Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009633.1 Hibiscus syriacus cultivar Beakdansim tig00117032_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: 2608659
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 11 of 13
Found at i:1960647 original size:18 final size:19
Alignment explanation
Indices: 1960624--1960667 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
1960614 GCCAGTAATC
* *
1960624 TATTCC-CTGGTAATCTTT
1 TATTCCACTGATAATCTTA
1960642 TATTCCCACTGATAATCTTA
1 TATT-CCACTGATAATCTTA
1960662 TATTCC
1 TATTCC
1960668 GTGAACCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 4 0.18
19 4 0.18
20 14 0.64
ACGTcount: A:0.23, C:0.25, G:0.07, T:0.45
Consensus pattern (19 bp):
TATTCCACTGATAATCTTA
Found at i:1960836 original size:60 final size:60
Alignment explanation
Indices: 1960740--1960908 Score: 187
Period size: 60 Copynumber: 2.8 Consensus size: 60
1960730 GTACCTAACT
* ** *
1960740 TATAACTCTT-ATTTTAAATTAGTCCTTAATTTTTTGAATATTTTAATTTTATCCTCAAAC
1 TATAACT-TTCATTCTAAATTAGTCCTTAAACTTTTGAATATTCTAATTTTATCCTCAAAC
* * * *
1960800 TATAACTTTCATTCTAAATTAGTCCTTAAACATTTGAACATTCTGATTTTATCCTTAAAC
1 TATAACTTTCATTCTAAATTAGTCCTTAAACTTTTGAATATTCTAATTTTATCCTCAAAC
* ** * * * *
1960860 TATGACCCTCTTTCTAAATTATTCCCTAAACTTTTGAATATTCCAATTT
1 TATAACTTTCATTCTAAATTAGTCCTTAAACTTTTGAATATTCTAATTT
1960909 AATTCAAATA
Statistics
Matches: 90, Mismatches: 18, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
59 2 0.02
60 88 0.98
ACGTcount: A:0.31, C:0.18, G:0.04, T:0.47
Consensus pattern (60 bp):
TATAACTTTCATTCTAAATTAGTCCTTAAACTTTTGAATATTCTAATTTTATCCTCAAAC
Found at i:1964301 original size:33 final size:33
Alignment explanation
Indices: 1964259--1964323 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
1964249 CTGTTAATAA
*
1964259 CTAAGTAGTTTAGATA-TCATATGACTCTTATCT
1 CTAAGTAGTTTAGATATTC-TATAACTCTTATCT
1964292 CTAAGTAGTTTAGATATTCTATAACTCTTATC
1 CTAAGTAGTTTAGATATTCTATAACTCTTATC
1964324 ACTTAATAGG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 28 0.93
34 2 0.07
ACGTcount: A:0.31, C:0.15, G:0.11, T:0.43
Consensus pattern (33 bp):
CTAAGTAGTTTAGATATTCTATAACTCTTATCT
Found at i:1969012 original size:115 final size:115
Alignment explanation
Indices: 1968867--1969103 Score: 465
Period size: 115 Copynumber: 2.1 Consensus size: 115
1968857 TTTATTATAT
*
1968867 TTAAATACAATTATCTATATCTTAGCTAAAATCAATATTTATTATTCAAAGATATAGATAAACAT
1 TTAAGTACAATTATCTATATCTTAGCTAAAATCAATATTTATTATTCAAAGATATAGATAAACAT
1968932 AATAATAATAATAAGGAACTTTTTATTCAAAGAAAAATAAAGAATTTTAA
66 AATAATAATAATAAGGAACTTTTTATTCAAAGAAAAATAAAGAATTTTAA
1968982 TTAAGTACAATTATCTATATCTTAGCTAAAATCAATATTTATTATTCAAAGATATAGATAAACAT
1 TTAAGTACAATTATCTATATCTTAGCTAAAATCAATATTTATTATTCAAAGATATAGATAAACAT
1969047 AATAATAATAATAAGGAACTTTTTATTCAAAGAAAAATAAAGAATTTTAA
66 AATAATAATAATAAGGAACTTTTTATTCAAAGAAAAATAAAGAATTTTAA
1969097 TTAAGTA
1 TTAAGTA
1969104 TAGAGTTTTT
Statistics
Matches: 121, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
115 121 1.00
ACGTcount: A:0.50, C:0.08, G:0.07, T:0.36
Consensus pattern (115 bp):
TTAAGTACAATTATCTATATCTTAGCTAAAATCAATATTTATTATTCAAAGATATAGATAAACAT
AATAATAATAATAAGGAACTTTTTATTCAAAGAAAAATAAAGAATTTTAA
Found at i:1970810 original size:13 final size:13
Alignment explanation
Indices: 1970792--1970816 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1970782 GACTTATAGC
1970792 ATAAGAACTTACA
1 ATAAGAACTTACA
1970805 ATAAGAACTTAC
1 ATAAGAACTTAC
1970817 TTTATGCACA
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:0.16, G:0.08, T:0.24
Consensus pattern (13 bp):
ATAAGAACTTACA
Found at i:1971815 original size:14 final size:14
Alignment explanation
Indices: 1971771--1971817 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 14
1971761 ATGAGTCAGG
*
1971771 CGGGTTGGGTCAGA
1 CGGGTTGGGTCAAA
* *
1971785 CAGGTTGGGTCATA
1 CGGGTTGGGTCAAA
*
1971799 CGGGTTAGGTCAAA
1 CGGGTTGGGTCAAA
1971813 CGGGT
1 CGGGT
1971818 CAAGTTGACC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.19, C:0.15, G:0.43, T:0.23
Consensus pattern (14 bp):
CGGGTTGGGTCAAA
Found at i:1978716 original size:24 final size:24
Alignment explanation
Indices: 1978663--1978716 Score: 56
Period size: 24 Copynumber: 2.2 Consensus size: 24
1978653 ACGACTCAGC
* *
1978663 TGGACTAGTTCGGTCTGATTTAGA
1 TGGACTAGTTAGGTCTAATTTAGA
* *
1978687 TAGACTAGTTAGGTTTAATTTA-A
1 TGGACTAGTTAGGTCTAATTTAGA
1978710 TTGGACT
1 -TGGACT
1978717 TATTTGGCCT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
23 1 0.04
24 23 0.96
ACGTcount: A:0.26, C:0.09, G:0.24, T:0.41
Consensus pattern (24 bp):
TGGACTAGTTAGGTCTAATTTAGA
Found at i:1980985 original size:2 final size:2
Alignment explanation
Indices: 1980978--1981025 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
1980968 AGAAAATTTA
1980978 AT AT AT AT 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 AT
1981020 AT AT AT
1 AT AT AT
1981026 CATAAAATAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1994349 original size:2 final size:2
Alignment explanation
Indices: 1994342--1994373 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
1994332 AACTTTTCAG
1994342 AT AT AT AT AT AT AT AT AT -T AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1994374 AACACAATCT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1994365 original size:15 final size:15
Alignment explanation
Indices: 1994345--1994373 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
1994335 TTTTCAGATA
1994345 TATATATATATATAT
1 TATATATATATATAT
1994360 TATATATATATATA
1 TATATATATATATA
1994374 AACACAATCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATATATATATATAT
Found at i:1995192 original size:21 final size:20
Alignment explanation
Indices: 1995158--1995197 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
1995148 TATAATTATT
1995158 TAAAAATTAAATAAAAATAC
1 TAAAAATTAAATAAAAATAC
*
1995178 TAAAATATTTAATAAAAATA
1 TAAAA-ATTAAATAAAAATA
1995198 ATTTTTTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (20 bp):
TAAAAATTAAATAAAAATAC
Found at i:1996616 original size:374 final size:377
Alignment explanation
Indices: 1995919--1996671 Score: 1412
Period size: 374 Copynumber: 2.0 Consensus size: 377
1995909 AAAAAATATG
1995919 AAAATAATTAAAATATATAAATTTTAAAATCTTCAAACCTGACGCACCCGCAGTTCGTCTCAATC
1 AAAATAATTAAAATATATAAATTTTAAAATCTTCAAACCTGACGCACCCGCAGTTCGTCTCAATC
1995984 CATCTCTGACTCCTATATGTTGTTTTCCAATCCGATTTACCACTCTACTATAATTTGATTATATT
66 CATCTCTGACTCCTATATGTTGTTTTCCAATCCGATTTACCACTCTACTATAATTTGATTATATT
1996049 CAGTCATTTTATTTTTAAAATGTGTCTTTTCAATTCCGATTAACATTTCGGTCAAATATTTGGTT
131 CAGTCATTTTATTTTTAAAATGTGTCTTTTCAATTCCGATTAACATTTCGGTCAAATATTTGGTT
1996114 ATGGTTATTTTATTAAAACATACTATGATGTGTCATATATTTTTTAACATTTTTTTGCAATTAGA
196 ATGGTTATTTTATTAAAACATACTATGATGTGTCATATATTTTTTAACATTTTTTTGCAATTAGA
1996179 CAAAATTATTATTTGTTATCTGTTTATATTTTTTTCCTTTGACATGAACCATTAGTTTCTAGTAA
261 CAAAATTATTATTTGTTATCTGTTTATATTTTTTTCCTTTGACATGAACCATTAGTTTCTAGTAA
*
1996244 AA-CAGGGCAATAATCCTGGCGTGTAAATTATATGTCCAATAGGGTAGTCCAA
326 AATCAGGGCAATAATCCTGGCGTGTAAATTAT-TATCCAATAGGGTAGTCCAA
1996296 AAAAT-ATTAAAATATA-AAA-TTTAAAATCTTCAAACCTGACGCACCCGCAGTTCGTCTCAATC
1 AAAATAATTAAAATATATAAATTTTAAAATCTTCAAACCTGACGCACCCGCAGTTCGTCTCAATC
1996358 CATCTCTAGACTCCTATATGTTGTTTTCCAATCCGATTTACTCACTCTACTATAATTTGATTATA
66 CATCTCT-GACTCCTATATGTTGTTTTCCAATCCGATTTAC-CACTCTACTATAATTTGATTATA
1996423 TTCAGTCATTTT-TTTTTAAAATGTGTCTTTTCAATTCCGATTAACATTTCGGTCAAATATTTGG
129 TTCAGTCATTTTATTTTTAAAATGTGTCTTTTCAATTCCGATTAACATTTCGGTCAAATATTTGG
1996487 TTATGGTT-TTTTATTAAAACATACTATGATGTGTCATATATTTTTTAACATTTTTTTGCAATTA
194 TTATGGTTATTTTATTAAAACATACTATGATGTGTCATATATTTTTTAACATTTTTTTGCAATTA
1996551 GACAAAATTA-TATTTGTTATCTGTTTTATATTTTTTTCCTTTGACATGAACCATTAGTTTCTAG
259 GACAAAATTATTATTTGTTATCTG-TTTATATTTTTTTCCTTTGACATGAACCATTAGTTTCTAG
1996615 TAAAATCAGGGCAATAATCCTGGCGTGTAAATTATTATCCAATAGGGTAGTCCAA
323 TAAAATCAGGGCAATAATCCTGGCGTGTAAATTATTATCCAATAGGGTAGTCCAA
1996670 AA
1 AA
1996672 TTTATTTTAG
Statistics
Matches: 371, Mismatches: 1, Indels: 11
0.97 0.00 0.03
Matches are distributed among these distances:
373 13 0.04
374 182 0.49
375 125 0.34
376 46 0.12
377 5 0.01
ACGTcount: A:0.31, C:0.16, G:0.11, T:0.42
Consensus pattern (377 bp):
AAAATAATTAAAATATATAAATTTTAAAATCTTCAAACCTGACGCACCCGCAGTTCGTCTCAATC
CATCTCTGACTCCTATATGTTGTTTTCCAATCCGATTTACCACTCTACTATAATTTGATTATATT
CAGTCATTTTATTTTTAAAATGTGTCTTTTCAATTCCGATTAACATTTCGGTCAAATATTTGGTT
ATGGTTATTTTATTAAAACATACTATGATGTGTCATATATTTTTTAACATTTTTTTGCAATTAGA
CAAAATTATTATTTGTTATCTGTTTATATTTTTTTCCTTTGACATGAACCATTAGTTTCTAGTAA
AATCAGGGCAATAATCCTGGCGTGTAAATTATTATCCAATAGGGTAGTCCAA
Found at i:1998200 original size:3 final size:3
Alignment explanation
Indices: 1998186--1998220 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
1998176 ACCTACTCAG
* *
1998186 GAC GAT GAC GAC GAC GAC GAC TAC GAC GAC GAC GA
1 GAC GAC GAC GAC GAC GAC GAC GAC GAC GAC GAC GA
1998221 TGATGACAGC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.34, C:0.29, G:0.31, T:0.06
Consensus pattern (3 bp):
GAC
Found at i:2003819 original size:30 final size:29
Alignment explanation
Indices: 2003760--2003819 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 29
2003750 AGTTGAAGGA
* *
2003760 CGAACTTGAACTTATAAAATTTTAGGGAG
1 CGAACTTGAACTAATAAAATTTAAGGGAG
*
2003789 CGAACTTGAACTAATAAAGTTATAAGGGAG
1 CGAACTTGAACTAATAAAATT-TAAGGGAG
2003819 C
1 C
2003820 AAAAACATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 19 0.70
30 8 0.30
ACGTcount: A:0.40, C:0.12, G:0.22, T:0.27
Consensus pattern (29 bp):
CGAACTTGAACTAATAAAATTTAAGGGAG
Found at i:2006811 original size:70 final size:70
Alignment explanation
Indices: 2006698--2006835 Score: 276
Period size: 70 Copynumber: 2.0 Consensus size: 70
2006688 GGCAGTGCAG
2006698 ACATGTTCAAAACGTGTTATTGGTAGTGGTAGTTGTTATGGAGGCCAAGGAAGTTATGGTGGTGG
1 ACATGTTCAAAACGTGTTATTGGTAGTGGTAGTTGTTATGGAGGCCAAGGAAGTTATGGTGGTGG
2006763 TAATA
66 TAATA
2006768 ACATGTTCAAAACGTGTTATTGGTAGTGGTAGTTGTTATGGAGGCCAAGGAAGTTATGGTGGTGG
1 ACATGTTCAAAACGTGTTATTGGTAGTGGTAGTTGTTATGGAGGCCAAGGAAGTTATGGTGGTGG
2006833 TAA
66 TAA
2006836 AAACTATGGC
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
70 68 1.00
ACGTcount: A:0.27, C:0.07, G:0.33, T:0.33
Consensus pattern (70 bp):
ACATGTTCAAAACGTGTTATTGGTAGTGGTAGTTGTTATGGAGGCCAAGGAAGTTATGGTGGTGG
TAATA
Found at i:2007809 original size:43 final size:43
Alignment explanation
Indices: 2007689--2007809 Score: 127
