Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 271 of 297
Found at i:92444915 original size:55 final size:55
Alignment explanation
Indices: 92444793--92444908 Score: 214
Period size: 55 Copynumber: 2.1 Consensus size: 55
92444783 TGCCATTTGG
92444793 TCGAATATATATACAAACATTTAACGTATATTTAACATATTAACTTCACTTGAAT
1 TCGAATATATATACAAACATTTAACGTATATTTAACATATTAACTTCACTTGAAT
*
92444848 TCGAATATATATACAAACATTTAACGTATATTTAGCATATTAACTTCACTTGAAT
1 TCGAATATATATACAAACATTTAACGTATATTTAACATATTAACTTCACTTGAAT
*
92444903 TTGAAT
1 TCGAAT
92444909 TCATATAACA
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
55 59 1.00
ACGTcount: A:0.41, C:0.14, G:0.07, T:0.39
Consensus pattern (55 bp):
TCGAATATATATACAAACATTTAACGTATATTTAACATATTAACTTCACTTGAAT
Found at i:92445289 original size:43 final size:43
Alignment explanation
Indices: 92445241--92445342 Score: 143
Period size: 43 Copynumber: 2.4 Consensus size: 43
92445231 CGGTATTACT
*
92445241 CCTGCTAGGCTCGAAG-TCTAATATTAAATCACCGTCATTATAG
1 CCTGCTAGGCTCGAAGCTC-AATATTAAATCACCGGCATTATAG
* * * *
92445284 CCTGCTAGGTTCGAAGCTCGATATTAACTCATCGGCATTATAG
1 CCTGCTAGGCTCGAAGCTCAATATTAAATCACCGGCATTATAG
92445327 CCTGCTAGGCTCGAAG
1 CCTGCTAGGCTCGAAG
92445343 GCCCGAATAG
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
43 50 0.96
44 2 0.04
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (43 bp):
CCTGCTAGGCTCGAAGCTCAATATTAAATCACCGGCATTATAG
Found at i:92451721 original size:26 final size:26
Alignment explanation
Indices: 92451701--92451773 Score: 94
Period size: 26 Copynumber: 2.8 Consensus size: 26
92451691 TGAGCATCCC
*
92451701 ATTATATGGCTCTTCGTGAGCTTCCTG
1 ATTA-ATGGCTCTTCGTGAGCTTCCTA
* *
92451728 ATTAAAGGCTCTTTGTGAGCTTCCTA
1 ATTAATGGCTCTTCGTGAGCTTCCTA
*
92451754 ATTAATGGCTCTCCG-GAGCT
1 ATTAATGGCTCTTCGTGAGCT
92451774 ACCTGGTATG
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
25 5 0.12
26 31 0.77
27 4 0.10
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.37
Consensus pattern (26 bp):
ATTAATGGCTCTTCGTGAGCTTCCTA
Found at i:92456280 original size:40 final size:40
Alignment explanation
Indices: 92456179--92456308 Score: 136
Period size: 40 Copynumber: 3.2 Consensus size: 40
92456169 TACTCGAATG
* * * *
92456179 ATATCTGGGCTAAGTCCCGAAGGCTTTTGTACTAAGCGACT
1 ATATCCGGGCTAAATCCCGAAGGCATTTGTGC-AAGCGACT
* * *
92456220 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCCAGCGACT
1 ATATCCGGGCTAA-ATCCCGAAGGCATTTGTGCAAGCGACT
* * * *
92456260 ATATCCGGGCTAAATCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAATCCCGAAGGCATTTGTGCAAGCGACT
92456300 ATATCCGGG
1 ATATCCGGG
92456309 TTAAGACCCA
Statistics
Matches: 74, Mismatches: 13, Indels: 5
0.80 0.14 0.05
Matches are distributed among these distances:
39 2 0.03
40 47 0.64
41 24 0.32
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.25, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAATCCCGAAGGCATTTGTGCAAGCGACT
Found at i:92456323 original size:40 final size:40
Alignment explanation
Indices: 92456179--92456323 Score: 121
Period size: 40 Copynumber: 3.6 Consensus size: 40
92456169 TACTCGAATG
* * * * * * *
92456179 ATATCTGGGCTAAGTCCCGAAGGCTTTTGTACTAAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGC-CAGCGACC
* * * * *
92456220 ACATCCGGACTAAGATCCGAAGGCATTTGTGCCAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCCAGCGACC
* *
92456260 ATATCCGGGCTAA-ATCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGA-CCCGAAGGCATTTATGCCAGCGACC
* *
92456300 ATATCCGGGTTAAGACCCAAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
92456324 CTTGTGCGAG
Statistics
Matches: 85, Mismatches: 17, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
39 1 0.01
40 58 0.68
41 26 0.31
ACGTcount: A:0.28, C:0.25, G:0.24, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCCAGCGACC
Found at i:92465856 original size:13 final size:13
Alignment explanation
Indices: 92465838--92465866 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
92465828 TTTAGCTTAA
92465838 TTAGTTAATTAGT
1 TTAGTTAATTAGT
92465851 TTAGTTAATTAGT
1 TTAGTTAATTAGT
92465864 TTA
1 TTA
92465867 ATAAACAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (13 bp):
TTAGTTAATTAGT
Found at i:92468813 original size:39 final size:39
Alignment explanation
Indices: 92468746--92468963 Score: 277
Period size: 39 Copynumber: 5.5 Consensus size: 39
92468736 CTCGTTCAAG
* *
92468746 TGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCACAAA
1 TGCCTTCGGG-CTTAGCCCGGAAT-TAGT-ATCTCGCACAAA
92468786 TGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAA
1 TGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAA
92468825 TGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAA
1 TGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAA
92468864 TGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAA
1 TGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAA
* * *
92468903 TGCCTTCGGATCTTAGTCCGGATATT-GTCA-CTTAGCAC-AA
1 TGCCTTCGG-GCTTAGCCCGGA-ATTAGT-ATC-TCGCACAAA
92468943 -GCCTTCGGGACTTAGCCCGGA
1 TGCCTTCGGG-CTTAGCCCGGA
92468964 CAGCATTCAA
Statistics
Matches: 164, Mismatches: 7, Indels: 15
0.88 0.04 0.08
Matches are distributed among these distances:
38 2 0.01
39 127 0.77
40 26 0.16
41 9 0.05
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (39 bp):
TGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAA
Found at i:92478305 original size:85 final size:85
Alignment explanation
Indices: 92478176--92478439 Score: 476
Period size: 85 Copynumber: 3.1 Consensus size: 85
92478166 TATTTTATTG
*
92478176 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCATTACCCCAACATGTTTATGACATGTTTT
92478241 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
92478261 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCATTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCATTACCCCAACATGTTTATGACATGTTTT
***
92478326 TAGCCATAACATCTT-TATTG
66 TAGCCATAACATCTTGT-CCA
92478346 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCATTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCATTACCCCAACATGTTTATGACATGTTTT
92478411 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
92478431 CCCATGCTC
1 CCCATGCTC
92478440 ATGGCCGGCC
Statistics
Matches: 170, Mismatches: 7, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
84 1 0.01
85 168 0.99
86 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.08, T:0.40
Consensus pattern (85 bp):
CCCATGCTCTTTATTTTATTAATCCTTACATAATGCATTACCCCAACATGTTTATGACATGTTTT
TAGCCATAACATCTTGTCCA
Found at i:92482451 original size:3 final size:3
Alignment explanation
Indices: 92482435--92482468 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
92482425 TGTATAACTG
*
92482435 TGA TGA T-A TTA TGA TGA TGA TGA TGA TGA TGA TG
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TG
92482469 TTAAGTCATA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.32, C:0.00, G:0.29, T:0.38
Consensus pattern (3 bp):
TGA
Found at i:92486814 original size:21 final size:21
Alignment explanation
Indices: 92486788--92486835 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
92486778 TCAACTTAGA
* *
92486788 GCGGAGGCAGCAGCGAGGTAG
1 GCGGAGGCAGCAACGAGGGAG
92486809 GCGGAGGCAGCAACGAGGGAG
1 GCGGAGGCAGCAACGAGGGAG
92486830 GCGGAG
1 GCGGAG
92486836 CAGAACAGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.25, C:0.19, G:0.54, T:0.02
Consensus pattern (21 bp):
GCGGAGGCAGCAACGAGGGAG
Found at i:92487176 original size:43 final size:43
Alignment explanation
Indices: 92487129--92487418 Score: 350
Period size: 43 Copynumber: 6.7 Consensus size: 43
92487119 ACTGGGCAAA
* *
92487129 TTAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAAGTACAT-GTCT
1 TTAGCGGCGTTTTTTATAAAAGCGCCGCTAAAAGT-CCTGGTCT
* *
92487172 TTAGCGACGTTTTTTATAAAAGCGCCGCTAAAGGTCCTGGT-T
1 TTAGCGGCGTTTTTTATAAAAGCGCCGCTAAAAGTCCTGGTCT
* * * ** *
92487214 TCTAGCGGCGTTTTTTAAAAAAGCGCCACTAAAAGTACAAGTAT
1 T-TAGCGGCGTTTTTTATAAAAGCGCCGCTAAAAGTCCTGGTCT
* *
92487258 TTAGCGGCGTTTTTTTATAAAAGCGCCGCTAAAGGGCCTGGTCT
1 TTAGCGGCG-TTTTTTATAAAAGCGCCGCTAAAAGTCCTGGTCT
* * * *
92487302 CTAGCGGCATTTTTTATAAAATCGCCGCTAAAGGTCCTGGTCT
1 TTAGCGGCGTTTTTTATAAAAGCGCCGCTAAAAGTCCTGGTCT
* * * *
92487345 CTAGCGGAGTTTTTTATAGAAGCGCCGCTAAAGGTCCTGGTCT
1 TTAGCGGCGTTTTTTATAAAAGCGCCGCTAAAAGTCCTGGTCT
*
92487388 TTAGCGGCGTTTTTTATAAAAGTGCCGCTAA
1 TTAGCGGCGTTTTTTATAAAAGCGCCGCTAA
92487419 TTTTTGTGGC
Statistics
Matches: 212, Mismatches: 31, Indels: 8
0.84 0.12 0.03
Matches are distributed among these distances:
42 4 0.02
43 173 0.82
44 35 0.17
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (43 bp):
TTAGCGGCGTTTTTTATAAAAGCGCCGCTAAAAGTCCTGGTCT
Found at i:92487315 original size:86 final size:86
Alignment explanation
Indices: 92487130--92487418 Score: 398
Period size: 86 Copynumber: 3.3 Consensus size: 86
92487120 CTGGGCAAAT
* *
92487130 TAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAAGTACATGTCTTTAGCGACGTTTTTTATAAAAGC
1 TAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAAGTACAAGTCTTTAGCGGCGTTTTTTATAAAAGC
*
92487195 GCCGCTAAAGGTCCTGGTTTC
66 GCCGCTAAAGGTCCTGGTCTC
* *
92487216 TAGCGGCGTTTTTTAAAAAAGCGCCACTAAAAGTACAAGTATTTAGCGGCGTTTTTTTATAAAAG
1 TAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAAGTACAAGTCTTTAGCGGCG-TTTTTTATAAAAG
*
92487281 CGCCGCTAAAGGGCCTGGTCTC
65 CGCCGCTAAAGGTCCTGGTCTC
* * * * * ** * * *
92487303 TAGCGGCATTTTTTATAAAATCGCCGCTAAAGGTCCTGGTCTCTAGCGGAGTTTTTTATAGAAGC
1 TAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAAGTACAAGTCTTTAGCGGCGTTTTTTATAAAAGC
*
92487368 GCCGCTAAAGGTCCTGGTCTT
66 GCCGCTAAAGGTCCTGGTCTC
* *
92487389 TAGCGGCGTTTTTTATAAAAGTGCCGCTAA
1 TAGCGGCGTTTTTTAAAAAAGCGCCGCTAA
92487419 TTTTTGTGGC
Statistics
Matches: 179, Mismatches: 23, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
86 106 0.59
87 73 0.41
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (86 bp):
TAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAAGTACAAGTCTTTAGCGGCGTTTTTTATAAAAGC
GCCGCTAAAGGTCCTGGTCTC
Found at i:92487333 original size:130 final size:128
Alignment explanation
Indices: 92487129--92487418 Score: 382
Period size: 130 Copynumber: 2.2 Consensus size: 128
92487119 ACTGGGCAAA
* * * *
92487129 TTAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAAGTACATGTCTTTAGCGACGTTTTTTATAAAAG
1 TTAGCGGCGTTTTTTATAAAAGCGCCGCT-AAAGGACATGTCTCTAGCGACATTTTTTATAAAAG
* *
92487194 CGCCGCTAAAGGTCCTGGTTTCTAGCGGCGTTTTTTAAAAAAGCGCCACTAAAAGTACAAGTAT
65 CGCCGCTAAAGGTCCTGGTCTCTAGCGGAGTTTTTTAAAAAAGCGCCACTAAAAGTACAAGTAT
* * *
92487258 TTAGCGGCGTTTTTTTATAAAAGCGCCGCTAAAGGGCCTGGTCTCTAGCGGCATTTTTTATAAAA
1 TTAGCGGCG-TTTTTTATAAAAGCGCCGCTAAAGGACAT-GTCTCTAGCGACATTTTTTATAAAA
* * * * * * ** *
92487323 TCGCCGCTAAAGGTCCTGGTCTCTAGCGGAGTTTTTTATAGAAGCGCCGCTAAAGGTCCTGGTCT
64 GCGCCGCTAAAGGTCCTGGTCTCTAGCGGAGTTTTTTAAAAAAGCGCCACTAAAAGTACAAGTAT
*
92487388 TTAGCGGCGTTTTTTATAAAAGTGCCGCTAA
1 TTAGCGGCGTTTTTTATAAAAGCGCCGCTAA
92487419 TTTTTGTGGC
Statistics
Matches: 140, Mismatches: 19, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
129 36 0.26
130 104 0.74
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (128 bp):
TTAGCGGCGTTTTTTATAAAAGCGCCGCTAAAGGACATGTCTCTAGCGACATTTTTTATAAAAGC
GCCGCTAAAGGTCCTGGTCTCTAGCGGAGTTTTTTAAAAAAGCGCCACTAAAAGTACAAGTAT
Found at i:92490336 original size:43 final size:42
Alignment explanation
Indices: 92490238--92490358 Score: 147
Period size: 43 Copynumber: 2.9 Consensus size: 42
92490228 TAGGGTTGCT
* * *
92490238 GAGATTACGTTTAAGACCATATCTGGGATATGGCGTCGATAT
1 GAGATTACGTGTAAGACCATATCTGGGATATGGCATCGATAC
* *
92490280 GAGGCTT-CGTGTAAGACCAT-TCCTGGGCTATTGGCATCGATAC
1 GA-GATTACGTGTAAGACCATAT-CTGGGATA-TGGCATCGATAC
*
92490323 GAGATTACATGTAAGACCATATCTGGGATATGGCAT
1 GAGATTACGTGTAAGACCATATCTGGGATATGGCAT
92490359 TGGTACAGTA
Statistics
Matches: 66, Mismatches: 8, Indels: 10
0.79 0.10 0.12
Matches are distributed among these distances:
