Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 209 of 253
Found at i:68912212 original size:26 final size:26
Alignment explanation
Indices: 68912176--68912228 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
68912166 TTTAACGGCG
*
68912176 CTTTCCCCACAAACGCCACTAAAGGT
1 CTTTACCCACAAACGCCACTAAAGGT
*
68912202 CTTTACCCACAAACGCCGCTAAAGGT
1 CTTTACCCACAAACGCCACTAAAGGT
68912228 C
1 C
68912229 ATGACCTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.30, C:0.38, G:0.13, T:0.19
Consensus pattern (26 bp):
CTTTACCCACAAACGCCACTAAAGGT
Found at i:68912254 original size:69 final size:69
Alignment explanation
Indices: 68912143--68912273 Score: 217
Period size: 69 Copynumber: 1.9 Consensus size: 69
68912133 TTATTAAAAA
*
68912143 AAACGCCGCTAAAGGTCATGACCTTTAACGGCGCTTTCCCCACAAACGCCACTAAAGGTCTTTAC
1 AAACGCCGCTAAAGGTCATGACCTTTAACGGCACTTTCCCCACAAACGCCACTAAAGGTCTTTAC
68912208 CCAC
66 CCAC
* * * *
68912212 AAACGCCGCTAAAGGTCATGACCTTTAACGGCACTTTTCCCACAAATGCCGCTTAAGGTCTT
1 AAACGCCGCTAAAGGTCATGACCTTTAACGGCACTTTCCCCACAAACGCCACTAAAGGTCTT
68912274 GACCTTTAGC
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
69 57 1.00
ACGTcount: A:0.28, C:0.32, G:0.17, T:0.23
Consensus pattern (69 bp):
AAACGCCGCTAAAGGTCATGACCTTTAACGGCACTTTCCCCACAAACGCCACTAAAGGTCTTTAC
CCAC
Found at i:68912270 original size:43 final size:43
Alignment explanation
Indices: 68912202--68912318 Score: 144
Period size: 43 Copynumber: 2.7 Consensus size: 43
68912192 CACTAAAGGT
*
68912202 CTTTACCCACAAACGCCGCTAAAGGTCATGACCTTTAACGGCA
1 CTTTTCCCACAAACGCCGCTAAAGGTCATGACCTTTAACGGCA
* * * * *
68912245 CTTTTCCCACAAATGCCGCTTAAGGTCTTGACCTTTAGCGGCG
1 CTTTTCCCACAAACGCCGCTAAAGGTCATGACCTTTAACGGCA
* * * *
68912288 CTTTTCCCAAAAACACCACTAAAGGTAATGA
1 CTTTTCCCACAAACGCCGCTAAAGGTCATGA
68912319 AATTTTAAAA
Statistics
Matches: 61, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
43 61 1.00
ACGTcount: A:0.29, C:0.30, G:0.16, T:0.25
Consensus pattern (43 bp):
CTTTTCCCACAAACGCCGCTAAAGGTCATGACCTTTAACGGCA
Found at i:68913968 original size:138 final size:138
Alignment explanation
Indices: 68913799--68914050 Score: 461
Period size: 138 Copynumber: 1.8 Consensus size: 138
68913789 TTTTAAAATT
68913799 TTAAATCAAATAAGTTGCATAATAACATAACAAAGAGAAATGTTAA-TATAAAACCTAAAAACAA
1 TTAAATCAAATAAGTTGCATAATAACATAACAAAGAGAAATG-TAATTATAAAACCTAAAAACAA
* *
68913863 TTTAATGCCAATTTTTAAGGAAATTACATATGGTTCTAAAATTCAAAACAAGTACTCCTAAAAGC
65 TTTAATGCCAATTTTTAAAGAAATTACATATGATTCTAAAATTCAAAACAAGTACTCCTAAAAGC
68913928 ATCCAGACG
130 ATCCAGACG
68913937 TTAAATCAAATAAGTTGCATAATAACATAACAAAGAGAAATGTAATTATAAAACCTAAAAACAAT
1 TTAAATCAAATAAGTTGCATAATAACATAACAAAGAGAAATGTAATTATAAAACCTAAAAACAAT
*
68914002 TTAATGCCAATTTTTAAAGAGATTACATATGATTCTAAAATTCAAAACA
66 TTAATGCCAATTTTTAAAGAAATTACATATGATTCTAAAATTCAAAACA
68914051 GGGACTCCAC
Statistics
Matches: 110, Mismatches: 3, Indels: 2
0.96 0.03 0.02
Matches are distributed among these distances:
137 3 0.03
138 107 0.97
ACGTcount: A:0.50, C:0.13, G:0.09, T:0.28
Consensus pattern (138 bp):
TTAAATCAAATAAGTTGCATAATAACATAACAAAGAGAAATGTAATTATAAAACCTAAAAACAAT
TTAATGCCAATTTTTAAAGAAATTACATATGATTCTAAAATTCAAAACAAGTACTCCTAAAAGCA
TCCAGACG
Found at i:68915840 original size:19 final size:19
Alignment explanation
Indices: 68915816--68915855 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
68915806 AATGTCGTTA
68915816 TTGTTTATCTTTTGCGGCG
1 TTGTTTATCTTTTGCGGCG
68915835 TTGTTTATCTTTTGCGGCG
1 TTGTTTATCTTTTGCGGCG
68915854 TT
1 TT
68915856 TTTTCCTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.05, C:0.15, G:0.25, T:0.55
Consensus pattern (19 bp):
TTGTTTATCTTTTGCGGCG
Found at i:68915979 original size:17 final size:18
Alignment explanation
Indices: 68915946--68915979 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
68915936 TATCTCTTAA
68915946 ATAATTTAAACTATATTG
1 ATAATTTAAACTATATTG
*
68915964 ATAATTTTAA-TATATT
1 ATAATTTAAACTATATT
68915980 AAAACAATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (18 bp):
ATAATTTAAACTATATTG
Found at i:68916195 original size:13 final size:13
Alignment explanation
Indices: 68916177--68916201 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
68916167 TTTCCAATAG
68916177 TAAACCCTAAACC
1 TAAACCCTAAACC
68916190 TAAACCCTAAAC
1 TAAACCCTAAAC
68916202 TATAAACTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.36, G:0.00, T:0.16
Consensus pattern (13 bp):
TAAACCCTAAACC
Found at i:68916227 original size:20 final size:20
Alignment explanation
Indices: 68916177--68916227 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
68916167 TTTCCAATAG
68916177 TAAACCCTAAACCTAAACCC
1 TAAACCCTAAACCTAAACCC
** * * *
68916197 TAAACTATAAACTTATATCC
1 TAAACCCTAAACCTAAACCC
68916217 TAAACCCTAAA
1 TAAACCCTAAA
68916228 TATATATATT
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.47, C:0.29, G:0.00, T:0.24
Consensus pattern (20 bp):
TAAACCCTAAACCTAAACCC
Found at i:68916414 original size:14 final size:14
Alignment explanation
Indices: 68916395--68916433 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
68916385 GTAAACCAAA
*
68916395 AAACCACAAACTCT
1 AAACCAAAAACTCT
*
68916409 AAACCATAAACTCT
1 AAACCAAAAACTCT
68916423 AAACCAAAAAC
1 AAACCAAAAAC
68916434 AATAAACATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.56, C:0.31, G:0.00, T:0.13
Consensus pattern (14 bp):
AAACCAAAAACTCT
Found at i:68917053 original size:40 final size:39
Alignment explanation
Indices: 68917009--68917101 Score: 114
Period size: 41 Copynumber: 2.3 Consensus size: 39
68916999 CCTCGACCTA
* * *
68917009 TAGCGGCGTTTTTCCAAAAGCGTCGCTATTGTTCAGTTTT
1 TAGCGGCGTTTTT-CAAAAACGCCGCTATTGCTCAGTTTT
*
68917049 TAGCGGCGTTTGGATCAAAAACGCCGCTATTGCTCAGTTTT
1 TAGCGGCGTTT--TTCAAAAACGCCGCTATTGCTCAGTTTT
*
68917090 TTGCGGCGTTTT
1 TAGCGGCGTTTT
68917102 ATTGCAAATG
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
40 11 0.24
41 33 0.73
42 1 0.02
ACGTcount: A:0.17, C:0.20, G:0.25, T:0.38
Consensus pattern (39 bp):
TAGCGGCGTTTTTCAAAAACGCCGCTATTGCTCAGTTTT
Found at i:68917068 original size:41 final size:41
Alignment explanation
Indices: 68917023--68917100 Score: 120
Period size: 41 Copynumber: 1.9 Consensus size: 41
68917013 GGCGTTTTTC
* * *
68917023 CAAAAGCGTCGCTATTGTTCAGTTTTTAGCGGCGTTTGGAT
1 CAAAAACGCCGCTATTGCTCAGTTTTTAGCGGCGTTTGGAT
*
68917064 CAAAAACGCCGCTATTGCTCAGTTTTTTGCGGCGTTT
1 CAAAAACGCCGCTATTGCTCAGTTTTTAGCGGCGTTT
68917101 TATTGCAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.19, C:0.21, G:0.24, T:0.36
Consensus pattern (41 bp):
CAAAAACGCCGCTATTGCTCAGTTTTTAGCGGCGTTTGGAT
Found at i:68919319 original size:16 final size:19
Alignment explanation
Indices: 68919281--68919322 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 19
68919271 TTTATCATAG
68919281 AAATAAATATTATTTAATTA
1 AAATAAATATTATTTAA-TA
68919301 AAATAAA-ATT-TTTAA-A
1 AAATAAATATTATTTAATA
68919317 AAATAA
1 AAATAA
68919323 TGTTTATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 7 0.32
18 5 0.23
19 3 0.14
20 7 0.32
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
AAATAAATATTATTTAATA
Found at i:68923834 original size:41 final size:39
Alignment explanation
Indices: 68923804--68923903 Score: 119
Period size: 39 Copynumber: 2.6 Consensus size: 39
68923794 GTGAATGAGT
**
68923804 TTCAGATTAATGTCTAACAGGCCTCGTGCCGGTGATAAA
1 TTCAGATTAATACCTAACAGGCCTCGTGCCGGTGATAAA
* * * *
68923843 TTCAGGTTTATACCTAACAGGCCTCGTGCCGGTGTTAAG
1 TTCAGATTAATACCTAACAGGCCTCGTGCCGGTGATAAA
* * *
68923882 TTCAGGTTTATACCTAGCAGGC
1 TTCAGATTAATACCTAACAGGC
68923904 AAATTGTCGG
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 54 1.00
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.30
Consensus pattern (39 bp):
TTCAGATTAATACCTAACAGGCCTCGTGCCGGTGATAAA
Found at i:68923860 original size:39 final size:39
Alignment explanation
Indices: 68923817--68923903 Score: 147
Period size: 39 Copynumber: 2.2 Consensus size: 39
68923807 AGATTAATGT
68923817 CTAACAGGCCTCGTGCCGGTGATAAATTCAGGTTTATAC
1 CTAACAGGCCTCGTGCCGGTGATAAATTCAGGTTTATAC
* *
68923856 CTAACAGGCCTCGTGCCGGTGTTAAGTTCAGGTTTATAC
1 CTAACAGGCCTCGTGCCGGTGATAAATTCAGGTTTATAC
*
68923895 CTAGCAGGC
1 CTAACAGGC
68923904 AAATTGTCGG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 45 1.00
ACGTcount: A:0.23, C:0.24, G:0.25, T:0.28
Consensus pattern (39 bp):
CTAACAGGCCTCGTGCCGGTGATAAATTCAGGTTTATAC
Found at i:68923915 original size:39 final size:39
Alignment explanation
Indices: 68923829--68923916 Score: 104
Period size: 39 Copynumber: 2.3 Consensus size: 39
68923819 AACAGGCCTC
***
68923829 GTGCCGGTGATAAATTCAGGTTTATACCTAACAGGCCTC
1 GTGCCGGTGATAAATTCAGGTTTATACCTAACAGGCAAA
* * *
68923868 GTGCCGGTGTTAAGTTCAGGTTTATACCTAGCAGGCAAA
1 GTGCCGGTGATAAATTCAGGTTTATACCTAACAGGCAAA
* *
68923907 TTGTCGGTGA
1 GTGCCGGTGA
68923917 AACAATAAAA
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (39 bp):
GTGCCGGTGATAAATTCAGGTTTATACCTAACAGGCAAA
Found at i:68933094 original size:39 final size:39
Alignment explanation
Indices: 68933011--68933107 Score: 99
Period size: 39 Copynumber: 2.5 Consensus size: 39
68933001 TGAAACCAAT
* *
68933011 TACCAGCA-TAAGCCTGCGGGAATTTAAACCCGGTATAA
1 TACCAGCACGAAGCCTGCGGGAATTTAAACCCGGAATAA
* * * *
68933049 TACCAGCTCGAAGCCTGCGGGACTTT-AGCCCGGAAATAT
1 TACCAGCACGAAGCCTGCGGGAATTTAAACCCGG-AATAA
* *
68933088 TTCCAGCACGTAGCCTGCGG
1 TACCAGCACGAAGCCTGCGG
68933108 ACCTTAAGTC
Statistics
Matches: 48, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
38 13 0.27
39 35 0.73
ACGTcount: A:0.27, C:0.28, G:0.25, T:0.21
Consensus pattern (39 bp):
TACCAGCACGAAGCCTGCGGGAATTTAAACCCGGAATAA
Found at i:68933141 original size:39 final size:39
Alignment explanation
Indices: 68933088--68933164 Score: 118
Period size: 39 Copynumber: 2.0 Consensus size: 39
68933078 CCGGAAATAT
* *
68933088 TTCCAGCACGTAGCCTGCGGACCTTAAGTCCAGATATAA
1 TTCCAGCACATAGCCTGCGGACCCTAAGTCCAGATATAA
* *
68933127 TTCCTGCACATAGCCTGCGGACCCTAAGTCCGGATATA
1 TTCCAGCACATAGCCTGCGGACCCTAAGTCCAGATATA
68933165 CATCACTGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.26, C:0.30, G:0.21, T:0.23
Consensus pattern (39 bp):
TTCCAGCACATAGCCTGCGGACCCTAAGTCCAGATATAA
Found at i:68935333 original size:37 final size:36
Alignment explanation