Period size: 45 Copynumber: 2.8 Consensus size: 43
2007679 TCTATTATAT
* * * ** *
2007689 TTTTTATTTTTATAATTTAAGCCTTTAATATTCTTTAATTTTAGT
1 TTTTTATTTTTATAATTGAGGCC-TTAAT-TTTTTTAATCCTAGC
* * *
2007734 TTTTTATCTTTATAATTGAGGTCCCTAATTTTTATAATCCTA-C
1 TTTTTATTTTTATAATTGAGG-CCTTAATTTTTTTAATCCTAGC
2007777 TTTTTATTTTTATAATTGAGGCCTTAATTTTTT
1 TTTTTATTTTTATAATTGAGGCCTTAATTTTTT
2007810 GCAATCTCCT
Statistics
Matches: 63, Mismatches: 12, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
42 10 0.16
43 20 0.32
44 9 0.14
45 22 0.35
46 2 0.03
ACGTcount: A:0.25, C:0.10, G:0.07, T:0.59
Consensus pattern (43 bp):
TTTTTATTTTTATAATTGAGGCCTTAATTTTTTTAATCCTAGC
Found at i:2007822 original size:42 final size:43
Alignment explanation
Indices: 2007734--2008077 Score: 126
Period size: 42 Copynumber: 7.9 Consensus size: 43
2007724 TAATTTTAGT
2007734 TTTTTATCTTTATAATTGAGGTCCCTAATTTTTATAATCCTAC
1 TTTTTATCTTTATAATTGAGGTCCCTAATTTTTATAATCCTAC
* * *
2007777 TTTTTATTTTTATAATTGAGG-CCTTAATTTTT-TGCAAT-CTCC
1 TTTTTATCTTTATAATTGAGGTCCCTAATTTTTAT--AATCCTAC
** * * *
2007819 TTTTTTAAAAAAAATTTATAATTGATGAT-CCTAAGTTTTCTAAT-CTCAC
1 -TTTTT-----ATCTTTATAATTGA-GGTCCCTAATTTTTATAATCCT-AC
* * * ** * * *
2007868 TTTGTA-CGTTTATAATTGAGCT-CTTGGTTTTATTTCAAT-ATCAA
1 TTTTTATC-TTTATAATTGAGGTCCCTAATTTT-TAT-AATCCT-AC
** ** * *
2007912 TTTTTGCCTTTATAATTGAGACCCCTAATTTTT-CAAT-CTCAT
1 TTTTTATCTTTATAATTGAGGTCCCTAATTTTTATAATCCT-AC
* *
2007954 TTTTTA-CTTATATAATTTAGGCCCCTAATTTTT-TCAAT-CTCAC
1 TTTTTATCTT-TATAATTGAGGTCCCTAATTTTTAT-AATCCT-AC
* * *
2007997 TTTTTA-CTTTTAAAATTGAGGTCTCT-ATTTTTTTAAT-CTCAC
1 TTTTTATC-TTTATAATTGAGGTCCCTAATTTTTATAATCCT-AC
* * *
2008039 TTTTTACCTTTATAATTGAGGTCTCTAATTTTTTTAATC
1 TTTTTATCTTTATAATTGAGGTCCCTAATTTTTATAATC
2008078 ATAATTGAGG
Statistics
Matches: 238, Mismatches: 39, Indels: 47
0.73 0.12 0.15
Matches are distributed among these distances:
41 4 0.02
42 89 0.37
43 81 0.34
44 25 0.11
45 7 0.03
48 21 0.09
49 10 0.04
50 1 0.00
ACGTcount: A:0.26, C:0.15, G:0.08, T:0.51
Consensus pattern (43 bp):
TTTTTATCTTTATAATTGAGGTCCCTAATTTTTATAATCCTAC
Found at i:2007988 original size:43 final size:42
Alignment explanation
Indices: 2007734--2008077 Score: 218
Period size: 43 Copynumber: 7.9 Consensus size: 42
2007724 TAATTTTAGT
*
2007734 TTTTTATCTTTATAATTGAGGTCCCTAATTTTTAT-AATC-CTAC
1 TTTTTA-CTTTATAATTGAGGCCCCTAATTTTT-TCAATCTC-AC
* *
2007777 TTTTTATTTTTATAATTGAGG-CCTTAATTTTTTGCAATCTC-C
1 TTTTTA-CTTTATAATTGAGGCCCCTAATTTTTT-CAATCTCAC
* * ** *
2007819 TTTTTTAAAAAAAATTTATAATTGATGATCCTAA-GTTTTCTAATCTCAC
1 -TTTTT------ACTTTATAATTGAGGCCCCTAATTTTTTC-AATCTCAC
* * * ** * *
2007868 TTTGTACGTTTATAATTGA-GCTCTTGGTTTTATTTCAATATCAA
1 TTTTTAC-TTTATAATTGAGGCCCCT-AATTT-TTTCAATCTCAC
* * *
2007912 TTTTTGCCTTTATAATTGAGACCCCTAA-TTTTTCAATCTCAT
1 TTTTT-ACTTTATAATTGAGGCCCCTAATTTTTTCAATCTCAC
*
2007954 TTTTTACTTATATAATTTAGGCCCCTAATTTTTTCAATCTCAC
1 TTTTTACTT-TATAATTGAGGCCCCTAATTTTTTCAATCTCAC
* * * *
2007997 TTTTTACTTTTAAAATTGAGGTCTCT-ATTTTTTTAATCTCAC
1 TTTTTAC-TTTATAATTGAGGCCCCTAATTTTTTCAATCTCAC
* * *
2008039 TTTTTACCTTTATAATTGAGGTCTCTAATTTTTTTAATC
1 TTTTTA-CTTTATAATTGAGGCCCCTAATTTTTTCAATC
2008078 ATAATTGAGG
Statistics
Matches: 242, Mismatches: 35, Indels: 48
0.74 0.11 0.15
Matches are distributed among these distances:
41 4 0.02
42 85 0.35
43 87 0.36
44 25 0.10
45 8 0.03
47 1 0.00
48 26 0.11
49 6 0.02
ACGTcount: A:0.26, C:0.15, G:0.08, T:0.51
Consensus pattern (42 bp):
TTTTTACTTTATAATTGAGGCCCCTAATTTTTTCAATCTCAC
Found at i:2008110 original size:30 final size:28
Alignment explanation
Indices: 2008050--2008110 Score: 95
Period size: 28 Copynumber: 2.1 Consensus size: 28
2008040 TTTTACCTTT
*
2008050 ATAATTGAGGTCTCTAATTTTTTTAATC
1 ATAATTGAGGTCTCTAATTTTTTCAATC
2008078 ATAATTGAGGTCTCTAATTTCTTGTCAATC
1 ATAATTGAGGTCTCTAATTT-TT-TCAATC
2008108 ATA
1 ATA
2008111 CTTTTTGCTT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 20 0.67
29 2 0.07
30 8 0.27
ACGTcount: A:0.30, C:0.13, G:0.11, T:0.46
Consensus pattern (28 bp):
ATAATTGAGGTCTCTAATTTTTTCAATC
Found at i:2009612 original size:17 final size:17
Alignment explanation
Indices: 2009590--2009628 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
2009580 ATATATTTAT
2009590 TAATATTTCTAATAATA
1 TAATATTTCTAATAATA
* *
2009607 TAATATTTTTAATATTA
1 TAATATTTCTAATAATA
2009624 TAATA
1 TAATA
2009629 AAATAATCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (17 bp):
TAATATTTCTAATAATA
Found at i:2009668 original size:26 final size:26
Alignment explanation
Indices: 2009579--2009679 Score: 67
Period size: 26 Copynumber: 4.0 Consensus size: 26
2009569 AAACATTTAA
2009579 AATATATTTATTAATATT-TCTAATAATAT
1 AATATATTT-TT-ATATTAT-T-ATAATAT
*
2009608 -A-ATATTTTTA-A-TATTATAATAA
1 AATATATTTTTATATTATTATAATAT
**
2009630 AATA-ATCAATTATATTATTATAATAT
1 AATATAT-TTTTATATTATTATAATAT
2009656 AATATATTTTTAT-TTA--ATAATAT
1 AATATATTTTTATATTATTATAATAT
2009679 A
1 A
2009680 TAATAAATTA
Statistics
Matches: 59, Mismatches: 6, Indels: 20
0.69 0.07 0.24
Matches are distributed among these distances:
22 6 0.10
23 13 0.22
24 6 0.10
25 5 0.08
26 20 0.34
27 8 0.14
28 1 0.02
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (26 bp):
AATATATTTTTATATTATTATAATAT
Found at i:2009756 original size:23 final size:23
Alignment explanation
Indices: 2009730--2009774 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
2009720 AATAATATTT
2009730 TAATAAAGATATTTAAAATATAC
1 TAATAAAGATATTTAAAATATAC
* * *
2009753 TAATTAATATTTTTAAAATATA
1 TAATAAAGATATTTAAAATATA
2009775 ATATAACACT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (23 bp):
TAATAAAGATATTTAAAATATAC
Found at i:2009919 original size:91 final size:89
Alignment explanation
Indices: 2009743--2009919 Score: 189
Period size: 91 Copynumber: 2.0 Consensus size: 89
2009733 TAAAGATATT
* * * * * *
2009743 TAAAATATACTAATTAATATTTTTAAAATATAATATAACACTATTACTTTAATAAATAATTAATA
1 TAAAATATACAAATTAATATTTTTAAAATAAAATATAAAAATAATACTTTAATAAATAAATAATA
*
2009808 TAATTTATAATATTTTTATTTCAA
66 TAATTTATAATATTTATATTTCAA
*
2009832 TAAAATATACCAATATTAATATTTTTATTAATAAAATTATAAAAATAATA-TTTAAT-AATAAAT
1 TAAAATATA-CAA-ATTAATATTTTTA-AAATAAAA-TATAAAAATAATACTTTAATAAATAAAT
* **
2009895 AA-ATTATTTATTGTATTTAATATTT
62 AATATAATTTATAATATTT-ATATTT
2009920 GTAATAAATA
Statistics
Matches: 72, Mismatches: 11, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
89 9 0.12
90 15 0.21
91 26 0.36
92 12 0.17
93 10 0.14
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.46
Consensus pattern (89 bp):
TAAAATATACAAATTAATATTTTTAAAATAAAATATAAAAATAATACTTTAATAAATAAATAATA
TAATTTATAATATTTATATTTCAA
Found at i:2011089 original size:27 final size:26
Alignment explanation
Indices: 2011035--2011094 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
2011025 CAATTTTGAA
*
2011035 TTTAATTATATGGATTATATTTATAT
1 TTTAATTATATAGATTATATTTATAT
2011061 TTATAATTATATAG-TT-TATTATATGAT
1 TT-TAATTATATAGATTATATT-TAT-AT
2011088 TTTAATT
1 TTTAATT
2011095 TTAGGATGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
25 4 0.13
26 12 0.40
27 14 0.47
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (26 bp):
TTTAATTATATAGATTATATTTATAT
Found at i:2013760 original size:2 final size:2
Alignment explanation
Indices: 2013755--2013793 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
2013745 TTTTTTTTAT
2013755 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2013794 TAGATTAAAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2016021 original size:16 final size:16
Alignment explanation
Indices: 2015999--2016035 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
2015989 ATCTTAAATG
2015999 ATTCTTGAAACATCAA
1 ATTCTTGAAACATCAA
*
2016015 TTTCTTGAAACATCAA
1 ATTCTTGAAACATCAA
2016031 ATTCT
1 ATTCT
2016036 AATGTAAAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.38, C:0.19, G:0.05, T:0.38
Consensus pattern (16 bp):
ATTCTTGAAACATCAA
Found at i:2019112 original size:2 final size:2
Alignment explanation
Indices: 2019105--2019147 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
2019095 CAAAACCACA
2019105 AT AT AT AT 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 AT
2019147 A
1 A
2019148 AGTTTTCAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2019183 original size:39 final size:38
Alignment explanation
Indices: 2019137--2019451 Score: 299
Period size: 39 Copynumber: 8.3 Consensus size: 38
2019127 ATATATATAT
* * * *
2019137 ATATATATATAAGTTTTCAAAAATTATTTTTCAAAATC
1 ATATATATATATGTTTTCAAAAAATGTTTTTCAAAACC
*
2019175 ATAATATATATATGTTTTC-AAAATTGTTTTTCAAAACC
1 AT-ATATATATATGTTTTCAAAAAATGTTTTTCAAAACC
*
2019213 ATACAGTATATATGTTTTCAAAAAATGTTTTTCAAAACC
1 ATATA-TATATATGTTTTCAAAAAATGTTTTTCAAAACC
2019252 ATATAGTATATATGTTTTCAAAAAATGTTTTTCAAAACC
1 ATATA-TATATATGTTTTCAAAAAATGTTTTTCAAAACC
* ** *
2019291 ATATAATATATATATTTT-TTAAAATGTTTTTCAAAACT
1 ATAT-ATATATATGTTTTCAAAAAATGTTTTTCAAAACC
* *
2019329 ATATA-ATATATGTTTTCAAAAAAAAAAGTGTTTTTCGAAACT
1 ATATATATATATGTTTTC----AAAAAA-TGTTTTTCAAAACC
* *
2019371 ATATA-ATATACGTTTAC-AAAAATGTGTTTTCAAAA-C
1 ATATATATATATGTTTTCAAAAAATGT-TTTTCAAAACC
* ** *
2019407 -TATA-ATATATGTTTTTTAAATCAT-ATTTTCAAAACC
1 ATATATATATATG-TTTTCAAAAAATGTTTTTCAAAACC
2019443 ATATA-ATAT
1 ATATATATAT
2019452 GTTTTTAAAC
Statistics
Matches: 238, Mismatches: 24, Indels: 31
0.81 0.08 0.11
Matches are distributed among these distances:
35 19 0.08
36 17 0.07
37 28 0.12
38 55 0.23
39 86 0.36
40 1 0.00
41 4 0.02
42 28 0.12
ACGTcount: A:0.43, C:0.09, G:0.06, T:0.43
Consensus pattern (38 bp):
ATATATATATATGTTTTCAAAAAATGTTTTTCAAAACC
Found at i:2019230 original size:77 final size:74
Alignment explanation
Indices: 2019141--2019421 Score: 275
Period size: 77 Copynumber: 3.7 Consensus size: 74
2019131 ATATATATAT
* * *
2019141 ATATATAAGTTTTCAAAAATTATTTTTCAAAATCATAATATATATATGTTTTCAAAATTGTTTTT
1 ATATATATGTTTTCAAAAA-TGTTTTTCAAAA-CAT-ATATATATATGTTTTCAAAAATGTTTTT
2019206 CAAAACCATACA
63 CAAAACCATACA
*
2019218 GTATATATGTTTTCAAAAAATGTTTTTCAAAACCATATAGTATATATGTTTTCAAAAAATGTTTT
1 ATATATATGTTTTC-AAAAATGTTTTTCAAAA-CATATA-TATATATGTTTTC-AAAAATGTTTT
*
2019283 TCAAAACCATATA
62 TCAAAACCATACA
* **
2019296 ATATATATATTTTTTAAAATGTTTTTCAAAAC-TATATAATATATGTTTTCAAAAAAAAAAGTGT
1 ATATATATGTTTTCAAAAATGTTTTTCAAAACATATAT-ATATATGTTTTC-----AAAAA-TGT
* * *
2019360 TTTTCGAAACTATA-T
59 TTTTCAAAACCATACA
* *
2019375 A-ATATACGTTTACAAAAATGTGTTTTCAAAAC-TATA-ATATATGTTTT
1 ATATATATGTTTTCAAAAATGT-TTTTCAAAACATATATATATATGTTTT
2019422 TTAAATCATA
Statistics
Matches: 176, Mismatches: 18, Indels: 20