41 1 0.02
42 30 0.45
43 34 0.52
44 1 0.02
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.29
Consensus pattern (42 bp):
GAGATTACGTGTAAGACCATATCTGGGATATGGCATCGATAC
Found at i:92492467 original size:27 final size:27
Alignment explanation
Indices: 92492429--92492628 Score: 274
Period size: 27 Copynumber: 7.4 Consensus size: 27
92492419 TGGATAAATT
*
92492429 GTAGAATTACCGAAATACCCCTGTAAG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
92492456 GTAGAATTACCGAAATACACCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
**
92492483 GTAGAATTATTGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
92492510 GTAGAATTACCAAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
92492537 ATAGAATTACCGAAATACACTTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
92492564 GTAGAAATACTGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
92492591 GTAGAATTACCGAGATACCCTTGTGGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
92492618 GTAAAATTACC
1 GTAGAATTACC
92492629 ATTTTGCCCC
Statistics
Matches: 150, Mismatches: 23, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 150 1.00
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.24
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:92497885 original size:18 final size:18
Alignment explanation
Indices: 92497848--92497886 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
92497838 TTGGAAATCA
*
92497848 AAATTATTAAAAGATGAT
1 AAATTATTAAAAGATAAT
92497866 AAATTATTAAATAGA-AAT
1 AAATTATTAAA-AGATAAT
92497884 AAA
1 AAA
92497887 ATCATTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 16 0.84
19 3 0.16
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.31
Consensus pattern (18 bp):
AAATTATTAAAAGATAAT
Found at i:92512651 original size:43 final size:42
Alignment explanation
Indices: 92512604--92512763 Score: 141
Period size: 43 Copynumber: 3.8 Consensus size: 42
92512594 ATATATAATG
* **
92512604 CTGTCCCAGACGTGGTCTTACATGTAATCAAACATCGATGCCA
1 CTGTCCCAAACGTGGTCTTACATAAAATCAAA-ATCGATGCCA
* * *
92512647 CTGTCCCAGACAG-GGTCTTACACAAAATC-AGATACGATGCCGA
1 CTGTCCCAAAC-GTGGTCTTACATAAAATCAAAAT-CGATGCC-A
*
92512690 -TGTCCCAAACATGGTCTTACACTTAAAA-CAAAAGTCGATGCCA
1 CTGTCCCAAACGTGGTCTTACA--TAAAATCAAAA-TCGATGCCA
* *
92512733 ATGTCCCAAACTTGGT-TTACATAAAATCAAA
1 CTGTCCCAAACGTGGTCTTACATAAAATCAAA
92512764 TAATGGAATC
Statistics
Matches: 98, Mismatches: 9, Indels: 21
0.77 0.07 0.16
Matches are distributed among these distances:
41 7 0.07
42 30 0.31
43 32 0.33
44 28 0.29
45 1 0.01
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.24
Consensus pattern (42 bp):
CTGTCCCAAACGTGGTCTTACATAAAATCAAAATCGATGCCA
Found at i:92512706 original size:42 final size:41
Alignment explanation
Indices: 92512605--92512763 Score: 126
Period size: 42 Copynumber: 3.8 Consensus size: 41
92512595 TATATAATGC
* * *** *
92512605 TGTCCCAGACGTGGTCTTACATGTAATCAAACATCGATGCCA
1 TGTCCCAAACATGGTCTTACACAAAATCAAA-AGCGATGCCA
* * *
92512647 CTGTCCCAGACAGGGTCTTACACAAAATCAGATA-CGATGCCGA
1 -TGTCCCAAACATGGTCTTACACAAAATCA-AAAGCGATGCC-A
92512690 TGTCCCAAACATGGTCTTACACTTAAAA-CAAAAGTCGATGCCAA
1 TGTCCCAAACATGGTCTTACAC--AAAATCAAAAG-CGATGCC-A
* *
92512734 TGTCCCAAACTTGGT-TTACATAAAATCAAA
1 TGTCCCAAACATGGTCTTACACAAAATCAAA
92512764 TAATGGAATC
Statistics
Matches: 97, Mismatches: 12, Indels: 15
0.78 0.10 0.12
Matches are distributed among these distances:
41 4 0.04
42 33 0.34
43 33 0.34
44 27 0.28
ACGTcount: A:0.35, C:0.25, G:0.16, T:0.24
Consensus pattern (41 bp):
TGTCCCAAACATGGTCTTACACAAAATCAAAAGCGATGCCA
Found at i:92512753 original size:85 final size:85
Alignment explanation
Indices: 92512605--92512761 Score: 194
Period size: 85 Copynumber: 1.8 Consensus size: 85
92512595 TATATAATGC
* * * * *
92512605 TGTCCCAGACGTGGTCTTACATGTAATCAAACATCGATGCCACTGTCCCAGACAGGGTCTTACAC
1 TGTCCCAAACATGGTCTTACATGTAAACAAACATCGATGCCAATGTCCCAAACAGGGTCTTACAC
92512670 AAAATCAGATACGATGCCGA
66 AAAATCAGATACGATGCCGA
**
92512690 TGTCCCAAACATGGTCTTACACT-TAAAACAAA-AGTCGATGCCAATGTCCCAAACTTGGT-TTA
1 TGTCCCAAACATGGTCTTACA-TGT-AAACAAACA-TCGATGCCAATGTCCCAAACAGGGTCTTA
*
92512752 CATAAAATCA
63 CACAAAATCA
92512762 AATAATGGAA
Statistics
Matches: 61, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
85 33 0.54
86 28 0.46
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.24
Consensus pattern (85 bp):
TGTCCCAAACATGGTCTTACATGTAAACAAACATCGATGCCAATGTCCCAAACAGGGTCTTACAC
AAAATCAGATACGATGCCGA
Found at i:92515810 original size:27 final size:27
Alignment explanation
Indices: 92515780--92515883 Score: 131
Period size: 27 Copynumber: 3.8 Consensus size: 27
92515770 CTGCCAGAAT
* *
92515780 AGATATTGTGACAGAGTCACCAAATAC
1 AGATATTGTGGCAGAGCCACCAAATAC
*
92515807 AGATATTGTGGCAGAGCCGCCAGAA-AC
1 AGATATTGTGGCAGAGCCACCA-AATAC
*
92515834 AGATATTTGTGGCAGAGCCACCATAT-C
1 AGATA-TTGTGGCAGAGCCACCAAATAC
92515861 AGATATTGGTGGCAGAGCCACCA
1 AGATATT-GTGGCAGAGCCACCA
92515884 GAACGCTTCC
Statistics
Matches: 68, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
26 2 0.03
27 48 0.71
28 18 0.26
ACGTcount: A:0.34, C:0.21, G:0.25, T:0.20
Consensus pattern (27 bp):
AGATATTGTGGCAGAGCCACCAAATAC
Found at i:92515867 original size:54 final size:55
Alignment explanation
Indices: 92515772--92515886 Score: 155
Period size: 55 Copynumber: 2.1 Consensus size: 55
92515762 CAGCATGGCT
* *
92515772 GCCAG-AATAGATATTGTGACAGAGTCACCAAATACAGATATT-GTGGCAGAGCC
1 GCCAGAAACAGATATTGTGACAGAGCCACCAAATACAGATATTGGTGGCAGAGCC
* *
92515825 GCCAGAAACAGATATTTGTGGCAGAGCCACCATAT-CAGATATTGGTGGCAGAGCC
1 GCCAGAAACAGATA-TTGTGACAGAGCCACCAAATACAGATATTGGTGGCAGAGCC
*
92515880 ACCAGAA
1 GCCAGAA
92515887 CGCTTCCTTT
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
53 5 0.09
54 15 0.28
55 34 0.63
ACGTcount: A:0.35, C:0.21, G:0.25, T:0.19
Consensus pattern (55 bp):
GCCAGAAACAGATATTGTGACAGAGCCACCAAATACAGATATTGGTGGCAGAGCC
Found at i:92521541 original size:25 final size:25
Alignment explanation
Indices: 92521504--92521606 Score: 102
Period size: 25 Copynumber: 4.1 Consensus size: 25
92521494 TCATTAGTGT
* * *
92521504 TACCAATTTATAGCTCGTGAGAGCA
1 TACCGATTCATAGCTCGTAAGAGCA
* *
92521529 TACCGATTCATAGCTCATGAGAGCA
1 TACCGATTCATAGCTCGTAAGAGCA
* *
92521554 TACCGA-TCTTCAGCTC-AAATGAGCA
1 TACCGATTCAT-AGCTCGTAA-GAGCA
*
92521579 TACCGATTCATAGCTTGTAAGAGCA
1 TACCGATTCATAGCTCGTAAGAGCA
92521604 TAC
1 TAC
92521607 ATGTACATAA
Statistics
Matches: 65, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
24 4 0.06
25 56 0.86
26 5 0.08
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.26
Consensus pattern (25 bp):
TACCGATTCATAGCTCGTAAGAGCA
Found at i:92532157 original size:27 final size:25
Alignment explanation
Indices: 92532109--92532167 Score: 64
Period size: 27 Copynumber: 2.3 Consensus size: 25
92532099 GCGAGGCTGC
*
92532109 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACC-GA-A
* * *
92532136 CAGATATTGTGGCTAGGCCACCGAA
1 CAGATATTGTGACGAAGCCACCGAA
92532161 CAGATAT
1 CAGATAT
92532168 ATATATATGT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 8 0.29
26 2 0.07
27 18 0.64
ACGTcount: A:0.34, C:0.20, G:0.24, T:0.22
Consensus pattern (25 bp):
CAGATATTGTGACGAAGCCACCGAA
Found at i:92532180 original size:32 final size:31
Alignment explanation
Indices: 92532130--92532189 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 31
92532120 ACGAAGTCAC
* *
92532130 CAGATACAGATATTGTGGCTAGGCCACCGAA
1 CAGATACAGATATTGTGGCGAAGCCACCGAA
* *
92532161 CAGATATATATATATGTGGCGAAGCCACC
1 CAGATACAGATAT-TGTGGCGAAGCCACC
92532190 AAATTACAGC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
31 11 0.46
32 13 0.54
ACGTcount: A:0.33, C:0.22, G:0.23, T:0.22
Consensus pattern (31 bp):
CAGATACAGATATTGTGGCGAAGCCACCGAA
Found at i:92532262 original size:99 final size:99
Alignment explanation
Indices: 92532091--92532355 Score: 469
Period size: 99 Copynumber: 2.7 Consensus size: 99
92532081 CACACCACAG
* * * *
92532091 AAATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGATACAGATATTGTGGCTAGGCCA
1 AAATTACAGCCAGGCTGTCTGATATTGTGACGAAGTCACCAGATACAGATATTGTGGCTAGGCCA
92532156 CCGAACAGATATATATATATGTGGCGAAGCCACC
66 CCGAACAGATATATATATATGTGGCGAAGCCACC
92532190 AAATTACAGCCAGGCTGTCTGATATTGTGACGAAGTCACCAGATACAGATATTGTGGCTAGGCCA
1 AAATTACAGCCAGGCTGTCTGATATTGTGACGAAGTCACCAGATACAGATATTGTGGCTAGGCCA
92532255 CCGAACAGATATATATATATGTGGCGAAGCCACC
66 CCGAACAGATATATATATATGTGGCGAAGCCACC
*
92532289 AAATTACAGCCAGGCTGTCTGATATTGTGACGAAGTCACCAGA-ACAGATATATGTGGCAAGGCC
1 AAATTACAGCCAGGCTGTCTGATATTGTGACGAAGTCACCAGATACAGATAT-TGTGGCTAGGCC
92532353 ACC
65 ACC
92532356 AGATTGCAGC
Statistics
Matches: 160, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
98 8 0.05
99 152 0.95
ACGTcount: A:0.32, C:0.22, G:0.24, T:0.22
Consensus pattern (99 bp):
AAATTACAGCCAGGCTGTCTGATATTGTGACGAAGTCACCAGATACAGATATTGTGGCTAGGCCA
CCGAACAGATATATATATATGTGGCGAAGCCACC
Found at i:92532279 original size:32 final size:31
Alignment explanation
Indices: 92532229--92532288 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 31
92532219 ACGAAGTCAC
* *
92532229 CAGATACAGATATTGTGGCTAGGCCACCGAA
1 CAGATACAGATATTGTGGCGAAGCCACCGAA
* *
92532260 CAGATATATATATATGTGGCGAAGCCACC
1 CAGATACAGATAT-TGTGGCGAAGCCACC
92532289 AAATTACAGC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
31 11 0.46
32 13 0.54
ACGTcount: A:0.33, C:0.22, G:0.23, T:0.22
Consensus pattern (31 bp):
CAGATACAGATATTGTGGCGAAGCCACCGAA
Found at i:92543910 original size:181 final size:181
Alignment explanation
Indices: 92543606--92543965 Score: 661
Period size: 181 Copynumber: 2.0 Consensus size: 181
92543596 GGCACAAGGC
92543606 CTAGCCACATGGCTGTGTGACCCCTGTATCAAAATTTTTGTAACGTTTTCCTAGACTTTGCAAAT
1 CTAGCCACATGGCTGTGTGACCCCTGTATCAAAATTTTTGTAACGTTTTCCTAGACTTTGCAAAT
*
92543671 AATTTTAATTTAGTCCCAAATTATTTCTGAGGTGTTTCTTGGGCCCCGAGGGCTCAATATAGGGA
66 AATTTTAATTTAGTACCAAATTATTTCTGAGGTGTTTCTTGGGCCCCGAGGGCTCAATATAGGGA
* *
92543736 TGGTGTGTGTATGTATGAATGATTTATGTTATGTTTATGATGTTGAATGTG
131 TGATGTGTGTATGTATGAATGATTTATATTATGTTTATGATGTTGAATGTG
92543787 CTAGCCACATGGCTGTGTGACCCCTGTATCAAAATTTTTGTAA-GTTTTTCCTAGACTTTGCAAA
1 CTAGCCACATGGCTGTGTGACCCCTGTATCAAAATTTTTGTAACG-TTTTCCTAGACTTTGCAAA
92543851 TAATTTTAATTTAGTACCAAA-TAGTTTCTGAGGTGTTTCTTGGGCCCCGAGGGCTCAATATAGG
65 TAATTTTAATTTAGTACCAAATTA-TTTCTGAGGTGTTTCTTGGGCCCCGAGGGCTCAATATAGG
92543915 GATGATGTGTGTATGTATGAATGATTTATATTATGTTTATGATGTTGAATG
129 GATGATGTGTGTATGTATGAATGATTTATATTATGTTTATGATGTTGAATG
92543966 AAATTAAGTT
Statistics
Matches: 174, Mismatches: 3, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
180 3 0.02
181 171 0.98
ACGTcount: A:0.25, C:0.14, G:0.22, T:0.39
Consensus pattern (181 bp):
CTAGCCACATGGCTGTGTGACCCCTGTATCAAAATTTTTGTAACGTTTTCCTAGACTTTGCAAAT
AATTTTAATTTAGTACCAAATTATTTCTGAGGTGTTTCTTGGGCCCCGAGGGCTCAATATAGGGA
TGATGTGTGTATGTATGAATGATTTATATTATGTTTATGATGTTGAATGTG
Found at i:92548005 original size:2 final size:2
Alignment explanation
Indices: 92547998--92548025 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
92547988 CAAATTCATT
92547998 CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA
92548026 TGTATAGATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:92548295 original size:39 final size:39
Alignment explanation
Indices: 92548252--92548380 Score: 195
Period size: 39 Copynumber: 3.3 Consensus size: 39
92548242 CTTTAACCCA
* ** * *
92548252 GATATTTTTCCAGCACGTAGCCTGCGGACCTCAAGTCCG
1 GATATATTTCCAGCATATAGCCTGCGGACCTCATGTTCG
*
92548291 GATATATTTCCAGCATATAGCCTACGGACCTCATGTTCG
1 GATATATTTCCAGCATATAGCCTGCGGACCTCATGTTCG
*
92548330 GATATATTTCCAACATATAGCCTGCGGACCTCATGTTCG
1 GATATATTTCCAGCATATAGCCTGCGGACCTCATGTTCG
92548369 GATATATTTCCA
1 GATATATTTCCA
92548381 ATCTCATATA
Statistics
Matches: 82, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 82 1.00
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.30
Consensus pattern (39 bp):