Indices: 68935288--68935357 Score: 122
Period size: 37 Copynumber: 1.9 Consensus size: 36
68935278 CCAAAACCAC
68935288 TTTTCGACTAGGGCCAAATTAGGGCTATCACAAAAA
1 TTTTCGACTAGGGCCAAATTAGGGCTATCACAAAAA
*
68935324 TTTTGCGACTAGGGCCAAATTAGGGCTGTCACAA
1 TTTT-CGACTAGGGCCAAATTAGGGCTATCACAA
68935358 CTCTCCCCCA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
36 4 0.12
37 28 0.88
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (36 bp):
TTTTCGACTAGGGCCAAATTAGGGCTATCACAAAAA
Found at i:68940316 original size:39 final size:39
Alignment explanation
Indices: 68940263--68940388 Score: 180
Period size: 39 Copynumber: 3.2 Consensus size: 39
68940253 GGACTTTAGC
* * * *
68940263 CCGGACATATTTCCAGCACGTAGCCTGCGGACCTTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
*
68940302 CCGAATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
* * *
68940341 CTGGATATAATTCCAGCACATGGCCTGTGGACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
68940380 CCGGATATA
1 CCGGATATA
68940389 CATCACTGAA
Statistics
Matches: 77, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 77 1.00
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (39 bp):
CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
Found at i:68944996 original size:39 final size:39
Alignment explanation
Indices: 68944953--68945039 Score: 129
Period size: 39 Copynumber: 2.2 Consensus size: 39
68944943 GACTTAATGT
68944953 CTAGTAGGCCTCGTGCCAGTGATAAATTCAGGTTTATAC
1 CTAGTAGGCCTCGTGCCAGTGATAAATTCAGGTTTATAC
* * * *
68944992 CTAGTAGGCCTCGTGTCGGTGTTAAGTTCAGGTTTATAC
1 CTAGTAGGCCTCGTGCCAGTGATAAATTCAGGTTTATAC
*
68945031 CTAGCAGGC
1 CTAGTAGGC
68945040 AAATTGCCGG
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 43 1.00
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.31
Consensus pattern (39 bp):
CTAGTAGGCCTCGTGCCAGTGATAAATTCAGGTTTATAC
Found at i:68948400 original size:43 final size:43
Alignment explanation
Indices: 68948348--68948460 Score: 118
Period size: 43 Copynumber: 2.6 Consensus size: 43
68948338 AAAGTGCCAG
* * * *
68948348 TAAATGTCATATTCTATAGCGGCGTTTATGGGGAAGGCACCGC
1 TAAAGGTCATGTTCTATAGCGGCGTTTATGGGAAAAGCACCGC
* * * * * *
68948391 TAAAGGTCATGTTCTTTAGCTGCATTTGTGGGAAAAGCGCTGC
1 TAAAGGTCATGTTCTATAGCGGCGTTTATGGGAAAAGCACCGC
* *
68948434 TAAAGGTCTTGTTCTATAGTGGCGTTT
1 TAAAGGTCATGTTCTATAGCGGCGTTT
68948461 TTGTGAGAGG
Statistics
Matches: 55, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
43 55 1.00
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.34
Consensus pattern (43 bp):
TAAAGGTCATGTTCTATAGCGGCGTTTATGGGAAAAGCACCGC
Found at i:68948449 original size:86 final size:86
Alignment explanation
Indices: 68948301--68948460 Score: 207
Period size: 86 Copynumber: 1.9 Consensus size: 86
68948291 GGGAAAATTG
* * * * *
68948301 CCGCTAAAGTTTATGTTCTTTAGTGGCATTTGTGGGGAAAGTGCCAGTAAATGTCATATTCTATA
1 CCGCTAAAGGTCATGTTCTTTAGTGGCATTTGTGGGAAAAGCGCCAGTAAAGGTCATATTCTATA
68948366 GCGGCGTTTATGGGGAAGGCA
66 GCGGCGTTTATGGGGAAGGCA
* * *
68948387 CCGCTAAAGGTCATGTTCTTTAGCT-GCATTTGTGGGAAAAGCG-CTGCTAAAGGTCTTGTTCTA
1 CCGCTAAAGGTCATGTTCTTTAG-TGGCATTTGTGGGAAAAGCGCCAG-TAAAGGTCATATTCTA
*
68948450 TAGTGGCGTTT
64 TAGCGGCGTTT
68948461 TTGTGAGAGG
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
85 2 0.03
86 60 0.95
87 1 0.02
ACGTcount: A:0.23, C:0.16, G:0.28, T:0.34
Consensus pattern (86 bp):
CCGCTAAAGGTCATGTTCTTTAGTGGCATTTGTGGGAAAAGCGCCAGTAAAGGTCATATTCTATA
GCGGCGTTTATGGGGAAGGCA
Found at i:68950434 original size:47 final size:45
Alignment explanation
Indices: 68950368--68950658 Score: 260
Period size: 47 Copynumber: 6.3 Consensus size: 45
68950358 GGGTTATTGT
*
68950368 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCC-CATTATGA
* *
68950414 GAGCCAGTATAAGACCATGTCTGGGACATGCATTGGCCACATTATGA
1 GAGCCAGTGTAAGA-CATGTCTGGGACATGCATCGGCC-CATTATGA
* *
68950461 GAGCTAGTGTAAGATCATGTTTGGGACATGACATCGG--CATTGA-GA
1 GAGCCAGTGTAAGA-CATGTCTGGGACATG-CATCGGCCCATT-ATGA
68950506 CGAGACCTAGTGTAAGACATGTCTGGGACATGACATCGG--CATTGA-GACAA
1 -GAG-CC-AGTGTAAGACATGTCTGGGACATG-CATCGGCCCATT-ATG---A
* * *
68950556 GAGCTAGTGTAAGACATGTCTGGGACATGTATCGGCCTCAAGATAT-A
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCC-C-A-TTATGA
* *
68950603 -AGCCAGTGTAAGACATGTCTGGGACATGCATCGG-CTATGA-GA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCCATTATGA
68950645 TGAGCCAGTGTAAG
1 -GAGCCAGTGTAAG
68950659 TCCTACCCCA
Statistics
Matches: 209, Mismatches: 18, Indels: 38
0.79 0.07 0.14
Matches are distributed among these distances:
42 2 0.01
43 1 0.00
44 12 0.06
45 7 0.03
46 53 0.25
47 111 0.53
48 15 0.07
49 4 0.02
50 3 0.01
51 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.29, T:0.23
Consensus pattern (45 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCCATTATGA
Found at i:68953216 original size:12 final size:10
Alignment explanation
Indices: 68953194--68953227 Score: 50
Period size: 10 Copynumber: 3.2 Consensus size: 10
68953184 ATAACCAAAT
68953194 TTAATTAAAA
1 TTAATTAAAA
68953204 TTAACTATAAAA
1 TTAA-T-TAAAA
68953216 TTAATTAAAA
1 TTAATTAAAA
68953226 TT
1 TT
68953228 CATAATGTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
10 11 0.50
11 2 0.09
12 9 0.41
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (10 bp):
TTAATTAAAA
Found at i:68953291 original size:21 final size:19
Alignment explanation
Indices: 68953249--68953297 Score: 64
Period size: 18 Copynumber: 2.5 Consensus size: 19
68953239 TATTTTTAAC
68953249 ATAATTTAATTATTTTACA
1 ATAATTTAATTATTTTACA
68953268 AT-ATTTAATTATTTTTTGACA
1 ATAATTTAATTA--TTTT-ACA
68953289 ATAATTTAA
1 ATAATTTAA
68953298 CCGAATTTGC
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
18 9 0.35
19 2 0.08
20 4 0.15
21 5 0.19
22 6 0.23
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.53
Consensus pattern (19 bp):
ATAATTTAATTATTTTACA
Found at i:68958267 original size:17 final size:18
Alignment explanation
Indices: 68958245--68958282 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
68958235 TTTCTGTTGG
68958245 TGACAT-TTCCAACTCTT
1 TGACATGTTCCAACTCTT
68958262 TGACATCGGTTCCAACTCTT
1 TGACAT--GTTCCAACTCTT
68958282 T
1 T
68958283 ACGTATGCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.33
20 12 0.67
ACGTcount: A:0.21, C:0.29, G:0.11, T:0.39
Consensus pattern (18 bp):
TGACATGTTCCAACTCTT
Found at i:68965079 original size:42 final size:40
Alignment explanation
Indices: 68965000--68965079 Score: 108
Period size: 41 Copynumber: 1.9 Consensus size: 40
68964990 AGGTTTTTGC
68965000 ACACGAGCTAGGACACGGGAGTGTCATGGCCGTGTGAAGG
1 ACACGAGCTAGGACACGGGAGTGTCATGGCCGTGTGAAGG
* *
68965040 ACACGGGCTAGGGACACGGGCGTGTGCCA-GGCCGTGTGAA
1 ACACGAGCTA-GGACACGGGAGTGT--CATGGCCGTGTGAA
68965080 AACCCCTGTA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
40 9 0.26
41 13 0.37
42 11 0.31
43 2 0.06
ACGTcount: A:0.23, C:0.23, G:0.41, T:0.14
Consensus pattern (40 bp):
ACACGAGCTAGGACACGGGAGTGTCATGGCCGTGTGAAGG
Found at i:68965224 original size:22 final size:21
Alignment explanation
Indices: 68965199--68965239 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
68965189 TCAAATCAGT
*
68965199 CACACGGGTGTGTTACCCCTCC
1 CACACGGGCGTGTT-CCCCTCC
*
68965221 CACACTGGCGTGTTCCCCT
1 CACACGGGCGTGTTCCCCT
68965240 GTGTCTAGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.12, C:0.41, G:0.22, T:0.24
Consensus pattern (21 bp):
CACACGGGCGTGTTCCCCTCC
Found at i:68971134 original size:13 final size:13
Alignment explanation
Indices: 68971116--68971171 Score: 60
Period size: 13 Copynumber: 4.1 Consensus size: 13
68971106 AGGACAACGA
68971116 CTTAGTACACAGG
1 CTTAGTACACAGG
68971129 CTTAGTACACAGG
1 CTTAGTACACAGG
*
68971142 CGTGTGAAGGACAC-GG
1 C-T-T--AGTACACAGG
68971158 CTTAGTACACAGG
1 CTTAGTACACAGG
68971171 C
1 C
68971172 GTGTGCCTTG
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
12 6 0.17
13 17 0.47
14 2 0.06
15 2 0.06
16 3 0.08
17 6 0.17
ACGTcount: A:0.29, C:0.23, G:0.29, T:0.20
Consensus pattern (13 bp):
CTTAGTACACAGG
Found at i:68973291 original size:43 final size:44
Alignment explanation
Indices: 68973225--68973397 Score: 178
Period size: 43 Copynumber: 4.0 Consensus size: 44
68973215 ATCTCGTACA
* * * *
68973225 ATGCCAA-TGTCCCAGTCGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAACTGTCCCAGACATGGTCTTACACGAAATCAAATATCG
*
68973268 ATGCC-ACTGTCCCAGACAAGGTCTTACACGAAATCAAATA-CG
1 ATGCCAACTGTCCCAGACATGGTCTTACACGAAATCAAATATCG
* * * *
68973310 ATGCCGA-TGTCCCAGACATGGTCTTACACGTCAATCTCAA-ATCA
1 ATGCCAACTGTCCCAGACATGGTCTTACACG-AAATC-AAATATCG
* * *
68973354 ATGCCAAC-GTCCCAGACGTGGTCTTACATGAAATCACATATCG
1 ATGCCAACTGTCCCAGACATGGTCTTACACGAAATCAAATATCG
68973397 A
1 A
68973398 AATCCTATAT
Statistics
Matches: 107, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
42 31 0.29
43 47 0.44
44 29 0.27
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.24
Consensus pattern (44 bp):
ATGCCAACTGTCCCAGACATGGTCTTACACGAAATCAAATATCG
Found at i:68973387 original size:86 final size:85
Alignment explanation
Indices: 68973225--68973389 Score: 208
Period size: 86 Copynumber: 1.9 Consensus size: 85
68973215 ATCTCGTACA
* * * *
68973225 ATGCCAATGTCCCAGTCGTGGTCTTACATGTAATCAAATATCGATGCCACTGTCCCAGACAAGGT
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCAAATATCAATGCCACTGTCCCAGACAAGGT
68973290 CTTACACGAAATCAAATACG
66 CTTACACGAAATCAAATACG
* * **
68973310 ATGCCGATGTCCCAGACATGGTCTTACACGTCAATCTCAA-ATCAATGCCAAC-GTCCCAGACGT
1 ATGCCAATGTCCCAGACATGGTCTTACACGT-AATC-AAATATCAATGCC-ACTGTCCCAGACAA
*
68973373 GGTCTTACATGAAATCA
63 GGTCTTACACGAAATCA
68973390 CATATCGAAA
Statistics
Matches: 68, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
85 27 0.40
86 37 0.54
87 4 0.06
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (85 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGTAATCAAATATCAATGCCACTGTCCCAGACAAGGT
CTTACACGAAATCAAATACG
Found at i:68975792 original size:24 final size:23
Alignment explanation
Indices: 68975765--68975811 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 23
68975755 TATTAATATG
68975765 TATATTAATATTAAATAAATATAA
1 TATATTAATATTAAATAAA-ATAA
68975789 TATATTAATATTAAATAAAATAA
1 TATATTAATATTAAATAAAATAA
68975812 AAATCCCTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 4 0.17
24 19 0.83