0.82 0.08 0.09
Matches are distributed among these distances:
74 1 0.01
75 16 0.09
76 4 0.02
77 66 0.38
78 53 0.30
79 21 0.12
80 15 0.09
ACGTcount: A:0.42, C:0.09, G:0.06, T:0.43
Consensus pattern (74 bp):
ATATATATGTTTTCAAAAATGTTTTTCAAAACATATATATATATGTTTTCAAAAATGTTTTTCAA
AACCATACA
Found at i:2019370 original size:42 final size:41
Alignment explanation
Indices: 2019311--2019392 Score: 128
Period size: 42 Copynumber: 2.0 Consensus size: 41
2019301 TATATTTTTT
* *
2019311 AAAATGTTTTTCAAAACTATATAATATATGTTTTCAAAAAA
1 AAAATGTTTTTCAAAACTATATAATATACGTTTACAAAAAA
*
2019352 AAAAGTGTTTTTCGAAACTATATAATATACGTTTACAAAAA
1 AAAA-TGTTTTTCAAAACTATATAATATACGTTTACAAAAA
2019393 TGTGTTTTCA
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
41 4 0.11
42 33 0.89
ACGTcount: A:0.48, C:0.09, G:0.07, T:0.37
Consensus pattern (41 bp):
AAAATGTTTTTCAAAACTATATAATATACGTTTACAAAAAA
Found at i:2030628 original size:14 final size:14
Alignment explanation
Indices: 2030609--2030639 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
2030599 GATGTGAATG
2030609 AAAAAATAAAAGGA
1 AAAAAATAAAAGGA
*
2030623 AAAAAATGAAAGGA
1 AAAAAATAAAAGGA
2030637 AAA
1 AAA
2030640 CAAGTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.77, C:0.00, G:0.16, T:0.06
Consensus pattern (14 bp):
AAAAAATAAAAGGA
Found at i:2032851 original size:23 final size:24
Alignment explanation
Indices: 2032813--2032857 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
2032803 TTGGACCTAA
*
2032813 AAATAAAAACTGAAATAAATAAAG
1 AAATAAAAACTAAAATAAATAAAG
*
2032837 AAATAAAAA-TAAAATTAATAA
1 AAATAAAAACTAAAATAAATAA
2032858 TAATAGAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.73, C:0.02, G:0.04, T:0.20
Consensus pattern (24 bp):
AAATAAAAACTAAAATAAATAAAG
Found at i:2032862 original size:15 final size:15
Alignment explanation
Indices: 2032837--2032890 Score: 58
Period size: 15 Copynumber: 3.7 Consensus size: 15
2032827 ATAAATAAAG
*
2032837 AAATAAAAATAAAAT
1 AAATAATAATAAAAT
* *
2032852 TAATAATAATAGAAT
1 AAATAATAATAAAAT
*
2032867 AAATAATAA-AAACT
1 AAATAATAATAAAAT
2032881 AAA-AATAATA
1 AAATAATAATA
2032891 TGTCTTCAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
13 5 0.16
14 7 0.22
15 20 0.62
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.24
Consensus pattern (15 bp):
AAATAATAATAAAAT
Found at i:2032975 original size:38 final size:38
Alignment explanation
Indices: 2032933--2033169 Score: 113
Period size: 39 Copynumber: 5.9 Consensus size: 38
2032923 CAAAATAATC
* *
2032933 ATTTTTAAAACTATATATTACATATGATTTCAAAAATT
1 ATTTTCAAAACTATATAATACATATGATTTCAAAAATT
* * * * *
2032971 ATTTTCGAAATTATCTAATATATATGTTTTCAAAAATT
1 ATTTTCAAAACTATATAATACATATGATTTCAAAAATT
* * * *
2033009 GCTTTCCAAAACCACAATATATATATATATATATGTTTTCAAAAATT
1 -ATTTTC-AAA--AC----TATATA-ATACATATGATTTCAAAAATT
* * *
2033056 GTTTTTCAAAA-TCATA-ATATATATATGTTTTCAAAAATT
1 -ATTTTCAAAACT-ATATA-ATACATATGATTTCAAAAATT
* * * *
2033095 GTTTTTCAAAACCATA-ATATATATATGTTTTCTAAAAATGT
1 -ATTTTCAAAACTATATA-ATACATATGATTTC-AAAAAT-T
* * *
2033136 -TTTTCAAAACCATATAATATATATGTTTTCAAAA
1 ATTTTCAAAACTATATAATACATATGATTTCAAAA
2033170 CTATATAATA
Statistics
Matches: 170, Mismatches: 15, Indels: 28
0.80 0.07 0.13
Matches are distributed among these distances:
38 35 0.21
39 86 0.51
40 12 0.07
41 1 0.01
42 1 0.01
44 1 0.01
46 8 0.05
47 26 0.15
ACGTcount: A:0.42, C:0.10, G:0.05, T:0.43
Consensus pattern (38 bp):
ATTTTCAAAACTATATAATACATATGATTTCAAAAATT
Found at i:2033080 original size:86 final size:80
Alignment explanation
Indices: 2032939--2033169 Score: 260
Period size: 78 Copynumber: 2.9 Consensus size: 80
2032929 AATCATTTTT
* * * * * *
2032939 AAAA-CTATATAT-TACATATGATTTCAAAAATT-ATTTTCGAAATTATCTAATATATATGTTTT
1 AAAACCTATATATATATATATGTTTTCAAAAATTGTTTTTCAAAATCATATAATATATATGTTTT
2033001 CAAAAATTGCTTTCC
66 CAAAAATTGCTTTCC
2033016 AAAACCACAATATATATATATATATATGTTTTCAAAAATTGTTTTTCAAAATCATA-ATATATAT
1 AAAA-C-C----TATATATATATATATGTTTTCAAAAATTGTTTTTCAAAATCATATA-ATATAT
* *
2033080 ATGTTTTCAAAAATTGTTTTTC
59 ATGTTTTCAAAAATTGCTTTCC
*
2033102 AAAACC-ATA-ATATATATATGTTTTCTAAAAA-TGTTTTTCAAAACCATATAATATATATGTTT
1 AAAACCTATATATATATATATGTTTTC-AAAAATTGTTTTTCAAAATCATATAATATATATGTTT
2033164 TCAAAA
65 TCAAAA
2033170 CTATATAATA
Statistics
Matches: 133, Mismatches: 9, Indels: 23
0.81 0.05 0.14
Matches are distributed among these distances:
77 4 0.03
78 50 0.38
79 9 0.07
80 1 0.01
84 8 0.06
85 20 0.15
86 41 0.31
ACGTcount: A:0.42, C:0.10, G:0.05, T:0.42
Consensus pattern (80 bp):
AAAACCTATATATATATATATGTTTTCAAAAATTGTTTTTCAAAATCATATAATATATATGTTTT
CAAAAATTGCTTTCC
Found at i:2033087 original size:39 final size:39
Alignment explanation
Indices: 2033033--2033169 Score: 233
Period size: 39 Copynumber: 3.5 Consensus size: 39
2033023 CAATATATAT
*
2033033 ATATATATATGTTTTCAAAAATTGTTTTTCAAAATCATA
1 ATATATATATGTTTTCAAAAATTGTTTTTCAAAACCATA
2033072 ATATATATATGTTTTCAAAAATTGTTTTTCAAAACCATA
1 ATATATATATGTTTTCAAAAATTGTTTTTCAAAACCATA
2033111 ATATATATATGTTTTCTAAAAA-TGTTTTTCAAAACCAT-
1 ATATATATATGTTTTC-AAAAATTGTTTTTCAAAACCATA
2033149 ATAATATATATGTTTTCAAAA
1 AT-ATATATATGTTTTCAAAA
2033170 CTATATAATA
Statistics
Matches: 95, Mismatches: 1, Indels: 5
0.94 0.01 0.05
Matches are distributed among these distances:
38 6 0.06
39 84 0.88
40 5 0.05
ACGTcount: A:0.42, C:0.09, G:0.05, T:0.45
Consensus pattern (39 bp):
ATATATATATGTTTTCAAAAATTGTTTTTCAAAACCATA
Found at i:2033164 original size:65 final size:64
Alignment explanation
Indices: 2033097--2033221 Score: 173
Period size: 65 Copynumber: 1.9 Consensus size: 64
2033087 CAAAAATTGT
*
2033097 TTTTCAAAACCATAATATATATATGTTTTC-TAAAAA-TGTTTTTCAAAACCATATAATATATAT
1 TTTTCAAAACCAT-ATA-ATATATGTTTTCAAAAAAATTGTTTTTCAAAACCATATAATATATAT
2033160 G
64 G
* * *
2033161 TTTTCAAAACTATATAATATATGTTTTCAAAAAAAATTGTTTTTCGAAACTATATAATATA
1 TTTTCAAAACCATATAATATATGTTTTC-AAAAAAATTGTTTTTCAAAACCATATAATATA
2033222 CGTTTTCAAA
Statistics
Matches: 54, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
62 12 0.22
63 3 0.06
64 17 0.31
65 22 0.41
ACGTcount: A:0.43, C:0.10, G:0.05, T:0.42
Consensus pattern (64 bp):
TTTTCAAAACCATATAATATATGTTTTCAAAAAAATTGTTTTTCAAAACCATATAATATATATG
Found at i:2033180 original size:23 final size:23
Alignment explanation
Indices: 2033136--2033232 Score: 98
Period size: 23 Copynumber: 4.4 Consensus size: 23
2033126 CTAAAAATGT
*
2033136 TTTTCAAAACCATATAATATATATG
1 TTTTCAAAACTATAT-A-ATATATG
2033161 TTTTCAAAACTATATAATATATG
1 TTTTCAAAACTATATAATATATG
*
2033184 TTTTCAAAA--A-A-AAT-TGT-
1 TTTTCAAAACTATATAATATATG
* *
2033201 TTTTCGAAACTATATAATATACG
1 TTTTCAAAACTATATAATATATG
2033224 TTTTCAAAA
1 TTTTCAAAA
2033233 ATATGTTTTC
Statistics
Matches: 60, Mismatches: 6, Indels: 14
0.75 0.08 0.17
Matches are distributed among these distances:
17 8 0.13
18 2 0.03
19 4 0.07
20 2 0.03
21 4 0.07
22 1 0.02
23 24 0.40
24 1 0.02
25 14 0.23
ACGTcount: A:0.43, C:0.10, G:0.05, T:0.41
Consensus pattern (23 bp):
TTTTCAAAACTATATAATATATG
Found at i:2033213 original size:40 final size:37
Alignment explanation
Indices: 2033158--2033262 Score: 142
Period size: 40 Copynumber: 2.8 Consensus size: 37
2033148 TATAATATAT
2033158 ATGTTTTCAAAACTATATAATATATGTTTTCAAAAAAA
1 ATGTTTTCAAAACTATATAATATATGTTTTC-AAAAAA
* * *
2033196 ATTGTTTTTCGAAACTATATAATATACGTTTTCAAAAAT
1 A-TG-TTTTCAAAACTATATAATATATGTTTTCAAAAAA
2033235 ATGTTTTCAAAAC--TATAATATATGTTTT
1 ATGTTTTCAAAACTATATAATATATGTTTT
2033263 TTAAATCGTA
Statistics
Matches: 60, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
35 14 0.23
37 9 0.15
38 3 0.05
39 8 0.13
40 26 0.43
ACGTcount: A:0.41, C:0.09, G:0.07, T:0.44
Consensus pattern (37 bp):
ATGTTTTCAAAACTATATAATATATGTTTTCAAAAAA
Found at i:2033328 original size:35 final size:36
Alignment explanation
Indices: 2033238--2033304 Score: 104
Period size: 35 Copynumber: 1.9 Consensus size: 36
2033228 CAAAAATATG
*
2033238 TTTTCAAAACTATA-ATATATGTTTTTTAAATCGTA
1 TTTTCAAAACCATATATATATGTTTTTTAAATCGTA
2033273 TTTTCAAAACCATATA-ATATG-TTTTTAAATCG
1 TTTTCAAAACCATATATATATGTTTTTTAAATCG
2033305 GTTTTTAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
34 11 0.37
35 18 0.60
36 1 0.03
ACGTcount: A:0.37, C:0.10, G:0.06, T:0.46
Consensus pattern (36 bp):
TTTTCAAAACCATATATATATGTTTTTTAAATCGTA
Found at i:2035024 original size:16 final size:16
Alignment explanation
Indices: 2035005--2035064 Score: 56
Period size: 16 Copynumber: 4.0 Consensus size: 16
2034995 AATATTACTG
2035005 CTAATTAAAAGTAATA
1 CTAATTAAAAGTAATA
*
2035021 CTAA-T-AAAGT-TTA
1 CTAATTAAAAGTAATA
*
2035034 AT-ATTAAAAGTAATA
1 CTAATTAAAAGTAATA
* *
2035049 CTAATAAAAATTAATA
1 CTAATTAAAAGTAATA
2035065 ATTAAAGTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
12 1 0.03
13 4 0.12
14 10 0.29
15 4 0.12
16 15 0.44
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.33
Consensus pattern (16 bp):
CTAATTAAAAGTAATA
Found at i:2035039 original size:28 final size:29
Alignment explanation
Indices: 2035006--2035074 Score: 106
Period size: 28 Copynumber: 2.4 Consensus size: 29
2034996 ATATTACTGC
**
2035006 TAATTAAAAGTAATACTAATAAAGTTTAA
1 TAATTAAAAGTAATACTAATAAAAATTAA
2035035 T-ATTAAAAGTAATACTAATAAAAATTAA
1 TAATTAAAAGTAATACTAATAAAAATTAA
2035063 TAATT-AAAGTAA
1 TAATTAAAAGTAA
2035075 AATATTAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
28 33 0.89
29 4 0.11
ACGTcount: A:0.58, C:0.03, G:0.06, T:0.33
Consensus pattern (29 bp):
TAATTAAAAGTAATACTAATAAAAATTAA
Found at i:2037060 original size:12 final size:12
Alignment explanation
Indices: 2037045--2037079 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
2037035 CTTTTATAAC
2037045 TATATCTATATA
1 TATATCTATATA
2037057 TATATCTATATA
1 TATATCTATATA
* *
2037069 TCTATATATAT
1 TATATCTATAT
2037080 TACTTATTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.40, C:0.09, G:0.00, T:0.51
Consensus pattern (12 bp):
TATATCTATATA
Found at i:2041759 original size:62 final size:62
Alignment explanation
Indices: 2041634--2041765 Score: 151
Period size: 62 Copynumber: 2.1 Consensus size: 62
2041624 TATAACCATG
* * ** *
2041634 TAGTAAAGTATCATATAAAAATAAATTGGGTTGTTCATACCTAAAATCATTCATAAATTATT
1 TAGTAAAATACCATATAAAAATAAATTGGGTAATTCATACCTAAAATCATTCATAAATCATT
* * * *
2041696 TAGTAAAATACCATATAAAAA-AGTATTGGGTAATTCATACCTAAAATCGTGTGA-ATATCATT
1 TAGTAAAATACCATATAAAAATA-AATTGGGTAATTCATACCTAAAATCAT-TCATAAATCATT
2041758 TAGTAAAA
1 TAGTAAAA
2041766 CAGTATAAAA
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
61 1 0.02
