCTTTATTGGCAGCGAAGTAGATCAAATATAGCAGAT
1 CTTGTCTTCCTGTATTGGTAGCGAAGTAGATCAAAGATAACAGAT
* * * *
16225945 ATTATCTTCCTATATTGGTAGCGAAGTAGATCGAAGATAACAGAT
1 CTTGTCTTCCTGTATTGGTAGCGAAGTAGATCAAAGATAACAGAT
* * *
16225990 CTGGTCTTCCTGTATTGGCAGTGAAGTAGATCAAAGATAACAGAT
1 CTTGTCTTCCTGTATTGGTAGCGAAGTAGATCAAAGATAACAGAT
* * * * *
16226035 CTTGTCTTCTTGTACTGGCAGCGAAGTAGATAAAAGATAGCAGAT
1 CTTGTCTTCCTGTATTGGTAGCGAAGTAGATCAAAGATAACAGAT
* * * * * * * *
16226080 CTTGTCTGCAGTGGAGTGG-ATCGAAGCAGATCGAAGCTAACAGAT
1 CTTGTCTTC-CTGTATTGGTAGCGAAGTAGATCAAAGATAACAGAT
* * *
16226125 CTTGTCTTCCTGTATTGGCAGTGAAGTAGATCAAAGATAGCAGAT
1 CTTGTCTTCCTGTATTGGTAGCGAAGTAGATCAAAGATAACAGAT
* * *
16226170 GTTGTCTTCCTATACTGGTAGCGAAGTAGATCAAAGATAACAGAT
1 CTTGTCTTCCTGTATTGGTAGCGAAGTAGATCAAAGATAACAGAT
* * * *
16226215 ATTGTCTTCCCGTATTGGCAGCGAAGTAGATCAAAGATAGCAGAT
1 CTTGTCTTCCTGTATTGGTAGCGAAGTAGATCAAAGATAACAGAT
* * * * * *
16226260 CTGGGCTTCCTATATTGGTAGCAAAGTAGATCGAAGATAACGGAT
1 CTTGTCTTCCTGTATTGGTAGCGAAGTAGATCAAAGATAACAGAT
* * *
16226305 CTTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAA-ACAGCAGAT
1 CTTGTCTTCCTGTATTGGTAGCGAAGTAGATC-AAAGATAACAGAT
* * * *
16226350 CTTATCTTCCTGTATTTGCAGCGAAGTAGATCGAAGA
1 CTTGTCTTCCTGTATTGGTAGCGAAGTAGATCAAAGA
16226387 CAGAAGTAAC
Statistics
Matches: 946, Mismatches: 161, Indels: 20
0.84 0.14 0.02
Matches are distributed among these distances:
44 14 0.01
45 918 0.97
46 14 0.01
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.30
Consensus pattern (45 bp):
CTTGTCTTCCTGTATTGGTAGCGAAGTAGATCAAAGATAACAGAT
Found at i:16226548 original size:44 final size:44
Alignment explanation
Indices: 16226498--16226598 Score: 130
Period size: 44 Copynumber: 2.3 Consensus size: 44
16226488 CATCTCTCCA
* * * *
16226498 AGGTTGCAGTGTAGCAGATTGAATAAACCAATCTTATCCCCCTG
1 AGGTTGCAGTGGAACAGATTGAAGAAACCAATCCTATCCCCCTG
* *
16226542 AGGTTGCAGTGGAACAGATTGAAGAAACCAATCCTGTCTCCCTG
1 AGGTTGCAGTGGAACAGATTGAAGAAACCAATCCTATCCCCCTG
* *
16226586 AAGTTGCAATGGA
1 AGGTTGCAGTGGA
16226599 GTGGATCAGA
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 49 1.00
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.25
Consensus pattern (44 bp):
AGGTTGCAGTGGAACAGATTGAAGAAACCAATCCTATCCCCCTG
Found at i:16228110 original size:19 final size:19
Alignment explanation
Indices: 16228064--16228119 Score: 94
Period size: 21 Copynumber: 2.8 Consensus size: 19
16228054 AATTTTCAAG
16228064 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
16228083 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
16228104 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
16228120 AGATATGATT
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
19 16 0.46
21 19 0.54
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:16228141 original size:23 final size:22
Alignment explanation
Indices: 16228064--16228142 Score: 78
Period size: 19 Copynumber: 3.7 Consensus size: 22
16228054 AATTTTCAAG
*
16228064 GATATGCAATCTTAG-ATATGAT
1 GATATGCAATCTTAGAAGAT-AT
16228086 -ATATGCAATCTT---AGATAT
1 GATATGCAATCTTAGAAGATAT
16228104 GATATGCAATCTTAGAAGATAT
1 GATATGCAATCTTAGAAGATAT
* *
16228126 GATTTTGTAATCTTAGA
