Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 77 of 297
Found at i:27442658 original size:27 final size:27
Alignment explanation
Indices: 27442628--27442805 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
27442618 ATATTGAGTC
* * *
27442628 CGCATACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
27442655 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
27442682 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
27442710 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
27442737 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
27442764 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
27442791 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
27442806 GTACAATTTA
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 104 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:27442774 original size:82 final size:81
Alignment explanation
Indices: 27442649--27442804 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
27442639 TGCTATATAA
* *
27442649 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
27442714 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
27442731 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
27442795 CACTTAGTGC
65 CACTTAGTGC
27442805 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:27454491 original size:40 final size:40
Alignment explanation
Indices: 27454440--27454711 Score: 508
Period size: 40 Copynumber: 6.8 Consensus size: 40
27454430 CATTTGAATG
27454440 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
27454480 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
27454520 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
27454560 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
27454600 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
*
27454640 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
* * *
27454680 ATACCCGGGTTAAGACCCGAAGGCAATTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC
27454712 TTGTGGTTAT
Statistics
Matches: 228, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 228 1.00
ACGTcount: A:0.25, C:0.21, G:0.30, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
Found at i:27455584 original size:60 final size:60
Alignment explanation
Indices: 27455491--27455612 Score: 199
Period size: 60 Copynumber: 2.0 Consensus size: 60
27455481 TAAAATGTAC
** *
27455491 CAATTGGCCCAACCAAAAATTCTAGAAATAAATCCACCGATGGATATATGAGTCTAATTT
1 CAATTGGCCCAACCAAAAATTCTAGAAATAAATCCAAAGATGGATATATGAGTATAATTT
* *
27455551 CAATTGTCCCGACCAAAAATTCTAGAAATAAATCCAAAGATGGATATATGAGTATAATTT
1 CAATTGGCCCAACCAAAAATTCTAGAAATAAATCCAAAGATGGATATATGAGTATAATTT
27455611 CA
1 CA
27455613 GGAAAAATTT
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
60 57 1.00
ACGTcount: A:0.42, C:0.18, G:0.13, T:0.27
Consensus pattern (60 bp):
CAATTGGCCCAACCAAAAATTCTAGAAATAAATCCAAAGATGGATATATGAGTATAATTT
Found at i:27464613 original size:41 final size:41
Alignment explanation
Indices: 27464545--27464664 Score: 141
Period size: 41 Copynumber: 2.9 Consensus size: 41
27464535 CACATATATC
* * *
27464545 ATACAATGACAATGTCCTAGACGTGGTCTTACACGAATCAA
1 ATACGATGACAATGTCCTAAACATGGTCTTACACGAATCAA
* * *
27464586 ATACGATGTCAATGTCCTAAACATGGTCTTACACATAATCAC
1 ATACGATGACAATGTCCTAAACATGGTCTTACAC-GAATCAA
* * *
27464628 ATATCGATGCCAATGTCCCAAACATAGTCTTACACGA
1 ATA-CGATGACAATGTCCTAAACATGGTCTTACACGA
27464665 GAACACATAT
Statistics
Matches: 67, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
41 30 0.45
42 9 0.13
43 28 0.42
ACGTcount: A:0.36, C:0.24, G:0.14, T:0.26
Consensus pattern (41 bp):
ATACGATGACAATGTCCTAAACATGGTCTTACACGAATCAA
Found at i:27464645 original size:43 final size:43
Alignment explanation
Indices: 27464554--27464675 Score: 151
Period size: 43 Copynumber: 2.9 Consensus size: 43
27464544 CATACAATGA
* * * *
27464554 CAATGTCCTAGACGTGGTCTTACAC-GAATCAAATA-CGATGT
1 CAATGTCCTAAACATGGTCTTACACAGAATCACATATCGATGC
*
27464595 CAATGTCCTAAACATGGTCTTACACATAATCACATATCGATGC
1 CAATGTCCTAAACATGGTCTTACACAGAATCACATATCGATGC
* *
27464638 CAATGTCCCAAACATAGTCTTACACGAGAA-CACATATC
1 CAATGTCCTAAACATGGTCTTACAC-AGAATCACATATC
27464676 AGAAACCCTA
Statistics
Matches: 70, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
41 23 0.33
42 8 0.11
43 36 0.51
44 3 0.04
ACGTcount: A:0.35, C:0.25, G:0.14, T:0.25
Consensus pattern (43 bp):
CAATGTCCTAAACATGGTCTTACACAGAATCACATATCGATGC
Found at i:27469139 original size:44 final size:41
Alignment explanation
Indices: 27469067--27469186 Score: 132
Period size: 42 Copynumber: 2.8 Consensus size: 41
27469057 TGTGATATCA
* * * *
27469067 TGTAAGACTATGTCTGGAACATCGGCATCGATTTGAGATTTATG
1 TGTAAGACCATGTCTGGGACATTGGCATCGATAT-A-ATTTA-G
*
27469111 TGTAAGACCATGTCTGGGACATTAGCATCGTATATAATTTAG
1 TGTAAGACCATGTCTGGGACATTGGCATCG-ATATAATTTAG
* * *
27469153 TATAAGACCCTGTCTGGGACAGTGGCATCGATAT
1 TGTAAGACCATGTCTGGGACATTGGCATCGATAT
27469187 TTGATAACAT
Statistics
Matches: 66, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
41 4 0.06
42 27 0.41
43 5 0.08
44 27 0.41
45 3 0.05
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (41 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGATATAATTTAG
Found at i:27478788 original size:46 final size:47
Alignment explanation
Indices: 27478632--27478890 Score: 178
Period size: 46 Copynumber: 5.5 Consensus size: 47
27478622 TTTGTGCGCT
* * *
27478632 AGTGTAAG-ACATGTCTGGGACATGCATCTGCCAC-ATTATGAGAGCC
1 AGTGTAAGAACATGTCTGGGACATGCATCGGCCTCGA-GATGAGAGCC
* ** * * * *
27478678 AGTGTAAGAACATGTCTAGGACATGGCAAAGACATTGAGATGAGAGCT
1 AGTGTAAGAACATGTCTGGGACAT-GCATCGGCCTCGAGATGAGAGCC
27478726 AGTGTAAGAA-ATGTCTGGGACATGCATCGGCCTCGAGATGTA-AGCC
1 AGTGTAAGAACATGTCTGGGACATGCATCGGCCTCGAGATG-AGAGCC
* * * * *
27478772 AGCGTAA-AACATGTCTGGGACATGCACCGG-CTATGAGAT--GCGTC
1 AGTGTAAGAACATGTCTGGGACATGCATCGGCCT-CGAGATGAGAGCC
* * * *
27478816 AGTGTATG-ACTCTGTCTAGGACATGGCATCGGCAC-AGAGATGTGAGAGCC
1 AGTGTAAGAAC-ATGTCTGGGACAT-GCATCGGC-CTCGAGA--TGAGAGCC
**
27478866 AGTGTAAGATGATGTCTGGGACATG
1 AGTGTAAGAACATGTCTGGGACATG
27478891 GCGTCGGACA
Statistics
Matches: 161, Mismatches: 35, Indels: 31
0.71 0.15 0.14
Matches are distributed among these distances:
44 9 0.06
45 15 0.09
46 63 0.39
47 27 0.17
48 24 0.15
49 2 0.01
50 21 0.13
ACGTcount: A:0.29, C:0.18, G:0.30, T:0.22
Consensus pattern (47 bp):
AGTGTAAGAACATGTCTGGGACATGCATCGGCCTCGAGATGAGAGCC
Found at i:27480162 original size:20 final size:21
Alignment explanation
Indices: 27480123--27480162 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
27480113 GTTATAATAA
*
27480123 CCACACGGGCGTGTTGCCCTT
1 CCACACGAGCGTGTTGCCCTT
27480144 CCACACGAGCGTG-TGCCCT
1 CCACACGAGCGTGTTGCCCT
27480163 GTTTCAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.12, C:0.40, G:0.28, T:0.20
Consensus pattern (21 bp):
CCACACGAGCGTGTTGCCCTT
Found at i:27482430 original size:53 final size:53
Alignment explanation
Indices: 27482366--27482787 Score: 342
Period size: 53 Copynumber: 7.8 Consensus size: 53
27482356 CTTTCCTTTT
* * * **
27482366 TAAACTTACCATTGCCATGTCTTGACATAGTCTTTTGTGGTATCCTTGCCTTA
1 TAAACTCACCATTGCCATGCCTTGACATGGTCTTACGTGGTATCCTTGCCTTA
* * * * *
27482419 CAAACTCACCATTGCCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTA
1 TAAACTCACCATTGCCATGCCTTGACATGGTCTTACGTGGTATCCTTGCCTTA
* * * * *
27482472 TAATAGTTTATCAATGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTA
1 TAA-A-CTCACCATTGCCATGCCTTGACATGGTCTTACGTGGTATCCTTGCCTTA
* * * * *
27482527 TGAACTCACCATTGCCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTA
1 TAAACTCACCATTGCCATGCCTTGACATGGTCTTACGTGGTATCCTTGCCTTA
* * * * *
27482580 TAATAGTTTATCAATGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTA
1 TAA-A-CTCACCATTGCCATGCCTTGACATGGTCTTACGTGGTATCCTTGCCTTA
* * * * *
27482635 TGAACTCACCATTGCCATGCCTTGGCATGGTCTTACTTGGGATCTTTGCCTTA
1 TAAACTCACCATTGCCATGCCTTGACATGGTCTTACGTGGTATCCTTGCCTTA
** * ** * * * * * * *
27482688 TAGTAGTTTATTAATGCCATGTCTTGACATGGTCCTACATGATTTCCTTGCCTTG
1 TA--AACTCACCATTGCCATGCCTTGACATGGTCTTACGTGGTATCCTTGCCTTA
** * * *
27482743 TAAAACAT-ACCAAAGCCATACCTTGGCATGGTCTTACTTGGTATC
1 T-AAAC-TCACCATTGCCATGCCTTGACATGGTCTTACGTGGTATC
27482788 TTAAACCCTA
Statistics
Matches: 283, Mismatches: 78, Indels: 15
0.75 0.21 0.04
Matches are distributed among these distances:
53 128 0.45
54 32 0.11
55 122 0.43
56 1 0.00
ACGTcount: A:0.21, C:0.23, G:0.18, T:0.37
Consensus pattern (53 bp):
TAAACTCACCATTGCCATGCCTTGACATGGTCTTACGTGGTATCCTTGCCTTA
Found at i:27482504 original size:55 final size:55
Alignment explanation
Indices: 27482431--27482728 Score: 334
Period size: 55 Copynumber: 5.5 Consensus size: 55
27482421 AACTCACCAT
*
27482431 TGCCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTATAATAGTTTATCAA
1 TGCCATGCCTTGACATGGTCTTACATGGGATCTTTGCCTTATAATAGTTTATCAA
* * * * * * * * *
27482486 TGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTATGA-A-CTCACCAT
1 TGCCATGCCTTGACATGGTCTTACATGGGATCTTTGCCTTATAATAGTTTATCAA
*
27482539 TGCCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTATAATAGTTTATCAA
1 TGCCATGCCTTGACATGGTCTTACATGGGATCTTTGCCTTATAATAGTTTATCAA
* * * * * * * * *
27482594 TGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTATGA-A-CTCACCAT
1 TGCCATGCCTTGACATGGTCTTACATGGGATCTTTGCCTTATAATAGTTTATCAA
* * * *
27482647 TGCCATGCCTTGGCATGGTCTTACTTGGGATCTTTGCCTTATAGTAGTTTATTAA
1 TGCCATGCCTTGACATGGTCTTACATGGGATCTTTGCCTTATAATAGTTTATCAA
* *
27482702 TGCCATGTCTTGACATGGTCCTACATG
1 TGCCATGCCTTGACATGGTCTTACATG
27482729 ATTTCCTTGC
Statistics
Matches: 193, Mismatches: 46, Indels: 8
0.78 0.19 0.03
Matches are distributed among these distances:
53 83 0.43
54 4 0.02
55 106 0.55
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.38
Consensus pattern (55 bp):
TGCCATGCCTTGACATGGTCTTACATGGGATCTTTGCCTTATAATAGTTTATCAA
Found at i:27482567 original size:108 final size:108
Alignment explanation
Indices: 27482378--27482789 Score: 628
Period size: 108 Copynumber: 3.8 Consensus size: 108
27482368 AACTTACCAT
* ** *
27482378 TGCCATGTCTTGACATAGTCTTTTGTGGTATCCTTGCCTTACAAACTCACCATTGCCATGCCTTG
1 TGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTATAAACTCACCATTGCCATGCCTTG
27482443 GCATGGTCTTACATGGGATCTTTGCCTTATAATAGTTTATCAA
66 GCATGGTCTTACATGGGATCTTTGCCTTATAATAGTTTATCAA
*
27482486 TGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTATGAACTCACCATTGCCATGCCTTG
1 TGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTATAAACTCACCATTGCCATGCCTTG
27482551 GCATGGTCTTACATGGGATCTTTGCCTTATAATAGTTTATCAA
66 GCATGGTCTTACATGGGATCTTTGCCTTATAATAGTTTATCAA
*
27482594 TGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTATGAACTCACCATTGCCATGCCTTG
1 TGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTATAAACTCACCATTGCCATGCCTTG
* * *
27482659 GCATGGTCTTACTTGGGATCTTTGCCTTATAGTAGTTTATTAA
66 GCATGGTCTTACATGGGATCTTTGCCTTATAATAGTTTATCAA
* * * * * ** *
27482702 TGCCATGTCTTGACATGGTCCTACATGATTTCCTTGCCTTGTAAAACAT-ACCAAAGCCATACCT
1 TGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-AAAC-TCACCATTGCCATGCCT
* *
27482766 TGGCATGGTCTTACTTGGTATCTT
64 TGGCATGGTCTTACATGGGATCTT
27482790 AAACCCTAAT
Statistics
Matches: 284, Mismatches: 18, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