62 56 0.95
63 2 0.03
ACGTcount: A:0.45, C:0.10, G:0.11, T:0.34
Consensus pattern (62 bp):
TAGTAAAATACCATATAAAAATAAATTGGGTAATTCATACCTAAAATCATTCATAAATCATT
Found at i:2045532 original size:3 final size:3
Alignment explanation
Indices: 2045511--2045602 Score: 121
Period size: 3 Copynumber: 30.7 Consensus size: 3
2045501 TTGCCCATTT
* * * * *
2045511 TTA TTT TTA TTA TTT TTA TTA TTA TAA ATA TTT TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
2045559 TTA TTA TTA TTA TTA TTA TTA TAA ATA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
2045603 TCAGGCCTGA
Statistics
Matches: 75, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 75 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:2047147 original size:18 final size:19
Alignment explanation
Indices: 2047116--2047155 Score: 73
Period size: 18 Copynumber: 2.2 Consensus size: 19
2047106 TCTTAGGAAA
2047116 ATTTATTATATTTTTTAAT
1 ATTTATTATATTTTTTAAT
2047135 ATTTATT-TATTTTTTAAT
1 ATTTATTATATTTTTTAAT
2047153 ATT
1 ATT
2047156 ATAGAAAGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 14 0.67
19 7 0.33
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (19 bp):
ATTTATTATATTTTTTAAT
Found at i:2048011 original size:23 final size:23
Alignment explanation
Indices: 2047985--2048044 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
2047975 ATCAAGCACA
* *
2047985 ATAACATATTAGGTAGCGTTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
2048008 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
* *
2048031 ATAATAAAATAGGT
1 ATAACATAATAGGT
2048045 TAATTACTGG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.40, C:0.07, G:0.18, T:0.35
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:2048031 original size:87 final size:87
Alignment explanation
Indices: 2047885--2048119 Score: 380
Period size: 87 Copynumber: 2.7 Consensus size: 87
2047875 AACCGTAAAT
* * * * *
2047885 ATTATCAAGTAAAATAACAAATTAGGTAACGTTTATATAATGTAATAGATAGCGCTTATATAATA
1 ATTATCAAGCACAATAACATATTAGGTAGCGTTTATATAATGTAATAGGTAGCGCTTATATAATA
2047950 AAATAGGTTAATTACTGGAAAC
66 AAATAGGTTAATTACTGGAAAC
2047972 ATTATCAAGCACAATAACATATTAGGTAGCGTTTATATAATGTAATAGGTAGCGCTTATATAATA
1 ATTATCAAGCACAATAACATATTAGGTAGCGTTTATATAATGTAATAGGTAGCGCTTATATAATA
*
2048037 AAATAGGTTAATTACTGGAAAT
66 AAATAGGTTAATTACTGGAAAC
* * * *
2048059 ATTATCAATCACAATAATATATTAGGTAGCGCTTATATAATGTAATATGTAGCGCTTATAT
1 ATTATCAAGCACAATAACATATTAGGTAGCGTTTATATAATGTAATAGGTAGCGCTTATAT
2048120 TGACCTATTC
Statistics
Matches: 138, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
87 138 1.00
ACGTcount: A:0.42, C:0.09, G:0.14, T:0.34
Consensus pattern (87 bp):
ATTATCAAGCACAATAACATATTAGGTAGCGTTTATATAATGTAATAGGTAGCGCTTATATAATA
AAATAGGTTAATTACTGGAAAC
Found at i:2048764 original size:200 final size:199
Alignment explanation
Indices: 2048121--2048800 Score: 976
Period size: 198 Copynumber: 3.4 Consensus size: 199
2048111 CGCTTATATT
* * * * *
2048121 GACCTATTCTATCATAAAACCGATATATTTATACCGGTAACATTGCAAAATTACTTATTACATTA
1 GACCTATTCTCTCATAAAACCGATATATTTATACCGGTTACATTGTAAATTTACCTATTACATTA
** * *
2048186 TAATTATCGGTTTCGATGGTTTTGGAATCGATACAATTT--TAAATGTATCGACACTTTATGCGT
66 TAATTATCGGTTTCGATATTTTTGGGATCGATAC-TTTTAATAAATGTATCGACACTTTATGCGT
* * * *
2048249 ACACCTCGTTGGGCATTCATTCTGGAAAAAAGTATCGACACAAACTTAAAACGTGTCAATACATT
130 GCACCTCGTTTGGCATTCATTCTGGAAAAAAGTATCGACACAAACTTAAAATGTGTCGATACATT
2048314 ATGTA
195 ATGTA
* * * * * *
2048319 GACCTATTTTCTCATAAAACCGGTATATTTCTACCGGGTACATTGTAAATTTACCTATTATATTG
1 GACCTATTCTCTCATAAAACCGATATATTTATACCGGTTACATTGTAAATTTACCTATTACATTA
**
2048384 TAATTATCGGTTTCGAT-TTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATATGTG
66 TAATTATCGGTTTCGATATTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGCGTG
2048448 CACCTCG-TTGGACATTCATTCTGGAAAAAAGTATCGACACAAACTTAAAATGTGTCGATACATT
131 CACCTCGTTTGG-CATTCATTCTGGAAAAAAGTATCGACACAAACTTAAAATGTGTCGATACATT
2048512 ATGTA
195 ATGTA
* * *
2048517 GACCTATTTTCTCATAAAACCGATATATTTCTACCGAG-TAAATTGTAAATTTACCTATTACATT
1 GACCTATTCTCTCATAAAACCGATATATTTATACCG-GTTACATTGTAAATTTACCTATTACATT
* *
2048581 GTAATTATTGGTTTCGATATTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGCGT
65 ATAATTATCGGTTTCGATATTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGCGT
* * *** *
2048646 GCACCTCGTTTGGCATTGATTCTGGACAAAATGTATCGACAC-TTTTTAAATTTGTGTCGATACA
130 GCACCTCGTTTGGCATTCATTCTGGA-AAAAAGTATCGACACAAACTTAAA-ATGTGTCGATACA
2048710 TTATGTA
193 TTATGTA
*
2048717 GACCTATTCTCTCATAAAACCGATATATTTATACTGGTTACATTGTAAATTTACCTATTACATTA
1 GACCTATTCTCTCATAAAACCGATATATTTATACCGGTTACATTGTAAATTTACCTATTACATTA
2048782 TAATTATCGGTTTCGATAT
66 TAATTATCGGTTTCGATAT
2048801 AACATTTGTG
Statistics
Matches: 435, Mismatches: 38, Indels: 16
0.89 0.08 0.03
Matches are distributed among these distances:
196 3 0.01
197 17 0.04
198 231 0.53
199 71 0.16
200 113 0.26
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.38
Consensus pattern (199 bp):
GACCTATTCTCTCATAAAACCGATATATTTATACCGGTTACATTGTAAATTTACCTATTACATTA
TAATTATCGGTTTCGATATTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGCGTG
CACCTCGTTTGGCATTCATTCTGGAAAAAAGTATCGACACAAACTTAAAATGTGTCGATACATTA
TGTA
Found at i:2049106 original size:54 final size:54
Alignment explanation
Indices: 2048986--2049106 Score: 133
Period size: 54 Copynumber: 2.2 Consensus size: 54
2048976 AATAAATAAT
*
2048986 ATTATTTTATTATATTTTATGTTTATAATTATATTGTAATTATGATTATTTTTC
1 ATTATTTTATTATATTTTATGTTTAAAATTATATTGTAATTATGATTATTTTTC
* * *
2049040 ATCACTTCATTATGATTATT-T-TTTAAAATTATATTGTAATTAT-ATATAATTTTT-
1 ATTATTTTATTAT-ATT-TTATGTTTAAAATTATATTGTAATTATGAT-T-ATTTTTC
*
2049094 TTTATTTTATTAT
1 ATTATTTTATTAT
2049107 TTGAAAGCTA
Statistics
Matches: 55, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
53 2 0.04
54 41 0.75
55 10 0.18
56 2 0.04
ACGTcount: A:0.31, C:0.03, G:0.04, T:0.61
Consensus pattern (54 bp):
ATTATTTTATTATATTTTATGTTTAAAATTATATTGTAATTATGATTATTTTTC
Found at i:2049315 original size:21 final size:21
Alignment explanation
Indices: 2049275--2049316 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
2049265 CCGGTAAAAA
* *
2049275 CTACCTAAAACATTATTATTT
1 CTACCTAAAACATCAATATTT
2049296 CTACCTAAAACATCAATATTT
1 CTACCTAAAACATCAATATTT
2049317 TTTAACATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.40, C:0.21, G:0.00, T:0.38
Consensus pattern (21 bp):
CTACCTAAAACATCAATATTT
Found at i:2049628 original size:31 final size:30
Alignment explanation
Indices: 2049591--2049684 Score: 88
Period size: 28 Copynumber: 3.2 Consensus size: 30
2049581 TAAAAAATAA
*
2049591 AAAATATAATTTATAATAATTTTATT-TTAAT
1 AAAATATAA-TAATAATAATTTT-TTATTAAT
* *
2049622 AAAATATAATAATCATAATTTTTTATTTAT
1 AAAATATAATAATAATAATTTTTTATTAAT
* *
2049652 AAAAT-T-ATAGAT-ATAATATTTTAATAAT
1 AAAATATAATA-ATAATAATTTTTTATTAAT
2049680 AAAAT
1 AAAAT
2049685 TTACATAAAT
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
28 21 0.38
29 5 0.09
30 20 0.36
31 9 0.16
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (30 bp):
AAAATATAATAATAATAATTTTTTATTAAT
Found at i:2049768 original size:24 final size:25
Alignment explanation
Indices: 2049700--2049768 Score: 67
Period size: 24 Copynumber: 2.9 Consensus size: 25
2049690 TAAATAATGT
*
2049700 TAAATAA-ATTATTCTAATATT-TTAA
1 TAAATAATATTA-T-TATTATTGTTAA
*
2049725 -AAATATTATTATTATT-TTGTTAA
1 TAAATAATATTATTATTATTGTTAA
2049748 TAAATAATATTATT-TTATTGT
1 TAAATAATATTATTATTATTGT
2049769 ATTTGATGTT
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
22 2 0.05
23 9 0.24
24 22 0.59
25 4 0.11
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (25 bp):
TAAATAATATTATTATTATTGTTAA
Found at i:2050048 original size:23 final size:23
Alignment explanation
Indices: 2050022--2050071 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
2050012 ACCTATTTTA
* *
2050022 TTATATAAGTGCTACCTATTACG
1 TTATATAAGCGCTACCTAATACG
* *
2050045 TTATATAAGCGTTACCTAATATG
1 TTATATAAGCGCTACCTAATACG
2050068 TTAT
1 TTAT
2050072 TGTACTTGAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.42
Consensus pattern (23 bp):
TTATATAAGCGCTACCTAATACG
Found at i:2050110 original size:87 final size:87
Alignment explanation
Indices: 2050004--2050236 Score: 342
Period size: 87 Copynumber: 2.7 Consensus size: 87
2049994 TAACAAATTA
* * *
2050004 AATAATTAACCTATTTTATTATATAAGTGCTACCTATTACGTTATATAAGCGTTACCTAATATGT
1 AATAATTAACCTATTTTATTATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGT
2050069 TATTGTACTTGATAATGTTTC-
66 TATTGTACTTGATAATGTTTCT
* * * * * *
2050090 AAGTAATTAACATATTTTATTATATATGCACTACCTATTACATTATATAACCGGTATCTAATATG
1 AA-TAATTAACCTATTTTATTATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATG
*
2050155 TTATTGTGCTTGATAATGTTTCT
65 TTATTGTACTTGATAATGTTTCT
* *
2050178 AATAATTAACCTATTTTATTATATAAGCGCTACATATTACATTATATTAGCGCTACCTA
1 AATAATTAACCTATTTTATTATATAAGCGCTACCTATTACATTATATAAGCGCTACCTA
2050237 TTACATTATA
Statistics
Matches: 128, Mismatches: 17, Indels: 3
0.86 0.11 0.02
Matches are distributed among these distances:
86 2 0.02
87 124 0.97
88 2 0.02
ACGTcount: A:0.34, C:0.14, G:0.09, T:0.43
Consensus pattern (87 bp):
AATAATTAACCTATTTTATTATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGT
TATTGTACTTGATAATGTTTCT
Found at i:2050215 original size:23 final size:23
Alignment explanation
Indices: 2050186--2050275 Score: 117
Period size: 23 Copynumber: 3.9 Consensus size: 23
2050176 CTAATAATTA
**
2050186 ACCTATTTTATTATATAAGCGCT
1 ACCTATTACATTATATAAGCGCT
* *
2050209 ACATATTACATTATATTAGCGCT
1 ACCTATTACATTATATAAGCGCT
*
2050232 ACCTATTACATTATATAAGTGCT
1 ACCTATTACATTATATAAGCGCT
* *
2050255 ACCTAATGCATTATATAAGCG
1 ACCTATTACATTATATAAGCG
2050276 GTATCTAATA
Statistics
Matches: 57, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 57 1.00
ACGTcount: A:0.34, C:0.18, G:0.10, T:0.38
Consensus pattern (23 bp):
ACCTATTACATTATATAAGCGCT
Found at i:2050283 original size:23 final size:23
Alignment explanation
Indices: 2050195--2050285 Score: 110
Period size: 23 Copynumber: 4.0 Consensus size: 23
2050185 AACCTATTTT
* *
2050195 ATTATATAAGCGCTACATATTAC
1 ATTATATAAGCGCTACCTAATAC
* *
2050218 ATTATATTAGCGCTACCTATTAC
1 ATTATATAAGCGCTACCTAATAC
* *
2050241 ATTATATAAGTGCTACCTAATGC
1 ATTATATAAGCGCTACCTAATAC
* *
2050264 ATTATATAAGCGGTATCTAATA
1 ATTATATAAGCGCTACCTAATA
2050286 TGTTATTGTG
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 58 1.00
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.36
Consensus pattern (23 bp):
ATTATATAAGCGCTACCTAATAC
