Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 114 of 325
Found at i:34078613 original size:120 final size:119
Alignment explanation
Indices: 34078400--34078645 Score: 341
Period size: 120 Copynumber: 2.1 Consensus size: 119
34078390 ATTGAATGAT
* * *
34078400 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAAT
1 ATCCGGGCTAAGACCCGAAGACATTTATGCAAGTAATTATATCCGGGCTAAGACCCGAAGGCAAT
* *
34078465 TGTGCTAGTGACTACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAA
66 TGTGCAAGTGACTA-ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGGTTAA
* * * * *
34078520 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCATTCTATCCGGGCTAAGACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGACATTTATGCAAGTAATTATATCCGGGCTAAGACCCGAAGGCAAT
* * *
34078585 TGTGCAAGTCGTTCT-ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTAT
66 TGTGCAAGT-G-ACTAATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGGTTAA
34078640 ATCCGG
1 ATCCGG
34078646 TTGTATTCCG
Statistics
Matches: 111, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
120 108 0.97
121 1 0.01
122 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (119 bp):
ATCCGGGCTAAGACCCGAAGACATTTATGCAAGTAATTATATCCGGGCTAAGACCCGAAGGCAAT
TGTGCAAGTGACTAATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGGTTAA
Found at i:34086690 original size:40 final size:40
Alignment explanation
Indices: 34086446--34086692 Score: 300
Period size: 40 Copynumber: 6.2 Consensus size: 40
34086436 CAATTGAATG
* * * * **
34086446 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCGTT
* * * *
34086486 ATAT-CGGGTTAAGACCCGAAGGCAATTGTGCTAG-CGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCG-TT
* * *
34086525 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCGTT
*
34086565 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCGTT
*
34086605 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCGTT
* * * *
34086645 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCGTT
34086685 ATATCCGG
1 ATATCCGG
34086693 TTGTATTCCG
Statistics
Matches: 180, Mismatches: 24, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
39 29 0.16
40 150 0.83
41 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCGTT
Found at i:34089466 original size:18 final size:19
Alignment explanation
Indices: 34089424--34089467 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
34089414 TATAAGGGAC
* *
34089424 ATTTTGAATATGAATGAAT
1 ATTTTTAATATGAACGAAT
*
34089443 ATTTTTAATTTGAACGAA-
1 ATTTTTAATATGAACGAAT
34089461 ATTTTTA
1 ATTTTTA
34089468 TGGCCTGATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 7 0.32
19 15 0.68
ACGTcount: A:0.39, C:0.02, G:0.11, T:0.48
Consensus pattern (19 bp):
ATTTTTAATATGAACGAAT
Found at i:34090199 original size:36 final size:36
Alignment explanation
Indices: 34090159--34090231 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
34090149 ATGTGTTTGA
34090159 TATGTTTGATTAAGTGAATGTGATGAGAAAAGACAT
1 TATGTTTGATTAAGTGAATGTGATGAGAAAAGACAT
34090195 TATGTTTGATTAAGTGAATGTGATGAGAAAAGACAT
1 TATGTTTGATTAAGTGAATGTGATGAGAAAAGACAT
34090231 T
1 T
34090232 CGAAATTCAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.38, C:0.03, G:0.25, T:0.34
Consensus pattern (36 bp):
TATGTTTGATTAAGTGAATGTGATGAGAAAAGACAT
Found at i:34093024 original size:93 final size:93
Alignment explanation
Indices: 34092865--34093035 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
34092855 GGATGGTTGA
*
34092865 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGCCCGAACTCGTTGAGT
34092930 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
34092958 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGACTGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGCCCGAACTCGTTGAGT
34093023 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
34093036 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.20, C:0.22, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:34093038 original size:46 final size:46
Alignment explanation
Indices: 34092869--34093040 Score: 215
Period size: 46 Copynumber: 3.7 Consensus size: 46
34092859 GGTTGAGCAT
* * * *
34092869 CCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGACTGC
* * *
34092915 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGACT--GC
34092960 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGACTGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGACTGC
*
34093008 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
34093041 GGGGCGGGTT
Statistics
Matches: 108, Mismatches: 11, Indels: 14
0.81 0.08 0.11
Matches are distributed among these distances:
43 6 0.06
45 2 0.02
46 60 0.56
47 28 0.26
48 4 0.04
50 8 0.07
ACGTcount: A:0.21, C:0.22, G:0.28, T:0.29
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGACTGC
Found at i:34103580 original size:12 final size:13
Alignment explanation
Indices: 34103544--34103581 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
34103534 AAATATTTGA
34103544 CTTGTTCTTAATT
1 CTTGTTCTTAATT
*
34103557 ATGTGTTCTTAATT
1 CT-TGTTCTTAATT
34103571 CTTG-TCTTAAT
1 CTTGTTCTTAAT
34103582 ATTCCAGGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 7 0.32
13 3 0.14
14 12 0.55
ACGTcount: A:0.18, C:0.13, G:0.11, T:0.58
Consensus pattern (13 bp):
CTTGTTCTTAATT
Found at i:34106560 original size:14 final size:15
Alignment explanation
Indices: 34106528--34106560 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
34106518 ACCATTCTTC
34106528 CTCTTTCTTTTTTCT
1 CTCTTTCTTTTTTCT
34106543 -TCTTT-TTTTTTCT
1 CTCTTTCTTTTTTCT
34106556 CTCTT
1 CTCTT
34106561 CATCAACTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
13 8 0.47
14 9 0.53
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (15 bp):
CTCTTTCTTTTTTCT
Found at i:34107901 original size:27 final size:27
Alignment explanation
Indices: 34107801--34107902 Score: 118
Period size: 27 Copynumber: 3.7 Consensus size: 27
34107791 GGAAGCGTCT
*
34107801 TGGTGGCTATGCCACAATTATCTG-ATC
1 TGGTGGCTCTGCCAC-ATTATCTGTATC
*
34107828 TGGTGGCACTGCCACATATATCTGT-TC
1 TGGTGGCTCTGCCACAT-TATCTGTATC
34107855 TGGTGGCTCTGCCACGATTATCTGTATC
1 TGGTGGCTCTGCCAC-ATTATCTGTATC
* * *
34107883 TGGTGACTCCGTCACATTAT
1 TGGTGGCTCTGCCACATTAT
34107903 TCGTTCTGGC
Statistics
Matches: 65, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
26 2 0.03
27 47 0.72
28 16 0.25
ACGTcount: A:0.19, C:0.25, G:0.23, T:0.34
Consensus pattern (27 bp):
TGGTGGCTCTGCCACATTATCTGTATC
Found at i:34107909 original size:54 final size:54
Alignment explanation
Indices: 34107801--34107911 Score: 136
Period size: 54 Copynumber: 2.1 Consensus size: 54
34107791 GGAAGCGTCT
* *
34107801 TGGTGGCTATGCCACAATTATCTGATCTGGTGGCACTGCCACATATATCTGTTC
1 TGGTGGCTATGCCACAATTATCTGATCTGGTGACACCGCCACATATATCTGTTC
* * * *
34107855 TGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCCGTCACAT-TAT-TCGTTC
1 TGGTGGCTATGCCACAATTATCTG-ATCTGGTGACACCGCCACATATATCT-GTTC
34107909 TGG
1 TGG
34107912 CAGCTATACT
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
53 1 0.02
54 32 0.65
55 16 0.33
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.35
Consensus pattern (54 bp):
TGGTGGCTATGCCACAATTATCTGATCTGGTGACACCGCCACATATATCTGTTC
Found at i:34109716 original size:39 final size:39
Alignment explanation
Indices: 34109662--34109824 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
34109652 TGTGTATGAA
*
34109662 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
34109701 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
34109740 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
34109779 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
34109819 TGTGCG
1 TGTGCG
34109825 GGTTACCATA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:34109840 original size:40 final size:39
Alignment explanation
Indices: 34109662--34109854 Score: 251
Period size: 39 Copynumber: 4.9 Consensus size: 39
34109652 TGTGTATGAA
* *
34109662 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
34109701 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
34109740 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
34109779 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
34109819 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGG
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGG
34109855 TGTTTGAACG
Statistics
Matches: 137, Mismatches: 16, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 97 0.71
40 40 0.29
ACGTcount: A:0.23, C:0.21, G:0.33, T:0.23
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:34126147 original size:69 final size:69
Alignment explanation
Indices: 34126036--34126169 Score: 268
Period size: 69 Copynumber: 1.9 Consensus size: 69
34126026 GTCTACCCGT
34126036 GTGGACAAAATAAAGGCTATTTACCAAGCTATTTTCCACCCTCATTTACATCTATTCATTCACAA
1 GTGGACAAAATAAAGGCTATTTACCAAGCTATTTTCCACCCTCATTTACATCTATTCATTCACAA
34126101 GTGG
66 GTGG
34126105 GTGGACAAAATAAAGGCTATTTACCAAGCTATTTTCCACCCTCATTTACATCTATTCATTCACAA
1 GTGGACAAAATAAAGGCTATTTACCAAGCTATTTTCCACCCTCATTTACATCTATTCATTCACAA
34126170 ATTCAATGGC
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 65 1.00
ACGTcount: A:0.33, C:0.24, G:0.11, T:0.32
Consensus pattern (69 bp):
GTGGACAAAATAAAGGCTATTTACCAAGCTATTTTCCACCCTCATTTACATCTATTCATTCACAA
GTGG
Found at i:34131224 original size:16 final size:16
Alignment explanation
Indices: 34131203--34131260 Score: 53
Period size: 18 Copynumber: 3.4 Consensus size: 16
34131193 TTACTAAGCA
34131203 TTTTATGCATACTTAG
1 TTTTATGCATACTTAG
* * *
34131219 TTTTATAAACTTACTAAG
1 TTTTAT--GCATACTTAG
34131237 CATTTTATGCATACTTAG
1 --TTTTATGCATACTTAG
34131255 TTTTAT
1 TTTTAT
34131261 TTCCTTATTT
Statistics
Matches: 32, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
16 12 0.38
18 14 0.44
20 6 0.19
ACGTcount: A:0.29, C:0.12, G:0.09, T:0.50
Consensus pattern (16 bp):
TTTTATGCATACTTAG
Found at i:34131232 original size:36 final size:36
Alignment explanation
Indices: 34131189--34131260 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
34131179 CATGTTATAC
34131189 AAACTTACTAAGCATTTTATGCATACTTAGTTTTAT
1 AAACTTACTAAGCATTTTATGCATACTTAGTTTTAT
34131225 AAACTTACTAAGCATTTTATGCATACTTAGTTTTAT
1 AAACTTACTAAGCATTTTATGCATACTTAGTTTTAT
34131261 TTCCTTATTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.33, C:0.14, G:0.08, T:0.44
Consensus pattern (36 bp):
AAACTTACTAAGCATTTTATGCATACTTAGTTTTAT
Found at i:34131251 original size:18 final size:18
Alignment explanation
Indices: 34131194--34131251 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 18
34131184 TATACAAACT
34131194 TACTAAGCATTTTATGCA
1 TACTAAGCATTTTATGCA
* * *
34131212 TACTTAG--TTTTATAAACT
1 TACTAAGCATTTTAT--GCA
34131230 TACTAAGCATTTTATGCA
1 TACTAAGCATTTTATGCA
34131248 TACT
1 TACT
34131252 TAGTTTTATT
Statistics
Matches: 30, Mismatches: 6, Indels: 8
0.68 0.14 0.18
Matches are distributed among these distances:
16 6 0.20
18 18 0.60
20 6 0.20
ACGTcount: A:0.33, C:0.16, G:0.09, T:0.43
Consensus pattern (18 bp):
TACTAAGCATTTTATGCA
Found at i:34135882 original size:34 final size:34
Alignment explanation
Indices: 34135811--34135897 Score: 95
Period size: 34 Copynumber: 2.6 Consensus size: 34
34135801 TATACTAAAT
* ** *
34135811 TGGGCTAAGGCCCATACTGATACTGTTAGTGTAA