108 245 0.86
109 38 0.13
110 1 0.00
ACGTcount: A:0.21, C:0.23, G:0.19, T:0.37
Consensus pattern (108 bp):
TGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTATAAACTCACCATTGCCATGCCTTG
GCATGGTCTTACATGGGATCTTTGCCTTATAATAGTTTATCAA
Found at i:27486080 original size:19 final size:19
Alignment explanation
Indices: 27486056--27486094 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
27486046 TTCGGGTTTA
27486056 CTTCAGCCTATCATGGTCC
1 CTTCAGCCTATCATGGTCC
27486075 CTTCAGCCTATCATGGTCC
1 CTTCAGCCTATCATGGTCC
27486094 C
1 C
27486095 CGAGAGAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.15, C:0.38, G:0.15, T:0.31
Consensus pattern (19 bp):
CTTCAGCCTATCATGGTCC
Found at i:27489861 original size:46 final size:47
Alignment explanation
Indices: 27489808--27490010 Score: 168
Period size: 46 Copynumber: 4.3 Consensus size: 47
27489798 TATGTGTGCT
*
27489808 AGTGTAAGACATATCTGGGACATGCATCGGCCAC-ATTATG-AGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGG-CACGATTATGAAGAGCC
* * * *
27489854 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGA-GA-CAAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCA-CGATTATGAAGAGCC
* * * * * *
27489902 AGTGTAAGACATGTCTAGGACATGTATCAGCCTCGA-GATGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATC-GGCACGATTATGAAGAGCC
*
27489948 AGTGTAAGACATGTCTGGGACATGCATCGGCACGGA-TATGTGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCAC-GATTATG-AAGAGCC
*
27489996 AATGTAAGACCATGT
1 AGTGTAAGA-CATGT
27490011 TTAGAATATG
Statistics
Matches: 126, Mismatches: 20, Indels: 19
0.76 0.12 0.12
Matches are distributed among these distances:
45 3 0.02
46 51 0.40
47 32 0.25
48 34 0.27
49 6 0.05
ACGTcount: A:0.30, C:0.19, G:0.29, T:0.22
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCACGATTATGAAGAGCC
Found at i:27489900 original size:48 final size:47
Alignment explanation
Indices: 27489808--27489979 Score: 174
Period size: 46 Copynumber: 3.7 Consensus size: 47
27489798 TATGTGTGCT
* * *
27489808 AGTGTAAGACATATCTGGGACATGCATCGGCCA-C-ATTAT-GAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGG-CATCGA-GATCAAGAGCC
* *
27489854 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGA-CAAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATCGAGATCAAGAGCC
* * * * **
27489902 AGTGTAAGACATGTCTAGGACATGTATCAGCCTCGAGATGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGATCAAGAGCC
27489948 AGTGTAAGACATGTCTGGGACATGCATCGGCA
1 AGTGTAAGACATGTCTGGGACATGCATCGGCA
27489980 CGGATATGTG
Statistics
Matches: 103, Mismatches: 17, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
46 51 0.50
47 29 0.28
48 22 0.21
49 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGATCAAGAGCC
Found at i:27489994 original size:94 final size:94
Alignment explanation
Indices: 27489805--27489983 Score: 240
Period size: 94 Copynumber: 1.9 Consensus size: 94
27489795 ATGTATGTGT
* * * *
27489805 GCTAGTGTAAGACATATCTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTC
1 GCTAGTGTAAGACATGTCTAGGACATGCATCAGCCACATGATGAGAGCCAGTGTAAGACCATGTC
**
27489870 TGGGACATGGCATCGGCATTGAGACAAGA
66 TGGGACATGGCATCGGCACGGAGACAAGA
* *
27489899 GCTAGTGTAAGACATGTCTAGGACATGTATCAGCCTCGA-GATGTA-AGCCAGTGTAAGA-CATG
1 GCTAGTGTAAGACATGTCTAGGACATGCATCAGCCAC-ATGATG-AGAGCCAGTGTAAGACCATG
27489961 TCTGGGACAT-GCATCGGCACGGA
64 TCTGGGACATGGCATCGGCACGGA
27489984 TATGTGAGAG
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
92 11 0.15
93 14 0.19
94 48 0.64
95 2 0.03
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (94 bp):
GCTAGTGTAAGACATGTCTAGGACATGCATCAGCCACATGATGAGAGCCAGTGTAAGACCATGTC
TGGGACATGGCATCGGCACGGAGACAAGA
Found at i:27493182 original size:15 final size:13
Alignment explanation
Indices: 27493146--27493181 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
27493136 GTAAACACAC
27493146 GGACGTGTGTCTA
1 GGACGTGTGTCTA
27493159 GGACGTGTGTCTA
1 GGACGTGTGTCTA
*
27493172 GGCCGTGTGT
1 GGACGTGTGT
27493182 GATACAAGGC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.11, C:0.17, G:0.42, T:0.31
Consensus pattern (13 bp):
GGACGTGTGTCTA
Found at i:27502279 original size:42 final size:43
Alignment explanation
Indices: 27502172--27502293 Score: 106
Period size: 44 Copynumber: 2.8 Consensus size: 43
27502162 CGATATGTGT
* **
27502172 TTTCGTGTAAGACCAC-ATCTGGGACGTTGGTATCGACTTATGA
1 TTTCGTGTAAGACC-CTATCTGGGACATTGACATCGACTTATGA
* * * *
27502215 TTTATGTGTAAGACCATGTCTGGGACATTGACATTGTA-TT-TGA
1 TTT-CGTGTAAGACCCTATCTGGGACATTGACATCG-ACTTATGA
* * *
27502258 TTTCGTGTAAGACCCTATCTGGAACAATGGCATCGA
1 TTTCGTGTAAGACCCTATCTGGGACATTGACATCGA
27502294 TATTTGGTAC
Statistics
Matches: 62, Mismatches: 14, Indels: 8
0.74 0.17 0.10
Matches are distributed among these distances:
41 1 0.02
42 25 0.40
43 9 0.15
44 26 0.42
45 1 0.02
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (43 bp):
TTTCGTGTAAGACCCTATCTGGGACATTGACATCGACTTATGA
Found at i:27502452 original size:43 final size:43
Alignment explanation
Indices: 27502405--27502489 Score: 136
Period size: 43 Copynumber: 2.0 Consensus size: 43
27502395 GAGGAAAGAA
27502405 TGAATATA-GTAAATGTGTATTCAAATCAGGTACGTTTGAAATG
1 TGAATATATG-AAATGTGTATTCAAATCAGGTACGTTTGAAATG
* *
27502448 TGAATATATGAAATGTGTATTCGAATCAGGTATGTTTGAAAT
1 TGAATATATGAAATGTGTATTCAAATCAGGTACGTTTGAAAT
27502490 TTATACTATG
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
43 38 0.97
44 1 0.03
ACGTcount: A:0.36, C:0.06, G:0.21, T:0.36
Consensus pattern (43 bp):
TGAATATATGAAATGTGTATTCAAATCAGGTACGTTTGAAATG
Found at i:27513830 original size:49 final size:49
Alignment explanation
Indices: 27513751--27513844 Score: 134
Period size: 49 Copynumber: 1.9 Consensus size: 49
27513741 TCAAGAAGGG
* * *
27513751 ATAAATAGTAATAAGAGTGTATACAGTGGAAGACTAAGTTTAGCAATGT
1 ATAAATAGTAATAAGAGTGTAGACAATGGAAGACCAAGTTTAGCAATGT
* * *
27513800 ATAAATATTGATAAGAGTGTAGACAATGGAAGACCAATTTTAGCA
1 ATAAATAGTAATAAGAGTGTAGACAATGGAAGACCAAGTTTAGCA
27513845 TTACATGGCA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
49 39 1.00
ACGTcount: A:0.44, C:0.07, G:0.21, T:0.28
Consensus pattern (49 bp):
ATAAATAGTAATAAGAGTGTAGACAATGGAAGACCAAGTTTAGCAATGT
Found at i:27517606 original size:46 final size:45
Alignment explanation
Indices: 27517462--27517678 Score: 194
Period size: 46 Copynumber: 4.7 Consensus size: 45
27517452 ATTGTGTGCT
* * * *
27517462 AGTGTAAGACATGTTTGGGACATGCATCGGCCATATTACGA-GTGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCC-TA-CAAGATGTACC
* * *
27517508 AGTGCAAGACCATGTCTGGGACATGGCATCGGCATTGA-AACGA-G-AGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-CT-ACAA-GATGTA-CC
*
27517556 AGTGTAAGACATGTCTAGGACATGCATCGGCCT-CAAGATGTAAACC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTACAAGATGT--ACC
**
27517602 AGTGTAAGACATGTCTGGGACATGCATCGG-CTACAAGATGTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTACAAGATGTACC
27517646 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
27517679 ATTATACCCT
Statistics
Matches: 143, Mismatches: 13, Indels: 29
0.77 0.07 0.16
Matches are distributed among these distances:
43 2 0.01
44 13 0.09
45 17 0.12
46 61 0.43
47 28 0.20
48 21 0.15
49 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTACAAGATGTACC
Found at i:27522643 original size:25 final size:25
Alignment explanation
Indices: 27522595--27522643 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
27522585 CATAATTGAA
* * *
27522595 ATGAAATGGATTGATTTTGTATATT
1 ATGAAATAGATTGATTATGAATATT
*
27522620 ATGAAATATATTGATTATGAATAT
1 ATGAAATAGATTGATTATGAATAT
27522644 ATGTGTATTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.16, T:0.45
Consensus pattern (25 bp):
ATGAAATAGATTGATTATGAATATT
Found at i:27528427 original size:40 final size:39
Alignment explanation
Indices: 27528350--27528566 Score: 251
Period size: 40 Copynumber: 5.5 Consensus size: 39
27528340 AAACCAAGTA
* * *
27528350 CCTTCGGAATTTAG-CCGGATATAGCT-ACTTGCTCAAATG
1 CCTTCGG-ACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
27528389 CCTTCAGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTC-GGACTTAGCCCGGATATAGTAACTCGCACAAATG
27528429 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTC-GGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
27528469 CCTTCGAGACTTAGCCCAGATATAGTAACTCACACAAATG
1 CCTTCG-GACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
27528509 CCTTCGGGCTTAGCCC-GAAATTAGTCACTAGCACAAATG
1 CCTTCGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
*
27528548 ACTTCGGGACTTAGCCCGG
1 CCTTC-GGACTTAGCCCGG
27528567 TTATCATCCG
Statistics
Matches: 156, Mismatches: 15, Indels: 12
0.85 0.08 0.07
Matches are distributed among these distances:
38 3 0.02
39 40 0.26
40 112 0.72
41 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (39 bp):
CCTTCGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:27532495 original size:27 final size:27
Alignment explanation
Indices: 27532464--27532641 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
27532454 TAAATTGTAC
27532464 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
27532491 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
27532517 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
27532545 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
27532573 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
27532600 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
27532627 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
27532642 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:27532578 original size:82 final size:81
Alignment explanation
Indices: 27532465--27532620 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
27532455 AAATTGTACA
* *
27532465 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
27532529 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
27532546 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
27532611 TGCGAGTTGA
65 TGCGAATTGA
27532621 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:27532632 original size:82 final size:81
Alignment explanation
Indices: 27532461--27532641 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
27532451 GATTAAATTG
* *
27532461 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
27532526 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
27532542 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
27532606 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
27532624 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
27532642 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:27540181 original size:27 final size:27
Alignment explanation
Indices: 27540150--27540327 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
27540140 TAAATTGTAC
27540150 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
27540177 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
27540203 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
27540231 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
27540259 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
27540286 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
27540313 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
27540328 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:27540264 original size:82 final size:81