Found at i:2050349 original size:133 final size:133
Alignment explanation
Indices: 2050120--2050380 Score: 432
Period size: 133 Copynumber: 2.0 Consensus size: 133
2050110 TATATATGCA
* * *
2050120 CTACCTATTACATTATATAACCGGTATCTAATATGTTATTGTGCTTGATAATGTTTCTAATAATT
1 CTACCTAATACATTATATAACCGGTATCTAATATGTTATTGTGCTTAATAATGTTTCCAATAATT
* * *
2050185 AACCTATTTTATTATATAAGCGCTACATATTACATTATATTAGCGCTACCTATTACATTATATAA
66 AACCTATTTTATTATATAAGCACTACATATTACATTATATAAGCGCTACCTATTACATCATATAA
2050250 GTG
131 GTG
* * *
2050253 CTACCTAATGCATTATATAAGCGGTATCTAATATGTTATTGTGCTTAATAATGTTTCCAGTAATT
1 CTACCTAATACATTATATAACCGGTATCTAATATGTTATTGTGCTTAATAATGTTTCCAATAATT
*
2050318 AACCTATTTTATTATATAAGCACTACCTATTACATTATATAAGCGCTACCTATTACATCATAT
66 AACCTATTTTATTATATAAGCACTACATATTACATTATATAAGCGCTACCTATTACATCATAT
2050381 TTTTACCTGT
Statistics
Matches: 118, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
133 118 1.00
ACGTcount: A:0.33, C:0.16, G:0.10, T:0.41
Consensus pattern (133 bp):
CTACCTAATACATTATATAACCGGTATCTAATATGTTATTGTGCTTAATAATGTTTCCAATAATT
AACCTATTTTATTATATAAGCACTACATATTACATTATATAAGCGCTACCTATTACATCATATAA
GTG
Found at i:2050354 original size:23 final size:23
Alignment explanation
Indices: 2050319--2050380 Score: 88
Period size: 23 Copynumber: 2.7 Consensus size: 23
2050309 CCAGTAATTA
**
2050319 ACCTATTTTATTATATAAGCACT
1 ACCTATTACATTATATAAGCACT
*
2050342 ACCTATTACATTATATAAGCGCT
1 ACCTATTACATTATATAAGCACT
*
2050365 ACCTATTACATCATAT
1 ACCTATTACATTATAT
2050381 TTTTACCTGT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.35, C:0.21, G:0.05, T:0.39
Consensus pattern (23 bp):
ACCTATTACATTATATAAGCACT
Found at i:2055050 original size:31 final size:32
Alignment explanation
Indices: 2055002--2055085 Score: 89
Period size: 32 Copynumber: 2.7 Consensus size: 32
2054992 TGTGACTCTT
* * *
2055002 AGGTAGGCTCTGCGGCCCTGAGAT-CATTCTC
1 AGGTAGGCCCTGTGGCCCTAAGATGCATTCTC
* ** *
2055033 GGGTAGGCCCTGTGGCCCTAAGATGTGTTCTT
1 AGGTAGGCCCTGTGGCCCTAAGATGCATTCTC
*
2055065 AGGTAGGCCCCGTGGCCCTAA
1 AGGTAGGCCCTGTGGCCCTAA
2055086 AACTTTCTTG
Statistics
Matches: 43, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
31 20 0.47
32 23 0.53
ACGTcount: A:0.15, C:0.27, G:0.32, T:0.25
Consensus pattern (32 bp):
AGGTAGGCCCTGTGGCCCTAAGATGCATTCTC
Found at i:2055071 original size:32 final size:31
Alignment explanation
Indices: 2054998--2055102 Score: 95
Period size: 31 Copynumber: 3.4 Consensus size: 31
2054988 CTAATGTGAC
* * *
2054998 TCTTAGGTAGGCTCTGCGGCCCTGAGATCAT
1 TCTTAGGTAGGCCCTGTGGCCCTAAGATCAT
** **
2055029 TCTCGGGTAGGCCCTGTGGCCCTAAGATGTGT
1 TCTTAGGTAGGCCCTGTGGCCCTAAGAT-CAT
* * *
2055061 TCTTAGGTAGGCCCCGTGGCCCTAA-AACTT
1 TCTTAGGTAGGCCCTGTGGCCCTAAGATCAT
*
2055091 TCTTGGGTAGGC
1 TCTTAGGTAGGC
2055103 TCTCAGGCCC
Statistics
Matches: 59, Mismatches: 14, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
30 12 0.20
31 24 0.41
32 23 0.39
ACGTcount: A:0.15, C:0.26, G:0.30, T:0.29
Consensus pattern (31 bp):
TCTTAGGTAGGCCCTGTGGCCCTAAGATCAT
Found at i:2055100 original size:30 final size:32
Alignment explanation
Indices: 2055028--2055102 Score: 91
Period size: 32 Copynumber: 2.4 Consensus size: 32
2055018 CCTGAGATCA
* * **
2055028 TTCTCGGGTAGGCCCTGTGGCCCTAAGATGTG
1 TTCTTGGGTAGGCCCCGTGGCCCTAAGAACTG
*
2055060 TTCTTAGGTAGGCCCCGTGGCCCTAA-AACT-
1 TTCTTGGGTAGGCCCCGTGGCCCTAAGAACTG
2055090 TTCTTGGGTAGGC
1 TTCTTGGGTAGGC
2055103 TCTCAGGCCC
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
30 12 0.32
31 2 0.05
32 23 0.62
ACGTcount: A:0.15, C:0.25, G:0.31, T:0.29
Consensus pattern (32 bp):
TTCTTGGGTAGGCCCCGTGGCCCTAAGAACTG
Found at i:2066125 original size:18 final size:18
Alignment explanation
Indices: 2066080--2066130 Score: 61
Period size: 17 Copynumber: 2.9 Consensus size: 18
2066070 TCAGAGTTTG
* *
2066080 TTTAATAAATGAACT-AG
1 TTTAATTAATGAACTAAC
2066097 TTTAATTAATGAACTAAC
1 TTTAATTAATGAACTAAC
2066115 TTT-ATTCAATGAACTA
1 TTTAATT-AATGAACTA
2066131 GATGTTTTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
17 17 0.57
18 13 0.43
ACGTcount: A:0.43, C:0.10, G:0.08, T:0.39
Consensus pattern (18 bp):
TTTAATTAATGAACTAAC
Found at i:2069883 original size:22 final size:21
Alignment explanation
Indices: 2069856--2069953 Score: 64
Period size: 22 Copynumber: 4.7 Consensus size: 21
2069846 TACCTCCTGA
2069856 GGGGTATCGGTACCATTGCATG
1 GGGGTATCGGTACCATTG-ATG
* *
2069878 GGGGTATTGATACC--T-ATGG
1 GGGGTATCGGTACCATTGAT-G
*
2069897 GGGGTATCGGTACCTTATAGA-G
1 GGGGTATCGGTACC--ATTGATG
*
2069919 GGGGTATCGGTACC-CT-ATAG
1 GGGGTATCGGTACCATTGAT-G
*
2069939 GGGGTATCGATACCA
1 GGGGTATCGGTACCA
2069954 CACTAAGTAA
Statistics
Matches: 59, Mismatches: 8, Indels: 19
0.69 0.09 0.22
Matches are distributed among these distances:
18 3 0.05
19 13 0.22
20 15 0.25
22 27 0.46
24 1 0.02
ACGTcount: A:0.21, C:0.16, G:0.36, T:0.27
Consensus pattern (21 bp):
GGGGTATCGGTACCATTGATG
Found at i:2069942 original size:20 final size:20
Alignment explanation
Indices: 2069877--2069952 Score: 82
Period size: 20 Copynumber: 3.8 Consensus size: 20
2069867 ACCATTGCAT
* *
2069877 GGGGGTATTGATA-CCTATG
1 GGGGGTATCGATACCCTATA
* *
2069896 GGGGGTATCGGTACCTTATAGA
1 GGGGGTATCGATACCCTAT--A
*
2069918 GGGGGTATCGGTACCCTATA
1 GGGGGTATCGATACCCTATA
2069938 GGGGGTATCGATACC
1 GGGGGTATCGATACC
2069953 ACACTAAGTA
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
19 11 0.23
20 19 0.40
22 18 0.38
ACGTcount: A:0.21, C:0.16, G:0.37, T:0.26
Consensus pattern (20 bp):
GGGGGTATCGATACCCTATA
Found at i:2072655 original size:21 final size:23
Alignment explanation
Indices: 2072604--2072657 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
2072594 ATCAGGGGGA
2072604 TATCGATACCCATTCAAAGATGG
1 TATCGATACCCATTCAAAGATGG
* * *
2072627 TATTGATACCTATT-ATAGA-GG
1 TATCGATACCCATTCAAAGATGG
2072648 TATCGATACC
1 TATCGATACC
2072658 GGTCTTAGGG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 11 0.41
22 4 0.15
23 12 0.44
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (23 bp):
TATCGATACCCATTCAAAGATGG
Found at i:2075870 original size:82 final size:83
Alignment explanation
Indices: 2075802--2076112 Score: 310
Period size: 82 Copynumber: 3.8 Consensus size: 83
2075792 ACAAATGCTG
*
2075802 CAATAGAATGGTAAATTAGTGGCGTTTATACCATAAACGCCACAATAGATTAACATATAGTGGCG
1 CAATAGAATGGTAAATTAGCGGCGTTTATACCATAAACGCCACAATAGATTAACATATAGTGGCG
*
2075867 -TTTTAGGCAAAACGCCA
66 TTTTTAGACAAAACGCCA
* * * * * * ** **** *
2075884 CAATAGATTGGTAAATTAGCGGCGTTTTTTA-TAAAAACACCGCAATAGGGTGGTTTATTGTGGC
1 CAATAGAATGGTAAATTAGCGGCG-TTTATACCATAAACGCCACAATAGATTAACATATAGTGGC
* * * *
2075948 GTTTTTTA-A-TAAATGACG
65 G-TTTTTAGACAAAACGCCA
*
2075966 CAATAGAATGGTAAATTAGCGGCGTTTATACCATAAATGCCACAATAGATTAACATATAGTGGC-
1 CAATAGAATGGTAAATTAGCGGCGTTTATACCATAAACGCCACAATAGATTAACATATAGTGGCG
* *
2076030 ATTTTAGCCAAAACGCCA
66 TTTTTAGACAAAACGCCA
* * **
2076048 CAATA-TATCGGCAAATTAGCGGCGTTTATACCATAAACGCCGTAATAGATTACACATATAGTGG
1 CAATAGAAT-GGTAAATTAGCGGCGTTTATACCATAAACGCCACAATAGATTA-ACATATAGTGG
2076112 C
64 C
2076113 ATTTATTCTT
Statistics
Matches: 177, Mismatches: 44, Indels: 15
0.75 0.19 0.06
Matches are distributed among these distances:
80 5 0.03
81 7 0.04
82 143 0.81
83 17 0.10
84 5 0.03
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.28
Consensus pattern (83 bp):
CAATAGAATGGTAAATTAGCGGCGTTTATACCATAAACGCCACAATAGATTAACATATAGTGGCG
TTTTTAGACAAAACGCCA
Found at i:2075954 original size:164 final size:166
Alignment explanation
Indices: 2075734--2076074 Score: 519
Period size: 164 Copynumber: 2.1 Consensus size: 166
2075724 ATTTGACATA
* *
2075734 TAGCGGCG-TTTTTACAAAAAAAACGTCGCAATAGTGTGGTTTATTGCGGTGTTTTTTAACAAAT
1 TAGCGGCGTTTTTTACAAAAAAAACG-CGCAATAGGGTGGTTTATTGCGGCGTTTTTTAACAAAT
*
2075798 G-CTGCAATAGAATGGTAAATTAGTGGCGTTTATACCATAAACGCCACAATAGATTAACATATAG
65 GAC-GCAATAGAATGGTAAATTAGCGGCGTTTATACCATAAACGCCACAATAGATTAACATATAG
* * * *
2075862 TGGCGTTTTAGGCAAAACGCCACAATAGATTGGTAAAT
129 TGGCATTTTAGCCAAAACGCCACAATAGATCGGCAAAT
* * * *
2075900 TAGCGGCGTTTTTTA-TAAAAACAC-CGCAATAGGGTGGTTTATTGTGGCGTTTTTTAATAAATG
1 TAGCGGCGTTTTTTACAAAAAAAACGCGCAATAGGGTGGTTTATTGCGGCGTTTTTTAACAAATG
*
2075963 ACGCAATAGAATGGTAAATTAGCGGCGTTTATACCATAAATGCCACAATAGATTAACATATAGTG
66 ACGCAATAGAATGGTAAATTAGCGGCGTTTATACCATAAACGCCACAATAGATTAACATATAGTG
*
2076028 GCATTTTAGCCAAAACGCCACAATATATCGGCAAAT
131 GCATTTTAGCCAAAACGCCACAATAGATCGGCAAAT
2076064 TAGCGGCGTTT
1 TAGCGGCGTTT
2076075 ATACCATAAA
Statistics
Matches: 160, Mismatches: 13, Indels: 6
0.89 0.07 0.03
Matches are distributed among these distances:
164 138 0.86
165 1 0.01
166 15 0.09
167 6 0.04
ACGTcount: A:0.34, C:0.15, G:0.21, T:0.30
Consensus pattern (166 bp):
TAGCGGCGTTTTTTACAAAAAAAACGCGCAATAGGGTGGTTTATTGCGGCGTTTTTTAACAAATG
ACGCAATAGAATGGTAAATTAGCGGCGTTTATACCATAAACGCCACAATAGATTAACATATAGTG
GCATTTTAGCCAAAACGCCACAATAGATCGGCAAAT
Found at i:2076050 original size:40 final size:39
Alignment explanation
Indices: 2075994--2076199 Score: 114
Period size: 42 Copynumber: 5.0 Consensus size: 39
2075984 GCGGCGTTTA
* *
2075994 TACCATAAATGCCACAATAGATTAACATATAGTGGCATTT
1 TACCA-AAACGCCACAATAGATTAACAAATAGTGGCATTT
* *** * *
2076034 TAGCCAAAACGCCACAATATATCGGCAAATTAGCGGCGTTT
1 TA-CCAAAACGCCACAATAGATTAACAAA-TAGTGGCATTT
** *
2076075 ATACCATAAACGCCGTAATAGATTACACATATAGTGGCATTT
1 -TACCA-AAACGCCACAATAGATTA-ACAAATAGTGGCATTT
* * * *
2076117 ATTCTTAAAACGCCGCAATAG-TGATAATAAATAGTGGCATTTT
1 -TAC-CAAAACGCCACAATAGAT--TAACAAATAGTGGCA-TTT
*
2076160 TA-AACAAACGCCACAATAG-TGTAATC-AATAGTGGCATTT
1 TACCA-AAACGCCACAATAGAT-TAA-CAAATAGTGGCATTT
2076199 T
1 T
2076200 TTTTGTATAA
Statistics
Matches: 128, Mismatches: 27, Indels: 23
0.72 0.15 0.13
Matches are distributed among these distances:
39 4 0.03
40 33 0.26
41 30 0.23
42 52 0.41
43 9 0.07
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.28
Consensus pattern (39 bp):
TACCAAAACGCCACAATAGATTAACAAATAGTGGCATTT
Found at i:2076118 original size:42 final size:42
Alignment explanation
Indices: 2075990--2076118 Score: 131
Period size: 42 Copynumber: 3.1 Consensus size: 42
2075980 ATTAGCGGCG
*
2075990 TTTATACCATAAATGCCACAATAGATTA-ACATATAGTGGCA
1 TTTATACCATAAACGCCACAATAGATTACACATATAGTGGCA
* ** * * *
2076031 TTT-TAGCCA-AAACGCCACAATATATCGGCAAAT-TAGCGGCG
1 TTTATA-CCATAAACGCCACAATAGAT-TACACATATAGTGGCA
**
2076072 TTTATACCATAAACGCCGTAATAGATTACACATATAGTGGCA
1 TTTATACCATAAACGCCACAATAGATTACACATATAGTGGCA
2076114 TTTAT
1 TTTAT
2076119 TCTTAAAACG
Statistics
Matches: 67, Mismatches: 15, Indels: 11
0.72 0.16 0.12