1 TGGGCTAAGGCCCACACTGATACTGCCACTGTAA
*
34135845 TGGGCTAAGGCCCACACTGATATTGCCACT-TATA
1 TGGGCTAAGGCCCACACTGATACTGCCACTGTA-A
* *
34135879 TGGGCTTAGGCCCAGACTG
1 TGGGCTAAGGCCCACACTG
34135898 CTTTGCACTG
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
33 2 0.04
34 43 0.96
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.26
Consensus pattern (34 bp):
TGGGCTAAGGCCCACACTGATACTGCCACTGTAA
Found at i:34143297 original size:43 final size:43
Alignment explanation
Indices: 34143245--34143328 Score: 159
Period size: 43 Copynumber: 2.0 Consensus size: 43
34143235 CCATTTTCGC
*
34143245 ATACGAGGTAAGTTTAGGTGTAAATGTAGTAACATAATTGTTA
1 ATACGAGGTAAGTTTAGGTATAAATGTAGTAACATAATTGTTA
34143288 ATACGAGGTAAGTTTAGGTATAAATGTAGTAACATAATTGT
1 ATACGAGGTAAGTTTAGGTATAAATGTAGTAACATAATTGT
34143329 CATTTTAAGT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.38, C:0.05, G:0.23, T:0.35
Consensus pattern (43 bp):
ATACGAGGTAAGTTTAGGTATAAATGTAGTAACATAATTGTTA
Found at i:34143621 original size:49 final size:49
Alignment explanation
Indices: 34143522--34143698 Score: 223
Period size: 49 Copynumber: 3.6 Consensus size: 49
34143512 ATATGATGAA
* * ** *
34143522 TAAGTGCAGGCTACTACATGTATCAGATGGTTAGGTCACGTGTGTAGTAC
1 TAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCATGTGTGTAGTAC
*
34143572 TAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCATGTGTGTAGTAC
1 TAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCATGTGTGTAGTAC
*
34143621 TAAGTGTAGGCTACTACGTGTACCAGATAATTGGT--TGCATGTGTAGTAC
1 TAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCATG--TGTGTAGTAC
* * *
34143670 TAAGTGCAGGCTAGTATGCGTACCAGATA
1 TAAGTGCAGGCTACTACGTGTACCAGATA
34143699 GCTTGGCTAC
Statistics
Matches: 113, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
47 2 0.02
49 84 0.74
50 27 0.24
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.30
Consensus pattern (49 bp):
TAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCATGTGTGTAGTAC
Found at i:34148888 original size:16 final size:17
Alignment explanation
Indices: 34148867--34148901 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
34148857 CAAGAGGAAG
*
34148867 AATAAGTAAATT-AATA
1 AATAAGAAAATTAAATA
34148883 AATAAGAAAATTAAATA
1 AATAAGAAAATTAAATA
34148900 AA
1 AA
34148902 ATTGTAAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.26
Consensus pattern (17 bp):
AATAAGAAAATTAAATA
Found at i:34158886 original size:40 final size:40
Alignment explanation
Indices: 34158841--34159008 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
34158831 CGGAATATAA
34158841 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
34158881 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
34158921 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * * * *
34158961 CCGAATATAATTTCCAGCATAATTGTCTTCGAGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCG-GGTCTTAGC
34159001 CCGGATAT
1 CCGGATAT
34159009 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
39 1 0.01
40 102 0.97
41 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:34160804 original size:40 final size:39
Alignment explanation
Indices: 34160759--34160888 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
34160749 CGGAATATAA
34160759 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
34160799 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
34160839 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
34160879 CCGGATATAA
1 CCGGATATAA
34160889 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:34160903 original size:40 final size:40
Alignment explanation
Indices: 34160775--34160926 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
34160765 ATAACCATGT
* * *
34160775 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
34160815 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
34160855 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
34160895 GCATAATTGTCTTCGGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
34160927 CATTCAATTT
Statistics
Matches: 91, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
39 2 0.02
40 86 0.95
41 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:34160909 original size:80 final size:80
Alignment explanation
Indices: 34160775--34160924 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
34160765 ATAACCATGT
*
34160775 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
34160839 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
34160855 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
34160918 CCCGGAT
64 CCCGGAT
34160925 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:34164493 original size:31 final size:31
Alignment explanation
Indices: 34164458--34164518 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
34164448 GCCCAATCGA
34164458 CTTCTTGCATTAATACGCAACCTAACCCAAC
1 CTTCTTGCATTAATACGCAACCTAACCCAAC
34164489 CTTCTTGCATTAATACGCAACCTAACCCAA
1 CTTCTTGCATTAATACGCAACCTAACCCAA
34164519 GTAGAGGCGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.33, C:0.34, G:0.07, T:0.26
Consensus pattern (31 bp):
CTTCTTGCATTAATACGCAACCTAACCCAAC
Found at i:34168856 original size:40 final size:40
Alignment explanation
Indices: 34168811--34168978 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
34168801 CGGAATATAA
34168811 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
34168851 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
34168891 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
34168931 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
34168971 CCGGATAT
1 CCGGATAT
34168979 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:34175550 original size:35 final size:34
Alignment explanation
Indices: 34175511--34175637 Score: 123
Period size: 35 Copynumber: 3.5 Consensus size: 34
34175501 GCAAAGTGTG
34175511 AATGTAGGTATGGTATTATCCATACTGAGCTATGA
1 AATGTAGGTATGGTATTATCCATACTGAG-TATGA
*
34175546 AATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGA
1 AATGTAGGTATGGTA-T-T---ATCCATACTGAG-TATGA
* *
34175586 AATGTAGGTATGGCATT-TCCCATACCGAGT-TGAAA
1 AATGTAGGTATGGTATTAT-CCATACTGAGTATG--A
34175621 AATGTAGGTATGGTATT
1 AATGTAGGTATGGTATT
34175638 TTAATGAGGA
Statistics
Matches: 78, Mismatches: 6, Indels: 16
0.78 0.06 0.16
Matches are distributed among these distances:
33 1 0.01
34 2 0.03
35 41 0.53
36 1 0.01
37 1 0.01
38 1 0.01
39 1 0.01
40 30 0.38
ACGTcount: A:0.33, C:0.11, G:0.23, T:0.33
Consensus pattern (34 bp):
AATGTAGGTATGGTATTATCCATACTGAGTATGA
Found at i:34179987 original size:40 final size:39
Alignment explanation
Indices: 34179838--34179989 Score: 223
Period size: 39 Copynumber: 3.9 Consensus size: 39
34179828 AATGTTCGAG
*
34179838 TGATATCCGGGCTAAGCCCAAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
*
34179877 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCCAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* * * *
34179916 TGATACCCGGTCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* *
34179955 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
34179990 GATTACCATA
Statistics
Matches: 101, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 84 0.83
40 17 0.17
ACGTcount: A:0.24, C:0.23, G:0.30, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
Found at i:34185954 original size:39 final size:40
Alignment explanation
Indices: 34185839--34185982 Score: 175
Period size: 39 Copynumber: 3.6 Consensus size: 40
34185829 TCGTTCAAAC
* * ** * **
34185839 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAG
1 GCCTTCGGGACTTAGCCCGGATATCATAACTCGCACAATT
* * * *
34185879 GCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGGACTTAGCCCGGATATCATAACTCGCACAATT
34185919 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGACTTAGCCCGGATATCATAACTCGCACAATT
34185958 GCCTTCGGG-CTTAGCCCGGATATCA
1 GCCTTCGGGACTTAGCCCGGATATCA
34185983 CTCGAACATT
Statistics
Matches: 89, Mismatches: 15, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
39 51 0.57
40 38 0.43
ACGTcount: A:0.24, C:0.30, G:0.23, T:0.24
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATCATAACTCGCACAATT
Found at i:34193454 original size:40 final size:40
Alignment explanation
Indices: 34193395--34193576 Score: 168
Period size: 40 Copynumber: 4.5 Consensus size: 40
34193385 AAATTGAATG
* * *
34193395 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGTAATT
* * * ***
34193435 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGTAATT
* * * *
34193475 ACATCCGGGCTAAGTCCCGAGGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGTAATT
* * * * **
34193515 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTCCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGTAATT
*
34193555 AAATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
34193577 GCATTTGTGC
Statistics
Matches: 111, Mismatches: 30, Indels: 2
0.78 0.21 0.01
Matches are distributed among these distances:
39 2 0.02
40 109 0.98
ACGTcount: A:0.29, C:0.23, G:0.25, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGTAATT
Found at i:34193530 original size:80 final size:80
Alignment explanation
Indices: 34193397--34193582 Score: 232
Period size: 80 Copynumber: 2.3 Consensus size: 80
34193387 ATTGAATGAT
* * * * *
34193397 ATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCAAT
1 ATCCGGGCTAAGACCCGAGGACATTTATGCTAGAAATTATATCCGGGCTAAGACCCGAAGGC-AT
* * *
34193462 T-GTGCTAGTGGCTAC
65 TCGTCCAAGTGGCTAA
* *
34193477 ATCCGGGCTAAGTCCCGAGGACATTTATGCTAGTAATTATATCCGGGCTAAGACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAGGACATTTATGCTAGAAATTATATCCGGGCTAAGACCCGAAGGCATT
* *
34193542 CGTCCAAGTTGTTAA
66 CGTCCAAGTGGCTAA
34193557 ATCCGGGCTAAGACCCGAAGG-CATTT
1 ATCCGGGCTAAGACCCG-AGGACATTT
34193583 GTGCAAATCG
Statistics
Matches: 92, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
79 3 0.03
80 86 0.93
81 3 0.03
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.24
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAGGACATTTATGCTAGAAATTATATCCGGGCTAAGACCCGAAGGCATT
CGTCCAAGTGGCTAA
Found at i:34193599 original size:80 final size:77
Alignment explanation
Indices: 34193397--34193618 Score: 214
Period size: 80 Copynumber: 2.8 Consensus size: 77
34193387 ATTGAATGAT
* * *
34193397 ATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCAAT
1 ATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATTATATCCGGGTTAAGACCCGAAGGCAAT
* * *
34193462 TGTGCTAGTGGCTAC
63 TGTCCAAGTGGCTAA
* * *
34193477 ATCCGGGCTAAGTCCCG-AGGACATTTATGCTAGTAATTATATCCGGGCTAAGACCCGAAGGC-A
1 ATCCGGGCTAAGACCCGAAGG-CATTTGTGC-A--AATTATATCCGGGTTAAGACCCGAAGGCAA
* *
34193540 TTCGTCCAAGTTGTTAA
62 TT-GTCCAAGTGGCTAA
* *
34193557 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTGATATCCGGGTTAAGTCCCGTAGGC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT--T-ATATCCGGGTTAAGACCCGAAGGC
34193619 CTTGGTGCGG
Statistics
Matches: 118, Mismatches: 15, Indels: 18
0.78 0.10 0.12
Matches are distributed among these distances:
77 5 0.04
78 2 0.02
79 10 0.08
80 98 0.83
81 3 0.03
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (77 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATTATATCCGGGTTAAGACCCGAAGGCAATTGT
CCAAGTGGCTAA
Found at i:34193601 original size:40 final size:38
Alignment explanation
