Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 156 of 425
Found at i:47460046 original size:58 final size:58
Alignment explanation
Indices: 47459946--47460078 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
47459936 GTGACGAGAT
* * * * * *
47459946 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT-GAAATCACA
* * ** * * *
47460004 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
47460062 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
47460079 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (58 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
Found at i:47463684 original size:40 final size:41
Alignment explanation
Indices: 47463609--47463817 Score: 257
Period size: 40 Copynumber: 5.2 Consensus size: 41
47463599 TGAATGATAC
* *
47463609 CCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGATTATAT
*
47463649 CCGGGCTAAG-CCCGAAGGCATTTATGCTAGTTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGATTATAT
* * *
47463689 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGATTATAT
* ** *
47463730 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTT-ACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGATTATAT
* * * *
47463770 CCGGGTTAAGACCCGAAGGCAATTGTGCTTG-TGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGATTATAT
47463810 CC-GGCTAA
1 CCGGGCTAA
47463818 ATTCCGAAGA
Statistics
Matches: 147, Mismatches: 19, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
39 26 0.18
40 64 0.44
41 57 0.39
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.27
Consensus pattern (41 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGATTATAT
Found at i:47463773 original size:81 final size:80
Alignment explanation
Indices: 47463609--47463790 Score: 240
Period size: 81 Copynumber: 2.3 Consensus size: 80
47463599 TGAATGATAC
* * *
47463609 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGCCCGAAGGCATTTAT
1 CCGGGCTAAGACCCGAAGGCATTCATGCGAGTGATTATATCCGGGCTAAGCCCGAAGGCATTTAT
* ** *
47463674 GCTAGTTGATTATAT
66 GCAAGTTGACCAAAT
* *
47463689 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTTATATCCGGGCTAAGACCCGAAGGCATTT
1 CCGGGCTAAGACCCGAAGGCATTCATGCGAG-TGATTATATCCGGGCTAAG-CCCGAAGGCATTT
*
47463754 GTGCAAGTT-ACCAAAT
64 ATGCAAGTTGACCAAAT
*
47463770 CCGGGTTAAGACCCGAAGGCA
1 CCGGGCTAAGACCCGAAGGCA
47463791 ATTGTGCTTG
Statistics
Matches: 89, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
80 27 0.30
81 42 0.47
82 20 0.22
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCATTCATGCGAGTGATTATATCCGGGCTAAGCCCGAAGGCATTTAT
GCAAGTTGACCAAAT
Found at i:47471704 original size:39 final size:40
Alignment explanation
Indices: 47471645--47471849 Score: 240
Period size: 40 Copynumber: 5.2 Consensus size: 40
47471635 TGAATGATAC
* *
47471645 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
*
47471685 CCGGGCTAAG-CCCGAAGGCATTTATGCTAGTGATTA-AT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* *
47471723 CCGGGCTAAGA-CCGAAGGCATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATAT
* * ** *
47471762 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * * *
47471802 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
47471842 CC-GGCTAA
1 CCGGGCTAA
47471850 ATTCCGAAGA
Statistics
Matches: 141, Mismatches: 19, Indels: 11
0.82 0.11 0.06
Matches are distributed among these distances:
38 31 0.22
39 47 0.33
40 63 0.45
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
Found at i:47488771 original size:27 final size:26
Alignment explanation
Indices: 47488731--47488871 Score: 160
Period size: 27 Copynumber: 5.2 Consensus size: 26
47488721 AGGAAGCGTC
*
47488731 CTGGTGGCTATGCCATAATTATCTGAT
1 CTGGTGGCTCTGCCA-AATTATCTGAT
*
47488758 CTGGTGGCTCTGCCACATATATCTG-T
1 CTGGTGGCTCTGCCAAAT-TATCTGAT
*
47488784 CCTGGTGGCTATGCCACAATTATCTGAT
1 -CTGGTGGCTCTGCCA-AATTATCTGAT
* *
47488812 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCAAAT-TATCTGAT
47488839 CTGGTGGCTCTGCCACAA-TATCTGTAT
1 CTGGTGGCTCTGCCA-AATTATCTG-AT
47488866 CTGGTG
1 CTGGTG
47488872 ATTTCGTCAC
Statistics
Matches: 98, Mismatches: 9, Indels: 14
0.81 0.07 0.12
Matches are distributed among these distances:
26 11 0.11
27 83 0.85
28 4 0.04
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (26 bp):
CTGGTGGCTCTGCCAAATTATCTGAT
Found at i:47488810 original size:54 final size:54
Alignment explanation
Indices: 47488728--47488871 Score: 245
Period size: 54 Copynumber: 2.7 Consensus size: 54
47488718 TGGAGGAAGC
*
47488728 GTCCTGGTGGCTATGCCATAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
47488782 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
* *
47488836 GTTCTGGTGGCTCTGCCACAA-TATCTGTATCTGGTG
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTG
47488872 ATTTCGTCAC
Statistics
Matches: 86, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
53 6 0.07
54 80 0.93
ACGTcount: A:0.17, C:0.24, G:0.24, T:0.35
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
Found at i:47488883 original size:81 final size:80
Alignment explanation
Indices: 47488731--47488889 Score: 198
Period size: 81 Copynumber: 2.0 Consensus size: 80
47488721 AGGAAGCGTC
* *
47488731 CTGGTGGCTATGCCATAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGGCTAT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGGATAT
47488796 GCCACAATTATCTGAT
66 GCCACAA-TATCTGAT
* * *
47488812 CTGGTGGCTCTGCCAC-ATATATCTGTTCTGGTGGCTCTGCCACA-ATATCTGTATCTGGT-GAT
1 CTGGTGGCTATGCCACAAT-TATCTGATCTGGTGGCTCTGCCACATATATCTGT-CCTGGTGGAT
* *
47488874 TTCGTCACAATATCTG
64 AT-GCCACAATATCTG
47488890 GTAGCCTCAC
Statistics
Matches: 68, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
80 19 0.28
81 49 0.72
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (80 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGGATAT
GCCACAATATCTGAT
Found at i:47492038 original size:40 final size:40
Alignment explanation
Indices: 47491918--47492031 Score: 185
Period size: 40 Copynumber: 2.9 Consensus size: 40
47491908 TCGAAGGCAA
47491918 TTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAG
1 TTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAG
47491958 TTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAG
1 TTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAG
* * *
47491998 TTACTATAA-CCGGGCTATGTCCCGAAGACATTTG
1 TTACTA-AATCCGGGTTAAGTCCCGAAGGCATTTG
47492032 AACGAGTAGC
Statistics
Matches: 70, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
40 68 0.97
41 2 0.03
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.28
Consensus pattern (40 bp):
TTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAG
Found at i:47497015 original size:39 final size:39
Alignment explanation
Indices: 47496972--47497110 Score: 140
Period size: 39 Copynumber: 3.5 Consensus size: 39
47496962 CGGATATAAC
*
47496972 GACTCGCTCAAATGCCTTCGGGAC-AAGCCC-GGTTATAGT
1 GACTCGCACAAATGCCTTCGGGACTAA-CCCGGGTT-TAGT
*
47497011 GACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGT
1 GACTCGCACAAATGCCTTCGGGAC-TAACCCGGGTTTAGT
* * * * *
47497051 AACTTGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATT
1 GACTCGCACAAATGCCTTCGGGAC-TAACCCGGGTTTAGT
* *
47497090 AACTCGCACGAATGCCTTCGG
1 GACTCGCACAAATGCCTTCGG
47497111 ATCCTAGTCC
Statistics
Matches: 87, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
39 55 0.63
40 26 0.30
41 6 0.07
ACGTcount: A:0.22, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
GACTCGCACAAATGCCTTCGGGACTAACCCGGGTTTAGT
Found at i:47497065 original size:40 final size:40
Alignment explanation
Indices: 47496973--47497163 Score: 194
Period size: 40 Copynumber: 4.8 Consensus size: 40
47496963 GGATATAACG
* * *
47496973 ACTCGCTCAAATGCCTTCGGGAC-AAGCCCGG-TTATAGTG
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT-TAGTA
* * *
47497012 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* *
47497052 ACTTGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* * * * *
47497091 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCACAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTA
*
47497131 ACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAATGCCTTCGGGACTTAGCCCGGA
47497164 CATCATTCGA
Statistics
Matches: 125, Mismatches: 21, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
38 2 0.02
39 52 0.42
40 59 0.47
41 12 0.10
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
Found at i:47497071 original size:79 final size:81
Alignment explanation
Indices: 47496980--47497163 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
47496970 ACGACTCGCT
* * *
47496980 CAAATGCCTTCGGGAC-AAGCCCGG-TTATAGTGACTCGCACGAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCTTC-GGATCCTAACCC
* *
47497042 GGGTTTAGTAACTT-GCA
64 GGATATAGTAACTTAGCA
* **
47497059 CAAATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCACGAATGCCTTCGGATCCTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
*
47497123 ATATAGTCACTTAGCA
66 ATATAGTAACTTAGCA
47497139 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
47497164 CATCATTCGA
Statistics
Matches: 91, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
78 4 0.04
79 67 0.74
80 20 0.22
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
ATATAGTAACTTAGCA
Found at i:47514297 original size:13 final size:13
Alignment explanation
Indices: 47514279--47514304 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
47514269 ATCTCTACAG
47514279 TAATAATAATAAC
1 TAATAATAATAAC
47514292 TAATAATAATAAC
1 TAATAATAATAAC
47514305 ATCCTCTTGC
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:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (13 bp):
TAATAATAATAAC
Found at i:47518240 original size:46 final size:46
Alignment explanation
Indices: 47518095--47518315 Score: 254
Period size: 46 Copynumber: 4.7 Consensus size: 46
47518085 ATTTGTTTGT
* * * *
47518095 GAGCTAGTGTAAGACATGTATGGGACATGCATCGGCCAC-ATTATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GACGA