GATATATTTCCAGCATATAGCCTGCGGACCTCATGTTCG
Found at i:92551919 original size:285 final size:285
Alignment explanation
Indices: 92551409--92551975 Score: 1098
Period size: 285 Copynumber: 2.0 Consensus size: 285
92551399 TCGGATTGGC
92551409 TGTGACAGCCCTAAAGCGACCCTAGTAGGAAAGCGATTTCGGGACCGCTAAACCGAGTCACCAAA
1 TGTGACAGCCCTAAAGCGACCCTAGTAGGAAAGCGATTTCGGGACCGCTAAACCGAGTCACCAAA
* *
92551474 TTATTTGAATATGATATTTATTGTCTAAAATAACTGTGTGAAAATTTTAAGCTTTGATTTAGTAA
66 TTATTTGAATATGATATTTATTGTCTAAAATAAATGTGTGAAAATTTTAAGCTTCGATTTAGTAA
92551539 ATTGCATGTGAATTTAGTCAATAGGACTTATGTGTGACACTTTTGAAATGTGATAGATCAAAACA
131 ATTGCATGTGAATTTAGTCAATAGGACTTATGTGTGACACTTTTGAAATGTGATAGATCAAAACA
92551604 TAAGGACCTATTAGTGCATGTTGAAAAAGGGGGGACTTGCATGTCAATTTTTCCCCCCATCCAGT
196 TAAGGACCTATTAGTGCATGTTGAAAAAGGGGGGACTTGCATGTCAATTTTTCCCCCCATCCAGT
92551669 AGTGGCCGGCCATGACATTAGGGTG
261 AGTGGCCGGCCATGACATTAGGGTG
92551694 TGTGACAGCCCTAAAGCGACCCTAGTAGGAAAGCGATTTCGGGACCGCTAAACCGAGTCACCAAA
1 TGTGACAGCCCTAAAGCGACCCTAGTAGGAAAGCGATTTCGGGACCGCTAAACCGAGTCACCAAA
92551759 TTATTTGAATATGATATTTATTGTCTAAAATAAATGTGTGAAAATTTTAAGCTTCGATTTAGTAA
66 TTATTTGAATATGATATTTATTGTCTAAAATAAATGTGTGAAAATTTTAAGCTTCGATTTAGTAA
*
92551824 ATTGCATGTGAATTTAGTCAATAGGACTTATGTGTGACATTTTTGAAATGTGATAGATCAAAACA
131 ATTGCATGTGAATTTAGTCAATAGGACTTATGTGTGACACTTTTGAAATGTGATAGATCAAAACA
*
92551889 TAAGGACCTATTAGTGCATGTTGAAAAAGGGGGGACTTGCATGTCAATTTTTCCCCCCATCTAGT
196 TAAGGACCTATTAGTGCATGTTGAAAAAGGGGGGACTTGCATGTCAATTTTTCCCCCCATCCAGT
92551954 AGTGGCCGGCCATGACATTAGG
261 AGTGGCCGGCCATGACATTAGG
92551976 ATGGACAAAG
Statistics
Matches: 278, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
285 278 1.00
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.30
Consensus pattern (285 bp):
TGTGACAGCCCTAAAGCGACCCTAGTAGGAAAGCGATTTCGGGACCGCTAAACCGAGTCACCAAA
TTATTTGAATATGATATTTATTGTCTAAAATAAATGTGTGAAAATTTTAAGCTTCGATTTAGTAA
ATTGCATGTGAATTTAGTCAATAGGACTTATGTGTGACACTTTTGAAATGTGATAGATCAAAACA
TAAGGACCTATTAGTGCATGTTGAAAAAGGGGGGACTTGCATGTCAATTTTTCCCCCCATCCAGT
AGTGGCCGGCCATGACATTAGGGTG
Found at i:92556568 original size:51 final size:51
Alignment explanation
Indices: 92556492--92556593 Score: 186
Period size: 51 Copynumber: 2.0 Consensus size: 51
92556482 TATACCCAAA
92556492 ACTGCTCTCAGAACGAGATACGGCCACTACGAGTTCTTAGTGATGCCGTTT
1 ACTGCTCTCAGAACGAGATACGGCCACTACGAGTTCTTAGTGATGCCGTTT
* *
92556543 ACTGCTTTCAGAACGAGATACGGCCACTAGGAGTTCTTAGTGATGCCGTTT
1 ACTGCTCTCAGAACGAGATACGGCCACTACGAGTTCTTAGTGATGCCGTTT
92556594 GGGCTCACTA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.24, C:0.24, G:0.25, T:0.28
Consensus pattern (51 bp):
ACTGCTCTCAGAACGAGATACGGCCACTACGAGTTCTTAGTGATGCCGTTT
Found at i:92559537 original size:38 final size:38
Alignment explanation
Indices: 92559494--92559607 Score: 210
Period size: 38 Copynumber: 3.0 Consensus size: 38
92559484 TTCATCCTTT
* *
92559494 TTCATTTCTTCTGGCCGAAAATTCTAAGGAATGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
92559532 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
92559570 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
92559608 GGAGTTCTTG
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 74 1.00
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.32
Consensus pattern (38 bp):
TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
Found at i:92560371 original size:40 final size:39
Alignment explanation
Indices: 92560287--92560471 Score: 185
Period size: 40 Copynumber: 4.6 Consensus size: 39
92560277 TCGAATGATG
* * * *
92560287 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
92560327 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
* *
92560367 TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
92560406 TCTGGGTTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
*
92560447 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
92560472 AACGAGTAGC
Statistics
Matches: 121, Mismatches: 20, Indels: 8
0.81 0.13 0.05
Matches are distributed among these distances:
39 33 0.27
40 78 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:92560493 original size:79 final size:79
Alignment explanation
Indices: 92560340--92560494 Score: 181
Period size: 79 Copynumber: 2.0 Consensus size: 79
92560330 GGACTAAGAT
* **
92560340 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
92560405 ATCTGGGTTAAGTC
66 ATCTCGGTTAAGTC
* * * *
92560419 CCGAAGGCATTTGTGTGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
*
92560482 TATATC-CGGTTAA
63 TAAATCTCGGTTAA
92560495 ATTTTGAAGG
Statistics
Matches: 64, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
78 2 0.03
79 39 0.61
80 23 0.36
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCTCGGTTAAGTC
Found at i:92563411 original size:6 final size:6
Alignment explanation
Indices: 92563393--92563473 Score: 119
Period size: 6 Copynumber: 13.3 Consensus size: 6
92563383 AAGAAACATT
92563393 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* *
92563441 ATCAGA ATCAGA TAACAGA ATCAAA ATCAGA AT
1 ATCAGA ATCAGA -ATCAGA ATCAGA ATCAGA AT
92563474 GTGAATGCAA
Statistics
Matches: 68, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
5 1 0.01
6 61 0.90
7 6 0.09
ACGTcount: A:0.52, C:0.16, G:0.15, T:0.17
Consensus pattern (6 bp):
ATCAGA
Found at i:92564593 original size:27 final size:27
Alignment explanation
Indices: 92563888--92564596 Score: 972
Period size: 27 Copynumber: 26.3 Consensus size: 27
92563878 GGTGTAAAAT
* * *
92563888 GGTAATTTTACCCCACAAGGGTATCTT-
1 GGTAATTCTACCCTACAGGGGTAT-TTC
* *
92563915 AGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
92563942 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
92563969 GGTATTTCTACCCTACCA-GGGTATTTT
1 GGTAATTCTACCCTA-CAGGGGTATTTC
* *
92563996 GGTAATTCTACACTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
92564023 AGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
** *
92564050 AATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
92564077 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
92564104 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * *
92564131 AGAAATTCTACCCTAAAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
92564158 GATGATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
92564185 GGTAATTCTACCCTATAGAGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
92564212 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
92564239 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
92564266 GGTAATTCTACCCTATAGAGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
92564293 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
92564320 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
92564347 GGTAATTCTACCCTATAGAGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
92564374 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
92564401 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
92564428 GGTAATTCTACCCTATAGAGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
92564455 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
92564482 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
92564509 GGTAATTCTACCCTATAGAGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
92564536 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
92564563 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
92564590 GGTAATT
1 GGTAATT
92564597 TTATAAACAA
Statistics
Matches: 604, Mismatches: 75, Indels: 6
0.88 0.11 0.01
Matches are distributed among these distances:
26 4 0.01
27 599 0.99
28 1 0.00
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:92564614 original size:27 final size:27
Alignment explanation
Indices: 92564581--92564901 Score: 410
Period size: 27 Copynumber: 11.9 Consensus size: 27
92564571 TACCCTACAG
*
92564581 GGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTGGTAATTTTATAAACCAA
* *
92564608 GGATATTTTAGTAATTTTATAAACC-A
1 GGGTATTTTGGTAATTTTATAAACCAA
*
92564634 GAGGTATTTTGGTAATTTTGTAAACCAA
1 G-GGTATTTTGGTAATTTTATAAACCAA
*
92564662 GGGTATTTTAGTAATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTATAAACCAA
*
92564689 GGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTATAAACCAA
* * * *
92564716 GGGTATTCTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAA
* *
92564743 GGGTATTTTTGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTATAAACCAA
*
92564770 GGGTATTTTGGTAATTTTACAAACCAA
1 GGGTATTTTGGTAATTTTATAAACCAA
*
92564797 GGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTATAAACCAA
* * * *
92564824 GGGTATTCTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAA
* **
92564851 GGGTATTTTGGTAATTTTACAAGTCAA
1 GGGTATTTTGGTAATTTTATAAACCAA
** *
92564878 GGGTATTTCAGTAATTTTGTAAAC
1 GGGTATTTTGGTAATTTTATAAAC
92564902 TAAAGTATTC
Statistics
Matches: 251, Mismatches: 41, Indels: 4
0.85 0.14 0.01
Matches are distributed among these distances:
26 2 0.01
27 247 0.98
28 2 0.01
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.40
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTATAAACCAA
Found at i:92564642 original size:81 final size:81
Alignment explanation
Indices: 92563890--92564596 Score: 1132
Period size: 81 Copynumber: 8.7 Consensus size: 81
92563880 TGTAAAATGG
* * * * *
92563890 TAATTTTACCCCACAAGGGTATCTT-AGTAATTCTACCCTACAGGGGTATTTTAGTAATTCTACC
1 TAATTCTACCCTACAGGGGTAT-TTCGGTAATTCTACCCTACAGGGGTATTTTGGTAATTCTACC
* *
92563954 CTATAGGGGTATTTCGG
65 CTATAGAGGTATTTCGA
* * * *
92563971 TATTTCTACCCTACCA-GGGTATTTTGGTAATTCTACACTACAGGGGTATTTTAGTAATTCTACC
1 TAATTCTACCCTA-CAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTGGTAATTCTACC
* * * *
92564035 TTACAGGGGTATTTCAA
65 CTATAGAGGTATTTCGA
** * **
92564052 TAATTCTACCCTACAGGGGTATTTTAGTAATTCTACCCTATAGGGGTATTTCAGTAATTCTACCC
1 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTGGTAATTCTACCC
* *
92564117 TACAGGGGTATTTCAGA
66 TATAGAGGTATTTC-GA
* * * *
92564134 -AATTCTACCCTAAAAGGGTATTTCGATGATTCTACCCTACAGGGGTATTTTGGTAATTCTACCC
1 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTGGTAATTCTACCC
92564198 TATAGAGGTATTTCGA
66 TATAGAGGTATTTCGA
92564214 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTGGTAATTCTACCC
1 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTGGTAATTCTACCC
92564279 TATAGAGGTATTTCGA
66 TATAGAGGTATTTCGA
92564295 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTGGTAATTCTACCC
1 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTGGTAATTCTACCC
92564360 TATAGAGGTATTTCGA
66 TATAGAGGTATTTCGA
92564376 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTGGTAATTCTACCC
1 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTGGTAATTCTACCC
92564441 TATAGAGGTATTTCGA
66 TATAGAGGTATTTCGA
92564457 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTGGTAATTCTACCC
1 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTGGTAATTCTACCC
92564522 TATAGAGGTATTTCGA
66 TATAGAGGTATTTCGA
92564538 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTGGTAATT
1 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTGGTAATT
92564597 TTATAAACAA
Statistics
Matches: 590, Mismatches: 31, Indels: 10
0.94 0.05 0.02
Matches are distributed among these distances:
80 6 0.01
81 581 0.98
82 3 0.01
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.36
Consensus pattern (81 bp):
TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTGGTAATTCTACCC
TATAGAGGTATTTCGA
Found at i:92564859 original size:108 final size:108
Alignment explanation
Indices: 92564581--92564895 Score: 504
Period size: 108 Copynumber: 2.9 Consensus size: 108
92564571 TACCCTACAG
* * * * * *
92564581 GGGTATTTTGGTAATTTTATAAACAAAGGATATTTTAGTAATTTTATAAACCAGAGGTATTTTGG
1 GGGTATTTTGGTGATTTTATAAACCAAGGGTATTCTAGTAATTTTACAAACCAGGGGTATTTTGG
*
92564646 TAATTTTGTAAACCAAGGGTATTTTAGTAATTTTATAAACCAA
66 TAATTTTGTAAACCAAGGGTATTTTAGTAATTTTACAAACCAA
*
92564689 GGGTATTTTGGTGATTTTATAAACCAAGGGTATTCTAGTAATTTTACAAACCAGGGGTATTTTTG