Indices: 34193395--34193618 Score: 155
Period size: 40 Copynumber: 5.6 Consensus size: 38
34193385 AAATTGAATG
* * * *
34193395 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT-T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAGTGT
* * *
34193435 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGT-G-T
* * * * *
34193475 ACATCCGGGCTAAGTCCCG-AGGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGG-CATTTGTGCAAGT--GT
* *
34193515 ATATCCGGGCTAAGACCCGAAGGCATTCGTCCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAG-TG-T
* *
34193555 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGT-GT
* * *
34193594 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
34193619 CTTGGTGCGG
Statistics
Matches: 145, Mismatches: 29, Indels: 20
0.75 0.15 0.10
Matches are distributed among these distances:
37 4 0.03
38 2 0.01
39 7 0.05
40 128 0.88
41 4 0.03
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (38 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTGT
Found at i:34197282 original size:39 final size:39
Alignment explanation
Indices: 34197164--34197346 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
34197154 TCGTTCAAAC
* * ** * **
34197164 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAG
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
* * * *
34197204 GCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
*
34197244 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCCCAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
34197283 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
34197322 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
34197347 CTCGAACATT
Statistics
Matches: 126, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 88 0.70
40 38 0.30
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.24
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
Found at i:34199776 original size:19 final size:19
Alignment explanation
Indices: 34199740--34199778 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
34199730 TTTTCATCAT
* *
34199740 AGTAAAATAAAATAATAAA
1 AGTAAAACAAAACAATAAA
*
34199759 AGTAAAACAAAACCATAAA
1 AGTAAAACAAAACAATAAA
34199778 A
1 A
34199779 ATAATTAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (19 bp):
AGTAAAACAAAACAATAAA
Found at i:34200289 original size:28 final size:29
Alignment explanation
Indices: 34200216--34200303 Score: 94
Period size: 28 Copynumber: 3.1 Consensus size: 29
34200206 AGCATGGCTG
* * * *
34200216 CCAGATACAGA-AA-ATGTGACAGAGTCA
1 CCAGATACAGATAATTTGTGGCATAGCCA
*
34200243 CCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAATTTGTGGCA-TAGCCA
34200272 CCAGA-ACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAATTTGTGGCATAGCCA
34200300 CCAG
1 CCAG
34200304 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
27 12 0.24
28 25 0.49
29 14 0.27
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.20
Consensus pattern (29 bp):
CCAGATACAGATAATTTGTGGCATAGCCA
Found at i:34200455 original size:27 final size:28
Alignment explanation
Indices: 34200409--34200472 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
34200399 AAATTAACCC
*
34200409 TAGGGGTATAAAGGTCA-TTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
*
34200436 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
34200464 TAGGGGTAT
1 TAGGGGTAT
34200473 TCTAGTAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
27 15 0.44
28 19 0.56
ACGTcount: A:0.31, C:0.08, G:0.28, T:0.33
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCATACA
Found at i:34207590 original size:19 final size:19
Alignment explanation
Indices: 34207554--34207592 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
34207544 TTTTCATCAT
* *
34207554 AGTAAAATAAAATAATAAA
1 AGTAAAACAAAACAATAAA
*
34207573 AGTAAAACAAAACCATAAA
1 AGTAAAACAAAACAATAAA
34207592 A
1 A
34207593 ATAATTAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (19 bp):
AGTAAAACAAAACAATAAA
Found at i:34208073 original size:28 final size:29
Alignment explanation
Indices: 34208000--34208087 Score: 94
Period size: 28 Copynumber: 3.1 Consensus size: 29
34207990 AGCATGGCTG
* * * *
34208000 CCAGATACAGA-AA-ATGTGACAGAGTCA
1 CCAGATACAGATAATTTGTGGCATAGCCA
*
34208027 CCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAATTTGTGGCA-TAGCCA
34208056 CCAGA-ACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAATTTGTGGCATAGCCA
34208084 CCAG
1 CCAG
34208088 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
27 12 0.24
28 25 0.49
29 14 0.27
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.20
Consensus pattern (29 bp):
CCAGATACAGATAATTTGTGGCATAGCCA
Found at i:34208239 original size:27 final size:28
Alignment explanation
Indices: 34208193--34208256 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
34208183 AAATTAACCC
*
34208193 TAGGGGTATAAAGGTCA-TTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
*
34208220 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
34208248 TAGGGGTAT
1 TAGGGGTAT
34208257 TCTAGTAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
27 15 0.44
28 19 0.56
ACGTcount: A:0.31, C:0.08, G:0.28, T:0.33
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCATACA
Found at i:34211513 original size:19 final size:19
Alignment explanation
Indices: 34211477--34211515 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
34211467 TTTTCACCAT
* *
34211477 AGTAAAATAAAATAATAAA
1 AGTAAAACAAAACAATAAA
*
34211496 AGTAAAACAAAACCATAAA
1 AGTAAAACAAAACAATAAA
34211515 A
1 A
34211516 ATAATTAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (19 bp):
AGTAAAACAAAACAATAAA
Found at i:34211995 original size:28 final size:29
Alignment explanation
Indices: 34211947--34212009 Score: 94
Period size: 28 Copynumber: 2.2 Consensus size: 29
34211937 GTGACAGAGT
*
34211947 CACCAGATACAGATATTTTGTGGCAGT-GC
1 CACCAGATACAGATAATTTGTGGCA-TAGC
34211976 CACCAGA-ACAGATAATTTGTGGCATAGC
1 CACCAGATACAGATAATTTGTGGCATAGC
34212004 CACCAG
1 CACCAG
34212010 GACGCTTCCT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
27 1 0.03
28 24 0.75
29 7 0.22
ACGTcount: A:0.32, C:0.24, G:0.22, T:0.22
Consensus pattern (29 bp):
CACCAGATACAGATAATTTGTGGCATAGC
Found at i:34212162 original size:28 final size:28
Alignment explanation
Indices: 34212115--34212179 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
34212105 AAATTAACCC
*
34212115 TAGGGGTATAAAGGTCATTTAGCATACA
1 TAGGGGTATAAAGGTAATTTAGCATACA
* *
34212143 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTAGCATACA
34212171 TAGGGGTAT
1 TAGGGGTAT
34212180 TCTAGTAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.32, C:0.08, G:0.28, T:0.32
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTAGCATACA
Found at i:34227415 original size:29 final size:29
Alignment explanation
Indices: 34227382--34227512 Score: 156
Period size: 29 Copynumber: 4.6 Consensus size: 29
34227372 GTGACGAGAT
34227382 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
34227411 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * *
34227440 AGGCACTAAGTGTGCATGCTGCAAA-ATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * ** *
34227468 TGACACTATGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* **
34227497 CGGCACTGGGTGTGCG
1 TGGCACTAAGTGTGCG
34227513 AGCTCGAAGG
Statistics
Matches: 88, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
28 23 0.26
29 65 0.74
ACGTcount: A:0.29, C:0.16, G:0.31, T:0.24
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:34227511 original size:57 final size:58
Alignment explanation
Indices: 34227383--34227503 Score: 163
Period size: 57 Copynumber: 2.1 Consensus size: 58
34227373 TGACGAGATT
* * * ** *
34227383 GGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCGTGCTGGAAATATAA
1 GGCACTAAGTGTGCATGCTGCAAATATATGACACTAAGTGTGCAAGCTGGAAAAATAA
* *
34227441 GGCACTAAGTGTGCATGCTGCAAA-ATATGACACTATGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCATGCTGCAAATATATGACACTAAGTGTGCAAGCTGGAAAAATAA
34227498 GGCACT
1 GGCACT
34227504 GGGTGTGCGA
Statistics
Matches: 55, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
57 33 0.60
58 22 0.40
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.24
Consensus pattern (58 bp):
GGCACTAAGTGTGCATGCTGCAAATATATGACACTAAGTGTGCAAGCTGGAAAAATAA
Found at i:34232149 original size:12 final size:12
Alignment explanation
Indices: 34232133--34232167 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
34232123 AAATAAATTT
*
34232133 AAAATTAAAATG
1 AAAATGAAAATG
*
34232145 GAAATGAAAATG
1 AAAATGAAAATG
34232157 AAAATGAAAAT
1 AAAATGAAAAT
34232168 TTTCTTTTGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.66, C:0.00, G:0.14, T:0.20
Consensus pattern (12 bp):
AAAATGAAAATG
Found at i:34232154 original size:18 final size:18
Alignment explanation
Indices: 34232133--34232167 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
34232123 AAATAAATTT
* *
34232133 AAAATTAAAATGGAAATG
1 AAAATGAAAATGAAAATG
34232151 AAAATGAAAATGAAAAT
1 AAAATGAAAATGAAAAT
34232168 TTTCTTTTGG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.66, C:0.00, G:0.14, T:0.20
Consensus pattern (18 bp):
AAAATGAAAATGAAAATG
Found at i:34235921 original size:13 final size:13
Alignment explanation
Indices: 34235903--34235927 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34235893 CCCAGGGGAC
34235903 ACATGGCCGTGTA
1 ACATGGCCGTGTA
34235916 ACATGGCCGTGT
1 ACATGGCCGTGT
34235928 GTCGCACACG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.24, G:0.32, T:0.24
Consensus pattern (13 bp):
ACATGGCCGTGTA
Found at i:34238369 original size:26 final size:29
Alignment explanation
Indices: 34238334--34238390 Score: 77
Period size: 26 Copynumber: 2.1 Consensus size: 29
34238324 TTGTATAAGC
34238334 TTAACCAA-TTAATTGTAAAAA-TT-ATAA
1 TTAACCAATTTAA-TGTAAAAACTTAATAA
34238361 TTAA-CAATTTAATGTAAAAACTTAATAA
1 TTAACCAATTTAATGTAAAAACTTAATAA
34238389 TT
1 TT
34238391 TGGATGGTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
26 11 0.41
27 10 0.37
28 6 0.22
ACGTcount: A:0.51, C:0.07, G:0.04, T:0.39
Consensus pattern (29 bp):
TTAACCAATTTAATGTAAAAACTTAATAA
Found at i:34246751 original size:46 final size:46
Alignment explanation
Indices: 34246684--34246851 Score: 275
Period size: 46 Copynumber: 3.7 Consensus size: 46
34246674 GCTTTCTGAA
34246684 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
34246730 ATGAAATGTGTCAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* * *
34246776 ATGAAATGTGTAAGAACATGGTTGAAAGATACCATGGCAACGTGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
**
34246822 ATGAAATGAATAAGACCATGGTTG-AAGATA
1 ATGAAATGTGTAAGACCATGGTTGAAAGATA
34246852 AATGAATAAG
Statistics
Matches: 114, Mismatches: 8, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
45 6 0.05
46 108 0.95
ACGTcount: A:0.40, C:0.12, G:0.24, T:0.23
Consensus pattern (46 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
Found at i:34246861 original size:26 final size:27
Alignment explanation
Indices: 34246825--34246878 Score: 101
Period size: 26 Copynumber: 2.0 Consensus size: 27
34246815 ACGTGACATG
34246825 AAATGAATAAGACCATGGTTG-AAGAT
1 AAATGAATAAGACCATGGTTGAAAGAT
34246851 AAATGAATAAGACCATGGTTGAAAGAT
1 AAATGAATAAGACCATGGTTGAAAGAT
34246878 A
1 A