* *
47518141 GAGAC-AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGA
1 GAG-CTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGACGA
47518189 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGTA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACG-A
* *
47518236 -AGCTAGTGTAAGACATGTCTGGGACATGCATTGG-CTACGAGATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGACGA
*
47518281 TAGCTA-TGTAAGACCATGTCTGGGACATGGCATCG
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCG
47518316 ACTTGGGATA
Statistics
Matches: 154, Mismatches: 11, Indels: 19
0.84 0.06 0.10
Matches are distributed among these distances:
45 10 0.06
46 85 0.55
47 35 0.23
48 23 0.15
49 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.31, T:0.23
Consensus pattern (46 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGA
Found at i:47518338 original size:92 final size:92
Alignment explanation
Indices: 47518095--47518362 Score: 224
Period size: 92 Copynumber: 2.9 Consensus size: 92
47518085 ATTTGTTTGT
* * * ** *
47518095 GAGCTAGTGTAAGACATGTATGGGACATGCATCGG-C-C-ACATTATGAGAGACAGTGTAAGACC
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGACTCGAGA-CAT-A-ACCCAATGTAAGA-C
*
47518157 ATGTCTGGGACATGGCATCGGCATTGAGACGA
62 ATGTCTGGGACAT-GCATCGGCATCGAGACGA
* * * * *
47518189 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGTAAGCTAGTGTAAGACATGT
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGACTCGAGACATAACCCAATGTAAGACATGT
* *
47518254 CTGGGACATGCATTGGC-TACGAGATGA
66 CTGGGACATGCATCGGCAT-CGAGACGA
* * * * *
47518281 TAGCTA-TGTAAGACCATGTCTGGGACATGGCATC-GACTTGGGATATGACCCAATGTAAGACTA
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGACTCGAGACATAACCCAATGTAAGAC-A
*
47518344 TGTATGGGACATGGCATCG
63 TGTCTGGGACAT-GCATCG
47518363 ATACCTTACC
Statistics
Matches: 145, Mismatches: 21, Indels: 16
0.80 0.12 0.09
Matches are distributed among these distances:
91 8 0.06
92 50 0.34
93 31 0.21
94 50 0.34
95 2 0.01
96 2 0.01
97 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.23
Consensus pattern (92 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGACTCGAGACATAACCCAATGTAAGACATGT
CTGGGACATGCATCGGCATCGAGACGA
Found at i:47520288 original size:27 final size:26
Alignment explanation
Indices: 47520244--47520436 Score: 197
Period size: 26 Copynumber: 7.3 Consensus size: 26
47520234 CATCATAAGA
* *
47520244 AAGCTTTTGTGGCTATCTTTGAAAGG
1 AAGCCTTTGTGGCTATCTTTAAAAGG
* *
47520270 AAGCCTTTATGGCTAATCTCTAAAAGG
1 AAGCCTTTGTGGCT-ATCTTTAAAAGG
** * * * *
47520297 ACTCTTTTGTGGCTAGCTCTGAAAGG
1 AAGCCTTTGTGGCTATCTTTAAAAGG
*
47520323 AAGCCTTTGTGGCTAATCTTTAAAGGG
1 AAGCCTTTGTGGCT-ATCTTTAAAAGG
* * *
47520350 ACGCCTTTGTGGCTATCTTTGAAAGA
1 AAGCCTTTGTGGCTATCTTTAAAAGG
* *
47520376 AAGCCTTTATAGCTATCTTTAAAAGG
1 AAGCCTTTGTGGCTATCTTTAAAAGG
* *
47520402 AAGCCTTTGTGGCTAATATCTAAAAGG
1 AAGCCTTTGTGGCT-ATCTTTAAAAGG
47520429 AAGCCTTT
1 AAGCCTTT
47520437 ATGGTTAATC
Statistics
Matches: 134, Mismatches: 30, Indels: 5
0.79 0.18 0.03
Matches are distributed among these distances:
26 75 0.56
27 59 0.44
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.34
Consensus pattern (26 bp):
AAGCCTTTGTGGCTATCTTTAAAAGG
Found at i:47520327 original size:53 final size:53
Alignment explanation
Indices: 47520249--47520447 Score: 256
Period size: 53 Copynumber: 3.8 Consensus size: 53
47520239 TAAGAAAGCT
* * * *
47520249 TTTGTGGCTATCTTTGAAAGGAAGCCTTTATGGCTAATCTCTAAAAGGACTCT
1 TTTGTGGCTATCTCTGAAAGGAAGCCTTTATGGCTAATCTTTAAAAGGACGCC
* * *
47520302 TTTGTGGCTAGCTCTGAAAGGAAGCCTTTGTGGCTAATCTTTAAAGGGACGCC
1 TTTGTGGCTATCTCTGAAAGGAAGCCTTTATGGCTAATCTTTAAAAGGACGCC
* * * *
47520355 TTTGTGGCTATCTTTGAAAGAAAGCCTTTATAGCT-ATCTTTAAAAGGAAGCC
1 TTTGTGGCTATCTCTGAAAGGAAGCCTTTATGGCTAATCTTTAAAAGGACGCC
* * *
47520407 TTTGTGGCTAATATCTAAAAGGAAGCCTTTATGGTTAATCT
1 TTTGTGGCT-ATCTCTGAAAGGAAGCCTTTATGGCTAATCT
47520448 ATGTTAAAGA
Statistics
Matches: 124, Mismatches: 20, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
52 24 0.19
53 96 0.77
54 4 0.03
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.35
Consensus pattern (53 bp):
TTTGTGGCTATCTCTGAAAGGAAGCCTTTATGGCTAATCTTTAAAAGGACGCC
Found at i:47527131 original size:45 final size:45
Alignment explanation
Indices: 47527064--47527152 Score: 169
Period size: 45 Copynumber: 2.0 Consensus size: 45
47527054 AAATAGACCA
*
47527064 TTGGATTTTAGCTTGGCTAGCCATGAGACAAAGAACTTAAATGGC
1 TTGGATTTTAGCTTGGCCAGCCATGAGACAAAGAACTTAAATGGC
47527109 TTGGATTTTAGCTTGGCCAGCCATGAGACAAAGAACTTAAATGG
1 TTGGATTTTAGCTTGGCCAGCCATGAGACAAAGAACTTAAATGG
47527153 TCAAAGTGTT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (45 bp):
TTGGATTTTAGCTTGGCCAGCCATGAGACAAAGAACTTAAATGGC
Found at i:47528197 original size:48 final size:47
Alignment explanation
Indices: 47528098--47528319 Score: 188
Period size: 48 Copynumber: 4.7 Consensus size: 47
47528088 GATGTAAGCT
* * *
47528098 AGTGTAAGA-CATGTTTGGAACAT-GCATCGGCTACG---AGATGTATC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-ACGTATAGA-GTGTC
47528142 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGTATAGAGGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGTATAGA-GTGTC
* *
47528190 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATGGATATGTAAGTG-C
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGTATA-G--AGTGTC
* * * * * * *
47528239 TAGTGTAAGACTATGTCCGGGACATGGCGTCGGCCTCGATTTCGA-TAGTT
1 -AGTGTAAGACCATGTCTGGGACATGGCATCGG-CACG-TATAGAGT-GTC
*
47528289 AGTGCAAGACCATGTCTGGGACATGGCATCG
1 AGTGTAAGACCATGTCTGGGACATGGCATCG
47528320 ACATTACACC
Statistics
Matches: 146, Mismatches: 19, Indels: 21
0.78 0.10 0.11
Matches are distributed among these distances:
44 9 0.06
45 15 0.10
46 8 0.05
48 46 0.32
49 31 0.21
50 32 0.22
51 4 0.03
52 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.31, T:0.25
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGTATAGAGTGTC
Found at i:47528265 original size:50 final size:50
Alignment explanation
Indices: 47528047--47528319 Score: 249
Period size: 46 Copynumber: 5.7 Consensus size: 50
47528037 GGTTATTTGT
* * *
47528047 GTGCTAGTGTAAGA-CATGTTTGGGACAT-GCATCGGCCTCGAGATGTAA
1 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGATATGTAA
* * *
47528095 --GCTAGTGTAAGA-CATGTTTGGAACAT-GCATCGGC-TACGAGATGT-A
1 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT-CGATATGTAA
*
47528140 -T-C-AGTGTAAGACCATGTCTGGGACATGGCATCGGCA-CG-TATAG-AG
1 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGATAT-GTAA
*
47528185 GTG-TCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATGGATATGTAA
1 GTGCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGATATGTAA
* * * * *
47528235 GTGCTAGTGTAAGACTATGTCCGGGACATGGCGTCGGCCTCGATTTCG-ATA
1 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGATAT-GTA-A
*
47528286 GT--TAGTGCAAGACCATGTCTGGGACATGGCATCG
1 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCG
47528320 ACATTACACC
Statistics
Matches: 191, Mismatches: 17, Indels: 33
0.79 0.07 0.14
Matches are distributed among these distances:
44 11 0.06
45 18 0.09
46 50 0.26
48 34 0.18
49 30 0.16
50 43 0.23
51 5 0.03
ACGTcount: A:0.25, C:0.18, G:0.31, T:0.26
Consensus pattern (50 bp):
GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGATATGTAA
Found at i:47531137 original size:32 final size:32
Alignment explanation
Indices: 47531100--47531164 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
47531090 CATTTCAAAG
47531100 TTCATTTCTAAATGTTTGATTTGTTAGCAAGT
1 TTCATTTCTAAATGTTTGATTTGTTAGCAAGT
*
47531132 TTCATTTCTAAATGTTTTATTTGTTAGCAAGT
1 TTCATTTCTAAATGTTTGATTTGTTAGCAAGT
47531164 T
1 T
47531165 AAAGTTGAGC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.25, C:0.09, G:0.14, T:0.52
Consensus pattern (32 bp):
TTCATTTCTAAATGTTTGATTTGTTAGCAAGT
Found at i:47533600 original size:43 final size:43
Alignment explanation
Indices: 47533547--47533645 Score: 110
Period size: 43 Copynumber: 2.3 Consensus size: 43
47533537 GATGTGATTC
* * * *
47533547 CATGCAAGACCATGCCTGGGACATTGGCATTGCAT-TGAGATTA
1 CATGTAAGACCATGCCTGGGACAGTGGCATCG-ATATGAGATAA
* * * *
47533590 CGTGTAAGACCCTGTCTGGGACAGTGGCATCGATATGTGATAA
1 CATGTAAGACCATGCCTGGGACAGTGGCATCGATATGAGATAA
47533633 CATGTAAGACCAT
1 CATGTAAGACCAT
47533646 ATCAGTAACA
Statistics
Matches: 45, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
42 2 0.04
43 43 0.96
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.25
Consensus pattern (43 bp):
CATGTAAGACCATGCCTGGGACAGTGGCATCGATATGAGATAA
Found at i:47534986 original size:44 final size:42
Alignment explanation
Indices: 47534938--47535037 Score: 118
Period size: 41 Copynumber: 2.4 Consensus size: 42
47534928 AGAACGATTC
*
47534938 CGCACACTTAGTGCCATCTCA-ATTAGCCGAAGCTAAG-TCAGTAT
1 CGCACACTTAGTGCCA-CTCATA-TAGCCGAAGCT-AGTTCA-AAT
*
47534982 CGCACACTTAGTG-C-CTCATATAGCCGAAGCTAGTTTAAAT
1 CGCACACTTAGTGCCACTCATATAGCCGAAGCTAGTTCAAAT
47535022 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
47535038 AATACTATTG
Statistics
Matches: 50, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
40 17 0.34
41 18 0.36
42 1 0.02
43 1 0.02
44 13 0.26
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (42 bp):
CGCACACTTAGTGCCACTCATATAGCCGAAGCTAGTTCAAAT
Found at i:47542435 original size:13 final size:13
Alignment explanation
Indices: 47542414--47542471 Score: 71
Period size: 13 Copynumber: 4.5 Consensus size: 13
47542404 AAAATTTTTC
47542414 AAAGCACTTCTCA
1 AAAGCACTTCTCA
*
47542427 AAAGTACTTCTCA
1 AAAGCACTTCTCA
* *
47542440 AAAGCACTTTTCC
1 AAAGCACTTCTCA
* *
47542453 ACAGCACTTTTCA
1 AAAGCACTTCTCA
47542466 AAAGCA
1 AAAGCA
47542472 ATGAAGAACT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 38 1.00
ACGTcount: A:0.38, C:0.28, G:0.09, T:0.26
Consensus pattern (13 bp):
AAAGCACTTCTCA
Found at i:47544535 original size:42 final size:42
Alignment explanation