1 GGGTATTTTGGTGATTTTATAAACCAAGGGTATTCTAGTAATTTTACAAACCAGGGGTATTTTGG
*
92564754 TAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACAAACCAA
66 TAATTTTGTAAACCAAGGGTATTTTAGTAATTTTACAAACCAA
92564797 GGGTATTTTGGTGATTTTATAAACCAAGGGTATTCTAGTAATTTTACAAACCAGGGGTATTTTGG
1 GGGTATTTTGGTGATTTTATAAACCAAGGGTATTCTAGTAATTTTACAAACCAGGGGTATTTTGG
** ** *
92564862 TAATTTTACAAGTCAAGGGTATTTCAGTAATTTT
66 TAATTTTGTAAACCAAGGGTATTTTAGTAATTTT
92564896 GTAAACTAAA
Statistics
Matches: 191, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
108 191 1.00
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40
Consensus pattern (108 bp):
GGGTATTTTGGTGATTTTATAAACCAAGGGTATTCTAGTAATTTTACAAACCAGGGGTATTTTGG
TAATTTTGTAAACCAAGGGTATTTTAGTAATTTTACAAACCAA
Found at i:92569655 original size:39 final size:39
Alignment explanation
Indices: 92569612--92569701 Score: 126
Period size: 39 Copynumber: 2.3 Consensus size: 39
92569602 CTTTAACCCA
* *
92569612 GATATTTTTCCAGCACGTAGCCTACAGACCTCATGTCCG
1 GATATATTTCCAGCACATAGCCTACAGACCTCATGTCCG
* * * *
92569651 GATATATTTCCATCATATAGCCTGCGGACCTCATGTCCG
1 GATATATTTCCAGCACATAGCCTACAGACCTCATGTCCG
92569690 GATATATTTCCA
1 GATATATTTCCA
92569702 ATCTCATATA
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 45 1.00
ACGTcount: A:0.24, C:0.28, G:0.17, T:0.31
Consensus pattern (39 bp):
GATATATTTCCAGCACATAGCCTACAGACCTCATGTCCG
Found at i:92570879 original size:14 final size:15
Alignment explanation
Indices: 92570845--92570886 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
92570835 ACATCAAATC
92570845 TATATATATATAGCCA
1 TATATATATATA-CCA
*
92570861 AATATATATATA-CA
1 TATATATATATACCA
*
92570875 TATATATTTATA
1 TATATATATATA
92570887 TAGCTCATCA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
14 12 0.52
16 11 0.48
ACGTcount: A:0.48, C:0.07, G:0.02, T:0.43
Consensus pattern (15 bp):
TATATATATATACCA
Found at i:92573236 original size:17 final size:18
Alignment explanation
Indices: 92573205--92573242 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
92573195 TAATATGGTT
92573205 TGATATGGATGTGAT-TA
1 TGATATGGATGTGATATA
* *
92573222 TGATATGGTTTTGATATA
1 TGATATGGATGTGATATA
92573240 TGA
1 TGA
92573243 ATTATGAGGC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.29, C:0.00, G:0.26, T:0.45
Consensus pattern (18 bp):
TGATATGGATGTGATATA
Found at i:92575124 original size:28 final size:27
Alignment explanation
Indices: 92575067--92575218 Score: 232
Period size: 27 Copynumber: 5.6 Consensus size: 27
92575057 TAAATTGTGC
* *
92575067 AGCACTAAGTGTGCGAATTGAATATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
92575094 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
92575122 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
92575149 AGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGT-TGACTATGT
* *
92575177 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
92575204 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
92575219 GACTTAATAT
Statistics
Matches: 118, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
27 66 0.56
28 52 0.44
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:92575132 original size:55 final size:55
Alignment explanation
Indices: 92575067--92575218 Score: 241
Period size: 55 Copynumber: 2.8 Consensus size: 55
92575057 TAAATTGTGC
* *
92575067 AGCACTAAGTGTGCGAATTGAATATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
* *
92575122 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
* * *
92575177 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCG
92575219 GACTTAATAT
Statistics
Matches: 90, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 90 1.00
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
Found at i:92575682 original size:20 final size:20
Alignment explanation
Indices: 92575657--92575697 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
92575647 ACTTACTGAG
92575657 TTATAAACTCACTCGGTGTT
1 TTATAAACTCACTCGGTGTT
92575677 TTATAAACTCACTCGGTGTT
1 TTATAAACTCACTCGGTGTT
92575697 T
1 T
92575698 CCTTGTCACC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.24, C:0.20, G:0.15, T:0.41
Consensus pattern (20 bp):
TTATAAACTCACTCGGTGTT
Found at i:92581623 original size:28 final size:27
Alignment explanation
Indices: 92581564--92581657 Score: 152
Period size: 27 Copynumber: 3.4 Consensus size: 27
92581554 CGGGGACGAA
*
92581564 ACTAAGTGTGCGAGTTGACTATGTAGC
1 ACTAAGTGTGCGAGTTGATTATGTAGC
92581591 ACTAAGTGTGCGAGTATGATTATGTAGC
1 ACTAAGTGTGCGAGT-TGATTATGTAGC
*
92581619 ACTAAGTGTGCGAGTTGATTATATAGC
1 ACTAAGTGTGCGAGTTGATTATGTAGC
*
92581646 ACTGAGTGTGCG
1 ACTAAGTGTGCG
92581658 GACTTAATAT
Statistics
Matches: 63, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
27 37 0.59
28 26 0.41
ACGTcount: A:0.27, C:0.13, G:0.30, T:0.31
Consensus pattern (27 bp):
ACTAAGTGTGCGAGTTGATTATGTAGC
Found at i:92581668 original size:27 final size:27
Alignment explanation
Indices: 92581564--92581670 Score: 108
Period size: 27 Copynumber: 3.9 Consensus size: 27
92581554 CGGGGACGAA
* * *
92581564 ACTAAGTGTGCGAGTTGACTATGTAGC
1 ACTAAGTGTGCGACTTGAATATATAGC
* * *
92581591 ACTAAGTGTGCGAGTATGATTATGTAGC
1 ACTAAGTGTGCGACT-TGAATATATAGC
* *
92581619 ACTAAGTGTGCGAGTTGATTATATAGC
1 ACTAAGTGTGCGACTTGAATATATAGC
*
92581646 ACTGAGTGTGCGGACTT-AATATATA
1 ACTAAGTGTGC-GACTTGAATATATA
92581671 TTCTTGAATC
Statistics
Matches: 73, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
27 43 0.59
28 30 0.41
ACGTcount: A:0.29, C:0.12, G:0.27, T:0.32
Consensus pattern (27 bp):
ACTAAGTGTGCGACTTGAATATATAGC
Found at i:92584531 original size:18 final size:18
Alignment explanation
Indices: 92584508--92584546 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
92584498 TAACTAACAC
92584508 TAAGAAAAACAAGAAAAA
1 TAAGAAAAACAAGAAAAA
**
92584526 TAAGAAAATGAAGAAAAA
1 TAAGAAAAACAAGAAAAA
92584544 TAA
1 TAA
92584547 ACTATAATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.74, C:0.03, G:0.13, T:0.10
Consensus pattern (18 bp):
TAAGAAAAACAAGAAAAA
Found at i:92586911 original size:40 final size:40
Alignment explanation
Indices: 92586856--92586933 Score: 120
Period size: 40 Copynumber: 1.9 Consensus size: 40
92586846 GGAAAAAAAA
*
92586856 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
1 TATAACCGGGTTAAGTCCCAAAGGCATTCGTGCGGGTTAT
* * *
92586896 TATAACCGGGTTAAGTCCTAAAGGCATTTGTGCTGGTT
1 TATAACCGGGTTAAGTCCCAAAGGCATTCGTGCGGGTT
92586934 GTTACATCCG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.31
Consensus pattern (40 bp):
TATAACCGGGTTAAGTCCCAAAGGCATTCGTGCGGGTTAT
Found at i:92588265 original size:61 final size:61
Alignment explanation
Indices: 92588190--92588310 Score: 233
Period size: 61 Copynumber: 2.0 Consensus size: 61
92588180 ACGAGGTGTT
92588190 AACTGACTTTAACCCCTTACAAAATTTATTTTCCAGACACTGCCCAATCTGTGTACTAGTC
1 AACTGACTTTAACCCCTTACAAAATTTATTTTCCAGACACTGCCCAATCTGTGTACTAGTC
*
92588251 AACTGACTTTAACCCCTTACAAAATTTATTTTCCAGGCACTGCCCAATCTGTGTACTAGT
1 AACTGACTTTAACCCCTTACAAAATTTATTTTCCAGACACTGCCCAATCTGTGTACTAGT
92588311 TGTTTTAAAA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 59 1.00
ACGTcount: A:0.29, C:0.27, G:0.11, T:0.33
Consensus pattern (61 bp):
AACTGACTTTAACCCCTTACAAAATTTATTTTCCAGACACTGCCCAATCTGTGTACTAGTC
Found at i:92589585 original size:27 final size:27
Alignment explanation
Indices: 92589555--92589729 Score: 172
Period size: 27 Copynumber: 6.4 Consensus size: 27
92589545 TTGAGCCCGT
* * * *
92589555 ACACTCAGTGCTATATAATCAACTCGC
1 ACACTTAGTGCTACATAGTCAAATCGC
* *
92589582 ACACTTAGTGCTACGTAATCAAATCGC
1 ACACTTAGTGCTACATAGTCAAATCGC
* **
92589609 ACACTTAGTGCCACATAGTCCATCTCGC
1 ACACTTAGTGCTACATAGT-CAAATCGC
** * *
92589637 ACACTTAGTGCCGCATGGTCAATTCGC
1 ACACTTAGTGCTACATAGTCAAATCGC
* **
92589664 ACACTTAGTGC-ATCATATTCATTTCGC
1 ACACTTAGTGCTA-CATAGTCAAATCGC
*
92589691 ACACTTAGTGCAACATAGTCAAATCGC
1 ACACTTAGTGCTACATAGTCAAATCGC
92589718 ACACTTAGTGCT
1 ACACTTAGTGCT
92589730 GTACAATTTA
Statistics
Matches: 124, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 100 0.81
28 24 0.19
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (27 bp):
ACACTTAGTGCTACATAGTCAAATCGC
Found at i:92589692 original size:82 final size:81
Alignment explanation
Indices: 92589573--92589728 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
92589563 TGCTATATAA
* * **
92589573 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCCACATAGTCCATCTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGT-CAAATCGCA
92589638 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
92589655 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
92589719 CACTTAGTGC
65 CACTTAGTGC
92589729 TGTACAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 18 0.28
82 47 0.72
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:92589712 original size:54 final size:54
Alignment explanation
Indices: 92589577--92589728 Score: 198
Period size: 54 Copynumber: 2.8 Consensus size: 54
92589567 ATATAATCAA
* * *
92589577 CTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCCACATAGTCCAT
1 CTCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTG-CACATAGTCCAT
** * * *
92589632 CTCGCACACTTAGTGCCGCATGGTCAATTCGCACACTTAGTGCATCATA-TTCAT
1 CTCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCA-CATAGTCCAT
*
92589686 TTCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGC
1 CTCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGC
92589729 TGTACAATTT
Statistics
Matches: 84, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
54 44 0.52
55 40 0.48
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.27
Consensus pattern (54 bp):
CTCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCACATAGTCCAT
Found at i:92596804 original size:31 final size:30
Alignment explanation
Indices: 92596746--92596812 Score: 73
Period size: 31 Copynumber: 2.2 Consensus size: 30
92596736 CAATTTAAGA
* *
92596746 AAAAAGTGTCAAGTTTAGGTACTAAATTAGG
1 AAAAAGTGACAAGTTTAGGCACTAAATT-GG
*
92596777 AAAAAGTGACAAGTTTGGGCA-TCAAATTGG
1 AAAAAGTGACAAGTTTAGGCACT-AAATTGG
92596807 ACAAAA
1 A-AAAA
92596813 AAAGTTTAGG
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
30 4 0.13
31 27 0.87
ACGTcount: A:0.45, C:0.09, G:0.22, T:0.24
Consensus pattern (30 bp):
AAAAAGTGACAAGTTTAGGCACTAAATTGG
Found at i:92603827 original size:13 final size:13
Alignment explanation
Indices: 92603809--92603837 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
92603799 TTTAGTTTAA
92603809 TTAGTTAATTAGT
1 TTAGTTAATTAGT
92603822 TTAGTTAATTAGT
1 TTAGTTAATTAGT
92603835 TTA
1 TTA
92603838 ATAAACAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (13 bp):
TTAGTTAATTAGT
Found at i:92611623 original size:15 final size:15
Alignment explanation
Indices: 92611603--92611632 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
92611593 CTATGCGTGC
92611603 AAAATATAAAAGACA
1 AAAATATAAAAGACA
92611618 AAAATATAAAAGACA
1 AAAATATAAAAGACA
92611633 TAACAGTGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.73, C:0.07, G:0.07, T:0.13
Consensus pattern (15 bp):
AAAATATAAAAGACA
Found at i:92612534 original size:16 final size:16
Alignment explanation
Indices: 92612513--92612553 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
92612503 TATTAAGGAC
92612513 TAAATTGAGAAATTTG
1 TAAATTGAGAAATTTG
92612529 TAAATTGAGAAATTTG
1 TAAATTGAGAAATTTG
*
92612545 AAAATTGAG
1 TAAATTGAG
92612554 GGGTCAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.46, C:0.00, G:0.20, T:0.34
Consensus pattern (16 bp):
TAAATTGAGAAATTTG
Found at i:92613228 original size:42 final size:44
Alignment explanation
Indices: 92613158--92613292 Score: 114
Period size: 43 Copynumber: 3.1 Consensus size: 44
92613148 TCTGGGACGT
* * * * * *
92613158 TGGCATCGATTTGTTATTTACGTGTAAGATCATGTCCGGGATAT
1 TGGCATCGATATATGATTTACGTGTAAGACCATGTCCGGGACAG
* *
92613202 TGGCATCG-TATATGATTT-CGTGTAAGACCCTGTCTGGGACAG