1 GA-TATGCAATCTTAGA
16228143 GATTTAATTT
Statistics
Matches: 49, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
18 2 0.04
19 15 0.31
21 12 0.24
22 8 0.16
23 12 0.24
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.38
Consensus pattern (22 bp):
GATATGCAATCTTAGAAGATAT
Found at i:16228712 original size:3 final size:3
Alignment explanation
Indices: 16228704--16228734 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
16228694 CATGATCAAG
16228704 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
16228735 TAAATAACAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:16237499 original size:10 final size:10
Alignment explanation
Indices: 16237484--16237521 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
16237474 CATATTTTCT
16237484 TAAAACTAAG
1 TAAAACTAAG
16237494 TAAAACTAA-
1 TAAAACTAAG
16237503 -AGAAACTAAG
1 TA-AAACTAAG
16237513 TAAAACTAA
1 TAAAACTAA
16237522 AGAAACTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
8 1 0.04
9 7 0.28
10 16 0.64
11 1 0.04
ACGTcount: A:0.63, C:0.11, G:0.08, T:0.18
Consensus pattern (10 bp):
TAAAACTAAG
Found at i:16237510 original size:19 final size:19
Alignment explanation
Indices: 16237486--16237528 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
16237476 TATTTTCTTA
16237486 AAACTAAGTAAAACTAAAG
1 AAACTAAGTAAAACTAAAG
16237505 AAACTAAGTAAAACTAAAG
1 AAACTAAGTAAAACTAAAG
16237524 AAACT
1 AAACT
16237529 TAACTAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.63, C:0.12, G:0.09, T:0.16
Consensus pattern (19 bp):
AAACTAAGTAAAACTAAAG
Found at i:16245457 original size:28 final size:28
Alignment explanation
Indices: 16245426--16245484 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
16245416 ATTCGATTTG
16245426 AAAAAAATAC-AAATCGAATTA-AGATTAT
1 AAAAAAATACTAAATCGAA--AGAGATTAT
* *
16245454 AAAATAATACTAAATTGAAAGAGATTAT
1 AAAAAAATACTAAATCGAAAGAGATTAT
16245482 AAA
1 AAA
16245485 CATGTTGAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 1 0.04
28 19 0.70
29 7 0.26
ACGTcount: A:0.61, C:0.05, G:0.08, T:0.25
Consensus pattern (28 bp):
AAAAAAATACTAAATCGAAAGAGATTAT
Found at i:16249087 original size:23 final size:23
Alignment explanation
Indices: 16249057--16249135 Score: 79
Period size: 23 Copynumber: 3.4 Consensus size: 23
16249047 CGTAATTCTC
16249057 TGTAAAGCCTTTGTGGCATATTT
1 TGTAAAGCCTTTGTGGCATATTT
* * *
16249080 TGTAAAGCCTGTATGACATATTT
1 TGTAAAGCCTTTGTGGCATATTT
* * *
16249103 TGTAAA-ACTTGTGTGGCGTATTC
1 TGTAAAGCCTT-TGTGGCATATTT
*
16249126 TATAAAGCCT
1 TGTAAAGCCT
16249136 ATGTTGTGTA
Statistics
Matches: 43, Mismatches: 11, Indels: 3
0.75 0.19 0.05
Matches are distributed among these distances:
22 2 0.05
23 39 0.91
24 2 0.05
ACGTcount: A:0.27, C:0.14, G:0.20, T:0.39
Consensus pattern (23 bp):
TGTAAAGCCTTTGTGGCATATTT
Found at i:16249169 original size:23 final size:23
Alignment explanation
Indices: 16249114--16249170 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 23
16249104 GTAAAACTTG
*
16249114 TGTGGCGTATTCTATAAAGCCTA
1 TGTGGCGTATTCTATAAAGACTA
* * *
16249137 TGTTGTGTATTCTGTAAAGAACT-
1 TGTGGCGTATTCTATAAAG-ACTA
16249160 TGTGGCGTATT