Indices: 47544488--47544581 Score: 116
Period size: 42 Copynumber: 2.2 Consensus size: 42
47544478 GCCCTATTTC
* * * * * *
47544488 CACACGGCTTGTGACACGGGTGTGTTTGATAACCGTGTGAGG
1 CACACGACCTGTGACACAGGCGTGTCTGATAACCGTGTAAGG
* *
47544530 CACACGACCTGTGACATAGGCGTGTCTGATAGCCGTGTAAGG
1 CACACGACCTGTGACACAGGCGTGTCTGATAACCGTGTAAGG
47544572 CACACGACCT
1 CACACGACCT
47544582 ATTCACACGG
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.22, C:0.24, G:0.31, T:0.22
Consensus pattern (42 bp):
CACACGACCTGTGACACAGGCGTGTCTGATAACCGTGTAAGG
Found at i:47545065 original size:26 final size:26
Alignment explanation
Indices: 47545036--47545111 Score: 71
Period size: 27 Copynumber: 2.8 Consensus size: 26
47545026 TGTATTGGCG
*
47545036 AACTATGTTTGCAATGTGTTTTCGTA
1 AACTATGTTTGCAATGTGTTTTCGCA
* ** *
47545062 AACTATGTTCGCAGATAAGTTTTGGCA
1 AACTATGTTTGCA-ATGTGTTTTCGCA
* *
47545089 AAATATGTTTGAAATTGTGTTTT
1 AACTATGTTTGCAA-TGTGTTTT
47545112 GACGAATTAT
Statistics
Matches: 38, Mismatches: 10, Indels: 3
0.75 0.20 0.06
Matches are distributed among these distances:
26 13 0.34
27 25 0.66
ACGTcount: A:0.28, C:0.09, G:0.20, T:0.43
Consensus pattern (26 bp):
AACTATGTTTGCAATGTGTTTTCGCA
Found at i:47551430 original size:26 final size:26
Alignment explanation
Indices: 47551391--47551451 Score: 95
Period size: 26 Copynumber: 2.3 Consensus size: 26
47551381 CCTGACTTAC
* *
47551391 AGCTGGTGTGAGTAGGTCCATTTCAT
1 AGCTCGTGTAAGTAGGTCCATTTCAT
47551417 AGCTCGTGTAAGTAGGTCCATTTCAT
1 AGCTCGTGTAAGTAGGTCCATTTCAT
*
47551443 AGCTTGTGT
1 AGCTCGTGT
47551452 GAGCATTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.20, C:0.16, G:0.28, T:0.36
Consensus pattern (26 bp):
AGCTCGTGTAAGTAGGTCCATTTCAT
Found at i:47557930 original size:24 final size:28
Alignment explanation
Indices: 47557903--47557960 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 28
47557893 CTCCCTTTCC
*
47557903 TCTTCTC-CTTTCTCA-T-TCTTGCTT-
1 TCTTCTCTCTTTATCACTCTCTTGCTTA
47557927 TCTTC-CTCTTTATCACTCTCTTGCTTA
1 TCTTCTCTCTTTATCACTCTCTTGCTTA
47557954 TCTTCTC
1 TCTTCTC
47557961 ACGTTCTGGA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
23 1 0.04
24 12 0.43
25 1 0.04
26 8 0.29
27 5 0.18
28 1 0.04
ACGTcount: A:0.07, C:0.34, G:0.03, T:0.55
Consensus pattern (28 bp):
TCTTCTCTCTTTATCACTCTCTTGCTTA
Found at i:47562262 original size:27 final size:27
Alignment explanation
Indices: 47562215--47562537 Score: 407
Period size: 27 Copynumber: 12.0 Consensus size: 27
47562205 GGTCGTTATT
* *
47562215 TGACTGTAATACCCCTATAGGGTAAAA
1 TGACCGTAATACCCCTGTAGGGTAAAA
* * *
47562242 TGATCGTAATTCCTCTGTAGGGTAAAA
1 TGACCGTAATACCCCTGTAGGGTAAAA
* *
47562269 TGACAGTAATTCCCCTGTAGGGTAAAA
1 TGACCGTAATACCCCTGTAGGGTAAAA
*
47562296 TGACTGTAATACCCCTGTAGGG-AAAA
1 TGACCGTAATACCCCTGTAGGGTAAAA
*
47562322 TAACCGTAATACCCCTGTAGGG-AAAA
1 TGACCGTAATACCCCTGTAGGGTAAAA
* *
47562348 TAACCGTAATACCCCTGTAAGGTAAAA
1 TGACCGTAATACCCCTGTAGGGTAAAA
**
47562375 TGACTATAATACCCCTGTAGGGTAAAA
1 TGACCGTAATACCCCTGTAGGGTAAAA
* *
47562402 TGACCGTAATGCTCCTGTAGGGTAAAA
1 TGACCGTAATACCCCTGTAGGGTAAAA
* *
47562429 TGACCATAATTCCCCTGTAGGGTAAAA
1 TGACCGTAATACCCCTGTAGGGTAAAA
* **
47562456 TGACTGTAATACCCCTAAAGGGTAAAA
1 TGACCGTAATACCCCTGTAGGGTAAAA
* * *
47562483 TGACCGTAATGCCCTTGTAGGATAAAA
1 TGACCGTAATACCCCTGTAGGGTAAAA
* *
47562510 TGACCGTAATACCCCTATATGGTAAAA
1 TGACCGTAATACCCCTGTAGGGTAAAA
47562537 T
1 T
47562538 AATGATTATG
Statistics
Matches: 255, Mismatches: 40, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
26 49 0.19
27 206 0.81
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (27 bp):
TGACCGTAATACCCCTGTAGGGTAAAA
Found at i:47565760 original size:40 final size:40
Alignment explanation
Indices: 47565720--47565972 Score: 225
Period size: 39 Copynumber: 6.5 Consensus size: 40
47565710 GCCTATGGGT
* * *
47565720 CTTTAAGCCCGGATATAATTCCAGCA-TATAGCTTGCGGGT
1 CTTTAAGCCCGGATATAATTCCAGCACGA-AGCCTGCGGGA
* *
47565760 CTTTAAGCCCGGATACAATTCCAGCACGAAGCTTGC-GGA
1 CTTTAAGCCCGGATATAATTCCAGCACGAAGCCTGCGGGA
* * *
47565799 CCTTAAGTCCAGATATAATTCCAGCACGAAGCCTGC-GGA
1 CTTTAAGCCCGGATATAATTCCAGCACGAAGCCTGCGGGA
* * * *
47565838 CCTTAAGTCCGGATACAATTCCAGCACAAAGCCTGCGGGA
1 CTTTAAGCCCGGATATAATTCCAGCACGAAGCCTGCGGGA
* ** ** *
47565878 CTTT-AGCCCAGATATAACACCAGCACGAATGCCTTTGGGG
1 CTTTAAGCCCGGATATAATTCCAGCACGAA-GCCTGCGGGA
** * *
47565918 C-TTAA-CCCGGATATAACACCAGCACAAATGCCTTCGGGA
1 CTTTAAGCCCGGATATAATTCCAGCACGAA-GCCTGCGGGA
47565957 C-TT-AGCCCGGATATAA
1 CTTTAAGCCCGGATATAA
47565973 CACCATTATA
Statistics
Matches: 183, Mismatches: 25, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
38 1 0.01
39 134 0.73
40 47 0.26
41 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (40 bp):
CTTTAAGCCCGGATATAATTCCAGCACGAAGCCTGCGGGA
Found at i:47566083 original size:28 final size:28
Alignment explanation
Indices: 47566050--47566131 Score: 101
Period size: 28 Copynumber: 2.9 Consensus size: 28
47566040 ATTTAATCAT
* *
47566050 TCAATATTTTGCACACTAAGTGTCATTC
1 TCAATATTTCGCACACTAAGTGCCATTC
* *
47566078 TCAATATCTCGCACATTAAGTGCCATTC
1 TCAATATTTCGCACACTAAGTGCCATTC
* * *
47566106 TCAATATTTCGTACACTGAGTACCAT
1 TCAATATTTCGCACACTAAGTGCCAT
47566132 ATTTGATTGC
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 45 1.00
ACGTcount: A:0.29, C:0.24, G:0.11, T:0.35
Consensus pattern (28 bp):
TCAATATTTCGCACACTAAGTGCCATTC
Found at i:47567702 original size:27 final size:27
Alignment explanation
Indices: 47567664--47568011 Score: 448
Period size: 27 Copynumber: 13.0 Consensus size: 27
47567654 TTATTAGACA
*
47567664 GTAATACCCCTGTATGGTAAAATGACC
1 GTAATACCCCTGTAGGGTAAAATGACC
47567691 GTAATACCCCTGTAGGGTAAAATGACC
1 GTAATACCCCTGTAGGGTAAAATGACC
* *
47567718 GTGATACCCCTGTAGGGTAAAATGATC
1 GTAATACCCCTGTAGGGTAAAATGACC
* *
47567745 GTGATACCCCTATAGGGTAAAATGACC
1 GTAATACCCCTGTAGGGTAAAATGACC
* ** *
47567772 GTAAT-GCCCTGTACTGTAAAATAACC
1 GTAATACCCCTGTAGGGTAAAATGACC
*
47567798 GTAATACCCCTGTAAGGTAAAATGACC
1 GTAATACCCCTGTAGGGTAAAATGACC
* *
47567825 GTAATACCCTTGGAGGG-AAAATGACC
1 GTAATACCCCTGTAGGGTAAAATGACC
* * * *
47567851 ATAATACCTCTATAGGGTAAAATGACT
1 GTAATACCCCTGTAGGGTAAAATGACC
* *
47567878 GTAATACCCCTATAGGGTAAAACGACC
1 GTAATACCCCTGTAGGGTAAAATGACC
* * * *
47567905 GTAATGCCCTTATAGGGTAAAATAACC
1 GTAATACCCCTGTAGGGTAAAATGACC
* *
47567932 ATAATTCCCCTGTAGGGTAAAATGACC
1 GTAATACCCCTGTAGGGTAAAATGACC
*
47567959 GTAATGCCCCTGTAGGGTAAAATGACC
1 GTAATACCCCTGTAGGGTAAAATGACC
*
47567986 GTAATACCCCTGTAAGGTAAAATGAC
1 GTAATACCCCTGTAGGGTAAAATGAC
47568012 GATTATGCCC
Statistics
Matches: 278, Mismatches: 41, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
26 42 0.15
27 236 0.85
ACGTcount: A:0.35, C:0.21, G:0.20, T:0.24
Consensus pattern (27 bp):
GTAATACCCCTGTAGGGTAAAATGACC
Found at i:47567769 original size:81 final size:81
Alignment explanation
Indices: 47567664--47568011 Score: 448
Period size: 80 Copynumber: 4.3 Consensus size: 81
47567654 TTATTAGACA
* * *
47567664 GTAATACCCCTGTATGGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGACCGTGATACCCCT
1 GTAATACCCCTGTAGGGTAAAATGACCATAATACCCCTGTAGGGTAAAATGACCGTAATACCCCT
*
47567729 GTAGGGTAAAATGATC
66 GTAGGGTAAAATGACC
* * * * ** *
47567745 GTGATACCCCTATAGGGTAAAATGACCGTAAT-GCCCTGTACTGTAAAATAACCGTAATACCCCT
1 GTAATACCCCTGTAGGGTAAAATGACCATAATACCCCTGTAGGGTAAAATGACCGTAATACCCCT
*
47567809 GTAAGGTAAAATGACC
66 GTAGGGTAAAATGACC
* * * * *
47567825 GTAATACCCTTGGAGGG-AAAATGACCATAATACCTCTATAGGGTAAAATGACTGTAATACCCCT
1 GTAATACCCCTGTAGGGTAAAATGACCATAATACCCCTGTAGGGTAAAATGACCGTAATACCCCT
* *
47567889 ATAGGGTAAAACGACC
66 GTAGGGTAAAATGACC
* * * * * *
47567905 GTAATGCCCTTATAGGGTAAAATAACCATAATTCCCCTGTAGGGTAAAATGACCGTAATGCCCCT
1 GTAATACCCCTGTAGGGTAAAATGACCATAATACCCCTGTAGGGTAAAATGACCGTAATACCCCT
47567970 GTAGGGTAAAATGACC
66 GTAGGGTAAAATGACC
*
47567986 GTAATACCCCTGTAAGGTAAAATGAC
1 GTAATACCCCTGTAGGGTAAAATGAC
47568012 GATTATGCCC
Statistics
Matches: 224, Mismatches: 41, Indels: 4
0.83 0.15 0.01
Matches are distributed among these distances:
79 13 0.06
80 106 0.47
81 105 0.47
ACGTcount: A:0.35, C:0.21, G:0.20, T:0.24
Consensus pattern (81 bp):
GTAATACCCCTGTAGGGTAAAATGACCATAATACCCCTGTAGGGTAAAATGACCGTAATACCCCT
GTAGGGTAAAATGACC
Found at i:47568425 original size:28 final size:27
Alignment explanation
Indices: 47568392--47568452 Score: 68
Period size: 28 Copynumber: 2.2 Consensus size: 27
47568382 CACTATACTG
* *
47568392 ATACTGCATTGGGCTTAGGCCCACACT
1 ATACTGCATAGGGCTAAGGCCCACACT
* * *
47568419 ATTACTGTATAGGGCTAAGGCTCAGACT
1 A-TACTGCATAGGGCTAAGGCCCACACT
47568447 ATACTG
1 ATACTG
47568453 ATACTGAATA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
27 6 0.21
28 22 0.79
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (27 bp):
ATACTGCATAGGGCTAAGGCCCACACT
Found at i:47568478 original size:33 final size:33
Alignment explanation
Indices: 47568383--47568479 Score: 96
Period size: 33 Copynumber: 3.1 Consensus size: 33
47568373 ATTGCATTAC
* * * *
47568383 ACTATACTGATACTGCATTGGGCTTAGGCCCAC
1 ACTATACTGATACTGAATAGGGCTAAGGCCCAG
* *
47568416 AC--TA-T--TACTGTATAGGGCTAAGGCTCAG
1 ACTATACTGATACTGAATAGGGCTAAGGCCCAG
*
47568444 ACTATACTGATACTGAATAGGGCTCAGGCCCAG
1 ACTATACTGATACTGAATAGGGCTAAGGCCCAG
47568477 ACT
1 ACT
47568480 GTTACCGATC
Statistics
Matches: 51, Mismatches: 8, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
28 20 0.39
30 3 0.06
31 3 0.06
33 25 0.49
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.26
Consensus pattern (33 bp):
ACTATACTGATACTGAATAGGGCTAAGGCCCAG
Found at i:47568506 original size:61 final size:61
Alignment explanation
Indices: 47568383--47568507 Score: 144
Period size: 61 Copynumber: 2.0 Consensus size: 61
47568373 ATTGCATTAC
* * * * * *
47568383 ACTATACTGATACTGCATTGGGCTTAGGCCCACACTATTACTGTATAGGGCTAAGGCTCAG
1 ACTATACTGATACTGAATAGGGCTCAGGCCCACACTATTACCGTATAGGGCTAAGACCCAG
* * * *
47568444 ACTATACTGATACTGAATAGGGCTCAGGCCCAGACTGTTACCG-ATCTGGGCTTAGACCCAG