Matches are distributed among these distances:
40 16 0.24
41 22 0.33
42 29 0.43
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.29
Consensus pattern (42 bp):
TTTATACCATAAACGCCACAATAGATTACACATATAGTGGCA
Found at i:2076151 original size:42 final size:40
Alignment explanation
Indices: 2076105--2076202 Score: 126
Period size: 40 Copynumber: 2.4 Consensus size: 40
2076095 GATTACACAT
2076105 ATAGTGGCATTTATTCTTA-AAACGCCGCAATAGTGATAATAA
1 ATAGTGGCATTT-TT-TTACAAACGCCGCAATAGTG-TAATAA
** * *
2076147 ATAGTGGCATTTTTAAACAAACGCCACAATAGTGTAATCA
1 ATAGTGGCATTTTTTTACAAACGCCGCAATAGTGTAATAA
2076187 ATAGTGGCATTTTTTT
1 ATAGTGGCATTTTTTT
2076203 TGTATAAACG
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
40 20 0.41
41 17 0.35
42 12 0.24
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34
Consensus pattern (40 bp):
ATAGTGGCATTTTTTTACAAACGCCGCAATAGTGTAATAA
Found at i:2076201 original size:41 final size:41
Alignment explanation
Indices: 2076124--2076200 Score: 129
Period size: 40 Copynumber: 1.9 Consensus size: 41
2076114 TTTATTCTTA
*
2076124 AAACGCCGCAATAGTGATAATAAATAGTGGCATTTTTAAAC
1 AAACGCCACAATAGTGATAATAAATAGTGGCATTTTTAAAC
*
2076165 AAACGCCACAATAGTG-TAATCAATAGTGGCATTTTT
1 AAACGCCACAATAGTGATAATAAATAGTGGCATTTTT
2076201 TTTGTATAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
40 19 0.56
41 15 0.44
ACGTcount: A:0.39, C:0.16, G:0.17, T:0.29
Consensus pattern (41 bp):
AAACGCCACAATAGTGATAATAAATAGTGGCATTTTTAAAC
Found at i:2092262 original size:21 final size:22
Alignment explanation
Indices: 2092237--2092291 Score: 67
Period size: 23 Copynumber: 2.5 Consensus size: 22
2092227 CCCTTGTTAG
*
2092237 GTATCGATACTTC-TTCAACGT
1 GTATCGATACCTCTTTCAACGT
* *
2092258 GTATCGATACCCTCTTTGAATGT
1 GTATCGATA-CCTCTTTCAACGT
2092281 GTATCGATACC
1 GTATCGATACC
2092292 CCTAGAGGGG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
21 9 0.31
22 5 0.17
23 15 0.52
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (22 bp):
GTATCGATACCTCTTTCAACGT
Found at i:2092736 original size:20 final size:20
Alignment explanation
Indices: 2092711--2092755 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
2092701 ATAAAAATTA
*
2092711 TTTTTGTTTTAAA-ATTGTTG
1 TTTTTGATTTAAATA-TGTTG
*
2092731 TTTTTGATTTAATTATGTTG
1 TTTTTGATTTAAATATGTTG
2092751 TTTTT
1 TTTTT
2092756 AATGAAAACT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 21 0.95
21 1 0.05
ACGTcount: A:0.18, C:0.00, G:0.13, T:0.69
Consensus pattern (20 bp):
TTTTTGATTTAAATATGTTG
Found at i:2095891 original size:13 final size:13
Alignment explanation
Indices: 2095875--2095899 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2095865 TTCTTTTATT
2095875 TTTTTCGAATTTA
1 TTTTTCGAATTTA
2095888 TTTTTCGAATTT
1 TTTTTCGAATTT
2095900 TTAGTAACCA
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:0.20, C:0.08, G:0.08, T:0.64
Consensus pattern (13 bp):
TTTTTCGAATTTA
Found at i:2097409 original size:17 final size:17
Alignment explanation
Indices: 2097387--2097458 Score: 72
Period size: 17 Copynumber: 4.2 Consensus size: 17
2097377 AATTAAGAGT
2097387 TAGTTTAATAAATGAAC
1 TAGTTTAATAAATGAAC
* * *
2097404 TAGTTTGATGAATGAGC
1 TAGTTTAATAAATGAAC
*
2097421 TAGTTTAATTAATGAAC
1 TAGTTTAATAAATGAAC
* * *
2097438 TAACTTTATTCAATGAAC
1 T-AGTTTAATAAATGAAC
2097456 TAG
1 TAG
2097459 ATGCTTTAAA
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
17 30 0.68
18 14 0.32
ACGTcount: A:0.39, C:0.08, G:0.15, T:0.38
Consensus pattern (17 bp):
TAGTTTAATAAATGAAC
Found at i:2105709 original size:13 final size:13
Alignment explanation
Indices: 2105691--2105728 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
2105681 TCACAACCCG
2105691 ACCCGACCCGTTT
1 ACCCGACCCGTTT
2105704 ACCCGACCCGTTT
1 ACCCGACCCGTTT
*
2105717 ACCCAACCCGTT
1 ACCCGACCCGTT
2105729 GACCTAACCC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.18, C:0.47, G:0.13, T:0.21
Consensus pattern (13 bp):
ACCCGACCCGTTT
Found at i:2105737 original size:13 final size:13
Alignment explanation
Indices: 2105690--2105739 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
2105680 GTCACAACCC
*
2105690 GACCCGACCCGTT
1 GACCCAACCCGTT
* *
2105703 TACCCGACCCGTT
1 GACCCAACCCGTT
*
2105716 TACCCAACCCGTT
1 GACCCAACCCGTT
*
2105729 GACCTAACCCG
1 GACCCAACCCG
2105740 ACCCGTTGAC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 33 1.00
ACGTcount: A:0.20, C:0.46, G:0.16, T:0.18
Consensus pattern (13 bp):
GACCCAACCCGTT
Found at i:2106983 original size:18 final size:18
Alignment explanation
Indices: 2106957--2106992 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
2106947 TCGAAAGGAC
*
2106957 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
2106975 TGAATTAAATAATAAGAT
1 TGAAGTAAATAATAAGAT
2106993 CGGATGGAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.31
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:2108160 original size:24 final size:24
Alignment explanation
Indices: 2108133--2108227 Score: 118
Period size: 24 Copynumber: 4.0 Consensus size: 24
2108123 ATTTCCGACT
** *
2108133 TGAATTCTGTTCTGATAAATGACC
1 TGAATTCTGTTCTGATATCTGATC
*
2108157 TGAATTCTGTTCTGATTTCTGATC
1 TGAATTCTGTTCTGATATCTGATC
* *
2108181 TGGATTCTGTTCTGATATCTGTTC
1 TGAATTCTGTTCTGATATCTGATC
* *
2108205 TGAATTCTGTTTTGATTTCTGAT
1 TGAATTCTGTTCTGATATCTGAT
2108228 ATCTTCGTTT
Statistics
Matches: 60, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 60 1.00
ACGTcount: A:0.19, C:0.15, G:0.18, T:0.48
Consensus pattern (24 bp):
TGAATTCTGTTCTGATATCTGATC
Found at i:2108171 original size:12 final size:12
Alignment explanation
Indices: 2108156--2108225 Score: 79
Period size: 12 Copynumber: 5.8 Consensus size: 12
2108146 GATAAATGAC
2108156 CTGAATTCTGTT
1 CTGAATTCTGTT
* *
2108168 CTGATTTCTGAT
1 CTGAATTCTGTT
*
2108180 CTGGATTCTGTT
1 CTGAATTCTGTT
2108192 CTG-ATATCTGTT
1 CTGAAT-TCTGTT
2108204 CTGAATTCTGTT
1 CTGAATTCTGTT
* *
2108216 TTGATTTCTG
1 CTGAATTCTG
2108226 ATATCTTCGT
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
11 2 0.04
12 45 0.92
13 2 0.04
ACGTcount: A:0.14, C:0.16, G:0.19, T:0.51
Consensus pattern (12 bp):
CTGAATTCTGTT
Found at i:2108224 original size:48 final size:48
Alignment explanation
Indices: 2108119--2108227 Score: 139
Period size: 48 Copynumber: 2.3 Consensus size: 48
2108109 AAATATTTTA
* *
2108119 TCTGATTTCCGA-CTTGAATTCTGTTCTGATAAATGACCTGAATTCTGT
1 TCTGATTTCTGATC-TGGATTCTGTTCTGATAAATGACCTGAATTCTGT
** **
2108167 TCTGATTTCTGATCTGGATTCTGTTCTGATATCTGTTCTGAATTCTGT
1 TCTGATTTCTGATCTGGATTCTGTTCTGATAAATGACCTGAATTCTGT
*
2108215 TTTGATTTCTGAT
1 TCTGATTTCTGAT
2108228 ATCTTCGTTT
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
48 52 0.98
49 1 0.02
ACGTcount: A:0.18, C:0.17, G:0.17, T:0.48
Consensus pattern (48 bp):
TCTGATTTCTGATCTGGATTCTGTTCTGATAAATGACCTGAATTCTGT
Found at i:2110329 original size:31 final size:31
Alignment explanation
Indices: 2110291--2110351 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
2110281 TCACAACCCG
2110291 ACCCAACCCGTTGACCCAACCCGACCCGTTT
1 ACCCAACCCGTTGACCCAACCCGACCCGTTT
*
2110322 ACCCAACCCGTTGACCCGACCCGACCCGTT
1 ACCCAACCCGTTGACCCAACCCGACCCGTT
2110352 GACCGTTGAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.21, C:0.49, G:0.15, T:0.15
Consensus pattern (31 bp):
ACCCAACCCGTTGACCCAACCCGACCCGTTT
Found at i:2110331 original size:18 final size:18
Alignment explanation
Indices: 2110286--2110355 Score: 69
Period size: 18 Copynumber: 4.2 Consensus size: 18
2110276 ACCGGTCACA
* *
2110286 ACCCGACCCAACCCGTTG
1 ACCCAACCCGACCCGTTG
*
2110304 ACCCAACCCGACCCGTTT
1 ACCCAACCCGACCCGTTG
2110322 ACCC-A----ACCCGTTG
1 ACCCAACCCGACCCGTTG
*
2110335 ACCCGACCCGACCCGTTG
1 ACCCAACCCGACCCGTTG
2110353 ACC
1 ACC
2110356 GTTGACCGTT
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
17 1 0.02
18 30 0.70
ACGTcount: A:0.21, C:0.50, G:0.16, T:0.13
Consensus pattern (18 bp):
ACCCAACCCGACCCGTTG
Found at i:2110355 original size:13 final size:13
Alignment explanation
Indices: 2110309--2110344 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
2110299 CGTTGACCCA
*
2110309 ACCCGACCCGTTT
1 ACCCGACCCGTTG
*
2110322 ACCCAACCCGTTG
1 ACCCGACCCGTTG
2110335 ACCCGACCCG
1 ACCCGACCCG
2110345 ACCCGTTGAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.19, C:0.50, G:0.17, T:0.14
Consensus pattern (13 bp):
ACCCGACCCGTTG
Found at i:2111582 original size:18 final size:18
Alignment explanation
Indices: 2111556--2111591 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
2111546 TCGAAAGGAC
*
2111556 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
2111574 TGAATTAAATAATAAGAT
1 TGAAGTAAATAATAAGAT
2111592 CGGATGGAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.31
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:2112770 original size:12 final size:12
Alignment explanation
Indices: 2112755--2112824 Score: 70
Period size: 12 Copynumber: 5.8 Consensus size: 12
2112745 GATAAATGAC
2112755 CTGAATTCTGTT
1 CTGAATTCTGTT
* *
2112767 CTGATTTCTGAT
1 CTGAATTCTGTT
* *
2112779 CTGGATTATGTT
1 CTGAATTCTGTT
2112791 CTG-ATATCTGTT
1 CTGAAT-TCTGTT
2112803 CTGAATTCTGTT
1 CTGAATTCTGTT
* *
2112815 TTGATTTCTG
1 CTGAATTCTG
2112825 ATATCTTCGT
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
11 2 0.04
12 43 0.91
13 2 0.04
ACGTcount: A:0.16, C:0.14, G:0.19, T:0.51
Consensus pattern (12 bp):
CTGAATTCTGTT
Found at i:2112774 original size:48 final size:48
Alignment explanation
Indices: 2112718--2112822 Score: 122
Period size: 48 Copynumber: 2.2 Consensus size: 48
2112708 AAATATTTTA
*
2112718 TCTGATTTCCGA-CTTGAATTCTGTTCTGATAAATGACCTGAATTCTGT
1 TCTGATTTCCGATC-TGAATTATGTTCTGATAAATGACCTGAATTCTGT
* * ** **
2112766 TCTGATTTCTGATCTGGATTATGTTCTGATATCTGTTCTGAATTCTGT
1 TCTGATTTCCGATCTGAATTATGTTCTGATAAATGACCTGAATTCTGT
*
2112814 TTTGATTTC
1 TCTGATTTC
2112823 TGATATCTTC
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
48 47 0.98
49 1 0.02
ACGTcount: A:0.19, C:0.16, G:0.17, T:0.48
Consensus pattern (48 bp):
TCTGATTTCCGATCTGAATTATGTTCTGATAAATGACCTGAATTCTGT
Found at i:2112790 original size:24 final size:24
Alignment explanation
Indices: 2112718--2112826 Score: 94
Period size: 24 Copynumber: 4.5 Consensus size: 24
2112708 AAATATTTTA
* *
2112718 TCTGATTTCCGA-CTTGAATTCTGT
1 TCTGATTTCTGATC-TGAATTATGT
*** * *
2112742 TCTGATAAATGACCTGAATTCTGT
1 TCTGATTTCTGATCTGAATTATGT
*
2112766 TCTGATTTCTGATCTGGATTATGT
1 TCTGATTTCTGATCTGAATTATGT
* * *
2112790 TCTGATATCTGTTCTGAATTCTGT
1 TCTGATTTCTGATCTGAATTATGT
*
2112814 TTTGATTTCTGAT
