Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008593.1 Hibiscus syriacus cultivar Beakdansim tig00111542_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1058705
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
File 2 of 5
Found at i:244833 original size:34 final size:34
Alignment explanation
Indices: 244776--244860 Score: 143
Period size: 34 Copynumber: 2.5 Consensus size: 34
244766 CCCGAACGCG
*
244776 AAAATATTTTATATATAACTAATATAAAAAATAT
1 AAAATATTATATATATAACTAATATAAAAAATAT
* *
244810 AAAAAATTATATATATAATTAATATAAAAAATAT
1 AAAATATTATATATATAACTAATATAAAAAATAT
244844 AAAATATTATATATATA
1 AAAATATTATATATATA
244861 TATATATATA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 47 1.00
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (34 bp):
AAAATATTATATATATAACTAATATAAAAAATAT
Found at i:244860 original size:25 final size:25
Alignment explanation
Indices: 244796--244858 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 25
244786 ATATATAACT
**
244796 AATATAAAAAATATAAAAAATTATA
1 AATATAATTAATATAAAAAATTATA
*
244821 TATATAATTAATATAAAAAA-TATA
1 AATATAATTAATATAAAAAATTATA
244845 AA-AT-ATTATATATA
1 AATATAATTA-ATATA
244859 TATATATATA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
22 4 0.12
23 7 0.21
24 5 0.15
25 17 0.52
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (25 bp):
AATATAATTAATATAAAAAATTATA
Found at i:249261 original size:8 final size:7
Alignment explanation
Indices: 249230--249260 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
249220 AAATGGGTTT
*
249230 AAATTAA
1 AAATTTA
249237 AAATTTA
1 AAATTTA
249244 AAATTTA
1 AAATTTA
249251 AAATTTA
1 AAATTTA
249258 AAA
1 AAA
249261 AAATCGATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (7 bp):
AAATTTA
Found at i:254825 original size:183 final size:183
Alignment explanation
Indices: 254497--254882 Score: 589
Period size: 183 Copynumber: 2.1 Consensus size: 183
254487 TTTTCTAATT
* * * *
254497 TATATAA-AAATTAAATATTTTTTAATTCAAAAAAGTTTATAATTAATTTAAATAATAAATAATT
1 TATATAATATATTTAATATTTTTTAATTAAAAAAAGTTTACAATTAATTTAAATAATAAATAATT
**
254561 ATAAAATAAAAGTTTTAGATAAATTTTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTATTG
66 ATAAAATAAAAAATTTAGATAAATTTTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTATTG
* * ** *
254626 GATCTTAAATTATTAATTGGGTTTTAAATGGGTTGGGCTT-AGCTCATATGTTA
131 GATCTTAAAGTATTAATTAGGTTTTAAATAAGTTGGG-TTGAGCCCATATGTTA
*
254679 TATATAATATATTTAATATTTTTTAATTAAAAAACAGTTTACAATTAATTTAAATAATATATAAT
1 TATATAATATATTTAATATTTTTTAATTAAAAAA-AGTTTACAATTAATTTAAATAATAAATAAT
*
254744 TATAAAATAAAAAATTTATAT-AATTTTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTATT
65 TATAAAATAAAAAATTTAGATAAATTTTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTATT
* * *
254808 GGATCTTCAAGTATTAATTAGGTTTTTAATAATTTGGGTTGAGCCCATATGTTA
130 GGATCTTAAAGTATTAATTAGGTTTTAAATAAGTTGGGTTGAGCCCATATGTTA
254862 TATATAATATATTTAATATTT
1 TATATAATATATTTAATATTT
254883 AAAATTTAAT
Statistics
Matches: 185, Mismatches: 16, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
182 9 0.05
183 130 0.70
184 46 0.25
ACGTcount: A:0.42, C:0.03, G:0.09, T:0.46
Consensus pattern (183 bp):
TATATAATATATTTAATATTTTTTAATTAAAAAAAGTTTACAATTAATTTAAATAATAAATAATT
ATAAAATAAAAAATTTAGATAAATTTTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTATTG
GATCTTAAAGTATTAATTAGGTTTTAAATAAGTTGGGTTGAGCCCATATGTTA
Found at i:255704 original size:31 final size:31
Alignment explanation
Indices: 255669--255757 Score: 106
Period size: 32 Copynumber: 2.8 Consensus size: 31
255659 ATACATAACA
* * *
255669 TTTACTTTTTATTTTATTTTAGTACCTAATG
1 TTTACTTTTTGTTTCATTTTAGTACCCAATG
* *
255700 TTTACTTTTTGTTTCATTTTAATACCCCATTG
1 TTTACTTTTTGTTTCATTTTAGTA-CCCAATG
* *
255732 TTAACTTTTTGTTTCATTTTTGTACC
1 TTTACTTTTTGTTTCATTTTAGTACC
255758 AAAATTTTTA
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
31 23 0.47
32 26 0.53
ACGTcount: A:0.19, C:0.15, G:0.07, T:0.60
Consensus pattern (31 bp):
TTTACTTTTTGTTTCATTTTAGTACCCAATG
Found at i:259691 original size:21 final size:22
Alignment explanation
Indices: 259660--259705 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
259650 GAAATACGCG
*
259660 TGACCTGCTTCAACGCTGTTGT
1 TGACCTGCTTCAACGCTGTTAT
* *
259682 TGACC-GCTTCTACTCTGTTAT
1 TGACCTGCTTCAACGCTGTTAT
259703 TGA
1 TGA
259706 AGTTGGTAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.15, C:0.26, G:0.20, T:0.39
Consensus pattern (22 bp):
TGACCTGCTTCAACGCTGTTAT
Found at i:261185 original size:21 final size:21
Alignment explanation
Indices: 261159--261201 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
261149 TCAACTACCG
*
261159 TGGACTGTCACGTTAACATTA
1 TGGACTGTCACGTCAACATTA
261180 TGGACTGTCACGTCAACATTA
1 TGGACTGTCACGTCAACATTA
261201 T
1 T
261202 AAACAAGCCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.33
Consensus pattern (21 bp):
TGGACTGTCACGTCAACATTA
Found at i:262036 original size:96 final size:98
Alignment explanation
Indices: 261918--262130 Score: 288
Period size: 101 Copynumber: 2.2 Consensus size: 98
261908 GCGATTTTGT
**
261918 GATAGTCCAAGTTCGCGTTGCGATTTTCCAAATTCGTTGCGATTTTCCAAA-T-TTACG-TTAGT
1 GATAGTCCAAGTTCGCGTTGCGATTTTCCAAATTCGTTGCGATAGTCCAAATTCTTACGATT-GT
*
261980 TCAAATTCGTTGTGATAGCCCAAGTTCACGTTGC
65 TCAAATTCGTTGCGATAGCCCAAGTTCACGTTGC
* * *
262014 GATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCGTTGCGATAGTCGAAATTCGCATTGCGATT
1 GATAGTCCAAGTTCGCGTTGCGATTTTCCAAATTCGTTGCGATAGTCCAAATT--C-TTACGATT
* * *
262079 TTTCAAATTCGTTGCGATAGTCCAAGTTCGCGTTGC
63 GTTCAAATTCGTTGCGATAGCCCAAGTTCACGTTGC
262115 GATAGTCCAAGTTCGC
1 GATAGTCCAAGTTCGC
262131 AACGACTGGT
Statistics
Matches: 101, Mismatches: 10, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
96 47 0.47
97 1 0.01
101 51 0.50
102 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.22, T:0.35
Consensus pattern (98 bp):
GATAGTCCAAGTTCGCGTTGCGATTTTCCAAATTCGTTGCGATAGTCCAAATTCTTACGATTGTT
CAAATTCGTTGCGATAGCCCAAGTTCACGTTGC
Found at i:262052 original size:40 final size:40
Alignment explanation
Indices: 262008--262117 Score: 184
Period size: 40 Copynumber: 2.8 Consensus size: 40
261998 CCCAAGTTCA
262008 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATT
* * *
262048 CGTTGCGATAGTCGAAATTCGCATTGCGATTTTTCAAATT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATT
*
262088 CGTTGCGATAGTCCAAGTTCGCGTTGCGAT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGAT
262118 AGTCCAAGTT
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 64 1.00
ACGTcount: A:0.21, C:0.20, G:0.25, T:0.35
Consensus pattern (40 bp):
CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATT
Found at i:262108 original size:19 final size:19
Alignment explanation
Indices: 261918--262129 Score: 124
Period size: 21 Copynumber: 10.8 Consensus size: 19
261908 GCGATTTTGT
*
261918 GATAGTCCAAGTTCGCGTTGC
1 GATAGTCCAAATT--CGTTGC
**
261939 GATTTTCCAAATTCGTTGC
1 GATAGTCCAAATTCGTTGC
** *
261958 GATTTTCCAAA-T--TTAC
1 GATAGTCCAAATTCGTTGC
* * *
261974 GTTAGTTCAAATTCGTTGT
1 GATAGTCCAAATTCGTTGC
* *
261993 GATAGCCCAAGTTCACGTTGC
1 GATAGTCCAAATT--CGTTGC
* *
262014 GATAGTCGAAGTTCGCGTTGC
1 GATAGTCCAAATT--CGTTGC
**
262035 GATTTTCCAAATTCGTTGC
1 GATAGTCCAAATTCGTTGC
*
262054 GATAGTCGAAATTCGCATTGC
1 GATAGTCCAAATTCG--TTGC
** *
262075 GATTTTTCAAATTCGTTGC
1 GATAGTCCAAATTCGTTGC
*
262094 GATAGTCCAAGTTCGCGTTGC
1 GATAGTCCAAATT--CGTTGC
*
262115 GATAGTCCAAGTTCG
1 GATAGTCCAAATTCG
262130 CAACGACTGG
Statistics
Matches: 149, Mismatches: 33, Indels: 20
0.74 0.16 0.10
Matches are distributed among these distances:
16 10 0.07
17 1 0.01
18 1 0.01
19 61 0.41
21 76 0.51
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.35
Consensus pattern (19 bp):
GATAGTCCAAATTCGTTGC
Found at i:262114 original size:21 final size:21
Alignment explanation
Indices: 261987--262130 Score: 134
Period size: 21 Copynumber: 7.0 Consensus size: 21
261977 AGTTCAAATT
* * *
261987 CGTTGTGATAGCCCAAGTTCA
1 CGTTGCGATAGTCCAAGTTCG
*
262008 CGTTGCGATAGTCGAAGTTCG
1 CGTTGCGATAGTCCAAGTTCG
** *
262029 CGTTGCGATTTTCCAAATT--
1 CGTTGCGATAGTCCAAGTTCG
* *
262048 CGTTGCGATAGTCGAAATTCG
1 CGTTGCGATAGTCCAAGTTCG
* ** * *
262069 CATTGCGATTTTTCAAATT--
1 CGTTGCGATAGTCCAAGTTCG
262088 CGTTGCGATAGTCCAAGTTCG
1 CGTTGCGATAGTCCAAGTTCG
262109 CGTTGCGATAGTCCAAGTTCG
1 CGTTGCGATAGTCCAAGTTCG
262130 C
1 C
262131 AACGACTGGT
Statistics
Matches: 98, Mismatches: 21, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
19 30 0.31
21 68 0.69
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.33
Consensus pattern (21 bp):
CGTTGCGATAGTCCAAGTTCG
Found at i:262565 original size:19 final size:19
Alignment explanation
Indices: 262541--262577 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
262531 TTATTTTGGA
262541 TTTTTCACTATCGCAACAC
1 TTTTTCACTATCGCAACAC
262560 TTTTTCACTATCGCAACA
1 TTTTTCACTATCGCAACA
262578 ACACGTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.27, C:0.30, G:0.05, T:0.38
Consensus pattern (19 bp):
TTTTTCACTATCGCAACAC
Found at i:262623 original size:19 final size:20
Alignment explanation
Indices: 262599--262637 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
262589 AAACTCTCGT
262599 AACAC-ATTTT-AACAATCGC
1 AACACAATTTTCAA-AATCGC
262618 AACACAATTTTCAAAATCGC
1 AACACAATTTTCAAAATCGC
262638 GAAACTTACA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 5 0.28
20 11 0.61
21 2 0.11
ACGTcount: A:0.44, C:0.26, G:0.05, T:0.26
Consensus pattern (20 bp):
AACACAATTTTCAAAATCGC
Found at i:274369 original size:21 final size:21
Alignment explanation
Indices: 274344--274388 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
274334 CCCCGCCGCA
*
274344 TTTAGTATCTAAACTATCAAT
1 TTTAGTACCTAAACTATCAAT
* *
274365 TTTAGTACCTAAACTTTTAAT
1 TTTAGTACCTAAACTATCAAT
274386 TTT
1 TTT
274389 TTCAAAACTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.13, G:0.04, T:0.49
Consensus pattern (21 bp):
TTTAGTACCTAAACTATCAAT
Found at i:274940 original size:162 final size:164
Alignment explanation
Indices: 274675--274998 Score: 634
Period size: 162 Copynumber: 2.0 Consensus size: 164
274665 AATTTTAATT
274675 ATATGATGGGTTTTTAACTCGTTTATAGATTTTCTTTAAAAAAAATCTAATTCCATTTAAGTATA
1 ATATGATGGGTTTTTAACTCGTTTATAGATTTTCTTTAAAAAAAATCTAATTCCATTTAAGTATA
274740 ATTAATTACATGCAAACAAATTTCACAATGAATAAATAATAATAATGAATTGACATTTTCGTCGG
66 ATTAATTACATGCAAACAAATTTCACAATGAATAAATAATAATAATGAATTGACATTTTCGTCGG
274805 TAGCTTTGTTCTGCACGCCTAT-TCTTCGTAACC
131 TAGCTTTGTTCTGCACGCCTATGTCTTCGTAACC
274838 ATATGAT-GGTTTTTAACTCGTTTATAGATTTTCTTTAAAAAAAATCTAATTCCATTTAAGTATA
1 ATATGATGGGTTTTTAACTCGTTTATAGATTTTCTTTAAAAAAAATCTAATTCCATTTAAGTATA
274902 ATTAATTACATGCAAACAAATTTCACAATGAATAAATAATAATAATGAATTGACATTTTCGTCGG
66 ATTAATTACATGCAAACAAATTTCACAATGAATAAATAATAATAATGAATTGACATTTTCGTCGG
274967 TAGCTTTGTTCTGCACGCCTATGTCTTCGTAA
131 TAGCTTTGTTCTGCACGCCTATGTCTTCGTAA
274999 ACCAGTGAGC
Statistics