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (23 bp):
TATATTAATATTAAATAAAATAA
Found at i:68980890 original size:15 final size:15
Alignment explanation
Indices: 68980870--68980900 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
68980860 AAATATGAAA
68980870 GATATGTTTTGGATT
1 GATATGTTTTGGATT
*
68980885 GATATGTTTTGTATT
1 GATATGTTTTGGATT
68980900 G
1 G
68980901 GAATTTTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.26, T:0.55
Consensus pattern (15 bp):
GATATGTTTTGGATT
Found at i:68981529 original size:45 final size:44
Alignment explanation
Indices: 68981424--68981681 Score: 181
Period size: 45 Copynumber: 5.9 Consensus size: 44
68981414 AGGACTATGC
* * *
68981424 TATGGGTTTTCGTGTAAGACCACGTTTGGGACGTTGGCATGATA
1 TATGTGTTTTCGTGTAAGACCACGTCTAGGACGTTGGCATGATA
**
68981468 TATGTGTTTTCGTGTAAGACCACGTCTAGGTTGTTGGCACTGATA
1 TATGTGTTTTCGTGTAAGACCACGTCTAGGACGTTGGCA-TGATA
* * **
68981513 TATGTGTTTTCATGTAAGACCACGTCTGGGACGTTGTTATTGATA
1 TATGTGTTTTCGTGTAAGACCACGTCTAGGACGTTGGCA-TGATA
* * * * * * * *
68981558 TATGTGGTTACGAGTAAAACCATGTCTGGGACATCGGCATTG-TA
1 TATGTGTTTTCGTGTAAGACCACGTCTAGGACGTTGGCA-TGATA
* *
68981602 T-T-TG-ATTCGTGTAAGACC-CTGTCTGGGACAG-TGGCATCG--A
1 TATGTGTTTTCGTGTAAGACCAC-GTCTAGGAC-GTTGGCAT-GATA
* * ** * *
68981642 TATGAGATAGCATGTAAGACCACGTCTGGGACGTTGGCAT
1 TATGTGTTTTCGTGTAAGACCACGTCTAGGACGTTGGCAT
68981682 TGTTAGATAT
Statistics
Matches: 171, Mismatches: 34, Indels: 19
0.76 0.15 0.08
Matches are distributed among these distances:
40 3 0.02
41 25 0.15
42 4 0.02
43 26 0.15
44 38 0.22
45 75 0.44
ACGTcount: A:0.23, C:0.16, G:0.28, T:0.33
Consensus pattern (44 bp):
TATGTGTTTTCGTGTAAGACCACGTCTAGGACGTTGGCATGATA
Found at i:68985402 original size:20 final size:20
Alignment explanation
Indices: 68985354--68985402 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
68985344 ATACATGTAT
*
68985354 TTAATTATTAATAGATATTTA
1 TTAATTA-TAAAAGATATTTA
**
68985375 TTCTTTATAAAAGATATTTA
1 TTAATTATAAAAGATATTTA
68985395 TTAATTAT
1 TTAATTAT
68985403 TTATTTTATA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
20 18 0.78
21 5 0.22
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (20 bp):
TTAATTATAAAAGATATTTA
Found at i:68985645 original size:17 final size:16
Alignment explanation
Indices: 68985625--68985661 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
68985615 GAAAATAGAT
*
68985625 AAGAAAAGAAGGAAAGA
1 AAGAAAAGAAAG-AAGA
68985642 AAGAAAAGAAAGAAGA
1 AAGAAAAGAAAGAAGA
68985658 AAGA
1 AAGA
68985662 GAAATTTGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (16 bp):
AAGAAAAGAAAGAAGA
Found at i:68987065 original size:18 final size:18
Alignment explanation
Indices: 68987042--68987092 Score: 68
Period size: 18 Copynumber: 2.8 Consensus size: 18
68987032 TAAATAAAAG
*
68987042 TACTGAATGACTGA-CTGT
1 TACTGAATAACTGATC-GT
*
68987060 TACTGAATAATTGATCGT
1 TACTGAATAACTGATCGT
68987078 TACTGAATAACTGAT
1 TACTGAATAACTGAT
68987093 TACTACTGAG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
18 28 0.97
19 1 0.03
ACGTcount: A:0.33, C:0.14, G:0.18, T:0.35
Consensus pattern (18 bp):
TACTGAATAACTGATCGT
Found at i:68987099 original size:18 final size:17
Alignment explanation
Indices: 68987042--68987141 Score: 51
Period size: 18 Copynumber: 5.6 Consensus size: 17
68987032 TAAATAAAAG
*
68987042 TACTGAATGACTGACTGT-
1 TACTGAATAACTGA-T-TC
*
68987060 TACTGAATAATTGA-TC
1 TACTGAATAACTGATTC
68987076 GTTACTGAATAACTGATTAC
1 --TACTGAATAACTGATT-C
** * *
68987096 TACTGAGCAAATGATTG
1 TACTGAATAACTGATTC
*
68987113 TCACTGAATAACTAATTGC
1 T-ACTGAATAACTGATT-C
*
68987132 TACCGAATAA
1 TACTGAATAA
68987142 TTGAATGTTA
Statistics
Matches: 62, Mismatches: 13, Indels: 14
0.70 0.15 0.16
Matches are distributed among these distances:
15 1 0.02
17 1 0.02
18 57 0.92
19 2 0.03
20 1 0.02
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (17 bp):
TACTGAATAACTGATTC
Found at i:68987100 original size:36 final size:35
Alignment explanation
Indices: 68987042--68987153 Score: 107
Period size: 36 Copynumber: 3.1 Consensus size: 35
68987032 TAAATAAAAG
* * *
68987042 TACTGAATGACTGACTGTTACTGAATAATTGATCGT
1 TACTGAATAACTGATTGCTACTGAATAATTGAT-GT
* ** *
68987078 TACTGAATAACTGATTACTACTGAGCAAATGATTGT
1 TACTGAATAACTGATTGCTACTGAATAATTGA-TGT
* * *
68987114 CACTGAATAACTAATTGCTACCGAATAATTGAATGT
1 TACTGAATAACTGATTGCTACTGAATAATTG-ATGT
68987150 TACT
1 TACT
68987154 AAATGAAACT
Statistics
Matches: 59, Mismatches: 15, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
36 57 0.97
37 2 0.03
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (35 bp):
TACTGAATAACTGATTGCTACTGAATAATTGATGT
Found at i:68991588 original size:79 final size:81
Alignment explanation
Indices: 68991464--68991647 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
68991454 GCTACTCGTT
* *
68991464 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATGCCTTCGGGA-CTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAATGCCTTC-GGATCTTAACCCG
* *
68991527 GATTTAGTAAC-TCGCA
65 GATATAGTAACTTAGCA
* **
68991543 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCAC-AATGCCTTCGGATCTTAACCCG
* *
68991606 GATATGGTCACTTAGCA
65 GATATAGTAACTTAGCA
68991623 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
68991648 CATCATTCAA
Statistics
Matches: 91, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
78 24 0.26
79 48 0.53
80 19 0.21
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:68991647 original size:40 final size:40
Alignment explanation
Indices: 68991445--68991647 Score: 229
Period size: 39 Copynumber: 5.1 Consensus size: 40
68991435 CGGAATTTAA
** *
68991445 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
68991485 CCGGTTATAGTAACTCGCAC-AATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
68991524 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
68991563 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
68991603 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
68991643 CCGGA
1 CCGGA
68991648 CATCATTCAA
Statistics
Matches: 139, Mismatches: 16, Indels: 16
0.81 0.09 0.09
Matches are distributed among these distances:
38 2 0.01
39 68 0.49
40 57 0.41
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:68999898 original size:15 final size:15
Alignment explanation
Indices: 68999878--68999908 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
68999868 AAATATGAAA
68999878 GATATGTTTTGGATT
1 GATATGTTTTGGATT
*
68999893 GATATGTTTTGTATT
1 GATATGTTTTGGATT
68999908 G
1 G
68999909 GAATTTTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.26, T:0.55
Consensus pattern (15 bp):
GATATGTTTTGGATT
Found at i:69000530 original size:45 final size:45
Alignment explanation
Indices: 69000481--69000595 Score: 178
Period size: 45 Copynumber: 2.6 Consensus size: 45
69000471 AGATTACGTA
*
69000481 TGGGATGTTGGCATCGATATATGTGTTT-TCGTGGAAGACCACATC
1 TGGGACGTTGGCATCGATATATGTGTTTCT-GTGGAAGACCACATC
* * *
69000526 TGGGACGTTGGCATCAATATATGTGTTTCTGTGTAAGACCACGTC
1 TGGGACGTTGGCATCGATATATGTGTTTCTGTGGAAGACCACATC
69000571 TGGGACGTTGGCATCGATATATGTG
1 TGGGACGTTGGCATCGATATATGTG
69000596 GTTATGGGTA
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
45 63 0.98
46 1 0.02
ACGTcount: A:0.22, C:0.16, G:0.30, T:0.33
Consensus pattern (45 bp):
TGGGACGTTGGCATCGATATATGTGTTTCTGTGGAAGACCACATC
Found at i:69000607 original size:45 final size:45
Alignment explanation
Indices: 69000476--69000611 Score: 168
Period size: 45 Copynumber: 3.0 Consensus size: 45
69000466 ATGTAAGATT
* * *
69000476 ACGTATGGGATGTTGGCATCGATATATGT-GTTTTCGTGG-AAGACC
1 ACGTCTGGGACGTTGGCATCGATATATGTGGTTAT-G-GGTAAGACC
* * * * *
69000521 ACATCTGGGACGTTGGCATCAATATATGTGTTTCTGTGTAAGACC
1 ACGTCTGGGACGTTGGCATCGATATATGTGGTTATGGGTAAGACC
69000566 ACGTCTGGGACGTTGGCATCGATATATGTGGTTATGGGTAAGACC
1 ACGTCTGGGACGTTGGCATCGATATATGTGGTTATGGGTAAGACC
69000611 A
1 A
69000612 TGTTTAGGAC
Statistics
Matches: 77, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
44 1 0.01
45 73 0.95
46 3 0.04
ACGTcount: A:0.24, C:0.15, G:0.29, T:0.32
Consensus pattern (45 bp):
ACGTCTGGGACGTTGGCATCGATATATGTGGTTATGGGTAAGACC
Found at i:69014939 original size:22 final size:22
Alignment explanation
Indices: 69014913--69014960 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
69014903 TGTTGTACTT
* *
69014913 TGAAAATGTTCAAAGTGGTACA
1 TGAAAATATTCAAAATGGTACA
*
69014935 TGAAAATATTCAAAATGGTATA
1 TGAAAATATTCAAAATGGTACA
69014957 TGAA
1 TGAA
69014961 CTATCAATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.46, C:0.06, G:0.19, T:0.29
Consensus pattern (22 bp):
TGAAAATATTCAAAATGGTACA
Found at i:69016322 original size:21 final size:21
Alignment explanation
Indices: 69016298--69016350 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
69016288 TCTCTAGTCA
* **
69016298 TAAACCTTAAATTGTAAACCT
1 TAAACCCTAAATATTAAACCT
69016319 TAAACCCTAAATATTAAACCT
1 TAAACCCTAAATATTAAACCT
* *
69016340 TGAATCCTAAA
1 TAAACCCTAAA
69016351 CCATAAAACC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.45, C:0.21, G:0.04, T:0.30
Consensus pattern (21 bp):
TAAACCCTAAATATTAAACCT
Found at i:69016471 original size:14 final size:16
Alignment explanation
Indices: 69016446--69016477 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
69016436 ACTAGACCCT
69016446 AAATTATAAAACT-TA
1 AAATTATAAAACTCTA
69016461 AAATTAT-AAACTCTA
1 AAATTATAAAACTCTA
69016476 AA
1 AA
69016478 TCCAAAACCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.31
Consensus pattern (16 bp):
AAATTATAAAACTCTA
Found at i:69017301 original size:187 final size:187
Alignment explanation
Indices: 69017000--69017545 Score: 780
Period size: 187 Copynumber: 2.9 Consensus size: 187
69016990 TTTTGAAGTT
* * * *
69017000 TTGTTATTAGTGGCGCTTTC-AAAAAAACACCACAAAACATCTATTAAGAGAATGT-AAAACG--
1 TTGTTATTAGTGGCGCTTTCTATAAAAACGCCACAAAACAT-T-TAAAGAG-ATTTCAAAACGTC
* * * * * * *
69017061 GCGTCGTCTACA-TCCTTATTATTAGTGGTGCTTCTATAAACGCTACAAAAGGTGAGAATTACCG
63 GCCTC-TTTATAGT-CTT-TTATTAGTGGTGCTTTTATAAACGCCACAAAAGGTGTGAAATACCG
* *
69017125 GCGTTTTCTCTAGAAACGCCACAAAAATCTATTAACAGATTGCAAAATGGCGTCGTTATTACC
125 GCGTTTTCTCTAGAAACGCCACAAAAATCTATTAACAGATTGCAAAACGGCATCGTTATTACC
* * *
69017188 TTGTTATTAGTGGCGCTTTCTATAAAAACGCCACAAAACATTTAAAGAGATTTCAAAACTTTG-T