34246879 CCATGGCAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 21 0.78
27 6 0.22
ACGTcount: A:0.48, C:0.07, G:0.22, T:0.22
Consensus pattern (27 bp):
AAATGAATAAGACCATGGTTGAAAGAT
Found at i:34246868 original size:72 final size:72
Alignment explanation
Indices: 34246786--34246919 Score: 207
Period size: 72 Copynumber: 1.9 Consensus size: 72
34246776 ATGAAATGTG
* * *
34246786 TAAGAACATGGTTGAAAGATACCATGGCAACGTGACATG-AAATGAATAAGACCATGGTTGAAGA
1 TAAGAACATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAATAAGAACATAGTTGAAGA
34246850 TAAATGAA
65 TAAATGAA
* *
34246858 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGAACATAGTTGAA
1 TAAGAACATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAATAAGAACATAGTTGAA
34246920 AGACACTATG
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
71 1 0.02
72 55 0.98
ACGTcount: A:0.45, C:0.12, G:0.23, T:0.20
Consensus pattern (72 bp):
TAAGAACATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAATAAGAACATAGTTGAAGAT
AAATGAA
Found at i:34250149 original size:158 final size:158
Alignment explanation
Indices: 34249861--34250178 Score: 627
Period size: 158 Copynumber: 2.0 Consensus size: 158
34249851 TGTAATTATG
34249861 TTAATTGAATGTTGTGTTTGTATGTAATGTGATTTATATTGAAATGCATTACTTGAATGCTATAA
1 TTAATTGAATGTTGTGTTTGTATGTAATGTGATTTATATTGAAATGCATTACTTGAATGCTATAA
*
34249926 TGGAAAATTTAATACATGCTTGAAATGGTGAAAAAGGGTTAGGTCCCGATTGAATATTGAATTCC
66 TGGAAAATTTAATACATGCTTGAAATGGTGAAAAAGGGTTAGGCCCCGATTGAATATTGAATTCC
34249991 GATAAATATATGTGCTTTCTTCTTTCAT
131 GATAAATATATGTGCTTTCTTCTTTCAT
34250019 TTAATTGAATGTTGTGTTTGTATGTAATGTGATTTATATTGAAATGCATTACTTGAATGCTATAA
1 TTAATTGAATGTTGTGTTTGTATGTAATGTGATTTATATTGAAATGCATTACTTGAATGCTATAA
34250084 TGGAAAATTTAATACATGCTTGAAATGGTGAAAAAGGGTTAGGCCCCGATTGAATATTGAATTCC
66 TGGAAAATTTAATACATGCTTGAAATGGTGAAAAAGGGTTAGGCCCCGATTGAATATTGAATTCC
34250149 GATAAATATATGTGCTTTCTTCTTTCAT
131 GATAAATATATGTGCTTTCTTCTTTCAT
34250177 TT
1 TT
34250179 GTTGCGGACA
Statistics
Matches: 159, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
158 159 1.00
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (158 bp):
TTAATTGAATGTTGTGTTTGTATGTAATGTGATTTATATTGAAATGCATTACTTGAATGCTATAA
TGGAAAATTTAATACATGCTTGAAATGGTGAAAAAGGGTTAGGCCCCGATTGAATATTGAATTCC
GATAAATATATGTGCTTTCTTCTTTCAT
Found at i:34250426 original size:57 final size:57
Alignment explanation
Indices: 34250290--34250429 Score: 199
Period size: 57 Copynumber: 2.5 Consensus size: 57
34250280 TGTTACAATT
* * * *
34250290 AGAATTTAGGCTGGACTGGTAATCCTAATCGAGCTCTTCTGAGCATACGTTATATAA
1 AGAATTTAGCCTGGACTGGTAATCCTAACCGAGCTCTTCTGAACATACGCTATATAA
* ** *
34250347 AGGATTTAGCCTGGGTTGGTAATCCTAACCGAGCTTTTCTGAACATACGCTATATAA
1 AGAATTTAGCCTGGACTGGTAATCCTAACCGAGCTCTTCTGAACATACGCTATATAA
*
34250404 AGAATTTAGCCTGGACTAGTAATCCT
1 AGAATTTAGCCTGGACTGGTAATCCT
34250430 GTTATACGAT
Statistics
Matches: 71, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
57 71 1.00
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (57 bp):
AGAATTTAGCCTGGACTGGTAATCCTAACCGAGCTCTTCTGAACATACGCTATATAA
Found at i:34252846 original size:29 final size:29
Alignment explanation
Indices: 34252804--34252861 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
34252794 CCGAGATAGG
34252804 TACATGTGTAAATAATCTGACAATGTGGT
1 TACATGTGTAAATAATCTGACAATGTGGT
34252833 TACATGTGTAAATAATCTGACAATGTGGT
1 TACATGTGTAAATAATCTGACAATGTGGT
34252862 ATGTTATGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.34, C:0.10, G:0.21, T:0.34
Consensus pattern (29 bp):
TACATGTGTAAATAATCTGACAATGTGGT
Found at i:34261301 original size:57 final size:57
Alignment explanation
Indices: 34261168--34261305 Score: 204
Period size: 57 Copynumber: 2.4 Consensus size: 57
34261158 TACAATTAGA
* * * * *
34261168 ATTTAGGCTAGACTGGTAATCCTAATCGAGCTCTTCTGAGCATACGTTATATAAAGG
1 ATTTAGCCTGGACTGGTAATCCTAATCAAGCTCTTCTGAACATACGCTATATAAAGG
**
34261225 ATTTAGCCTGGGTTGGTAATCCTAATCAAGCTCTTCTGAACATACGCTATATAAAGG
1 ATTTAGCCTGGACTGGTAATCCTAATCAAGCTCTTCTGAACATACGCTATATAAAGG
*
34261282 ATTTAGCCTGGACTAGTAATCCTA
1 ATTTAGCCTGGACTGGTAATCCTA
34261306 TTATATGATC
Statistics
Matches: 71, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
57 71 1.00
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.32
Consensus pattern (57 bp):
ATTTAGCCTGGACTGGTAATCCTAATCAAGCTCTTCTGAACATACGCTATATAAAGG
Found at i:34261956 original size:19 final size:21
Alignment explanation
Indices: 34261918--34261956 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
34261908 ATATACTTGT
*
34261918 AATATCATGTTATGGTAGCTA
1 AATATCATGTTATAGTAGCTA
34261939 AATAT-ATGTTA-AGTAGCT
1 AATATCATGTTATAGTAGCT
34261957 GATCAAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 6 0.35
21 5 0.29
ACGTcount: A:0.36, C:0.08, G:0.18, T:0.38
Consensus pattern (21 bp):
AATATCATGTTATAGTAGCTA
Found at i:34264304 original size:16 final size:17
Alignment explanation
Indices: 34264275--34264307 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
34264265 GAAATAGAAA
34264275 ATTTGTTTTATATTTTT
1 ATTTGTTTTATATTTTT
*
34264292 ATTT-TTTTTTATTTTT
1 ATTTGTTTTATATTTTT
34264308 CTTGTCATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.15, C:0.00, G:0.03, T:0.82
Consensus pattern (17 bp):
ATTTGTTTTATATTTTT
Found at i:34266472 original size:43 final size:41
Alignment explanation
Indices: 34266405--34266524 Score: 150
Period size: 43 Copynumber: 2.8 Consensus size: 41
34266395 TACCATACCA
* *
34266405 ATGCCATATCCCAGATATGGTCTTACATGTAATCTCGTATTG
1 ATGCCATATCCCAGATATGGTCTTACA-GTAATCTCATATAG
* * **
34266447 ATGCCAATATCCCAGCTATGATCTTACACAAAGTCTCATATAG
1 ATGCC-ATATCCCAGATATGGTCTTACAGTAA-TCTCATATAG
34266490 ATGCCATATCCCAGATATGGTCTTACACGTAATCT
1 ATGCCATATCCCAGATATGGTCTTACA-GTAATCT
34266525 TAGTAACCCA
Statistics
Matches: 65, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
42 30 0.46
43 35 0.54
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.32
Consensus pattern (41 bp):
ATGCCATATCCCAGATATGGTCTTACAGTAATCTCATATAG
Found at i:34272809 original size:40 final size:40
Alignment explanation
Indices: 34272745--34272952 Score: 267
Period size: 40 Copynumber: 5.2 Consensus size: 40
34272735 TCTTTGGAAT
* ** *
34272745 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * *** *
34272784 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
34272824 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
*
34272864 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * *
34272904 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAA-CAACTCGCACAAATGCCTTCGGGTC
34272944 TTAGCCCGG
1 TTAGCCCGG
34272953 GTATCAATCA
Statistics
Matches: 147, Mismatches: 20, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
39 3 0.02
40 143 0.97
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
Found at i:34278329 original size:39 final size:39
Alignment explanation
Indices: 34278251--34278400 Score: 237
Period size: 39 Copynumber: 3.8 Consensus size: 39
34278241 GGTAACCCGT
* *
34278251 ACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGC
1 ACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACTCGC
* * *
34278291 ACAATTGCCTTCGGGCTTAGCCCAGATATCATAGCTCGC
1 ACAATTGCCTTCGGGCTTAGCCCGGATATCACAACTCGC
*
34278330 ACAATTGCCTTCGGGCTTAGCCCGGATATCACAATTCGC
1 ACAATTGCCTTCGGGCTTAGCCCGGATATCACAACTCGC
34278369 ACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 ACAATTGCCTTCGGGCTTAGCCCGGATATCAC
34278401 TCGAACATTC
Statistics
Matches: 101, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 87 0.86
40 14 0.14
ACGTcount: A:0.25, C:0.31, G:0.20, T:0.24
Consensus pattern (39 bp):
ACAATTGCCTTCGGGCTTAGCCCGGATATCACAACTCGC
Found at i:34286141 original size:40 final size:39
Alignment explanation
Indices: 34286083--34286264 Score: 247
Period size: 39 Copynumber: 4.6 Consensus size: 39
34286073 CGTTCAAACA
* * ** * *
34286083 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* *
34286123 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
*
34286163 CCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
* *
34286202 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
34286241 CCTTCGGGCTTAGCCCGGATATCA
1 CCTTCGGGCTTAGCCCGGATATCA
34286265 CTCGAACATT
Statistics
Matches: 128, Mismatches: 14, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
39 88 0.69
40 40 0.31
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.24
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
Found at i:34286194 original size:39 final size:39
Alignment explanation
Indices: 34286113--34286265 Score: 252
Period size: 39 Copynumber: 3.9 Consensus size: 39
34286103 TATGGTAACC
* *
34286113 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
34286153 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
34286192 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
34286231 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
34286266 TCGAACATTC
Statistics
Matches: 106, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 89 0.84
40 17 0.16
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:34292003 original size:40 final size:40
Alignment explanation
Indices: 34291939--34292146 Score: 267
Period size: 40 Copynumber: 5.2 Consensus size: 40
34291929 TCTTTGGAAT
* ** *
34291939 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * *** *
34291978 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
34292018 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
*
34292058 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * *
34292098 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAA-CAACTCGCACAAATGCCTTCGGGTC
34292138 TTAGCCCGG
1 TTAGCCCGG
34292147 GTATCAATCA
Statistics
Matches: 147, Mismatches: 20, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
39 3 0.02
40 143 0.97
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
Found at i:34296077 original size:30 final size:31
Alignment explanation
Indices: 34296043--34296109 Score: 77
Period size: 31 Copynumber: 2.2 Consensus size: 31
34296033 CATGACCGTT
*
34296043 AACTTATA-ATTATTT-ACATATTT-TTCCCTA
1 AACTTATATATT-TTTCACA-ATTTAGTCCCTA
*
34296073 AACTTTTATATTTTTCACAATTTAGTCCCTA
1 AACTTATATATTTTTCACAATTTAGTCCCTA
34296104 AACTTA
1 AACTTA
34296110 AAATCTCCAA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
30 14 0.45
31 17 0.55
ACGTcount: A:0.33, C:0.18, G:0.01, T:0.48
Consensus pattern (31 bp):
AACTTATATATTTTTCACAATTTAGTCCCTA
Found at i:34296437 original size:23 final size:23
Alignment explanation
Indices: 34296407--34296452 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
34296397 CCTAGATTAC
34296407 AAAAACATAAAAATTACATGAAA
1 AAAAACATAAAAATTACATGAAA
34296430 AAAAACATAAAAATTACATGAAA
1 AAAAACATAAAAATTACATGAAA
34296453 CAGAACTAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.70, C:0.09, G:0.04, T:0.17
Consensus pattern (23 bp):
AAAAACATAAAAATTACATGAAA
Found at i:34299845 original size:29 final size:29
Alignment explanation
Indices: 34299811--34299942 Score: 165
Period size: 29 Copynumber: 4.6 Consensus size: 29
34299801 CCCTCGAGCT
** * * *
34299811 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
* * * *
34299840 TGCACACATAGTGTCATATTTTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
* *
34299869 TGCACACTTAGTGCCTTATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
34299898 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
34299927 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
34299943 ATCTCGTCAC
Statistics
Matches: 91, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 91 1.00
ACGTcount: A:0.24, C:0.31, G:0.15, T:0.30
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:34307652 original size:29 final size:29
Alignment explanation
Indices: 34307618--34307749 Score: 165
Period size: 29 Copynumber: 4.6 Consensus size: 29
34307608 CCCTCGAGCT
** * * *
34307618 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
* * * *
34307647 TGCACACATAGTGTCATATTTTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
* *
34307676 TGCACACTTAGTGCCTTATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
34307705 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
34307734 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
34307750 ATCTCGTCAC
Statistics
Matches: 91, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 91 1.00
ACGTcount: A:0.24, C:0.31, G:0.15, T:0.30
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:34307689 original size:58 final size:58
Alignment explanation
Indices: 34307561--34307748 Score: 175
Period size: 58 Copynumber: 3.3 Consensus size: 58
34307551 TACTCGATTT
* * * *** * *
34307561 CGCACACTTAGTGCCACGTA-ATTT-AAGCCCGCACACACAGTGCCATA-CCCTCGAGCT
1 CGCACACTTAGTG-C-CGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
** * ** * *
34307618 CGCACACCCAGTGCCGTATTTTTCCAGCTTGCACACATAGTGTCATATTTTTCCAGCA
1 CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
* * *
34307676 TGCACACTTAGTGCCTTATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
34307734 CGCACACTTAGTGCC
1 CGCACACTTAGTGCC
34307749 AATCTCGTCA
Statistics
Matches: 104, Mismatches: 24, Indels: 5
0.78 0.18 0.04
Matches are distributed among these distances:
55 4 0.04
56 4 0.04
57 29 0.28
58 67 0.64
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.27
Consensus pattern (58 bp):
CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
Found at i:34309343 original size:94 final size:93
Alignment explanation
Indices: 34309166--34309425 Score: 256
Period size: 92 Copynumber: 2.7 Consensus size: 93
34309156 TTGGGATGTC
* * * * *
34309166 ACATGTCTGGGACATGCATCGGCCATATTATGA-GAGCCATTATAAGACCATGTCTGGGAAATAG
1 ACATGTCTGGGACATGCATCGGCC-TATTA-GATGAGTCAGTGTAAGACCATGTCTGGGACATGG
* ** *
34309230 CAACGGCATTGAGACGAGAGCTAGTGTAAG
64 CATCGGCACGGAGACGAGAGCCAGTGTAAG
* * *
34309260 ACATGTCTGGGACATGCATCGG-CTATGAGATGTGTCAGTGTAAGACCATTTCTGGGACATGGCA
1 ACATGTCTGGGACATGCATCGGCCTATTAGATGAGTCAGTGTAAGACCATGTCTGGGACATGGCA
*
34309324 TCGGCACGGAGATGTGAGAGCCAGTGTAAG
66 TCGGCACGGAGA--CGAGAGCCAGTGTAAG
* * * * *
34309354 ACCATTTCTGGGACATGGCGTCAGCGTCAATTTCGAT-AGTCAGTGTAAGACCATGTCTGGGACA
1 A-CATGTCTGGGACAT-GCATC-G-GCCTA-TTAGATGAGTCAGTGTAAGACCATGTCTGGGACA
34309418 TGGCATCG
61 TGGCATCG
34309426 ACTTGATGGA
Statistics
Matches: 137, Mismatches: 20, Indels: 13
0.81 0.12 0.08
Matches are distributed among these distances:
91 2 0.01
92 39 0.28
93 1 0.01
94 37 0.27
95 13 0.09
96 4 0.03
97 1 0.01
98 1 0.01
99 35 0.26
100 4 0.03
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (93 bp):
ACATGTCTGGGACATGCATCGGCCTATTAGATGAGTCAGTGTAAGACCATGTCTGGGACATGGCA
TCGGCACGGAGACGAGAGCCAGTGTAAG
Found at i:34309402 original size:99 final size:96
Alignment explanation
Indices: 34309293--34309468 Score: 264
Period size: 96 Copynumber: 1.8 Consensus size: 96
34309283 TATGAGATGT
* *
34309293 GTCAGTGTAAGACCATTTCTGGGACATGGCATCGGCACGGAGATGTGA-GAGCCAGTGTAAGACC
1 GTCAGTGTAAGACCATGTCTGGGACATGGCATC-G-AC-GAGATG-GATAAGCCAGTGTAAGACC
*
34309357 ATTTCTGGGACATGGCGTCAGCGTCAATTTCGATA
62 ATATCTGGGACATGGCGTCAGCGTCAATTTCGATA
**
34309392 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATGGATAAGCCAGTGTAAGACCATAT
1 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGACGAGATGGATAAGCCAGTGTAAGACCATAT
34309457 CTGGGACATGGC
66 CTGGGACATGGC
34309469 ATCGGCATTA
Statistics
Matches: 71, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
95 2 0.03
96 34 0.48
97 2 0.03
98 1 0.01
99 32 0.45
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (96 bp):
GTCAGTGTAAGACCATGTCTGGGACATGGCATCGACGAGATGGATAAGCCAGTGTAAGACCATAT
CTGGGACATGGCGTCAGCGTCAATTTCGATA
Found at i:34309417 original size:49 final size:49
Alignment explanation
Indices: 34309293--34309471 Score: 179
Period size: 49 Copynumber: 3.7 Consensus size: 49
34309283 TATGAGATGT
* *
34309293 GTCAGTGTAAGACCATTTCTGGGACATGGCATCGGCACGGAGATGTGAGA
1 GTCAGTGTAAGACCATTTCTGGGACATGGCATCAG-ACGCAGATGTGAGA
* * * *
34309343 GCCAGTGTAAGACCATTTCTGGGACATGGCGTCAG-CGTCA-ATTTCGATA
1 GTCAGTGTAAGACCATTTCTGGGACATGGCATCAGACG-CAGATGT-GAGA
* ** *
34309392 GTCAGTGTAAGACCATGTCTGGGACATGGCATC-GAC-TTGATG-GATAA
1 GTCAGTGTAAGACCATTTCTGGGACATGGCATCAGACGCAGATGTGA-GA
* *
34309439 GCCAGTGTAAGACCATATCTGGGACATGGCATC
1 GTCAGTGTAAGACCATTTCTGGGACATGGCATC
34309472 GGCATTACAC
Statistics
Matches: 109, Mismatches: 15, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
46 2 0.02
47 32 0.29
48 8 0.07
49 35 0.32
50 32 0.29
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (49 bp):
GTCAGTGTAAGACCATTTCTGGGACATGGCATCAGACGCAGATGTGAGA
Found at i:34314039 original size:58 final size:58
Alignment explanation
Indices: 34313949--34314065 Score: 225
Period size: 58 Copynumber: 2.0 Consensus size: 58
34313939 AAGGTGGCTG
34313949 ACATGCAACCTTGCTTTCGTCTATTTCTTTTATGCTACGTTTGGTAGGAACATTATTT
1 ACATGCAACCTTGCTTTCGTCTATTTCTTTTATGCTACGTTTGGTAGGAACATTATTT
*
34314007 ACATGCAACCTTGCTTTCGTCTGTTTCTTTTATGCTACGTTTGGTAGGAACATTATTT
1 ACATGCAACCTTGCTTTCGTCTATTTCTTTTATGCTACGTTTGGTAGGAACATTATTT
34314065 A
1 A
34314066 TTCACCACGT
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.21, C:0.19, G:0.16, T:0.44
Consensus pattern (58 bp):
ACATGCAACCTTGCTTTCGTCTATTTCTTTTATGCTACGTTTGGTAGGAACATTATTT
Found at i:34323145 original size:40 final size:39
Alignment explanation
Indices: 34323101--34323282 Score: 247
Period size: 39 Copynumber: 4.6 Consensus size: 39
34323091 GTTCAAAACA
* * ** * *
34323101 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* *
34323141 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* *
34323181 CCTTCGGGCTTAGCCCGGGTATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
*
34323220 CCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
34323259 CCTTCGGGCTTAGCCCGGATATCA
1 CCTTCGGGCTTAGCCCGGATATCA
34323283 CTCGAACATT
Statistics
Matches: 129, Mismatches: 13, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 89 0.69
40 40 0.31
ACGTcount: A:0.22, C:0.31, G:0.23, T:0.24
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
Found at i:34323212 original size:39 final size:39
Alignment explanation
Indices: 34323131--34323282 Score: 250
Period size: 39 Copynumber: 3.9 Consensus size: 39
34323121 TATGGTAACC
* * * *
34323131 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCATAGCT
*
34323171 CGCACAATTGCCTTCGGGCTTAGCCCGGGTATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
34323210 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
34323249 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
34323283 CTCGAACATT
Statistics
Matches: 106, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
39 89 0.84
40 17 0.16
ACGTcount: A:0.22, C:0.32, G:0.22, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
Found at i:34331361 original size:40 final size:40
Alignment explanation
Indices: 34331324--34331509 Score: 227
Period size: 40 Copynumber: 4.7 Consensus size: 40
34331314 GCTACTCGTT
*
34331324 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
34331364 CAGATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
34331404 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * * *
34331444 CGAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
34331485 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
34331510 CATCATTCGA
Statistics
Matches: 130, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
39 3 0.02
40 115 0.88
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:34340474 original size:40 final size:40
Alignment explanation
Indices: 34340387--34340537 Score: 132
Period size: 40 Copynumber: 3.8 Consensus size: 40
34340377 AATTGAATGA
* * * **
34340387 TATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTCA-TAC
* * *
34340427 TAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT--CATAC
*
34340468 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTCATAC
*
34340507 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
34340538 AAATCGTGAT
Statistics
Matches: 90, Mismatches: 13, Indels: 16
0.76 0.11 0.13
Matches are distributed among these distances:
38 1 0.01
39 5 0.06
40 82 0.91
41 2 0.02
ACGTcount: A:0.26, C:0.25, G:0.27, T:0.22
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATAC
Found at i:34340578 original size:80 final size:80
Alignment explanation
Indices: 34340430--34340578 Score: 174
Period size: 80 Copynumber: 1.9 Consensus size: 80
34340420 GAAATTATAA
* * * * *
34340430 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCATTCG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGAGCTAAGACCCGAAGGCATTCG
34340495 TGCGAGTCATTCTAT
66 TGCGAGTCATTCTAT
* * * * * * *
34340510 CCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGAGTTAAGTCCCGTAGGCCTTG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGAGCTAAGACCCGAAGGCATTC
34340574 GTGCG
65 GTGCG
34340579 GGTTACCATA
Statistics
Matches: 56, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
79 1 0.02
80 55 0.98
ACGTcount: A:0.23, C:0.25, G:0.30, T:0.23
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGAGCTAAGACCCGAAGGCATTCG
TGCGAGTCATTCTAT
Found at i:34342372 original size:16 final size:16
Alignment explanation
Indices: 34342351--34342385 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
34342341 GGAGTAAGCA
34342351 TTTAATGCTTAGTAAG
1 TTTAATGCTTAGTAAG
34342367 TTTAATGCTTAGTAAG
1 TTTAATGCTTAGTAAG
34342383 TTT
1 TTT
34342386 GAGCCATGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.29, C:0.06, G:0.17, T:0.49
Consensus pattern (16 bp):
TTTAATGCTTAGTAAG
Found at i:34342744 original size:40 final size:40
Alignment explanation
Indices: 34342707--34342892 Score: 227
Period size: 40 Copynumber: 4.7 Consensus size: 40
34342697 GCTACTCGTT
*
34342707 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
34342747 CAGATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
34342787 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * * *
34342827 CGAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
34342868 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
34342893 CATCATTCGA
Statistics
Matches: 130, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
39 3 0.02
40 115 0.88
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:34350712 original size:40 final size:38
Alignment explanation
Indices: 34350675--34350766 Score: 105
Period size: 39 Copynumber: 2.3 Consensus size: 38
34350665 GCTACTCGTT
* *
34350675 CAAATGCCTTCGGGACATAGCCC-GGTTATAGTAACTCG
1 CAAATGCCTTCGGGACATAACCCAGATT-TAGTAACTCG
* *
34350713 CACGATGCCTTCGGGACTTAACCCAGATTTAGTAACTCG