Alignment explanation
Indices: 27540151--27540306 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
27540141 AAATTGTACA
* *
27540151 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
27540215 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
27540232 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
27540297 TGCGAGTTGA
65 TGCGAATTGA
27540307 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:27540318 original size:82 final size:81
Alignment explanation
Indices: 27540147--27540327 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
27540137 GATTAAATTG
* *
27540147 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
27540212 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
27540228 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
27540292 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
27540310 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
27540328 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:27550927 original size:43 final size:42
Alignment explanation
Indices: 27550850--27550969 Score: 123
Period size: 43 Copynumber: 2.8 Consensus size: 42
27550840 CCGCATAGTA
* * * * * * **
27550850 TCATACCAATGCGATATCCCAGATATGATTTTACATGGGATC
1 TCATATCAATGCCATAGCCCAAATATGGTCTTACATGAAATC
* **
27550892 TCATATCGATGCCATTAGCCCAGCTATGGTCTTACATGAAATC
1 TCATATCAATGCCA-TAGCCCAAATATGGTCTTACATGAAATC
*
27550935 TCATATCAATGCCATATCCCAAATATGGTCTTACA
1 TCATATCAATGCCATAGCCCAAATATGGTCTTACA
27550970 CGTAATCCCA
Statistics
Matches: 64, Mismatches: 13, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
42 29 0.45
43 35 0.55
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.31
Consensus pattern (42 bp):
TCATATCAATGCCATAGCCCAAATATGGTCTTACATGAAATC
Found at i:27558522 original size:42 final size:42
Alignment explanation
Indices: 27558395--27558524 Score: 131
Period size: 43 Copynumber: 3.1 Consensus size: 42
27558385 ACGCATAGTA
* * * * *
27558395 TCATACCAATGCGATATCCCAGATATGAT-TTTACATGGGATC
1 TCATATCAATGCCATATCCTAGATATGGTCTTTACAT-GAATC
* * *
27558437 TCATATCGATGCCATTAGCCTAGCTATGGTC-TTACATGAAATC
1 TCATATCAATGCCA-TATCCTAGATATGGTCTTTACATG-AATC
27558480 TCATATCAATGCCATATCCTAGATATGGTCTTATACAT-AATC
1 TCATATCAATGCCATATCCTAGATATGGTCTT-TACATGAATC
27558522 TCA
1 TCA
27558525 ACTAACCCTA
Statistics
Matches: 72, Mismatches: 11, Indels: 10
0.77 0.12 0.11
Matches are distributed among these distances:
42 33 0.46
43 34 0.47
44 5 0.07
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.33
Consensus pattern (42 bp):
TCATATCAATGCCATATCCTAGATATGGTCTTTACATGAATC
Found at i:27561957 original size:27 final size:28
Alignment explanation
Indices: 27561870--27561967 Score: 119
Period size: 27 Copynumber: 3.5 Consensus size: 28
27561860 CATGAGATTG
* * *
27561870 GCACTAAGTGTGCGGGTTTAAATTGT-TCA
1 GCACTAAGTGTGCGAGTTT-GATTATAT-A
27561899 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
27561927 GCACTAAGTGTGCGAG-TTGATTATATG
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
27561954 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
27561968 GACTTAATAT
Statistics
Matches: 63, Mismatches: 5, Indels: 4
0.88 0.07 0.06
Matches are distributed among these distances:
27 23 0.37
28 21 0.33
29 19 0.30
ACGTcount: A:0.24, C:0.13, G:0.30, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:27561978 original size:27 final size:27
Alignment explanation
Indices: 27561898--27561980 Score: 87
Period size: 27 Copynumber: 3.0 Consensus size: 27
27561888 TAAATTGTTC
* *
27561898 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
27561926 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
* *
27561953 GGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
27561980 A
1 A
27561981 TATTTTTGAA
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
27 28 0.58
28 20 0.42
ACGTcount: A:0.29, C:0.12, G:0.27, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:27569701 original size:101 final size:100
Alignment explanation
Indices: 27569519--27569701 Score: 303
Period size: 101 Copynumber: 1.8 Consensus size: 100
27569509 TATCTGATAC
*
27569519 GCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCCGGTACACGTAGTAGCCTGCAC
1 GCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATACGGTACACGTAGTAGCCTGCAC
27569584 TTAGTACTACACACGTGATCGAAGTCATTGAGTAT
66 TTAGTACTACACACGTGATCGAAGTCATTGAGTAT
** * * *
27569619 GCATAGTAGTTTGCACTTAGTACTACACATGCGACTTAACAGTATGGTACACGTAGTAGCCTGCA
1 GCATAGTAGCCTGCACTTAGTACTACACATGCGAC-CAACAATACGGTACACGTAGTAGCCTGCA
27569684 CTTAGTACTACACACGTG
65 CTTAGTACTACACACGTG
27569702 TACTCACAAT
Statistics
Matches: 76, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
100 33 0.43
101 43 0.57
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.26
Consensus pattern (100 bp):
GCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATACGGTACACGTAGTAGCCTGCAC
TTAGTACTACACACGTGATCGAAGTCATTGAGTAT
Found at i:27576992 original size:49 final size:50
Alignment explanation
Indices: 27576919--27577106 Score: 202
Period size: 51 Copynumber: 3.8 Consensus size: 50
27576909 AGCCGAAGCT
* *
27576919 ATCTGATACACATAGTAGCATGCACTTAGTACTACACATGCGA-CCAACA
1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGATCCAACA
* * * *
27576968 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTC-
1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGATCCAA--CA
** ** *
27577019 AT-TGAGTATGCATAGTAGCCTGCACTTAGTACTACACATGCGATTTAATA
1 ATCTG-GTACACATAGTAGCCTGCACTTAGTACTACACATGCGATCCAACA
* * *
27577069 GTATGGTACACGTAGTAGCCTGCACTTAGTACTACACA
1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACA
27577107 CGTGTACTCA
Statistics
Matches: 115, Mismatches: 18, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
49 38 0.33
50 36 0.31
51 40 0.35
52 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (50 bp):
ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGATCCAACA
Found at i:27577108 original size:101 final size:100
Alignment explanation
Indices: 27576929--27577110 Score: 301
Period size: 101 Copynumber: 1.8 Consensus size: 100
27576919 ATCTGATACA
*
27576929 CATAGTAGCATGCACTTAGTACTACACATGCGACCAACAATCTGGTACACGTAGTAGCCTGCACT
1 CATAGTAGCATGCACTTAGTACTACACATGCGACCAACAATATGGTACACGTAGTAGCCTGCACT
27576994 TAGTACTACACACGTGATCGAAGTCATTGAGTATG
66 TAGTACTACACACGTGATCGAAGTCATTGAGTATG
* ** * *
27577029 CATAGTAGCCTGCACTTAGTACTACACATGCGATTTAATAGTATGGTACACGTAGTAGCCTGCAC
1 CATAGTAGCATGCACTTAGTACTACACATGCGA-CCAACAATATGGTACACGTAGTAGCCTGCAC
27577094 TTAGTACTACACACGTG
65 TTAGTACTACACACGTG
27577111 TACTCACAAT
Statistics
Matches: 75, Mismatches: 6, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
100 32 0.43
101 43 0.57
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (100 bp):
CATAGTAGCATGCACTTAGTACTACACATGCGACCAACAATATGGTACACGTAGTAGCCTGCACT
TAGTACTACACACGTGATCGAAGTCATTGAGTATG
Found at i:27579875 original size:42 final size:42
Alignment explanation
Indices: 27579763--27579924 Score: 168
Period size: 43 Copynumber: 3.8 Consensus size: 42
27579753 AGAAAGCTCG
* ***
27579763 TACAATGCCAACGTCCTAGACGTGGTCTTACATGTAATCAAA
1 TACAATGCCAACGTCCCAGACGTGGTCTTACACAAAATCAAA
*
27579805 TATAGATGCC-ACTGTCCCAGACAG-GGTCTTACACAAAATCAAA
1 TACA-ATGCCAAC-GTCCCAGAC-GTGGTCTTACACAAAATCAAA
*
27579848 TACAATGCCAACTTCCCAGACGTGGTCTTACACATAAATCATAA
1 TACAATGCCAACGTCCCAGACGTGGTCTTACACA-AAATCA-AA
* * *
27579892 GT-CGATGGCAACGTCCCAGACGTGGTTTTACAC
1 -TACAATGCCAACGTCCCAGACGTGGTCTTACAC
27579925 GATAACACAT
Statistics
Matches: 101, Mismatches: 11, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
41 1 0.01
42 29 0.29
43 40 0.40
44 30 0.30
45 1 0.01
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (42 bp):
TACAATGCCAACGTCCCAGACGTGGTCTTACACAAAATCAAA
Found at i:27580440 original size:30 final size:29
Alignment explanation
Indices: 27580406--27580471 Score: 71
Period size: 29 Copynumber: 2.2 Consensus size: 29
27580396 AGTTCATACA
* *
27580406 AGTCCAT-ATATTTCATTTATTTCACATTTT
1 AGTCCATCA-ATTT-ATATATTTCACAATTT
*
27580436 AGTCCCTCAATTTATATATTTCACAATTT
1 AGTCCATCAATTTATATATTTCACAATTT
*
27580465 AGCCCAT
1 AGTCCAT
27580472 TTTACTCAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
29 19 0.63
30 10 0.33
31 1 0.03
ACGTcount: A:0.29, C:0.21, G:0.05, T:0.45
Consensus pattern (29 bp):
AGTCCATCAATTTATATATTTCACAATTT
Found at i:27583139 original size:42 final size:41
Alignment explanation
Indices: 27583087--27583240 Score: 148
Period size: 42 Copynumber: 3.7 Consensus size: 41
27583077 CTAAGACTAT
* *
27583087 GTGTAAGACCATATCTGGGATATGGCATCAATATGAGACTTC
1 GTGTAAGACCATATCTGGGATATGGCATCGATGTGAGA-TTC
* *
27583129 GTGTGAGACCATAT-TCGGGATATGGAATCGATGTGAGATTTC
1 GTGTAAGACCATATCT-GGGATATGGCATCGATGTGAGA-TTC
* * * * * * *
27583171 TTATAAGACCATAGCTGGGCTATTGCATCGATGCGAGATCCC
1 GTGTAAGACCATATCTGGGATATGGCATCGATGTGAGAT-TC
* *
27583213 ATGTAAGACTATATCTGGGATATGGCAT
1 GTGTAAGACCATATCTGGGATATGGCAT
27583241 TGGTATGGTA
Statistics
Matches: 89, Mismatches: 20, Indels: 6
0.77 0.17 0.05
Matches are distributed among these distances:
41 2 0.02
42 86 0.97
43 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (41 bp):
GTGTAAGACCATATCTGGGATATGGCATCGATGTGAGATTC
Found at i:27595964 original size:16 final size:17
Alignment explanation
Indices: 27595932--27595977 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 17
27595922 CATCCCTTGG
27595932 GGTTAGTTCATTCTCTT
1 GGTTAGTTCATTCTCTT
*
27595949 GGTTAGTTGA-TCTCTT
1 GGTTAGTTCATTCTCTT
* *
27595965 GCTTAGTTTATTC
1 GGTTAGTTCATTC
27595978 CATTTACTGC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 14 0.56
17 11 0.44
ACGTcount: A:0.13, C:0.15, G:0.20, T:0.52
Consensus pattern (17 bp):
GGTTAGTTCATTCTCTT
Found at i:27600023 original size:28 final size:28
Alignment explanation
Indices: 27599965--27600029 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 28
27599955 TTTTAATTTA
* * *
27599965 TTTCACAATTTAACCCCTCATTTACACT
1 TTTCTCAATTTAACCCCTAATATACACT
* * *
27599993 TTTCTCAATTTAATCCCTAATATGCATT
1 TTTCTCAATTTAACCCCTAATATACACT
27600021 TTTACTCAA
1 TTT-CTCAA
27600030 AATTACTTTA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
28 25 0.83
29 5 0.17
ACGTcount: A:0.29, C:0.26, G:0.02, T:0.43
Consensus pattern (28 bp):
TTTCTCAATTTAACCCCTAATATACACT
Found at i:27612854 original size:43 final size:43
Alignment explanation
Indices: 27612757--27612856 Score: 103
Period size: 43 Copynumber: 2.3 Consensus size: 43
27612747 CCGCATAATA
* * * **
27612757 TCATACCAATGCCA-TATCCCAGATATGATTTTACATGGGATC
1 TCATACCAATGCCATTAGCCAAGATATGATCTTACATGAAATC
*** * *
27612799 TCATATTGATGCCATTAGCCAAGCTATGGTCTTACATGAAATC
1 TCATACCAATGCCATTAGCCAAGATATGATCTTACATGAAATC
27612842 TCATACCAATGCCAT
1 TCATACCAATGCCAT
27612857 ATCCCAAATA
Statistics
Matches: 44, Mismatches: 13, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
42 11 0.25
43 33 0.75
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.31
Consensus pattern (43 bp):
TCATACCAATGCCATTAGCCAAGATATGATCTTACATGAAATC
Found at i:27620367 original size:43 final size:42
Alignment explanation
Indices: 27620298--27620409 Score: 125
Period size: 43 Copynumber: 2.6 Consensus size: 42