1 TTGTTATTAGTGGCGCTTTCTATAAAAACGCCACAAAACATTTAAAGAGATTTCAAAACGTCGCC
* * * *
69017252 TGTTTTATAGTCTTTTATTAGTGGCGCTTTTATAAATGCCACAAAAGGTGTGAAATACCGACGTT
66 T-CTTTATAGTCTTTTATTAGTGGTGCTTTTATAAACGCCACAAAAGGTGTGAAATACCGGCGTT
*
69017317 TTCTCTAGAAACGCCACAAAAATATATTAACAGATTGCAAAACGGCATCGTTATTACC
130 TTCTCTAGAAACGCCACAAAAATCTATTAACAGATTGCAAAACGGCATCGTTATTACC
*
69017375 TTGTTATTAGTGGTGCTTTCTATAAAAACGCCACAAAACATTTAAAGAGATTTCAAAACGTCGCC
1 TTGTTATTAGTGGCGCTTTCTATAAAAACGCCACAAAACATTTAAAGAGATTTCAAAACGTCGCC
*
69017440 TCTTTATAGTCTTTTATTAGTGGTGCTTTTATAAACACCACAAAAGGTGTGAAATACCGGCGTTT
66 TCTTTATAGTCTTTTATTAGTGGTGCTTTTATAAACGCCACAAAAGGTGTGAAATACCGGCGTTT
69017505 TCTCTAGAAACGCCACAAAAATCTATTAACAGATTGCAAAA
131 TCTCTAGAAACGCCACAAAAATCTATTAACAGATTGCAAAA
69017546 ACTGTGTCAT
Statistics
Matches: 322, Mismatches: 29, Indels: 15
0.88 0.08 0.04
Matches are distributed among these distances:
186 3 0.01
187 269 0.84
188 30 0.09
189 20 0.06
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (187 bp):
TTGTTATTAGTGGCGCTTTCTATAAAAACGCCACAAAACATTTAAAGAGATTTCAAAACGTCGCC
TCTTTATAGTCTTTTATTAGTGGTGCTTTTATAAACGCCACAAAAGGTGTGAAATACCGGCGTTT
TCTCTAGAAACGCCACAAAAATCTATTAACAGATTGCAAAACGGCATCGTTATTACC
Found at i:69020151 original size:21 final size:21
Alignment explanation
Indices: 69020127--69020169 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
69020117 TTTATCTTTA
* *
69020127 TTTT-GGAGATTTTTAATTATT
1 TTTTAGGAG-TTTATAAATATT
69020148 TTTTAGGAGTTTATAAATATT
1 TTTTAGGAGTTTATAAATATT
69020169 T
1 T
69020170 GACTTACTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.28, C:0.00, G:0.14, T:0.58
Consensus pattern (21 bp):
TTTTAGGAGTTTATAAATATT
Found at i:69021270 original size:8 final size:8
Alignment explanation
Indices: 69021257--69021282 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
69021247 TTGTGATTTA
69021257 ATATTTCT
1 ATATTTCT
69021265 ATATTTCT
1 ATATTTCT
69021273 ATATTTCT
1 ATATTTCT
69021281 AT
1 AT
69021283 CACGATTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.27, C:0.12, G:0.00, T:0.62
Consensus pattern (8 bp):
ATATTTCT
Found at i:69021341 original size:64 final size:64
Alignment explanation
Indices: 69021273--69021406 Score: 232
Period size: 64 Copynumber: 2.1 Consensus size: 64
69021263 CTATATTTCT
* **
69021273 ATATTTCTATCACGATTTTTACTAAATTTATTTATTGATATAATATGTCCCATCTAATATACAA
1 ATATTTCTATCACGATTTTTAATAAATTTATTTATAAATATAATATGTCCCATCTAATATACAA
*
69021337 ATATTTCTATCACGATTTTTAATAAATTTATTTATAAATATAATATGTCCCATCTACTATACAA
1 ATATTTCTATCACGATTTTTAATAAATTTATTTATAAATATAATATGTCCCATCTAATATACAA
69021401 ATATTT
1 ATATTT
69021407 AATAAAATAT
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 66 1.00
ACGTcount: A:0.37, C:0.13, G:0.04, T:0.46
Consensus pattern (64 bp):
ATATTTCTATCACGATTTTTAATAAATTTATTTATAAATATAATATGTCCCATCTAATATACAA
Found at i:69021419 original size:64 final size:64
Alignment explanation
Indices: 69021286--69021425 Score: 185
Period size: 64 Copynumber: 2.2 Consensus size: 64
69021276 TTTCTATCAC
* ** * * *
69021286 GATTTTTACTAAATTTATTTATTGATATAATATGTCCCATCTAATATACAAATATTTCTATCAC
1 GATTTTTAATAAATTTATTTATAAATATAATATGTCCCATCTAATATACAAATATTTATATAAA
*
69021350 GATTTTTAATAAATTTATTTATAAATATAATATGTCCCATCTACTATACAAATATTTA-ATAAA
1 GATTTTTAATAAATTTATTTATAAATATAATATGTCCCATCTAATATACAAATATTTATATAAA
69021413 -ATATTTTATATAA
1 GAT-TTTTA-ATAA
69021426 TTTTTAACTT
Statistics
Matches: 67, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
62 2 0.03
63 8 0.12
64 57 0.85
ACGTcount: A:0.41, C:0.11, G:0.04, T:0.45
Consensus pattern (64 bp):
GATTTTTAATAAATTTATTTATAAATATAATATGTCCCATCTAATATACAAATATTTATATAAA
Found at i:69021481 original size:24 final size:24
Alignment explanation
Indices: 69021454--69021524 Score: 106
Period size: 24 Copynumber: 3.0 Consensus size: 24
69021444 ATTATTATTG
* *
69021454 AAATATTCTCATTCGTTTTATCAC
1 AAATATTATCGTTCGTTTTATCAC
* *
69021478 AAATATTATTGTCCGTTTTATCAC
1 AAATATTATCGTTCGTTTTATCAC
69021502 AAATATTATCGTTCGTTTTATCA
1 AAATATTATCGTTCGTTTTATCA
69021525 TTTAAGTTAA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.30, C:0.17, G:0.07, T:0.46
Consensus pattern (24 bp):
AAATATTATCGTTCGTTTTATCAC
Found at i:69021881 original size:9 final size:9
Alignment explanation
Indices: 69021851--69022138 Score: 316
Period size: 9 Copynumber: 32.4 Consensus size: 9
69021841 AATATTTAAC
*
69021851 ATAACTTAC
1 ATAACTTAT
* *
69021860 AAAACTTAC
1 ATAACTTAT
69021869 ATAACTTAT
1 ATAACTTAT
*
69021878 ATAACTTAG
1 ATAACTTAT
*
69021887 ATAA-ATAT
1 ATAACTTAT
69021895 ATAACTTAT
1 ATAACTTAT
*
69021904 ATAACTTAG
1 ATAACTTAT
*
69021913 ATAA-ATAT
1 ATAACTTAT
69021921 ATAACTTAT
1 ATAACTTAT
*
69021930 ATAACTTAC
1 ATAACTTAT
69021939 ATAACTTAT
1 ATAACTTAT
*
69021948 ATAACTTAG
1 ATAACTTAT
*
69021957 ATAA-ATAT
1 ATAACTTAT
*
69021965 ATAACTTAC
1 ATAACTTAT
*
69021974 ATAACTTAC
1 ATAACTTAT
69021983 ATAACTTAT
1 ATAACTTAT
*
69021992 ATAACTTAG
1 ATAACTTAT
69022001 ATAACTTAT
1 ATAACTTAT
*
69022010 ATAACTTAG
1 ATAACTTAT
69022019 ATAACTTAT
1 ATAACTTAT
69022028 ATAACTTAT
1 ATAACTTAT
*
69022037 ATAACTTAC
1 ATAACTTAT
69022046 ATAACTTAT
1 ATAACTTAT
*
69022055 ATAACTTAC
1 ATAACTTAT
69022064 ATAACTTAT
1 ATAACTTAT
*
69022073 ATAACTTAG
1 ATAACTTAT
*
69022082 ATAA-ATAT
1 ATAACTTAT
*
69022090 ATAACTTAC
1 ATAACTTAT
*
69022099 ATAA-ATAT
1 ATAACTTAT
* *
69022107 ATATCATAT
1 ATAACTTAT
*
69022116 CATAACTTAC
1 -ATAACTTAT
*
69022126 ATAACTTAC
1 ATAACTTAT
69022135 ATAA
1 ATAA
69022139 TACTTAAATA
Statistics
Matches: 235, Mismatches: 38, Indels: 12
0.82 0.13 0.04
Matches are distributed among these distances:
8 29 0.12
9 200 0.85
10 6 0.03
ACGTcount: A:0.48, C:0.13, G:0.02, T:0.37
Consensus pattern (9 bp):
ATAACTTAT
Found at i:69022169 original size:34 final size:34
Alignment explanation
Indices: 69022125--69022246 Score: 122
Period size: 34 Copynumber: 3.4 Consensus size: 34
69022115 TCATAACTTA
69022125 CATAACTTACATAATACTTAAATATATTTGATAT
1 CATAACTTACATAATACTTAAATATATTTGATAT
* * *
69022159 CATAATTTACATAACTAGCTTACGAA-ACTTACTTAACT-T
1 CATAACTTACATAA-TA-CTTA--AATA--TATTTGA-TAT
69022198 ACATAACTTACATAATACTTAAATATATTTGATAT
1 -CATAACTTACATAATACTTAAATATATTTGATAT
*
69022233 CATAATTTACATAA
1 CATAACTTACATAA
69022247 CTAGCTTACA
Statistics
Matches: 71, Mismatches: 7, Indels: 20
0.72 0.07 0.20
Matches are distributed among these distances:
34 27 0.38
35 8 0.11
36 6 0.08
37 2 0.03
38 6 0.08
39 8 0.11
40 14 0.20
ACGTcount: A:0.43, C:0.15, G:0.03, T:0.39
Consensus pattern (34 bp):
CATAACTTACATAATACTTAAATATATTTGATAT
Found at i:69022208 original size:74 final size:74
Alignment explanation
Indices: 69022118--69022267 Score: 282
Period size: 74 Copynumber: 2.0 Consensus size: 74
69022108 TATCATATCA
*
69022118 TAACTTACATAACTTACATAATACTTAAATATATTTGATATCATAATTTACATAACTAGCTTACG
1 TAACTTACATAACTTACATAATACTTAAATATATTTGATATCATAATTTACATAACTAGCTTACA
*
69022183 AAACTTACT
66 AAACATACT
69022192 TAACTTACATAACTTACATAATACTTAAATATATTTGATATCATAATTTACATAACTAGCTTACA
1 TAACTTACATAACTTACATAATACTTAAATATATTTGATATCATAATTTACATAACTAGCTTACA
69022257 AAACATACT
66 AAACATACT
69022266 TA
1 TA
69022268 CATAATACAC
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
74 74 1.00
ACGTcount: A:0.43, C:0.16, G:0.03, T:0.37
Consensus pattern (74 bp):
TAACTTACATAACTTACATAATACTTAAATATATTTGATATCATAATTTACATAACTAGCTTACA
AAACATACT
Found at i:69027416 original size:13 final size:14
Alignment explanation
Indices: 69027400--69027428 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
69027390 TTCTAAATAT
69027400 TTATAA-TGTTTAA
1 TTATAATTGTTTAA
69027413 TTATAATTGTTTAA
1 TTATAATTGTTTAA
69027427 TT
1 TT
69027429 CAATTCATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (14 bp):
TTATAATTGTTTAA
Found at i:69027908 original size:21 final size:21
Alignment explanation
Indices: 69027843--69027897 Score: 101
Period size: 21 Copynumber: 2.6 Consensus size: 21
69027833 ACTTAGAGCG
*
69027843 GAGGCAGCAGAGAGGGAGGCA
1 GAGGCAGCAGCGAGGGAGGCA
69027864 GAGGCAGCAGCGAGGGAGGCA
1 GAGGCAGCAGCGAGGGAGGCA
69027885 GAGGCAGCAGCGA
1 GAGGCAGCAGCGA
69027898 TGGCAGCAGA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.31, C:0.18, G:0.51, T:0.00
Consensus pattern (21 bp):
GAGGCAGCAGCGAGGGAGGCA
Found at i:69028191 original size:31 final size:31
Alignment explanation
Indices: 69028145--69028211 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 31
69028135 TTGTTGTATT
*
69028145 TTTTATGCTAAATTTGTTGTTTTTGGCTGCA
1 TTTTATGCTAAATTTGTTGTATTTGGCTGCA
* * * *
69028176 TTTTATGTTATATTTGTTGTATTTGGTTGGA
1 TTTTATGCTAAATTTGTTGTATTTGGCTGCA
69028207 TTTTA
1 TTTTA
69028212 ATGCAGGAAG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.16, C:0.04, G:0.19, T:0.60
Consensus pattern (31 bp):
TTTTATGCTAAATTTGTTGTATTTGGCTGCA
Found at i:69028318 original size:22 final size:22
Alignment explanation
Indices: 69028278--69028321 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
69028268 GTGGCGTTTG
*
69028278 TGGGAAAAACGCCACTAAAAGT
1 TGGGAAAAACACCACTAAAAGT
69028300 TGGGAAAAACACCGA-TAAAAGT
1 TGGGAAAAACACC-ACTAAAAGT
69028322 CATAGCTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 19 0.95
23 1 0.05
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.14
Consensus pattern (22 bp):
TGGGAAAAACACCACTAAAAGT
Found at i:69028376 original size:43 final size:43
Alignment explanation
Indices: 69028327--69028420 Score: 136
Period size: 43 Copynumber: 2.2 Consensus size: 43
69028317 AAAGTCATAG
* *
69028327 CTTTTAGCGGCTCTTTTCGC-ACAAACGCCGCTAAAAGCCATGA
1 CTTTTAGCGGCGC-TTTCCCAACAAACGCCGCTAAAAGCCATGA
* *
69028370 CTTTTAGCGGCGCTTTCCCAACAAACGCCGCTAAAAGTCATGG
1 CTTTTAGCGGCGCTTTCCCAACAAACGCCGCTAAAAGCCATGA
69028413 CTTTTAGC
1 CTTTTAGC
69028421 TGGATTTTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
42 5 0.11
43 41 0.89
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (43 bp):
CTTTTAGCGGCGCTTTCCCAACAAACGCCGCTAAAAGCCATGA
Found at i:69030338 original size:26 final size:26
Alignment explanation
Indices: 69030303--69030358 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
69030293 TTAAATATTT
69030303 ATAATAACGTCTGATCCCTAGATTGA
1 ATAATAACGTCTGATCCCTAGATTGA
69030329 ATAATAACGTCTGATCCCTAGATTGA
1 ATAATAACGTCTGATCCCTAGATTGA