Matches: 160, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
162 144 0.90
163 16 0.10
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.39
Consensus pattern (164 bp):
ATATGATGGGTTTTTAACTCGTTTATAGATTTTCTTTAAAAAAAATCTAATTCCATTTAAGTATA
ATTAATTACATGCAAACAAATTTCACAATGAATAAATAATAATAATGAATTGACATTTTCGTCGG
TAGCTTTGTTCTGCACGCCTATGTCTTCGTAACC
Found at i:277739 original size:15 final size:15
Alignment explanation
Indices: 277721--277751 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
277711 ATGTACTTTT
277721 TATATATATATAATA
1 TATATATATATAATA
*
277736 TATATATATATGATA
1 TATATATATATAATA
277751 T
1 T
277752 TTTTCAGATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (15 bp):
TATATATATATAATA
Found at i:277751 original size:13 final size:13
Alignment explanation
Indices: 277721--277745 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
277711 ATGTACTTTT
277721 TATATATATATAA
1 TATATATATATAA
277734 TATATATATATA
1 TATATATATATA
277746 TGATATTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
TATATATATATAA
Found at i:281879 original size:2 final size:2
Alignment explanation
Indices: 281872--281902 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
281862 TACCAACCAA
281872 AT AT AT AT A- AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
281903 CCGTTTAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:286725 original size:63 final size:60
Alignment explanation
Indices: 286610--286726 Score: 155
Period size: 63 Copynumber: 1.9 Consensus size: 60
286600 TTAAAAGAAT
* * * *
286610 ATTTACTTGACTTGAGCATAGATGCTTAGCCAGCATGAATTTTTTAACTATCATAGTTTA
1 ATTTACTTGACTTGAGCAGAGATGCTTAACAAGCATGAATTTTTGAACTATCATAGTTTA
286670 ATTTACTTGACTTGAGCGTAGATGATGCTTAACAAGCATG-ATATTTTGAACTATCAT
1 ATTTACTTGACTTGAGC--AGA-GATGCTTAACAAGCATGAAT-TTTTGAACTATCAT
286727 GGATTTGCAG
Statistics
Matches: 49, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
60 17 0.35
62 4 0.08
63 28 0.57
ACGTcount: A:0.31, C:0.15, G:0.16, T:0.38
Consensus pattern (60 bp):
ATTTACTTGACTTGAGCAGAGATGCTTAACAAGCATGAATTTTTGAACTATCATAGTTTA
Found at i:296251 original size:2 final size:2
Alignment explanation
Indices: 296246--296281 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
296236 TGTGTCTGTC
296246 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
296282 AGAATAGTCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:301568 original size:19 final size:20
Alignment explanation
Indices: 301546--301583 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
301536 ATTCTAACAT
*
301546 TTTATTTTA-AGATAAAAAA
1 TTTATTTTATAAATAAAAAA
301565 TTTATTTTATAAATAAAAA
1 TTTATTTTATAAATAAAAA
301584 TTATTATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (20 bp):
TTTATTTTATAAATAAAAAA
Found at i:301593 original size:20 final size:20
Alignment explanation
Indices: 301546--301593 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
301536 ATTCTAACAT
301546 TTTATTT-TAAGATAAAAAA
1 TTTATTTATAAGATAAAAAA
*
301565 TTTATTTTATAA-ATAAAAAT
1 TTTA-TTTATAAGATAAAAAA
301585 TATTATTTA
1 T-TTATTTA
301594 ACATGTAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 4 0.16
20 15 0.60
21 6 0.24
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (20 bp):
TTTATTTATAAGATAAAAAA
Found at i:302965 original size:60 final size:61
Alignment explanation
Indices: 302839--302975 Score: 152
Period size: 60 Copynumber: 2.3 Consensus size: 61
302829 TAATCGAGTG
* * * *
302839 ATCATTTTGTAACTTTTAAATAGTCAAGTGACTCAACAAAACAACATGTTGTAATCAATAG
1 ATCATTTTGTAACTTTTAAATAGTCAAGTGACTCAACAAAACAACATCTTATAATCAAAAA
* * * * * * *
302900 ATCATTTTGTAACTTTT-AATAGTTAGGTTAGTCAATAAAATAATATCTTATAATCAAAAA
1 ATCATTTTGTAACTTTTAAATAGTCAAGTGACTCAACAAAACAACATCTTATAATCAAAAA
302960 ATCA-TTTGTATACTTT
1 ATCATTTTGTA-ACTTT
302976 ACCACAAAAT
Statistics
Matches: 64, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
59 6 0.09
60 41 0.64
61 17 0.27
ACGTcount: A:0.40, C:0.12, G:0.09, T:0.39
Consensus pattern (61 bp):
ATCATTTTGTAACTTTTAAATAGTCAAGTGACTCAACAAAACAACATCTTATAATCAAAAA
Found at i:304666 original size:8 final size:8
Alignment explanation
Indices: 304653--304678 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
304643 TCTGACCTTT
304653 AAAGCAGG
1 AAAGCAGG
304661 AAAGCAGG
1 AAAGCAGG
304669 AAAGCAGG
1 AAAGCAGG
304677 AA
1 AA
304679 TGGATCCAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.54, C:0.12, G:0.35, T:0.00
Consensus pattern (8 bp):
AAAGCAGG
Found at i:304756 original size:20 final size:20
Alignment explanation
Indices: 304731--304777 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
304721 TTTACATCCC
304731 TTATATTTTAAGTATTTTAT
1 TTATATTTTAAGTATTTTAT
304751 TTATATTTTAAGTATTTTAT
1 TTATATTTTAAGTATTTTAT
304771 TTA-ATTT
1 TTATATTT
304778 CACACCCTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 4 0.15
20 23 0.85
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (20 bp):
TTATATTTTAAGTATTTTAT
Found at i:309562 original size:18 final size:18
Alignment explanation
Indices: 309541--309602 Score: 72
Period size: 18 Copynumber: 3.3 Consensus size: 18
309531 ATATATTATT
309541 AATATAAAATATTGAGAA
1 AATATAAAATATTGAGAA
*
309559 AATATTTAAAATATATGA-ATT
1 AATA--TAAAATAT-TGAGA-A
309580 AATATAAAATATTGAGAA
1 AATATAAAATATTGAGAA
309598 AATAT
1 AATAT
309603 CTAAAATATA
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
18 12 0.32
19 9 0.24
20 9 0.24
21 7 0.19
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.34
Consensus pattern (18 bp):
AATATAAAATATTGAGAA
Found at i:309570 original size:20 final size:19
Alignment explanation
Indices: 309541--309611 Score: 76
Period size: 20 Copynumber: 3.7 Consensus size: 19
309531 ATATATTATT
309541 AATA-TAAAATATTGAGAA
1 AATATTAAAATATTGAGAA
*
309559 AATATTTAAAATATATGA-ATT
1 AATA-TTAAAATAT-TGAGA-A
309580 AATA-TAAAATATTGAGAA
1 AATATTAAAATATTGAGAA
309598 AATATCTAAAATAT
1 AATAT-TAAAATAT
309612 ATGAAATTTA
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
18 11 0.25
19 9 0.20
20 17 0.39
21 7 0.16
ACGTcount: A:0.58, C:0.01, G:0.07, T:0.34
Consensus pattern (19 bp):
AATATTAAAATATTGAGAA
Found at i:309585 original size:39 final size:39
Alignment explanation
Indices: 309528--309616 Score: 153
Period size: 39 Copynumber: 2.3 Consensus size: 39
309518 ATTTTGGGAG
* *
309528 AAAATATAT-TATTAATATAAAATATTGAGAAAATATTT
1 AAAATATATGAATTAATATAAAATATTGAGAAAATATCT
309566 AAAATATATGAATTAATATAAAATATTGAGAAAATATCT
1 AAAATATATGAATTAATATAAAATATTGAGAAAATATCT
309605 AAAATATATGAA
1 AAAATATATGAA
309617 ATTTAAAATT
Statistics
Matches: 48, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
38 9 0.19
39 39 0.81
ACGTcount: A:0.57, C:0.01, G:0.07, T:0.35
Consensus pattern (39 bp):
AAAATATATGAATTAATATAAAATATTGAGAAAATATCT
Found at i:309618 original size:18 final size:18
Alignment explanation
Indices: 309558--309618 Score: 52
Period size: 19 Copynumber: 3.2 Consensus size: 18
309548 AATATTGAGA
*
309558 AAATATTTAAAATATATG
1 AAATATATAAAATATATG
*
309576 AATTAATATAAAATAT-TGAG
1 AAAT-ATATAAAATATAT--G
*
309596 AAAATATCTAAAATATATG
1 -AAATATATAAAATATATG
309615 AAAT
1 AAAT
309619 TTAAAATTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
18 8 0.24
19 11 0.32
20 11 0.32
21 4 0.12
ACGTcount: A:0.57, C:0.02, G:0.07, T:0.34
Consensus pattern (18 bp):
AAATATATAAAATATATG
Found at i:313254 original size:19 final size:19
Alignment explanation
Indices: 313230--313266 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
313220 AATAATTTAG
313230 TAAAAAAAAATTATTGATT
1 TAAAAAAAAATTATTGATT
* *
313249 TAAAAAATATTTATTGAT
1 TAAAAAAAAATTATTGAT
313267 GTGACATCAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (19 bp):
TAAAAAAAAATTATTGATT
Found at i:315977 original size:3 final size:3
Alignment explanation
Indices: 315963--316009 Score: 53
Period size: 3 Copynumber: 15.3 Consensus size: 3
315953 TGGGTTACCA
315963 TGC TGC TG- TGC TGC TGC -GC TGC TGCC TGC TGCC TGC TGC TTGC TGC
1 TGC TGC TGC TGC TGC TGC TGC TGC TG-C TGC TG-C TGC TGC -TGC TGC
316009 T
1 T
316010 CTTTCAATTG
Statistics
Matches: 39, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
2 4 0.10
3 26 0.67
4 9 0.23
ACGTcount: A:0.00, C:0.34, G:0.32, T:0.34
Consensus pattern (3 bp):
TGC
Found at i:315993 original size:7 final size:7
Alignment explanation
Indices: 315973--316008 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
315963 TGCTGCTGTG
315973 CTGCTGC
1 CTGCTGC
315980 GCTGCTGC
1 -CTGCTGC
315988 CTGCTGC
1 CTGCTGC
315995 CTGCTGC
1 CTGCTGC
*
316002 TTGCTGC
1 CTGCTGC
316009 TCTTTCAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
7 20 0.74
8 7 0.26
ACGTcount: A:0.00, C:0.39, G:0.31, T:0.31
Consensus pattern (7 bp):
CTGCTGC
Found at i:332992 original size:23 final size:23
Alignment explanation
Indices: 332966--333011 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
332956 TTCATAATCG
332966 CAATTCAATTTTTTATAGAAATT
1 CAATTCAATTTTTTATAGAAATT
332989 CAATTCAATTTTTTATAGAAATT
1 CAATTCAATTTTTTATAGAAATT
333012 AACTAGTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.39, C:0.09, G:0.04, T:0.48
Consensus pattern (23 bp):
CAATTCAATTTTTTATAGAAATT
Found at i:333515 original size:23 final size:23
Alignment explanation
Indices: 333489--333547 Score: 100
Period size: 23 Copynumber: 2.6 Consensus size: 23
333479 AAATCATGCA
333489 ATAAAGGCATAGATAAATATGTC
1 ATAAAGGCATAGATAAATATGTC
* *
333512 ATAAAGACAGAGATAAATATGTC
1 ATAAAGGCATAGATAAATATGTC
333535 ATAAAGGCATAGA
1 ATAAAGGCATAGA
333548 ACATGTCACA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.51, C:0.08, G:0.19, T:0.22
Consensus pattern (23 bp):
ATAAAGGCATAGATAAATATGTC
Found at i:334947 original size:14 final size:14
Alignment explanation
Indices: 334928--334956 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
334918 CGTCGACGTG
334928 ATGAGTTTAAATAA
1 ATGAGTTTAAATAA
334942 ATGAGTTTAAATAA
1 ATGAGTTTAAATAA
334956 A
1 A
334957 GAAATATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.14, T:0.34
Consensus pattern (14 bp):
ATGAGTTTAAATAA
Found at i:335421 original size:8 final size:8
Alignment explanation
Indices: 335408--335447 Score: 53
Period size: 8 Copynumber: 4.6 Consensus size: 8
335398 GTTTTCTATC
335408 AATTTTGA
1 AATTTTGA
335416 AATTTTGA
1 AATTTTGA
335424 AATTTTTGAA
1 AA-TTTTG-A
335434 ATATTTTGA
1 A-ATTTTGA
335443 AATTT
1 AATTT
335448 GTCAATCAGG
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
8 14 0.48
9 7 0.24
10 7 0.24
11 1 0.03
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.53
Consensus pattern (8 bp):
AATTTTGA
Found at i:335432 original size:9 final size:9
Alignment explanation
Indices: 335410--335447 Score: 60
Period size: 9 Copynumber: 4.2 Consensus size: 9
335400 TTTCTATCAA
335410 TTTTGAAA-
1 TTTTGAAAT
335418 TTTTGAAAT
1 TTTTGAAAT
335427 TTTTGAAAT
1 TTTTGAAAT
335436 ATTTTGAAAT
1 -TTTTGAAAT
335446 TT
1 TT
335448 GTCAATCAGG
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