1 ACTATACTGATACTGAATAGGGCTCAGGCCCACACTATTACCGTAT-AGGGCTAAGACCCAG
47568505 ACT
1 ACT
47568508 GTGTTATTCA
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
60 2 0.04
61 51 0.96
ACGTcount: A:0.26, C:0.25, G:0.23, T:0.26
Consensus pattern (61 bp):
ACTATACTGATACTGAATAGGGCTCAGGCCCACACTATTACCGTATAGGGCTAAGACCCAG
Found at i:47569450 original size:46 final size:46
Alignment explanation
Indices: 47569350--47569478 Score: 145
Period size: 46 Copynumber: 2.8 Consensus size: 46
47569340 CCATATTATG
* *
47569350 GAGCCAGTGTAAGACCATGTCTAGGACATAGCATCGGAATTGAGACGA
1 GAGCTAGTATAAGA-CATGTCTAGGACATA-CATCGGAATTGAGACGA
* * *
47569398 GTGCTAGTATAAGACATGTCTGGGACATACATCGG-TTTCGAGACGTA
1 GAGCTAGTATAAGACATGTCTAGGACATACATCGGAATT-GAGACG-A
* *
47569445 -AGCTAGTGTAAGACATGTCTAGGACATGCATCGG
1 GAGCTAGTATAAGACATGTCTAGGACATACATCGG
47569479 CTACGAGATG
Statistics
Matches: 70, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
45 2 0.03
46 42 0.60
47 15 0.21
48 11 0.16
ACGTcount: A:0.30, C:0.18, G:0.29, T:0.23
Consensus pattern (46 bp):
GAGCTAGTATAAGACATGTCTAGGACATACATCGGAATTGAGACGA
Found at i:47570565 original size:42 final size:40
Alignment explanation
Indices: 47570488--47570566 Score: 115
Period size: 41 Copynumber: 1.9 Consensus size: 40
47570478 ATGTTTTTGT
*
47570488 CATGGGCTGGGACACGGGTGTGTCATGGCCGTGTGAATGA
1 CATGGGCTGGGACACGGGCGTGTCATGGCCGTGTGAATGA
47570528 CATGGGCTAGGGACACGGGCGTGTACCA-GGCCGTGTGAA
1 CATGGGCT-GGGACACGGGCGTGT--CATGGCCGTGTGAA
47570567 AACTCCTATA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
40 8 0.23
41 14 0.40
42 11 0.31
43 2 0.06
ACGTcount: A:0.19, C:0.20, G:0.42, T:0.19
Consensus pattern (40 bp):
CATGGGCTGGGACACGGGCGTGTCATGGCCGTGTGAATGA
Found at i:47579714 original size:47 final size:47
Alignment explanation
Indices: 47579661--47579902 Score: 265
Period size: 47 Copynumber: 5.1 Consensus size: 47
47579651 TTAGGATTTT
* ** * *
47579661 ATGTGATGAGTGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
47579708 ATGTGATGAATGTGGACATGCATATATGTGATAAGGCCGAATGGCCG
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
47579755 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
47579802 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
47579849 ATGTGA-AATATGTATGAGATATG--TATATGTGGTAAGGCCGAATGGCTA
1 ATGTGATGA-ATG--TGA-ACATGCATATATGTGATAAGGCCGAATGGCCA
47579897 ATGTGA
1 ATGTGA
47579903 AATATGTATG
Statistics
Matches: 168, Mismatches: 23, Indels: 7
0.85 0.12 0.04
Matches are distributed among these distances:
46 1 0.01
47 130 0.77
48 30 0.18
49 3 0.02
50 4 0.02
ACGTcount: A:0.32, C:0.10, G:0.31, T:0.28
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:47579760 original size:94 final size:93
Alignment explanation
Indices: 47579661--47579950 Score: 284
Period size: 94 Copynumber: 3.1 Consensus size: 93
47579651 TTAGGATTTT
* * * *
47579661 ATGTGATGAGTGTGAATGTGTATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGGACA
1 ATGTGATGAGTGTGAATATGTATATGTG-GATAAGGCCGAATGGCCAATGTGATGAATATGAACA
* *
47579726 TGCATATATGTGATAAGGCCGAATGGCCG
65 TGCATATATGTGATAAAGCCGAATGGCCA
* ** * *
47579755 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACA
1 ATGTGATGAGTGTGAATATGTATATGTG-GATAAGGCCGAATGGCCAATGTGATGAATATGAACA
* *
47579820 TGCATATATGTGGTAAAGCCGAATGGCTA
65 TGCATATATGTGATAAAGCCGAATGGCCA
* * *
47579849 ATGTGAAAT-ATGTATGAGATATGTATATGTGG-TAAGGCCGAATGGCTAATGTGAAAT-ATGTA
1 ATGTG--ATGA-GTGTGA-ATATGTATATGTGGATAAGGCCGAATGGCCAATGTG--ATGA-ATA
* * *
47579911 TGAGATATGC--ATATGTGGTAAAGCCGAATGGTCA
59 TGA-ACATGCATATATGTGATAAAGCCGAATGGCCA
47579945 ATGTGA
1 ATGTGA
47579951 AATATATATA
Statistics
Matches: 163, Mismatches: 25, Indels: 16
0.80 0.12 0.08
Matches are distributed among these distances:
94 86 0.53
95 21 0.13
96 35 0.21
97 16 0.10
98 5 0.03
ACGTcount: A:0.32, C:0.10, G:0.30, T:0.28
Consensus pattern (93 bp):
ATGTGATGAGTGTGAATATGTATATGTGGATAAGGCCGAATGGCCAATGTGATGAATATGAACAT
GCATATATGTGATAAAGCCGAATGGCCA
Found at i:47579987 original size:98 final size:96
Alignment explanation
Indices: 47579825--47580008 Score: 298
Period size: 98 Copynumber: 1.9 Consensus size: 96
47579815 GAACATGCAT
* *
47579825 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAGGCCGA
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGA
*
47579890 ATGGCTAATGTGAAATATGTATGAGATATGC
66 ATGGCTAATATGAAATATGTATGAGATATGC
47579921 ATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGATATGTATATGTGGTAAAGC
1 ATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATATATGAGATATGTATATGTGGTAAAGC
*
47579985 CGAATGGCTAGTATGAAATATGTA
63 CGAATGGCTAATATGAAATATGTA
47580009 GGCGATGTGC
Statistics
Matches: 81, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
95 1 0.01
96 27 0.33
97 2 0.02
98 51 0.63
ACGTcount: A:0.36, C:0.07, G:0.27, T:0.30
Consensus pattern (96 bp):
ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGA
ATGGCTAATATGAAATATGTATGAGATATGC
Found at i:47580024 original size:50 final size:48
Alignment explanation
Indices: 47579824--47580008 Score: 291
Period size: 48 Copynumber: 3.8 Consensus size: 48
47579814 TGAACATGCA
47579824 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
*
47579872 TATATGTGGTAAGGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* *
47579920 CATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATGAGATATG
* *
47579970 TATATGTGGTAAAGCCGAATGGCTAGTATGAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
47580009 GGCGATGTGC
Statistics
Matches: 125, Mismatches: 8, Indels: 8
0.89 0.06 0.06
Matches are distributed among these distances:
47 1 0.01
48 79 0.63
49 4 0.03
50 40 0.32
51 1 0.01
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.31
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
Found at i:47580262 original size:37 final size:37
Alignment explanation
Indices: 47580154--47580262 Score: 155
Period size: 37 Copynumber: 2.9 Consensus size: 37
47580144 GGAAATATAT
* *
47580154 TCCGGGTAAGACCCAATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
47580191 TCTGGGTAAGACCCGATGACTACGTGTAGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* * *
47580228 TCCGGGTTAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
47580263 CGTTTGAGCT
Statistics
Matches: 63, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 63 1.00
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.28
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:47584671 original size:47 final size:44
Alignment explanation
Indices: 47584559--47584772 Score: 164
Period size: 46 Copynumber: 4.7 Consensus size: 44
47584549 GGGTTATTGT
* *
47584559 GAGCTAGTGTAAAACATGTCTGGGACATGTATCGGCCACATT-ATGA-
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGG---CATTGA-GAC
*
47584605 GAGCCAGTGTAAGACCATGTCTGGGACATAGCATCGGCATTGAGAC
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATTGAGAC
* * * *
47584651 GAGTGCTAGTGTAAGACATGTCTGGGACATGAATTGGCCTAGAGAC
1 GA--GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGAC
* * * * *
47584697 GTAAGCTAGTGTAAGATATGTTTGGGACATGCATCTGC-TACGAGAT
1 G--AGCTAGTGTAAGACATGTCTGGGACATGCATCGGCAT-TGAGAC
* * *
47584743 GTGTTAGTGTAAGACCATGTCTAGGACATG
1 GAGCTAGTGTAAGA-CATGTCTGGGACATG
47584773 GCAGTATCTG
Statistics
Matches: 138, Mismatches: 20, Indels: 21
0.77 0.11 0.12
Matches are distributed among these distances:
44 11 0.08
45 19 0.14
46 62 0.45
47 28 0.20
48 18 0.13
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.26
Consensus pattern (44 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGAC
Found at i:47584708 original size:46 final size:46
Alignment explanation
Indices: 47584559--47584727 Score: 171
Period size: 46 Copynumber: 3.6 Consensus size: 46
47584549 GGGTTATTGT
* * * * *
47584559 GAGCTAGTGTAAAACATGTCTGGGACATGTATCGGCC-ACATTATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGAATCGGCCTAGA-GACGA
* * * *
47584605 GAGCCAGTGTAAGACCATGTCTGGGACATAGCATCGGCATTGAGACGA
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GAATCGGCCTAGAGACGA
* *
47584653 GTGCTAGTGTAAGACATGTCTGGGACATGAATTGGCCTAGAGACGTA
1 GAGCTAGTGTAAGACATGTCTGGGACATGAATCGGCCTAGAGACG-A
* *
47584700 -AGCTAGTGTAAGATATGTTTGGGACATG
1 GAGCTAGTGTAAGACATGTCTGGGACATG
47584728 CATCTGCTAC
Statistics
Matches: 102, Mismatches: 17, Indels: 8
0.80 0.13 0.06
Matches are distributed among these distances:
46 50 0.49
47 29 0.28
48 22 0.22
49 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.30, T:0.25
Consensus pattern (46 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGAATCGGCCTAGAGACGA
Found at i:47586314 original size:21 final size:21
Alignment explanation
Indices: 47586290--47586334 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
47586280 TTTAGATTTT
*
47586290 AAACAAGGT-ATTTTAAGGTTA
1 AAACAAGGTAAATTTAA-GTTA
*
47586311 AAACAGGGTAAATTTAAGTTA
1 AAACAAGGTAAATTTAAGTTA
47586332 AAA
1 AAA
47586335 GCTAGCAGGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 15 0.71
22 6 0.29
ACGTcount: A:0.49, C:0.04, G:0.18, T:0.29
Consensus pattern (21 bp):
AAACAAGGTAAATTTAAGTTA
Found at i:47589259 original size:9 final size:9
Alignment explanation
Indices: 47589245--47589269 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
47589235 TAGAAATAAA
47589245 GTTTATTTG
1 GTTTATTTG
47589254 GTTTATTTG
1 GTTTATTTG
47589263 GTTTATT
1 GTTTATT
47589270 CACACTCTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.12, C:0.00, G:0.20, T:0.68
Consensus pattern (9 bp):
GTTTATTTG
Found at i:47589932 original size:30 final size:30
Alignment explanation
Indices: 47589898--47589967 Score: 140
Period size: 30 Copynumber: 2.3 Consensus size: 30
47589888 TTAGGGCAAG
47589898 CCGTGTGTCACACAAGGTCTAGACACACGC
1 CCGTGTGTCACACAAGGTCTAGACACACGC
47589928 CCGTGTGTCACACAAGGTCTAGACACACGC
1 CCGTGTGTCACACAAGGTCTAGACACACGC
47589958 CCGTGTGTCA
1 CCGTGTGTCA
47589968 ATCCGTGTGA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.24, C:0.33, G:0.24, T:0.19