69030355 ATAA
1 ATAA
69030359 CCGAGACTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.38, C:0.18, G:0.14, T:0.30
Consensus pattern (26 bp):
ATAATAACGTCTGATCCCTAGATTGA
Found at i:69032751 original size:18 final size:18
Alignment explanation
Indices: 69032728--69032766 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
69032718 TTTTAAAAGG
69032728 AAAACAAACGAATCTTAA
1 AAAACAAACGAATCTTAA
**
69032746 AAAACAATTGAATCTTAA
1 AAAACAAACGAATCTTAA
69032764 AAA
1 AAA
69032767 CTTAATGAAA
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:0.62, C:0.13, G:0.05, T:0.21
Consensus pattern (18 bp):
AAAACAAACGAATCTTAA
Found at i:69037803 original size:40 final size:40
Alignment explanation
Indices: 69037743--69037926 Score: 230
Period size: 40 Copynumber: 4.6 Consensus size: 40
69037733 TATTCGAATG
*
69037743 ATATCCGGGCTAAG-TCCCGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
* * *
69037783 ATATCCGGACTAAGATCCGAAGGCATTTGTGCAAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAG-TGACT
* * * *
69037823 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
*
69037863 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
*
69037903 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
69037927 CTTGTGCGAG
Statistics
Matches: 124, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
39 1 0.01
40 120 0.97
41 3 0.02
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
Found at i:69037876 original size:80 final size:80
Alignment explanation
Indices: 69037743--69037926 Score: 255
Period size: 80 Copynumber: 2.3 Consensus size: 80
69037733 TATTCGAATG
* * *
69037743 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACTATATCCGGACTAAGAT-CCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAG-TCCCGAAGGC
* *
69037807 ATTTGTGCAAGTTG-CT
65 ATTTATGCAAG-TGACC
* * *
69037823 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAGTCCCGAAGGCA
*
69037888 TTTATGCTAGTGACC
66 TTTATGCAAGTGACC
69037903 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
69037927 CTTGTGCGAG
Statistics
Matches: 93, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
79 3 0.03
80 90 0.97
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAGTCCCGAAGGCA
TTTATGCAAGTGACC
Found at i:69040376 original size:21 final size:21
Alignment explanation
Indices: 69040352--69040400 Score: 98
Period size: 21 Copynumber: 2.3 Consensus size: 21
69040342 ATGATGAATC
69040352 CGGCTTCTGAGACGGATCAAT
1 CGGCTTCTGAGACGGATCAAT
69040373 CGGCTTCTGAGACGGATCAAT
1 CGGCTTCTGAGACGGATCAAT
69040394 CGGCTTC
1 CGGCTTC
69040401 CTTGGAGTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.20, C:0.27, G:0.29, T:0.24
Consensus pattern (21 bp):
CGGCTTCTGAGACGGATCAAT
Found at i:69040430 original size:21 final size:21
Alignment explanation
Indices: 69040404--69040445 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
69040394 CGGCTTCCTT
*
69040404 GGAGTAATTCCTTACTCCCTC
1 GGAGTAATTCCATACTCCCTC
69040425 GGAGTAATTCCATACTCCCTC
1 GGAGTAATTCCATACTCCCTC
69040446 TTCTCTGCCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.21, C:0.33, G:0.14, T:0.31
Consensus pattern (21 bp):
GGAGTAATTCCATACTCCCTC
Found at i:69042345 original size:54 final size:55
Alignment explanation
Indices: 69042286--69042393 Score: 209
Period size: 54 Copynumber: 2.0 Consensus size: 55
69042276 TCGAGAGAAA
69042286 GAATCTACAAATGAAATATAATATTTATAACCATTTGAGTAACAAGGAG-AAGGG
1 GAATCTACAAATGAAATATAATATTTATAACCATTTGAGTAACAAGGAGCAAGGG
69042340 GAATCTACAAATGAAATATAATATTTATAACCATTTGAGTAACAAGGAGCAAGG
1 GAATCTACAAATGAAATATAATATTTATAACCATTTGAGTAACAAGGAGCAAGG
69042394 CCCATAAATC
Statistics
Matches: 53, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
54 49 0.92
55 4 0.08
ACGTcount: A:0.46, C:0.10, G:0.18, T:0.26
Consensus pattern (55 bp):
GAATCTACAAATGAAATATAATATTTATAACCATTTGAGTAACAAGGAGCAAGGG
Found at i:69052678 original size:13 final size:15
Alignment explanation
Indices: 69052652--69052684 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
69052642 GCTCCATAAT
69052652 AAAATAAAATAAATA
1 AAAATAAAATAAATA
69052667 AAAAT-AAA-AAATA
1 AAAATAAAATAAATA
69052680 AAAAT
1 AAAAT
69052685 CATATCTTCC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 10 0.56
14 3 0.17
15 5 0.28
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (15 bp):
AAAATAAAATAAATA
Found at i:69053012 original size:13 final size:13
Alignment explanation
Indices: 69052994--69053034 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
69052984 ATATTTATAT
69052994 ATTTTTATAATAA
1 ATTTTTATAATAA
*
69053007 ATTTTTAT-CT--
1 ATTTTTATAATAA
69053017 ATTTTTATAATAA
1 ATTTTTATAATAA
69053030 ATTTT
1 ATTTT
69053035 AAATAAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 6
0.74 0.06 0.19
Matches are distributed among these distances:
10 8 0.35
11 1 0.04
12 1 0.04
13 13 0.57
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (13 bp):
ATTTTTATAATAA
Found at i:69053019 original size:23 final size:23
Alignment explanation
Indices: 69052968--69053034 Score: 91
Period size: 23 Copynumber: 3.0 Consensus size: 23
69052958 TATTTGAAAA
* * *
69052968 ATATACTTTTAT-ATTAATATTT
1 ATATATTTTTATAATAAATTTTT
69052990 ATATATTTTTATAATAAATTTTT
1 ATATATTTTTATAATAAATTTTT
*
69053013 ATCTATTTTTATAATAAATTTT
1 ATATATTTTTATAATAAATTTT
69053035 AAATAAAAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
22 11 0.28
23 29 0.73
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (23 bp):
ATATATTTTTATAATAAATTTTT
Found at i:69055659 original size:43 final size:42
Alignment explanation
Indices: 69055567--69055684 Score: 141
Period size: 43 Copynumber: 2.8 Consensus size: 42
69055557 CTGTTTTGCG
* * * * *
69055567 TGTAAGACCATGTTTGGGACATTGGCATCGTATTTGATTTCA
1 TGTAAGACCCTGTCTGGGACAGTGGCATTGTATTTGATTACA
*
69055609 TGTAAGACCCTGTCTGGGACAGTGGCATTGATGTTTGATTACA
1 TGTAAGACCCTGTCTGGGACAGTGGCATTG-TATTTGATTACA
69055652 TGTAAGACCAC-GTCTGGGAC-GTTGGCATTGTAT
1 TGTAAGACC-CTGTCTGGGACAG-TGGCATTGTAT
69055685 ATGCTTTTCG
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
42 29 0.44
43 36 0.55
44 1 0.02
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.34
Consensus pattern (42 bp):
TGTAAGACCCTGTCTGGGACAGTGGCATTGTATTTGATTACA
Found at i:69059871 original size:9 final size:9
Alignment explanation
Indices: 69059840--69059882 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
69059830 ACTATGATAC
69059840 TTTTGAAGG
1 TTTTGAAGG
* *
69059849 TTTTGGGAGA
1 TTTT-GAAGG
69059859 TTTTGAAGG
1 TTTTGAAGG
*
69059868 TTTTGAGGG
1 TTTTGAAGG
69059877 TTTTGA
1 TTTTGA
69059883 GAGATTTCAA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
9 21 0.75
10 7 0.25
ACGTcount: A:0.19, C:0.00, G:0.35, T:0.47
Consensus pattern (9 bp):
TTTTGAAGG
Found at i:69060045 original size:13 final size:13
Alignment explanation
Indices: 69060027--69060060 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
69060017 ATTTGTGTTG
69060027 GGTTGGGTAATTA
1 GGTTGGGTAATTA
*
69060040 GGTTGGGTAATTG
1 GGTTGGGTAATTA
69060053 GGTTGGGT
1 GGTTGGGT
69060061 TGGGTTGGCC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.47, T:0.38
Consensus pattern (13 bp):
GGTTGGGTAATTA
Found at i:69060714 original size:30 final size:30
Alignment explanation
Indices: 69060678--69060734 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
69060668 ATTGAATTTC
** *
69060678 AAGTCTAGGGGTAAAATGTTCATTTTGTGA
1 AAGTCTAGGGACAAAATGATCATTTTGTGA
69060708 AAGTCTAGGGACAAAATGATCATTTTG
1 AAGTCTAGGGACAAAATGATCATTTTG
69060735 CCAAAAATGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.33, C:0.09, G:0.25, T:0.33
Consensus pattern (30 bp):
AAGTCTAGGGACAAAATGATCATTTTGTGA
Found at i:69061142 original size:48 final size:48
Alignment explanation
Indices: 69061071--69061239 Score: 202
Period size: 48 Copynumber: 3.6 Consensus size: 48
69061061 TGATATGTGT
*
69061071 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGAGATGCAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATTGGCCTCGAGAGATGCAA
* * * **
69061119 GCTAGTGTAAGACATGTTTGGGACA-GTCATTGACATTTAGACGA-G--A
1 GCTAGTGTAAGACATGTCTGGGACATG-CATTGGCCTCGAGA-GATGCAA
* *
69061165 GCTAGTGTAAGACATGTCTGGGACATGCATTGGCCTCGAGATATACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATTGGCCTCGAGAGATGCAA
* *
69061213 GCTAGTGTAAGACCTATCTGGGACATG
1 GCTAGTGTAAGACATGTCTGGGACATG
69061240 GTGTCAGCTT
Statistics
Matches: 100, Mismatches: 15, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
45 1 0.01
46 35 0.35
47 2 0.02
48 60 0.60
49 2 0.02
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (48 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATTGGCCTCGAGAGATGCAA
Found at i:69061683 original size:12 final size:12
Alignment explanation
Indices: 69061666--69061691 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
69061656 AAAACAGGGC
69061666 TTTAGCGGCGTT
1 TTTAGCGGCGTT
69061678 TTTAGCGGCGTT
1 TTTAGCGGCGTT
69061690 TT
1 TT
69061692 ACCAAAAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTAGCGGCGTT
Found at i:69061791 original size:41 final size:41
Alignment explanation
Indices: 69061746--69062005 Score: 380
Period size: 41 Copynumber: 6.4 Consensus size: 41
69061736 CGTTTTACCA
* * * * *
69061746 AAAACGCTGCTAAAAA-CAGAGCAATAGCGGCGTTTTTTGTT
1 AAAACGCCGCTAAAAACCGGAGCATTAGCGGCG-CTTTTGGT
* * *
69061787 AAAACACCGCTAAAAA-CAGAGCAATAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAACCGGAGCATTAGCGGCGCTTTTGGT
*
69061827 AAAACGCCGCTAAAAACCGGAGCATTAGGGGCGCTTTTGGT
1 AAAACGCCGCTAAAAACCGGAGCATTAGCGGCGCTTTTGGT
*
69061868 AAAACGCCGCTAAAAACCGGAGCATTAGCGGCGCTTTTAGT
1 AAAACGCCGCTAAAAACCGGAGCATTAGCGGCGCTTTTGGT
*
69061909 AAAACGCCGCTAAAAACCGGAGCATTAGCGGTGCTTTTGGT
1 AAAACGCCGCTAAAAACCGGAGCATTAGCGGCGCTTTTGGT
* *
69061950 AAAACGCCGCTAAAAACTGGAGCATTAGCGGCGCTTTCGGT
1 AAAACGCCGCTAAAAACCGGAGCATTAGCGGCGCTTTTGGT
69061991 AAAACGCCGCTAAAA
1 AAAACGCCGCTAAAA
69062006 GTCATATAAC
Statistics
Matches: 203, Mismatches: 15, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
40 21 0.10
41 182 0.90
ACGTcount: A:0.33, C:0.22, G:0.25, T:0.20
Consensus pattern (41 bp):
AAAACGCCGCTAAAAACCGGAGCATTAGCGGCGCTTTTGGT
Found at i:69062071 original size:22 final size:23
Alignment explanation