8 8 0.29
9 11 0.39
10 9 0.32
ACGTcount: A:0.34, C:0.00, G:0.11, T:0.55
Consensus pattern (9 bp):
TTTTGAAAT
Found at i:337800 original size:31 final size:32
Alignment explanation
Indices: 337728--337828 Score: 84
Period size: 29 Copynumber: 3.2 Consensus size: 32
337718 GCTTTAGGCA
* * * * *
337728 TTATATCATTTATATCATTAAGCTTTTAA-TT
1 TTATTTCAATTATAACATTAAACGTTTAATTT
337759 TTA--TCAATTATAACATTAAAC-TTTAATTT
1 TTATTTCAATTATAACATTAAACGTTTAATTT
* * *
337788 TTATTTCAATTATACCACTAAACCGTTAAATTGT
1 TTATTTCAATTATAACATTAAA-CGTTTAATT-T
337822 TTATTTC
1 TTATTTC
337829 GCACAATGTG
Statistics
Matches: 58, Mismatches: 6, Indels: 9
0.79 0.08 0.12
Matches are distributed among these distances:
28 5 0.09
29 20 0.34
31 18 0.31
32 1 0.02
33 6 0.10
34 8 0.14
ACGTcount: A:0.35, C:0.13, G:0.03, T:0.50
Consensus pattern (32 bp):
TTATTTCAATTATAACATTAAACGTTTAATTT
Found at i:346449 original size:189 final size:189
Alignment explanation
Indices: 346129--346506 Score: 715
Period size: 189 Copynumber: 2.0 Consensus size: 189
346119 CTTAACATGT
346129 CATTTTCCTAAAGCGTGGAGATTTAATCTTCCAAATATAATTAAAAATTACAATTTTTTTAATAT
1 CATTTTCCTAAAGCGTGGAGATTTAATCTTCCAAATATAATTAAAAATTACAATTTTTTTAATAT
346194 ACCCATGTCAGACATGTATCCTATCCTACACTCAAACCGAGTTTGGGTAAAAGAACAATAATGTA
66 ACCCATGTCAGACATGTATCCTATCCTACACTCAAACCGAGTTTGGGTAAAAGAACAATAATGTA
346259 ATCTAAAAT-CATACTTCTAAATTCCTTGTTATGAATGATACAGTAGCTTCTTTCACTAA
131 ATCT-AAATCCATACTTCTAAATTCCTTGTTATGAATGATACAGTAGCTTCTTTCACTAA
346318 CATTTTCCTAAAGCGTGGAGATTTAATCTTCCAAATATAATTAAAAAATTACAATTTTTTTAATA
1 CATTTTCCTAAAGCGTGGAGATTTAATCTTCCAAATATAATT-AAAAATTACAATTTTTTTAATA
*
346383 TACCCATGTCAGACATGTATCCTATCCTACACTCAACCCGAGTTTGGGT-AAAGAACAATAATGT
65 TACCCATGTCAGACATGTATCCTATCCTACACTCAAACCGAGTTTGGGTAAAAGAACAATAATGT
346447 AATCTAAATCCATACTTCTAAATTCCTTGTTATGAATGATACAGTAGCTTCTTTCACTAA
130 AATCTAAATCCATACTTCTAAATTCCTTGTTATGAATGATACAGTAGCTTCTTTCACTAA
346507 AGAAGTCACC
Statistics
Matches: 186, Mismatches: 1, Indels: 4
0.97 0.01 0.02
Matches are distributed among these distances:
188 4 0.02
189 112 0.60
190 70 0.38
ACGTcount: A:0.36, C:0.19, G:0.11, T:0.35
Consensus pattern (189 bp):
CATTTTCCTAAAGCGTGGAGATTTAATCTTCCAAATATAATTAAAAATTACAATTTTTTTAATAT
ACCCATGTCAGACATGTATCCTATCCTACACTCAAACCGAGTTTGGGTAAAAGAACAATAATGTA
ATCTAAATCCATACTTCTAAATTCCTTGTTATGAATGATACAGTAGCTTCTTTCACTAA
Found at i:349123 original size:7 final size:7
Alignment explanation
Indices: 349113--349137 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
349103 AAAGAAAAGT
349113 GAAGATG
1 GAAGATG
349120 GAAGATG
1 GAAGATG
349127 GAAGATG
1 GAAGATG
349134 GAAG
1 GAAG
349138 TAATAGCACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.44, T:0.12
Consensus pattern (7 bp):
GAAGATG
Found at i:351350 original size:21 final size:20
Alignment explanation
Indices: 351310--351346 Score: 67
Period size: 19 Copynumber: 1.9 Consensus size: 20
351300 ATTTATATAT
351310 TTTTTAAAATATAATTTTAA
1 TTTTTAAAATATAATTTTAA
351330 TTTTT-AAATATAATTTT
1 TTTTTAAAATATAATTTT
351347 TTAAATCACA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
TTTTTAAAATATAATTTTAA
Found at i:358190 original size:22 final size:21
Alignment explanation
Indices: 358155--358213 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 21
358145 TAATTTTTTA
358155 AATTTGTATT-TAAATTTAATT
1 AATTT-TATTATAAATTTAATT
* * *
358176 ATATTTTTTTATAAAATTCATT
1 A-ATTTTATTATAAATTTAATT
*
358198 AATTTTATTAAAAATT
1 AATTTTATTATAAATT
358214 AAACAAATTC
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
21 16 0.53
22 14 0.47
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (21 bp):
AATTTTATTATAAATTTAATT
Found at i:365135 original size:4 final size:4
Alignment explanation
Indices: 365128--365158 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
365118 CATACATACA
365128 TATG TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TAT
365159 AAGCTTCTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:365303 original size:8 final size:8
Alignment explanation
Indices: 365290--365320 Score: 62
Period size: 8 Copynumber: 3.9 Consensus size: 8
365280 TAGTAAATAT
365290 ATACATAC
1 ATACATAC
365298 ATACATAC
1 ATACATAC
365306 ATACATAC
1 ATACATAC
365314 ATACATA
1 ATACATA
365321 TGTATGTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.52, C:0.23, G:0.00, T:0.26
Consensus pattern (8 bp):
ATACATAC
Found at i:365307 original size:12 final size:12
Alignment explanation
Indices: 365290--365320 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
365280 TAGTAAATAT
365290 ATACATACATAC
1 ATACATACATAC
365302 ATACATACATAC
1 ATACATACATAC
365314 ATACATA
1 ATACATA
365321 TGTATGTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.52, C:0.23, G:0.00, T:0.26
Consensus pattern (12 bp):
ATACATACATAC
Found at i:372585 original size:18 final size:19
Alignment explanation
Indices: 372562--372599 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
372552 TCAAATATAT
372562 ATTTTTAAAAAAC-TCAAA
1 ATTTTTAAAAAACTTCAAA
*
372580 ATTTTTGAAAAACTTCAAA
1 ATTTTTAAAAAACTTCAAA
372599 A
1 A
372600 CAAATCTCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (19 bp):
ATTTTTAAAAAACTTCAAA
Found at i:385441 original size:6 final size:6
Alignment explanation
Indices: 385430--385738 Score: 532
Period size: 6 Copynumber: 51.3 Consensus size: 6
385420 GCATGCGTAC
385430 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
385478 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
385526 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
385574 ATACAT ATAC-- ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
385620 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
* * * * *
385668 ATGCAT ATACAT ATGCAT ATGCAT ATACAT ATGCAT GCATATGAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT --ATA-CAT ATACAT
385719 ATACAT ATACAT ATACAT AT
1 ATACAT ATACAT ATACAT AT
385739 GGGATCTTGA
Statistics
Matches: 290, Mismatches: 8, Indels: 10
0.94 0.03 0.03
Matches are distributed among these distances:
4 4 0.01
6 279 0.96
7 3 0.01
8 2 0.01
9 2 0.01
ACGTcount: A:0.48, C:0.17, G:0.02, T:0.33
Consensus pattern (6 bp):
ATACAT
Found at i:388546 original size:19 final size:19
Alignment explanation
Indices: 388522--388559 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
388512 CGTTGAGTTG
388522 AGTTTGTATATTATTAAAC
1 AGTTTGTATATTATTAAAC
*
388541 AGTTTGTGTATTATTAAAC
1 AGTTTGTATATTATTAAAC
388560 TTTATTCTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.34, C:0.05, G:0.13, T:0.47
Consensus pattern (19 bp):
AGTTTGTATATTATTAAAC
Found at i:389152 original size:25 final size:25
Alignment explanation
Indices: 389100--389150 Score: 79
Period size: 24 Copynumber: 2.1 Consensus size: 25
389090 TGATACTCAT
389100 AATTTTTAACAAATATAAATGTTAA
1 AATTTTTAACAAATATAAATGTTAA
389125 AATTTTGTAACAAA-A-AAATGTTAA
1 AATTTT-TAACAAATATAAATGTTAA
389149 AA
1 AA
389151 ATAGTTCACT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
24 11 0.44
25 7 0.28
26 7 0.28
ACGTcount: A:0.55, C:0.04, G:0.06, T:0.35
Consensus pattern (25 bp):
AATTTTTAACAAATATAAATGTTAA
Found at i:395582 original size:6 final size:6
Alignment explanation
Indices: 395576--395606 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
395566 CTCTCTCTAT
*
395576 ATATAT ATATAA ATATAA ATATAA ATATAA A
1 ATATAA ATATAA ATATAA ATATAA ATATAA A
395607 GATTGAACTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (6 bp):
ATATAA
Found at i:395798 original size:91 final size:93
Alignment explanation
Indices: 395652--395836 Score: 293
Period size: 91 Copynumber: 2.0 Consensus size: 93
395642 TAGTCCTCCG
* *
395652 ACTATATGATAATGTTTTATTGAGTCCTTTGAGTATTAAAAGTTATAAATAGTCCCCCAACTATA
1 ACTATATGATAATGTTTTATTGAGTCCATTGACTATTAAAAGTTATAAATAGTCCCCCAACTATA
* *
395717 TGGAGTTGCTTTGTTGAGTCCTTCGACT
66 GGGAATTGCTTTGTTGAGTCCTTCGACT
* *
395745 ACTATAT-ATAATGTTTTATTGAGT-CATTGACTATTAAAAGTTATAAATGGTCCCTCAACTATA
1 ACTATATGATAATGTTTTATTGAGTCCATTGACTATTAAAAGTTATAAATAGTCCCCCAACTATA
*
395808 GGGAATTGCTTTGTTGAGTCCTTCTACT
66 GGGAATTGCTTTGTTGAGTCCTTCGACT
395836 A
1 A
395837 TTAAAAATTA
Statistics
Matches: 85, Mismatches: 7, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
91 61 0.72
92 17 0.20
93 7 0.08
ACGTcount: A:0.29, C:0.15, G:0.16, T:0.40
Consensus pattern (93 bp):
ACTATATGATAATGTTTTATTGAGTCCATTGACTATTAAAAGTTATAAATAGTCCCCCAACTATA
GGGAATTGCTTTGTTGAGTCCTTCGACT
Found at i:396116 original size:35 final size:35
Alignment explanation
Indices: 396070--396139 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
396060 ATGAATAGTC
396070 TAGTGACAATTTTGTAACTTTTAATAGTTGATGGT
1 TAGTGACAATTTTGTAACTTTTAATAGTTGATGGT
396105 TAGTGACAATTTTGTAACTTTTAATAGTTGATGGT
1 TAGTGACAATTTTGTAACTTTTAATAGTTGATGGT
396140 GTAACGCCCT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.29, C:0.06, G:0.20, T:0.46
Consensus pattern (35 bp):
TAGTGACAATTTTGTAACTTTTAATAGTTGATGGT
Found at i:399077 original size:12 final size:14
Alignment explanation
Indices: 399050--399083 Score: 54
Period size: 12 Copynumber: 2.6 Consensus size: 14
399040 CGCATGCCGC
399050 AAATCAAAGCAAGA
1 AAATCAAAGCAAGA
399064 AAAT-AAAG-AAGA
1 AAATCAAAGCAAGA
399076 AAATCAAA
1 AAATCAAA
399084 TCCAAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 8 0.42
13 7 0.37
14 4 0.21
ACGTcount: A:0.71, C:0.09, G:0.12, T:0.09
Consensus pattern (14 bp):
AAATCAAAGCAAGA
Found at i:401997 original size:21 final size:21
Alignment explanation
Indices: 401968--402090 Score: 133
Period size: 21 Copynumber: 5.8 Consensus size: 21
401958 AGGGTGTCAA
*
401968 AGTGTATCCATGCACTCCTGC
1 AGTGCATCCATGCACTCCTGC
* *
401989 AGTGCATCCATGCACCCCTAC
1 AGTGCATCCATGCACTCCTGC
*
402010 AGTGCATCCATGCACCCCTGC
1 AGTGCATCCATGCACTCCTGC
*
402031 AGTGCATCCATGCACCTGCC-AC
1 AGTGCATCCATGCA-CT-CCTGC
* *
402053 TAGTGCATCGATGCAC-CATGC
1 -AGTGCATCCATGCACTCCTGC
*
402074 AGTACATCCATGCACTC
1 AGTGCATCCATGCACTC
402091 AATTTCTAAT
Statistics
Matches: 86, Mismatches: 11, Indels: 10
0.80 0.10 0.09
Matches are distributed among these distances:
20 14 0.16
21 54 0.63
22 3 0.03
23 15 0.17
ACGTcount: A:0.23, C:0.37, G:0.18, T:0.22
Consensus pattern (21 bp):
AGTGCATCCATGCACTCCTGC
Found at i:402032 original size:42 final size:43
Alignment explanation
Indices: 401968--402088 Score: 158
Period size: 42 Copynumber: 2.8 Consensus size: 43
401958 AGGGTGTCAA
* *
401968 AGTGTATCCATGCACTCCTGCAGTGCATCCATGCACC-CCTAC-
1 AGTGCATCCATGCACCCCTGCAGTGCATCCATGCACCGCC-ACT
402010 AGTGCATCCATGCACCCCTGCAGTGCATCCATGCACCTGCCACT
1 AGTGCATCCATGCACCCCTGCAGTGCATCCATGCACC-GCCACT
* * *
402054 AGTGCATCGATGCA-CCATGCAGTACATCCATGCAC
1 AGTGCATCCATGCACCCCTGCAGTGCATCCATGCAC
402089 TCAATTTCTA
Statistics
Matches: 71, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
42 35 0.49
43 21 0.30
44 15 0.21
ACGTcount: A:0.23, C:0.37, G:0.18, T:0.21
Consensus pattern (43 bp):
AGTGCATCCATGCACCCCTGCAGTGCATCCATGCACCGCCACT