1 TGGCATCGATATATGATTTACGTGTAAGACCATGTCCGGGACAG
* ** * ** *
92613244 TGGCATCGATATTTGA-TTACAAGTAAGACCACGTCTAGGACAT
1 TGGCATCGATATATGATTTACGTGTAAGACCATGTCCGGGACAG
92613287 TGGCAT
1 TGGCAT
92613293 TGTATGAGCT
Statistics
Matches: 74, Mismatches: 15, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
42 29 0.39
43 37 0.50
44 8 0.11
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (44 bp):
TGGCATCGATATATGATTTACGTGTAAGACCATGTCCGGGACAG
Found at i:92619738 original size:46 final size:48
Alignment explanation
Indices: 92619592--92619950 Score: 257
Period size: 46 Copynumber: 7.6 Consensus size: 48
92619582 TTTGTGTGCT
* * *
92619592 AGTGTAAGA-CATGTTTGGGACAT-GCATC-AGCCAC-ATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGA-CCTCGA-GATGAGAGCC
* * * * *
92619638 AGTGTAAGACCATGTCTAGGACATGGCATCGACATTGAGACGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACCTCGAGATGAGAGCC
*
92619686 AATGTAAGA-CATGTCTGGGACAT-GCATCGACCTCGAGATGTA-AGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACCTCGAGATG-AGAGCC
* * *
92619732 AGTGTAAGA-CATGTCTGGGACAT-GCATC-AGCTACGAGAT--GTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACCT-CGAGATGAGAGCC
* * * * *
92619776 AGTGTAA-ACCATGTTTGGGACATGGCATCTG-CATGGATATGTGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATC-GACCTCGAGA--TGAGAGCC
** * ** * *
92619825 AGTGTAAGACCATGTCTGGGACATAACGTC-AGCCTCGATTTCGATAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGA-CCTCGAGAT-GAGAGCC
* * * *
92619874 AGTGTAAGACCATGTTTAGGACATGGCATCGA-CTTGATA-GATGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACCTCGAGATGA-GAGCC
92619921 AGTGTAAGACCATGTCTGGGACATGGCATC
1 AGTGTAAGACCATGTCTGGGACATGGCATC
92619951 CGTATTATAC
Statistics
Matches: 245, Mismatches: 47, Indels: 41
0.74 0.14 0.12
Matches are distributed among these distances:
43 1 0.00
44 22 0.09
45 11 0.04
46 62 0.25
47 58 0.24
48 27 0.11
49 40 0.16
50 24 0.10
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.25
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGACCTCGAGATGAGAGCC
Found at i:92619844 original size:140 final size:139
Alignment explanation
Indices: 92619592--92619950 Score: 340
Period size: 140 Copynumber: 2.5 Consensus size: 139
92619582 TTTGTGTGCT
* *
92619592 AGTGTAAGACATGTTTGGGACATGCATCAGCCACATTATGAGAGCCAGTGTAAGACCATGTCTAG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATGAT-AGAGCCAGTGTAAGACCATGTCTAG
*
92619657 GACATGGCATCGACATTGAGACGAGAGCTAATGTAAGACATGTCTGGGACATGCATCGACCTCGA
65 GACATGGCATCGACATGGAGACGAGAGCTAATGTAAGACATGTCTGGGACATGCATCGACCTCGA
92619722 GATGTAAGCC
130 GATGTAAGCC
* * * * *
92619732 AGTGTAAGACATGTCTGGGACATGCATCAGCTACGA-GAT-GTGTCAGTGTAA-ACCATGTTTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCAC-ATGATAGAGCCAGTGTAAGACCATGTCTAG
* * * * *
92619794 GACATGGCATCTG-CATGGATATGTGAGAGCTAGTGTAAGACCATGTCTGGGACATAACGTC-AG
65 GACATGGCATC-GACATGGAGA--CGAGAGCTAATGTAAGA-CATGTCTGGGACAT-GCATCGA-
** *
92619857 CCTCGATTTCG-ATAGTC
124 CCTCGAGAT-GTA-AGCC
* * *
92619874 AGTGTAAGACCATGTTTAGGACATGGCATC-G--ACTTGATAGATGAGCCAGTGTAAGACCATGT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCACATGAT--A-GAGCCAGTGTAAGACCATGT
*
92619936 CTGGGACATGGCATC
61 CTAGGACATGGCATC
92619951 CGTATTATAC
Statistics
Matches: 180, Mismatches: 22, Indels: 28
0.78 0.10 0.12
Matches are distributed among these distances:
137 26 0.14
138 11 0.06
139 15 0.08
140 49 0.27
141 17 0.09
142 13 0.07
143 13 0.07
144 5 0.03
145 10 0.06
146 21 0.12
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.25
Consensus pattern (139 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCACATGATAGAGCCAGTGTAAGACCATGTCTAGG
ACATGGCATCGACATGGAGACGAGAGCTAATGTAAGACATGTCTGGGACATGCATCGACCTCGAG
ATGTAAGCC
Found at i:92619941 original size:96 final size:93
Alignment explanation
Indices: 92619723--92619944 Score: 251
Period size: 96 Copynumber: 2.4 Consensus size: 93
92619713 CGACCTCGAG
*
92619723 ATGTA-AGCCAGTGTAAGA-CATGTCTGGGACATGCATCAGCTACGAGATGTGTCAGTGTAAACC
1 ATGTAGAGCCAGTGTAAGACCATGTCTGGGACATACATCAGCTACGAGATGTGTCAGTGTAAACC
*
92619786 ATGTTTGGGACATGGCATCTGCATGGAT
66 ATGTTTAGGACATGGCATCTGCATGGAT
* * **
92619814 ATGTGAGAGCTAGTGTAAGACCATGTCTGGGACATAACGTCAGCCT-CGATTTCGATAGTCAGTG
1 ATGT-AGAGCCAGTGTAAGACCATGTCTGGGACAT-ACATCAG-CTACGAGAT-G-T-GTCAGTG
*
92619878 TAAGACCATGTTTAGGACATGGCATC-G-ACTTGAT
60 TAA-ACCATGTTTAGGACATGGCATCTGCA-TGGAT
92619912 A-G-ATGAGCCAGTGTAAGACCATGTCTGGGACAT
1 ATGTA-GAGCCAGTGTAAGACCATGTCTGGGACAT
92619945 GGCATCCGTA
Statistics
Matches: 112, Mismatches: 8, Indels: 17
0.82 0.06 0.12
Matches are distributed among these distances:
91 4 0.04
92 1 0.01
93 12 0.11
94 14 0.12
95 10 0.09
96 31 0.28
97 3 0.03
98 16 0.14
99 21 0.19
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (93 bp):
ATGTAGAGCCAGTGTAAGACCATGTCTGGGACATACATCAGCTACGAGATGTGTCAGTGTAAACC
ATGTTTAGGACATGGCATCTGCATGGAT
Found at i:92620781 original size:22 final size:24
Alignment explanation
Indices: 92620756--92620808 Score: 65
Period size: 26 Copynumber: 2.2 Consensus size: 24
92620746 TACAAATTGA
92620756 TAAA-AAT-TGATAATGGGTTAGG
1 TAAATAATCTGATAATGGGTTAGG
*
92620778 TAAATATTCCATGATAATGGGTTAGG
1 TAAATAAT-C-TGATAATGGGTTAGG
92620804 TAAAT
1 TAAAT
92620809 GTTCCATGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
22 4 0.15
23 2 0.08
26 20 0.77
ACGTcount: A:0.40, C:0.04, G:0.23, T:0.34
Consensus pattern (24 bp):
TAAATAATCTGATAATGGGTTAGG
Found at i:92620792 original size:26 final size:26
Alignment explanation
Indices: 92620763--92620818 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
92620753 TGATAAAAAT
92620763 TGATAATGGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
*
92620789 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
92620815 TGAT
1 TGAT
92620819 GGGCATTTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.32, C:0.07, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATATTCCA
Found at i:92622500 original size:27 final size:27
Alignment explanation
Indices: 92622416--92622500 Score: 102
Period size: 27 Copynumber: 3.1 Consensus size: 27
92622406 AGGAAGCGTC
*
92622416 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCACAA-TATCTGTAT
* * *
92622443 CTAGTGGCTCAGCCACATATATCTGT-C
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
92622470 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTGTAT
92622497 CTGG
1 CTGG
92622501 AGACTTCGTC
Statistics
Matches: 48, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
26 8 0.17
27 39 0.81
28 1 0.02
ACGTcount: A:0.20, C:0.26, G:0.22, T:0.32
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATATCTGTAT
Found at i:92628720 original size:26 final size:26
Alignment explanation
Indices: 92628691--92629500 Score: 1611
Period size: 26 Copynumber: 31.2 Consensus size: 26
92628681 TTATAAAAAT
*
92628691 TGATAATGGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
92628717 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
92628743 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
92628769 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
92628795 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
92628821 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
92628847 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
92628873 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
92628899 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
92628925 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
92628951 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
92628977 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
92629003 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
92629029 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
92629055 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
92629081 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
92629107 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
92629133 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
92629159 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
92629185 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
92629211 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
92629237 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
92629263 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
92629289 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
92629315 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
92629341 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
92629367 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
92629393 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
92629419 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
92629445 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
92629471 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
92629497 TGAT
1 TGAT
92629501 GGGCATTTCA
Statistics
Matches: 783, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 783 1.00
ACGTcount: A:0.31, C:0.08, G:0.27, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:92630715 original size:43 final size:43
Alignment explanation
Indices: 92630654--92630740 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
92630644 GTAACTAACC
92630654 CCCTCTTATAGACTAGATCAGCACAAGCCGAAAAGCCGGAATG
1 CCCTCTTATAGACTAGATCAGCACAAGCCGAAAAGCCGGAATG
92630697 CCCTCTTATAGACTAGATCAGCACAAGCCGAAAAGCCGGAATG
1 CCCTCTTATAGACTAGATCAGCACAAGCCGAAAAGCCGGAATG
92630740 C
1 C
92630741 AGAAAAGCCA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.34, C:0.29, G:0.21, T:0.16
Consensus pattern (43 bp):
CCCTCTTATAGACTAGATCAGCACAAGCCGAAAAGCCGGAATG
Found at i:92631179 original size:27 final size:27
Alignment explanation
Indices: 92631139--92631225 Score: 115
Period size: 27 Copynumber: 3.2 Consensus size: 27
92631129 AGGAAGCGTC
*
92631139 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
92631166 CTGGTGGCTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
*
92631193 CTGGTGGCTCTACCACAA-TATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
92631220 CTGGTG
1 CTGGTG
92631226 ACTTCATCAT
Statistics
Matches: 53, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
26 8 0.15
27 44 0.83
28 1 0.02
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.34
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:92634247 original size:23 final size:23
Alignment explanation
Indices: 92634221--92634266 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
92634211 AGACCTAAGG
*
92634221 TAAATTCGGCCTAATATGGGTTT
1 TAAATTCAGCCTAATATGGGTTT
92634244 TAAATTCAGCCTAATATGGGTTT
1 TAAATTCAGCCTAATATGGGTTT
92634267 GATGAGATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.28, C:0.13, G:0.20, T:0.39
Consensus pattern (23 bp):
TAAATTCAGCCTAATATGGGTTT
Found at i:92634900 original size:42 final size:42
Alignment explanation
Indices: 92634819--92634922 Score: 111
Period size: 42 Copynumber: 2.5 Consensus size: 42
92634809 TGTGATTTAT
* *
92634819 GTGTAAGACCATGTCTGGGACATTGACATCGTATATGATTTC
1 GTGTAAGACCATGTCTGGGACAGTGACATCGTATATGATTAC
* * * *
92634861 GTGTAAGACCCTGTCT-GGACAGTGGCATTGATATTTGATTAC
1 GTGTAAGACCATGTCTGGGACAGTGACATCG-TATATGATTAC
* * *
92634903 ATGTAAGACCACGTTTGGGA
1 GTGTAAGACCATGTCTGGGA
92634923 AGTTGGCATT
Statistics
Matches: 50, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
41 11 0.22
42 36 0.72
43 3 0.06
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (42 bp):
GTGTAAGACCATGTCTGGGACAGTGACATCGTATATGATTAC
Found at i:92644792 original size:19 final size:19
Alignment explanation
Indices: 92644756--92644791 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
92644746 TATAAATTTA
92644756 AAAATTATTTTGAATTTTG
1 AAAATTATTTTGAATTTTG
92644775 AAAATTATTTTG-ATTTT
1 AAAATTATTTTGAATTTT
92644792 TTTTTTGTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (19 bp):
AAAATTATTTTGAATTTTG