Indices: 69062046--69062093 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
69062036 AAAAAATCAT
*
69062046 AAACACT-AA-TCTATAATCCTTA
1 AAACACTAAACTCT-TAAACCTTA
69062068 AAACACTAAACTCTTAAACCTTA
1 AAACACTAAACTCTTAAACCTTA
69062091 AAA
1 AAA
69062094 AAACTTAACC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 7 0.30
23 13 0.57
24 3 0.13
ACGTcount: A:0.50, C:0.23, G:0.00, T:0.27
Consensus pattern (23 bp):
AAACACTAAACTCTTAAACCTTA
Found at i:69062118 original size:14 final size:13
Alignment explanation
Indices: 69062094--69062123 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
69062084 AACCTTAAAA
69062094 AAACTTAACCCCT
1 AAACTTAACCCCT
69062107 AAACTATAACCCCT
1 AAACT-TAACCCCT
69062121 AAA
1 AAA
69062124 ATACTAAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.47, C:0.33, G:0.00, T:0.20
Consensus pattern (13 bp):
AAACTTAACCCCT
Found at i:69062697 original size:280 final size:281
Alignment explanation
Indices: 69062167--69062814 Score: 662
Period size: 280 Copynumber: 2.3 Consensus size: 281
69062157 GATGTACATC
* * *
69062167 ATATGTTAAATATTTTCTTATATAATTATAAAAGAGATAGTATTAATTTTAAAATATTAAATTAA
1 ATATGATAAATATTTTCTTATATAATTGTAAAAGAGATAATATTAATTTTAAAATATT-AA-TAA
** * *
69062232 TTATCATTATAGTTTAAGGTTTATGATTTAGGGCATATGGTTAACGGTTTAAGGTTTACGAGTTA
64 TTATCATTATAGTTTAAGGTTTACAATTTAAGGCATATGATTAACGGTTTAAGGTTTACGAGTTA
* **
69062297 CTATTTTAAGTTTTATGGATTATGGGTTTAGGGATTATGTTTAAGGGTTAGGGGTCTAGGATTAA
129 CTATTTTAAGGTTTATGGATTATGGGTTTAGGGATTAAATTTAAGGGTTAGGGGTCTAGGATTAA
* * * * *
69062362 GAGTTTATATTTTAGGATTTAGGATTTAGGGTCTAGAGATTAAAGATTAAGAGTTTAGGG-TT-T
194 GAGGTTATAGTTCAGGATTAAGGATTTAGAGTCTAGAGATT----ATTAAGAGTTTAGGGATTAT
69062425 AG-TT-AATT-A-A-TGTTTTTAATTT
255 AGTTTAAATTAATAGTGTTTTTAATTT
* *
69062447 ATATGATAAATATTTTCTTATATAATTGTAAAAAAGATAATATTAATTTAAAAATATTGAATCAA
1 ATATGATAAATATTTTCTTATATAATTGTAAAAGAGATAATATTAATTTTAAAATATT-AAT-AA
* * * * *
69062512 TTAATCATTATAGTTTAGGGTTTACAATTTAAGGTA-ATGATTGAGGGTTTAAGGTTTATGAGTT
64 TT-ATCATTATAGTTTAAGGTTTACAATTTAAGGCATATGATTAACGGTTTAAGGTTTACGAGTT
*
69062576 ACTATTTTAAGGTTTATGTATTAT-GGTTTAAGGGTTGAGGTTTAAAATTTAAGGGTTAGGGGT-
128 ACTATTTTAAGGTTTATGGATTATGGGTTT-A-GG--GA---TT-AAATTTAAGGGTTAGGGGTC
* * * * * * *
69062639 TAGGGGTTACG-GGTTATGAGTTCAGGGTTAATGATTTATATTTTAGA-ATT-TT-AGAGTTTAG
185 TA-GGATTAAGAGGTTAT-AGTTCAGGATTAAGGATTTAGAGTCTAGAGATTATTAAGAGTTTAG
*
69062700 GGATTAATGGTTTAAATTAATTAGTGTTTTTAATTT
248 GGATT-ATAGTTTAAATTAA-TAGTGTTTTTAATTT
* * * *
69062736 ATAT-ATTAAATAATTTCTTATATGATTGTAAAAGAGATAATTTTAATTTTAATATATTAA-AAT
1 ATATGA-TAAATATTTTCTTATATAATTGTAAAAGAGATAATATTAATTTTAAAATATTAATAAT
*
69062799 TATGATTATAGTTTAA
65 TATCATTATAGTTTAA
69062815 ATTATTTAAG
Statistics
Matches: 306, Mismatches: 40, Indels: 39
0.79 0.10 0.10
Matches are distributed among these distances:
279 6 0.02
280 117 0.38
281 34 0.11
283 4 0.01
284 2 0.01
285 17 0.06
286 17 0.06
287 43 0.14
288 4 0.01
289 62 0.20
ACGTcount: A:0.34, C:0.02, G:0.19, T:0.44
Consensus pattern (281 bp):
ATATGATAAATATTTTCTTATATAATTGTAAAAGAGATAATATTAATTTTAAAATATTAATAATT
ATCATTATAGTTTAAGGTTTACAATTTAAGGCATATGATTAACGGTTTAAGGTTTACGAGTTACT
ATTTTAAGGTTTATGGATTATGGGTTTAGGGATTAAATTTAAGGGTTAGGGGTCTAGGATTAAGA
GGTTATAGTTCAGGATTAAGGATTTAGAGTCTAGAGATTATTAAGAGTTTAGGGATTATAGTTTA
AATTAATAGTGTTTTTAATTT
Found at i:69063038 original size:19 final size:19
Alignment explanation
Indices: 69063016--69063055 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
69063006 CATTGATAAC
*
69063016 AAATAAAAATGAAATACAA
1 AAATAAAAATAAAATACAA
*
69063035 AAATAAAAATAAAATATAA
1 AAATAAAAATAAAATACAA
69063054 AA
1 AA
69063056 TAGAGATTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.78, C:0.03, G:0.03, T:0.17
Consensus pattern (19 bp):
AAATAAAAATAAAATACAA
Found at i:69067917 original size:43 final size:43
Alignment explanation
Indices: 69067868--69068010 Score: 191
Period size: 43 Copynumber: 3.3 Consensus size: 43
69067858 AATTTCATGC
* * *
69067868 TTTTAGCGGCGTTTTTGAGAAAAGCGCCGCTGAAGGTCGTGAT
1 TTTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCATGAT
* * * *
69067911 CTTTAGCGGCGTTTGT-AGGAAACGCGTCGCTAAAGGTCATAAT
1 TTTTAGCGGCGTTTGTGA-GAAAAGCGCCGCTAAAGGTCATGAT
69067954 TTTTAGCGGCGTTTGTG-GAAAAAGCGCCGCTAAAGGTCATGAT
1 TTTTAGCGGCGTTTGTGAG-AAAAGCGCCGCTAAAGGTCATGAT
69067997 TTTTAGCGGCGTTT
1 TTTTAGCGGCGTTT
69068011 TTTCAAATAA
Statistics
Matches: 86, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
42 2 0.02
43 84 0.98
ACGTcount: A:0.22, C:0.17, G:0.30, T:0.31
Consensus pattern (43 bp):
TTTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCATGAT
Found at i:69070023 original size:20 final size:20
Alignment explanation
Indices: 69069995--69070032 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
69069985 TTAAGTAAAA
69069995 TTTTCGGCCTCAAAAACAGG
1 TTTTCGGCCTCAAAAACAGG
* *
69070015 TTTTGGGCCTCAATAACA
1 TTTTCGGCCTCAAAAACA
69070033 TACCACATGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (20 bp):
TTTTCGGCCTCAAAAACAGG
Found at i:69072186 original size:21 final size:20
Alignment explanation
Indices: 69072154--69072201 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
69072144 TTAAAACATA
* *
69072154 AAAACATAAAAACA-AATATT
1 AAAACA-AAAAAAATAATACT
69072174 AAAACAAATAAAAATAATACT
1 AAAACAAA-AAAAATAATACT
69072195 AAAACAA
1 AAAACAA
69072202 TTCTTAAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 10 0.42
21 12 0.50
ACGTcount: A:0.73, C:0.10, G:0.00, T:0.17
Consensus pattern (20 bp):
AAAACAAAAAAAATAATACT
Found at i:69072187 original size:22 final size:21
Alignment explanation
Indices: 69072159--69072201 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
69072149 ACATAAAAAC
*
69072159 ATAAAAACAAATATTAAAACAA
1 ATAAAAA-AAATACTAAAACAA
*
69072181 ATAAAAATAATACTAAAACAA
1 ATAAAAAAAATACTAAAACAA
69072202 TTCTTAAAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.72, C:0.09, G:0.00, T:0.19
Consensus pattern (21 bp):
ATAAAAAAAATACTAAAACAA
Found at i:69078796 original size:27 final size:27
Alignment explanation
Indices: 69078759--69078963 Score: 223
Period size: 27 Copynumber: 7.6 Consensus size: 27
69078749 TAAATTGTAC
*
69078759 AGCACTAAGTGTGCGATTTGGCTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
69078786 AGCACTAAGTGTGCGATTTGACCATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** **
69078813 TGCACTAAGTGTGCGAAATGAAAATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
69078839 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
* *
69078867 GGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
69078894 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* * * *
69078922 GGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
69078949 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
69078964 GACTTAATAT
Statistics
Matches: 152, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
27 128 0.84
28 24 0.16
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:69078820 original size:54 final size:54
Alignment explanation
Indices: 69078760--69078963 Score: 257
Period size: 54 Copynumber: 3.8 Consensus size: 54
69078750 AAATTGTACA
* * *
69078760 GCACTAAGTGTGCGATTTGGCTATGTAGCACTAAGTGTGCGATTTGACCATGTT
1 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGATTTGACCATGTG
** ** * *
69078814 GCACTAAGTGTGCGAAATGAAAATG-ATGCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAGTTGACTATGTA-GCACTAAGTGTGCGATTTGACCATGTG
**
69078868 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGTG
1 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGA-TTTGACCATGTG
* * *
69078923 GCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
69078964 GACTTAATAT
Statistics
Matches: 128, Mismatches: 19, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
53 1 0.01
54 80 0.62
55 47 0.37
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.29
Consensus pattern (54 bp):
GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGATTTGACCATGTG
Found at i:69086941 original size:27 final size:27
Alignment explanation
Indices: 69086904--69087108 Score: 223
Period size: 27 Copynumber: 7.6 Consensus size: 27
69086894 TAAATTGTAC
*
69086904 AGCACTAAGTGTGCGATTTGGCTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
69086931 AGCACTAAGTGTGCGATTTGACCATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** **
69086958 TGCACTAAGTGTGCGAAATGAAAATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
69086984 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
* *
69087012 GGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
69087039 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* * * *
69087067 GGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
69087094 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
69087109 GACTTAATAT
Statistics
Matches: 152, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
27 128 0.84
28 24 0.16
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:69086965 original size:54 final size:54
Alignment explanation
Indices: 69086905--69087108 Score: 257
Period size: 54 Copynumber: 3.8 Consensus size: 54
69086895 AAATTGTACA
* * *
69086905 GCACTAAGTGTGCGATTTGGCTATGTAGCACTAAGTGTGCGATTTGACCATGTT
1 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGATTTGACCATGTG
** ** * *
69086959 GCACTAAGTGTGCGAAATGAAAATG-ATGCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAGTTGACTATGTA-GCACTAAGTGTGCGATTTGACCATGTG
**
69087013 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGTG
1 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGA-TTTGACCATGTG
* * *
69087068 GCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
69087109 GACTTAATAT
Statistics
Matches: 128, Mismatches: 19, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
53 1 0.01
54 80 0.62
55 47 0.37
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.29
Consensus pattern (54 bp):
GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGATTTGACCATGTG
Found at i:69100456 original size:40 final size:40
Alignment explanation
Indices: 69100335--69100777 Score: 401
Period size: 40 Copynumber: 10.9 Consensus size: 40
69100325 GTTTAATGCA
* * * * *
69100335 AAAAACTAAACAATAGTGGCATTTTTGGCCAAAACGCCACT
1 AAAAACTGATCAATAGCGGCGTTTTTCGCC-AAACGCCACT
* * *