Found at i:402291 original size:20 final size:22
Alignment explanation
Indices: 402253--402292 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
402243 TTTGAGTAGA
402253 AAAATCATCCCCAAACGGCTCC
1 AAAATCATCCCCAAACGGCTCC
402275 AAAAT-ATCCCC-AACGGCT
1 AAAATCATCCCCAAACGGCT
402293 ATATACAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
21 6 0.33
22 5 0.28
ACGTcount: A:0.38, C:0.38, G:0.10, T:0.15
Consensus pattern (22 bp):
AAAATCATCCCCAAACGGCTCC
Found at i:404072 original size:19 final size:20
Alignment explanation
Indices: 404048--404085 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
404038 TAAAGATAAT
404048 TTGATTTTG-AAATCAAAAG
1 TTGATTTTGAAAATCAAAAG
404067 TTGATTTTGAAAATCAAAA
1 TTGATTTTGAAAATCAAAA
404086 TAAATGATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.45, C:0.05, G:0.13, T:0.37
Consensus pattern (20 bp):
TTGATTTTGAAAATCAAAAG
Found at i:406754 original size:75 final size:75
Alignment explanation
Indices: 406674--406849 Score: 237
Period size: 75 Copynumber: 2.3 Consensus size: 75
406664 ACCCCCTGGG
* ** *
406674 GGGGGGAATCGGTTCCCTCCGAGCATACTGGAATTCTCGGAACAAAAATGTTTAGGGGGGAATCG
1 GGGGGGAATCGGTTCCCTCCGAGCATACTGGAAATCTCGGAACAAAAACATTCA-GGGGGAATCG
406739 GTTCCTCCTAT
65 GTTCCTCCTAT
* * * * *
406750 -GGGGGAATCGGTTCCCTCCGAGCATTCTTGAAATCTCGGAGCCAAACCATTCAGGGGGAATCGG
1 GGGGGGAATCGGTTCCCTCCGAGCATACTGGAAATCTCGGAACAAAAACATTCAGGGGGAATCGG
406814 TTCCTCCTAT
66 TTCCTCCTAT
*
406824 GGGGGGGAATCGGTTCCCTCTGAGCA
1 -GGGGGGAATCGGTTCCCTCCGAGCA
406850 ATCTGTAATT
Statistics
Matches: 88, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
74 21 0.24
75 44 0.50
76 23 0.26
ACGTcount: A:0.22, C:0.24, G:0.31, T:0.24
Consensus pattern (75 bp):
GGGGGGAATCGGTTCCCTCCGAGCATACTGGAAATCTCGGAACAAAAACATTCAGGGGGAATCGG
TTCCTCCTAT
Found at i:415390 original size:75 final size:76
Alignment explanation
Indices: 415308--415484 Score: 257
Period size: 75 Copynumber: 2.3 Consensus size: 76
415298 CCGTTGAACA
* * **
415308 GGGGGGAATCGGTACCCTCCGAGCATACTGGAATTCTCGGAACAAAAATGTTTAGGGGGGAATCG
1 GGGGGGAATCGGTTCCCTCCGAGCATACTGGAAATCTCGGAACAAAAACATTTAGGGGGGAATCG
415373 GTTCCTCCTAT
66 GTTCCTCCTAT
* * * *
415384 -GGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGAGCCAAACCATTTAGGGGGGAATCG
1 GGGGGGAATCGGTTCCCTCCGAGCATACTGGAAATCTCGGAACAAAAACATTTAGGGGGGAATCG
415448 GTTCCTCCTAT
66 GTTCCTCCTAT
*
415459 GGGGGGGAATCGGTTCCCTCTGAGCA
1 -GGGGGGAATCGGTTCCCTCCGAGCA
415485 ATCTGTAATT
Statistics
Matches: 90, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
75 67 0.74
77 23 0.26
ACGTcount: A:0.22, C:0.23, G:0.32, T:0.23
Consensus pattern (76 bp):
GGGGGGAATCGGTTCCCTCCGAGCATACTGGAAATCTCGGAACAAAAACATTTAGGGGGGAATCG
GTTCCTCCTAT
Found at i:425499 original size:112 final size:112
Alignment explanation
Indices: 425158--425622 Score: 732
Period size: 112 Copynumber: 4.1 Consensus size: 112
425148 TTGTCGGTTT
* * * *
425158 GTGTCGATACTTTATAAAAATATATTGATCTATAACAATATAACAGATAAAAAAATGACAAAACC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
*
425223 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
66 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCAGATATATTGAAA
*
425270 GTGTTGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAAAATGACAAAA
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGT--AAAAAAATGACAAAA
*
425335 CCGGTCTATAAATGACAAAACATGTAAAGCGCTACCAGATATATTGAAA
64 CCGGTCTATAAATGACAAAACAGGTAAAGCGCTACCAGATATATTGAAA
* *
425384 GTGTCGATACTTTATAAAAATGTATTGATCCATAACAATATAACAGGTAAAAAAATGACAAACCC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
*
425449 GGTCTATAAATGACAAAACAGGTAAAGCGCTACTAGATATATTGAAA
66 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCAGATATATTGAAA
* * * *
425496 GTGTCGATATTTTATAAAAATGTATCGATCCATAATAATATAACAGGTAAACAAATGATAAAACC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
* * * * *
425561 GGTCTATAAATGACAAAACAAGTATAGCGCTACCGGATATGTTGATA
66 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCAGATATATTGAAA
*
425608 GTGTTGATACTTTAT
1 GTGTCGATACTTTAT
425623 TATAAATATT
Statistics
Matches: 325, Mismatches: 26, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
112 217 0.67
114 108 0.33
ACGTcount: A:0.45, C:0.14, G:0.15, T:0.26
Consensus pattern (112 bp):
GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
GGTCTATAAATGACAAAACAGGTAAAGCGCTACCAGATATATTGAAA
Found at i:425800 original size:181 final size:182
Alignment explanation
Indices: 425493--425947 Score: 655
Period size: 181 Copynumber: 2.5 Consensus size: 182
425483 AGATATATTG
* *
425493 AAAGTGTCGATATTTTATAAAAATGTATCGATCCATAATAATATAACAGGTAAACAA-ATGATAA
1 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAATAATATAACAGGTAAA-AATATGACAA
** ** * * *
425557 AACCGGTCTATAAATGACAAAACAAGTATAGCGCTACCGGATATGTTGATAGTGTTGATACTTTA
65 AACCGGTCTCGAAATGACAAAACCGGTATAACGCTACCGGATATGTTGAAAGTGTCGATACTTTA
* * * ** *
425622 TTATAAATATTGACACTTTT-GAATTTAAAAGAGAATAAGTTATAGTGCTAAT
130 TTATAAATATCGACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGCACAAAT
*
425674 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAA
1 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAATAATATAACAGGTAAAAATATGACAAA
* *
425739 ACCGATCTCGAAATGACAAAACCGGTA-AACAGCTACCGGATTTGTTGAAAGTGTCGATACTTTA
66 ACCGGTCTCGAAATGACAAAACCGGTATAAC-GCTACCGGATATGTTGAAAGTGTCGATACTTTA
*
425803 TTATAAGTATCGACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGCACAAAT
130 TTATAAATATCGACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGCACAAAT
* * * *
425856 AAAGTGTCGTTACTTTATAAAAATGTATCGATTCATAATAATATAATAGGTAAAAATATGTCAAA
1 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAATAATATAACAGGTAAAAATATGACAAA
*
425921 ATCGGTCTCGAAATGACAAAACCGGTA
66 ACCGGTCTCGAAATGACAAAACCGGTA
425948 GTAAAAAAGT
Statistics
Matches: 245, Mismatches: 26, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
180 4 0.02
181 129 0.53
182 112 0.46
ACGTcount: A:0.43, C:0.12, G:0.16, T:0.29
Consensus pattern (182 bp):
AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAATAATATAACAGGTAAAAATATGACAAA
ACCGGTCTCGAAATGACAAAACCGGTATAACGCTACCGGATATGTTGAAAGTGTCGATACTTTAT
TATAAATATCGACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGCACAAAT
Found at i:428276 original size:20 final size:19
Alignment explanation
Indices: 428251--428295 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 19
428241 GCTGCTGGAA
428251 ACCGGTTCTG-ACCGGTTTCG
1 ACCGGTTC-GAACCGGTTT-G
428271 ACCGGTTCGAACCGGTTTG
1 ACCGGTTCGAACCGGTTTG
428290 ACCGGT
1 ACCGGT
428296 CTAACCCGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 8 0.33
20 16 0.67
ACGTcount: A:0.13, C:0.29, G:0.31, T:0.27
Consensus pattern (19 bp):
ACCGGTTCGAACCGGTTTG
Found at i:428293 original size:9 final size:9
Alignment explanation
Indices: 428251--428295 Score: 54
Period size: 10 Copynumber: 4.7 Consensus size: 9
428241 GCTGCTGGAA
428251 ACCGGTTCTG
1 ACCGGTT-TG
428261 ACCGGTTTCG
1 ACCGGTTT-G
*
428271 ACCGGTTCG
1 ACCGGTTTG
428280 AACCGGTTTG
1 -ACCGGTTTG
428290 ACCGGT
1 ACCGGT
428296 CTAACCCGAC
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
9 8 0.26
10 23 0.74
ACGTcount: A:0.13, C:0.29, G:0.31, T:0.27
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:430664 original size:16 final size:16
Alignment explanation
Indices: 430643--430675 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
430633 TTTAATAAAT
430643 AAACGAACATAAACGA
1 AAACGAACATAAACGA
430659 AAACGAACATAAACGA
1 AAACGAACATAAACGA
430675 A
1 A
430676 CAAATTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.64, C:0.18, G:0.12, T:0.06
Consensus pattern (16 bp):
AAACGAACATAAACGA
Found at i:430788 original size:23 final size:23
Alignment explanation
Indices: 430741--430834 Score: 81
Period size: 23 Copynumber: 4.2 Consensus size: 23
430731 CATTTAAATA
*
430741 ATAAACGAACACGAACGAACGAAC
1 ATAAACGAACAC-AACAAACGAAC
430765 ATAAACGAACACAACAAACGAAC
1 ATAAACGAACACAACAAACGAAC
*
430788 A-ACAA--AA-AC-ACAAAAGAAC
1 ATA-AACGAACACAACAAACGAAC
* ** *
430807 TTATTCGAACACAACAAACGAAT
1 ATAAACGAACACAACAAACGAAC
430830 ATAAA
1 ATAAA
430835 AAAAAGTAAA
Statistics
Matches: 54, Mismatches: 10, Indels: 13
0.70 0.13 0.17
Matches are distributed among these distances:
19 9 0.17
20 3 0.06
21 4 0.07
22 3 0.06
23 23 0.43
24 12 0.22
ACGTcount: A:0.60, C:0.22, G:0.10, T:0.09
Consensus pattern (23 bp):
ATAAACGAACACAACAAACGAAC
Found at i:430796 original size:13 final size:13
Alignment explanation
Indices: 430754--430796 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
430744 AACGAACACG
*
430754 AACGAACGAACATA
1 AACGAAC-AACAAA
430768 AACGAAC-ACAACA
1 AACGAACAACAA-A
430781 AACGAACAACAAA
1 AACGAACAACAAA
430794 AAC
1 AAC
430797 ACAAAAGAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
12 3 0.12
13 12 0.46
14 11 0.42
ACGTcount: A:0.63, C:0.26, G:0.09, T:0.02
Consensus pattern (13 bp):
AACGAACAACAAA
Found at i:439124 original size:31 final size:30
Alignment explanation
Indices: 439070--439132 Score: 72
Period size: 31 Copynumber: 2.1 Consensus size: 30
439060 AAATTTTGAA
* * * *
439070 AAAATTGAAAGTTTAGGTTCTAAAACGGATC
1 AAAACTGAAAGTTTAAGTACT-AAACGCATC
*
439101 AAAACTGATAGTTTAAGTACTAAACGCATC
1 AAAACTGAAAGTTTAAGTACTAAACGCATC
439131 AA
1 AA
439133 GTTTTTAACG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
30 10 0.37
31 17 0.63
ACGTcount: A:0.44, C:0.13, G:0.16, T:0.27
Consensus pattern (30 bp):
AAAACTGAAAGTTTAAGTACTAAACGCATC
Found at i:445083 original size:19 final size:19
Alignment explanation
Indices: 445042--445083 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
445032 GAAAATTCAT
*
445042 AAAATGTCATTATTATCAT
1 AAAATGTCATTATTATCAC
*
445061 AAAAT-TCATTAGTTCTCAC
1 AAAATGTCATTA-TTATCAC
445080 AAAA
1 AAAA
445084 AATTATAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.45, C:0.14, G:0.05, T:0.36
Consensus pattern (19 bp):
AAAATGTCATTATTATCAC
Found at i:446861 original size:2 final size:2
Alignment explanation
Indices: 446854--446893 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
446844 GTTGACGAAT
446854 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
446894 CCCCCCCCCC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:447583 original size:15 final size:15
Alignment explanation
Indices: 447563--447623 Score: 58
Period size: 15 Copynumber: 4.2 Consensus size: 15
447553 TTATAATCAA
447563 AATAATATATTTTAT
1 AATAATATATTTTAT
447578 AATAATATA--TTAT
1 AATAATATATTTTAT
* *
447591 AAT-TTAAACTTTTA-
1 AATAATATA-TTTTAT
447605 AACTAATATATTTTAT
1 AA-TAATATATTTTAT
447621 AAT
1 AAT
447624 TATTTTTATA
Statistics
Matches: 36, Mismatches: 4, Indels: 12
0.69 0.08 0.23
Matches are distributed among these distances:
12 3 0.08
13 7 0.19
14 2 0.06
15 19 0.53
16 5 0.14
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.49
Consensus pattern (15 bp):
AATAATATATTTTAT
Found at i:447591 original size:20 final size:21