Found at i:92645823 original size:23 final size:19
Alignment explanation
Indices: 92645780--92645818 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
92645770 ATAGGCAAAA
92645780 TGCTATGATCTTCTTCCTT
1 TGCTATGATCTTCTTCCTT
92645799 TGCTATGATCTTCTTCCTT
1 TGCTATGATCTTCTTCCTT
92645818 T
1 T
92645819 CTTTGTTTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.10, C:0.26, G:0.10, T:0.54
Consensus pattern (19 bp):
TGCTATGATCTTCTTCCTT
Found at i:92646877 original size:43 final size:43
Alignment explanation
Indices: 92646813--92646914 Score: 168
Period size: 43 Copynumber: 2.4 Consensus size: 43
92646803 TGCAGATTCT
* *
92646813 CCACAGCTCGTGTGAGTAGCATCGTGTAGCCTAACATCCCTAC
1 CCACAGCTCGTGTGAGCAGCATCGTGTAGCATAACATCCCTAC
*
92646856 CCACAGCTCGTGTGAGCAGCATTGTGTAGCATAACATCCCTAC
1 CCACAGCTCGTGTGAGCAGCATCGTGTAGCATAACATCCCTAC
*
92646899 CCACAACTCGTGTGAG
1 CCACAGCTCGTGTGAG
92646915 TAGACCCATT
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 55 1.00
ACGTcount: A:0.25, C:0.31, G:0.22, T:0.23
Consensus pattern (43 bp):
CCACAGCTCGTGTGAGCAGCATCGTGTAGCATAACATCCCTAC
Found at i:92648330 original size:48 final size:47
Alignment explanation
Indices: 92648234--92648402 Score: 161
Period size: 46 Copynumber: 3.6 Consensus size: 47
92648224 TTTGTGAGCT
* * *
92648234 AGTGTAAGACATGTCTGGGACATGCATCGGCCACAT-TATAAG-AA--CC
1 AGTGTAAGACATGTCTGGGACATGCATC-G--ACATCGAGATGTAATTCC
* * *
92648280 AGTGTAAGACCATGTCTGGGATATGGCATCGACATTGAGATG-AGTTCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGACATCGAGATGTAATTCC
* * * *
92648328 AGTGTAAGACGTGTCTGGGACATGTATCGGCCTCGAGATGTAATT-C
1 AGTGTAAGACATGTCTGGGACATGCATCGACATCGAGATGTAATTCC
92648374 AGTGTAAGACATGTCTGGGACATGCATCG
1 AGTGTAAGACATGTCTGGGACATGCATCG
92648403 GCTATGAAAT
Statistics
Matches: 103, Mismatches: 14, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
45 4 0.04
46 54 0.52
47 29 0.28
48 16 0.16
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.25
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGCATCGACATCGAGATGTAATTCC
Found at i:92650242 original size:40 final size:40
Alignment explanation
Indices: 92650187--92650266 Score: 117
Period size: 40 Copynumber: 2.0 Consensus size: 40
92650177 TAGTTATTTT
* *
92650187 CTTTCCCTGTAGATCATC-AGAAATCTCGGTCGGTTGGAAG
1 CTTTCCCTATAGATCATCGA-AAATCTCGGTCGATTGGAAG
*
92650227 CTTTCCCTATAGATCATCGAAAATCTTGGTCGATTGGAAG
1 CTTTCCCTATAGATCATCGAAAATCTCGGTCGATTGGAAG
92650267 TTCAAGTCGG
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
40 35 0.97
41 1 0.03
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.31
Consensus pattern (40 bp):
CTTTCCCTATAGATCATCGAAAATCTCGGTCGATTGGAAG
Found at i:92661870 original size:20 final size:20
Alignment explanation
Indices: 92661845--92661896 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
92661835 CGGGTAGGGG
92661845 ACACGGGCGTGTCCCAAAGC
1 ACACGGGCGTGTCCCAAAGC
92661865 ACACGGGCGTGTCCCAAAGC
1 ACACGGGCGTGTCCCAAAGC
*
92661885 ACACAGGCGTGT
1 ACACGGGCGTGT
92661897 GCATTGCCTC
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:0.25, C:0.33, G:0.31, T:0.12
Consensus pattern (20 bp):
ACACGGGCGTGTCCCAAAGC
Found at i:92667157 original size:19 final size:21
Alignment explanation
Indices: 92667133--92667173 Score: 68
Period size: 19 Copynumber: 2.0 Consensus size: 21
92667123 ATTTCGCATT
92667133 TCTATCTTC-TTTTT-CTTTG
1 TCTATCTTCATTTTTACTTTG
92667152 TCTATCTTCATTTTTACTTTG
1 TCTATCTTCATTTTTACTTTG
92667173 T
1 T
92667174 GTTAAGTGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 9 0.45
20 5 0.25
21 6 0.30
ACGTcount: A:0.10, C:0.20, G:0.05, T:0.66
Consensus pattern (21 bp):
TCTATCTTCATTTTTACTTTG
Found at i:92667569 original size:22 final size:22
Alignment explanation
Indices: 92667538--92667602 Score: 64
Period size: 22 Copynumber: 3.0 Consensus size: 22
92667528 CTATCTAAAA
*
92667538 AATCAAATCTCTAAGATTACAT
1 AATCATATCTCTAAGATTACAT
*
92667560 AATCATATCTTCTAATATTACA-
1 AATCATATC-TCTAAGATTACAT
* *
92667582 AGTCATATC-C-AAGATTGCAT
1 AATCATATCTCTAAGATTACAT
92667602 A
1 A
92667603 TCTTTGAAGA
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
19 7 0.19
20 2 0.06
22 16 0.44
23 11 0.31
ACGTcount: A:0.42, C:0.18, G:0.06, T:0.34
Consensus pattern (22 bp):
AATCATATCTCTAAGATTACAT
Found at i:92669361 original size:42 final size:42
Alignment explanation
Indices: 92669314--92669467 Score: 220
Period size: 42 Copynumber: 3.7 Consensus size: 42
92669304 CATTTTCTCG
** * *
92669314 ATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAATA
1 ATGCCATAGCCCAGCTATGGTCTTACACATATTCACATAATA
*
92669356 ATGCCATAGCCCAGCTATGGTCTTACACATATTCACATAATG
1 ATGCCATAGCCCAGCTATGGTCTTACACATATTCACATAATA
* *
92669398 ATGCCATAGCCCAGCTATGGTCTTACAAATATTCATAT-ATCA
1 ATGCCATAGCCCAGCTATGGTCTTACACATATTCACATAAT-A
*
92669440 ATGCCATAGCCTAGCTATGGTCTTACAC
1 ATGCCATAGCCCAGCTATGGTCTTACAC
92669468 GAATCACATA
Statistics
Matches: 101, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
41 2 0.02
42 99 0.98
ACGTcount: A:0.31, C:0.25, G:0.13, T:0.31
Consensus pattern (42 bp):
ATGCCATAGCCCAGCTATGGTCTTACACATATTCACATAATA
Found at i:92669456 original size:84 final size:85
Alignment explanation
Indices: 92669313--92669510 Score: 233
Period size: 84 Copynumber: 2.3 Consensus size: 85
92669303 TCATTTTCTC
** * * *
92669313 GATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAATAATGCCATAGCCCAGCTATGGTC
1 GATGCCATAGCCCAGCTATGGTCTTACAAATATTCACATAATAATGCCATAGCCCAGCTATGGTC
92669378 TTACAC-ATATTCACATA-A-T
66 TTACACGA-A-TCACATACACT
* *
92669397 GATGCCATAGCCCAGCTATGGTCTTACAAATATTCATAT-ATCAATGCCATAGCCTAGCTATGGT
1 GATGCCATAGCCCAGCTATGGTCTTACAAATATTCACATAAT-AATGCCATAGCCCAGCTATGGT
92669461 CTTACACGAATCACATATCTCACT
65 CTTACACGAATCACATA---CACT
* *
92669485 GATGCCATATCCCAGATATGGTCTTA
1 GATGCCATAGCCCAGCTATGGTCTTA
92669511 TACAGTAGCA
Statistics
Matches: 98, Mismatches: 9, Indels: 10
0.84 0.08 0.09
Matches are distributed among these distances:
83 9 0.09
84 62 0.63
85 1 0.01
87 1 0.01
88 25 0.26
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (85 bp):
GATGCCATAGCCCAGCTATGGTCTTACAAATATTCACATAATAATGCCATAGCCCAGCTATGGTC
TTACACGAATCACATACACT
Found at i:92669629 original size:31 final size:31
Alignment explanation
Indices: 92669586--92669732 Score: 222
Period size: 31 Copynumber: 4.7 Consensus size: 31
92669576 CTTGTCACTT
*
92669586 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* * *
92669617 GTAACCGGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
92669648 GTAGCCGAAGCAACCACTTTTCACTGATCAA
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
92669679 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
92669710 GTAGCAGAAGCTACCACTTTTCA
1 GTAGCCGAAGCTACCACTTTTCA
92669733 GTTGTCATTT
Statistics
Matches: 102, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 102 1.00
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:92669814 original size:50 final size:50
Alignment explanation
Indices: 92669710--92669936 Score: 348
Period size: 50 Copynumber: 4.5 Consensus size: 50
92669700 CACTGATCAG
* * * * * *
92669710 GTAGCAGAAGCTACCACTTTTCAGTTGTCATTTGTCATTGATCAAATAAGT
1 GTAGCCGAAGCTATCACTTATCACTT-TCATTTGTCCTTGATCAGATAAGT
92669761 GTAGCCGAAGCTATCACTTATCACTTTCACTTT-TCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCA-TTTGTCCTTGATCAGATAAGT
*
92669811 GTAGCCGAAGCTATTACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
* *
92669861 GTAGCCGAAGTTATCACTTATCACTCTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
92669911 GTAGCCGAAGCTATCACTTATCACTT
1 GTAGCCGAAGCTATCACTTATCACTT
92669937 GTTGCCATGG
Statistics
Matches: 162, Mismatches: 12, Indels: 5
0.91 0.07 0.03
Matches are distributed among these distances:
49 3 0.02
50 134 0.83
51 25 0.15
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.36
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
Found at i:92676944 original size:60 final size:59
Alignment explanation
Indices: 92676838--92677030 Score: 215
Period size: 60 Copynumber: 3.2 Consensus size: 59
92676828 GAAGAAGTGC
* ** *
92676838 CCCTGTTTGCACGATTGTGCCCCTGTTCACACTTTTTTGCCTCTGTATACACTTCGGTGT
1 CCCTGTTTGCACGATTGTG-CCCTGTTCGCACTTTAGTGCCCCTGTATACACTTCGGTGT
* * * *
92676898 CCCTATTTGCACGATTGTGCCCTGGTTCGCACTTCAGCGCCCCTGTATACACTTCGATGT
1 CCCTGTTTGCACGATTGTGCCCT-GTTCGCACTTTAGTGCCCCTGTATACACTTCGGTGT
* * * * * *
92676958 CCCTGTTTTCACGACTATGCCCTTGTTCGCACTTTGGTGCTCCTGTATACACTTTGGTGT
1 CCCTGTTTGCACGATTGTGCCC-TGTTCGCACTTTAGTGCCCCTGTATACACTTCGGTGT
* *
92677018 CCTTTTTTGCACG
1 CCCTGTTTGCACG
92677031 TCTGTACCCC
Statistics
Matches: 110, Mismatches: 21, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
59 4 0.04
60 105 0.95
61 1 0.01
ACGTcount: A:0.12, C:0.31, G:0.19, T:0.38
Consensus pattern (59 bp):
CCCTGTTTGCACGATTGTGCCCTGTTCGCACTTTAGTGCCCCTGTATACACTTCGGTGT
Found at i:92692224 original size:27 final size:27
Alignment explanation
Indices: 92692194--92692247 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
92692184 ATCAAATCAA
92692194 AATAGTAATCACAAATCATGTCATACT
1 AATAGTAATCACAAATCATGTCATACT
92692221 AATAGTAATCACAAATCATGTCATACT
1 AATAGTAATCACAAATCATGTCATACT
92692248 GAATCTCCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.44, C:0.19, G:0.07, T:0.30
Consensus pattern (27 bp):
AATAGTAATCACAAATCATGTCATACT
Found at i:92694944 original size:29 final size:29
Alignment explanation
Indices: 92694902--92694959 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
92694892 AATATCTGGG
92694902 CATACGCCACATATGTGGCCAATAATCTT
1 CATACGCCACATATGTGGCCAATAATCTT
*
92694931 CATACGCCACATATGTGGTCAATAATCTT
1 CATACGCCACATATGTGGCCAATAATCTT
92694960 TTATATCACA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (29 bp):
CATACGCCACATATGTGGCCAATAATCTT
Found at i:92697703 original size:56 final size:56
Alignment explanation
Indices: 92697619--92697841 Score: 437
Period size: 56 Copynumber: 4.0 Consensus size: 56
92697609 ATGATGTGAG
*
92697619 ATATATGCAATGACAGGCTGTGAGGAGAGGGAAAAAATTTTAATGAGAATGAAAAT
1 ATATATGCAATAACAGGCTGTGAGGAGAGGGAAAAAATTTTAATGAGAATGAAAAT
92697675 ATATATGCAATAACAGGCTGTGAGGAGAGGGAAAAAATTTTAATGAGAATGAAAAT
1 ATATATGCAATAACAGGCTGTGAGGAGAGGGAAAAAATTTTAATGAGAATGAAAAT
92697731 ATATATGCAATAACAGGCTGTGAGGAGAGGGAAAAAATTTTAATGAGAATGAAAAT
1 ATATATGCAATAACAGGCTGTGAGGAGAGGGAAAAAATTTTAATGAGAATGAAAAT
92697787 ATATATGCAATAACAGGCTGTGAGGAGAGGGAAAAAATTTTAATGAGAATGAAAA
1 ATATATGCAATAACAGGCTGTGAGGAGAGGGAAAAAATTTTAATGAGAATGAAAA
92697842 GACCATGACA
Statistics
Matches: 166, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
56 166 1.00
ACGTcount: A:0.46, C:0.05, G:0.26, T:0.23
Consensus pattern (56 bp):
ATATATGCAATAACAGGCTGTGAGGAGAGGGAAAAAATTTTAATGAGAATGAAAAT
Found at i:92705506 original size:23 final size:25
Alignment explanation
Indices: 92705458--92705512 Score: 71
Period size: 26 Copynumber: 2.3 Consensus size: 25
92705448 TGTACGTAAT
*
92705458 ATATATATATATAATTGTGTTAGAA
1 ATATATATATATAATTATGTTAGAA
92705483 ATATACTATATATAA-TAT-TT-GAA
1 ATATA-TATATATAATTATGTTAGAA
92705506 ATATATA
1 ATATATA
92705513 CATAAGATAG
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
22 2 0.07
23 8 0.29
24 2 0.07
25 7 0.25
26 9 0.32
ACGTcount: A:0.47, C:0.02, G:0.07, T:0.44
Consensus pattern (25 bp):
ATATATATATATAATTATGTTAGAA
Found at i:92705565 original size:22 final size:23
Alignment explanation
Indices: 92705483--92705566 Score: 75
Period size: 22 Copynumber: 3.7 Consensus size: 23
92705473 TGTGTTAGAA
* *
92705483 ATATACTATATATAATATTTGAAAT
1 ATATAC-ATA-ATAATAGTTAAAAT
* *
92705508 ATATACATAA-GATAGTAAAAAT
1 ATATACATAATAATAGTTAAAAT
*
92705530 ATATA-ACTAGTAAT-GTTAAAAT
1 ATATACA-TAATAATAGTTAAAAT
92705552 ATATACATAATAATA
1 ATATACATAATAATA
92705567 TATAAAAAAT
Statistics
Matches: 47, Mismatches: 8, Indels: 10
0.72 0.12 0.15
Matches are distributed among these distances:
21 1 0.02
22 33 0.70
23 4 0.09
24 3 0.06
25 6 0.13
ACGTcount: A:0.54, C:0.05, G:0.06, T:0.36