1 CA-AATGCCTTCGGGACATAACCCAGATTTAGTAACTCG
34350752 CACAAATGCCTTCGG
1 --CAAATGCCTTCGG
34350767 ATCTTAGTCC
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
38 2 0.04
39 28 0.62
40 13 0.29
41 2 0.04
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (38 bp):
CAAATGCCTTCGGGACATAACCCAGATTTAGTAACTCG
Found at i:34350782 original size:40 final size:40
Alignment explanation
Indices: 34350675--34350859 Score: 191
Period size: 40 Copynumber: 4.7 Consensus size: 40
34350665 GCTACTCGTT
*
34350675 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* * *
34350715 C-GATGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
34350754 CAAATGCCTTC-GGATCTTAGTCCGGATTTAATAACCCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * * *
34350794 CGAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
34350835 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
34350860 CATCATTCGA
Statistics
Matches: 122, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
39 35 0.29
40 78 0.64
41 9 0.07
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:34355577 original size:25 final size:25
Alignment explanation
Indices: 34355549--34355615 Score: 80
Period size: 25 Copynumber: 2.7 Consensus size: 25
34355539 TCTTGTATAT
34355549 GTATGCTCTCACAAGCTGTAAATCG
1 GTATGCTCTCACAAGCTGTAAATCG
* **
34355574 GTATGCTCACATGAGCTGTAAATCG
1 GTATGCTCTCACAAGCTGTAAATCG
* * *
34355599 ATATACGCTCACAAGCT
1 GTATGCTCTCACAAGCT
34355616 ATAGGTCAGA
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (25 bp):
GTATGCTCTCACAAGCTGTAAATCG
Found at i:34357162 original size:43 final size:43
Alignment explanation
Indices: 34357042--34357320 Score: 388
Period size: 43 Copynumber: 6.6 Consensus size: 43
34357032 TAGGATTTTT
* *
34357042 GATATGTGATTACGTGTAAGACCACGTCTTGGATGTTGGCATC
1 GATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATC
* *
34357085 GATATGTGATTA----TAAGAACACGTCTGGGATGTTGGCATC
1 GATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATC
* *
34357124 GATATGTGATTACGTGTAAGAGCACGTCTAGGACGTTGGCATC
1 GATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATC
* * *
34357167 GATAT-TGGATTATGTGTGAGACCACGTCTGGGACGTTGGCATT
1 GATATGT-GATTACGTGTAAGACCACGTCTGGGACGTTGGCATC
* *
34357210 GATATGTGATTACATGTAAGACCATGTCTGGGACGTTGGCATC
1 GATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATC
34357253 GATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATC
1 GATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATC
* * *
34357296 GATATGTGACTATGAGTAAGACCAC
1 GATATGTGATTACGTGTAAGACCAC
34357321 ATTTAATACA
Statistics
Matches: 210, Mismatches: 20, Indels: 12
0.87 0.08 0.05
Matches are distributed among these distances:
39 37 0.18
42 1 0.00
43 171 0.81
44 1 0.00
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.30
Consensus pattern (43 bp):
GATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATC
Found at i:34357335 original size:43 final size:43
Alignment explanation
Indices: 34357116--34357343 Score: 154
Period size: 43 Copynumber: 5.3 Consensus size: 43
34357106 GTCTGGGATG
* * * * * *
34357116 TTGGCATCGATATGTGATTACGTGTAAGAGCACGTCTAGGACG
1 TTGGCATCGATATGTGACTACGAGTAAGACCACATCTAAGACA
* * * * * ** *
34357159 TTGGCATCGATAT-TGGATTATGTGTGAGACCACGTCTGGGACG
1 TTGGCATCGATATGT-GACTACGAGTAAGACCACATCTAAGACA
* * ** ** *
34357202 TTGGCATTGATATGTGATTAC-ATGTAAGACCATGTCTGGGACG
1 TTGGCATCGATATGTGACTACGA-GTAAGACCACATCTAAGACA
* * * ** *
34357245 TTGGCATCGATATGTGATTACGTGTAAGACCACGTCTGGGACG
1 TTGGCATCGATATGTGACTACGAGTAAGACCACATCTAAGACA
* * *
34357288 TTGGCATCGATATGTGACTATGAGTAAGACCACATTTAATACA
1 TTGGCATCGATATGTGACTACGAGTAAGACCACATCTAAGACA
34357331 TTGGCATCGATAT
1 TTGGCATCGATAT
34357344 TTGATTCTGA
Statistics
Matches: 160, Mismatches: 21, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
42 1 0.01
43 158 0.99
44 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (43 bp):
TTGGCATCGATATGTGACTACGAGTAAGACCACATCTAAGACA
Found at i:34357335 original size:129 final size:125
Alignment explanation
Indices: 34357077--34357349 Score: 350
Period size: 129 Copynumber: 2.2 Consensus size: 125
34357067 GTCTTGGATG
*
34357077 TTGGCATCGATATGTGATTATAAGAACACGTCTGGGATGTTGGCATCGATATGTGATTACGTGTA
1 TTGGCATCGATATGTGATTATAAGAACACGTCTGGGACGTTGGCATCGATATGTGATTACGTGTA
* * * * * ** *
34357142 AGAGCACGTCTAGGACGTTGGCATCGATATTGGATTATGTGTGAGACCACGTCTGGGACG
66 AGACCACGTCTAGGACGTTGGCATCGATATTGGACTATGAGTAAGACCACATCTAAGACA
* * *
34357202 TTGGCATTGATATGTGATTACATGTAAGACCATGTCTGGGACGTTGGCATCGATATGTGATTACG
1 TTGGCATCGATATGTGATT--A--TAAGAACACGTCTGGGACGTTGGCATCGATATGTGATTACG
* * *
34357267 TGTAAGACCACGTCTGGGACGTTGGCATCGATA-TGTGACTATGAGTAAGACCACATTTAATACA
62 TGTAAGACCACGTCTAGGACGTTGGCATCGATATTG-GACTATGAGTAAGACCACATCTAAGACA
*
34357331 TTGGCATCGATATTTGATT
1 TTGGCATCGATATGTGATT
34357350 CTGATATGTA
Statistics
Matches: 126, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
125 18 0.14
127 1 0.01
128 2 0.02
129 105 0.83
ACGTcount: A:0.26, C:0.15, G:0.27, T:0.31
Consensus pattern (125 bp):
TTGGCATCGATATGTGATTATAAGAACACGTCTGGGACGTTGGCATCGATATGTGATTACGTGTA
AGACCACGTCTAGGACGTTGGCATCGATATTGGACTATGAGTAAGACCACATCTAAGACA
Found at i:34357382 original size:56 final size:56
Alignment explanation
Indices: 34357309--34357596 Score: 387
Period size: 56 Copynumber: 5.1 Consensus size: 56
34357299 ATGTGACTAT
* * * *
34357309 GAGTAAGACCACATTTAATACATTGGCATCGATATTTGATTCTGATATGTATGTGC
1 GAGTAAGACCACGTTTAATACATTGGCATCGATATGTGATTCCGATATGTGTGTGC
* * * * * * *
34357365 GAGTAAGACCACGTTTAATACGTTAGCATCGATATATGATTTCTATATGTGTGGGT
1 GAGTAAGACCACGTTTAATACATTGGCATCGATATGTGATTCCGATATGTGTGTGC
* *
34357421 GAGTAAGACCACGTTTAATACATTGGCATCGATAAGTGATTCCAATATGTGTGTGC
1 GAGTAAGACCACGTTTAATACATTGGCATCGATATGTGATTCCGATATGTGTGTGC
* * ** *
34357477 AAGTAAGACAACGTTTAATATGTTGGTATCGATATGTGATTCCGATATGTGTGTGC
1 GAGTAAGACCACGTTTAATACATTGGCATCGATATGTGATTCCGATATGTGTGTGC
* * *
34357533 GAGTAAGACCACGTTTAATACATTGGCATCGATAGGTGATTCCGATATGTGTTTAC
1 GAGTAAGACCACGTTTAATACATTGGCATCGATATGTGATTCCGATATGTGTGTGC
34357589 GAGTAAGA
1 GAGTAAGA
34357597 TCCTGTGTGA
Statistics
Matches: 199, Mismatches: 33, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
56 199 1.00
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.33
Consensus pattern (56 bp):
GAGTAAGACCACGTTTAATACATTGGCATCGATATGTGATTCCGATATGTGTGTGC
Found at i:34357616 original size:56 final size:56
Alignment explanation
Indices: 34357295--34357622 Score: 221
Period size: 56 Copynumber: 5.9 Consensus size: 56
34357285 ACGTTGGCAT
** * * * * * **
34357295 CGATATGTGACTATGAGTAAGACCACATTTAATACATTGGCATCGATATTTGATTC
1 CGATATGTGTGTACGAGTAAGACCACGTGTAAGACAGTGGCATCGATAGGTGATTC
* * * * * * ** *
34357351 TGATATGTATGTGCGAGTAAGACCACGTTTAATAC-GTTAGCATCGATATATGATTT
1 CGATATGTGTGTACGAGTAAGACCACGTGTAAGACAG-TGGCATCGATAGGTGATTC
* *** * * * *
34357407 CTATATGTGTGGGTGAGTAAGACCACGTTTAATACATTGGCATCGATAAGTGATTC
1 CGATATGTGTGTACGAGTAAGACCACGTGTAAGACAGTGGCATCGATAGGTGATTC
* * * * * * * * *
34357463 CAATATGTGTGTGCAAGTAAGACAACGTTTAATA-TGTTGGTATCGATATGTGATTC
1 CGATATGTGTGTACGAGTAAGACCACGTGTAAGACAG-TGGCATCGATAGGTGATTC
* * * *
34357519 CGATATGTGTGTGCGAGTAAGACCACGTTTAATACATTGGCATCGATAGGTGATTC
1 CGATATGTGTGTACGAGTAAGACCACGTGTAAGACAGTGGCATCGATAGGTGATTC
* * * *
34357575 CGATATGTGTTTACGAGTAAGATCC-TGTGTGAGATAGTGGCATCGATA
1 CGATATGTGTGTACGAGTAAGA-CCACGTGTAAGACAGTGGCATCGATA
34357623 TGTAATTGAA
Statistics
Matches: 222, Mismatches: 45, Indels: 10
0.80 0.16 0.04
Matches are distributed among these distances:
56 220 0.99
57 2 0.01
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.33
Consensus pattern (56 bp):
CGATATGTGTGTACGAGTAAGACCACGTGTAAGACAGTGGCATCGATAGGTGATTC
Found at i:34362196 original size:40 final size:39
Alignment explanation
Indices: 34362076--34362269 Score: 228
Period size: 40 Copynumber: 4.9 Consensus size: 39
34362066 TGTGTATGAA
*
34362076 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
34362115 TGTGTGAGTTGTGATATCCGAGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * * *
34362154 TGTGCGAGCTATGATATCCGGGATAAACTCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGC-CCGAAGGCAAT
*
34362194 TGTGCGAGTTGTGATATCC-GGCTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGC-TAAG-CCCGAAGGCAAT
* * * * *
34362234 TGTGCGGGTTATCATAACCGGGCTATGTCCCGAAGG
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGG
34362270 TGTTTGAACA
Statistics
Matches: 132, Mismatches: 19, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
39 60 0.45
40 68 0.52
41 4 0.03
ACGTcount: A:0.24, C:0.20, G:0.30, T:0.25
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:34362206 original size:79 final size:79
Alignment explanation
Indices: 34362087--34362239 Score: 238
Period size: 79 Copynumber: 1.9 Consensus size: 79
34362077 GTGCGAATTG
* * *
34362087 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGTGAGTTGTGATATCCGAGC-TAAG-CCCGAAGG
1 TGATATCCGGGATAAACCCGAAGGCAATTGTGCGAGTTGTGATATCCG-GCTTAAGTCCCGAAGG
34362150 CAATTGTGCGAGCTA
65 CAATTGTGCGAGCTA
34362165 TGATATCCGGGATAAACTCCGAAGGCAATTGTGCGAGTTGTGATATCCGGCTTAAGTCCCGAAGG
1 TGATATCCGGGATAAAC-CCGAAGGCAATTGTGCGAGTTGTGATATCCGGCTTAAGTCCCGAAGG
*
34362230 CATTTGTGCG
65 CAATTGTGCG
34362240 GGTTATCATA
Statistics
Matches: 68, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
78 17 0.25
79 34 0.50
80 17 0.25
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.25
Consensus pattern (79 bp):
TGATATCCGGGATAAACCCGAAGGCAATTGTGCGAGTTGTGATATCCGGCTTAAGTCCCGAAGGC
AATTGTGCGAGCTA
Found at i:34364029 original size:24 final size:24
Alignment explanation
Indices: 34363997--34364043 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
34363987 ATATAAACGT
34363997 ACCTTATTCTTTGGGCTTTTCGAA
1 ACCTTATTCTTTGGGCTTTTCGAA
34364021 ACCTTATTCTTTGGGCTTTTCGA
1 ACCTTATTCTTTGGGCTTTTCGA
34364044 GCTTACTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.15, C:0.21, G:0.17, T:0.47
Consensus pattern (24 bp):
ACCTTATTCTTTGGGCTTTTCGAA
Found at i:34364155 original size:40 final size:40
Alignment explanation
Indices: 34364110--34364239 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
34364100 CGGAATACAA
34364110 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
34364150 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
34364190 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
34364230 CCGGATATAA
1 CCGGATATAA
34364240 TTTCCAGCAT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.04
40 73 0.96
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:34364254 original size:40 final size:40
Alignment explanation
Indices: 34364110--34364273 Score: 145
Period size: 40 Copynumber: 4.1 Consensus size: 40
34364100 CGGAATACAA
* **
34364110 CCGGATATAACCACGTGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCACCAGCAC-AATTGCCTTCGGGTCTTAGC
* *
34364150 CCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-CAGCAC-AATTGCCTTCGGGTCTTAGC
* ** * *
34364190 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
** * * *
34364230 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
34364270 CCGG
1 CCGG
34364274 GTATCATTCA
Statistics
Matches: 100, Mismatches: 21, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
39 2 0.02
40 98 0.98