27620288 TATCATAACA
* * * * **
27620298 ATGCCATATCCCAGATATGATTTTACATGGGATCTCATATCG
1 ATGCCATAGCCCAAATATGGTCTTACATGAAATCTCATATCG
*
27620340 ATGCTATTAGCCCAAATATGGTCTTACATGAAATCTCATATCG
1 ATGCCA-TAGCCCAAATATGGTCTTACATGAAATCTCATATCG
* * *
27620383 ATGCCATATCCTAGATATGGTCTTACA
1 ATGCCATAGCCCAAATATGGTCTTACA
27620410 CATAATCTCA
Statistics
Matches: 58, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
42 23 0.40
43 35 0.60
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.33
Consensus pattern (42 bp):
ATGCCATAGCCCAAATATGGTCTTACATGAAATCTCATATCG
Found at i:27620417 original size:42 final size:43
Alignment explanation
Indices: 27620329--27620419 Score: 114
Period size: 42 Copynumber: 2.1 Consensus size: 43
27620319 TTTACATGGG
* *
27620329 ATCTCATATCGATGCTATTAGCCCAAATATGGTCTTACATGAA
1 ATCTCATATCGATGCCATTAGCCCAAATATGGTCTTACATCAA
* * *
27620372 ATCTCATATCGATGCCA-TATCCTAGATATGGTCTTACA-CATA
1 ATCTCATATCGATGCCATTAGCCCAAATATGGTCTTACATCA-A
27620414 ATCTCA
1 ATCTCA
27620420 ACTAACCCTA
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
41 1 0.02
42 25 0.60
43 16 0.38
ACGTcount: A:0.32, C:0.23, G:0.12, T:0.33
Consensus pattern (43 bp):
ATCTCATATCGATGCCATTAGCCCAAATATGGTCTTACATCAA
Found at i:27624157 original size:45 final size:45
Alignment explanation
Indices: 27624108--27624194 Score: 156
Period size: 45 Copynumber: 1.9 Consensus size: 45
27624098 GGTAAACACC
27624108 CTTTCAACTTCTAAAAACTTTGTTGACACTCTTCAATCCAATTAA
1 CTTTCAACTTCTAAAAACTTTGTTGACACTCTTCAATCCAATTAA
* *
27624153 CTTTCAACTTCTCAAAACTTTGTTGACACTCTTCAGTCCAAT
1 CTTTCAACTTCTAAAAACTTTGTTGACACTCTTCAATCCAAT
27624195 CAAATTTAAC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.30, C:0.26, G:0.06, T:0.38
Consensus pattern (45 bp):
CTTTCAACTTCTAAAAACTTTGTTGACACTCTTCAATCCAATTAA
Found at i:27628122 original size:42 final size:41
Alignment explanation
Indices: 27628059--27628143 Score: 125
Period size: 42 Copynumber: 2.0 Consensus size: 41
27628049 ATCCGATATT
* * *
27628059 ATTCTAGTGGTTCAACGGGTATGCAAAGAGAAGGATCGGAAG
1 ATTCTAGTGGTTCAACAGGTATACAAAGAGAA-GAACGGAAG
*
27628101 ATTCTAGTGGTTCAACAGGTATACAAAGGGAAGAACGGAAG
1 ATTCTAGTGGTTCAACAGGTATACAAAGAGAAGAACGGAAG
27628142 AT
1 AT
27628144 ATTTCGATAA
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
41 10 0.26
42 29 0.74
ACGTcount: A:0.36, C:0.12, G:0.31, T:0.21
Consensus pattern (41 bp):
ATTCTAGTGGTTCAACAGGTATACAAAGAGAAGAACGGAAG
Found at i:27635862 original size:33 final size:34
Alignment explanation
Indices: 27635769--27635862 Score: 111
Period size: 34 Copynumber: 2.8 Consensus size: 34
27635759 GTTTCAGTTA
* **
27635769 AGGCCTTAGCCCATTTCAGAATCAAAAATAGTGT
1 AGGCCTAAGCCCATTTCAGAATCAGTAATAGTGT
* *
27635803 AGGCCTGAGCCCATTTCAGTAA-CAGTATTAGTG-
1 AGGCCTAAGCCCATTTCAG-AATCAGTAATAGTGT
*
27635836 AGGCCTAAGCCCATTACAGAATCAGTA
1 AGGCCTAAGCCCATTTCAGAATCAGTA
27635863 CAGTATGCAA
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
32 2 0.04
33 22 0.42
34 26 0.50
35 2 0.04
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.24
Consensus pattern (34 bp):
AGGCCTAAGCCCATTTCAGAATCAGTAATAGTGT
Found at i:27636286 original size:27 final size:26
Alignment explanation
Indices: 27636254--27636415 Score: 171
Period size: 27 Copynumber: 6.0 Consensus size: 26
27636244 GTAGGGAAAA
*
27636254 TCAGTCATTTTACCTTACAGGGGTATT
1 TCAGTCATTTTACCCTA-AGGGGTATT
* *
27636281 ACAGTCATTTTACCCTATATGGGTATT
1 TCAGTCATTTTACCCTA-AGGGGTATT
* * *
27636308 ACAGTCATTTTACCTTATAGGTGTATT
1 TCAGTCATTTTACCCTA-AGGGGTATT
* *
27636335 TCAATCATTTTACCCTATGGGAGTATT
1 TCAGTCATTTTACCCTAAGGG-GTATT
* *
27636362 TCAGTCATTTTACACTATGGGGTATT
1 TCAGTCATTTTACCCTAAGGGGTATT
* *
27636388 TCGGTCATTTTACCCTATGAGGGTATT
1 TCAGTCATTTTACCCTAAG-GGGTATT
27636415 T
1 T
27636416 TGGCCCAACA
Statistics
Matches: 117, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
26 24 0.21
27 93 0.79
ACGTcount: A:0.23, C:0.17, G:0.17, T:0.42
Consensus pattern (26 bp):
TCAGTCATTTTACCCTAAGGGGTATT
Found at i:27636317 original size:54 final size:52
Alignment explanation
Indices: 27636255--27636414 Score: 196
Period size: 54 Copynumber: 3.0 Consensus size: 52
27636245 TAGGGAAAAT
*
27636255 CAGTCATTTTACCTTACAGGGGTATTACAGTCATTTTACCCTATATGGGTATTA
1 CAGTCATTTTACCTTA-AGGGGTATTTCAGTCATTTTACCCTATA-GGGTATTA
* * * *
27636309 CAGTCATTTTACCTTATAGGTGTATTTCAATCATTTTACCCTATGGGAGTATTT
1 CAGTCATTTTACCTTA-AGGGGTATTTCAGTCATTTTACCCTATAGG-GTATTA
* *
27636363 CAGTCATTTTACAC-TATGGGGTATTTCGGTCATTTTACCCTATGAGGGTATT
1 CAGTCATTTTAC-CTTAAGGGGTATTTCAGTCATTTTACCCTAT-AGGGTATT
27636415 TTGGCCCAAC
Statistics
Matches: 92, Mismatches: 11, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
53 30 0.33
54 61 0.66
55 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.17, T:0.41
Consensus pattern (52 bp):
CAGTCATTTTACCTTAAGGGGTATTTCAGTCATTTTACCCTATAGGGTATTA
Found at i:27636367 original size:81 final size:80
Alignment explanation
Indices: 27636258--27636415 Score: 203
Period size: 81 Copynumber: 2.0 Consensus size: 80
27636248 GGAAAATCAG
* * * *
27636258 TCATTTTACCTTACAGGGGTATTACAGTCATTTTACCCTATATGGGTATTACAGTCATTTTACCT
1 TCATTTTACCCTACAGGGGTATTACAGTCATTTTACACTAT-GGGGTATTACAGTCATTTTACCC
27636323 TAT-AGGTGTATTTCAA
65 TATGAGG-GTATTTCAA
* * * *
27636339 TCATTTTACCCTA-TGGGAGTATTTCAGTCATTTTACACTATGGGGTATTTCGGTCATTTTACCC
1 TCATTTTACCCTACAGGG-GTATTACAGTCATTTTACACTATGGGGTATTACAGTCATTTTACCC
27636403 TATGAGGGTATTT
65 TATGAGGGTATTT
27636416 TGGCCCAACA
Statistics
Matches: 67, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
80 31 0.46
81 36 0.54
ACGTcount: A:0.23, C:0.17, G:0.17, T:0.42
Consensus pattern (80 bp):
TCATTTTACCCTACAGGGGTATTACAGTCATTTTACACTATGGGGTATTACAGTCATTTTACCCT
ATGAGGGTATTTCAA
Found at i:27645208 original size:46 final size:46
Alignment explanation
Indices: 27645043--27645214 Score: 172
Period size: 46 Copynumber: 3.7 Consensus size: 46
27645033 GGTTGAGCAT
* * * * *
27645043 CCGAACTGGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGC
* * * * *
27645089 CTGAACTCGTTGAGTTGAGTCCGATTTC-GTGA--AATGT-AACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAC---GC
27645134 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGC
*
27645182 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
27645215 GGGGCGGGTT
Statistics
Matches: 101, Mismatches: 16, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
45 3 0.03
46 56 0.55
47 26 0.26
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGC
Found at i:27651898 original size:194 final size:195
Alignment explanation
Indices: 27651576--27651951 Score: 526
Period size: 194 Copynumber: 1.9 Consensus size: 195
27651566 GCACTTCTAT
* * * *
27651576 AAAATCGCTGCTATAGATCGAGCATTAGTGACGCTTTTTAAAAAATGCCGCTATATGTCGACCAA
1 AAAATCGCCGCTATAGATCGAGCATTAGTGA-GCTTTTTAAAAAACGCCGCTATAGGTCAACCAA
* * * *
27651641 TAGCGGCGCTTGTTCAAAAACGCCGCAATAAAATTAAGCACAACGTCGTCGTTTTATGTTGAGCT
65 TAGCAGCGCTTGTTCAAAAACGCCGCAATAAAATTAAGCACAACGCCATCGTTTTACGTTGAGCT
* * *
27651706 TTAGTTGCATTAGCGGCGCTTTTTGGAAAACGCCGCTATAGATCGAGCATTAACAATGCTTGTAG
130 TTAGTTGCATTAGCGACACTTTTTGGAAAACGCCACTATAGATCGAGCATTAACAATGCTTGTAG
27651771 A
195 A
* *
27651772 AAAAT-GCCGCTATATATCGAGCATTAAGTG-G-TTTTTTAAAAACGCCGCTATAGGTCAACCCA
1 AAAATCGCCGCTATAGATCGAGCATT-AGTGAGCTTTTTAAAAAACGCCGCTATAGGTCAA-CCA
* * * *
27651834 TTAGCAGTGCTTTTTCAAAAAACGCCGCAA-AAAATTAAGCACAACGCCATTGTTTTACGTTGAG
64 ATAGCAGCGCTTGTTC-AAAAACGCCGCAATAAAATTAAGCACAACGCCATCGTTTTACGTTGAG
*
27651898 CTTTAGTTGCATTAGCGACACTTTTTGGAAAACGCTACTATAGATCGAGCATTA
128 CTTTAGTTGCATTAGCGACACTTTTTGGAAAACGCCACTATAGATCGAGCATTA
27651952 GCGGCGCTTT
Statistics
Matches: 159, Mismatches: 18, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
193 23 0.14
194 96 0.60
195 31 0.19
196 9 0.06
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (195 bp):
AAAATCGCCGCTATAGATCGAGCATTAGTGAGCTTTTTAAAAAACGCCGCTATAGGTCAACCAAT
AGCAGCGCTTGTTCAAAAACGCCGCAATAAAATTAAGCACAACGCCATCGTTTTACGTTGAGCTT
TAGTTGCATTAGCGACACTTTTTGGAAAACGCCACTATAGATCGAGCATTAACAATGCTTGTAGA
Found at i:27652267 original size:14 final size:14
Alignment explanation
Indices: 27652245--27652439 Score: 96
Period size: 14 Copynumber: 13.7 Consensus size: 14
27652235 TTAATTATCA
*
27652245 TTATAGTTTAGGGT
1 TTATGGTTTAGGGT
27652259 TTATGGTTTAGGG-
1 TTATGGTTTAGGGT
* *
27652272 ATATGATTTAGGGT
1 TTATGGTTTAGGGT
27652286 TTAAT-GTTTAGGGT
1 TT-ATGGTTTAGGGT
* * *
27652300 ATATGGTTTTGGAT
1 TTATGGTTTAGGGT
* *
27652314 TTTTGGATTTTGGGT
1 TTATGG-TTTAGGGT
* * *
27652329 TCAGTGATGATTATGGT
1 TTA-TG--GTTTAGGGT
*
27652346 TTA-GGATTTA--AT
1 TTATGG-TTTAGGGT
*
27652358 TTGTGGGTTTAGGGT
1 TTAT-GGTTTAGGGT
* *
27652373 TTACGATTTAGGGT
1 TTATGGTTTAGGGT
* *
27652387 TTAGGGTTTATGGT
1 TTATGGTTTAGGGT
*
27652401 TTATGGTTTAGGGG
1 TTATGGTTTAGGGT
*
27652415 TTA-GAGGTTAGGGGT
1 TTATG-GTTTA-GGGT
27652430 TTATGGTTTA
1 TTATGGTTTA
27652440 TGATCTGGAT
Statistics
Matches: 133, Mismatches: 33, Indels: 29
0.68 0.17 0.15
Matches are distributed among these distances:
12 3 0.02
13 19 0.14
14 76 0.57
15 24 0.18
16 3 0.02
17 7 0.05
18 1 0.01
ACGTcount: A:0.19, C:0.01, G:0.33, T:0.47
Consensus pattern (14 bp):
TTATGGTTTAGGGT
Found at i:27652294 original size:27 final size:28
Alignment explanation
Indices: 27652251--27652304 Score: 85
Period size: 27 Copynumber: 2.0 Consensus size: 28
27652241 ATCATTATAG
27652251 TTTAGGGTTTATGGTTTAGGG-ATATGA
1 TTTAGGGTTTATGGTTTAGGGTATATGA
27652278 TTTAGGGTTTAAT-GTTTAGGGTATATG
1 TTTAGGGTTT-ATGGTTTAGGGTATATG
27652305 GTTTTGGATT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
27 18 0.72
28 7 0.28
ACGTcount: A:0.22, C:0.00, G:0.31, T:0.46
Consensus pattern (28 bp):
TTTAGGGTTTATGGTTTAGGGTATATGA
Found at i:27652372 original size:7 final size:7
Alignment explanation
Indices: 27652362--27652439 Score: 77
Period size: 7 Copynumber: 11.0 Consensus size: 7
27652352 TTTAATTTGT
27652362 GGGTTTA
1 GGGTTTA
27652369 GGGTTTA
1 GGGTTTA
* *
27652376 CGATTTA
1 GGGTTTA
27652383 GGGTTTA
1 GGGTTTA
27652390 GGGTTTA
1 GGGTTTA
*
27652397 TGGTTTA
1 GGGTTTA
*
27652404 TGGTTTA
1 GGGTTTA
*
27652411 GGGGTTA
1 GGGTTTA
27652418 GAGG-TTA
1 G-GGTTTA
27652425 GGGGTTTA
1 -GGGTTTA
*
27652433 TGGTTTA
1 GGGTTTA
27652440 TGATCTGGAT
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
7 54 0.90
8 6 0.10
ACGTcount: A:0.17, C:0.01, G:0.38, T:0.44
Consensus pattern (7 bp):
GGGTTTA
Found at i:27652388 original size:21 final size:20
Alignment explanation
Indices: 27652343--27652439 Score: 79
Period size: 21 Copynumber: 4.7 Consensus size: 20
27652333 TGATGATTAT
* *
27652343 GGTTTAGGATTTA-ATTTGTG
1 GGTTTAGGGTTTAGATTT-AG
27652363 GGTTTAGGGTTTACGATTTAG
1 GGTTTAGGGTTTA-GATTTAG
* *
27652384 GGTTTAGGGTTTATGGTTTAT
1 GGTTTAGGGTTTA-GATTTAG
* *
27652405 GGTTTAGGGGTTAGAGGTTAGG
1 GGTTTAGGGTTTAGA-TTTA-G
*
27652427 GGTTTATGGTTTA
1 GGTTTAGGGTTTA
27652440 TGATCTGGAT
Statistics
Matches: 62, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
20 13 0.21
21 34 0.55
22 15 0.24
ACGTcount: A:0.18, C:0.01, G:0.36, T:0.45
Consensus pattern (20 bp):
GGTTTAGGGTTTAGATTTAG
Found at i:27652454 original size:35 final size:36
Alignment explanation
Indices: 27652377--27652474 Score: 96
Period size: 35 Copynumber: 2.8 Consensus size: 36