Consensus pattern (30 bp):
CCGTGTGTCACACAAGGTCTAGACACACGC
Found at i:47590977 original size:50 final size:49
Alignment explanation
Indices: 47590845--47591133 Score: 238
Period size: 48 Copynumber: 6.0 Consensus size: 49
47590835 GGGTGCCAAA
* * * *
47590845 ACATGGGA-CCACTTATCGATGTCAATGCCATGTCCCAAACATAGTCTT
1 ACATGGGATCCACATATCGATGCCAATGCCATGTCCCAGACATGGTCTT
* * *
47590893 ACGTCGGA-CCACTTATCGATGCCAATGCCATGTCCCAGACATGGTCTT
1 ACATGGGATCCACATATCGATGCCAATGCCATGTCCCAGACATGGTCTT
*
47590941 ACATGGGATCACACATATCGATGCCAATGCCATGTCCCTGACATGGTCTT
1 ACATGGGATC-CACATATCGATGCCAATGCCATGTCCCAGACATGGTCTT
* * * * *
47590991 ACATAGGATCATACATATCGAAGCCGAT---A-G-CACAG-CTATGGTCTT
1 ACATGGGATC-CACATATCGATGCCAATGCCATGTCCCAGAC-ATGGTCTT
** * * * * *
47591036 ACCCGATG-TTCTCATATTGATGCCAATGCCATGTCCTAGACATGGTCTT
1 ACATG-GGATCCACATATCGATGCCAATGCCATGTCCCAGACATGGTCTT
* * * * * *
47591085 ACATGGGAT-CACATAACGATACCGATGCCATATCCTAGATATGGTCTT
1 ACATGGGATCCACATATCGATGCCAATGCCATGTCCCAGACATGGTCTT
47591133 A
1 A
47591134 TACAGGATCT
Statistics
Matches: 193, Mismatches: 37, Indels: 22
0.77 0.15 0.09
Matches are distributed among these distances:
44 13 0.07
45 14 0.07
46 2 0.01
47 2 0.01
48 84 0.44
49 16 0.08
50 62 0.32
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (49 bp):
ACATGGGATCCACATATCGATGCCAATGCCATGTCCCAGACATGGTCTT
Found at i:47591345 original size:89 final size:89
Alignment explanation
Indices: 47591186--47591374 Score: 344
Period size: 89 Copynumber: 2.1 Consensus size: 89
47591176 TAAGTATTCC
*
47591186 TAAG-GTTCAATCAGCTTCCATCACCTCAAATCTTTGTCGGACAACATCAATAATATGCACAAAA
1 TAAGTGTTAAATCAGCTTCCATCACCTCAAATCTTTGTCGGACAACATCAATAATATGCACAAAA
47591250 GCAATTATACAGCTCATGCAACAT
66 GCAATTATACAGCTCATGCAACAT
*
47591274 TAAGTGTTAAATCAGCTTCCATCACCTCAAATCTTTGTCGGACAACATCAATAATATGCGCAAAA
1 TAAGTGTTAAATCAGCTTCCATCACCTCAAATCTTTGTCGGACAACATCAATAATATGCACAAAA
*
47591339 GCAATTATACAGTTCATGCAACAT
66 GCAATTATACAGCTCATGCAACAT
47591363 TAAGTGTTAAAT
1 TAAGTGTTAAAT
47591375 GTATAATAAA
Statistics
Matches: 97, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
88 4 0.04
89 93 0.96
ACGTcount: A:0.38, C:0.22, G:0.12, T:0.28
Consensus pattern (89 bp):
TAAGTGTTAAATCAGCTTCCATCACCTCAAATCTTTGTCGGACAACATCAATAATATGCACAAAA
GCAATTATACAGCTCATGCAACAT
Found at i:47597042 original size:40 final size:39
Alignment explanation
Indices: 47596878--47597056 Score: 238
Period size: 39 Copynumber: 4.6 Consensus size: 39
47596868 AATGTGCGAG
47596878 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGA---A
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
47596914 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
47596953 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
47596992 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
47597032 CCATAACCGGGCTATGTCCCGAAGG
1 TGATATCCGGGCTAAG-CCCGAAGG
47597057 TGTTTTGAAC
Statistics
Matches: 128, Mismatches: 11, Indels: 4
0.90 0.08 0.03
Matches are distributed among these distances:
36 35 0.27
39 53 0.41
40 40 0.31
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.22
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:47604920 original size:39 final size:39
Alignment explanation
Indices: 47604827--47604978 Score: 234
Period size: 39 Copynumber: 3.9 Consensus size: 39
47604817 GAATGTTCGA
47604827 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGA-AT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGAT
*
47604865 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGAT
* *
47604904 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGAT
* **
47604943 GTGATATCCGGGTTAAGTCCCGAAGGCGTTTGTGCG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
47604979 GGTTACCATA
Statistics
Matches: 105, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
38 36 0.34
39 53 0.50
40 16 0.15
ACGTcount: A:0.23, C:0.21, G:0.33, T:0.23
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGAT
Found at i:47604923 original size:77 final size:79
Alignment explanation
Indices: 47604828--47604978 Score: 252
Period size: 77 Copynumber: 1.9 Consensus size: 79
47604818 AATGTTCGAG
47604828 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGA-ATGTGATATCCGGGCTAAG-CCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGATGTGATATCCGGGCTAAGTCCCGAAGGC
47604891 AATTGTGCGAGCTA
66 AATTGTGCGAGCTA
* *
47604905 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGATGTGATATCCGGGCTAAGTCCCGAAGGC
**
47604970 GTTTGTGCG
66 AATTGTGCG
47604979 GGTTACCATA
Statistics
Matches: 68, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
77 35 0.51
78 17 0.25
79 16 0.24
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.23
Consensus pattern (79 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGATGTGATATCCGGGCTAAGTCCCGAAGGC
AATTGTGCGAGCTA
Found at i:47607956 original size:50 final size:50
Alignment explanation
Indices: 47607897--47607997 Score: 202
Period size: 50 Copynumber: 2.0 Consensus size: 50
47607887 AAGTGTCTTC
47607897 CACTAGTGGTAAGCCGAATCTCCAAGCACTGATACAACATATTTCATGCA
1 CACTAGTGGTAAGCCGAATCTCCAAGCACTGATACAACATATTTCATGCA
47607947 CACTAGTGGTAAGCCGAATCTCCAAGCACTGATACAACATATTTCATGCA
1 CACTAGTGGTAAGCCGAATCTCCAAGCACTGATACAACATATTTCATGCA
47607997 C
1 C
47607998 TCTTCCAGTG
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.34, C:0.27, G:0.16, T:0.24
Consensus pattern (50 bp):
CACTAGTGGTAAGCCGAATCTCCAAGCACTGATACAACATATTTCATGCA
Found at i:47612564 original size:48 final size:48
Alignment explanation
Indices: 47612508--47612666 Score: 201
Period size: 48 Copynumber: 3.3 Consensus size: 48
47612498 TATCCCGTAT
* * * *
47612508 ATGGTCTTACATGGGACCACTTATTGATACCAATGGCATGTCCCAGAC
1 ATGGTCTTACATGGGACCACTTATCGATGCCAATGCCATGTCCTAGAC
* * *
47612556 ATGGTCTTACATGAGACCACTTATCGATGCCAATGCCATGTTCTAAAC
1 ATGGTCTTACATGGGACCACTTATCGATGCCAATGCCATGTCCTAGAC
* * * *
47612604 ATGGTCTTACATAGGATTACACATATCGATGCCAATGTCATGTCCTAGAC
1 ATGGTCTTACATGGGA--CCACTTATCGATGCCAATGCCATGTCCTAGAC
47612654 ATGGTCTTACATG
1 ATGGTCTTACATG
47612667 AGATCACACA
Statistics
Matches: 94, Mismatches: 15, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
48 55 0.59
50 39 0.41
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (48 bp):
ATGGTCTTACATGGGACCACTTATCGATGCCAATGCCATGTCCTAGAC
Found at i:47616777 original size:28 final size:28
Alignment explanation
Indices: 47616737--47616806 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
47616727 ATAGTAAGTC
*
47616737 CGCACACTTAGTGCT-TAATAATCAAACT
1 CGCACACTTAGTGCTAT-ACAATCAAACT
*
47616765 CGCACACTTAGTGCTATACAATTAAACT
1 CGCACACTTAGTGCTATACAATCAAACT
47616793 CGCACACTTAGTGC
1 CGCACACTTAGTGC
47616807 CAATCTCATT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
28 38 0.97
29 1 0.03
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATACAATCAAACT
Found at i:47617367 original size:2 final size:2
Alignment explanation
Indices: 47617360--47617397 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
47617350 GGCATACATT
47617360 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
47617398 GCCGAATGTG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:47624706 original size:28 final size:28
Alignment explanation
Indices: 47624666--47624735 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
47624656 ATAGTAAGTC
*
47624666 CGCACACTTAGTGCT-TAATAATCAAACT
1 CGCACACTTAGTGCTAT-ACAATCAAACT
*
47624694 CGCACACTTAGTGCTATACAATTAAACT
1 CGCACACTTAGTGCTATACAATCAAACT
47624722 CGCACACTTAGTGC
1 CGCACACTTAGTGC
47624736 CAATCTCATT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
28 38 0.97
29 1 0.03
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATACAATCAAACT
Found at i:47625294 original size:2 final size:2
Alignment explanation
Indices: 47625287--47625323 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
47625277 ATGGGCATAC
47625287 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
47625324 GCCGAATGTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:47626392 original size:21 final size:20
Alignment explanation
Indices: 47626346--47626384 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
47626336 AGGGACTAAA
* *
47626346 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAATTATAAAATTTG
47626366 ATGAAAAATTATAAAATTT
1 ATGAAAAATTATAAAATTT
47626385 TATGGAAACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.51, C:0.00, G:0.13, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTATAAAATTTG
Found at i:47626729 original size:17 final size:17
Alignment explanation
Indices: 47626707--47626740 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
47626697 GGCATGTAAA
* *
47626707 TGTGTTTTATTGAATGT
1 TGTGTTGTATGGAATGT
47626724 TGTGTTGTATGGAATGT
1 TGTGTTGTATGGAATGT
47626741 GATTTATATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.18, C:0.00, G:0.29, T:0.53
Consensus pattern (17 bp):
TGTGTTGTATGGAATGT
Found at i:47635932 original size:47 final size:47
Alignment explanation
Indices: 47635878--47636115 Score: 350
Period size: 47 Copynumber: 5.1 Consensus size: 47
47635868 GATTTTATGA
** * * *
47635878 GATGAATGTGAATGTGTATATATGAGATAAGGCCTAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
* *
47635925 GATGAATGAGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
47635972 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
* * *
47636019 GATAAATGTGAACATGCATATGTGTGATAAGGCTGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
* ** *
47636066 GATGAATGTGAACATGCATATGTGTGATAAGGTAGAATGGCTAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
47636113 GAT
1 GAT
47636116 AAACGTGGAA
Statistics
Matches: 175, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 175 1.00
ACGTcount: A:0.34, C:0.10, G:0.29, T:0.27
Consensus pattern (47 bp):
GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
Found at i:47635974 original size:22 final size:22
Alignment explanation
Indices: 47635947--47636023 Score: 68