Alignment explanation
Indices: 447551--447596 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
447541 GCAGAAGATT
447551 ATTTATAATCAAAATAATATA
1 ATTTATAATCAAAATAATATA
* * *
447572 TTTTATAAT-AATATATTATA
1 ATTTATAATCAAAATAATATA
447592 ATTTA
1 ATTTA
447597 AACTTTTAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (21 bp):
ATTTATAATCAAAATAATATA
Found at i:447613 original size:43 final size:42
Alignment explanation
Indices: 447565--447665 Score: 125
Period size: 42 Copynumber: 2.4 Consensus size: 42
447555 ATAATCAAAA
447565 TAATATATTTTATAATAATATATTATAATTTAAACT-TTTAAAC
1 TAATATATTTTATAATAAT-TATTATAATTTAAA-TATTTAAAC
* * * *
447608 TAATATATTTTATAATTATTTTTATATTTTTAATATTTAAAC
1 TAATATATTTTATAATAATTATTATAATTTAAATATTTAAAC
*
447650 -AATATATTTAATAATA
1 TAATATATTTTATAATA
447666 TAAAAATATT
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
41 15 0.29
42 18 0.35
43 18 0.35
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (42 bp):
TAATATATTTTATAATAATTATTATAATTTAAATATTTAAAC
Found at i:447654 original size:20 final size:20
Alignment explanation
Indices: 447631--447675 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
447621 AATTATTTTT
*
447631 ATATTTTTAAT-ATTTAAACA
1 ATATTTTTAATAATATAAA-A
*
447651 ATATATTTAATAATATAAAA
1 ATATTTTTAATAATATAAAA
447671 ATATT
1 ATATT
447676 AAATATAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
20 15 0.71
21 6 0.29
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (20 bp):
ATATTTTTAATAATATAAAA
Found at i:447690 original size:2 final size:2
Alignment explanation
Indices: 447678--447716 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
447668 AAAATATTAA
447678 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
447717 GAGTAAAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:453581 original size:8 final size:8
Alignment explanation
Indices: 453568--453608 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
453558 CTCATTTTCA
453568 GAGAATTT
1 GAGAATTT
453576 GAGAATTT
1 GAGAATTT
*
453584 -AGAGTTT
1 GAGAATTT
*
453591 GGGAATTT
1 GAGAATTT
453599 GAGAATTT
1 GAGAATTT
453607 GA
1 GA
453609 AAGATTGTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.34, C:0.00, G:0.29, T:0.37
Consensus pattern (8 bp):
GAGAATTT
Found at i:454316 original size:258 final size:252
Alignment explanation
Indices: 453677--454539 Score: 1622
Period size: 258 Copynumber: 3.4 Consensus size: 252
453667 CTATAATCGG
453677 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
1 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
453742 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCA
66 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCA
453807 CTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTATCAT
131 CTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTATCAT
453872 TGCCCTATTATGTCATTCATGTCCCTC-GGGACACTAGATATATCAGTACCTATTAT
196 TGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
453928 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
1 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
453993 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCA
66 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCA
*
454058 CTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTTATTTCGTCAGAGAATAT
131 CTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCC---A---TTATTTCGTCAGAGAATAT
454123 TATCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
190 TATCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
454186 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
1 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
454251 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCA
66 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCA
454316 CTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTATCAT
131 CTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTATCAT
*
454381 TGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
196 TGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
454438 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGC-CCTTCCATTATTTCGTCAGAGAATATGT
1 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATA--T
454502 TATCATTGCCCTATTATGTCACTCATGTCCCTCGGGGA
64 TATCATTGCCCTATTATGTCACTCATGTCCCTCGGGGA
454540 ATAACTTAAA
Statistics
Matches: 600, Mismatches: 3, Indels: 16
0.97 0.00 0.03
Matches are distributed among these distances:
251 193 0.32
252 117 0.19
253 39 0.06
254 1 0.00
255 1 0.00
257 52 0.09
258 197 0.33
ACGTcount: A:0.22, C:0.26, G:0.19, T:0.32
Consensus pattern (252 bp):
TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCA
CTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTATCAT
TGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
Found at i:454320 original size:126 final size:126
Alignment explanation
Indices: 453677--454539 Score: 1613
Period size: 126 Copynumber: 6.8 Consensus size: 126
453667 CTATAATCGG
453677 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
1 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
453742 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
66 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
453803 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
1 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
*
453868 TCATTGCCCTATTATGTCATTCATGTCCCTC-GGGACACTAGATATATCAGTACCTATTAT
66 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
453928 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
1 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
453993 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
66 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
*
454054 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTTATTTCGTCAGAGA
1 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCC---A---TTATTTCGTCAGAGA
*
454119 ATATTATCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATT
60 ATATTATCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATT
454184 AT
125 AT
454186 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
1 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
454251 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
66 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
454312 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
1 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
454377 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
66 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
454438 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGC-CCTTCCATTATTTCGTCAGAGAATATGT
1 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATA--T
454502 TATCATTGCCCTATTATGTCACTCATGTCCCTCGGGGA
64 TATCATTGCCCTATTATGTCACTCATGTCCCTCGGGGA
454540 ATAACTTAAA
Statistics
Matches: 722, Mismatches: 6, Indels: 17
0.97 0.01 0.02
Matches are distributed among these distances:
125 149 0.21
126 409 0.57
127 39 0.05
129 2 0.00
132 123 0.17
ACGTcount: A:0.22, C:0.26, G:0.19, T:0.32
Consensus pattern (126 bp):
TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
Found at i:455008 original size:34 final size:34
Alignment explanation
Indices: 454926--455027 Score: 134
Period size: 34 Copynumber: 3.0 Consensus size: 34
454916 AAATTTAATG
*
454926 TTAAATTTCGAATACTATAATTTATATATTTTAAAT
1 TTAAATTTCGAATAATATAATTT-T-TATTTTAAAT
* * *
454962 TTAAATTT-GAATAATATTATTTTTATTTTTATT
1 TTAAATTTCGAATAATATAATTTTTATTTTAAAT
*
454995 TTAAATTTCGAATAATATAATTTGTATTTTAAA
1 TTAAATTTCGAATAATATAATTTTTATTTTAAA
455028 AACATTTATC
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
33 16 0.28
34 21 0.37
35 12 0.21
36 8 0.14
ACGTcount: A:0.39, C:0.03, G:0.04, T:0.54
Consensus pattern (34 bp):
TTAAATTTCGAATAATATAATTTTTATTTTAAAT
Found at i:455614 original size:21 final size:21
Alignment explanation
Indices: 455548--455635 Score: 115
Period size: 21 Copynumber: 4.2 Consensus size: 21
455538 TATGGTATAA
* *
455548 AACCTTGCGGGCTAGGCATGT
1 AACCTGGCGGGCTAGGAATGT
* *
455569 AACATGGCGGGCTAGGCATGT
1 AACCTGGCGGGCTAGGAATGT
455590 AACCTGGCGGGCTAGGAATGT
1 AACCTGGCGGGCTAGGAATGT
*
455611 AACCCT-GCGGGCTCGGAATGT
1 AA-CCTGGCGGGCTAGGAATGT
455632 AACC
1 AACC
455636 CTGCGGAGAT
Statistics
Matches: 61, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
20 2 0.03
21 56 0.92
22 3 0.05
ACGTcount: A:0.23, C:0.24, G:0.34, T:0.19
Consensus pattern (21 bp):
AACCTGGCGGGCTAGGAATGT
Found at i:455671 original size:21 final size:21
Alignment explanation
Indices: 455645--455692 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
455635 CCTGCGGAGA
*
455645 TGGCATATAAACTGGTGGGCT
1 TGGCATATAAACTGGAGGGCT
* *
455666 TGGCATATGAAGTGGAGGGCT
1 TGGCATATAAACTGGAGGGCT
*
455687 GGGCAT
1 TGGCAT
455693 GTACCCCTGC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.23, C:0.12, G:0.40, T:0.25
Consensus pattern (21 bp):
TGGCATATAAACTGGAGGGCT
Found at i:477285 original size:16 final size:16
Alignment explanation
Indices: 477241--477275 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
477231 TAATTGATCA
477241 TTTGATTAAGATGAAC
1 TTTGATTAAGATGAAC
477257 TTTGATTAAGATGAAC
1 TTTGATTAAGATGAAC
477273 TTT
1 TTT
477276 AGTTCAGATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.34, C:0.06, G:0.17, T:0.43
Consensus pattern (16 bp):
TTTGATTAAGATGAAC
Found at i:481523 original size:18 final size:18
Alignment explanation
Indices: 481500--481535 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
481490 ACTTTGGTGG
481500 CGAGGAATTGTTCATGAA
1 CGAGGAATTGTTCATGAA
481518 CGAGGAATTGTTCATGAA
1 CGAGGAATTGTTCATGAA
481536 TTTGATTACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.11, G:0.28, T:0.28
Consensus pattern (18 bp):
CGAGGAATTGTTCATGAA
Found at i:481786 original size:22 final size:22
Alignment explanation
Indices: 481759--481802 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
481749 CCCAGACCGG
*
481759 ATTTTTTTCCGGATAAAAAATCA
1 ATTTTTATCCGG-TAAAAAATCA
*
481782 ATTTTTATCTGGTAAAAAATC
1 ATTTTTATCCGGTAAAAAATC
481803 CGATCGTCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.39, C:0.11, G:0.09, T:0.41
Consensus pattern (22 bp):
ATTTTTATCCGGTAAAAAATCA
Found at i:483962 original size:177 final size:177
Alignment explanation
Indices: 483666--484196 Score: 983
Period size: 177 Copynumber: 3.0 Consensus size: 177
483656 GTATGAGGGG
*
483666 GAACATCGTAGTTGAGCTTTACTAAATCTCACAATGTTGAGTGTATCTTGGATGCATAAATATAA
1 GAACATCGTAGTTGAGATTTACTAAATCTCACAATGTTGAGTGTATCTTGGATGCATAAATATAA
483731 CAAGGGTTGCTCTAACTATTGCTCATTGGCTTTAGGTTGGATGCTCATCTTAAAACTTAACAAAT
66 CAAGGGTTGCTCTAACTATTGCTCATTGGCTTTAGGTTGGATGCTCATCTTAAAACTTAACAAAT
483796 ATAACACACATAACTTACATGAGTGTATTATTCTCTGCTTATCACCC
131 ATAACACACATAACTTACATGAGTGTATTATTCTCTGCTTATCACCC
*
483843 GAACATCGTAGTTGAGATTTACTAAATCTCACAATGTTTAGTGTATCTTGGATGCATAAATATAA
1 GAACATCGTAGTTGAGATTTACTAAATCTCACAATGTTGAGTGTATCTTGGATGCATAAATATAA
* *