27652367 TAGGGTTTAC
* *
27652377 GATTTAG-GGTTTA-GGGTTTATGGTTTATGGTTTAG
1 GATTTAGAGG-TTAGGGGTTTATGGTTTATGATCTAG
**
27652412 GGGTTAGAGGTTAGGGGTTTATGGTTTATGATCT-G
1 GATTTAGAGGTTAGGGGTTTATGGTTTATGATCTAG
* *
27652447 GATTTAGAGGATAGAGGG-TTAGGGTTTA
1 GATTTAGAGGTTAG-GGGTTTATGGTTTA
27652475 GTGTTTAAAG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
35 29 0.56
36 23 0.44
ACGTcount: A:0.20, C:0.01, G:0.38, T:0.41
Consensus pattern (36 bp):
GATTTAGAGGTTAGGGGTTTATGGTTTATGATCTAG
Found at i:27652466 original size:36 final size:37
Alignment explanation
Indices: 27652389--27652474 Score: 97
Period size: 35 Copynumber: 2.4 Consensus size: 37
27652379 TTTAGGGTTT
* * * *
27652389 AGGGTTTATGGTTTATGGTTTAGGGGTTAGAGGTTAG
1 AGGGTTTATGGTTTATGATCTAGGAGTTAGAGGATAG
*
27652426 -GGGTTTATGGTTTATGATCT-GGATTTAGAGGATAG
1 AGGGTTTATGGTTTATGATCTAGGAGTTAGAGGATAG
*
27652461 AGGG-TTAGGGTTTA
1 AGGGTTTATGGTTTA
27652475 GTGTTTAAAG
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
35 21 0.50
36 21 0.50
ACGTcount: A:0.21, C:0.01, G:0.38, T:0.40
Consensus pattern (37 bp):
AGGGTTTATGGTTTATGATCTAGGAGTTAGAGGATAG
Found at i:27652481 original size:42 final size:42
Alignment explanation
Indices: 27652380--27652481 Score: 102
Period size: 42 Copynumber: 2.4 Consensus size: 42
27652370 GGTTTACGAT
* * * *
27652380 TTAGGGTTTAGGGTTTATGGTTTATGGTTTAGGGGTTAGAGG
1 TTAGGGTTTAGTGTTTATGGTATATGGTTTAGAGGATAGAGG
*
27652422 TTAGGGGTTTA-TGGTTTAT-G-ATCTGGATTTAGAGGATAGAGGG
1 TTA-GGGTTTAGT-GTTTATGGTATATGG-TTTAGAGGATAGA-GG
27652465 TTAGGGTTTAGTGTTTA
1 TTAGGGTTTAGTGTTTA
27652482 AAGTAATTAG
Statistics
Matches: 50, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
41 4 0.08
42 27 0.54
43 19 0.38
ACGTcount: A:0.20, C:0.01, G:0.37, T:0.42
Consensus pattern (42 bp):
TTAGGGTTTAGTGTTTATGGTATATGGTTTAGAGGATAGAGG
Found at i:27652524 original size:9 final size:9
Alignment explanation
Indices: 27652510--27652543 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
27652500 AATTTATATA
27652510 TTAAATTAT
1 TTAAATTAT
27652519 TTAAATTAT
1 TTAAATTAT
27652528 TT-AATTAT
1 TTAAATTAT
27652536 ATTAAATT
1 -TTAAATT
27652544 GTGCAAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 6 0.26
9 13 0.57
10 4 0.17
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
TTAAATTAT
Found at i:27652955 original size:115 final size:112
Alignment explanation
Indices: 27652813--27653199 Score: 365
Period size: 115 Copynumber: 3.4 Consensus size: 112
27652803 GCAGCATCGT
* * *
27652813 TTTTATCCTT-TTCTTTAGCGGTGTTTCCTCAAAAACGCCGCAACAGGTTGTTCTTTACCGGCGT
1 TTTTAT-CTTGTT-TTTAGTGGCGTTTCCTCAAAAACGCCGCAAAAGGTTGTTCTTTACCGGCGT
*
27652877 TTTCAACAAAAATGCCGCAAATATGCATTAAGAGTGCAAAACGTCGTCA
64 TTTCAACAAAAACGCCGCAAATATGCATTAAGAGTGCAAAACGTCGTCA
* * * * *
27652926 TTTTCCATGCTTGTTTTTAGTGGCGTTTCCTTAGAAACGTCGCAAAATGTTGTTCTTTATCGGCG
1 TTTT--AT-CTTGTTTTTAGTGGCGTTTCCTCAAAAACGCCGCAAAAGGTTGTTCTTTACCGGCG
** * * * * * *
27652991 TTCACAACAAAAACGCCACAAAAATGCATTAAGAGTACAAAATGTTGTCGTT
63 TTTTCAACAAAAACGCCGCAAATATGCATTAAGAGTGCAAAACGTCGTC--A
* * * *
27653043 TTTTATCATTG-TTTTAGTGGC-TTTCCACAAAAAATGCCGCAAAAGGTTGTGCATTACCGGCGT
1 TTTTATC-TTGTTTTTAGTGGCGTTTCCTC-AAAAACGCCGCAAAAGGTTGTTCTTTACCGGCGT
* *
27653106 TTTCAA-AAAAACGCCGCTAAGT-TGTATTAAGAGTGCAAAACGTTCG-CA
64 TTTCAACAAAAACGCCGC-AAATATGCATTAAGAGTGCAAAACG-TCGTCA
* *
27653154 TTTGTATCCTTGTTTTTAGTGGCATTT-TTGACAAAAACGCCGCAAA
1 TTT-TAT-CTTGTTTTTAGTGGCGTTTCCT--CAAAAACGCCGCAAA
27653200 TATGTATTGT
Statistics
Matches: 219, Mismatches: 40, Indels: 29
0.76 0.14 0.10
Matches are distributed among these distances:
111 3 0.01
112 6 0.03
113 48 0.22
114 62 0.28
115 94 0.43
116 2 0.01
117 4 0.02
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (112 bp):
TTTTATCTTGTTTTTAGTGGCGTTTCCTCAAAAACGCCGCAAAAGGTTGTTCTTTACCGGCGTTT
TCAACAAAAACGCCGCAAATATGCATTAAGAGTGCAAAACGTCGTCA
Found at i:27653195 original size:74 final size:74
Alignment explanation
Indices: 27653112--27653356 Score: 269
Period size: 74 Copynumber: 3.3 Consensus size: 74
27653102 GCGTTTTCAA
* * * * *
27653112 AAAAACGCCGCTAAGT-TGTATTAAGAGTGCAAAACGTTCG-CATTTGTATCCTTGTTTTTAGTG
1 AAAAACGCCGC-AAATATGTATTAAGAGAGCAAAACG-TCGTCGTTTTTATCATTGTTTTTAGTG
*
27653175 GCATTTTTGAC
64 GCATTTTCGAC
** * * *
27653186 AAAAACGCCGCAAATATGTATTGTGAGAGAAAAATGACGTCGTTTTTATCATTGTTTTTAGTGGC
1 AAAAACGCCGCAAATATGTATTAAGAGAGCAAAACGTCGTCGTTTTTATCATTGTTTTTAGTGGC
*
27653251 ATTTTCGGC
66 ATTTTCGAC
* * * **
27653260 ATAAACGCTGCAAATATGTATTAAGAGAGCAAAGCGTCGTCGTTTTTATCATTGTTTTTACCGGC
1 AAAAACGCCGCAAATATGTATTAAGAGAGCAAAACGTCGTCGTTTTTATCATTGTTTTTAGTGGC
* *
27653325 GTTTTCAAC
66 ATTTTCGAC
* *
27653334 AAAAACGCCGCAGATGTGTATTA
1 AAAAACGCCGCAAATATGTATTA
27653357 GTTGTTTATG
Statistics
Matches: 140, Mismatches: 29, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
73 5 0.04
74 135 0.96
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.34
Consensus pattern (74 bp):
AAAAACGCCGCAAATATGTATTAAGAGAGCAAAACGTCGTCGTTTTTATCATTGTTTTTAGTGGC
ATTTTCGAC
Found at i:27655677 original size:9 final size:9
Alignment explanation
Indices: 27655663--27655888 Score: 105
Period size: 9 Copynumber: 25.8 Consensus size: 9
27655653 TACATGATAT
27655663 CATAACTTA
1 CATAACTTA
27655672 CATAACTTA
1 CATAACTTA
27655681 CATAA--TA
1 CATAACTTA
*
27655688 CATAA-ATA
1 CATAACTTA
* * *
27655696 TATATCATA
1 CATAACTTA
*
27655705 TGATAACTTA
1 -CATAACTTA
**
27655715 TGTAACTTA
1 CATAACTTA
27655724 CATAACTTA
1 CATAACTTA
27655733 CATAA--TA
1 CATAACTTA
*
27655740 CATAA-ATA
1 CATAACTTA
* *
27655748 TATATCATATA
1 CATAAC-T-TA
27655759 -ATAACTTA
1 CATAACTTA
27655767 CATAACTTA
1 CATAACTTA
27655776 CATAACTTA
1 CATAACTTA
*
27655785 CGTAA--TA
1 CATAACTTA
*
27655792 CATAA-ATA
1 CATAACTTA
* ** *
27655800 TATTTCATA
1 CATAACTTA
*
27655809 TCATAATTTA
1 -CATAACTTA
27655819 CATAACTTA
1 CATAACTTA
*
27655828 CATACCTTA
1 CATAACTTA
*
27655837 CATAAATT-
1 CATAACTTA
* * *
27655845 TATATCATA
1 CATAACTTA
*
27655854 TCATAGCTTA
1 -CATAACTTA
27655864 CATAACTTA
1 CATAACTTA
*
27655873 CAAAACTTA
1 CATAACTTA
*
27655882 CTTAACT
1 CATAACT
27655889 CACGTAATAC
Statistics
Matches: 166, Mismatches: 38, Indels: 26
0.72 0.17 0.11
Matches are distributed among these distances:
7 20 0.12
8 20 0.12
9 104 0.63
10 20 0.12
11 2 0.01
ACGTcount: A:0.45, C:0.17, G:0.02, T:0.36
Consensus pattern (9 bp):
CATAACTTA
Found at i:27655722 original size:52 final size:52
Alignment explanation
Indices: 27655663--27655907 Score: 298
Period size: 52 Copynumber: 4.7 Consensus size: 52
27655653 TACATGATAT
*
27655663 CATAACTTACATAACTTACATAATACATAAATATATATCATATGATAACTTA
1 CATAACTTACATAACTTACATAATACATAAATATATATCATATAATAACTTA
**
27655715 TGTAACTTACATAACTTACATAATACATAAATATATATCATATAATAACTTA
1 CATAACTTACATAACTTACATAATACATAAATATATATCATATAATAACTTA
* * * *
27655767 CATAACTTACATAACTTACGTAATACATAAATATATTTCATATCATAATTTA
1 CATAACTTACATAACTTACATAATACATAAATATATATCATATAATAACTTA
* **
27655819 CATAACTTACATACCTTACAT-A-A-ATTTATATCATATCATAGCTTACATAACTTA
1 CATAACTTACATAACTTACATAATACATAAATAT-ATATCATA---TA-ATAACTTA
* * * *
27655873 CAAAACTTACTTAACTCACGTAATACATAAATATA
1 CATAACTTACATAACTTACATAATACATAAATATA
27655908 CACTTGAAAA
Statistics
Matches: 162, Mismatches: 23, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
49 6 0.04
50 8 0.05
51 1 0.01
52 114 0.70
53 1 0.01
54 23 0.14
55 1 0.01
56 2 0.01
57 6 0.04
ACGTcount: A:0.46, C:0.17, G:0.02, T:0.36
Consensus pattern (52 bp):
CATAACTTACATAACTTACATAATACATAAATATATATCATATAATAACTTA
Found at i:27655854 original size:45 final size:43
Alignment explanation
Indices: 27655725--27655874 Score: 147
Period size: 45 Copynumber: 3.2 Consensus size: 43
27655715 TGTAACTTAC
27655725 ATAACTTACATAATACATAAATATATATCATATAATAACTTACATAACTTAC
1 ATAACTTACATAATACATAAATATATATC-----AT-A--T-CATAACTTAC
* * *
27655777 ATAACTTACGTAATACATAAATATATTTCATATCATAATTTAC
1 ATAACTTACATAATACATAAATATATATCATATCATAACTTAC
* * *
27655820 ATAACTTACATACCTTACATAAATTTATATCATATCATAGCTTAC
1 ATAACTTACATA--ATACATAAATATATATCATATCATAACTTAC
27655865 ATAACTTACA
1 ATAACTTACA
27655875 AAACTTACTT
Statistics
Matches: 87, Mismatches: 9, Indels: 11
0.81 0.08 0.10
Matches are distributed among these distances:
43 20 0.23
44 1 0.01
45 36 0.41
46 1 0.01
47 2 0.02
52 27 0.31
ACGTcount: A:0.45, C:0.17, G:0.01, T:0.37
Consensus pattern (43 bp):
ATAACTTACATAATACATAAATATATATCATATCATAACTTAC
Found at i:27655882 original size:45 final size:45
Alignment explanation
Indices: 27655767--27655882 Score: 155
Period size: 45 Copynumber: 2.6 Consensus size: 45
27655757 TAATAACTTA
* *
27655767 CATAACTTACATAACTTACGTAA--TACATAAATATATTTCATAT
1 CATAACTTACATAACTTACATAACTTACATAAATATATATCATAT
* * *
27655810 CATAATTTACATAACTTACATACCTTACATAAATTTATATCATAT
1 CATAACTTACATAACTTACATAACTTACATAAATATATATCATAT
* *
27655855 CATAGCTTACATAACTTACAAAACTTAC
1 CATAACTTACATAACTTACATAACTTAC
27655883 TTAACTCACG
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
43 20 0.32
45 42 0.68
ACGTcount: A:0.43, C:0.19, G:0.02, T:0.36
Consensus pattern (45 bp):
CATAACTTACATAACTTACATAACTTACATAAATATATATCATAT
Found at i:27658144 original size:88 final size:88
Alignment explanation
Indices: 27657995--27658176 Score: 364
Period size: 88 Copynumber: 2.1 Consensus size: 88
27657985 AAAGGAAGAG
27657995 AAAGAAGTGTTCTGCATGGTGTTGAAGGATATAAAGGTCCCAGATGCATATGCATCATATATATC
1 AAAGAAGTGTTCTGCATGGTGTTGAAGGATATAAAGGTCCCAGATGCATATGCATCATATATATC
27658060 TCGATGTGTGAGTCTTAAATATC
66 TCGATGTGTGAGTCTTAAATATC
27658083 AAAGAAGTGTTCTGCATGGTGTTGAAGGATATAAAGGTCCCAGATGCATATGCATCATATATATC
1 AAAGAAGTGTTCTGCATGGTGTTGAAGGATATAAAGGTCCCAGATGCATATGCATCATATATATC
27658148 TCGATGTGTGAGTCTTAAATATC
66 TCGATGTGTGAGTCTTAAATATC
27658171 AAAGAA
1 AAAGAA
27658177 TATATTCTTT
Statistics
Matches: 94, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
88 94 1.00
ACGTcount: A:0.34, C:0.13, G:0.23, T:0.31
Consensus pattern (88 bp):
AAAGAAGTGTTCTGCATGGTGTTGAAGGATATAAAGGTCCCAGATGCATATGCATCATATATATC
TCGATGTGTGAGTCTTAAATATC
Found at i:27661345 original size:13 final size:14
Alignment explanation
Indices: 27661329--27661357 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
27661319 TTATAAATAT
27661329 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
27661342 TTATAATGGTTTAA
1 TTATAATGGTTTAA
27661356 TT
1 TT
27661358 CATCGTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:27680731 original size:29 final size:29
Alignment explanation
Indices: 27680686--27680801 Score: 121
Period size: 29 Copynumber: 4.0 Consensus size: 29
27680676 TACCTGTATC
* *
27680686 TGGCCCATTATGCCC-AATCATATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
* *
27680714 TGGCCCCTTTAGGCCCAAATCACCTGT-ATA
1 TGG-CCCATTAGGCCCAAATCACAT-TCATA
*
27680744 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
* * *
27680773 TGGCCCGTTAGGCTC-AGTCACATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
27680801 T
1 T
27680802 TCATGCTCAC
Statistics
Matches: 74, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
28 16 0.22
29 45 0.61
30 12 0.16
31 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.16, T:0.29
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATTCATA
Found at i:27680882 original size:17 final size:18