Period size: 22 Copynumber: 3.4 Consensus size: 22
47635937 CATGCATATG
47635947 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * *
47635969 TGTGATGAATG-TGAACAT-GCATATA
1 TGTGAT-AAGGCCG-A-ATGGC-CA-A
47635994 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
47636016 TGTGATAA
1 TGTGATAA
47636024 ATGTGAACAT
Statistics
Matches: 42, Mismatches: 6, Indels: 14
0.68 0.10 0.23
Matches are distributed among these distances:
22 16 0.38
23 9 0.21
24 9 0.21
25 8 0.19
ACGTcount: A:0.34, C:0.13, G:0.29, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:47636047 original size:25 final size:25
Alignment explanation
Indices: 47636016--47636095 Score: 73
Period size: 25 Copynumber: 3.3 Consensus size: 25
47636006 GAATGGCCAA
47636016 TGTGATAAATGTGAACATGCATATG
1 TGTGATAAATGTGAACATGCATATG
*
47636041 TGTGAT-AAGGCTG-A-ATGGCCA-A--
1 TGTGATAAATG-TGAACAT-G-CATATG
*
47636063 TGTGATGAATGTGAACATGCATATG
1 TGTGATAAATGTGAACATGCATATG
47636088 TGTGATAA
1 TGTGATAA
47636096 GGTAGAATGG
Statistics
Matches: 43, Mismatches: 3, Indels: 18
0.67 0.05 0.28
Matches are distributed among these distances:
22 10 0.23
23 8 0.19
24 8 0.19
25 17 0.40
ACGTcount: A:0.34, C:0.09, G:0.28, T:0.30
Consensus pattern (25 bp):
TGTGATAAATGTGAACATGCATATG
Found at i:47636136 original size:141 final size:141
Alignment explanation
Indices: 47635903--47636161 Score: 371
Period size: 141 Copynumber: 1.8 Consensus size: 141
47635893 GTATATATGA
*
47635903 GATAAGGCCTAATGGCCAATGTGATGAATGAGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 GATAAGGCCTAATGGCCAATGTGATGAATGAGAACATGCATATGTGTGATAAGGCAGAATGGCCA
* * *
47635968 ATGTGATGAATGTGAACATGCATATATGT-GATAAGGCCGAATGGCCAATGTGATAAATGTGAAC
66 ATGTGATAAACGTGAACATGCATATATGTGGAGAA-GCCGAATGGCCAATGTGATAAATGTGAAC
47636032 ATGCATATGTGT
130 ATGCATATGTGT
* * *
47636044 GATAAGG-CTGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGATAAGGTAGAATGGCT
1 GATAAGGCCT-AATGGCCAATGTGATGAATGAGAACATGCATATGTGTGATAAGGCAGAATGGCC
* * * *
47636108 AATGTGATAAACGTGGAA-GTGTATATATGTGGCGAAGCCGAATGGCTAATGTGA
65 AATGTGATAAACGT-GAACATGCATATATGTGGAGAAGCCGAATGGCCAATGTGA
47636162 GATATGTATG
Statistics
Matches: 104, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
140 2 0.02
141 96 0.92
142 6 0.06
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.26
Consensus pattern (141 bp):
GATAAGGCCTAATGGCCAATGTGATGAATGAGAACATGCATATGTGTGATAAGGCAGAATGGCCA
ATGTGATAAACGTGAACATGCATATATGTGGAGAAGCCGAATGGCCAATGTGATAAATGTGAACA
TGCATATGTGT
Found at i:47636151 original size:94 final size:94
Alignment explanation
Indices: 47635878--47636161 Score: 329
Period size: 94 Copynumber: 3.0 Consensus size: 94
47635868 GATTTTATGA
** * * ** * * *
47635878 GATGAATGTGAATGTGTATATATGAGATAAGGCCTAATGGCCAATGTGATGAATGAGAACATGCA
1 GATGAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCAATGTGATAAACGTGAACATGCA
* *
47635943 TATGTGTGATAAGGCCGAATGGCCAATGT
66 TATATGTGAGAAGGCCGAATGGCCAATGT
* *
47635972 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATAAATGTGAACATGCA
1 GATGAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCAATGTGATAAACGTGAACATGCA
* * *
47636037 TATGTGTGATAAGGCTGAATGGCCAATGT
66 TATATGTGAGAAGGCCGAATGGCCAATGT
* * * * *
47636066 GATGAATGTGAACATGCATATGTGTGATAAGGTAGAATGGCTAATGTGATAAACGTGGAA-GTGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCAATGTGATAAACGT-GAACATGC
* *
47636130 ATATATGTGGCGAA-GCCGAATGGCTAATGT
65 ATATATGT-GAGAAGGCCGAATGGCCAATGT
47636160 GA
1 GA
47636162 GATATGTATG
Statistics
Matches: 168, Mismatches: 20, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
94 162 0.96
95 6 0.04
ACGTcount: A:0.34, C:0.10, G:0.29, T:0.27
Consensus pattern (94 bp):
GATGAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCAATGTGATAAACGTGAACATGCA
TATATGTGAGAAGGCCGAATGGCCAATGT
Found at i:47637933 original size:47 final size:46
Alignment explanation
Indices: 47637826--47638004 Score: 143
Period size: 47 Copynumber: 3.8 Consensus size: 46
47637816 GTAGGTAAGG
* * * *
47637826 TGCCGATGCCATGTCCCAGATATGGTCTTACACTGGCT-TACTTCTCGA
1 TGCCGATG-CATGTCCCAAACATGGTCTTACACTAGCTCT-C-TCTCAA
* * * *
47637874 GGACAATGCATGTCCCAGACAT-GTCTTACACTAGCTCTCGTCTCAA
1 TGCCGATGCATGTCCCAAACATGGTCTTACACTAGCTCTC-TCTCAA
* * *
47637920 TGCCGATGCCATGTCCCAAACATGGTCTTACGCTGGCTCTC-AT-AA
1 TGCCGATG-CATGTCCCAAACATGGTCTTACACTAGCTCTCTCTCAA
*
47637965 GGTGGCCGATGCATGTCCCAAACAT-GTCTTATACTAGCTC
1 --T-GCCGATGCATGTCCCAAACATGGTCTTACACTAGCTC
47638005 ACACACAAAT
Statistics
Matches: 108, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
45 2 0.02
46 37 0.34
47 42 0.39
48 27 0.25
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.28
Consensus pattern (46 bp):
TGCCGATGCATGTCCCAAACATGGTCTTACACTAGCTCTCTCTCAA
Found at i:47637990 original size:94 final size:94
Alignment explanation
Indices: 47637826--47638004 Score: 234
Period size: 94 Copynumber: 1.9 Consensus size: 94
47637816 GTAGGTAAGG
* * * **
47637826 TGCCGATGCCATGTCCCAGATATGGTCTTACACTGGCTTACTTCTCGAGGACAATGCATGTCCCA
1 TGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTTACATAACGAGGACAATGCATGTCCCA
*
47637891 GACATGTCTTACACTAGCTCTCGTCTCAA
66 AACATGTCTTACACTAGCTCTCGTCTCAA
* * * * *
47637920 TGCCGATGCCATGTCCCAAACATGGTCTTACGCTGGCTCT-CATAAGGTGGCCGATGCATGTCCC
1 TGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCT-TACATAACGAGGACAATGCATGTCCC
*
47637984 AAACATGTCTTATACTAGCTC
65 AAACATGTCTTACACTAGCTC
47638005 ACACACAAAT
Statistics
Matches: 72, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
94 71 0.99
95 1 0.01
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.28
Consensus pattern (94 bp):
TGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTTACATAACGAGGACAATGCATGTCCCA
AACATGTCTTACACTAGCTCTCGTCTCAA
Found at i:47639302 original size:42 final size:42
Alignment explanation
Indices: 47639243--47639334 Score: 166
Period size: 42 Copynumber: 2.2 Consensus size: 42
47639233 GCATACGGGT
*
47639243 ATGTGTCTCAGCCGTGTGTGCCACACGGCCTAGAACACAGGC
1 ATGTGTCTCAGCCGTGTGTGCCACACAGCCTAGAACACAGGC
*
47639285 ATGTGTCTCATCCGTGTGTGCCACACAGCCTAGAACACAGGC
1 ATGTGTCTCAGCCGTGTGTGCCACACAGCCTAGAACACAGGC
47639327 ATGTGTCT
1 ATGTGTCT
47639335 TGGCCATGTG
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.22, C:0.29, G:0.26, T:0.23
Consensus pattern (42 bp):
ATGTGTCTCAGCCGTGTGTGCCACACAGCCTAGAACACAGGC
Found at i:47643478 original size:28 final size:28
Alignment explanation
Indices: 47643443--47643497 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
47643433 GGGTATATTG
*
47643443 GTAATTTTGCTCTTTAGGGGTAATTTCA
1 GTAATTTTACTCTTTAGGGGTAATTTCA
47643471 GTAATTTTACTCTTTAGGGGTAATTTC
1 GTAATTTTACTCTTTAGGGGTAATTTC
47643498 GTGATCTACA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.22, C:0.11, G:0.20, T:0.47
Consensus pattern (28 bp):
GTAATTTTACTCTTTAGGGGTAATTTCA
Found at i:47647743 original size:28 final size:28
Alignment explanation
Indices: 47647708--47647762 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
47647698 GGGTATATTG
47647708 GTAATTTTGCTCTTTAGGGGTAATTTCA
1 GTAATTTTGCTCTTTAGGGGTAATTTCA
47647736 GTAATTTTGCTCTTTAGGGGTAATTTC
1 GTAATTTTGCTCTTTAGGGGTAATTTC
47647763 GTGATCTACG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.20, C:0.11, G:0.22, T:0.47
Consensus pattern (28 bp):
GTAATTTTGCTCTTTAGGGGTAATTTCA
Found at i:47654206 original size:250 final size:250
Alignment explanation
Indices: 47653765--47654267 Score: 961
Period size: 250 Copynumber: 2.0 Consensus size: 250
47653755 TATCCCTACA
47653765 AAATAGTTAACATATCATACCTGCACTTGCTAATCCCCTATAAAGGGATTAGTTTCTCATAGTTT
1 AAATAGTTAACATATCATACCTGCACTTGCTAATCCCCTATAAAGGGATTAGTTTCTCATAGTTT
* *
47653830 CCATAGACAATATAGAATCGATATAAAGAGAAAACATGCGAAATAAATCAATAATGTAGAGTTTA
66 CCATAGACAATATAGAATCAATATAAAGAGAAAACATGCGAAATAAATCAACAATGTAGAGTTTA
*
47653895 CAAAAGAGATTAATTAAATTAAGATTGATCGCGAATCCACAAGGTTTGACTATCTCCATAATATA
131 CAAAAGAGATTAATTAAATTAAGATTGATCACGAATCCACAAGGTTTGACTATCTCCATAATATA
47653960 GATATCTCAAAATAGAACAAGAACAAATGAAAATAAATCTAACCTAAGAAACAAG
196 GATATCTCAAAATAGAACAAGAACAAATGAAAATAAATCTAACCTAAGAAACAAG
47654015 AAATAGTTAACATATCATACCTGCACTTGCTAATCCCCTATAAAGGGATTAGTTTCTCATAGTTT
1 AAATAGTTAACATATCATACCTGCACTTGCTAATCCCCTATAAAGGGATTAGTTTCTCATAGTTT
47654080 CCATAGACAATATAGAATCAATATAAAGAGAAAACATGCGAAATAAATCAACAATGTAGAGTTTA
66 CCATAGACAATATAGAATCAATATAAAGAGAAAACATGCGAAATAAATCAACAATGTAGAGTTTA
* *
47654145 CAAAAGAGATTAATTATATTAAGATTGATCACGAATCCACAAGGTTTGACTGTCTCCATAATATA
131 CAAAAGAGATTAATTAAATTAAGATTGATCACGAATCCACAAGGTTTGACTATCTCCATAATATA
47654210 GATATCTCAAAATAGAACAAGAACAAATGAAAATAAATCTAACCTAAGAAACAAG
196 GATATCTCAAAATAGAACAAGAACAAATGAAAATAAATCTAACCTAAGAAACAAG
47654265 AAA
1 AAA
47654268 ACTAAACTAT
Statistics
Matches: 248, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
250 248 1.00
ACGTcount: A:0.46, C:0.15, G:0.13, T:0.26
Consensus pattern (250 bp):
AAATAGTTAACATATCATACCTGCACTTGCTAATCCCCTATAAAGGGATTAGTTTCTCATAGTTT
CCATAGACAATATAGAATCAATATAAAGAGAAAACATGCGAAATAAATCAACAATGTAGAGTTTA
CAAAAGAGATTAATTAAATTAAGATTGATCACGAATCCACAAGGTTTGACTATCTCCATAATATA
GATATCTCAAAATAGAACAAGAACAAATGAAAATAAATCTAACCTAAGAAACAAG
Found at i:47659995 original size:27 final size:27
Alignment explanation
Indices: 47659965--47660200 Score: 230
Period size: 27 Copynumber: 8.7 Consensus size: 27
47659955 AAACCCCGGT
47659965 TTGTAAAATTATCGAAATACCCTCAGA
1 TTGTAAAATTATCGAAATACCCTCAGA
* *
47659992 TTGTAAAATTATCGAAATACCC-CTGGT
1 TTGTAAAATTATCGAAATACCCTC-AGA
* *
47660019 TTGTAAAATTACCAAAATACCCTCAGA
1 TTGTAAAATTATCGAAATACCCTCAGA
* * *
47660046 TTATAAAATTA-CTGAAATACCCCCAGT
1 TTGTAAAATTATC-GAAATACCCTCAGA
*
47660073 TTGTAAAATTA-CTGAAATACCTTCAGA
1 TTGTAAAATTATC-GAAATACCCTCAGA
* * * *
47660100 TTATAAAATTACCAAAATACCCTCAGT
1 TTGTAAAATTATCGAAATACCCTCAGA
* * *
47660127 TTGTAAAGTTATTGAAATACCC-CCGA
1 TTGTAAAATTATCGAAATACCCTCAGA
*
47660153 TTTGTAAAATTATCGAAATACCCT-TGTA
1 -TTGTAAAATTATCGAAATACCCTCAG-A