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
Found at i:34368849 original size:46 final size:45
Alignment explanation
Indices: 34368681--34368851 Score: 168
Period size: 46 Copynumber: 3.7 Consensus size: 45
34368671 GGTTGAGCAT
* * *
34368681 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATAC-AACGC
* * * * *
34368727 CC-AACTCGTTGAGTTGAGTCCGAGTTC-GTGAGATGTA-ACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACT--TATGGATACAACGC
*
34368771 ATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATAC-AACGC
* *
34368819 CCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
34368852 GGGGCGGGTT
Statistics
Matches: 101, Mismatches: 16, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
44 3 0.03
45 26 0.26
46 42 0.42
47 26 0.26
48 4 0.04
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.29
Consensus pattern (45 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACAACGC
Found at i:34372786 original size:21 final size:22
Alignment explanation
Indices: 34372757--34372798 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
34372747 TCTCCATCTC
*
34372757 TCTCATTTCTT-CTCTATTCTT
1 TCTCATTTCTTCCTCAATTCTT
*
34372778 TCTCTTTTCTTCCTCAATTCT
1 TCTCATTTCTTCCTCAATTCT
34372799 CATATCTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.10, C:0.31, G:0.00, T:0.60
Consensus pattern (22 bp):
TCTCATTTCTTCCTCAATTCTT
Found at i:34376199 original size:2 final size:2
Alignment explanation
Indices: 34376192--34376223 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
34376182 ACCAGAACAG
34376192 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
34376224 GTGGCGAAGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:34376966 original size:27 final size:27
Alignment explanation
Indices: 34376935--34377075 Score: 183
Period size: 27 Copynumber: 5.2 Consensus size: 27
34376925 GGGCAAAATG
* * * *
34376935 GTAATTTTACCCCACGAGGGTATCTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
* * * * *
34376962 ATAATTCTACCTTACAGGGGCATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCA
*
34376989 GTATTTCTACCCTACAAGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
34377016 GTAATTCTACCCTACAAGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
34377043 GTAATTCTACCCTACAAGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
*
34377070 ATAATT
1 GTAATT
34377076 TTACAAATCA
Statistics
Matches: 97, Mismatches: 17, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 97 1.00
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.34
Consensus pattern (27 bp):
GTAATTCTACCCTACAAGGGTATTTCA
Found at i:34377087 original size:27 final size:28
Alignment explanation
Indices: 34377001--34377134 Score: 116
Period size: 27 Copynumber: 5.0 Consensus size: 28
34376991 ATTTCTACCC
* **
34377001 TACAAGGGTATTTCAGTAATTCTAC-CC
1 TACAAGGGTATTTCAGTAATTTTACAAA
* **
34377028 TACAAGGGTATTTCAGTAATTCTAC-CC
1 TACAAGGGTATTTCAGTAATTTTACAAA
*
34377055 TACAAGGGTATTTCAATAATTTTACAAA
1 TACAAGGGTATTTCAGTAATTTTACAAA
* **
34377083 T-CAAGAGTATTTTGGTAATTTTAC-AA
1 TACAAGGGTATTTCAGTAATTTTACAAA
* **
34377109 -ACAGGGGTATTTTGGTAATTTTACAA
1 TACAAGGGTATTTCAGTAATTTTACAA
34377135 CTTATCCACT
Statistics
Matches: 94, Mismatches: 10, Indels: 6
0.85 0.09 0.05
Matches are distributed among these distances:
26 23 0.24
27 70 0.74
28 1 0.01
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.37
Consensus pattern (28 bp):
TACAAGGGTATTTCAGTAATTTTACAAA
Found at i:34377101 original size:54 final size:54
Alignment explanation
Indices: 34376934--34377102 Score: 169
Period size: 54 Copynumber: 3.1 Consensus size: 54
34376924 GGGGCAAAAT
* * * * ** * * *
34376934 GGTAATTTTACCCCACGAGGGTATCTCAATAATTCTACCTTACAGGGGCATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCAATAATTCTACAATACAAGAGTATTTC
* * ** *
34376988 GGTATTTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCAATAATTCTACAATACAAGAGTATTTC
* * *
34377042 AGTAATTCTACCCTACAAGGGTATTTCAATAATTTTACAA-ATCAAGAGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTCAATAATTCTACAATA-CAAGAGTATTTC
34377096 GGTAATT
1 GGTAATT
34377103 TTACAAACAG
Statistics
Matches: 96, Mismatches: 18, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
53 1 0.01
54 95 0.99
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.35
Consensus pattern (54 bp):
GGTAATTCTACCCTACAAGGGTATTTCAATAATTCTACAATACAAGAGTATTTC
Found at i:34377125 original size:26 final size:27
Alignment explanation
Indices: 34377071--34377134 Score: 103
Period size: 26 Copynumber: 2.4 Consensus size: 27
34377061 GGTATTTCAA
34377071 TAATTTTACAAATCAAGAGTATTTTGG
1 TAATTTTACAAATCAAGAGTATTTTGG
* *
34377098 TAATTTTACAAA-CAGGGGTATTTTGG
1 TAATTTTACAAATCAAGAGTATTTTGG
34377124 TAATTTTACAA
1 TAATTTTACAA
34377135 CTTATCCACT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
26 23 0.66
27 12 0.34
ACGTcount: A:0.36, C:0.08, G:0.16, T:0.41
Consensus pattern (27 bp):
TAATTTTACAAATCAAGAGTATTTTGG
Found at i:34380838 original size:27 final size:27
Alignment explanation
Indices: 34380807--34381146 Score: 281
Period size: 27 Copynumber: 12.6 Consensus size: 27
34380797 TTAGTTTACC
* * *
34380807 AAATTACTAAAATACCCTCAAATTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
34380834 AAATTACCAAAGTACCCTCGATTTATA
1 AAATTACCAAAATACCCTCGATTTGTA
* **** *
34380861 GAATTACCGTTTTACCCTCGATTTATA
1 AAATTACCAAAATACCCTCGATTTGTA
* ***** **
34380888 GAATTACTGTTTTACCCTCGATTTACA
1 AAATTACCAAAATACCCTCGATTTGTA
* **
34380915 AAATTACTAAAATACCCTCGATTTACA
1 AAATTACCAAAATACCCTCGATTTGTA
**
34380942 AAATTACCAAAATACCCTCGATCAGTA
1 AAATTACCAAAATACCCTCGATTTGTA
*
34380969 AAATTACCAAAATACCCTAG-TTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* * *
34380995 AAATTACTAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* * **
34381022 AAATTGCTAAAATACCCTTAATTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
34381049 AAATTACAAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTGTA
** *
34381076 AAATTACCAAAATACCACT-GGCTTGTG
1 AAATTACCAAAATACC-CTCGATTTGTA
* *
34381103 AAATTACCAAAATACCCTCAATTTTTA
1 AAATTACCAAAATACCCTCGATTTGTA
*
34381130 AAATAACCAAAATACCC
1 AAATTACCAAAATACCC
34381147 CTGATTTACA
Statistics
Matches: 263, Mismatches: 45, Indels: 10
0.83 0.14 0.03
Matches are distributed among these distances:
26 25 0.10
27 237 0.90
28 1 0.00
ACGTcount: A:0.41, C:0.21, G:0.07, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTGTA
Found at i:34380985 original size:81 final size:78
Alignment explanation
Indices: 34380900--34381174 Score: 239
Period size: 81 Copynumber: 3.4 Consensus size: 78
34380890 ATTACTGTTT
* *
34380900 TACCCTCGATTTACAAAATTACTAAAATACCCTCGATTTACAAAATTACCAAAATACCCTCGATC
1 TACCC-CGATTTACAAAATTACTAAAATACCCTCGATTT--AAAATTACCAAAATACCCTCAATT
*
34380965 AGTAAAATTACCAAAA
63 TGTAAAATTACCAAAA
* ** * * * * *
34380981 TA-CCCTAGTTTGTAAAATTACTAAAATACCCTTGGTTTGTAAAATTGCTAAAATACCCTTAATT
1 TACCCCGA-TTTACAAAATTACTAAAATACCC-TCGATT-TAAAATTACCAAAATACCCTCAATT
*
34381045 TGTAAAATTACAAAAA
63 TGTAAAATTACCAAAA
* ** * * * *
34381061 TACCCCTAGTTTGTAAAATTACCAAAATACCACTGGCTTGTGAAATTACCAAAATACCCTCAATT
1 TACCCCGA-TTTACAAAATTACTAAAATACC-CTCGATT-TAAAATTACCAAAATACCCTCAATT
* *
34381126 TTTAAAATAACCAAAA
63 TGTAAAATTACCAAAA
*
34381142 TACCCCTGATTTACAAAGTTA-TAGAAATACCCT
1 TACCCC-GATTTACAAAATTACTA-AAATACCCT
34381175 TGACTTTTTA
Statistics
Matches: 161, Mismatches: 26, Indels: 15
0.80 0.13 0.07
Matches are distributed among these distances:
79 2 0.01
80 61 0.38
81 95 0.59
82 3 0.02
ACGTcount: A:0.42, C:0.21, G:0.07, T:0.30
Consensus pattern (78 bp):
TACCCCGATTTACAAAATTACTAAAATACCCTCGATTTAAAATTACCAAAATACCCTCAATTTGT
AAAATTACCAAAA
Found at i:34381381 original size:27 final size:27
Alignment explanation
Indices: 34381290--34381381 Score: 125
Period size: 27 Copynumber: 3.4 Consensus size: 27
34381280 ACCCCTATTA
*
34381290 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
34381317 GGTAAAGA-GACCGTAAAGCCCCTGTAG
1 GGTAAA-ATGACCGTAAAGCCCCTGTAG
* *
34381344 GGTAAAGTGACCGTAATA-CCCCTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
34381371 GGTAAAATGAC
1 GGTAAAATGAC
34381382 GAATATGCCC
Statistics
Matches: 59, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
27 57 0.97
28 2 0.03
ACGTcount: A:0.35, C:0.21, G:0.26, T:0.18
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:34382229 original size:26 final size:26
Alignment explanation
Indices: 34382180--34382376 Score: 283
Period size: 26 Copynumber: 7.7 Consensus size: 26
34382170 GAGGAAGTGT
**
34382180 AAAAGGGCTTATG-CCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
**
34382205 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
* *
34382231 AAAAGGGTTTATACCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
34382257 AAAAGGGCTTATGCCCTAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
34382283 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
**
34382309 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
34382335 AAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
34382360 AAAAGGG-TTTTGCCCCA
1 AAAAGGGCTTATGCCCCA
34382377 ATTATTAAAA
Statistics
Matches: 158, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
24 2 0.01
25 40 0.25
26 116 0.73
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:34382657 original size:26 final size:26
Alignment explanation
Indices: 34382622--34382750 Score: 201
Period size: 26 Copynumber: 5.1 Consensus size: 26
34382612 AATGATATGA
*
34382622 TTTAT-GAAAAGGGCTTATGCCCTAG
1 TTTATCGAAAAGGGCTTATGCCCCAG
*
34382647 TTTATTGAAAAGGGCTTATGCCCCAG
1 TTTATCGAAAAGGGCTTATGCCCCAG
34382673 TTTATCGAAAAGGGCTTATGCCCCAG
1 TTTATCGAAAAGGGCTTATGCCCCAG
*
34382699 TTTACCGAAAAGGGCTT-TGCCCCAG
1 TTTATCGAAAAGGGCTTATGCCCCAG
*
34382724 TTTACCGAAAAGGGCTT-TGCCCCAG
1 TTTATCGAAAAGGGCTTATGCCCCAG
34382749 TT
1 TT
34382751 ATTAAAAGAG
Statistics
Matches: 100, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
25 40 0.40
26 60 0.60
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (26 bp):
TTTATCGAAAAGGGCTTATGCCCCAG
Found at i:34382939 original size:371 final size:371
Alignment explanation
Indices: 34382256--34383004 Score: 1426
Period size: 371 Copynumber: 2.0 Consensus size: 371
34382246 CCAGTTTACC
34382256 GAAAAGGGCTTATGCCCTAGTTTACCGAAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTAT
1 GAAAAGGGCTTATGCCCTAGTTTACCGAAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTAT
** *
34382321 GCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCGAAAAGGGTTTTGCCCCAATTATTAAA
66 GCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAATTATTAAA
34382386 AGAGGCTAGGCCTCCAGATATATGATAAAGCAGCTATGTTGCCAGTGGTGTGTTGGTTGGGCGGG
131 AGAGGCTAGGCCTCCAGATATATGATAAAGCAGCTATGTTGCCAGTGGTGTGTTGGTTGGGCGGG
34382451 TTGAATCATTCCCCACATGGTGTGTTGGTTGGTACGGGTGGAGAGTAGCGGATGGTGGGTCGAGT
196 TTGAATCATTCCCCACATGGTGTGTTGGTTGGTACGGGTGGAGAGTAGCGGATGGTGGGTCGAGT
34382516 AGTCTCCCCAAATGGGCTTGCATACATCCATTGACATTACATGTGATATTGAAATGGGCCTAAGG
261 AGTCTCCCCAAATGGGCTTGCATACATCCATTGACATTACATGTGATATTGAAATGGGCCTAAGG
34382581 GCCATACCGTTTACAGTAAAGGCTTCGGCCCAATGATATGATTTAT
326 GCCATACCGTTTACAGTAAAGGCTTCGGCCCAATGATATGATTTAT
** *
34382627 GAAAAGGGCTTATGCCCTAGTTTATTGAAAAGGGCTTATGCCCCAGTTTATCGAAAAGGGCTTAT
1 GAAAAGGGCTTATGCCCTAGTTTACCGAAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTAT
*
34382692 GCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTATTAAA
66 GCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAATTATTAAA
34382757 AGAGGCTAGGCCTCCAGATATATGATAAAGCAGCTATGTTGCCAGTGGTGTGTTGGTTGGGCGGG
131 AGAGGCTAGGCCTCCAGATATATGATAAAGCAGCTATGTTGCCAGTGGTGTGTTGGTTGGGCGGG
34382822 TTGAATCATTCCCCACATGGTGTGTTGGTTGGTACGGGTGGAGAGTAGCGGATGGTGGGTCGAGT
196 TTGAATCATTCCCCACATGGTGTGTTGGTTGGTACGGGTGGAGAGTAGCGGATGGTGGGTCGAGT
34382887 AGTCTCCCCAAATGGGCTTGCATACATCCATTGACATTACATGTGATATTGAAATGGGCCTAAGG
261 AGTCTCCCCAAATGGGCTTGCATACATCCATTGACATTACATGTGATATTGAAATGGGCCTAAGG
*
34382952 GCCATACCGTTTACAGTAAAGGCTTTGGCCCAATGATATGATTTAT
326 GCCATACCGTTTACAGTAAAGGCTTCGGCCCAATGATATGATTTAT
34382998 GAAAAGG
1 GAAAAGG
34383005 CTTCGGCCCA
Statistics
Matches: 370, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
371 370 1.00
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.28
Consensus pattern (371 bp):
GAAAAGGGCTTATGCCCTAGTTTACCGAAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTAT
GCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAATTATTAAA
AGAGGCTAGGCCTCCAGATATATGATAAAGCAGCTATGTTGCCAGTGGTGTGTTGGTTGGGCGGG
TTGAATCATTCCCCACATGGTGTGTTGGTTGGTACGGGTGGAGAGTAGCGGATGGTGGGTCGAGT
AGTCTCCCCAAATGGGCTTGCATACATCCATTGACATTACATGTGATATTGAAATGGGCCTAAGG
GCCATACCGTTTACAGTAAAGGCTTCGGCCCAATGATATGATTTAT
Found at i:34383046 original size:31 final size:31
Alignment explanation
Indices: 34382969--34383081 Score: 137
Period size: 31 Copynumber: 3.7 Consensus size: 31
34382959 CGTTTACAGT
* *
34382969 AAAGGCTTTGGCCCAATGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
34383000 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
* *
34383031 AAAGGCTTCAGCCCAGT-A-ACTG-TTAAAT-A
1 AAAGGCTTCGGCCCAGTGATA-TGATT-TATGA
34383060 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
34383082 TCAATACTAA
Statistics
Matches: 74, Mismatches: 5, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
29 23 0.31
30 6 0.08
31 45 0.61
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:34383908 original size:25 final size:25
Alignment explanation
Indices: 34383874--34383923 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
34383864 AAGTCAACTC
34383874 TTTTAAATGAAAC-AGGGAGTTTTAG
1 TTTTAAATGAAACGA-GGAGTTTTAG
34383899 TTTTAAATGAAACGAGGAGTTTTAG
1 TTTTAAATGAAACGAGGAGTTTTAG
34383924 GGATTACTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 23 0.96
26 1 0.04
ACGTcount: A:0.36, C:0.04, G:0.24, T:0.36
Consensus pattern (25 bp):
TTTTAAATGAAACGAGGAGTTTTAG
Found at i:34384090 original size:21 final size:22
Alignment explanation
Indices: 34384065--34384106 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
34384055 TCTCTCTCAC
*
34384065 TCTCTTTTCTT-CTCTATTCTT
1 TCTCTTTTCTTCCTCAATTCTT
34384086 TCTCTTTTCTTCCTCAATTCT
1 TCTCTTTTCTTCCTCAATTCT
34384107 CATATCTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.07, C:0.31, G:0.00, T:0.62
Consensus pattern (22 bp):
TCTCTTTTCTTCCTCAATTCTT
Found at i:34385757 original size:13 final size:13
Alignment explanation
Indices: 34385741--34385766 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
34385731 GGTATGATTT
34385741 TTTGAAAATTTTG
1 TTTGAAAATTTTG
34385754 TTTGAAAATTTTG
1 TTTGAAAATTTTG
34385767 ACGTTTGAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (13 bp):
TTTGAAAATTTTG
Found at i:34390812 original size:19 final size:20
Alignment explanation
Indices: 34390775--34390813 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
34390765 ATAACGAGCA
34390775 TATATAACATATCATTCATT
1 TATATAACATATCATTCATT
34390795 TATAT-ACAT-TCATATCATT
1 TATATAACATATCAT-TCATT
34390814 CGTTGTCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.22
19 9 0.50
20 5 0.28
ACGTcount: A:0.38, C:0.15, G:0.00, T:0.46
Consensus pattern (20 bp):
TATATAACATATCATTCATT
Found at i:34391059 original size:43 final size:42
Alignment explanation
Indices: 34390990--34391107 Score: 139
Period size: 42 Copynumber: 2.8 Consensus size: 42
34390980 ATAAGTTCGT
* *
34390990 ACAATGCCAATT-TCCCAGACGTGGTCTTACATGAAATAAAAA
1 ACAATGCC-ATTGTCCCAGACATGGTCTTACACGAAATAAAAA
* * * * *
34391032 ATCGATGCCATTGTCCCAGACAAGGTCTTACACGAAATCATAT
1 A-CAATGCCATTGTCCCAGACATGGTCTTACACGAAATAAAAA
*
34391075 ACAATGCCAATGTCCCAGACATGGTCTTACACG
1 ACAATGCCATTGTCCCAGACATGGTCTTACACG
34391108 TAGATCACAA
Statistics
Matches: 64, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
42 33 0.52
43 31 0.48
ACGTcount: A:0.35, C:0.25, G:0.16, T:0.24
Consensus pattern (42 bp):
ACAATGCCATTGTCCCAGACATGGTCTTACACGAAATAAAAA
Found at i:34391095 original size:42 final size:42
Alignment explanation
Indices: 34390989--34391107 Score: 148
Period size: 43 Copynumber: 2.8 Consensus size: 42
34390979 CATAAGTTCG
* * *
34390989 TACAATGCCAATTTCCCAGACGTGGTCTTACATGAAATAAAA
1 TACAATGCCAATGTCCCAGACATGGTCTTACACGAAATAAAA
* * * * * *
34391031 AATCGATGCCATTGTCCCAGACAAGGTCTTACACGAAATCATA
1 TA-CAATGCCAATGTCCCAGACATGGTCTTACACGAAATAAAA
34391074 TACAATGCCAATGTCCCAGACATGGTCTTACACG
1 TACAATGCCAATGTCCCAGACATGGTCTTACACG
34391108 TAGATCACAA
Statistics
Matches: 63, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
42 30 0.48
43 33 0.52
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.24
Consensus pattern (42 bp):
TACAATGCCAATGTCCCAGACATGGTCTTACACGAAATAAAA
Found at i:34391147 original size:85 final size:85
Alignment explanation
Indices: 34390989--34391149 Score: 198
Period size: 85 Copynumber: 1.9 Consensus size: 85
34390979 CATAAGTTCG
* * * *** *
34390989 TACAATGCCAATTTCCCAGACGTGGTCTTACATGAAATAAAAAATCGATGCCATTGTCCCAGACA
1 TACAATGCCAATGTCCCAGACATGGTCTTACACGAAATAAAAAATCGATGCCAACATCCCAAACA
34391054 AGGTCTTACACGAAATCATA
66 AGGTCTTACACGAAATCATA
* * * *
34391074 TACAATGCCAATGTCCCAGACATGGTCTTACACGTAGATCACAAATTGATGCCAACATCCCAAAC
1 TACAATGCCAATGTCCCAGACATGGTCTTACACG-AAATAAAAAATCGATGCCAACATCCCAAAC
*
34391139 ATGG-CTTACAC
65 AAGGTCTTACAC
34391150 AATAACACAT
Statistics
Matches: 63, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
85 38 0.60
86 25 0.40
ACGTcount: A:0.35, C:0.26, G:0.15, T:0.24
Consensus pattern (85 bp):
TACAATGCCAATGTCCCAGACATGGTCTTACACGAAATAAAAAATCGATGCCAACATCCCAAACA
AGGTCTTACACGAAATCATA
Found at i:34398032 original size:38 final size:38
Alignment explanation
Indices: 34397981--34398056 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
34397971 GTTTCGAGGT
34397981 AAGTTTACGGTAAATAAATGCAATATTCTATTATTTTA
1 AAGTTTACGGTAAATAAATGCAATATTCTATTATTTTA
34398019 AAGTTTACGGTAAATAAATGCAATATTCTATTATTTTA
1 AAGTTTACGGTAAATAAATGCAATATTCTATTATTTTA
34398057 TGTTAATGTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.39, C:0.08, G:0.11, T:0.42
Consensus pattern (38 bp):
AAGTTTACGGTAAATAAATGCAATATTCTATTATTTTA
Found at i:34398386 original size:53 final size:54
Alignment explanation
Indices: 34398208--34398446 Score: 199
Period size: 55 Copynumber: 4.5 Consensus size: 54
34398198 ATTAGGGTTT
* ** *
34398208 AAGGATACCATGTAAAACCATGCCAAGGCATGAAAATTGGTAAGGTTTC-TAAGAC
1 AAGGATACCATGTAAGACCATGCCAAGGCAT-AGCATTGGTAA-GTTTCATAAGGC
* * * * *
34398263 GAGGATATCATGTAAGACCATGTCAAGACAT-GACATTGATAAGTTTCTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGGCATAG-CATTGGTAAGTTTC-ATAAGGC
* * *
34398318 AAAGG-TCCCATGTAAGACCATACCAAGGCATAGCATTGGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGGCATAGCATTGGTAAGTTTCATAAGGC
* * * * * *
34398371 AAGGATACCATGTAAGACCATGTCGAGACATGGCAATGATAAGTTTC--AA---
1 AAGGATACCATGTAAGACCATGCCAAGGCATAGCATTGGTAAGTTTCATAAGGC
*
34398420 AAGGATACCATGTAAGACCATGACAAG
1 AAGGATACCATGTAAGACCATGCCAAG
34398447 TCATGGAAAT
Statistics
Matches: 149, Mismatches: 28, Indels: 20
0.76 0.14 0.10
Matches are distributed among these distances:
49 25 0.17
52 6 0.04
53 41 0.28
54 13 0.09
55 60 0.40
56 4 0.03
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.22
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGGCATAGCATTGGTAAGTTTCATAAGGC
Found at i:34398411 original size:108 final size:110
Alignment explanation
Indices: 34398215--34398417 Score: 277
Period size: 108 Copynumber: 1.9 Consensus size: 110
34398205 TTTAAGGATA
* * *
34398215 CCATGTAAAACCATGCCAAGGCATGAAAATTGGTAAGGTTTCTAAGACGAGGATATCATGTAAGA
1 CCATGTAAAACCATACCAAGGCATGAAAATTGGTAAGGTTTCTAAGACAAGGATACCATGTAAGA
*
34398280 CCATGTCAAGACATGACATTGATAAGTTTCTATAAGGCAAAGGTC
66 CCATGTCAAGACATGACAATGATAAGTTTCTATAAGGCAAAGGTC
* ** * *
34398325 CCATGTAAGACCATACCAAGGCAT-AGCATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAAACCATACCAAGGCATGAAAATTGGTAAGGTTTC-TAAGACAAGGATACCATGTAAG
* *
34398387 ACCATGTCGAGACATGGCAATGATAAGTTTC
65 ACCATGTCAAGACATGACAATGATAAGTTTC
34398418 AAAAGGATAC
Statistics
Matches: 81, Mismatches: 11, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
107 3 0.04
108 48 0.59
109 8 0.10
110 22 0.27
ACGTcount: A:0.36, C:0.18, G:0.23, T:0.24
Consensus pattern (110 bp):
CCATGTAAAACCATACCAAGGCATGAAAATTGGTAAGGTTTCTAAGACAAGGATACCATGTAAGA
CCATGTCAAGACATGACAATGATAAGTTTCTATAAGGCAAAGGTC
Found at i:34403857 original size:73 final size:73
Alignment explanation
Indices: 34403777--34403923 Score: 294
Period size: 73 Copynumber: 2.0 Consensus size: 73
34403767 AAAAACTCCA
34403777 ATACAAAATATGTTAATCTAAAACATATATTTCATATTTCATCATCAAACAACAAAAATCACAAG
1 ATACAAAATATGTTAATCTAAAACATATATTTCATATTTCATCATCAAACAACAAAAATCACAAG
34403842 TTATCAAC
66 TTATCAAC
34403850 ATACAAAATATGTTAATCTAAAACATATATTTCATATTTCATCATCAAACAACAAAAATCACAAG
1 ATACAAAATATGTTAATCTAAAACATATATTTCATATTTCATCATCAAACAACAAAAATCACAAG
34403915 TTATCAAC
66 TTATCAAC
34403923 A
1 A
34403924 ATGGTATAAC
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 74 1.00
ACGTcount: A:0.50, C:0.18, G:0.03, T:0.30
Consensus pattern (73 bp):
ATACAAAATATGTTAATCTAAAACATATATTTCATATTTCATCATCAAACAACAAAAATCACAAG
TTATCAAC
Found at i:34409381 original size:43 final size:43
Alignment explanation
Indices: 34409261--34409419 Score: 162
Period size: 43 Copynumber: 3.7 Consensus size: 43
34409251 AGCTCGTACA
* * *
34409261 ATGCCAATGTCCCAGACGTGGTCTTACATGT-AATCAAATATTG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCAAATA-CG
* * * * *
34409304 ATGCCACTATCCCAGATAGGGTCTTACATG-AAATCAAATACG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCAAATACG
* *
34409346 ATGCCGATGTCTCAGACATGGTCTTACACGTAAATCATAAGT-CG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCA-AA-TACG
* *
34409390 ATGCCAACGTCCCAGACGTGGTCTTACACG
1 ATGCCAATGTCCCAGACATGGTCTTACACG
34409420 AAAAAAACAT
Statistics
Matches: 95, Mismatches: 17, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
42 24 0.25
43 40 0.42
44 30 0.32
45 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCAAATACG
Found at i:34416508 original size:43 final size:43
Alignment explanation
Indices: 34416447--34416533 Score: 147
Period size: 43 Copynumber: 2.0 Consensus size: 43
34416437 AAATGTCTTC
* *
34416447 CAATCGAGCACAAGATGAGTCTGAGGGAGCCGAGAGCCATGCT
1 CAATCGAGCACAAGATGAGTCCGAGGGAGCCAAGAGCCATGCT
*
34416490 CAATCGAGCACAAGATGAGTCCGAGGGAGCTAAGAGCCATGCT
1 CAATCGAGCACAAGATGAGTCCGAGGGAGCCAAGAGCCATGCT
34416533 C
1 C
34416534 CAGCTTTCGT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.31, C:0.24, G:0.31, T:0.14
Consensus pattern (43 bp):
CAATCGAGCACAAGATGAGTCCGAGGGAGCCAAGAGCCATGCT
Done.