1 TGTGGCGTATT
16249171 ATGTGATGCC
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
23 25 0.93
24 2 0.07
ACGTcount: A:0.23, C:0.12, G:0.25, T:0.40
Consensus pattern (23 bp):
TGTGGCGTATTCTATAAAGACTA
Found at i:16253889 original size:2 final size:2
Alignment explanation
Indices: 16253882--16253907 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
16253872 TATCTTCCTC
16253882 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
16253908 GATGTGCCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16254192 original size:21 final size:21
Alignment explanation
Indices: 16254166--16254213 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
16254156 AATCAAATTC
* * *
16254166 TTCCTCCTGATTTTCAGTTTT
1 TTCCTCCTAATTCTCAGCTTT
16254187 TTCCTCCTAATTCTCAGCTTT
1 TTCCTCCTAATTCTCAGCTTT
16254208 TTCCTC
1 TTCCTC
16254214 ATGAAAATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.10, C:0.31, G:0.06, T:0.52
Consensus pattern (21 bp):
TTCCTCCTAATTCTCAGCTTT
Found at i:16260434 original size:22 final size:22
Alignment explanation
Indices: 16260392--16260458 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 22
16260382 AATCAAAATG
16260392 AATA-AAAATTTTA-AAACATA
1 AATATAAAATTTTATAAACATA
*
16260412 AA-ATAAAATTTTATAAATTATA
1 AATATAAAATTTTATAAA-CATA
16260434 AATTATAATACATTTTATAAACATA
1 AA-TATAA-A-ATTTTATAAACATA
16260459 TACATATATT
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
19 1 0.03
20 11 0.29
21 3 0.08
22 5 0.13
24 4 0.11
25 4 0.11
26 10 0.26
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.37
Consensus pattern (22 bp):
AATATAAAATTTTATAAACATA
Found at i:16260880 original size:170 final size:166
Alignment explanation
Indices: 16260590--16260918 Score: 516
Period size: 170 Copynumber: 2.0 Consensus size: 166
16260580 AAAAACTTTT
*
16260590 GAAATCAAAATTAAATATGAAAAGTATTTTGAAGTTGAAAATAATAATCAACAAATTTTAAATCG
1 GAAATCAAAATTAAATATGAAAAGTATTTTGAAATTGAAAATAATAATCAACAAATTTTAAATCG
* * *
16260655 AGGTTTAAATAAAATTAAATTAATAATAAAAGAAGACAAAACCAAAATACAATTGACTCAAAATA
66 AAGCTTAAATAAAATTAAATTAATAATAAAAGAAAACAAAACCAAAATACAATTGACTCAAAATA
16260720 TTGGTGTATAATGAATTTTAAAAAATAAAATAAAATACA
131 TTGGTGTATAATGAA-TTT--AAAATAAAATAAAATACA
* * *
16260759 GAAATCAAAATTAAATATGAAAAGTATTTTTGAAATTGAAAGTAATAATCAACTATTTTTAAATC
1 GAAATCAAAATTAAATATGAAAAGTA-TTTTGAAATTGAAAATAATAATCAACAAATTTTAAATC
* * *
16260824 GAAGCTTAAATGAAATTAGAA-TAATAATAAAAGAAAACAAAACTAAAATGCAATTGACTCAAAA
65 GAAGCTTAAATAAAATTA-AATTAATAATAAAAGAAAACAAAACCAAAATACAATTGACTCAAAA
16260888 TATTGGTGTATAATGAATTTAAAATAAAATA
129 TATTGGTGTATAATGAATTTAAAATAAAATA
16260919 CAAACGAAAA
Statistics
Matches: 148, Mismatches: 10, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
167 11 0.07
169 29 0.20
170 106 0.72
171 2 0.01
ACGTcount: A:0.54, C:0.06, G:0.10, T:0.29
Consensus pattern (166 bp):
GAAATCAAAATTAAATATGAAAAGTATTTTGAAATTGAAAATAATAATCAACAAATTTTAAATCG
AAGCTTAAATAAAATTAAATTAATAATAAAAGAAAACAAAACCAAAATACAATTGACTCAAAATA
TTGGTGTATAATGAATTTAAAATAAAATAAAATACA
Found at i:16262604 original size:46 final size:46
Alignment explanation
Indices: 16262554--16262641 Score: 158