Alignment explanation
Indices: 27680860--27680893 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
27680850 TGCCTATTAT
27680860 GGGCCCA-ATAGCCCATC
1 GGGCCCATATAGCCCATC
*
27680877 GGGCCCATTTAGCCCAT
1 GGGCCCATATAGCCCAT
27680894 TCTGGCCCGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.21, C:0.38, G:0.24, T:0.18
Consensus pattern (18 bp):
GGGCCCATATAGCCCATC
Found at i:27681033 original size:16 final size:16
Alignment explanation
Indices: 27681012--27681054 Score: 77
Period size: 16 Copynumber: 2.7 Consensus size: 16
27681002 GTAGCCAAAC
27681012 TTTCAGCTTTTCGGCA
1 TTTCAGCTTTTCGGCA
27681028 TTTCAGCTTTTCGGCA
1 TTTCAGCTTTTCGGCA
*
27681044 TTTCAACTTTT
1 TTTCAGCTTTT
27681055 ACCGATTCAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.14, C:0.23, G:0.14, T:0.49
Consensus pattern (16 bp):
TTTCAGCTTTTCGGCA
Found at i:27686549 original size:26 final size:26
Alignment explanation
Indices: 27686517--27686587 Score: 99
Period size: 26 Copynumber: 2.7 Consensus size: 26
27686507 CGGTCACCTA
27686517 TTCTCTCCCTTGCTGAATTCTTTTAC
1 TTCTCTCCCTTGCTGAATTCTTTTAC
* *
27686543 TTTTCTCCCTTG-TCGAATTCTTTTTC
1 TTCTCTCCCTTGCT-GAATTCTTTTAC
*
27686569 TTCTCTCCCTTGCCGAATT
1 TTCTCTCCCTTGCTGAATT
27686588 TATTTGCTGC
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
25 1 0.03
26 38 0.97
ACGTcount: A:0.10, C:0.31, G:0.08, T:0.51
Consensus pattern (26 bp):
TTCTCTCCCTTGCTGAATTCTTTTAC
Found at i:27691219 original size:23 final size:23
Alignment explanation
Indices: 27691167--27691219 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
27691157 AACATGGACA
* **
27691167 ACATTAAGACAATGTTTAAATGC
1 ACATTAAGACAAGGTTTAAACAC
27691190 ACATTAAGACAAGGTTTAAACAC
1 ACATTAAGACAAGGTTTAAACAC
*
27691213 ACTTTAA
1 ACATTAA
27691220 TTTGTAGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.45, C:0.15, G:0.11, T:0.28
Consensus pattern (23 bp):
ACATTAAGACAAGGTTTAAACAC
Found at i:27691377 original size:38 final size:39
Alignment explanation
Indices: 27691280--27691392 Score: 174
Period size: 38 Copynumber: 2.9 Consensus size: 39
27691270 TGTAAACAAG
* *
27691280 TATTAAAGATGTTCAAACTATGACATAATTAAAGACCCA
1 TATTAATGATGTTCAAATTATGACATAATTAAAGACCCA
* *
27691319 TATTAATGATGTTCAGATTATGACATAATTAAA-ACTCA
1 TATTAATGATGTTCAAATTATGACATAATTAAAGACCCA
*
27691357 TATTAATGATATTCAAATTATGACATAATTAAAGAC
1 TATTAATGATGTTCAAATTATGACATAATTAAAGAC
27691393 TTAATGTAAC
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
38 35 0.52
39 32 0.48
ACGTcount: A:0.45, C:0.12, G:0.10, T:0.34
Consensus pattern (39 bp):
TATTAATGATGTTCAAATTATGACATAATTAAAGACCCA
Found at i:27692775 original size:27 final size:27
Alignment explanation
Indices: 27692745--27692922 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
27692735 ATATTGAGTC
* * * *
27692745 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
27692772 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
27692799 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
27692827 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
27692854 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
27692881 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
27692908 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
27692923 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:27692884 original size:82 final size:81
Alignment explanation
Indices: 27692766--27692921 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
27692756 TGCTATATAA
* *
27692766 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
27692831 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
27692848 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
27692912 CACTTAGTGC
65 CACTTAGTGC
27692922 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:27694901 original size:15 final size:14
Alignment explanation
Indices: 27694829--27694911 Score: 53
Period size: 15 Copynumber: 5.6 Consensus size: 14
27694819 CATCAAAACT
*
27694829 TAAATAAATAATAA
1 TAAATAAAAAATAA
* * *
27694843 TACTATACATAATAA
1 TA-AATAAAAAATAA
*
27694858 T-AATAGGAAAACTAA
1 TAAATA--AAAAATAA
27694873 T-AATAATAATAATAA
1 TAAATAA-AA-AATAA
27694888 TAAACTAAAAAATAA
1 TAAA-TAAAAAATAA
27694903 TAAATAAAA
1 TAAATAAAA
27694912 TGTAAAAGTG
Statistics
Matches: 55, Mismatches: 7, Indels: 14
0.72 0.09 0.18
Matches are distributed among these distances:
13 4 0.07
14 9 0.16
15 35 0.64
16 4 0.07
17 3 0.05
ACGTcount: A:0.66, C:0.05, G:0.02, T:0.27
Consensus pattern (14 bp):
TAAATAAAAAATAA
Found at i:27694901 original size:24 final size:23
Alignment explanation
Indices: 27694851--27694905 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 23
27694841 AATACTATAC
*
27694851 ATAATAATAATAGGAAAACTAATA
1 ATAATAATAATA-GAAAACTAAAA
27694875 ATAATAATAATA-ATAAACTAAAAA
1 ATAATAATAATAGA-AAACT-AAAA
27694899 ATAATAA
1 ATAATAA
27694906 ATAAAATGTA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
22 1 0.04
23 5 0.18
24 22 0.79
ACGTcount: A:0.67, C:0.04, G:0.04, T:0.25
Consensus pattern (23 bp):
ATAATAATAATAGAAAACTAAAA
Found at i:27694905 original size:3 final size:3
Alignment explanation
Indices: 27694835--27694890 Score: 53
Period size: 3 Copynumber: 18.7 Consensus size: 3
27694825 AACTTAAATA
* **
27694835 AAT AAT AAT ACT -AT ACAT AAT AAT AAT AGG AA- AACT AAT AAT AAT
1 AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AA-T AAT AAT AAT
27694880 AAT AAT AAT AA
1 AAT AAT AAT AA
27694891 ACTAAAAAAT
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
2 3 0.07
3 36 0.82
4 5 0.11
ACGTcount: A:0.62, C:0.05, G:0.04, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:27696408 original size:46 final size:47
Alignment explanation
Indices: 27696356--27696450 Score: 138
Period size: 47 Copynumber: 2.0 Consensus size: 47
27696346 GTTGAATTTA
* **
27696356 AAGCTTGCTAAA-TTGCTCTTAATATTTCTGGATAAGTTACTTAGTT
1 AAGCTTGCTAAATTTGCCCTTAATATTTCCAGATAAGTTACTTAGTT
* *
27696402 AAGCTTGTTAAATTTGCCCTTATTATTTCCAGATAAGTTACTTAGTT
1 AAGCTTGCTAAATTTGCCCTTAATATTTCCAGATAAGTTACTTAGTT
27696449 AA
1 AA
27696451 AGAAAATTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
46 11 0.26
47 32 0.74
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (47 bp):
AAGCTTGCTAAATTTGCCCTTAATATTTCCAGATAAGTTACTTAGTT
Found at i:27697321 original size:45 final size:45
Alignment explanation
Indices: 27697257--27697476 Score: 350
Period size: 45 Copynumber: 4.9 Consensus size: 45
27697247 CGCACAGTAT
* *
27697257 TATTCGAGCCTTCGAGCCTAGCAGGCTATAATACCGGTGAGATAC
1 TATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGATAC
* *
27697302 TATTCGGGCCTTTGAGCCTAGTAGGCTATAATGCCGGTGAGATAC
1 TATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGATAC
* * *
27697347 TATTTGGGCCTTCGACCCTAGCAGGCTATAATGCCGATGAGATAC
1 TATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGATAC
* *
27697392 TATTCGGGCCTTCGAACTTAGCAGGCTATAATGCCGGTGAGATAC
1 TATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGATAC
*
27697437 TATTCGGGCTTTCGAGCCTAGCAGGCTATAATGCCGGTGA
1 TATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGA
27697477 ATGAATTCAG
Statistics
Matches: 159, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 159 1.00
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.27
Consensus pattern (45 bp):
TATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGATAC
Found at i:27703865 original size:31 final size:31
Alignment explanation
Indices: 27703830--27703905 Score: 143
Period size: 31 Copynumber: 2.5 Consensus size: 31
27703820 CTTCCTGATT
27703830 AAATCCAACCAAAAATAGCAAATATAGCATG
1 AAATCCAACCAAAAATAGCAAATATAGCATG
*
27703861 AAATCCAACCAAAAATATCAAATATAGCATG
1 AAATCCAACCAAAAATAGCAAATATAGCATG
27703892 AAATCCAACCAAAA
1 AAATCCAACCAAAA
27703906 CCATTAAATC
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.57, C:0.21, G:0.07, T:0.16
Consensus pattern (31 bp):
AAATCCAACCAAAAATAGCAAATATAGCATG
Found at i:27704165 original size:21 final size:21
Alignment explanation
Indices: 27704141--27704181 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
27704131 TCTACTGCCA
*
27704141 TCGTTGCTACCTCTGCCTCCT
1 TCGTTGCTACCACTGCCTCCT
*
27704162 TCGTTGTTACCACTGCCTCC
1 TCGTTGCTACCACTGCCTCC
27704182 CTCTCTACTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.07, C:0.41, G:0.15, T:0.37
Consensus pattern (21 bp):
TCGTTGCTACCACTGCCTCCT
Found at i:27704631 original size:13 final size:14
Alignment explanation
Indices: 27704605--27704633 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
27704595 ACTAATGACG
27704605 AATTAAAGCATTAT
1 AATTAAAGCATTAT
27704619 AATTAAA-CATTAT
1 AATTAAAGCATTAT
27704632 AA
1 AA
27704634 ATATTTGTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.07, G:0.03, T:0.34
Consensus pattern (14 bp):
AATTAAAGCATTAT
Found at i:27710530 original size:20 final size:20
Alignment explanation
Indices: 27710505--27710545 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
27710495 GATGGTAGAG
27710505 TCGATTCCAGCAAATTAAAT
1 TCGATTCCAGCAAATTAAAT
27710525 TCGATTCCAGCAAATTAAAT
1 TCGATTCCAGCAAATTAAAT
27710545 T
1 T
27710546 ACACCTGCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.32
Consensus pattern (20 bp):
TCGATTCCAGCAAATTAAAT
Found at i:27713462 original size:41 final size:41
Alignment explanation
Indices: 27713417--27713495 Score: 106
Period size: 41 Copynumber: 1.9 Consensus size: 41
27713407 GCGTTTGGAT
*
27713417 AAAAAATGTCGCTATATATCAACTTTTT-GCGGCGTTTGTTA
1 AAAAAATGCCGCTATATATC-ACTTTTTAGCGGCGTTTGTTA
* * *
27713458 AAAAAATGCCGCTATTTCTCAGTTTTTAGCGGCGTTTG
1 AAAAAATGCCGCTATATATCACTTTTTAGCGGCGTTTG
27713496 GACTATAAAC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 6 0.18
41 27 0.82
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.38
Consensus pattern (41 bp):
AAAAAATGCCGCTATATATCACTTTTTAGCGGCGTTTGTTA
Found at i:27713510 original size:41 final size:41
Alignment explanation
Indices: 27713459--27713648 Score: 245
Period size: 41 Copynumber: 4.6 Consensus size: 41
27713449 CGTTTGTTAA
*
27713459 AAAAATGCCGCTATTTCTCAGTTTTTAGCGGCGTTTGGACT
1 AAAAACGCCGCTATTTCTCAGTTTTTAGCGGCGTTTGGACT
* * * * *
27713500 ATAAACGCCGCTATTTCTGAGTTTTTAGCGGCATTTGAACC
1 AAAAACGCCGCTATTTCTCAGTTTTTAGCGGCGTTTGGACT
* * * *
27713541 AAAAACACCGCTATTTCTGAGCTTTTAGCAGCGTTTGGACT
1 AAAAACGCCGCTATTTCTCAGTTTTTAGCGGCGTTTGGACT
* * *
27713582 AAAAACGCCACTATTGCTCAGTTTTTAGCGGCGTTTGGATT
1 AAAAACGCCGCTATTTCTCAGTTTTTAGCGGCGTTTGGACT
* *
27713623 AAAAACGCCGATATTGCTCAGTTTTT
1 AAAAACGCCGCTATTTCTCAGTTTTT
27713649 TGCAACATTT
Statistics
Matches: 127, Mismatches: 22, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 127 1.00
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.34
Consensus pattern (41 bp):
AAAAACGCCGCTATTTCTCAGTTTTTAGCGGCGTTTGGACT
Found at i:27713512 original size:82 final size:81
Alignment explanation
Indices: 27713407--27713618 Score: 198
Period size: 82 Copynumber: 2.6 Consensus size: 81
27713397 ATTTTTTATG
* * * **
27713407 GCGTTTGGA-TAAAAAATGTCGCTATATATC-AACTTTTT-GCGGCGTTTGTTAA-AAAAATGCC
1 GCGTTTGGACT-AAAAACGCCGCTAT-T-TCTAACTTTTTAGCGGCATTTG--AACAAAAACACC
* *
27713468 GCTATTTCTCAGTTTTTAGCG
61 GCTATTTCTCAGCTTTTAGCA
* * *
27713489 GCGTTTGGACTATAAACGCCGCTATTTCTGAGTTTTTAGCGGCATTTGAACCAAAAACACCGCTA