69100376 AAAAACTGATCAATAGCGACGGTTTTAGCCAAAACGCCACT
1 AAAAACTGATCAATAGCGGCGTTTTTCGCC-AAACGCCACT
* * *
69100417 AAAAATTGATCAATAGCGGCGTTTTTCGCCAAGCACCACT
1 AAAAACTGATCAATAGCGGCGTTTTTCGCCAAACGCCACT
* * *
69100457 AAAAACTGATCAATAGTGGCATTTTTGGCCAAACGCCACT
1 AAAAACTGATCAATAGCGGCGTTTTTCGCCAAACGCCACT
* *
69100497 AAAAACTGATCAATAGCGGCGTTTTTTGCCCAAGCGCCACT
1 AAAAACTGATCAATAGCGGCGTTTTTCG-CCAAACGCCACT
* * * * ** *
69100538 AAAAACTAATTAATAACGGTGCTTTTAT-TTCAAACACCACT
1 AAAAACTGATCAATAGCGGCG-TTTT-TCGCCAAACGCCACT
* * * *
69100579 AAAAACTTG-TGAATAGCTGCATTTTTGGCCAAACGCCACT
1 AAAAAC-TGATCAATAGCGGCGTTTTTCGCCAAACGCCACT
* * * * *
69100619 AAAAAATGAACAATAGCGGCGTTTTATC-TCAAACACCATT
1 AAAAACTGATCAATAGCGGCGTTTT-TCGCCAAACGCCACT
* * *
69100659 AAAAAGTTATCAATAGCGGCGTTTTTATC-CCAAATGCCACT
1 AAAAACTGATCAATAGCGGCG-TTTT-TCGCCAAACGCCACT
*
69100700 AAAAACTGATCAATAGCGGCGTTTTATC-TCAAACGCCACT
1 AAAAACTGATCAATAGCGGCGTTTT-TCGCCAAACGCCACT
* * *
69100740 AAAAACTTATGAATAGCGGCGTTTTTGGTCCAAACGCC
1 AAAAACTGATCAATAGCGGCGTTTTTCG-CCAAACGCC
69100778 GTAAAAAGTT
Statistics
Matches: 328, Mismatches: 64, Indels: 20
0.80 0.16 0.05
Matches are distributed among these distances:
39 4 0.01
40 165 0.50
41 153 0.47
42 5 0.02
43 1 0.00
ACGTcount: A:0.36, C:0.23, G:0.16, T:0.26
Consensus pattern (40 bp):
AAAAACTGATCAATAGCGGCGTTTTTCGCCAAACGCCACT
Found at i:69100472 original size:81 final size:80
Alignment explanation
Indices: 69100345--69100777 Score: 439
Period size: 81 Copynumber: 5.3 Consensus size: 80
69100335 AAAAACTAAA
* * * * *
69100345 CAATAGTGGCATTTTTGGCCAAAACGCCACTAAAAACTGATCAATAGCGACGGTTTTAGCCAAAA
1 CAATAGCGGCGTTTTTCGCC-AAACGCCACTAAAAACTGATCAATAGCGGC-GTTTTATCC-AAA
69100410 CGCCACTAAAAA-TTGAT
63 CGCCACTAAAAACTTGAT
* * * *
69100427 CAATAGCGGCGTTTTTCGCCAAGCACCACTAAAAACTGATCAATAGTGGCATTTT-TGGCCAAAC
1 CAATAGCGGCGTTTTTCGCCAAACGCCACTAAAAACTGATCAATAGCGGCGTTTTAT--CCAAAC
69100491 GCCACTAAAAAC-TGAT
64 GCCACTAAAAACTTGAT
* * * * * * *
69100507 CAATAGCGGCGTTTTTTGCCCAAGCGCCACTAAAAACTAATTAATAACGGTGCTTTTATTTCAAA
1 CAATAGCGGCGTTTTTCG-CCAAACGCCACTAAAAACTGATCAATAGCGGCG-TTTTA-TCCAAA
*
69100572 CACCACTAAAAACTTG-T
63 CGCCACTAAAAACTTGAT
* * * * * * *
69100589 GAATAGCTGCATTTTTGGCCAAACGCCACTAAAAAATGAACAATAGCGGCGTTTTATCTCAAACA
1 CAATAGCGGCGTTTTTCGCCAAACGCCACTAAAAACTGATCAATAGCGGCGTTTTATC-CAAACG
* *
69100654 CCATTAAAAAGTT-AT
65 CCACTAAAAACTTGAT
*
69100669 CAATAGCGGCGTTTTTATC-CCAAATGCCACTAAAAACTGATCAATAGCGGCGTTTTATCTCAAA
1 CAATAGCGGCG-TTTT-TCGCCAAACGCCACTAAAAACTGATCAATAGCGGCGTTTTATC-CAAA
69100733 CGCCACTAAAAACTT-AT
63 CGCCACTAAAAACTTGAT
* *
69100750 GAATAGCGGCGTTTTTGGTCCAAACGCC
1 CAATAGCGGCGTTTTTCG-CCAAACGCC
69100778 GTAAAAAGTT
Statistics
Matches: 291, Mismatches: 46, Indels: 29
0.80 0.13 0.08
Matches are distributed among these distances:
79 2 0.01
80 75 0.26
81 158 0.54
82 53 0.18
83 2 0.01
84 1 0.00
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.26
Consensus pattern (80 bp):
CAATAGCGGCGTTTTTCGCCAAACGCCACTAAAAACTGATCAATAGCGGCGTTTTATCCAAACGC
CACTAAAAACTTGAT
Found at i:69100783 original size:121 final size:119
Alignment explanation
Indices: 69100335--69100787 Score: 452
Period size: 121 Copynumber: 3.7 Consensus size: 119
69100325 GTTTAATGCA
* * * *
69100335 AAAAACTAAACAATAGTGGCATTTTTGGCCAAAACGCCACTAAAAACTGATCAATAGCGACGGTT
1 AAAAACTGATCAATAGCGGCATTTTT-GCC-AAACGCCACTAAAAACTGATCAATAGCGGC-GTT
* *
69100400 TTAG-CCAAAACGCCACTAAAAA-TTGATCAATAGCGGCGTTTT-TCGCCAAGCACCACT
63 TTTGTCC-AAACGCCACTAAAAAGTT-ATCAATAGCGGCGTTTTATC-CCAAACACCACT
*
69100457 AAAAACTGATCAATAGTGGCATTTTTGGCCAAACGCCACTAAAAACTGATCAATAGCGGCGTTTT
1 AAAAACTGATCAATAGCGGCATTTTT-GCCAAACGCCACTAAAAACTGATCAATAGCGGCG-TTT
* * * * * * * **
69100522 TTGCCCAAGCGCCACTAAAAACTAATTAATAACGGTGCTTTTATTTCAAACACCACT
64 TTGTCCAAACGCCACTAAAAAGTTATCAATAGCGGCG-TTTTATCCCAAACACCACT
* * * *
69100579 AAAAACTTG-TGAATAGCTGCATTTTTGGCCAAACGCCACTAAAAAATGAACAATAGCGGCG-TT
1 AAAAAC-TGATCAATAGCGGCATTTTT-GCCAAACGCCACTAAAAACTGATCAATAGCGGCGTTT
* * * **
69100642 TTATCTCAAACACCATTAAAAAGTTATCAATAGCGGCGTTTTTATCCCAAATGCCACT
64 TTGTC-CAAACGCCACTAAAAAGTTATCAATAGCGGCG-TTTTATCCCAAACACCACT
* * *
69100700 AAAAACTGATCAATAGCGGCGTTTTAT-CTCAAACGCCACTAAAAACTTATGAATAGCGGCGTTT
1 AAAAACTGATCAATAGCGGCATTTT-TGC-CAAACGCCACTAAAAACTGATCAATAGCGGCGTTT
*
69100764 TTGGTCCAAACGCC-GTAAAAAGTT
64 TT-GTCCAAACGCCACTAAAAAGTT
69100788 GAGCAGCCAT
Statistics
Matches: 277, Mismatches: 42, Indels: 25
0.81 0.12 0.07
Matches are distributed among these distances:
120 9 0.03
121 153 0.55
122 110 0.40
123 5 0.02
ACGTcount: A:0.36, C:0.22, G:0.16, T:0.26
Consensus pattern (119 bp):
AAAAACTGATCAATAGCGGCATTTTTGCCAAACGCCACTAAAAACTGATCAATAGCGGCGTTTTT
GTCCAAACGCCACTAAAAAGTTATCAATAGCGGCGTTTTATCCCAAACACCACT
Found at i:69100784 original size:40 final size:40
Alignment explanation
Indices: 69100335--69100777 Score: 412
Period size: 41 Copynumber: 10.9 Consensus size: 40
69100325 GTTTAATGCA
* * * *
69100335 AAAAACTAAACAATAGTGGCATTTTTGGCCAAAACGCCACT
1 AAAAACTGATCAATAGCGGCGTTTTTGGCC-AAACGCCACT
* * *
69100376 AAAAACTGATCAATAGCGACGGTTTTAGCCAAAACGCCACT
1 AAAAACTGATCAATAGCGGCGTTTTTGGCC-AAACGCCACT
* * * *
69100417 AAAAATTGATCAATAGCGGCGTTTTTCGCCAAGCACCACT
1 AAAAACTGATCAATAGCGGCGTTTTTGGCCAAACGCCACT
* *
69100457 AAAAACTGATCAATAGTGGCATTTTTGGCCAAACGCCACT
1 AAAAACTGATCAATAGCGGCGTTTTTGGCCAAACGCCACT
* *
69100497 AAAAACTGATCAATAGCGGCGTTTTTTGCCCAAGCGCCACT
1 AAAAACTGATCAATAGCGGCG-TTTTTGGCCAAACGCCACT
* * * * ** *
69100538 AAAAACTAATTAATAACGGTGCTTTTAT-TTCAAACACCACT
1 AAAAACTGATCAATAGCGGCG-TTTT-TGGCCAAACGCCACT
* * *
69100579 AAAAACTTG-TGAATAGCTGCATTTTTGGCCAAACGCCACT
1 AAAAAC-TGATCAATAGCGGCGTTTTTGGCCAAACGCCACT
* * * *
69100619 AAAAAATGAACAATAGCGGCGTTTTAT--CTCAAACACCATT
1 AAAAACTGATCAATAGCGGCGTTTT-TGGC-CAAACGCCACT
* * ** *
69100659 AAAAAGTTATCAATAGCGGCGTTTTTATCCCAAATGCCACT
1 AAAAACTGATCAATAGCGGCGTTTTT-GGCCAAACGCCACT
69100700 AAAAACTGATCAATAGCGGCGTTTTAT--CTCAAACGCCACT
1 AAAAACTGATCAATAGCGGCGTTTT-TGGC-CAAACGCCACT
* *
69100740 AAAAACTTATGAATAGCGGCGTTTTTGGTCCAAACGCC
1 AAAAACTGATCAATAGCGGCGTTTTTGG-CCAAACGCC
69100778 GTAAAAAGTT
Statistics
Matches: 328, Mismatches: 59, Indels: 30
0.79 0.14 0.07
Matches are distributed among these distances:
39 7 0.02
40 156 0.48
41 160 0.49
42 5 0.02
ACGTcount: A:0.36, C:0.23, G:0.16, T:0.26
Consensus pattern (40 bp):
AAAAACTGATCAATAGCGGCGTTTTTGGCCAAACGCCACT
Found at i:69101096 original size:21 final size:21
Alignment explanation
Indices: 69101072--69101112 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
69101062 TCTGTAAACC
* *
69101072 CTTAAATCTTAAACATTAAAA
1 CTTAAACCCTAAACATTAAAA
*
69101093 CTTAAACCCTAAACCTTAAA
1 CTTAAACCCTAAACATTAAA
69101113 TTTTAAAACA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.29
Consensus pattern (21 bp):
CTTAAACCCTAAACATTAAAA
Found at i:69104716 original size:13 final size:14
Alignment explanation
Indices: 69104700--69104728 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
69104690 TTATAAATAT
69104700 TTATAATG-TTTAA
1 TTATAATGATTTAA
69104713 TTATAATGATTTAA
1 TTATAATGATTTAA
69104727 TT
1 TT
69104729 CGTCATTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (14 bp):
TTATAATGATTTAA
Found at i:69105177 original size:21 final size:21
Alignment explanation
Indices: 69105153--69105201 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
69105143 AGGAGATAGG
69105153 GAGGCAGCGACAGCAGCGAGA
1 GAGGCAGCGACAGCAGCGAGA
* * * *
69105174 GAGGTAGCGACAGTAGTGAGG
1 GAGGCAGCGACAGCAGCGAGA
69105195 GAGGCAG
1 GAGGCAG
69105202 AGGAGAGAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.31, C:0.16, G:0.47, T:0.06
Consensus pattern (21 bp):
GAGGCAGCGACAGCAGCGAGA
Found at i:69105486 original size:31 final size:32
Alignment explanation
Indices: 69105424--69105499 Score: 91
Period size: 31 Copynumber: 2.4 Consensus size: 32
69105414 TTAGAATTAA
* *
69105424 TGTTTTTGGTTGTATTTTTTATGCTAAATTTGC
1 TGTTTTTGGTTGCA-TTTTCATGCTAAATTTGC
* *
69105457 TGTTTTTGGTTGCA-TTTCATGCTATATTTGT
1 TGTTTTTGGTTGCATTTTCATGCTAAATTTGC
*
69105488 TGATTTTGGTTG
1 TGTTTTTGGTTG
69105500 GATTCAAGGC
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
31 25 0.66
33 13 0.34
ACGTcount: A:0.13, C:0.07, G:0.21, T:0.59
Consensus pattern (32 bp):
TGTTTTTGGTTGCATTTTCATGCTAAATTTGC
Found at i:69106301 original size:16 final size:16
Alignment explanation
Indices: 69106280--69106310 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
69106270 AATATGAAAT
*
69106280 TTAAATTATTTAATTA
1 TTAAATTATTCAATTA
69106296 TTAAATTATTCAATT
1 TTAAATTATTCAATT
69106311 CAGCCCAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (16 bp):
TTAAATTATTCAATTA
Found at i:69111813 original size:43 final size:43
Alignment explanation
Indices: 69111727--69111834 Score: 125
Period size: 43 Copynumber: 2.5 Consensus size: 43
69111717 ATCAATTTGA
69111727 GATTTACGTGTAA-AACCATGTCTGGGACATCGGCATCGTATTT
1 GATTT-CGTGTAAGAACCATGTCTGGGACATCGGCATCGTATTT
* *
69111770 GATTTCGTGTAAGATCC-TGTCTGGGATAGT-GGCATCGATATTT
1 GATTTCGTGTAAGAACCATGTCTGGGACA-TCGGCATCG-TATTT
* *
69111813 GATTTCATGTAAG-ACCACGTCT
1 GATTTCGTGTAAGAACCATGTCT
69111835 AAGACGTTGG
Statistics
Matches: 56, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
42 26 0.46
43 30 0.54
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.34
Consensus pattern (43 bp):
GATTTCGTGTAAGAACCATGTCTGGGACATCGGCATCGTATTT
Found at i:69112087 original size:47 final size:47
Alignment explanation
Indices: 69112026--69112122 Score: 194
Period size: 47 Copynumber: 2.1 Consensus size: 47
69112016 TATATGTATG
69112026 AATTATCATTAGAATGAGATGTGTTATATGTAAGTGAATTATGATCA
1 AATTATCATTAGAATGAGATGTGTTATATGTAAGTGAATTATGATCA
69112073 AATTATCATTAGAATGAGATGTGTTATATGTAAGTGAATTATGATCA
1 AATTATCATTAGAATGAGATGTGTTATATGTAAGTGAATTATGATCA
69112120 AAT
1 AAT
69112123 AAGCTATATG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 50 1.00
ACGTcount: A:0.39, C:0.04, G:0.19, T:0.38
Consensus pattern (47 bp):
AATTATCATTAGAATGAGATGTGTTATATGTAAGTGAATTATGATCA
Found at i:69121661 original size:21 final size:20
Alignment explanation
Indices: 69121627--69121671 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
69121617 CACTAAGAGT
*
69121627 CAAAAAGAGCCAAAAAAGAAC
1 CAAAAAGAGACAAAAAAG-AC
* *
69121648 CAAAAAGGGACAAAATAGAC