Period size: 46 Copynumber: 1.9 Consensus size: 46
16262544 ACCAGGTCTG
16262554 AAATTCTTCAGTCTATTCCACTGTAATCTCAAGGAGATAAGATCTA
1 AAATTCTTCAGTCTATTCCACTGTAATCTCAAGGAGATAAGATCTA
* *
16262600 AAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAGATAAGA
1 AAATTCTTCAGTCTATTCCACTGTAATCTCAAGGAGATAAGA
16262642 CCTGATGCAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (46 bp):
AAATTCTTCAGTCTATTCCACTGTAATCTCAAGGAGATAAGATCTA
Found at i:16262722 original size:44 final size:43
Alignment explanation
Indices: 16262616--16262767 Score: 127
Period size: 44 Copynumber: 3.5 Consensus size: 43
16262606 TTCGGTCTAT
* * *
16262616 TCCACTGTAATCTCAGGGAGATAAGA-CC-TGATGCAATCTAC
1 TCCACTGTAATCTCAGGGAGATAAGATCCTTTATTCAATCTGC
* * * * *
16262657 TCTACTGTAA-CTTTAGAGAGATAAGATCCTTTATTTTAATCCGC
1 TCCACTGTAATC-TCAGGGAGATAAGATCCTTTA-TTCAATCTGC
*
16262701 TCCACTGTAATCTCAGGGAGAT-TGAAT--TATTAGCTTCAATCTGC
1 TCCACTGTAATCTCAGGGAGATAAG-ATCCT-TTA--TTCAATCTGC
16262745 TCCACTGTAATCTCAGGGAGATA
1 TCCACTGTAATCTCAGGGAGATA
16262768 GAATTACTAG
Statistics
Matches: 87, Mismatches: 15, Indels: 14
0.75 0.13 0.12
Matches are distributed among these distances:
40 1 0.01
41 21 0.24
42 3 0.03
43 6 0.07
44 55 0.63
45 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.32
Consensus pattern (43 bp):
TCCACTGTAATCTCAGGGAGATAAGATCCTTTATTCAATCTGC
Found at i:16262772 original size:44 final size:44
Alignment explanation
Indices: 16262694--16262783 Score: 153
Period size: 44 Copynumber: 2.0 Consensus size: 44
16262684 CCTTTATTTT
* *
16262694 AATCCGCTCCACTGTAATCTCAGGGAGATTGAATTATTAGCTTC
1 AATCCGCTCCACTGTAATCTCAGGGAGATAGAATTACTAGCTTC
*
16262738 AATCTGCTCCACTGTAATCTCAGGGAGATAGAATTACTAGCTTC
1 AATCCGCTCCACTGTAATCTCAGGGAGATAGAATTACTAGCTTC
16262782 AA
1 AA
16262784 NNNNNNNNNN
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (44 bp):
AATCCGCTCCACTGTAATCTCAGGGAGATAGAATTACTAGCTTC
Found at i:16262940 original size:44 final size:44
Alignment explanation
Indices: 16262834--16263335 Score: 143
Period size: 44 Copynumber: 11.5 Consensus size: 44
16262824 NNNNATCTAT
* * *** *
16262834 TCCACTGTAATCTTAGGGAGATAAGA-CC-TGA-TGCGATCTAC
1 TCCACTGTAATCTCAGGGAGATAAGATCCTTTATTTTAATCTGC
* *
16262875 TCTACTGTAA-CTTC-GGAGAGATAAGATCCTTTATTTTAATCCGC
1 TCCACTGTAATC-TCAGG-GAGATAAGATCCTTTATTTTAATCTGC
* * * * *
16262919 TCCACTGTAATCTCAGGGAGATAGGAT--TACTAGCTTCAATTTGC
1 TCCACTGTAATCTCAGGGAGATAAGATCCT-TTA-TTTTAATCTGC
* ** ** ** **
16262963 TCCGCTGTAATCTCAGATAGATAAGAT-CTGAAATTCTTCGGTCTAT
1 TCCACTGTAATCTCAGGGAGATAAGATCCT-TTATT-TT-AATCTGC
* * * *** *
16263009 TCCACTGTAATTTTAGGGAGATAAGA-CC-TGA-TGCGATCTAC
1 TCCACTGTAATCTCAGGGAGATAAGATCCTTTATTTTAATCTGC
* * *
16263050 TCTACTGTAA-CTTCAGAGAGATAAGATCCTTTATTTTAATCCGC
1 TCCACTGTAATC-TCAGGGAGATAAGATCCTTTATTTTAATCTGC
* * * * *
16263094 TCCACTGTAATCTTAGGGAGATAGGAT--TACTAGCTTCAATCTGC
1 TCCACTGTAATCTCAGGGAGATAAGATCCT-TTA-TTTTAATCTGC
* * ** * *
16263138 TCCGCTGTAATCTTAGGGAGATAAGAT-CTAAAATTCT--TCGGTC
1 TCCACTGTAATCTCAGGGAGATAAGATCCT-TTATTTTAATCTG-C
* * * * *
16263181 ATTCCACTATAATCTCAGGGAGATAAGA-CC-TGA-TGTGATCTAC
1 --TCCACTGTAATCTCAGGGAGATAAGATCCTTTATTTTAATCTGC
* * * *