Consensus pattern (23 bp):
ATATACATAATAATAGTTAAAAT
Found at i:92706156 original size:3 final size:3
Alignment explanation
Indices: 92706148--92706178 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
92706138 AATATTGTAT
*
92706148 ATA ATA ATA ATA CTA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
92706179 GATATAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:92706417 original size:21 final size:22
Alignment explanation
Indices: 92706387--92706429 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
92706377 AAAAGGTAAA
*
92706387 ATTTTTTATTTTTTTAT-TTTT
1 ATTTTATATTTTTTTATGTTTT
92706408 ATTTTATATTTTTTTATGTTTT
1 ATTTTATATTTTTTTATGTTTT
92706430 GATATATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.16, C:0.00, G:0.02, T:0.81
Consensus pattern (22 bp):
ATTTTATATTTTTTTATGTTTT
Found at i:92706437 original size:22 final size:21
Alignment explanation
Indices: 92706393--92706440 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 21
92706383 TAAAATTTTT
*
92706393 TATTTTTTTATTTTTATTTTA
1 TATTTTTTTATTTTTATTATA
92706414 TATTTTTTTATGTTTTGATATATA
1 TATTTTTTTAT-TTTT-AT-TATA
92706438 TAT
1 TAT
92706441 ATGTGAGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 11 0.48
22 4 0.17
23 2 0.09
24 6 0.26
ACGTcount: A:0.23, C:0.00, G:0.04, T:0.73
Consensus pattern (21 bp):
TATTTTTTTATTTTTATTATA
Found at i:92711550 original size:22 final size:23
Alignment explanation
Indices: 92711525--92711569 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
92711515 ATTTACAAAA
92711525 TCATAAAAC-ATAAAAATTAACT
1 TCATAAAACAATAAAAATTAACT
* *
92711547 TCATTAAACAATAAATATTAACT
1 TCATAAAACAATAAAAATTAACT
92711570 CTATTTCAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.56, C:0.13, G:0.00, T:0.31
Consensus pattern (23 bp):
TCATAAAACAATAAAAATTAACT
Found at i:92715143 original size:22 final size:23
Alignment explanation
Indices: 92715118--92715162 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
92715108 ATTTACAAAA
92715118 TCATAAAAC-ATAAAAATTAACT
1 TCATAAAACAATAAAAATTAACT
* *
92715140 TCATTAAACAATAAATATTAACT
1 TCATAAAACAATAAAAATTAACT
92715163 CTATTTCAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.56, C:0.13, G:0.00, T:0.31
Consensus pattern (23 bp):
TCATAAAACAATAAAAATTAACT
Found at i:92719982 original size:19 final size:18
Alignment explanation
Indices: 92719944--92719979 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
92719934 ACATTACGCG
92719944 TTAAAATATAAAAACTAA
1 TTAAAATATAAAAACTAA
* *
92719962 TTAACATATGAAAACTAA
1 TTAAAATATAAAAACTAA
92719980 ATTGACAACT
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:0.61, C:0.08, G:0.03, T:0.28
Consensus pattern (18 bp):
TTAAAATATAAAAACTAA
Found at i:92722111 original size:198 final size:198
Alignment explanation
Indices: 92721767--92722164 Score: 735
Period size: 198 Copynumber: 2.0 Consensus size: 198
92721757 TGGTATTTGT
*
92721767 ATCATAAACCCGAATGAAAATAAAAAAACGTAATAAAATAGCAATAAATTACCTTTGAAGTATAT
1 ATCATAAACCCGAATGAAAATAAAAAAACGTAATAAAATAGCAATAAATCACCTTTGAAGTATAT
92721832 TCTTGATTGCTTTCTATTAATTTTTGTATGTATTTTGTATATAATCAGTGCTCTATTTTTCTGGA
66 TCTTGATTGCTTTCTATTAATTTTTGTATGTATTTTGTATATAATCAGTGCTCTATTTTTCTGGA
*
92721897 AAAAGAGGGAAAAAAAACCTCCCAACAAAATGAATATTCATGGCTTTTTATAGCCATATTTACAA
131 AAAAAAGGGAAAAAAAACCTCCCAACAAAATGAATATTCATGGCTTTTTATAGCCATATTTACAA
92721962 CTG
196 CTG
92721965 ATCATAAACCCGAATGAAAATAAAAAAACGTAATAAAATAG-AACTAAATCACCTTTGAAGTATA
1 ATCATAAACCCGAATGAAAATAAAAAAACGTAATAAAATAGCAA-TAAATCACCTTTGAAGTATA
* *
92722029 TTCTTGATTGCTTTCTATTGATTTTTGTATGTATTTTGTATATAATCCGTGCTCTATTTTTCTGG
65 TTCTTGATTGCTTTCTATTAATTTTTGTATGTATTTTGTATATAATCAGTGCTCTATTTTTCTGG
*
92722094 AAAAAAAGGGGAAAAAAACCTCCCAACAAAATGAATATTCATGGCTTTTTATAGCCATATTTACA
130 AAAAAAAGGGAAAAAAAACCTCCCAACAAAATGAATATTCATGGCTTTTTATAGCCATATTTACA
92722159 ACTG
195 ACTG
92722163 AT
1 AT
92722165 TTTGCCTCTA
Statistics
Matches: 194, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
197 2 0.01
198 192 0.99
ACGTcount: A:0.39, C:0.14, G:0.12, T:0.35
Consensus pattern (198 bp):
ATCATAAACCCGAATGAAAATAAAAAAACGTAATAAAATAGCAATAAATCACCTTTGAAGTATAT
TCTTGATTGCTTTCTATTAATTTTTGTATGTATTTTGTATATAATCAGTGCTCTATTTTTCTGGA
AAAAAAGGGAAAAAAAACCTCCCAACAAAATGAATATTCATGGCTTTTTATAGCCATATTTACAA
CTG
Found at i:92722991 original size:44 final size:44
Alignment explanation
Indices: 92722943--92723079 Score: 120
Period size: 44 Copynumber: 3.1 Consensus size: 44
92722933 AGACTTGTAA
* *
92722943 TCTTCAGCCTGTTTCCCTACTACTTAGAGGGATAAGGCTCACCG
1 TCTTCAGCCTGTTTCCCTACTGCTTAGAGGGATAAGGCTCACAG
* * * * * *
92722987 TCTTCGATCC-G-CTCCACTACTGCTTA-AGGAGATGA-GATCTATAA
1 TCTTC-AGCCTGTTTCC-CTACTGCTTAGAGG-GATAAGGCTC-ACAG
* *
92723031 TCTTCAGCCTGTTTCCCTACTGCTTAGGGGGATAAGGCTCACTG
1 TCTTCAGCCTGTTTCCCTACTGCTTAGAGGGATAAGGCTCACAG
92723075 TCTTC
1 TCTTC
92723080 GATCCACTCC
Statistics
Matches: 69, Mismatches: 16, Indels: 16
0.68 0.16 0.16
Matches are distributed among these distances:
43 12 0.17
44 46 0.67
45 11 0.16
ACGTcount: A:0.20, C:0.28, G:0.20, T:0.31
Consensus pattern (44 bp):
TCTTCAGCCTGTTTCCCTACTGCTTAGAGGGATAAGGCTCACAG
Found at i:92723037 original size:88 final size:88
Alignment explanation
Indices: 92722922--92724036 Score: 1527
Period size: 88 Copynumber: 12.7 Consensus size: 88
92722912 CGCTGTAACT
* * *
92722922 TTAGGGAGATAAGA-CTTGTAATCTT-CAGCCTGTTTCCCTACTACTTAGAGGGATAAGGCTCAC
1 TTAGGGAGATAAGATC-TGTAAT-TTCCAGCCTGTTTCCCTACTGCTTAGGGGGTTAAGGCTCAC
*
92722985 CGTCTTCGATCCGCTCCACTACTGC
64 CGTCTTCGATCTGCTCCACTACTGC
* * * * *
92723010 TTAAGGAGATGAGATCTATAATCTT-CAGCCTGTTTCCCTACTGCTTAGGGGGATAAGGCTCACT
1 TTAGGGAGATAAGATCTGTAAT-TTCCAGCCTGTTTCCCTACTGCTTAGGGGGTTAAGGCTCACC
** *
92723074 GTCTTCGATCCACTCCACTACCG-
65 GTCTTCGATCTGCTCCACTACTGC
* *
92723097 TTAGAGAGATAAGATCTGTAATTTCTAGCCTGTTTCCCTACTGCTTAGGGGGTTAAGGCTCACCG
1 TTAGGGAGATAAGATCTGTAATTTCCAGCCTGTTTCCCTACTGCTTAGGGGGTTAAGGCTCACCG
*
92723162 TCTTTGATCTGCTCCACTACTGC
66 TCTTCGATCTGCTCCACTACTGC
* * * * * *
92723185 TTAGGGAGATGAGATTTGTAATTTCCAGCCTATCTCCATACTACTTAGGGGGTTAAGGCTCACCG
1 TTAGGGAGATAAGATCTGTAATTTCCAGCCTGTTTCCCTACTGCTTAGGGGGTTAAGGCTCACCG
* * *
92723250 TCTTCGATTTGTTCTACTACTGC
66 TCTTCGATCTGCTCCACTACTGC
* * * *
92723273 TTGGGGAGATAAGATCTGTAATTTCCGGCCTGTTTCCCTACTGCTTAGAGGGTTAAGGCTCACCA
1 TTAGGGAGATAAGATCTGTAATTTCCAGCCTGTTTCCCTACTGCTTAGGGGGTTAAGGCTCACCG
92723338 TCTTCGATCTGCTCCACTACTGC
66 TCTTCGATCTGCTCCACTACTGC
** ** * * *
92723361 TTAGAAAGATAAGATCTGTAATTTCCAATCTGTTTCTCTACTACTTAGGGGGTTAAGGCTCATCG
1 TTAGGGAGATAAGATCTGTAATTTCCAGCCTGTTTCCCTACTGCTTAGGGGGTTAAGGCTCACCG
*
92723426 TCTTCGATCTGCTCCACTACTTC
66 TCTTCGATCTGCTCCACTACTGC
* * *
92723449 TTAGGGAGATGAGATCTGTAATTTCTAGCCTGTTTCCCTACTGCTTAAGGGGTTAAGGCTCACCG
1 TTAGGGAGATAAGATCTGTAATTTCCAGCCTGTTTCCCTACTGCTTAGGGGGTTAAGGCTCACCG
*
92723514 TCTTTGATCTGCTCCACTACTGC
66 TCTTCGATCTGCTCCACTACTGC
* * * * * *
92723537 TTAGGGAGATGAGATTTGTAATTTCCAGCCTATCTCCATACTACTTAGGGGGTTAAGGCTCACCG
1 TTAGGGAGATAAGATCTGTAATTTCCAGCCTGTTTCCCTACTGCTTAGGGGGTTAAGGCTCACCG
**
92723602 TCTTCGATCTATTCCACTACTGC
66 TCTTCGATCTGCTCCACTACTGC
* * *
92723625 TTGGGGAGATAAGATCTGTAATTTCTAGCCTGTTTCCCTACTGCTTAAGGGGTTAAGGCTCACCG
1 TTAGGGAGATAAGATCTGTAATTTCCAGCCTGTTTCCCTACTGCTTAGGGGGTTAAGGCTCACCG
*
92723690 TCTTTGATCTGCTCCACTACTGC
66 TCTTCGATCTGCTCCACTACTGC
* * * * *
92723713 TTAGGGAGATGAGATTTGTAATTTCCAGCCTATCTCCATACTGCTTAGGGGGTTAAGGCTCACCG
1 TTAGGGAGATAAGATCTGTAATTTCCAGCCTGTTTCCCTACTGCTTAGGGGGTTAAGGCTCACCG
**
92723778 TCTTCGATCTATTCCACTACTGC
66 TCTTCGATCTGCTCCACTACTGC
* * *
92723801 TTGGGGAGATAAGATCTGTAATTTCTAGCCTGTTTCCCTACTGCTTAAGGGGTTAAGGCTCACCG
1 TTAGGGAGATAAGATCTGTAATTTCCAGCCTGTTTCCCTACTGCTTAGGGGGTTAAGGCTCACCG
* * * *
92723866 TCTTTGATTTGTTCCACTACTTC
66 TCTTCGATCTGCTCCACTACTGC
* *
92723889 TTAGGGAGATAAGATCTGTAATTTCCAGCCTATTTCCCTACTGCTTACGGGGTTAAGGCTCACCG
1 TTAGGGAGATAAGATCTGTAATTTCCAGCCTGTTTCCCTACTGCTTAGGGGGTTAAGGCTCACCG
*
92723954 TCTTCGATCTGCTCTACTACTGC
66 TCTTCGATCTGCTCCACTACTGC
* * *
92723977 TTAAGGAGATAAGATCTGTAATTTCCAGTCTGTTTCCATACTGCTTAGGGGGTTAAGGCT
1 TTAGGGAGATAAGATCTGTAATTTCCAGCCTGTTTCCCTACTGCTTAGGGGGTTAAGGCT
92724037 AGTGAATTCA
Statistics
Matches: 897, Mismatches: 127, Indels: 6
0.87 0.12 0.01
Matches are distributed among these distances:
86 2 0.00
87 73 0.08
88 821 0.92
89 1 0.00
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.34
Consensus pattern (88 bp):
TTAGGGAGATAAGATCTGTAATTTCCAGCCTGTTTCCCTACTGCTTAGGGGGTTAAGGCTCACCG
TCTTCGATCTGCTCCACTACTGC
Found at i:92723358 original size:44 final size:43
Alignment explanation
Indices: 92723310--92723452 Score: 110
Period size: 44 Copynumber: 3.3 Consensus size: 43
92723300 GCCTGTTTCC
92723310 CTACTGCTTAGAGGGTTAAGGCTCACCATCTTCGATCTGCTCCA
1 CTACTGCTTAGAGGGTTAAGGCTCA-CATCTTCGATCTGCTCCA
** * * * * * * *
92723354 CTACTGCTTAGAAAGATAAGATCTGTA-AT-TTCCAATCTGTTTCT
1 CTACTGCTTAGAGGGTTAAG-GCT-CACATCTT-CGATCTGCTCCA
* * *
92723398 CTACTACTTAGGGGGTTAAGGCTCATCGTCTTCGATCTGCTCCA
1 CTACTGCTTAGAGGGTTAAGGCTCA-CATCTTCGATCTGCTCCA
*
92723442 CTACTTCTTAG
1 CTACTGCTTAG
92723453 GGAGATGAGA
Statistics
Matches: 71, Mismatches: 22, Indels: 12
0.68 0.21 0.11
Matches are distributed among these distances:
42 1 0.01
43 4 0.06
44 61 0.86
45 4 0.06
46 1 0.01
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.34
Consensus pattern (43 bp):
CTACTGCTTAGAGGGTTAAGGCTCACATCTTCGATCTGCTCCA
Found at i:92729620 original size:28 final size:28
Alignment explanation
Indices: 92729580--92729636 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
92729570 CTTACGGCTT
*
92729580 GACTCTCTTATTGGTCCCCAGTGGAGTC
1 GACTCTCTTATTGGTCCCCAATGGAGTC
*
92729608 GACTCTTTTATTGGTCCCCAATGGAGTC
1 GACTCTCTTATTGGTCCCCAATGGAGTC
92729636 G
1 G
92729637 CCAAGCTGTC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.16, C:0.26, G:0.25, T:0.33
Consensus pattern (28 bp):
GACTCTCTTATTGGTCCCCAATGGAGTC
Found at i:92731489 original size:27 final size:29
Alignment explanation
Indices: 92731441--92731497 Score: 73
Period size: 27 Copynumber: 2.0 Consensus size: 29
92731431 CATTTTTATC
* *
92731441 ATTTAAACCATTTTTTTGTTTAAAGAAAA
1 ATTTAAACCATTTTGTTGTTTAAAAAAAA
*
92731470 ATTTTAACC-TTTTGTT-TTTAAAAAAAA
1 ATTTAAACCATTTTGTTGTTTAAAAAAAA
92731497 A
1 A
92731498 AAAAAACTCT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 11 0.44
28 6 0.24
29 8 0.32
ACGTcount: A:0.42, C:0.07, G:0.05, T:0.46
Consensus pattern (29 bp):
ATTTAAACCATTTTGTTGTTTAAAAAAAA
Found at i:92734654 original size:18 final size:19
Alignment explanation
Indices: 92734633--92734668 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
92734623 AAAAAAAGTT
92734633 AAAAAT-GAAAAAAAAAAC
1 AAAAATCGAAAAAAAAAAC
*
92734651 AAAAATCTAAAAAAAAAA
1 AAAAATCGAAAAAAAAAA
92734669 GGATGGAAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.83, C:0.06, G:0.03, T:0.08
Consensus pattern (19 bp):
AAAAATCGAAAAAAAAAAC
Found at i:92734819 original size:3 final size:3
Alignment explanation
Indices: 92734811--92734866 Score: 73
Period size: 3 Copynumber: 19.7 Consensus size: 3
92734801 GAATAAAAGG
*
92734811 AGA AGA AGA AGA A-A AGA AGG AGA AGA AGA A-A AGA AG- AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
*
92734856 AGA AGG AGA AG
1 AGA AGA AGA AG
92734867 GAGGCGGCAC
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
2 6 0.13
3 40 0.87
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:92734829 original size:8 final size:8
Alignment explanation
Indices: 92734805--92734856 Score: 59
Period size: 8 Copynumber: 6.2 Consensus size: 8
92734795 TTTCGGGAAT
*
92734805 AAAAGGAG
1 AAAAGAAG
92734813 AAGAAGAAG
1 AA-AAGAAG
92734822 AAAAGAAGG
1 AAAAGAA-G
*
92734831 AGAAGAAG
1 AAAAGAAG
92734839 AAAAGAAG
1 AAAAGAAG
*
92734847 AGAAGAAG
1 AAAAGAAG
92734855 AA
1 AA
92734857 GAAGGAGAAG
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
8 23 0.62
9 14 0.38