483908 CAATGGTTGCTCTAACTATTACTCATTGGCTTTAGGTTGGATGCTCATCTTAAAACTTAACAAAT
66 CAAGGGTTGCTCTAACTATTGCTCATTGGCTTTAGGTTGGATGCTCATCTTAAAACTTAACAAAT
*
483973 ATAACACACATAACTTACATGAGTGTATTATTCTCTGCTTATCACCA
131 ATAACACACATAACTTACATGAGTGTATTATTCTCTGCTTATCACCC
484020 GAACATCGTAGTTGAGATTTACTAAATCTCACAATGTTGAGTGTATCTTGGATGCATAAATATAA
1 GAACATCGTAGTTGAGATTTACTAAATCTCACAATGTTGAGTGTATCTTGGATGCATAAATATAA
* *
484085 CAAGGGTTGCTCTAACTATTGCTCATTGACTTTAGGTTGGATGCTCAT-TGTAAAACTAAACAAA
66 CAAGGGTTGCTCTAACTATTGCTCATTGGCTTTAGGTTGGATGCTCATCT-TAAAACTTAACAAA
484149 TATAACACACATAACTTACATGAGTGTATTATTCTCTGCTTATCACCC
130 TATAACACACATAACTTACATGAGTGTATTATTCTCTGCTTATCACCC
484197 CTCATTTCGA
Statistics
Matches: 342, Mismatches: 11, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
176 1 0.00
177 341 1.00
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.35
Consensus pattern (177 bp):
GAACATCGTAGTTGAGATTTACTAAATCTCACAATGTTGAGTGTATCTTGGATGCATAAATATAA
CAAGGGTTGCTCTAACTATTGCTCATTGGCTTTAGGTTGGATGCTCATCTTAAAACTTAACAAAT
ATAACACACATAACTTACATGAGTGTATTATTCTCTGCTTATCACCC
Found at i:487204 original size:174 final size:176
Alignment explanation
Indices: 486891--487242 Score: 665
Period size: 174 Copynumber: 2.0 Consensus size: 176
486881 CTAATAAGTC
486891 TAATTTATTTTTACTCCAAACTTCATATTTTTAATTGGGGATTTAAGAAATGGATGAGTTGAGAT
1 TAATTTATTTTTACTCCAAACTTCATATTTTTAATTGGGGATTTAAGAAATGGATGAGTTGAGAT
486956 TGATACCATAAAGGTCTTAATGGAGGGTTAAAATTTTTTGTAAATGGAAATTCAAAGCAAGCATG
66 TGATACCATAAAGGTCTTAATGGAGGGTTAAAATTTTTTGTAAATGGAAATTCAAAGCAAGCATG
487021 GCATTAA-TGTGCAATACTTTAATTGCATTAATCAAAG-TTTTGTA
131 GCATTAAGTGTGCAATACTTTAATTGCATTAATCAAAGTTTTTGTA
487065 TAATTTATTTTTACTCCAAACTTCATATTTTTAATTGGGGATTTAAGAAATGGATGAGTTGAGAT
1 TAATTTATTTTTACTCCAAACTTCATATTTTTAATTGGGGATTTAAGAAATGGATGAGTTGAGAT
487130 TGATACCATAAAGGTCTTAATGGAGGGTTAAAA-TTTTTGTAAATGGAAATTCAAAGCAAGCATG
66 TGATACCATAAAGGTCTTAATGGAGGGTTAAAATTTTTTGTAAATGGAAATTCAAAGCAAGCATG
487194 GCATTTAATGTGTGCAATACTTTAATTGCATTAATCAAAGTTTTTGTA
131 GCA-TTAA-GTGTGCAATACTTTAATTGCATTAATCAAAGTTTTTGTA
487242 T
1 T
487243 GGCATTGTTT
Statistics
Matches: 174, Mismatches: 0, Indels: 5
0.97 0.00 0.03
Matches are distributed among these distances:
173 34 0.20
174 102 0.59
176 30 0.17
177 8 0.05
ACGTcount: A:0.35, C:0.09, G:0.18, T:0.38
Consensus pattern (176 bp):
TAATTTATTTTTACTCCAAACTTCATATTTTTAATTGGGGATTTAAGAAATGGATGAGTTGAGAT
TGATACCATAAAGGTCTTAATGGAGGGTTAAAATTTTTTGTAAATGGAAATTCAAAGCAAGCATG
GCATTAAGTGTGCAATACTTTAATTGCATTAATCAAAGTTTTTGTA
Found at i:488384 original size:4 final size:4
Alignment explanation
Indices: 488375--488440 Score: 80
Period size: 4 Copynumber: 16.5 Consensus size: 4
488365 AAAATTTATT
* * * *
488375 CATA CATA CATA CATA CATG CATA CATT CATA CAAA CATA CATA CATT
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
488423 CAGT- CATA CATA CATA CA
1 CA-TA CATA CATA CATA CA
488441 CACACACAAT
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
3 1 0.02
4 51 0.96
5 1 0.02
ACGTcount: A:0.45, C:0.26, G:0.03, T:0.26
Consensus pattern (4 bp):
CATA
Found at i:488400 original size:20 final size:20
Alignment explanation
Indices: 488375--488440 Score: 89
Period size: 20 Copynumber: 3.3 Consensus size: 20
488365 AAAATTTATT
* *
488375 CATACATACATACATACATG
1 CATACATTCATACATACATA
*
488395 CATACATTCATACAAACATA
1 CATACATTCATACATACATA
488415 CATACATTCAGT-CATACATA
1 CATACATTCA-TACATACATA
488435 CATACA
1 CATACA
488441 CACACACAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
20 40 0.98
21 1 0.02
ACGTcount: A:0.45, C:0.26, G:0.03, T:0.26
Consensus pattern (20 bp):
CATACATTCATACATACATA
Found at i:494795 original size:47 final size:48
Alignment explanation
Indices: 494720--494817 Score: 153
Period size: 47 Copynumber: 2.1 Consensus size: 48
494710 TTGTTGATTA
* *
494720 AATTCATTAAATTAAATATATATAATCAAACTTATAAAATGTATAAGT
1 AATTCATTAAATTAAACATATATAATCAAACTGATAAAATGTATAAGT
* *
494768 AATT-ATTAAATTAAACATATATGATCAAACTGATAAAATGTGTAAGT
1 AATTCATTAAATTAAACATATATAATCAAACTGATAAAATGTATAAGT
494815 AAT
1 AAT
494818 GAAGATTAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
47 42 0.91
48 4 0.09
ACGTcount: A:0.51, C:0.06, G:0.07, T:0.36
Consensus pattern (48 bp):
AATTCATTAAATTAAACATATATAATCAAACTGATAAAATGTATAAGT
Found at i:495940 original size:205 final size:205
Alignment explanation
Indices: 495588--495998 Score: 822
Period size: 205 Copynumber: 2.0 Consensus size: 205
495578 ACTTATTAAT
495588 AATAATAATAATAATAATATACTTTTACATTCAAGAATGGAGTTGAGATTGAACATCAGAATGAA
1 AATAATAATAATAATAATATACTTTTACATTCAAGAATGGAGTTGAGATTGAACATCAGAATGAA
495653 CCAATCAGCTTTACTTTTAGCGGTTAAAAGGAATTGTTGTTTTTTTCTAGAGATTCTTGATTCGA
66 CCAATCAGCTTTACTTTTAGCGGTTAAAAGGAATTGTTGTTTTTTTCTAGAGATTCTTGATTCGA
495718 ATAGATGTGTCTATAGGGTGTATGTTGTCGAATATTAATAAGGATTCTGAATATATATTATTTTT
131 ATAGATGTGTCTATAGGGTGTATGTTGTCGAATATTAATAAGGATTCTGAATATATATTATTTTT
495783 TAATCATTCC
196 TAATCATTCC
495793 AATAATAATAATAATAATATACTTTTACATTCAAGAATGGAGTTGAGATTGAACATCAGAATGAA
1 AATAATAATAATAATAATATACTTTTACATTCAAGAATGGAGTTGAGATTGAACATCAGAATGAA
495858 CCAATCAGCTTTACTTTTAGCGGTTAAAAGGAATTGTTGTTTTTTTCTAGAGATTCTTGATTCGA
66 CCAATCAGCTTTACTTTTAGCGGTTAAAAGGAATTGTTGTTTTTTTCTAGAGATTCTTGATTCGA
495923 ATAGATGTGTCTATAGGGTGTATGTTGTCGAATATTAATAAGGATTCTGAATATATATTATTTTT
131 ATAGATGTGTCTATAGGGTGTATGTTGTCGAATATTAATAAGGATTCTGAATATATATTATTTTT
495988 TAATCATTCC
196 TAATCATTCC
495998 A
1 A
495999 GACTATTAAA
Statistics
Matches: 206, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
205 206 1.00
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.39
Consensus pattern (205 bp):
AATAATAATAATAATAATATACTTTTACATTCAAGAATGGAGTTGAGATTGAACATCAGAATGAA
CCAATCAGCTTTACTTTTAGCGGTTAAAAGGAATTGTTGTTTTTTTCTAGAGATTCTTGATTCGA
ATAGATGTGTCTATAGGGTGTATGTTGTCGAATATTAATAAGGATTCTGAATATATATTATTTTT
TAATCATTCC
Found at i:496631 original size:19 final size:19
Alignment explanation
Indices: 496570--496631 Score: 60
Period size: 19 Copynumber: 3.4 Consensus size: 19
496560 TATTAGGTAC
*
496570 TTAA-TCTTTTATAACTAG
1 TTAATTCTTTTATGACTAG
* *
496588 TTAAGTCTTCT-TGA-T-G
1 TTAATTCTTTTATGACTAG
496604 TTCAATTCTTTTATGACTAG
1 TT-AATTCTTTTATGACTAG
496624 TTAATTCT
1 TTAATTCT
496632 GAGTCTGTCC
Statistics
Matches: 35, Mismatches: 4, Indels: 9
0.73 0.08 0.19
Matches are distributed among these distances:
16 3 0.09
17 8 0.23
18 9 0.26
19 12 0.34
20 3 0.09
ACGTcount: A:0.26, C:0.13, G:0.10, T:0.52
Consensus pattern (19 bp):
TTAATTCTTTTATGACTAG
Found at i:500413 original size:106 final size:105
Alignment explanation
Indices: 500225--500435 Score: 332
Period size: 106 Copynumber: 2.0 Consensus size: 105
500215 GTTAATCTCT
* * * * *
500225 AAAATTAATTTGGAATCCACGACATTCGTTACATGATTTAGAATTCGTCACATGGGCATAACGAT
1 AAAATTAATTTGGAATCCACGACATTCGTTACATGACTTAAAACTCGTCACATGGGCAAAACGAG
* * *
500290 TTTTAATACAATATATATTTTTATTGAAATTTTTCATCCC
66 TTCTAATAAAATATATATTTTTATTGAAATTTGTCATCCC
*
500330 AAAATTAATTTGGGATCCACGACATTCGTTACATTGACTTAAAACTCGTCACATGGGCAAAACGA
1 AAAATTAATTTGGAATCCACGACATTCGTTACA-TGACTTAAAACTCGTCACATGGGCAAAACGA
500395 GTTCTAATAAAATATATATTTTTATTGAAATTTGTCATCCC
65 GTTCTAATAAAATATATATTTTTATTGAAATTTGTCATCCC
500436 GACATGATAA
Statistics
Matches: 96, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
105 32 0.33
106 64 0.67
ACGTcount: A:0.35, C:0.16, G:0.12, T:0.36
Consensus pattern (105 bp):
AAAATTAATTTGGAATCCACGACATTCGTTACATGACTTAAAACTCGTCACATGGGCAAAACGAG
TTCTAATAAAATATATATTTTTATTGAAATTTGTCATCCC
Found at i:506827 original size:14 final size:14
Alignment explanation
Indices: 506808--506868 Score: 70
Period size: 14 Copynumber: 4.4 Consensus size: 14
506798 AAACAAGCAT
*
506808 AAACGAATATAAAC
1 AAACGAACATAAAC
506822 AAACGAACATAAAC
1 AAACGAACATAAAC
* *
506836 GAAA-AAACATAAAT
1 -AAACGAACATAAAC
*
506850 GAACGAACATAAAC
1 AAACGAACATAAAC
506864 AAACG
1 AAACG
506869 GGTTATTGAA
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
13 2 0.05
14 33 0.87
15 3 0.08
ACGTcount: A:0.64, C:0.16, G:0.10, T:0.10
Consensus pattern (14 bp):
AAACGAACATAAAC
Found at i:507120 original size:20 final size:20
Alignment explanation
Indices: 507083--507121 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
507073 AATTTTTTTA
*
507083 TATATTTTCCATTGAAAATC
1 TATATTTGCCATTGAAAATC
507103 TATATTTGCCTATT-AAAAT
1 TATATTTGCC-ATTGAAAAT
507122 TTTATAAGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 14 0.82
21 3 0.18
ACGTcount: A:0.36, C:0.13, G:0.05, T:0.46
Consensus pattern (20 bp):
TATATTTGCCATTGAAAATC
Found at i:509274 original size:5 final size:5
Alignment explanation
Indices: 509264--509294 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
509254 AGCCGATATG
509264 CGGCA CGGCA CGGCA CGGCA CGGCA CGGCA C
1 CGGCA CGGCA CGGCA CGGCA CGGCA CGGCA C
509295 TACTTACTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.19, C:0.42, G:0.39, T:0.00
Consensus pattern (5 bp):
CGGCA
Found at i:517847 original size:13 final size:13
Alignment explanation
Indices: 517843--517872 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
517833 CCGTTGACCC
517843 GACCCGACCCGTT
1 GACCCGACCCGTT
517856 GACCCGACCCGTT
1 GACCCGACCCGTT
517869 GACC
1 GACC
517873 GTTGACCGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.17, C:0.47, G:0.23, T:0.13
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:517852 original size:18 final size:18
Alignment explanation
Indices: 517831--517866 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
517821 GTTTGACCTT
517831 ACCCGTTGACCCGACCCG
1 ACCCGTTGACCCGACCCG
517849 ACCCGTTGACCCGACCCG
1 ACCCGTTGACCCGACCCG
517867 TTGACCGTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.17, C:0.50, G:0.22, T:0.11
Consensus pattern (18 bp):
ACCCGTTGACCCGACCCG
Found at i:517920 original size:29 final size:29
Alignment explanation
Indices: 517887--518035 Score: 133
Period size: 29 Copynumber: 5.1 Consensus size: 29
517877 ACCGAGTGAC
**
517887 ATTTTGGGAATTAATTTGAAATGGGTAAT
1 ATTTTGGGAATTAATTTGAAAAAGGTAAT
* *
517916 ATTTTGGGAATTAATTCGAAAAAGGTGAT
1 ATTTTGGGAATTAATTTGAAAAAGGTAAT
* **
517945 ATTTTGGGAATTTAATTTGAAAAA-TTGCT
1 ATTTTGGGAA-TTAATTTGAAAAAGGTAAT
* **
517974 ATTTTGGGAATTTAATTTG-AAAATGTGCT
1 ATTTTGGGAA-TTAATTTGAAAAAGGTAAT
* * *
518003 ATTTTGGTAATT-ATTTTAAAAAGTGTGAT
1 ATTTTGGGAATTAATTTGAAAAAG-GTAAT
518032 ATTT
1 ATTT
518036 AAAATGGTTG
Statistics
Matches: 104, Mismatches: 12, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
27 4 0.04
28 10 0.10
29 78 0.75
30 12 0.12
ACGTcount: A:0.34, C:0.02, G:0.20, T:0.44
Consensus pattern (29 bp):
ATTTTGGGAATTAATTTGAAAAAGGTAAT
Found at i:518035 original size:58 final size:58
Alignment explanation
Indices: 517882--518035 Score: 152
Period size: 58 Copynumber: 2.7 Consensus size: 58
517872 CGTTGACCGA
* * * * * *
517882 GTGACATTTTGGGAATTAATTTGAAATGGGTAATATTTTGGGAATTAATTCGAAAAAG
1 GTGATATTTTGGGAATTATTTTAAAAAGTGTGATATTTTGGGAATTAATTCGAAAAAG
* * * *