16263224 -CCTACTGTAA-CTTTAGAGAGATAAGATCCTTTATTGTAATCCGC
1 TCC-ACTGTAATC-TCAGGGAGATAAGATCCTTTATTTTAATCTGC
* * * * *
16263268 TCTACTGTAATCTCAGGGAGATAGGAT--TACTAGCTTCAATCTGC
1 TCCACTGTAATCTCAGGGAGATAAGATCCT-TTA-TTTTAATCTGC
* *
16263312 TCCGCTGTAATCTCTGGGAGATAA
1 TCCACTGTAATCTCAGGGAGATAA
16263336 AATTCACCAT
Statistics
Matches: 331, Mismatches: 94, Indels: 69
0.67 0.19 0.14
Matches are distributed among these distances:
40 6 0.02
41 63 0.19
42 14 0.04
43 16 0.05
44 172 0.52
45 36 0.11
46 24 0.07
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.32
Consensus pattern (44 bp):
TCCACTGTAATCTCAGGGAGATAAGATCCTTTATTTTAATCTGC
Found at i:16263288 original size:174 final size:175
Alignment explanation
Indices: 16262829--16263335 Score: 856
Period size: 175 Copynumber: 2.9 Consensus size: 175
16262819 NNNNNNNNNA
*
16262829 TCTATTCCACTGTAATCTTAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCGGAGA
1 TCTATTCCACTGTAATCTTAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGA
16262894 GATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAAT
66 GATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAAT
* * ** *
16262959 TTGCTCCGCTGTAATCTCAGATAGATAAGATCTGAAATTCTTCGG
131 CTGCTCCGCTGTAATCTTAGGGAGATAAGATCTAAAATTCTTCGG
*
16263004 TCTATTCCACTGTAATTTTAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGA
1 TCTATTCCACTGTAATCTTAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGA
*
16263069 GATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTTAGGGAGATAGGATTACTAGCTTCAAT
66 GATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAAT
16263134 CTGCTCCGCTGTAATCTTAGGGAGATAAGATCTAAAATTCTTCGG
131 CTGCTCCGCTGTAATCTTAGGGAGATAAGATCTAAAATTCTTCGG
* * * * *
16263179 TC-ATTCCACTATAATCTCAGGGAGATAAGACCTGATGTGATCTACCCTACTGTAACTTTAGAGA
1 TCTATTCCACTGTAATCTTAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGA
* *
16263243 GATAAGATCCTTTATTGTAATCCGCTCTACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAAT
66 GATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAAT
16263308 CTGCTCCGCTGTAATCTCT-GGGAGATAA
131 CTGCTCCGCTGTAATCT-TAGGGAGATAA
16263336 AATTCACCAT
Statistics
Matches: 314, Mismatches: 17, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
174 144 0.46
175 170 0.54
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.32
Consensus pattern (175 bp):
TCTATTCCACTGTAATCTTAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGA
GATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAAT
CTGCTCCGCTGTAATCTTAGGGAGATAAGATCTAAAATTCTTCGG
Found at i:16263356 original size:45 final size:44
Alignment explanation
Indices: 16263272--16263362 Score: 119
Period size: 44 Copynumber: 2.0 Consensus size: 44
16263262 ATCCGCTCTA
** *
16263272 CTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCG
1 CTGTAATCTCAGGGAGATAAAATTACCAGCTTCAATCTGCTCCG
* * *
16263316 CTGTAATCTCTGGGAGATAAAATTCACCATCTTCGATCTGCTCCG
1 CTGTAATCTCAGGGAGATAAAATT-ACCAGCTTCAATCTGCTCCG
16263361 CT
1 CT
16263363 ATTGCTCAAG
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 21 0.52
45 19 0.47
ACGTcount: A:0.24, C:0.25, G:0.20, T:0.31
Consensus pattern (44 bp):