1 CAAAAAGAGACAAAAAAGAC
69121668 CAAA
1 CAAA
69121672 TCGAGAAGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.64, C:0.18, G:0.16, T:0.02
Consensus pattern (20 bp):
CAAAAAGAGACAAAAAAGAC
Found at i:69126405 original size:6 final size:6
Alignment explanation
Indices: 69126390--69126428 Score: 60
Period size: 6 Copynumber: 6.3 Consensus size: 6
69126380 GAAATCTCAA
*
69126390 TTTTATT TTTTAT TTTTAT TTTTAT TTTTAT TTTCAT TT
1 TTTTA-T TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TT
69126429 CAATTTTATT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
6 26 0.84
7 5 0.16
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTAT
Found at i:69126417 original size:18 final size:19
Alignment explanation
Indices: 69126390--69126448 Score: 68
Period size: 18 Copynumber: 3.2 Consensus size: 19
69126380 GAAATCTCAA
*
69126390 TTTTATTTTTTATTTTTAT
1 TTTTATTTTTTATTTTCAT
69126409 TTTTA-TTTTTATTTTCAT
1 TTTTATTTTTTATTTTCAT
**
69126427 TTCAATTTTATTATTTTC-T
1 TTTTATTTT-TTATTTTCAT
69126446 TTT
1 TTT
69126449 GAAAGACATA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
18 15 0.44
19 11 0.32
20 8 0.24
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.78
Consensus pattern (19 bp):
TTTTATTTTTTATTTTCAT
Found at i:69139913 original size:40 final size:40
Alignment explanation
Indices: 69139868--69139947 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
69139858 CACTACTGAA
*
69139868 GTTAATCCTAATCTATTTAGTCAAGATTTCAACCTTAATT
1 GTTAATCCTAATCTATTTAGTCAAGATTTAAACCTTAATT
69139908 GTTAATCCTAATCTATTTAGTCAAGATTTAAACCTTAATT
1 GTTAATCCTAATCTATTTAGTCAAGATTTAAACCTTAATT
69139948 TTCTCTTCCA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.34, C:0.16, G:0.07, T:0.42
Consensus pattern (40 bp):
GTTAATCCTAATCTATTTAGTCAAGATTTAAACCTTAATT
Found at i:69149121 original size:28 final size:28
Alignment explanation
Indices: 69149090--69149161 Score: 126
Period size: 28 Copynumber: 2.6 Consensus size: 28
69149080 TCGATATTTT
69149090 GCACACTAAGTGCCATTCTCAATATCTC
1 GCACACTAAGTGCCATTCTCAATATCTC
*
69149118 GCACACTAAGTGCCATTCTCAATATTTC
1 GCACACTAAGTGCCATTCTCAATATCTC
*
69149146 CCACACTAAGTGCCAT
1 GCACACTAAGTGCCAT
69149162 ATTTGATGTC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.29, C:0.32, G:0.11, T:0.28
Consensus pattern (28 bp):
GCACACTAAGTGCCATTCTCAATATCTC
Found at i:69149264 original size:40 final size:40
Alignment explanation
Indices: 69149193--69149279 Score: 104
Period size: 40 Copynumber: 2.2 Consensus size: 40
69149183 GTAATGTACA
* *
69149193 TAGCCGAAGCTATCTCAAATCGCATACTAAGTGCCAAAGT
1 TAGCCGAAGCTATCTCAAACCGCACACTAAGTGCCAAAGT
* * * *
69149233 TAGCCGAAGCTATAC-CGAACCGCACAGTAAGTGCCATATT
1 TAGCCGAAGCTAT-CTCAAACCGCACACTAAGTGCCAAAGT
69149273 TAGCCGA
1 TAGCCGA
69149280 TATGTCATCA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
40 39 0.98
41 1 0.03
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.21
Consensus pattern (40 bp):
TAGCCGAAGCTATCTCAAACCGCACACTAAGTGCCAAAGT
Found at i:69161206 original size:5 final size:5
Alignment explanation
Indices: 69161180--69161243 Score: 58
Period size: 5 Copynumber: 12.2 Consensus size: 5
69161170 AATATAAAGG
*
69161180 AAAAT AAATT AATAAGT AAAAT AAAAT AAAAT AAAAT -AAAT AAAACT
1 AAAAT AAAAT AA-AA-T AAAAT AAAAT AAAAT AAAAT AAAAT AAAA-T
* *
69161227 AAAGT AATAAA AAAAT A
1 AAAAT AA-AAT AAAAT A
69161244 TGAAACAAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
4 4 0.08
5 31 0.65
6 10 0.21
7 3 0.06
ACGTcount: A:0.73, C:0.02, G:0.03, T:0.22
Consensus pattern (5 bp):
AAAAT
Found at i:69161220 original size:14 final size:15
Alignment explanation
Indices: 69161180--69161238 Score: 59
Period size: 14 Copynumber: 3.9 Consensus size: 15
69161170 AATATAAAGG
*
69161180 AAAATAAATTAATAAGT
1 AAAATAAA-TAA-AACT
69161197 AAAATAAAATAAAA-T
1 AAAAT-AAATAAAACT
69161212 AAAATAAATAAAACT
1 AAAATAAATAAAACT
*
69161227 AAAGT-AATAAAA
1 AAAATAAATAAAA
69161239 AAATATGAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
14 15 0.38
15 11 0.28
16 2 0.05
17 8 0.21
18 3 0.08
ACGTcount: A:0.73, C:0.02, G:0.03, T:0.22
Consensus pattern (15 bp):
AAAATAAATAAAACT
Found at i:69163910 original size:43 final size:41
Alignment explanation
Indices: 69163863--69164012 Score: 135
Period size: 43 Copynumber: 3.5 Consensus size: 41
69163853 ATATATGGTT
*
69163863 TTACATGTTATCACATATCGATGCCACTGTCCCAGACAGGGTC
1 TTACATGTAATCACATATCGATGCCA-TGTCCCAGACA-GGTC
* * *
69163906 TTACATGAAATTA-ATTAAT-GATGCCAAAGTCCCAGACAGGTC
1 TTACATGTAATCACA-T-ATCGATGCC-ATGTCCCAGACAGGTC
** *
69163948 TTACACATAATCACA-ATACAATGCCGATGTCCCAGACATGGTC
1 TTACATGTAATCACATAT-CGATGCC-ATGTCCCAGACA-GGTC
*
69163991 TTACATGTAATCACATCTCGAT
1 TTACATGTAATCACATATCGAT
69164013 AACTTAATGT
Statistics
Matches: 84, Mismatches: 15, Indels: 16
0.73 0.13 0.14
Matches are distributed among these distances:
40 2 0.02
42 30 0.36
43 48 0.57
44 4 0.05
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.27
Consensus pattern (41 bp):
TTACATGTAATCACATATCGATGCCATGTCCCAGACAGGTC
Found at i:69166221 original size:27 final size:29
Alignment explanation
Indices: 69166174--69166229 Score: 82
Period size: 28 Copynumber: 2.0 Consensus size: 29
69166164 ACAACTAATT
69166174 AGAACTGAAAAGAAATCTG-AAAACTAAA
1 AGAACTGAAAAGAAATCTGAAAAACTAAA
69166202 AGAA-TGAAGAAGAAAT-TGAAAAACTAAA
1 AGAACTGAA-AAGAAATCTGAAAAACTAAA
69166230 TTACAGGAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
27 6 0.23
28 20 0.77
ACGTcount: A:0.62, C:0.07, G:0.16, T:0.14
Consensus pattern (29 bp):
AGAACTGAAAAGAAATCTGAAAAACTAAA
Found at i:69168504 original size:33 final size:33
Alignment explanation
Indices: 69168467--69168542 Score: 134
Period size: 33 Copynumber: 2.3 Consensus size: 33
69168457 AACCAGCAAG
69168467 CTTAAACATCATTTTTAAATATTAAAAATATTT
1 CTTAAACATCATTTTTAAATATTAAAAATATTT
69168500 CTTAAACATCATTTTTAAATATTAAAAATATTT
1 CTTAAACATCATTTTTAAATATTAAAAATATTT
*
69168533 ATTAACACAT
1 CTTAA-ACAT
69168543 AGTTTTATAG
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
33 37 0.90
34 4 0.10
ACGTcount: A:0.46, C:0.11, G:0.00, T:0.43
Consensus pattern (33 bp):
CTTAAACATCATTTTTAAATATTAAAAATATTT
Found at i:69181896 original size:11 final size:10
Alignment explanation
Indices: 69181864--69181900 Score: 58
Period size: 10 Copynumber: 3.7 Consensus size: 10
69181854 CATGAGATTT
69181864 TGATAT-ACA
1 TGATATGACA
69181873 TGATATGACA
1 TGATATGACA
69181883 TGATATGCACA
1 TGATATG-ACA
69181894 TGATATG
1 TGATATG
69181901 TTATGAGGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 6 0.23
10 10 0.38
11 10 0.38
ACGTcount: A:0.38, C:0.11, G:0.19, T:0.32
Consensus pattern (10 bp):
TGATATGACA
Found at i:69181896 original size:21 final size:21
Alignment explanation
Indices: 69181870--69181920 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
69181860 ATTTTGATAT
*
69181870 ACATGATATGACATGATATGC
1 ACATGATATGACATGAGATGC
** *
69181891 ACATGATATGTTATGAGGTGC
1 ACATGATATGACATGAGATGC
69181912 ACATGATAT
1 ACATGATAT
69181921 ACTCATTATT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.35, C:0.12, G:0.22, T:0.31
Consensus pattern (21 bp):
ACATGATATGACATGAGATGC
Found at i:69182273 original size:30 final size:30
Alignment explanation
Indices: 69182206--69182285 Score: 108
Period size: 31 Copynumber: 2.6 Consensus size: 30
69182196 CGCTTACAGT
* *
69182206 AAAGGCTTCAGCCCAATGATTTGAATTTTGA
1 AAAGGCTTCAGCCCAGTG-TTTGAATTATGA
*
69182237 AAAGGCTTCGGCCCAGTGTTATGAATTATG-
1 AAAGGCTTCAGCCCAGTGTT-TGAATTATGA
69182267 AAAGGCTTCAGCCCAGTGT
1 AAAGGCTTCAGCCCAGTGT
69182286 ATGTTGATAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
30 20 0.45
31 24 0.55
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.29
Consensus pattern (30 bp):
AAAGGCTTCAGCCCAGTGTTTGAATTATGA
Found at i:69185705 original size:16 final size:16
Alignment explanation
Indices: 69185680--69185711 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
69185670 CTCTTAAAAG
*
69185680 CCTTATTTTCTTCTTT
1 CCTTAATTTCTTCTTT
69185696 CCTTAATTTCTTCTTT
1 CCTTAATTTCTTCTTT
69185712 GGCTGAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.09, C:0.25, G:0.00, T:0.66
Consensus pattern (16 bp):
CCTTAATTTCTTCTTT
Found at i:69187342 original size:27 final size:27
Alignment explanation
Indices: 69187301--69187396 Score: 147
Period size: 27 Copynumber: 3.5 Consensus size: 27
69187291 GATTCTCTAT
* *
69187301 TGGGCTTAGGTCCACCTGATTCTATTAA
1 TGGGCTAAGG-CCACCTGATTCTGTTAA
*
69187329 TAGGCTAAGGCCACCTGATTCTGTTAA
1 TGGGCTAAGGCCACCTGATTCTGTTAA
*
69187356 TGGGCTAAGGCCACCTAATTCTGTTAA
1 TGGGCTAAGGCCACCTGATTCTGTTAA
69187383 TGGGCTAAGGCCAC
1 TGGGCTAAGGCCAC
69187397 TGGTACTATT
Statistics
Matches: 63, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
27 55 0.87
28 8 0.13
ACGTcount: A:0.24, C:0.23, G:0.24, T:0.29
Consensus pattern (27 bp):
TGGGCTAAGGCCACCTGATTCTGTTAA
Found at i:69192328 original size:26 final size:26
Alignment explanation
Indices: 69192299--69192382 Score: 78
Period size: 27 Copynumber: 3.2 Consensus size: 26
69192289 CATCTAATAC
69192299 TGATTCTGTATTGGGCTTAGCCCACT
1 TGATTCTGTATTGGGCTTAGCCCACT
* * * * *
69192325 TGATTTTTTATTAGGTTTAGGCCCACC
1 TGATTCTGTATTGGGCTTA-GCCCACT
* * *
69192352 TGATTCTGTTAATGGGCTAAGGCCACT
1 TGATTCTG-TATTGGGCTTAGCCCACT
69192379 TGAT
1 TGAT
69192383 ACTATTTCTG
Statistics
Matches: 43, Mismatches: 13, Indels: 3
0.73 0.22 0.05
Matches are distributed among these distances:
26 15 0.35
27 21 0.49
28 7 0.16
ACGTcount: A:0.19, C:0.19, G:0.23, T:0.39
Consensus pattern (26 bp):
TGATTCTGTATTGGGCTTAGCCCACT
Found at i:69207775 original size:3 final size:3
Alignment explanation
Indices: 69207767--69207804 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
69207757 AAATTGGATG
69207767 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
69207805 TCTTAGGTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:69208774 original size:6 final size:7
Alignment explanation
Indices: 69208757--69208782 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
69208747 TAGGATTTAT
69208757 TTTTTTC
1 TTTTTTC
69208764 TTTTTTC
1 TTTTTTC
69208771 TTTTTTC
1 TTTTTTC
69208778 TTTTT
1 TTTTT
69208783 GGGTAGGGGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTTC
Done.