517940 GTGATATTTTGGGAATTTAATTTGAAAAA-T-TGCTATTTTGGGAATTTAATTTG-AAAAT
1 GTGATATTTTGGGAA-TT-ATTTTAAAAAGTGTGATATTTTGGGAA-TTAATTCGAAAAAG
* *
517998 GTGCTATTTTGGTAATTATTTTAAAAAGTGTGATATTT
1 GTGATATTTTGGGAATTATTTTAAAAAGTGTGATATTT
518036 AAAATGGTTG
Statistics
Matches: 77, Mismatches: 14, Indels: 10
0.76 0.14 0.10
Matches are distributed among these distances:
56 9 0.12
57 3 0.04
58 50 0.65
59 9 0.12
60 6 0.08
ACGTcount: A:0.34, C:0.03, G:0.21, T:0.43
Consensus pattern (58 bp):
GTGATATTTTGGGAATTATTTTAAAAAGTGTGATATTTTGGGAATTAATTCGAAAAAG
Found at i:519141 original size:117 final size:117
Alignment explanation
Indices: 518927--519218 Score: 435
Period size: 117 Copynumber: 2.5 Consensus size: 117
518917 GGAAGTATTT
*
518927 CAAGCTCCTTTGCTGTGTGCTCAGGGTAAGTCCTTACTGGTGTGCAGGTGGGTGTATGGTTCTAG
1 CAAGCTCCTTTGCTGTGTGCTTAGGGTAAGTCCTTACTGGTGTGCAGGTGGGTGTATGGTTCTAG
* * *
518992 GGAACCTACACATTATAGTGATTGGAGTGACTGGATGGGGAAGTTATTACTG
66 GGAACCTACACATTATAGTGATTGGAGCGACTGGATAGAGAAGTTATTACTG
* * * *
519044 CAGGCTCCTTTGCTGTGTGCTTAGGGAAAGTCCTTACTGGTGTGCATGTGGGTGTATGGTTCTGG
1 CAAGCTCCTTTGCTGTGTGCTTAGGGTAAGTCCTTACTGGTGTGCAGGTGGGTGTATGGTTCTAG
* *
519109 GGAACCTACACATTGTAGTGA-TGGAAGCGACTGGATAGAGACGTTATTACTG
66 GGAACCTACACATTATAGTGATTGG-AGCGACTGGATAGAGAAGTTATTACTG
** *
519161 CAAGCTCCTCAGCT-TCGTTCTTAGGGTAAGTCCTTACTGGTGTGCAGGTGGGTGTATG
1 CAAGCTCCTTTGCTGT-GTGCTTAGGGTAAGTCCTTACTGGTGTGCAGGTGGGTGTATG
519219 CTCGGGAAAA
Statistics
Matches: 157, Mismatches: 16, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
116 4 0.03
117 153 0.97
ACGTcount: A:0.20, C:0.17, G:0.32, T:0.32
Consensus pattern (117 bp):
CAAGCTCCTTTGCTGTGTGCTTAGGGTAAGTCCTTACTGGTGTGCAGGTGGGTGTATGGTTCTAG
GGAACCTACACATTATAGTGATTGGAGCGACTGGATAGAGAAGTTATTACTG
Found at i:521870 original size:21 final size:21
Alignment explanation
Indices: 521844--521888 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
521834 GATTTCTGGG
* *
521844 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
521865 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
521886 CAA
1 CAA
521889 ACGAACAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:523061 original size:32 final size:31
Alignment explanation
Indices: 523019--523146 Score: 152
Period size: 31 Copynumber: 4.1 Consensus size: 31
523009 AGAGTCGAGG
523019 GTTTACCTATGTTCTACGGAACATATGGACA
1 GTTTACCTATGTTCTACGGAACATATGGACA
*
523050 GTTTTACCTATG-TCTTTC-GAGACATATGGACA
1 G-TTTACCTATGTTC-TACGGA-ACATATGGACA
* *
523082 GTATACCTATGTTCTAAGGAACATATGGACA
1 GTTTACCTATGTTCTACGGAACATATGGACA
* * * *
523113 GTTTACCTAGGTTCTTCGGGACCTATGGACA
1 GTTTACCTATGTTCTACGGAACATATGGACA
523144 GTT
1 GTT
523147 ACCGAGGATC
Statistics
Matches: 82, Mismatches: 10, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
31 54 0.66
32 28 0.34
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.34
Consensus pattern (31 bp):
GTTTACCTATGTTCTACGGAACATATGGACA
Found at i:523166 original size:30 final size:30
Alignment explanation
Indices: 523105--523201 Score: 113
Period size: 30 Copynumber: 3.2 Consensus size: 30
523095 CTAAGGAACA
* * ***
523105 TATGGACAGTTTACCTAGGTTCTTCGGGACC
1 TATGGACAG-TTACCGAGGATCTTTATGACC
523136 TATGGACAGTTACCGAGGATCTTTATGACC
1 TATGGACAGTTACCGAGGATCTTTATGACC
* *
523166 TCTGGATAGTTACCGAGGATCTTTATGACC
1 TATGGACAGTTACCGAGGATCTTTATGACC
*
523196 TCTGGA
1 TATGGA
523202 TAGGTTCTTC
Statistics
Matches: 59, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
30 50 0.85
31 9 0.15
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.32
Consensus pattern (30 bp):
TATGGACAGTTACCGAGGATCTTTATGACC
Found at i:523202 original size:30 final size:30
Alignment explanation
Indices: 523132--523204 Score: 128
Period size: 30 Copynumber: 2.4 Consensus size: 30
523122 GGTTCTTCGG
* *
523132 GACCTATGGACAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
523162 GACCTCTGGATAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
523192 GACCTCTGGATAG
1 GACCTCTGGATAG
523205 GTTCTTCGGG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.30
Consensus pattern (30 bp):
GACCTCTGGATAGTTACCGAGGATCTTTAT
Found at i:525368 original size:60 final size:59
Alignment explanation
Indices: 525282--525429 Score: 145
Period size: 61 Copynumber: 2.4 Consensus size: 59
525272 AATTAAGGGC
* ** * ** *
525282 AAATTACATAAATAGTCCCCTAACTATAATG-TGTTATTTTATTGAGTCCTTTAATTATTAA
1 AAATTATA-AAATAGTCCCCCGACTATAATGATGTT-TTTT-TTAAGTCCCCTAACTATTAA
* *
525343 AAGTTATAAAATGGTCCCCCGACTATAATGCATTGTTTTTTTTAAGTCCCCTAACTATTAA
1 AAATTATAAAATAGTCCCCCGACTATAATG-A-TGTTTTTTTTAAGTCCCCTAACTATTAA
**
525404 AAATTATAAAATAGTTGCCCGACTAT
1 AAATTATAAAATAGTCCCCCGACTAT
525430 TCATTGTGTT
Statistics
Matches: 71, Mismatches: 13, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
60 19 0.27
61 44 0.62
62 4 0.06
63 4 0.06
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.39
Consensus pattern (59 bp):
AAATTATAAAATAGTCCCCCGACTATAATGATGTTTTTTTTAAGTCCCCTAACTATTAA
Found at i:531205 original size:2 final size:2
Alignment explanation
Indices: 531198--531248 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
531188 AAGGTATTGT
531198 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
531240 TC TC TC TC T
1 TC TC TC TC T
531249 ACACGCGTGC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:541742 original size:2 final size:2
Alignment explanation
Indices: 541735--541795 Score: 122
Period size: 2 Copynumber: 30.5 Consensus size: 2
541725 ATCTCTTATT
541735 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
541777 TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA T
541796 TAAAACGAAT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:542014 original size:29 final size:29
Alignment explanation
Indices: 541963--542020 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
541953 GTATTGATAG
* *
541963 TAGGTCGCCATGCCTTTCGGGCGAACTAC
1 TAGGTCGCCATGCCTTCCCGGCGAACTAC
* * *
541992 TAGGTCGTCATGTCTTCCCGGCGAGCTAC
1 TAGGTCGCCATGCCTTCCCGGCGAACTAC
542021 AAAAGATTGC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.16, C:0.31, G:0.28, T:0.26
Consensus pattern (29 bp):
TAGGTCGCCATGCCTTCCCGGCGAACTAC
Found at i:542148 original size:23 final size:23
Alignment explanation
Indices: 542101--542149 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
542091 GCCATCCGAT
*
542101 CGAACTATGCGAGGGCAGTCGAG
1 CGAACTATGCGAGGGCAGTCAAG
*
542124 CGAACTATGTGAGGGCA-TCCAAG
1 CGAACTATGCGAGGGCAGT-CAAG
542147 CGA
1 CGA
542150 GCGAGCAAGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 1 0.04
23 22 0.96
ACGTcount: A:0.29, C:0.22, G:0.35, T:0.14
Consensus pattern (23 bp):
CGAACTATGCGAGGGCAGTCAAG
Found at i:542289 original size:29 final size:29
Alignment explanation
Indices: 542247--542332 Score: 120
Period size: 29 Copynumber: 3.0 Consensus size: 29
542237 GAACAAGGGT
* *
542247 AGGTCACCCGGAGTGCATGGCGACTTACA
1 AGGTCGCCCGGAGTGCATGGCGACCTACA
* *
542276 AGGTCGCCCGGAGTGTATTGCGACCTACA
1 AGGTCGCCCGGAGTGCATGGCGACCTACA
542305 AGGTCGCCCGGAAG-GCATGGCGACCTAC
1 AGGTCGCCCGG-AGTGCATGGCGACCTAC
542333 GACAAACACT
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
29 48 0.96
30 2 0.04
ACGTcount: A:0.22, C:0.29, G:0.33, T:0.16
Consensus pattern (29 bp):
AGGTCGCCCGGAGTGCATGGCGACCTACA
Found at i:543979 original size:52 final size:47
Alignment explanation
Indices: 543915--544136 Score: 192
Period size: 54 Copynumber: 4.3 Consensus size: 47
543905 TAATAAGGTT
*
543915 ATTTATTTTAAAATAATTTATTTTAAAATAAATTATTATAAAATATGGATTG
1 ATTTATTTTAAAATAATTTATTTT-AAAT-AA-T-TTAT-AAATATGAATTG
* *
543967 ATTTATTTTAAAATAATTTATTTTAAATAATTTATTAGTATGAATTG
1 ATTTATTTTAAAATAATTTATTTTAAATAATTTATAAATATGAATTG
* * *
544014 ATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGTATTG
1 ATTTATTTT-AAA-AT--A---ATTTATTTTAAATAATTTATAAATATGAATTG
* * *
544068 ATTTATTTTAAAATATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTT-AAA-AT--A---ATTTATTTTAAATAATTTATAAATATGAATTG
544122 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
544137 TGGATTGATT
Statistics
Matches: 157, Mismatches: 6, Indels: 16
0.88 0.03 0.09
Matches are distributed among these distances:
47 18 0.11
48 7 0.04
49 3 0.02
50 3 0.02
51 5 0.03
52 26 0.17
53 3 0.02
54 92 0.59
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (47 bp):
ATTTATTTTAAAATAATTTATTTTAAATAATTTATAAATATGAATTG
Found at i:543996 original size:14 final size:15
Alignment explanation
Indices: 543915--544002 Score: 88
Period size: 15 Copynumber: 5.5 Consensus size: 15
543905 TAATAAGGTT
543915 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
543930 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
* *
543945 AATTATTATAAAATATGGA
1 ATTTATT-TTAAA-AT--A
543964 TTGATTTATTTTAAAATA
1 ---ATTTATTTTAAAATA
543982 ATTTATTTT-AAATA
1 ATTTATTTTAAAATA
543996 ATTTATT
1 ATTTATT
544003 AGTATGAATT
Statistics
Matches: 62, Mismatches: 4, Indels: 15
0.77 0.05 0.19
Matches are distributed among these distances:
14 12 0.19
15 30 0.48
16 4 0.06
17 2 0.03
18 1 0.02
19 1 0.02
20 2 0.03
21 4 0.06
22 6 0.10
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.52
Consensus pattern (15 bp):
ATTTATTTTAAAATA
Found at i:544021 original size:22 final size:22
Alignment explanation
Indices: 544005--544047 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
543995 AATTTATTAG
544005 TATGAATTGATTTATTTTAAAA
1 TATGAATTGATTTATTTTAAAA
*
544027 TATGGATTGATTTATTTTAAA
1 TATGAATTGATTTATTTTAAA
544048 TAATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (22 bp):
TATGAATTGATTTATTTTAAAA
Found at i:544021 original size:32 final size:32
Alignment explanation
Indices: 543982--544133 Score: 146
Period size: 32 Copynumber: 5.4 Consensus size: 32
543972 TTTTAAAATA
543982 ATTTATTTTAAATAATTTATTAGTATGAATTG
1 ATTTATTTTAAATAATTTATTAGTATGAATTG
544014 ATTTATTTT-AA-AA--TA-T-G---G-ATTG
1 ATTTATTTTAAATAATTTATTAGTATGAATTG
*
544036 ATTTATTTTAAATAATTTATTAGTATGTATTG
1 ATTTATTTTAAATAATTTATTAGTATGAATTG
544068 ATTTA-TTT---TAA---A--A-TATGAATTG
1 ATTTATTTTAAATAATTTATTAGTATGAATTG
*
544090 ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGAATTG
544122 ATTTATTTTAAA
1 ATTTATTTTAAA
544134 ATATGGATTG
Statistics
Matches: 98, Mismatches: 2, Indels: 40
0.70 0.01 0.29
Matches are distributed among these distances:
22 26 0.27
23 7 0.07
24 2 0.02
25 1 0.01
26 6 0.06
27 2 0.02
28 6 0.06
29 1 0.01
30 2 0.02
31 7 0.07
32 38 0.39
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.53
Consensus pattern (32 bp):
ATTTATTTTAAATAATTTATTAGTATGAATTG
Found at i:544047 original size:54 final size:54
Alignment explanation
Indices: 543982--544863 Score: 1093
Period size: 54 Copynumber: 16.4 Consensus size: 54
543972 TTTTAAAATA
*
543982 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
* *
544036 ATTTATTTTAAATAATTTATTAGTATGTATTGATTTATTTTAAAATATGAATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