CTGTAATCTCAGGGAGATAAAATTACCAGCTTCAATCTGCTCCG
Found at i:16277141 original size:25 final size:25
Alignment explanation
Indices: 16277063--16277142 Score: 83
Period size: 25 Copynumber: 3.2 Consensus size: 25
16277053 GTACATGTAT
*
16277063 GCTCATACGAGCTATAA-A-CGAGAA
1 GCTCATGCGAGCTA-AATATCGAGAA
* * *
16277087 GCTCATGCGAGCTAAGTGTCGGGAA
1 GCTCATGCGAGCTAAATATCGAGAA
* *
16277112 ACTCATGTGAGCTAAATATCGAGAA
1 GCTCATGCGAGCTAAATATCGAGAA
16277137 GCTCAT
1 GCTCAT
16277143 AAGAGTTGTG
Statistics
Matches: 44, Mismatches: 10, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
23 1 0.02
24 13 0.30
25 30 0.68
ACGTcount: A:0.34, C:0.20, G:0.25, T:0.21
Consensus pattern (25 bp):
GCTCATGCGAGCTAAATATCGAGAA
Found at i:16282842 original size:15 final size:15
Alignment explanation
Indices: 16282824--16282855 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
16282814 CATTTTACTA
*
16282824 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
16282839 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
16282854 TT
1 TT
16282856 TGCATGCATA
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:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:16284521 original size:20 final size:19
Alignment explanation
Indices: 16284496--16284545 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
16284486 TAATAGTATT
16284496 TTATTAATTTAATATTAAA
1 TTATTAATTTAATATTAAA
16284515 GTTATT-ATCTTAATATTAAA
1 -TTATTAAT-TTAATATTAAA
16284535 -T-TTAATTTAAT
1 TTATTAATTTAAT
16284546 GTTTATCTAC
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
17 7 0.25
18 3 0.11
19 2 0.07
20 16 0.57
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (19 bp):
TTATTAATTTAATATTAAA
Found at i:16287529 original size:72 final size:74
Alignment explanation
Indices: 16287424--16287569 Score: 278
Period size: 72 Copynumber: 2.0 Consensus size: 74
16287414 CTTTTGTTTA
16287424 TTTATTTTTATATATAAAATAAAATAAAAAAACCCATTTCTTTCGCGTTCTCATTTCAACACCTT
1 TTTATTTTTATATATAAAATAAAATAAAAAAACCCATTTCTTTCGCGTTCTCATTTCAACACCTT
16287489 CCGCTTTCC
66 CCGCTTTCC
16287498 TTTA-TTTT-TATATAAAATAAAATAAAAAAACCCATTTCTTTCGCGTTCTCATTTCAACACCTT
1 TTTATTTTTATATATAAAATAAAATAAAAAAACCCATTTCTTTCGCGTTCTCATTTCAACACCTT
16287561 CCGCTTTCC
66 CCGCTTTCC
16287570 ATAAAATTCA
Statistics
Matches: 72, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
72 64 0.89
73 4 0.06
74 4 0.06
ACGTcount: A:0.32, C:0.23, G:0.04, T:0.40
Consensus pattern (74 bp):
TTTATTTTTATATATAAAATAAAATAAAAAAACCCATTTCTTTCGCGTTCTCATTTCAACACCTT
CCGCTTTCC
Found at i:16293717 original size:29 final size:29
Alignment explanation
Indices: 16293675--16293757 Score: 96
Period size: 29 Copynumber: 2.8 Consensus size: 29
16293665 TATGAACCAC
*
16293675 AATTCAAGTTTCATGTATATAATTGCAC-TA
1 AATTAAAG-TTCATGTATA-AATTGCACATA
16293705 AATTAAAGTTCATGTATCAAATTGCACATTA
1 AATTAAAGTTCATGTAT-AAATTGCACA-TA
**
16293736 AACCAAAGTTCATGTATAAATT
1 AATTAAAGTTCATGTATAAATT
16293758 TACTATTTAT
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
29 17 0.36
30 13 0.28
31 17 0.36
ACGTcount: A:0.41, C:0.13, G:0.10, T:0.36
Consensus pattern (29 bp):
AATTAAAGTTCATGTATAAATTGCACATA
Done.