* *
47660181 GTGTAAAATTACCGAAATAC
1 TTGTAAAATTATCGAAATAC
47660201 ACTTGTAGGG
Statistics
Matches: 172, Mismatches: 30, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
26 4 0.02
27 165 0.96
28 3 0.02
ACGTcount: A:0.40, C:0.19, G:0.11, T:0.31
Consensus pattern (27 bp):
TTGTAAAATTATCGAAATACCCTCAGA
Found at i:47660038 original size:54 final size:54
Alignment explanation
Indices: 47659963--47660200 Score: 268
Period size: 54 Copynumber: 4.4 Consensus size: 54
47659953 TAAAACCCCG
* * *
47659963 GTTTGTAAAATTATCGAAATACCCTCAGATTGTAAAATTATCGAAATACCCCTG
1 GTTTGTAAAATTACCGAAATACCCTCAGATTATAAAATTATCGAAATACCCCTA
* *
47660017 GTTTGTAAAATTACCAAAATACCCTCAGATTATAAAATTA-CTGAAATACCCCCA
1 GTTTGTAAAATTACCGAAATACCCTCAGATTATAAAATTATC-GAAATACCCCTA
* * * *
47660071 GTTTGTAAAATTACTGAAATACCTTCAGATTATAAAATTACCAAAATA-CCCTCA
1 GTTTGTAAAATTACCGAAATACCCTCAGATTATAAAATTATCGAAATACCCCT-A
* ** * * *
47660125 GTTTGTAAAGTTATTGAAATACCC-CCGATTTGTAAAATTATCGAAATA-CCCTT
1 GTTTGTAAAATTACCGAAATACCCTCAGA-TTATAAAATTATCGAAATACCCCTA
*
47660178 GTAGTGTAAAATTACCGAAATAC
1 GT-TTGTAAAATTACCGAAATAC
47660201 ACTTGTAGGG
Statistics
Matches: 157, Mismatches: 22, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
53 9 0.06
54 147 0.94
55 1 0.01
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.31
Consensus pattern (54 bp):
GTTTGTAAAATTACCGAAATACCCTCAGATTATAAAATTATCGAAATACCCCTA
Found at i:47660188 original size:81 final size:81
Alignment explanation
Indices: 47659963--47660200 Score: 290
Period size: 81 Copynumber: 2.9 Consensus size: 81
47659953 TAAAACCCCG
* * *
47659963 GTTTGTAAAATTATCGAAATACCCTCAGA-TTGTAAAATTATCGAAATACCCCTGGT-TTGTAAA
1 GTTTGTAAAATTATTGAAATACCC-CCGATTTGTAAAATTATCGAAATA-CCCTTGTATTGTAAA
47660026 ATTACCAAAATACCCTCA
64 ATTACCAAAATACCCTCA
* * * *
47660044 GATTATAAAATTACTGAAATACCCCC-AGTTTGTAAAATTA-CTGAAATA-CCTTCAG-ATTATA
1 GTTTGTAAAATTATTGAAATACCCCCGA-TTTGTAAAATTATC-GAAATACCCTT--GTATTGTA
47660105 AAATTACCAAAATACCCTCA
62 AAATTACCAAAATACCCTCA
* *
47660125 GTTTGTAAAGTTATTGAAATACCCCCGATTTGTAAAATTATCGAAATACCCTTGTAGTGTAAAAT
1 GTTTGTAAAATTATTGAAATACCCCCGATTTGTAAAATTATCGAAATACCCTTGTATTGTAAAAT
*
47660190 TACCGAAATAC
66 TACCAAAATAC
47660201 ACTTGTAGGG
Statistics
Matches: 133, Mismatches: 14, Indels: 20
0.80 0.08 0.12
Matches are distributed among these distances:
79 4 0.03
80 3 0.02
81 120 0.90
82 6 0.05
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.31
Consensus pattern (81 bp):
GTTTGTAAAATTATTGAAATACCCCCGATTTGTAAAATTATCGAAATACCCTTGTATTGTAAAAT
TACCAAAATACCCTCA
Found at i:47660205 original size:27 final size:27
Alignment explanation
Indices: 47660155--47660216 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
47660145 ACCCCCGATT
* *
47660155 TGTAAAATTATCGAAATACCCTTGTAG
1 TGTAAAATTACCGAAATACACTTGTAG
47660182 TGTAAAATTACCGAAATACACTTGTAG
1 TGTAAAATTACCGAAATACACTTGTAG
*
47660209 GGTAAAAT
1 TGTAAAAT
47660217 GATTGTTTTG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.31
Consensus pattern (27 bp):
TGTAAAATTACCGAAATACACTTGTAG
Found at i:47660612 original size:22 final size:22
Alignment explanation
Indices: 47660577--47660633 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 22
47660567 TTAATTTGAT
* *
47660577 TATGGCTCTATGCCAACTTAAA
1 TATGGCTTTGTGCCAACTTAAA
* ***
47660599 TATGGCTTTGTGCCATCTTGTT
1 TATGGCTTTGTGCCAACTTAAA
47660621 TATGGCTTTGTGC
1 TATGGCTTTGTGC
47660634 TAATCATATT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.18, C:0.19, G:0.21, T:0.42
Consensus pattern (22 bp):
TATGGCTTTGTGCCAACTTAAA
Found at i:47660713 original size:27 final size:27
Alignment explanation
Indices: 47660622--47660724 Score: 89
Period size: 27 Copynumber: 3.8 Consensus size: 27
47660612 CATCTTGTTT
* **
47660622 ATGGCTTTGTGCTAATCATATTTACCC
1 ATGGCTATGTGCCGATCATATTTACCC
* * ***
47660649 GTGGCTATGTGCCTATCATATTTATTA
1 ATGGCTATGTGCCGATCATATTTACCC
* * * *
47660676 ATGACTCTGTGTCGACCATATTTACCC
1 ATGGCTATGTGCCGATCATATTTACCC
*
47660703 ATGGCTGTGTGCCGATCATATT
1 ATGGCTATGTGCCGATCATATT
47660725 ACAACTACTG
Statistics
Matches: 56, Mismatches: 20, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
27 56 1.00
ACGTcount: A:0.21, C:0.21, G:0.18, T:0.39
Consensus pattern (27 bp):
ATGGCTATGTGCCGATCATATTTACCC
Found at i:47660750 original size:32 final size:32
Alignment explanation
Indices: 47660703--47660772 Score: 95
Period size: 32 Copynumber: 2.2 Consensus size: 32
47660693 ATATTTACCC
* *
47660703 ATGGCTGTGTGCCGATCATATTACAACTACTG
1 ATGGCTGTGTACCGATCAAATTACAACTACTG
* * *
47660735 ATGGCTTTGTACCGATCAAATTACCACTATTG
1 ATGGCTGTGTACCGATCAAATTACAACTACTG
47660767 ATGGCT
1 ATGGCT
47660773 AAAAGTCATG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (32 bp):
ATGGCTGTGTACCGATCAAATTACAACTACTG
Found at i:47668718 original size:18 final size:17
Alignment explanation
Indices: 47668695--47668728 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
47668685 TGCATAAAAG
*
47668695 TCTCAAGTTTTATATTTT
1 TCTCAAGCTTTA-ATTTT
47668713 TCTCAAGCTTTAATTT
1 TCTCAAGCTTTAATTT
47668729 CATGACTGCC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.24, C:0.15, G:0.06, T:0.56
Consensus pattern (17 bp):
TCTCAAGCTTTAATTTT
Found at i:47671482 original size:28 final size:27
Alignment explanation
Indices: 47671419--47671488 Score: 131
Period size: 27 Copynumber: 2.6 Consensus size: 27
47671409 ATAGTGAGTC
47671419 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
47671446 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
47671474 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
47671489 GTACAAATTT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 23 0.55
28 19 0.45
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:47679340 original size:29 final size:27
Alignment explanation
Indices: 47679275--47679345 Score: 124
Period size: 27 Copynumber: 2.6 Consensus size: 27
47679265 ATAGTGAGTC
47679275 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
47679302 CGCACACTTAGTGCTATATGAATCAAACT
1 CGCACACTTAGTGCTATAT-AATC-AACT
47679331 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
47679346 GTACAAATTT
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
27 19 0.45
28 4 0.10
29 19 0.45
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:47682363 original size:42 final size:42
Alignment explanation
Indices: 47682316--47682423 Score: 198
Period size: 42 Copynumber: 2.6 Consensus size: 42
47682306 TATTGGTCTC
47682316 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
1 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
47682358 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
1 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
* *
47682400 GGCACTACGTGTGCGGGTTTAAAT
1 GGCACTAAGTGTGCGGGTATAAAT
47682424 TGTACAGCAC
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 64 1.00
ACGTcount: A:0.29, C:0.15, G:0.33, T:0.23
Consensus pattern (42 bp):
GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
Found at i:47682486 original size:27 final size:28
Alignment explanation
Indices: 47682429--47682498 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
47682419 TAAATTGTAC
**
47682429 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
* *
47682457 AGCACTATGTGTGCG-AGCTGATTTTAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
47682484 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
47682499 GATTCACTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 23 0.62
28 14 0.38
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:47684135 original size:32 final size:33
Alignment explanation
Indices: 47684085--47684148 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
47684075 CTAGTATTGG
47684085 TGTGGGCCATAGCCCATTACAGTAAAGTATCAA
1 TGTGGGCCATAGCCCATTACAGTAAAGTATCAA
* **
47684118 TGTGGG-CTTAGCCCATTACAGTTCAGTATCA
1 TGTGGGCCATAGCCCATTACAGTAAAGTATCA
47684149 GAAATGCAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 22 0.79
33 6 0.21
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (33 bp):
TGTGGGCCATAGCCCATTACAGTAAAGTATCAA
Found at i:47691920 original size:32 final size:33
Alignment explanation
Indices: 47691862--47691934 Score: 112
Period size: 32 Copynumber: 2.2 Consensus size: 33
47691852 GTATCAGTCT
* *
47691862 AGTATCGGTGTGGGCCTTAGCTCATTACAGTAC
1 AGTATCAGTGTGGGCCTTAGCCCATTACAGTAC
*
47691895 AGTATCAGTGTGGG-CTTAGCCCATTACAGTTC
1 AGTATCAGTGTGGGCCTTAGCCCATTACAGTAC
47691927 AGTATCAG
1 AGTATCAG
47691935 AAATGCAAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
32 24 0.65
33 13 0.35
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (33 bp):
AGTATCAGTGTGGGCCTTAGCCCATTACAGTAC
Found at i:47706665 original size:40 final size:39
Alignment explanation
Indices: 47706620--47706827 Score: 236
Period size: 40 Copynumber: 5.2 Consensus size: 39
47706610 TCGGATACAA
*
47706620 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *
47706660 CCGGATATAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
47706700 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
47706740 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * *
47706780 CCGGATATAATTACTAGCACAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
47706820 CCGGATAT
1 CCGGATAT
47706828 CATTCAATTG
Statistics
Matches: 145, Mismatches: 22, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
39 1 0.01
40 144 0.99
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:47706760 original size:80 final size:80
Alignment explanation
Indices: 47706620--47706827 Score: 265
Period size: 80 Copynumber: 2.6 Consensus size: 80
47706610 TCGGATACAA
* * *
47706620 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTTGCACAAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATG
*
47706685 CCTTCGGGTATTAGC
66 CCTTCGGGTATTAAC
* * * *
47706700 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGTC-ACTAGCACAATT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATA-ACGACTAGCACAAAT