544090 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
* **
544144 ATTTA--TT--AT--TGTAGTT-GTATGGATTGATTTATTTT-AAATACTTTATT-
1 ATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTTAAAATA-TGGATTG
* * * ** * * * ***
544191 AGTATGAATTGATTTATTTTA-AAATATGGATTGATTTATTATTGTAGTTGTATGGATTG
1 A-T-TTATTTTAAATAATTTATTAGTATGGATTGATTTA-T-TT-TA-AAATATGGATTG
* *
544250 AATTATTTTAAATACTTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
*
544304 ATTTATTTTAAATAATTTATTAGTATTGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
*
544358 ATTTATTTTAAATAATTTATTAGTATGTATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
544412 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
* **
544466 ATTTA--TT--AT--TGTAGTT-GTATGGATTGATTTATTTT-AAATACTTTATT-
1 ATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTTAAAATA-TGGATTG
* * * ** * * * *** *
544513 AGTATGAATTGATTTATTTTA-AAATATGGATTGATTTATTATTGTAGTTGTATGAATTG
1 A-T-TTATTTTAAATAATTTATTAGTATGGATTGATTTA-T-TT-TA-AAATATGGATTG
*
544572 ATTTATTTTAAATACTTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
*
544626 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTT
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
* * *
544680 ATTTATTTTAATTACTTTATTAGTATGGATTGATTTATTTTCAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
*
544734 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
*
544788 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGAATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
544842 ATTTATTTTAAATAATTTATTA
1 ATTTATTTTAAATAATTTATTA
544864 TTGTAGTTGT
Statistics
Matches: 718, Mismatches: 74, Indels: 72
0.83 0.09 0.08
Matches are distributed among these distances:
47 12 0.02
48 54 0.08
49 8 0.01
50 4 0.01
51 2 0.00
52 4 0.01
53 2 0.00
54 541 0.75
55 12 0.02
56 8 0.01
57 26 0.04
58 39 0.05
59 6 0.01
ACGTcount: A:0.34, C:0.01, G:0.13, T:0.53
Consensus pattern (54 bp):
ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
Found at i:544075 original size:22 final size:22
Alignment explanation
Indices: 544059--544101 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
544049 AATTTATTAG
*
544059 TATGTATTGATTTATTTTAAAA
1 TATGAATTGATTTATTTTAAAA
544081 TATGAATTGATTTATTTTAAA
1 TATGAATTGATTTATTTTAAA
544102 TAATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.09, T:0.53
Consensus pattern (22 bp):
TATGAATTGATTTATTTTAAAA
Found at i:544189 original size:80 final size:80
Alignment explanation
Indices: 544081--544794 Score: 807
Period size: 80 Copynumber: 8.9 Consensus size: 80
544071 TATTTTAAAA
* *
544081 TATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATACTTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
544146 TTATTATTGTAGTTG
66 TTATTATTGTAGTTG
*
544161 TATGGATTGATTTATTTTAAATACTTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATACTTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
544226 TTATTATTGTAGTTG
66 TTATTATTGTAGTTG
*
544241 TATGGATTGAATTATTTTAAATACTTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATACTTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
* *
544306 TTATT-TTAAATAATT-
66 TTATTATT--GTAGTTG
* * * * **
544321 TATTAGTATTGATTGA-TTT--AT--TTTA-AAATATGGATTGATTTATTTT-AAATAATTTATT
1 TA-T-GGATTGATTTATTTTAAATACTTTATTAGTATGGATTGATTTATTTTAAAAT-ATGGATT
* * *
544379 AGTATGTATTGATT-TATTTTAAAA
63 -G-ATTTATT-ATTGTA-GTT---G
*
544403 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATACTTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
544468 TTATTATTGTAGTTG
66 TTATTATTGTAGTTG
*
544483 TATGGATTGATTTATTTTAAATACTTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATACTTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
544548 TTATTATTGTAGTTG
66 TTATTATTGTAGTTG
*
544563 TATGAATTGATTTATTTTAAATACTTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATACTTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
*
544628 TTATTTTAAATAATTTA-TTAG
66 TTA--TT--AT--TGTAGTT-G
** ** * * * * *
544649 TATGGATTGATTTATTTTAAAATA-TGGATT--TATTTATTTTAATTACTTTATTAGTATGGATT
1 TATGGATTGATTTATTTT-AAATACTTTATTAGTATGGA-TTGATTTATTTTA-AAATATGGATT
* **
544711 GATTTATT-TT-CA--AA
63 GATTTATTATTGTAGTTG
* *
544725 TATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATACTTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
544790 TTATT
66 TTATT
544795 TTAAATAATT
Statistics
Matches: 547, Mismatches: 52, Indels: 74
0.81 0.08 0.11
Matches are distributed among these distances:
75 9 0.02
76 63 0.12
77 17 0.03
78 13 0.02
79 5 0.01
80 302 0.55
81 13 0.02
82 12 0.02
83 7 0.01
84 16 0.03
85 17 0.03
86 64 0.12
87 9 0.02
ACGTcount: A:0.33, C:0.01, G:0.13, T:0.53
Consensus pattern (80 bp):
TATGGATTGATTTATTTTAAATACTTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
TTATTATTGTAGTTG
Found at i:544281 original size:32 final size:31
Alignment explanation
Indices: 544240--544831 Score: 234
Period size: 32 Copynumber: 20.7 Consensus size: 31
544230 TATTGTAGTT
*
544240 GTATGGATTGAATTATTTTAAATACTTTATTA
1 GTATGGATTGATTTATTTTAAATA-TTTATTA
544272 GTATGGATTGATTTATTTT--A-A---A--A
1 GTATGGATTGATTTATTTTAAATATTTATTA
544295 -TATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAAT-ATTTATTA
*
544326 GTATTGATTGATTTATTTT--A-A---A--A
1 GTATGGATTGATTTATTTTAAATATTTATTA
544349 -TATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAAT-ATTTATTA
*
544380 GTATGTATTGATTTATTTT--A-A---A--A
1 GTATGGATTGATTTATTTTAAATATTTATTA
544403 -TATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAAT-ATTTATTA
**
544434 GTATGGATTGATTTATTTTAAAATATGGATT-
1 GTATGGATTGATTTATTTT-AAATATTTATTA
** * *
544465 G-ATTTATT-ATTGTAGTTGTATGGATTGATTTATT-
1 GTATGGATTGATT-TA-TT-T-T-AAAT-ATTTATTA
* *** * * * *
544499 TTAAATACTTTA-TTAGTATGAATTGATTTATTTTAAA
1 GTATGGA-TTGATTTA-TTTTAAAT-ATTTA--TT--A
* *
544536 ATATGGATTGATTTA--TT--AT-TGTAGTT-
1 GTATGGATTGATTTATTTTAAATATTTA-TTA
*
544562 GTATGAATTGATTTATTTTAAATACTTTATTA
1 GTATGGATTGATTTATTTTAAATA-TTTATTA
544594 GTATGGATTGATTTATTTT--A-A---A--A
1 GTATGGATTGATTTATTTTAAATATTTATTA
544617 -TATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAAT-ATTTATTA
544648 GTATGGATTGATTTATTTT--A-A---A--A
1 GTATGGATTGATTTATTTTAAATATTTATTA
* *
544671 -TATGGATTTATTTATTTTAATTACTTTATTA
1 GTATGGATTGATTTATTTTAAATA-TTTATTA
*
544702 GTATGGATTGATTTATTTT---CA---A--A
1 GTATGGATTGATTTATTTTAAATATTTATTA
544725 -TATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAAT-ATTTATTA
*
544756 GTATGAATTGATTTATTTT--A-A---A--A
1 GTATGGATTGATTTATTTTAAATATTTATTA
544779 -TATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAAT-ATTTATTA
544810 GTATGGATTGATTTATTTTAAA
1 GTATGGATTGATTTATTTTAAA
544832 ATATGAATTG
Statistics
Matches: 428, Mismatches: 40, Indels: 184
0.66 0.06 0.28
Matches are distributed among these distances:
22 122 0.29
23 7 0.02
24 5 0.01
25 8 0.02
26 19 0.04
28 6 0.01
29 15 0.04
30 18 0.04
31 12 0.03
32 180 0.42
33 7 0.02
34 9 0.02
35 7 0.02
36 6 0.01
37 7 0.02
ACGTcount: A:0.34, C:0.01, G:0.13, T:0.53
Consensus pattern (31 bp):
GTATGGATTGATTTATTTTAAATATTTATTA
Found at i:544298 original size:22 final size:22
Alignment explanation
Indices: 544273--544369 Score: 86
Period size: 22 Copynumber: 4.0 Consensus size: 22
544263 ACTTTATTAG
544273 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
544295 TATGGATTGATTTATTTTAAATAA
1 TATGGATTGATTTATTTT-AA-AA
* *
544319 TTTATTAGTATTGATTGATTTATTTTAAAA
1 --TA-T-GGATTGATTTA-TT---TTAAAA
544349 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
544370 TAATTTATTA
Statistics
Matches: 61, Mismatches: 4, Indels: 20
0.72 0.05 0.24
Matches are distributed among these distances:
22 23 0.38
23 2 0.03
24 2 0.03
25 2 0.03
26 11 0.18
27 2 0.03
28 11 0.18
29 2 0.03
30 2 0.03
31 2 0.03
32 2 0.03
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:544397 original size:22 final size:22
Alignment explanation
Indices: 544381--544423 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
544371 AATTTATTAG
*
544381 TATGTATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
544403 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
544424 TAATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:544580 original size:322 final size:322
Alignment explanation
Indices: 543982--544794 Score: 1520
Period size: 322 Copynumber: 2.5 Consensus size: 322
543972 TTTTAAAATA
543982 ATTTATTTTAAATAATTTATTAGTA-TGAATTGATTTATTTTAAAATATGGATTGATTTATTTTA
1 ATTTATTTTAAATAATTTATTAGTATTG-ATTGATTTATTTTAAAATATGGATTGATTTATTTTA
*
544046 AATAATTTATTAGTATGTATTGATTTATTTTAAAATATGAATTGATTTATTTTAAATAATTTATT
65 AATAATTTATTAGTATGTATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATT
544111 AGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTGTATGGATTGATTTAT
130 AGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTGTATGGATTGATTTAT
544176 TTTAAATACTTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTG
195 TTTAAATACTTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTG
*
544241 TATGGATTGAATTATTTTAAATACTTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
260 TATGAATTGAATTATTTTAAATACTTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
544304 ATTTATTTTAAATAATTTATTAGTATTGATTGATTTATTTTAAAATATGGATTGATTTATTTTAA
1 ATTTATTTTAAATAATTTATTAGTATTGATTGATTTATTTTAAAATATGGATTGATTTATTTTAA
544369 ATAATTTATTAGTATGTATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTA
66 ATAATTTATTAGTATGTATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTA
544434 GTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTGTATGGATTGATTTATT
131 GTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTGTATGGATTGATTTATT
544499 TTAAATACTTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTGT
196 TTAAATACTTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTGT
*
544564 ATGAATTGATTTATTTTAAATACTTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
261 ATGAATTGAATTATTTTAAATACTTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
* *
544626 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTTATTTATTTTAA
1 ATTTATTTTAAATAATTTATTAGTATTGATTGATTTATTTTAAAATATGGATTGATTTATTTTAA
* * * *
544691 TTACTTTATTAGTATGGATTGATTTATTTTCAAATATGGATTGATTTATTTTAAATAATTTATTA
66 ATAATTTATTAGTATGTATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTA
*
544756 GTATGAATTGATTTATTTTAAAATATGGATTGATTTATT
131 GTATGGATTGATTTATTTTAAAATATGGATTGATTTATT
544795 TTAAATAATT
Statistics
Matches: 480, Mismatches: 10, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
322 478 1.00
323 2 0.00
ACGTcount: A:0.34, C:0.01, G:0.13, T:0.53
Consensus pattern (322 bp):
ATTTATTTTAAATAATTTATTAGTATTGATTGATTTATTTTAAAATATGGATTGATTTATTTTAA
ATAATTTATTAGTATGTATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTA
GTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTGTATGGATTGATTTATT
TTAAATACTTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTGT
ATGAATTGAATTATTTTAAATACTTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
Done.