1 TCTGATTTCTGAT
2112827 ATCTTCGTTT
Statistics
Matches: 67, Mismatches: 17, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
24 66 0.99
25 1 0.01
ACGTcount: A:0.19, C:0.16, G:0.17, T:0.48
Consensus pattern (24 bp):
TCTGATTTCTGATCTGAATTATGT
Found at i:2114914 original size:18 final size:18
Alignment explanation
Indices: 2114891--2114960 Score: 96
Period size: 18 Copynumber: 4.2 Consensus size: 18
2114881 ACCGGTCACA
2114891 ACCCGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
*
2114909 ACCCGACCCGACCCGTTT
1 ACCCGACCCGACCCGTTG
2114927 ACCC-A----ACCCGTTG
1 ACCCGACCCGACCCGTTG
2114940 ACCCGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
2114958 ACC
1 ACC
2114961 GTTGACCGTT
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
13 11 0.24
14 1 0.02
17 1 0.02
18 32 0.71
ACGTcount: A:0.19, C:0.50, G:0.19, T:0.13
Consensus pattern (18 bp):
ACCCGACCCGACCCGTTG
Found at i:2114960 original size:13 final size:13
Alignment explanation
Indices: 2114913--2114949 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
2114903 CCGTTGACCC
2114913 GACCCGACCCGTT
1 GACCCGACCCGTT
* *
2114926 TACCCAACCCGTT
1 GACCCGACCCGTT
2114939 GACCCGACCCG
1 GACCCGACCCG
2114950 ACCCGTTGAC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.19, C:0.49, G:0.19, T:0.14
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:2114977 original size:31 final size:31
Alignment explanation
Indices: 2114895--2114960 Score: 114
Period size: 31 Copynumber: 2.1 Consensus size: 31
2114885 GTCACAACCC
*
2114895 GACCCGACCCGTTGACCCGACCCGACCCGTT
1 GACCCAACCCGTTGACCCGACCCGACCCGTT
*
2114926 TACCCAACCCGTTGACCCGACCCGACCCGTT
1 GACCCAACCCGTTGACCCGACCCGACCCGTT
2114957 GACC
1 GACC
2114961 GTTGACCGTT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.18, C:0.48, G:0.20, T:0.14
Consensus pattern (31 bp):
GACCCAACCCGTTGACCCGACCCGACCCGTT
Found at i:2117382 original size:12 final size:12
Alignment explanation
Indices: 2117367--2117436 Score: 70
Period size: 12 Copynumber: 5.8 Consensus size: 12
2117357 GATAAATGAC
2117367 CTGAATTCTGTT
1 CTGAATTCTGTT
* *
2117379 CTGATTTCTGAT
1 CTGAATTCTGTT
* *
2117391 CTGGATTATGTT
1 CTGAATTCTGTT
2117403 CTG-ATATCTGTT
1 CTGAAT-TCTGTT
2117415 CTGAATTCTGTT
1 CTGAATTCTGTT
* *
2117427 TTGATTTCTG
1 CTGAATTCTG
2117437 ATATCTTCGT
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
11 2 0.04
12 43 0.91
13 2 0.04
ACGTcount: A:0.16, C:0.14, G:0.19, T:0.51
Consensus pattern (12 bp):
CTGAATTCTGTT
Found at i:2117386 original size:48 final size:48
Alignment explanation
Indices: 2117330--2117434 Score: 122
Period size: 48 Copynumber: 2.2 Consensus size: 48
2117320 AAATATTTTA
*
2117330 TCTGATTTCCGA-CTTGAATTCTGTTCTGATAAATGACCTGAATTCTGT
1 TCTGATTTCCGATC-TGAATTATGTTCTGATAAATGACCTGAATTCTGT
* * ** **
2117378 TCTGATTTCTGATCTGGATTATGTTCTGATATCTGTTCTGAATTCTGT
1 TCTGATTTCCGATCTGAATTATGTTCTGATAAATGACCTGAATTCTGT
*
2117426 TTTGATTTC
1 TCTGATTTC
2117435 TGATATCTTC
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
48 47 0.98
49 1 0.02
ACGTcount: A:0.19, C:0.16, G:0.17, T:0.48
Consensus pattern (48 bp):
TCTGATTTCCGATCTGAATTATGTTCTGATAAATGACCTGAATTCTGT
Found at i:2117402 original size:24 final size:24
Alignment explanation
Indices: 2117330--2117438 Score: 94
Period size: 24 Copynumber: 4.5 Consensus size: 24
2117320 AAATATTTTA
* *
2117330 TCTGATTTCCGA-CTTGAATTCTGT
1 TCTGATTTCTGATC-TGAATTATGT
*** * *
2117354 TCTGATAAATGACCTGAATTCTGT
1 TCTGATTTCTGATCTGAATTATGT
*
2117378 TCTGATTTCTGATCTGGATTATGT
1 TCTGATTTCTGATCTGAATTATGT
* * *
2117402 TCTGATATCTGTTCTGAATTCTGT
1 TCTGATTTCTGATCTGAATTATGT
*
2117426 TTTGATTTCTGAT
1 TCTGATTTCTGAT
2117439 ATCTTCGTTT
Statistics
Matches: 67, Mismatches: 17, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
24 66 0.99
25 1 0.01
ACGTcount: A:0.19, C:0.16, G:0.17, T:0.48
Consensus pattern (24 bp):
TCTGATTTCTGATCTGAATTATGT
Found at i:2119912 original size:114 final size:114
Alignment explanation
Indices: 2119712--2119939 Score: 456
Period size: 114 Copynumber: 2.0 Consensus size: 114
2119702 TTAGACCTGA
2119712 AGCTCGCATGGGCCAAGGGTTAAATGGGTAGCCCACGGGCCTTAGCCCATATACCCAGCTCTAGT
1 AGCTCGCATGGGCCAAGGGTTAAATGGGTAGCCCACGGGCCTTAGCCCATATACCCAGCTCTAGT
2119777 CCTCCCTCTTAGAGTCGGTTATAATATTTTTTAGGGTAAATTATATTGG
66 CCTCCCTCTTAGAGTCGGTTATAATATTTTTTAGGGTAAATTATATTGG
2119826 AGCTCGCATGGGCCAAGGGTTAAATGGGTAGCCCACGGGCCTTAGCCCATATACCCAGCTCTAGT
1 AGCTCGCATGGGCCAAGGGTTAAATGGGTAGCCCACGGGCCTTAGCCCATATACCCAGCTCTAGT
2119891 CCTCCCTCTTAGAGTCGGTTATAATATTTTTTAGGGTAAATTATATTGG
66 CCTCCCTCTTAGAGTCGGTTATAATATTTTTTAGGGTAAATTATATTGG
2119940 TGATCTTTTT
Statistics
Matches: 114, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
114 114 1.00
ACGTcount: A:0.24, C:0.23, G:0.24, T:0.30
Consensus pattern (114 bp):
AGCTCGCATGGGCCAAGGGTTAAATGGGTAGCCCACGGGCCTTAGCCCATATACCCAGCTCTAGT
CCTCCCTCTTAGAGTCGGTTATAATATTTTTTAGGGTAAATTATATTGG
Found at i:2127555 original size:12 final size:12
Alignment explanation
Indices: 2127538--2127562 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2127528 AATACATAAG
2127538 ATACAACCAACA
1 ATACAACCAACA
2127550 ATACAACCAACA
1 ATACAACCAACA
2127562 A
1 A
2127563 AACACCCCAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.32, G:0.00, T:0.08
Consensus pattern (12 bp):
ATACAACCAACA
Found at i:2135396 original size:14 final size:14
Alignment explanation
Indices: 2135377--2135412 Score: 54
Period size: 16 Copynumber: 2.4 Consensus size: 14
2135367 AAATAATGAG
2135377 TTAAAGGAGAACTA
1 TTAAAGGAGAACTA
2135391 TTAAAGCGGAGAACTA
1 TTAAA--GGAGAACTA
2135407 TTAAAG
1 TTAAAG
2135413 CACCCAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 6 0.30
16 14 0.70
ACGTcount: A:0.47, C:0.08, G:0.22, T:0.22
Consensus pattern (14 bp):
TTAAAGGAGAACTA
Found at i:2135403 original size:16 final size:16
Alignment explanation
Indices: 2135382--2135413 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
2135372 ATGAGTTAAA
2135382 GGAGAACTATTAAAGC
1 GGAGAACTATTAAAGC
2135398 GGAGAACTATTAAAGC
1 GGAGAACTATTAAAGC
2135414 ACCCAAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.12, G:0.25, T:0.19
Consensus pattern (16 bp):
GGAGAACTATTAAAGC
Found at i:2140903 original size:21 final size:23
Alignment explanation
Indices: 2140855--2140904 Score: 61
Period size: 24 Copynumber: 2.3 Consensus size: 23
2140845 AGGTAAACTG
2140855 ATAAAAGAATATCCATCACAAGA
1 ATAAAAGAATATCCATCACAAGA
*
2140878 ATAAATAGAGTATCCA-C-CAA-A
1 ATAAA-AGAATATCCATCACAAGA
2140899 ATAAAA
1 ATAAAA
2140905 TATAACACTA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 1 0.04
21 6 0.24
22 3 0.12
23 6 0.24
24 9 0.36
ACGTcount: A:0.58, C:0.16, G:0.08, T:0.18
Consensus pattern (23 bp):
ATAAAAGAATATCCATCACAAGA
Found at i:2143876 original size:15 final size:15
Alignment explanation
Indices: 2143856--2143912 Score: 69
Period size: 15 Copynumber: 3.7 Consensus size: 15
2143846 AACCAGGTAT
2143856 CGGGTACCCGATTAC
1 CGGGTACCCGATTAC
**
2143871 CGGGTACCCGCAAAATC
1 CGGGTACCCG-ATTA-C
*
2143888 CGGGTACCAGATTAC
1 CGGGTACCCGATTAC
2143903 CGGGTACCCG
1 CGGGTACCCG
2143913 TAACATCCGG
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
15 20 0.59
16 4 0.12
17 10 0.29
ACGTcount: A:0.23, C:0.33, G:0.28, T:0.16
Consensus pattern (15 bp):
CGGGTACCCGATTAC
Found at i:2143901 original size:32 final size:32
Alignment explanation
Indices: 2143856--2143924 Score: 111
Period size: 32 Copynumber: 2.2 Consensus size: 32
2143846 AACCAGGTAT
*
2143856 CGGGTACCCGATTACCGGGTACCCGCAAAATC
1 CGGGTACCAGATTACCGGGTACCCGCAAAATC
* *
2143888 CGGGTACCAGATTACCGGGTACCCGTAACATC
1 CGGGTACCAGATTACCGGGTACCCGCAAAATC
2143920 CGGGT
1 CGGGT
2143925 CGGGACACGG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.23, C:0.32, G:0.28, T:0.17
Consensus pattern (32 bp):
CGGGTACCAGATTACCGGGTACCCGCAAAATC
Found at i:2143924 original size:17 final size:16
Alignment explanation
Indices: 2143856--2143924 Score: 52
Period size: 15 Copynumber: 4.3 Consensus size: 16
2143846 AACCAGGTAT
**
2143856 CGGGTACCCGATTA-C
1 CGGGTACCCGAAAATC
2143871 CGGGTACCCGCAAAATC
1 CGGGTACCCG-AAAATC
* **
2143888 CGGGTACCAGATTA-C
1 CGGGTACCCGAAAATC
*
2143903 CGGGTACCCGTAACATC
1 CGGGTACCCG-AAAATC
2143920 CGGGT
1 CGGGT
2143925 CGGGACACGG
Statistics
Matches: 42, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
15 20 0.48
16 6 0.14
17 16 0.38
ACGTcount: A:0.23, C:0.32, G:0.28, T:0.17
Consensus pattern (16 bp):
CGGGTACCCGAAAATC
Found at i:2143983 original size:15 final size:16
Alignment explanation
Indices: 2143963--2144003 Score: 66
Period size: 15 Copynumber: 2.6 Consensus size: 16
2143953 CGAAAGTTCT
2143963 GGTACCCGGAAAT-CG
1 GGTACCCGGAAATCCG
*
2143978 GGTACCCGAAAATCCG
1 GGTACCCGGAAATCCG
2143994 GGTACCCGGA
1 GGTACCCGGA
2144004 TTTGCACACC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 12 0.52
16 11 0.48
ACGTcount: A:0.27, C:0.29, G:0.32, T:0.12
Consensus pattern (16 bp):
GGTACCCGGAAATCCG
Found at i:2144292 original size:59 final size:59
Alignment explanation
Indices: 2144191--2144359 Score: 175
Period size: 59 Copynumber: 2.8 Consensus size: 59
2144181 CTATGACTTT
* * * ** *
2144191 CATTTTAAATTAGTCCTTAAACTTTTAAATATTCTAATTTCATCCTTAAATTATG-A-CC
1 CATTCTAAATTAGTCCTTAAACTTTTGAACATT-TAATTTCATCCCCAAACTATGTATCC
*
2144249 CATTCTAAATTAGTCCTTAAAACTTTTGAACATTTGAATTTCATCCCCAAACTATGTATCT
1 CATTCTAAATTAGTCCTT-AAACTTTTGAACATTT-AATTTCATCCCCAAACTATGTATCC
* *
2144310 CATTCTAAATTGGT-CTCTAAACTTTTAGATC-TTTCAATTTCATCCCCAAA
1 CATTCTAAATTAGTCCT-TAAACTTTT-GAACATTT-AATTTCATCCCCAAA
2144360 TTCATCTAAA
Statistics
Matches: 95, Mismatches: 10, Indels: 10
0.83 0.09 0.09
Matches are distributed among these distances:
58 18 0.19
59 30 0.32
60 29 0.31
61 18 0.19
ACGTcount: A:0.33, C:0.21, G:0.05, T:0.41
Consensus pattern (59 bp):
CATTCTAAATTAGTCCTTAAACTTTTGAACATTTAATTTCATCCCCAAACTATGTATCC
Found at i:2144349 original size:60 final size:58
Alignment explanation
Indices: 2144178--2144359 Score: 181
Period size: 60 Copynumber: 3.1 Consensus size: 58
2144168 ATGTGTTCTT
* * * **
2144178 AAACTATGACTTTCATTTTAAATTAGTCCTTAAACTTTTAAAT-ATTCTAATTTCATCCTT
1 AAACTATGAC--TCATTCTAAATTAGTCCTTAAACTTTTAGATCTTTC-AATTTCATCCCC
* * * *
2144238 AAATTATGACCCATTCTAAATTAGTCCTTAAAACTTTT-GAACATTTGAATTTCATCCCC
1 AAACTATGACTCATTCTAAATTAGTCCTT-AAACTTTTAGATC-TTTCAATTTCATCCCC
*
2144297 AAACTATGTATCTCATTCTAAATTGGT-CTCTAAACTTTTAGATCTTTCAATTTCATCCCC
1 AAACTATG-A-CTCATTCTAAATTAGTCCT-TAAACTTTTAGATCTTTCAATTTCATCCCC
2144357 AAA
1 AAA