1 GCGTTTGGACTAAAAACGCCGCTATTTCTAACTTTTTAGCGGCATTTGAA-CAAAAACACCGCTA
*
27713554 TTTCTGAGCTTTTAGCA
65 TTTCTCAGCTTTTAGCA
* * * * *
27713571 GCGTTTGGACTAAAAACGCCACTATTGCTCAGTTTTTAGCGGCGTTTG
1 GCGTTTGGACTAAAAACGCCGCTATTTCTAACTTTTTAGCGGCATTTG
27713619 GATTAAAAAC
Statistics
Matches: 109, Mismatches: 16, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
80 4 0.04
81 7 0.06
82 97 0.89
83 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (81 bp):
GCGTTTGGACTAAAAACGCCGCTATTTCTAACTTTTTAGCGGCATTTGAACAAAAACACCGCTAT
TTCTCAGCTTTTAGCA
Found at i:27714522 original size:36 final size:36
Alignment explanation
Indices: 27714448--27714523 Score: 107
Period size: 36 Copynumber: 2.1 Consensus size: 36
27714438 ATTAACATCG
* *
27714448 AATAGGATAATAGTTTATGTTGCATTTTATCTTCAT
1 AATAGGATAATAGTTTATATTGCATTTTATATTCAT
* * *
27714484 AATAGGATAATTGTTTATATTGCATTTTTTATTTAT
1 AATAGGATAATAGTTTATATTGCATTTTATATTCAT
27714520 AATA
1 AATA
27714524 TATATTTTAA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.33, C:0.05, G:0.12, T:0.50
Consensus pattern (36 bp):
AATAGGATAATAGTTTATATTGCATTTTATATTCAT
Found at i:27714867 original size:16 final size:17
Alignment explanation
Indices: 27714848--27714885 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
27714838 AAAAAAATTT
27714848 TAAATTT-TTAAAAAAA
1 TAAATTTATTAAAAAAA
**
27714864 TAAATTTATTTTAAAAA
1 TAAATTTATTAAAAAAA
27714881 TAAAT
1 TAAAT
27714886 CCAGATGAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
TAAATTTATTAAAAAAA
Found at i:27717473 original size:22 final size:23
Alignment explanation
Indices: 27717447--27717497 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
27717437 TATTATTTTA
*
27717447 ATTTTAGAATAT-A-TATATTGTT
1 ATTTTAAAATATGATTATA-TGTT
*
27717469 TTTTTAAAATATGATTATATGTT
1 ATTTTAAAATATGATTATATGTT
27717492 ATTTTA
1 ATTTTA
27717498 CTAATCTTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
22 10 0.42
23 10 0.42
24 4 0.17
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.57
Consensus pattern (23 bp):
ATTTTAAAATATGATTATATGTT
Found at i:27717819 original size:29 final size:28
Alignment explanation
Indices: 27717787--27717853 Score: 107
Period size: 29 Copynumber: 2.3 Consensus size: 28
27717777 ATCTTAATAT
27717787 TAACAATATTTTTTAATACTTTTTTGAAC
1 TAAC-ATATTTTTTAATACTTTTTTGAAC
*
27717816 TAACCGTATTTTTTAATACTTTTTTGAAC
1 TAA-CATATTTTTTAATACTTTTTTGAAC
27717845 TAACATATT
1 TAACATATT
27717854 ATATACAACT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
28 5 0.14
29 29 0.83
30 1 0.03
ACGTcount: A:0.33, C:0.12, G:0.04, T:0.51
Consensus pattern (28 bp):
TAACATATTTTTTAATACTTTTTTGAAC
Found at i:27718633 original size:17 final size:17
Alignment explanation
Indices: 27718608--27718664 Score: 66
Period size: 17 Copynumber: 3.5 Consensus size: 17
27718598 ATGAGAAGCA
27718608 AAATCCAATCTAATAAC
1 AAATCCAATCTAATAAC
* *
27718625 AAATGCAA--TAA-AAA
1 AAATCCAATCTAATAAC
27718639 AAATCCAATCTAATAAC
1 AAATCCAATCTAATAAC
*
27718656 AAATGCAAT
1 AAATCCAAT
27718665 AAAAAAATAC
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
14 9 0.28
15 3 0.09
16 3 0.09
17 17 0.53
ACGTcount: A:0.58, C:0.18, G:0.04, T:0.21
Consensus pattern (17 bp):
AAATCCAATCTAATAAC
Found at i:27718642 original size:31 final size:31
Alignment explanation
Indices: 27718607--27718671 Score: 130
Period size: 31 Copynumber: 2.1 Consensus size: 31
27718597 TATGAGAAGC
27718607 AAAATCCAATCTAATAACAAATGCAATAAAA
1 AAAATCCAATCTAATAACAAATGCAATAAAA
27718638 AAAATCCAATCTAATAACAAATGCAATAAAA
1 AAAATCCAATCTAATAACAAATGCAATAAAA
27718669 AAA
1 AAA
27718672 TACTAAATAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.63, C:0.15, G:0.03, T:0.18
Consensus pattern (31 bp):
AAAATCCAATCTAATAACAAATGCAATAAAA
Found at i:27721016 original size:24 final size:24
Alignment explanation
Indices: 27720989--27721036 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
27720979 TTATTTCCTT
27720989 GTACAGATTTCTCATCTATGTATA
1 GTACAGATTTCTCATCTATGTATA
27721013 GTACAGATTTCTCATCTATGTATA
1 GTACAGATTTCTCATCTATGTATA
27721037 AATACTCTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (24 bp):
GTACAGATTTCTCATCTATGTATA
Found at i:27725755 original size:122 final size:127
Alignment explanation
Indices: 27725573--27725822 Score: 316
Period size: 126 Copynumber: 2.0 Consensus size: 127
27725563 AAAAAAGAAA
* * *
27725573 AAGCAACTGAGGGTTGGAAAGAGAGAAATAAACAGCCAACAATTCTCCAAAACTGTT-AAAAG-A
1 AAGCAACTGAGGGTTGGAAAGAGAGAAATAAACAGCAAACAACTCTCCAAAACTCTTAAAAAGAA
* * * ** ** *
27725636 -C-TGTTTTAGACATG-TGTTATGTTTCTTTATGTCTGTGTTTACATACCTGAGAATATCTTT
66 CCGTGTTTCAGACATGCT-TCAGGCATCTCAATGTCTGTGTTTACATACCTGAGAATATATTT
*
27725696 AAGCAATTGA-GGTTGG-AAGAGAGAAATAAACAGCAAACAACTCTTCCAAAACTCTTAAAAAGA
1 AAGCAACTGAGGGTTGGAAAGAGAGAAATAAACAGCAAACAACTC-TCCAAAACTCTTAAAAAGA
*
27725759 ACCGTGTTTCAGACATGCTTCAGGCATCTCAATGTCTGTGTTTACCTACCTGAGAATATATTT
65 ACCGTGTTTCAGACATGCTTCAGGCATCTCAATGTCTGTGTTTACATACCTGAGAATATATTT
27725822 A
1 A
27725823 GATTTTTTTT
Statistics
Matches: 108, Mismatches: 13, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
121 25 0.23
122 17 0.16
123 14 0.13
124 1 0.01
125 1 0.01
126 49 0.45
127 1 0.01
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.30
Consensus pattern (127 bp):
AAGCAACTGAGGGTTGGAAAGAGAGAAATAAACAGCAAACAACTCTCCAAAACTCTTAAAAAGAA
CCGTGTTTCAGACATGCTTCAGGCATCTCAATGTCTGTGTTTACATACCTGAGAATATATTT
Found at i:27728732 original size:14 final size:13
Alignment explanation
Indices: 27728710--27728758 Score: 53
Period size: 14 Copynumber: 3.5 Consensus size: 13
27728700 TCAGAGGAAT
27728710 CAATTAATCTATA
1 CAATTAATCTATA
*
27728723 CAAGTTAATCTGTA
1 CAA-TTAATCTATA
*
27728737 CCAATTACTCTATA
1 -CAATTAATCTATA
27728751 CAAATTAA
1 C-AATTAA
27728759 AATAATTCAT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
13 4 0.14
14 22 0.76
15 3 0.10
ACGTcount: A:0.43, C:0.18, G:0.04, T:0.35
Consensus pattern (13 bp):
CAATTAATCTATA
Found at i:27730146 original size:13 final size:13
Alignment explanation
Indices: 27730130--27730195 Score: 62
Period size: 13 Copynumber: 5.1 Consensus size: 13
27730120 TTTAAACTAA
*
27730130 ACTTTTCAAAAGT
1 ACTTTTCAAAAGC
* *
27730143 ACTTCTCAAAAGT
1 ACTTTTCAAAAGC
* *
27730156 ACTTCTCAAAAAC
1 ACTTTTCAAAAGC
*
27730169 ACTTTTTC-ACAGC
1 AC-TTTTCAAAAGC
27730182 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
27730195 A
1 A
27730196 TTGCCAAACT
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
12 5 0.11
13 35 0.80
14 4 0.09
ACGTcount: A:0.38, C:0.24, G:0.06, T:0.32
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:27731432 original size:66 final size:67
Alignment explanation
Indices: 27731325--27731466 Score: 191
Period size: 66 Copynumber: 2.1 Consensus size: 67
27731315 AGCCTCTAAA
* * * *
27731325 GGTACCCC-TTTCTTATATGCATGATAACTTACTAACGATGTTTTTGGATCTAACACGGTCTAGC
1 GGTACCCCTTTTCTTACATGCATGATAACTTACTAACAATGTTTTTGGATCTAACACAGTCCAGC
*
27731389 TT
66 AT
*
27731391 GGTACCCCTTTTC-TACATGTATGGA-AACTTACTAACAATGTTTTTGGATCTAACACAGTCCAG
1 GGTACCCCTTTTCTTACATGCAT-GATAACTTACTAACAATGTTTTTGGATCTAACACAGTCCAG
27731454 CAT
65 CAT
*
27731457 GGTCCCCCTT
1 GGTACCCCTT
27731467 CGAGCTCTTT
Statistics
Matches: 67, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
66 61 0.91
67 6 0.09
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.35
Consensus pattern (67 bp):
GGTACCCCTTTTCTTACATGCATGATAACTTACTAACAATGTTTTTGGATCTAACACAGTCCAGC
AT
Found at i:27737966 original size:25 final size:26
Alignment explanation
Indices: 27737927--27737975 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
27737917 TTACAGATAA
27737927 AAAATTCTCTAAAGAGATTATTCTAG
1 AAAATTCTCTAAAGAGATTATTCTAG
* *
27737953 AAAATT-TCTAAAGATATTTTTCT
1 AAAATTCTCTAAAGAGATTATTCT
27737976 GATTTACAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 15 0.71
26 6 0.29
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.41
Consensus pattern (26 bp):
AAAATTCTCTAAAGAGATTATTCTAG
Found at i:27738769 original size:15 final size:15
Alignment explanation
Indices: 27738749--27738820 Score: 51
Period size: 15 Copynumber: 4.6 Consensus size: 15
27738739 AATTGTTTAC
27738749 AATGTTATATTATGT
1 AATGTTATATTATGT
27738764 AATGTTATA-TA--T
1 AATGTTATATTATGT
* *
27738776 ACATGTTTTATAATTGTTT
1 A-ATG--TTAT-ATTATGT
27738795 ACAATGTTATATTATGT
1 --AATGTTATATTATGT
27738812 AATGTTATA
1 AATGTTATA
27738821 ATTGTGATAT
Statistics
Matches: 45, Mismatches: 3, Indels: 18
0.68 0.05 0.27
Matches are distributed among these distances:
12 2 0.04
13 3 0.07
14 2 0.04
15 22 0.49
16 1 0.02
17 6 0.13
18 4 0.09
19 1 0.02
20 3 0.07
21 1 0.02
ACGTcount: A:0.35, C:0.03, G:0.11, T:0.51
Consensus pattern (15 bp):
AATGTTATATTATGT
Found at i:27738791 original size:48 final size:48
Alignment explanation
Indices: 27738720--27738820 Score: 193
Period size: 48 Copynumber: 2.1 Consensus size: 48
27738710 ACCTATCCCC
27738720 TTATATATACATGTTTCATAATTGTTTACAATGTTATATTATGTAATG
1 TTATATATACATGTTTCATAATTGTTTACAATGTTATATTATGTAATG
*
27738768 TTATATATACATGTTTTATAATTGTTTACAATGTTATATTATGTAATG
1 TTATATATACATGTTTCATAATTGTTTACAATGTTATATTATGTAATG
27738816 TTATA
1 TTATA
27738821 ATTGTGATAT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 52 1.00
ACGTcount: A:0.34, C:0.05, G:0.10, T:0.51
Consensus pattern (48 bp):
TTATATATACATGTTTCATAATTGTTTACAATGTTATATTATGTAATG
Found at i:27756821 original size:30 final size:31
Alignment explanation
Indices: 27756787--27756846 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
27756777 AGCTCCAACC
27756787 AGCTCACTTGAGCTTGCTT-CAGCTCGTTTT
1 AGCTCACTTGAGCTTGCTTCCAGCTCGTTTT
** * *
27756817 AGCTCGTTTTAGCTTTCTTCCAGCTCGTTT
1 AGCTCACTTGAGCTTGCTTCCAGCTCGTTT
27756847 CTTATTCTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 15 0.60
31 10 0.40
ACGTcount: A:0.12, C:0.27, G:0.18, T:0.43
Consensus pattern (31 bp):
AGCTCACTTGAGCTTGCTTCCAGCTCGTTTT
Found at i:27771675 original size:2 final size:2
Alignment explanation
Indices: 27771668--27771703 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
27771658 TTAGACCAAA
*
27771668 CT CT CT CT CT CT CT CT TT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
27771704 TTGTCCTATT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (2 bp):
CT
Found at i:27776412 original size:20 final size:20
Alignment explanation
Indices: 27776387--27776465 Score: 61
Period size: 20 Copynumber: 4.0 Consensus size: 20
27776377 AAGGAGGAAG
27776387 TACTGGTAGTTTATCTACAT
1 TACTGGTAGTTTATCTACAT
* * *
27776407 TACTGGTGGCTTGA-CCACAT
1 TACTGGTAG-TTTATCTACAT
* * * **
27776427 TACTAGTAGCTTATTTGTAT
1 TACTGGTAGTTTATCTACAT
*
27776447 TACTGGCAGTTTATCTACA
1 TACTGGTAGTTTATCTACA
27776466 ATATTGGCAG
Statistics
Matches: 40, Mismatches: 17, Indels: 4
0.66 0.28 0.07
Matches are distributed among these distances:
19 2 0.05
20 35 0.88
21 3 0.08
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.41
Consensus pattern (20 bp):
TACTGGTAGTTTATCTACAT
Found at i:27776491 original size:60 final size:60
Alignment explanation
Indices: 27776387--27776512 Score: 146
Period size: 60 Copynumber: 2.1 Consensus size: 60
27776377 AAGGAGGAAG
* * ** * ** *
27776387 TACTGGTAGTTTATCTACATTACTGGTGGCTTGACCACATTACTAGTAGCTTATTTGTAT