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (8 bp):
AAAAGAAG
Found at i:92734834 original size:17 final size:17
Alignment explanation
Indices: 92734814--92734866 Score: 85
Period size: 17 Copynumber: 3.3 Consensus size: 17
92734804 TAAAAGGAGA
92734814 AGAAGAAGAAAAGAAGG
1 AGAAGAAGAAAAGAAGG
92734831 AGAAGAAGAAAAGAA-G
1 AGAAGAAGAAAAGAAGG
92734847 AGAAGAAG--AAGAAGG
1 AGAAGAAGAAAAGAAGG
92734862 AGAAG
1 AGAAG
92734867 GAGGCGGCAC
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
14 5 0.14
15 6 0.17
16 9 0.26
17 15 0.43
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (17 bp):
AGAAGAAGAAAAGAAGG
Found at i:92734847 original size:25 final size:26
Alignment explanation
Indices: 92734811--92734866 Score: 78
Period size: 25 Copynumber: 2.2 Consensus size: 26
92734801 GAATAAAAGG
*
92734811 AGAAGAAGAAGAAAAGAAGGAGAAGA
1 AGAAGAAGAAGAAAAGAAGAAGAAGA
* *
92734837 AGAA-AAGAAGAGAAGAAGAAGAAGG
1 AGAAGAAGAAGAAAAGAAGAAGAAGA
92734862 AGAAG
1 AGAAG
92734867 GAGGCGGCAC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 22 0.85
26 4 0.15
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (26 bp):
AGAAGAAGAAGAAAAGAAGAAGAAGA
Found at i:92734855 original size:28 final size:28
Alignment explanation
Indices: 92734813--92734866 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
92734803 ATAAAAGGAG
*
92734813 AAGAAGAAGAAAAGAAGGAGAAGAAGAA
1 AAGAAGAAGAAAAGAAGAAGAAGAAGAA
*
92734841 AAGAAG-AGAAGAAGAAGAAGGAGAAG
1 AAGAAGAAGAA-AAGAAGAAGAAGAAG
92734867 GAGGCGGCAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 4 0.17
28 19 0.83
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (28 bp):
AAGAAGAAGAAAAGAAGAAGAAGAAGAA
Found at i:92735426 original size:17 final size:16
Alignment explanation
Indices: 92735399--92735441 Score: 68
Period size: 17 Copynumber: 2.6 Consensus size: 16
92735389 AAATATTTTA
92735399 ATGAAAAAAATAAAAT
1 ATGAAAAAAATAAAAT
92735415 ATGAAAAGAAATAAAAT
1 ATGAAAA-AAATAAAAT
*
92735432 ACGAAAAAAA
1 ATGAAAAAAA
92735442 ACTTTTTTGG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 10 0.40
17 15 0.60
ACGTcount: A:0.74, C:0.02, G:0.09, T:0.14
Consensus pattern (16 bp):
ATGAAAAAAATAAAAT
Found at i:92735597 original size:13 final size:12
Alignment explanation
Indices: 92735585--92735666 Score: 58
Period size: 13 Copynumber: 6.6 Consensus size: 12
92735575 TTTATTAAAT
92735585 TAATATAAAAAA
1 TAATATAAAAAA
* *
92735597 TACT-TAAATAA
1 TAATATAAAAAA
*
92735608 TACATTTAAAAAA
1 TA-ATATAAAAAA
* * *
92735621 TTATGTACTAAAA
1 TAATATA-AAAAA
92735634 TAATATAAAAAAA
1 TAATAT-AAAAAA
*
92735647 TAAAATACAAAAA
1 TAATATA-AAAAA
92735660 TAATATA
1 TAATATA
92735667 TTTTAAAAAA
Statistics
Matches: 53, Mismatches: 12, Indels: 9
0.72 0.16 0.12
Matches are distributed among these distances:
11 8 0.15
12 9 0.17
13 35 0.66
14 1 0.02
ACGTcount: A:0.65, C:0.05, G:0.01, T:0.29
Consensus pattern (12 bp):
TAATATAAAAAA
Found at i:92735671 original size:151 final size:149
Alignment explanation
Indices: 92735476--92735867 Score: 639
Period size: 151 Copynumber: 2.6 Consensus size: 149
92735466 GTGGTTTTTT
*
92735476 TACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCAAAAATA
1 TACTAAAATAATATAAAAAATAAAATACGAAAATAATATATTTTAAAAAATAAAATCCAAAAATA
* *
92735541 AAAAAATACCAACAAAGTGTCAAAATTAGGGTTATTTATTAAATTAATAT-AAAAAATACTTAAA
66 AAAAAATACCAACAAAGTGTCAAAATCAGGGTTATTTATTAAATTAATATAAAAAAACACTTAAA
92735605 TAATACATTTAAAAAATTATG
131 TAATACA-TT-AAAAATTATG
* * *
92735626 TACTAAAATAATATAAAAAAATAAAATACAAAAATAATATATTTTAAAAAATAAAATTCGAAAAT
1 TACTAAAATAATAT-AAAAAATAAAATACGAAAATAATATATTTTAAAAAATAAAATCCAAAAAT
92735691 -AAAAAATACCAACAAAGTG-CTAAAATCAGGGTTATTTATTAAATTAATATAAAAAAACACTTA
65 AAAAAAATACCAACAAAGTGTC-AAAATCAGGGTTATTTATTAAATTAATATAAAAAAACACTTA
* *
92735754 AATAATACATTACACATTATG
129 AATAATACATTAAAAATTATG
92735775 TACTAAAATAATATAAAAAATAAAATACGAAAATAATATATTTTAAAAAATAAAATCCAAAAATA
1 TACTAAAATAATATAAAAAATAAAATACGAAAATAATATATTTTAAAAAATAAAATCCAAAAATA
92735840 AAAAAATACCAACAAA-TGGTCAAAATCA
66 AAAAAATACCAACAAAGT-GTCAAAATCA
92735868 CTGAAAAAAT
Statistics
Matches: 225, Mismatches: 11, Indels: 13
0.90 0.04 0.05
Matches are distributed among these distances:
148 48 0.21
149 47 0.21
150 64 0.28
151 66 0.29
ACGTcount: A:0.60, C:0.08, G:0.05, T:0.27
Consensus pattern (149 bp):
TACTAAAATAATATAAAAAATAAAATACGAAAATAATATATTTTAAAAAATAAAATCCAAAAATA
AAAAAATACCAACAAAGTGTCAAAATCAGGGTTATTTATTAAATTAATATAAAAAAACACTTAAA
TAATACATTAAAAATTATG
Found at i:92737925 original size:18 final size:18
Alignment explanation
Indices: 92737877--92737930 Score: 54
Period size: 18 Copynumber: 3.0 Consensus size: 18
92737867 GTGACGGATA
*
92737877 TAGAGCCCGAGCCACAGC
1 TAGAGCCCGAGCCAGAGC
* * *
92737895 TAGATCCCAAGCCTGAGC
1 TAGAGCCCGAGCCAGAGC
* *
92737913 TTGAGCCCGAGCCCGAGC
1 TAGAGCCCGAGCCAGAGC
92737931 CACAGCCAGA
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.24, C:0.37, G:0.28, T:0.11
Consensus pattern (18 bp):
TAGAGCCCGAGCCAGAGC
Found at i:92742304 original size:39 final size:37
Alignment explanation
Indices: 92742261--92742352 Score: 107
Period size: 39 Copynumber: 2.4 Consensus size: 37
92742251 AATATAAATC
92742261 AACAATAATAATAACTAA-C-AATAATTAGGATTTTTTACT
1 AACAATAATAATAAC-AACCTAATAA-TA-G-TTTTTTACT
*
92742300 AACAATAATAACCAACAATCCTAATAATAGTTTTTTACT
1 AACAATAATAA-TAACAA-CCTAATAATAGTTTTTTACT
92742339 AACAATAATAATAA
1 AACAATAATAATAA
92742353 GGATTTTTAC
Statistics
Matches: 47, Mismatches: 2, Indels: 9
0.81 0.03 0.16
Matches are distributed among these distances:
38 2 0.04
39 33 0.70
40 4 0.09
41 3 0.06
42 5 0.11
ACGTcount: A:0.51, C:0.13, G:0.03, T:0.33
Consensus pattern (37 bp):
AACAATAATAATAACAACCTAATAATAGTTTTTTACT
Found at i:92742350 original size:26 final size:26
Alignment explanation
Indices: 92742321--92742378 Score: 82
Period size: 26 Copynumber: 2.2 Consensus size: 26
92742311 CCAACAATCC
*
92742321 TAATAATAGTTTTTTA-CTAACAATAA
1 TAATAA-AGATTTTTACCTAACAATAA
*
92742347 TAATAAGGATTTTTACCTAACAATAA
1 TAATAAAGATTTTTACCTAACAATAA
92742373 TAATAA
1 TAATAA
92742379 CTAACAATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 7 0.24
26 22 0.76
ACGTcount: A:0.48, C:0.09, G:0.05, T:0.38
Consensus pattern (26 bp):
TAATAAAGATTTTTACCTAACAATAA
Found at i:92742384 original size:16 final size:16
Alignment explanation
Indices: 92742363--92742436 Score: 71
Period size: 16 Copynumber: 4.4 Consensus size: 16
92742353 GGATTTTTAC
92742363 CTAACAATAATAATAA
1 CTAACAATAATAATAA
92742379 CTAACAATAATAACTAA
1 CTAACAATAATAA-TAA
*
92742396 C-AACAAAAATCAATAAAA
1 CTAACAATAAT-AAT--AA
*
92742414 ATCAACAATAATAATAA
1 CT-AACAATAATAATAA
92742431 C-AACAA
1 CTAACAA
92742437 AAACACAATA
Statistics
Matches: 48, Mismatches: 4, Indels: 13
0.74 0.06 0.20
Matches are distributed among these distances:
15 5 0.10
16 22 0.46
17 8 0.17
18 2 0.04
19 3 0.06
20 8 0.17
ACGTcount: A:0.65, C:0.16, G:0.00, T:0.19
Consensus pattern (16 bp):
CTAACAATAATAATAA
Found at i:92742389 original size:13 final size:13
Alignment explanation
Indices: 92742371--92742398 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
92742361 ACCTAACAAT
92742371 AATAATAACTAAC
1 AATAATAACTAAC
92742384 AATAATAACTAAC
1 AATAATAACTAAC
92742397 AA
1 AA
92742399 CAAAAATCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.64, C:0.14, G:0.00, T:0.21
Consensus pattern (13 bp):
AATAATAACTAAC
Found at i:92742697 original size:17 final size:18
Alignment explanation
Indices: 92742664--92742698 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
92742654 CCCTCCATCC
92742664 TTTTTTTTTTCAGATTTTG
1 TTTTTTTTTTCA-ATTTTG
92742683 TTTTTTTTTTC-ATTTT
1 TTTTTTTTTTCAATTTT
92742699 TAACTTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
19 11 0.69
ACGTcount: A:0.09, C:0.06, G:0.06, T:0.80
Consensus pattern (18 bp):
TTTTTTTTTTCAATTTTG
Found at i:92751738 original size:55 final size:55
Alignment explanation
Indices: 92751654--92751763 Score: 211
Period size: 55 Copynumber: 2.0 Consensus size: 55
92751644 TTTACTACGA
*
92751654 AGGGAAAGCAAAAGAGTAATAGATTAGTAAAAAAAAAAAAAAACAAAACAAAACG
1 AGGGAAAGAAAAAGAGTAATAGATTAGTAAAAAAAAAAAAAAACAAAACAAAACG
92751709 AGGGAAAGAAAAAGAGTAATAGATTAGTAAAAAAAAAAAAAAACAAAACAAAACG
1 AGGGAAAGAAAAAGAGTAATAGATTAGTAAAAAAAAAAAAAAACAAAACAAAACG
92751764 TAAGATCAGA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.68, C:0.06, G:0.16, T:0.09
Consensus pattern (55 bp):
AGGGAAAGAAAAAGAGTAATAGATTAGTAAAAAAAAAAAAAAACAAAACAAAACG
Found at i:92753703 original size:245 final size:245
Alignment explanation
Indices: 92753270--92753756 Score: 893
Period size: 245 Copynumber: 2.0 Consensus size: 245
92753260 TTACACACTT
*
92753270 CTGAGAATTCATTTGAATATGAATGCACTAAGTGCAACGCTGATCAAAGGATGTACATGTATTAG
1 CTGAGAATTCATTTGAATATGAATGCACTAAGTGCAACGCTGATCAAAGGATGTACACGTATTAG
*
92753335 CAAAGTTTTTTCAAATTATGGCATGTAGAACAAGCAAGGGATATTATCTGAAACTCCGAACCTTG
66 CAAAGTTTTTTCAAATTATGGCATGTAGAACAAGCAAGGGATATTATCTGAAACTCCGAACCTGG
92753400 AGGAGTTAGCCACAATTCAGGAACACAGGCAAATGTGGCATAAAATTTCAAATTAACAAAGAAGA
131 AGGAGTTAGCCACAATTCAGGAACACAGGCAAATGTGGCATAAAATTTCAAATTAACAAAGAAGA
*
92753465 AAACAAATGAGAAATATTAGGGGTATATGCTACAACCTAAAATGGAACTA
196 AAACAAATGAGAAATATTAGGGGTATATGCTACAACCTAAAACGGAACTA
*
92753515 CTGAGAATTCATTTGAATATGAATGCACTAAGTGCAGCGCTGATCAAAGGATGTACACGTATTAG
1 CTGAGAATTCATTTGAATATGAATGCACTAAGTGCAACGCTGATCAAAGGATGTACACGTATTAG
* * *
92753580 CAAAGTTTTTTCAAATTATGGCATGTAGAACATGCACGGGATATTGTCTGAAACTCCGAACCTGG
66 CAAAGTTTTTTCAAATTATGGCATGTAGAACAAGCAAGGGATATTATCTGAAACTCCGAACCTGG
*
92753645 AGGAGTTAGCCACAATTCAGGAACACAGGCAAATGTGGCATAAAATTTCAACTTAACAAAGAAGA
131 AGGAGTTAGCCACAATTCAGGAACACAGGCAAATGTGGCATAAAATTTCAAATTAACAAAGAAGA
*
92753710 AAACAAATGAGAACTATTAGGGGTATATGCTACAACCTAAAACGGAA
196 AAACAAATGAGAAATATTAGGGGTATATGCTACAACCTAAAACGGAA
92753757 ATGGTAAGAA
Statistics
Matches: 233, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
245 233 1.00
ACGTcount: A:0.40, C:0.16, G:0.20, T:0.24
Consensus pattern (245 bp):
CTGAGAATTCATTTGAATATGAATGCACTAAGTGCAACGCTGATCAAAGGATGTACACGTATTAG
CAAAGTTTTTTCAAATTATGGCATGTAGAACAAGCAAGGGATATTATCTGAAACTCCGAACCTGG
AGGAGTTAGCCACAATTCAGGAACACAGGCAAATGTGGCATAAAATTTCAAATTAACAAAGAAGA
AAACAAATGAGAAATATTAGGGGTATATGCTACAACCTAAAACGGAACTA
Found at i:92756119 original size:21 final size:22
Alignment explanation
Indices: 92756095--92756143 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
92756085 AAATTTTGAA
* *
92756095 AAATATAAA-AACAAAAATACT
1 AAATATAAAGAACAAAAAAAAT
92756116 AAAT-TAAAGAACAAAAAAAAT
1 AAATATAAAGAACAAAAAAAAT
92756137 AAATATA
1 AAATATA
92756144 TCTGCGTTAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 4 0.17
21 18 0.75
22 2 0.08
ACGTcount: A:0.73, C:0.06, G:0.02, T:0.18
Consensus pattern (22 bp):
AAATATAAAGAACAAAAAAAAT
Found at i:92759594 original size:17 final size:17
Alignment explanation
Indices: 92759572--92759605 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
92759562 ATCCACTAAT
*
92759572 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
92759589 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
92759606 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:92764233 original size:17 final size:17
Alignment explanation
Indices: 92764211--92764244 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
92764201 ATCCACTAAT
*
92764211 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
92764228 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
92764245 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:92768872 original size:17 final size:17
Alignment explanation
Indices: 92768850--92768883 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
92768840 ATCCACTAAT
*
92768850 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
92768867 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
92768884 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Done.