2144360 TTCATCTAAA
Statistics
Matches: 101, Mismatches: 14, Indels: 14
0.78 0.11 0.11
Matches are distributed among these distances:
58 18 0.18
59 25 0.25
60 40 0.40
61 18 0.18
ACGTcount: A:0.33, C:0.20, G:0.05, T:0.41
Consensus pattern (58 bp):
AAACTATGACTCATTCTAAATTAGTCCTTAAACTTTTAGATCTTTCAATTTCATCCCC
Found at i:2146101 original size:25 final size:27
Alignment explanation
Indices: 2146069--2146152 Score: 79
Period size: 25 Copynumber: 3.2 Consensus size: 27
2146059 ATAAATGAAG
2146069 AAATATTTTCATATTT-AC-TTA-TTAA
1 AAATATTTT-ATATTTAACTTTATTTAA
* *
2146094 ATATATTTTATTTTTAACTTTATTTAA
1 AAATATTTTATATTTAACTTTATTTAA
*
2146121 AAATA-TTTAT-TTTAATTTTAATTTAA
1 AAATATTTTATATTTAACTTT-ATTTAA
*
2146147 GAATAT
1 AAATAT
2146153 ATATTTTATT
Statistics
Matches: 49, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
24 5 0.10
25 18 0.37
26 18 0.37
27 8 0.16
ACGTcount: A:0.39, C:0.04, G:0.01, T:0.56
Consensus pattern (27 bp):
AAATATTTTATATTTAACTTTATTTAA
Found at i:2146129 original size:26 final size:27
Alignment explanation
Indices: 2146090--2146159 Score: 81
Period size: 26 Copynumber: 2.6 Consensus size: 27
2146080 TATTTACTTA
*
2146090 TTAAATATATTTTATTTTTAACTTT-AT
1 TTAAAAATA-TTTATTTTTAACTTTAAT
*
2146117 TTAAAAATATTTA-TTTTAATTTTAAT
1 TTAAAAATATTTATTTTTAACTTTAAT
* *
2146143 TTAAGAATATATATTTT
1 TTAAAAATATTTATTTT
2146160 ATTTTTTATA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
25 9 0.24
26 17 0.46
27 11 0.30
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.59
Consensus pattern (27 bp):
TTAAAAATATTTATTTTTAACTTTAAT
Found at i:2146161 original size:31 final size:27
Alignment explanation
Indices: 2146092--2146164 Score: 78
Period size: 25 Copynumber: 2.6 Consensus size: 27
2146082 TTTACTTATT
2146092 AAATATATTTTATTTTTAACTTTATTTA
1 AAATATATTTTA-TTTTAACTTTATTTA
*
2146120 AAA-ATA-TTTATTTTAATTTTAATTTAA
1 AAATATATTTTATTTTAACTTT-ATTT-A
2146147 GAATATATATTTTATTTT
1 -AA-ATATATTTTATTTT
2146165 TTATAAACTA
Statistics
Matches: 38, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
25 9 0.24
26 8 0.21
27 4 0.11
28 5 0.13
29 1 0.03
30 3 0.08
31 8 0.21
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.59
Consensus pattern (27 bp):
AAATATATTTTATTTTAACTTTATTTA
Found at i:2146322 original size:20 final size:20
Alignment explanation
Indices: 2146297--2146335 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
2146287 TAACTTCAAA
*
2146297 ATATTTTAATATAAAAATAT
1 ATATTTTAAAATAAAAATAT
2146317 ATATTTTAAAATAAAAATA
1 ATATTTTAAAATAAAAATA
2146336 AACATAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
ATATTTTAAAATAAAAATAT
Found at i:2147589 original size:81 final size:81
Alignment explanation
Indices: 2147473--2148089 Score: 959
Period size: 81 Copynumber: 7.6 Consensus size: 81
2147463 TTTACCTATT
* * *
2147473 GCATGATTGACACTTTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACTCAACGATATTTA
1 GCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACTCAACGGTATTTA
2147538 ACCGTTCATCTAACTG
66 ACCGTTCATCTAACTG
* *
2147554 GCATAATTGGCACCTTTCTGCCAAATACACAGCTAGGCCATTTATCTTTTACTCAACGGTATTTA
1 GCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACTCAACGGTATTTA
*
2147619 ACCATTCATCTAACTG
66 ACCGTTCATCTAACTG
* * * *
2147635 ACATAATTGACACCTTTTTGCTAAATACACAGCTAGGCCATTTATCTTTTACTCAACGGTATTTA
1 GCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACTCAACGGTATTTA
*
2147700 ACCGTTCATCTAATTG
66 ACCGTTCATCTAACTG
** * *
2147716 GCATAATTGACACCTTTCTGCCAAATGCACTTCTATGCCATTTATCTTTTACTCAACGTTATTTA
1 GCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACTCAACGGTATTTA
2147781 ACCGTTCATCTAACTG
66 ACCGTTCATCTAACTG
* *
2147797 GCATAATTAACACCTTTCTGCCAAATGCATAGCTAGGCCATTTATCTTTTACTCAACGGTATTTA
1 GCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACTCAACGGTATTTA
*
2147862 ACCGTTAATCTAAC-G
66 ACCGTTCATCTAACTG
* *
2147877 GACATAATTGACACCTTTCTGCCAAAT-CACAACTAGGCCATTTATCTTTTACTCAACGATATTT
1 G-CATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACTCAACGGTATTT
* *
2147941 AATCGTTCATCTAACTA
65 AACCGTTCATCTAACTG
* * * *
2147958 ACATAAATGACACATTTCTGCCAAATGCACAACTAGGCCATTTATCTTTTACTCAACGGTATTTA
1 GCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACTCAACGGTATTTA
2148023 ACCGTTCATCTAACTG
66 ACCGTTCATCTAACTG
* *
2148039 GCATAATTGACACCTTTCTGCCAAATGCACAACTAGGCCATTAATCTTTTA
1 GCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTA
2148090 ATCTTAGAAT
Statistics
Matches: 488, Mismatches: 45, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
80 72 0.15
81 416 0.85
ACGTcount: A:0.29, C:0.25, G:0.11, T:0.35
Consensus pattern (81 bp):
GCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACTCAACGGTATTTA
ACCGTTCATCTAACTG
Found at i:2148328 original size:55 final size:54
Alignment explanation
Indices: 2148255--2148456 Score: 233
Period size: 55 Copynumber: 3.7 Consensus size: 54
2148245 AAATTTGCCT
* * * * * * *
2148255 ACTTATTATGAACTTCTTATATTTGTACATATATTTCCGATACGGAAATTCATAC
1 ACTTAGTATGAATTTCTTAT-TTTGCACATATAGTGCCCATACGAAAATTCATAC
* * *** *
2148310 ACTTAGTATGAATTTCTTAGTTCGCACACCGAGTGCCCATACGAAAATTTATAC
1 ACTTAGTATGAATTTCTTATTTTGCACATATAGTGCCCATACGAAAATTCATAC
*
2148364 ATTTAGTATGAATTTCTTAGTTTTGCACATATAGTGCCCATACGAAAATTCATAC
1 ACTTAGTATGAATTTCTTA-TTTTGCACATATAGTGCCCATACGAAAATTCATAC
* *
2148419 ACTTAGTATGAATTCCTTAGTTTTGCACACATAGTGCC
1 ACTTAGTATGAATTTCTTA-TTTTGCACATATAGTGCC
2148457 ATTTGGTAGT
Statistics
Matches: 123, Mismatches: 23, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
54 42 0.34
55 81 0.66
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.37
Consensus pattern (54 bp):
ACTTAGTATGAATTTCTTATTTTGCACATATAGTGCCCATACGAAAATTCATAC
Found at i:2148896 original size:20 final size:20
Alignment explanation
Indices: 2148887--2148938 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
2148877 TCGATACCAT
2148887 CCTCATGGTATCAATACTCC
1 CCTCATGGTATCAATACTCC
*
2148907 CCTCTTGGTATCAATACTCC
1 CCTCATGGTATCAATACTCC
*
2148927 CCTCTTGGTATC
1 CCTCATGGTATC
2148939 GATAACACTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.19, C:0.35, G:0.12, T:0.35
Consensus pattern (20 bp):
CCTCATGGTATCAATACTCC
Found at i:2150579 original size:22 final size:22
Alignment explanation
Indices: 2150554--2150597 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
2150544 AAATTTTATA
** *
2150554 AAAATATTTAATTTTAAAATAT
1 AAAATATGAAATTATAAAATAT
2150576 AAAATATGAAATTATAAAATAT
1 AAAATATGAAATTATAAAATAT
2150598 CATCACCTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (22 bp):
AAAATATGAAATTATAAAATAT
Found at i:2150734 original size:19 final size:19
Alignment explanation
Indices: 2150681--2150727 Score: 58
Period size: 21 Copynumber: 2.4 Consensus size: 19
2150671 ATAATTTAAT
*
2150681 ATATATTTATATATATATATA
1 ATATATTTAGATATA-A-ATA
*
2150702 ATGTATTTAGATATAAATA
1 ATATATTTAGATATAAATA
2150721 ATATATT
1 ATATATT
2150728 AGAATATTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 9 0.39
20 1 0.04
21 13 0.57
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (19 bp):
ATATATTTAGATATAAATA
Found at i:2152770 original size:21 final size:21
Alignment explanation
Indices: 2152746--2152795 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
2152736 AATAACCATT
*
2152746 GGATCAATTCACTACACAATA
1 GGATCAATTCACTACACAACA
2152767 GGATCAATTCACTACACAACA
1 GGATCAATTCACTACACAACA
2152788 GGATCAAT
1 GGATCAAT
2152796 CCCATTTTAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.42, C:0.24, G:0.12, T:0.22
Consensus pattern (21 bp):
GGATCAATTCACTACACAACA
Found at i:2152889 original size:21 final size:21
Alignment explanation
Indices: 2152865--2152914 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
2152855 AAAAAAGAAT
*
2152865 GATCCCTTCCCTCGAAGGATC
1 GATCCCTTCCATCGAAGGATC
*
2152886 GATCCCTTCCATCGAAGGATT
1 GATCCCTTCCATCGAAGGATC
2152907 GATCCCTT
1 GATCCCTT
2152915 GATTGATCGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.20, C:0.34, G:0.18, T:0.28
Consensus pattern (21 bp):
GATCCCTTCCATCGAAGGATC
Found at i:2153017 original size:25 final size:25
Alignment explanation
Indices: 2152988--2153041 Score: 99
Period size: 25 Copynumber: 2.2 Consensus size: 25
2152978 GTAATACTCA
2152988 AAATTTTGGTCAGTGACAAAAATGT
1 AAATTTTGGTCAGTGACAAAAATGT
*
2153013 AAATTTTGGTCAGTGACCAAAATGT
1 AAATTTTGGTCAGTGACAAAAATGT
2153038 AAAT
1 AAAT
2153042 GTTGAAAGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.41, C:0.09, G:0.19, T:0.31
Consensus pattern (25 bp):
AAATTTTGGTCAGTGACAAAAATGT
Found at i:2154260 original size:24 final size:24
Alignment explanation
Indices: 2154192--2154383 Score: 115
Period size: 24 Copynumber: 7.9 Consensus size: 24
2154182 AGCCCATTGA
* *
2154192 ATTAGTTCATTTGTTGCACTCCTGT
1 ATTAGTGCAATTG-TGCACTCCTGT
* ** * *
2154217 ATTAGTACCTTTG-GATACTCTTGT
1 ATTAGTGCAATTGTG-CACTCCTGT
* * *
2154241 ATTAGTGCAATTATGCACTCTTCT
1 ATTAGTGCAATTGTGCACTCCTGT
* *
2154265 ACTAGTGC-ATTCGTGCACTCCTAT
1 ATTAGTGCAATT-GTGCACTCCTGT
*
2154289 AATTAGTGCAATTGTGCACTCCAGT
1 -ATTAGTGCAATTGTGCACTCCTGT
* * *
2154314 ATTAGTACCAA-TGTGTACTCCTAT
1 ATTAGT-GCAATTGTGCACTCCTGT
* *
2154338 ATTAGTGCCACTT-TGCACTCCTGA
1 ATTAGTG-CAATTGTGCACTCCTGT
*
2154362 ATTAATGC-ATTCGTGCACTCCT
1 ATTAGTGCAATT-GTGCACTCCT
2154384 AATTCGAGTA
Statistics
Matches: 129, Mismatches: 28, Indels: 21
0.72 0.16 0.12
Matches are distributed among these distances:
22 2 0.02
23 5 0.04
24 86 0.67
25 33 0.26
26 3 0.02
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.39
Consensus pattern (24 bp):
ATTAGTGCAATTGTGCACTCCTGT
Found at i:2154372 original size:97 final size:98
Alignment explanation
Indices: 2154191--2154384 Score: 232
Period size: 97 Copynumber: 2.0 Consensus size: 98
2154181 TAGCCCATTG
* * * ** * *
2154191 AATTAGTTCATTTGTTGCACTCCTGTATTAGTACCTTTGGATACTCTTGTATTAGTGCAATTATG
1 AATTAGTGCAATTGTTGCACTCCAGTATTAGTACCAATGGATACTCCTATATTAGTGCAATTATG
* * *
2154256 CACTCTTCTACTAGTGCATTCGTGCACTCCTAT
66 CACTCCTCAACTAATGCATTCGTGCACTCCTAT
*
2154289 AATTAGTGCAATTG-TGCACTCCAGTATTAGTACCAATGTG-TACTCCTATATTAGTGCCACTT-
1 AATTAGTGCAATTGTTGCACTCCAGTATTAGTACCAATG-GATACTCCTATATTAGTG-CAATTA
* *
2154351 TGCACTCCTGAATTAATGCATTCGTGCACTCCTA
64 TGCACTCCTCAACTAATGCATTCGTGCACTCCTA
2154385 ATTCGAGTAC
Statistics
Matches: 81, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
97 64 0.79
98 17 0.21
ACGTcount: A:0.24, C:0.23, G:0.15, T:0.38
Consensus pattern (98 bp):
AATTAGTGCAATTGTTGCACTCCAGTATTAGTACCAATGGATACTCCTATATTAGTGCAATTATG
CACTCCTCAACTAATGCATTCGTGCACTCCTAT
Done.