1 TACTGGCAGTTTATCTACAATACTGGCAGCTTGACCACACTACTACCAGCTTATTTGCAT
* *
27776447 TACTGGCAGTTTATCTACAATATTGGCAGCTTG-CCTACACTACTACCAGTTTATTTGCAT
1 TACTGGCAGTTTATCTACAATACTGGCAGCTTGACC-ACACTACTACCAGCTTATTTGCAT
27776507 TACTGG
1 TACTGG
27776513 TGGCTTAACC
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
59 2 0.04
60 53 0.96
ACGTcount: A:0.24, C:0.20, G:0.17, T:0.39
Consensus pattern (60 bp):
TACTGGCAGTTTATCTACAATACTGGCAGCTTGACCACACTACTACCAGCTTATTTGCAT
Found at i:27776558 original size:20 final size:20
Alignment explanation
Indices: 27776502--27776560 Score: 55
Period size: 20 Copynumber: 3.0 Consensus size: 20
27776492 CCAGTTTATT
**
27776502 TGCATTACTGGTGGCTTAAC
1 TGCATTACTGGTGGCTTGTC
** * **
27776522 CACATTACTAGAAGCTTGTC
1 TGCATTACTGGTGGCTTGTC
27776542 TGCATTACTGGTGGCTTGT
1 TGCATTACTGGTGGCTTGT
27776561 ACACAAATTA
Statistics
Matches: 27, Mismatches: 12, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.20, C:0.20, G:0.24, T:0.36
Consensus pattern (20 bp):
TGCATTACTGGTGGCTTGTC
Found at i:27778555 original size:28 final size:27
Alignment explanation
Indices: 27778487--27778560 Score: 94
Period size: 28 Copynumber: 2.7 Consensus size: 27
27778477 AACATGACGG
** **
27778487 TAAATGTGATTCAGCCTAATGGCCGTA
1 TAAATGTGATTGGGCCTAATGGCCACA
27778514 TAAATGTGATTTGGGCCTAATGGGCCACA
1 TAAATGTGA-TTGGGCCTAAT-GGCCACA
27778543 TAAATGTGATTGGGCCTA
1 TAAATGTGATTGGGCCTA
27778561 GTTGGCCATA
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
27 9 0.22
28 18 0.44
29 14 0.34
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (27 bp):
TAAATGTGATTGGGCCTAATGGCCACA
Found at i:27782537 original size:28 final size:27
Alignment explanation
Indices: 27782505--27782595 Score: 110
Period size: 28 Copynumber: 3.2 Consensus size: 27
27782495 AGGAAGCGTC
27782505 CTGGTGGCTATGCCACAAATTATCTGTT
1 CTGGTGGC-ATGCCACAAATTATCTGTT
* *
27782533 TTGGTGGCCCTGCCACAAATTATCTGTT
1 CTGGTGG-CATGCCACAAATTATCTGTT
* *
27782561 CTGGTGACAGTGCCACAAAATATCTGTAT
1 CTGGTGGCA-TGCCACAAATTATCTGT-T
27782590 CTGGTG
1 CTGGTG
27782596 ACTCTGTCAC
Statistics
Matches: 54, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
27 1 0.02
28 45 0.83
29 8 0.15
ACGTcount: A:0.22, C:0.22, G:0.23, T:0.33
Consensus pattern (27 bp):
CTGGTGGCATGCCACAAATTATCTGTT
Found at i:27782593 original size:29 final size:28
Alignment explanation
Indices: 27782515--27782606 Score: 112
Period size: 28 Copynumber: 3.2 Consensus size: 28
27782505 CTGGTGGCTA
* * *
27782515 TGCCACAAATTATCTGTTTTGGTGGCCC
1 TGCCACAAATTATCTGTTCTGGTGACAC
*
27782543 TGCCACAAATTATCTGTTCTGGTGACAG
1 TGCCACAAATTATCTGTTCTGGTGACAC
* *
27782571 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAATTATCTGT-TCTGGTGACAC
*
27782600 TGTCACA
1 TGCCACA
27782607 TTTTCTGTAT
Statistics
Matches: 55, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
28 40 0.73
29 15 0.27
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.33
Consensus pattern (28 bp):
TGCCACAAATTATCTGTTCTGGTGACAC
Found at i:27782620 original size:56 final size:55
Alignment explanation
Indices: 27782515--27782620 Score: 124
Period size: 56 Copynumber: 1.9 Consensus size: 55
27782505 CTGGTGGCTA
* * *
27782515 TGCCACAAATTATCTGTTTTGGTGGCCCTGCCACAAATTATCTGTTCTGGTGACAG
1 TGCCACAAAATATCTGTTCTGGTGACCCTGCCAC-AATTATCTGTTCTGGTGACAG
* * *
27782571 TGCCACAAAATATCTGTATCTGGTGACTCTGTCAC-ATTTTCTGTATCTGG
1 TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACAATTATCTGT-TCTGG
27782621 CAGCCATGCT
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
55 8 0.19
56 21 0.50
57 13 0.31
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.36
Consensus pattern (55 bp):
TGCCACAAAATATCTGTTCTGGTGACCCTGCCACAATTATCTGTTCTGGTGACAG
Found at i:27789259 original size:40 final size:40
Alignment explanation
Indices: 27789115--27789259 Score: 182
Period size: 40 Copynumber: 3.6 Consensus size: 40
27789105 TACTTGAATG
* *
27789115 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCT-AGCGACT
* * * *
27789156 ACATCCGGACTAAGATCCGAAGGTATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
* * * *
27789196 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
*
27789236 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
27789260 CTTGTGCGAG
Statistics
Matches: 88, Mismatches: 16, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
40 61 0.69
41 27 0.31
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
Found at i:27790484 original size:40 final size:39
Alignment explanation
Indices: 27790400--27790663 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 39
27790390 TCGAATGATG
* * * *
27790400 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* *
27790440 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
* *
27790480 TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
* *
27790519 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTAAA
* *
27790559 TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
*
27790598 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
*
27790639 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
27790664 AACGAGTAGC
Statistics
Matches: 196, Mismatches: 23, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
39 70 0.36
40 116 0.59
41 10 0.05
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:27790536 original size:79 final size:80
Alignment explanation
Indices: 27790400--27790661 Score: 381
Period size: 79 Copynumber: 3.3 Consensus size: 80
27790390 TCGAATGATG
* * * * * **
27790400 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
27790463 TTGTGCGAGTTACTAAT
64 TTGTGCGAGTTACTAAT
27790480 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
27790544 GTGCGAGTTACTAAT
66 GTGCGAGTTACTAAT
27790559 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
27790623 GTGCGAGTTACT-AT
66 GTGCGAGTTACTAAT
* *
27790637 AACCGGGCTATGTCCCGAAGGCATT
1 -TCCGGGCTAAGTCCCGAAGGCATT
27790662 TGAACGAGTA
Statistics
Matches: 169, Mismatches: 9, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
78 3 0.02
79 137 0.81
80 29 0.17
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
GTGCGAGTTACTAAT
Found at i:27790614 original size:119 final size:121
Alignment explanation
Indices: 27790400--27790663 Score: 369
Period size: 119 Copynumber: 2.2 Consensus size: 121
27790390 TCGAATGATG
* *
27790400 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACAATATCCGGACTAAGACCCGAAGGCATT
* *
27790464 TGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTA-AA
66 GGTGCGAGTTACTAAATCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTATAA
* * * *
27790519 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT-TCCGGGCTAAG-CCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGAC-AATATCCGGACTAAGACCCGAAGGCAT
* *
27790581 TGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
65 TGGTGCGAGTTACTAAATCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTATAA
*
27790639 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
27790664 AACGAGTAGC
Statistics
Matches: 129, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
118 35 0.27
119 83 0.64
120 11 0.09
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (121 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACAATATCCGGACTAAGACCCGAAGGCATT
GGTGCGAGTTACTAAATCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTATAA
Found at i:27791413 original size:73 final size:74
Alignment explanation
Indices: 27791332--27791471 Score: 273
Period size: 74 Copynumber: 1.9 Consensus size: 74
27791322 CACTTTTTGT
27791332 ATATGTATGACAAACTCTAGTTGATCCAT-GAGGATCATGAAATAGGTAAAGTTTACCTTAAAAA
1 ATATGTATGACAAACTCTAGTTGATCCATGGAGGATCATGAAATAGGTAAAGTTTACCTTAAAAA
27791396 CACTTTGGA
66 CACTTTGGA
27791405 ATATGTATGACAAACTCTAGTTGATCCATGGAGGATCATGAAATAGGTAAAGTTTACCTTAAAAA
1 ATATGTATGACAAACTCTAGTTGATCCATGGAGGATCATGAAATAGGTAAAGTTTACCTTAAAAA
27791470 CA
66 CA
27791472 GATGCTGGCA
Statistics
Matches: 66, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
73 29 0.44
74 37 0.56
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.29
Consensus pattern (74 bp):
ATATGTATGACAAACTCTAGTTGATCCATGGAGGATCATGAAATAGGTAAAGTTTACCTTAAAAA
CACTTTGGA
Found at i:27793051 original size:130 final size:130
Alignment explanation
Indices: 27792813--27793072 Score: 432
Period size: 130 Copynumber: 2.0 Consensus size: 130
27792803 GGATTCCCTG
*
27792813 TTCCGACTTTGGAAATTCATTATAAATTAACCAGAGATAATTAGAAGTCATGCCATATATGCATA
1 TTCCGACTTTGGAAATTCATTATAAATTAACCAGAGATAATTAGAAGTCATGCCATATATGCACA
*
27792878 GATTCCCTTTTGAGTCTAGTTTCTATAGAAACAAACGAAATCAGTATTGAAGCCCTGTACAGGGA
66 GATTCCCTTCTGAGTCTAGTTTCTATAGAAACAAACGAAATCAGTATTGAAGCCCTGTACAGGGA
* * *
27792943 TTCCGACTTTGGAAATTCATTATAAATTAACCAGAGATAATTAGGAGTCATTCCATATATGTACA
1 TTCCGACTTTGGAAATTCATTATAAATTAACCAGAGATAATTAGAAGTCATGCCATATATGCACA
* * *
27793008 GATT-CCTCTCTGAGTCTAGTTTCTATAGAAACAAACGACATCAGTATTGAAGCTCTGTGCAGGG
66 GATTCCCT-TCTGAGTCTAGTTTCTATAGAAACAAACGAAATCAGTATTGAAGCCCTGTACAGGG
27793072 A
130 A
27793073 GATATCCAAT
Statistics
Matches: 121, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
129 3 0.02
130 118 0.98
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.31
Consensus pattern (130 bp):
TTCCGACTTTGGAAATTCATTATAAATTAACCAGAGATAATTAGAAGTCATGCCATATATGCACA
GATTCCCTTCTGAGTCTAGTTTCTATAGAAACAAACGAAATCAGTATTGAAGCCCTGTACAGGGA
Found at i:27796801 original size:28 final size:28
Alignment explanation
Indices: 27796761--27796828 Score: 118
Period size: 28 Copynumber: 2.4 Consensus size: 28
27796751 TAGATATACT
*
27796761 ATTATACCCCTATGTATGCAAAATTACC
1 ATTATACCCCTATGTATGCAAAATGACC
27796789 ATTATACCCCTATGTATGCAAAATGACC
1 ATTATACCCCTATGTATGCAAAATGACC
*
27796817 TTTATACCCCTA
1 ATTATACCCCTA
27796829 GGGTTAATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.34, C:0.26, G:0.07, T:0.32
Consensus pattern (28 bp):
ATTATACCCCTATGTATGCAAAATGACC
Found at i:27797035 original size:29 final size:28
Alignment explanation
Indices: 27796934--27797024 Score: 121
Period size: 28 Copynumber: 3.2 Consensus size: 28
27796924 AGGAAGCGTC
27796934 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAATTATCTGTT
* *
27796962 CTGGTGGCCCTGCCACAAATTATCTATT
1 CTGGTGGCACTGCCACAAATTATCTGTT
* *
27796990 CTGGTGGCACTACCACAAAATATCTGTAT
1 CTGGTGGCACTGCCACAAATTATCTGT-T
27797019 CTGGTG
1 CTGGTG
27797025 ACTCTGTCAC
Statistics
Matches: 55, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
28 48 0.87
29 7 0.13
ACGTcount: A:0.23, C:0.24, G:0.21, T:0.32
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAATTATCTGTT
Found at i:27805616 original size:50 final size:50
Alignment explanation
Indices: 27805522--27805618 Score: 140
Period size: 50 Copynumber: 1.9 Consensus size: 50
27805512 CCGTGTCATC
* * * **
27805522 GGCCGTGTGCTAGACCGTGTAAAACCTGCACTAAAATTTCCAAGACATAT
1 GGCCATGTGATAGACCGTGTAAAACCTGCACTAAAAATGACAAGACATAT
*
27805572 GGCCATGTGATAGACCGTGTGAAACCTGCACTAAAAATGACAAGACA
1 GGCCATGTGATAGACCGTGTAAAACCTGCACTAAAAATGACAAGACA
27805619 CACGGCTGTG
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
50 41 1.00
ACGTcount: A:0.35, C:0.23, G:0.22, T:0.21
Consensus pattern (50 bp):
GGCCATGTGATAGACCGTGTAAAACCTGCACTAAAAATGACAAGACATAT
Done.