*
47706764 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * * * *
47706780 CCGGATATAATTACTAGCACAAATGTCTTCGGGACTTAGCCCGGATAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAT
47706828 CATTCAATTG
Statistics
Matches: 110, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
80 109 0.99
81 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATG
CCTTCGGGTATTAAC
Found at i:47714671 original size:40 final size:39
Alignment explanation
Indices: 47714626--47714833 Score: 227
Period size: 40 Copynumber: 5.2 Consensus size: 39
47714616 CGGAATACAA
*
47714626 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *
47714666 CCGGATATAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
47714706 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
47714746 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * * *
47714786 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
47714826 CCGGATAT
1 CCGGATAT
47714834 CATTCAATTG
Statistics
Matches: 144, Mismatches: 23, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
39 1 0.01
40 143 0.99
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:47714766 original size:80 final size:80
Alignment explanation
Indices: 47714626--47714833 Score: 256
Period size: 80 Copynumber: 2.6 Consensus size: 80
47714616 CGGAATACAA
* * *
47714626 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTTGCACAAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATG
*
47714691 CCTTCGGGTATTAGC
66 CCTTCGGGTATTAAC
* * * *
47714706 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGTC-ACTAGCACAATT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATA-ACGACTAGCACAAAT
*
47714770 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * ** * *
47714786 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAT
47714834 CATTCAATTG
Statistics
Matches: 109, Mismatches: 18, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
80 108 0.99
81 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATG
CCTTCGGGTATTAAC
Found at i:47721568 original size:48 final size:48
Alignment explanation
Indices: 47721515--47721622 Score: 153
Period size: 48 Copynumber: 2.2 Consensus size: 48
47721505 TATCCTAGAT
* * **
47721515 ATGGTCTAATATGGGACCACTTATTGATGCCAATGCCATGTCCCAAAC
1 ATGGTCTAACATGGGACCACATAACGATGCCAATGCCATGTCCCAAAC
* *
47721563 ATGGTCTTACATGGGATCACATAACGATGCCAATGCCATGTCCCAAAC
1 ATGGTCTAACATGGGACCACATAACGATGCCAATGCCATGTCCCAAAC
*
47721611 ATGGTCTTACAT
1 ATGGTCTAACAT
47721623 AGGATCATAT
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 54 1.00
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.27
Consensus pattern (48 bp):
ATGGTCTAACATGGGACCACATAACGATGCCAATGCCATGTCCCAAAC
Found at i:47721663 original size:48 final size:48
Alignment explanation
Indices: 47721541--47721655 Score: 167
Period size: 48 Copynumber: 2.4 Consensus size: 48
47721531 CCACTTATTG
* *
47721541 ATGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATCACATAACG
1 ATGCCAATGCCATGTCCCAAACATGGTCTTACATAGGATCACATAACA
* *
47721589 ATGCCAATGCCATGTCCCAAACATGGTCTTACATAGGATCATATATCA
1 ATGCCAATGCCATGTCCCAAACATGGTCTTACATAGGATCACATAACA
* * *
47721637 ATGTCGATGCCATATCCCA
1 ATGCCAATGCCATGTCCCA
47721656 GATATGGTTT
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 60 1.00
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (48 bp):
ATGCCAATGCCATGTCCCAAACATGGTCTTACATAGGATCACATAACA
Found at i:47724972 original size:40 final size:40
Alignment explanation
Indices: 47724913--47725054 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
47724903 AAATTGAATG
* * *
47724913 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
47724953 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
47724993 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
47725033 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
47725055 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:47725055 original size:40 final size:39
Alignment explanation
Indices: 47724952--47725080 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
47724942 TGCTGGAAAT
* * *
47724952 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
47724992 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
47725032 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
47725072 TATATCCGG
1 TATATCCGG
47725081 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:47733820 original size:2 final size:2
Alignment explanation
Indices: 47733757--47733804 Score: 78
Period size: 2 Copynumber: 23.5 Consensus size: 2
47733747 GTTTGTGAGT
*
47733757 TA TA TA AA TA TCA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
47733800 TA TA T
1 TA TA T
47733805 TACATTGAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
2 41 0.95
3 2 0.05
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:47734224 original size:57 final size:58
Alignment explanation
Indices: 47734098--47734224 Score: 141
Period size: 58 Copynumber: 2.2 Consensus size: 58
47734088 CTCATTATAG
* * * * **
47734098 AAAGGATTTAGTCCGGACGAGTAATCCTGATATAAGTCCTCTCGAGCATATGTTATGG
1 AAAGGATTTAGCCCGGACGAGTAATCCAGATATAAGTCCTCTAGAGCATATGTCATAA
** * *
47734156 ATTGGATTTAGCCCGGACGGGTAATCCAGATCA-AAGT-CTTTAGAGCATATGTCATAA
1 AAAGGATTTAGCCCGGACGAGTAATCCAGAT-ATAAGTCCTCTAGAGCATATGTCATAA
47734213 AAAGGATTTAGC
1 AAAGGATTTAGC
47734225 TTGGACTAGT
Statistics
Matches: 56, Mismatches: 12, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
57 25 0.45
58 30 0.54
59 1 0.02
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (58 bp):
AAAGGATTTAGCCCGGACGAGTAATCCAGATATAAGTCCTCTAGAGCATATGTCATAA
Found at i:47735159 original size:19 final size:19
Alignment explanation
Indices: 47735135--47735174 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
47735125 GATTATATTC
47735135 TGGTACATGTATATATATG
1 TGGTACATGTATATATATG
*
47735154 TGGTACTTGTATATATATG
1 TGGTACATGTATATATATG
47735173 TG
1 TG
47735175 TTTAAGTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.28, C:0.05, G:0.23, T:0.45
Consensus pattern (19 bp):
TGGTACATGTATATATATG
Found at i:47741674 original size:14 final size:14
Alignment explanation
Indices: 47741655--47741684 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
47741645 TTAAATGTTA
47741655 TATATTATAATTTT
1 TATATTATAATTTT
*
47741669 TATATTATTATTTT
1 TATATTATAATTTT
47741683 TA
1 TA
47741685 CTTAATTTAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
TATATTATAATTTT
Found at i:47749602 original size:39 final size:40
Alignment explanation
Indices: 47749548--47749737 Score: 242
Period size: 40 Copynumber: 4.8 Consensus size: 40
47749538 GGATATAGCT
* * *
47749548 ACTCGCTCAAATGCCTT-GGGACATAGCCCGG-TTAGAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT-TAGTA
*
47749587 ACTCGCACAATTGCCTTCGGGACTTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
*
47749627 ACTCGCACAAATGCCTTTGGGACTTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
** *
47749667 ACTCGCACAAATGCCTTCGGGACTT-GCCCGGAACTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* * * *
47749706 ACTAGCGCAGATGCCTACGGGACTTAGCCCGG
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
47749738 TTATCATCCA
Statistics
Matches: 134, Mismatches: 14, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
39 47 0.35
40 85 0.63
41 2 0.01
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
Found at i:47749697 original size:79 final size:80
Alignment explanation
Indices: 47749548--47749740 Score: 248
Period size: 79 Copynumber: 2.4 Consensus size: 80
47749538 GGATATAGCT
* * *
47749548 ACTCGCTCAAATGCC-TTGGGACATAGCCCGGTTAGAGTAACTCGCACAATTGCCTTCGGGACTT
1 ACTCGCACAAATGCCTTTGGGACTTAGCCCGGTTAGAGTAACTCGCACAAATGCCTTCGGGACTT
**
47749612 AGCCCGGATTTAGTA
66 AGCCCGGAACTAGTA
*
47749627 ACTCGCACAAATGCCTTTGGGACTTAGCCCGGATT-TAGTAACTCGCACAAATGCCTTCGGGACT
1 ACTCGCACAAATGCCTTTGGGACTTAGCCCGG-TTAGAGTAACTCGCACAAATGCCTTCGGGACT
*
47749691 T-GCCCGGAACTAGTC
65 TAGCCCGGAACTAGTA
* * * **
47749706 ACTAGCGCAGATGCCTACGGGACTTAGCCCGGTTA
1 ACTCGCACAAATGCCTTTGGGACTTAGCCCGGTTA
47749741 TCATCCAAAT
Statistics
Matches: 99, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
78 2 0.02
79 52 0.53
80 43 0.43
81 2 0.02
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (80 bp):
ACTCGCACAAATGCCTTTGGGACTTAGCCCGGTTAGAGTAACTCGCACAAATGCCTTCGGGACTT
AGCCCGGAACTAGTA
Found at i:47754760 original size:43 final size:43
Alignment explanation
Indices: 47754676--47754821 Score: 143
Period size: 43 Copynumber: 3.4 Consensus size: 43
47754666 TCTGAAACAT
* * * * ***
47754676 CATGTAAGACCGTGTCTGGGACACAGGCCTCGATGGAGATTTA
1 CATGTAAGACCATGTCTGGGACAGAGACATCGATATTGATTTA
* **
47754719 CATATAAGACCATGTCTGGGACATTGACATC-ATATCTGATTT-
1 CATGTAAGACCATGTCTGGGACAGAGACATCGATAT-TGATTTA
* * *
47754761 CGTGTAAGACCCTGTCTGGGACAGAGACATCGATATTGAATTA
1 CATGTAAGACCATGTCTGGGACAGAGACATCGATATTGATTTA
*
47754804 CATGTAAGACCACGTCTG
1 CATGTAAGACCATGTCTG
47754822 AGACGTTGGC
Statistics
Matches: 82, Mismatches: 18, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
42 33 0.40
43 49 0.60
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.27
Consensus pattern (43 bp):
CATGTAAGACCATGTCTGGGACAGAGACATCGATATTGATTTA
Found at i:47759497 original size:68 final size:66
Alignment explanation
Indices: 47759425--47759596 Score: 170
Period size: 67 Copynumber: 2.6 Consensus size: 66
47759415 CATCATGTGT
* * * *
47759425 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
47759488 TGTAG
62 TGTAG
** * *
47759493 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCATGT
47759558 AG
65 AG
* * * *
47759560 ACAAGAGAGCTACGAGATAAAT-TGGCTAGGTCACATG
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATG
47759597 GGTGGTACTG
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
64 24 0.27
65 3 0.03
66 17 0.19
67 32 0.36
68 13 0.15
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.22
Consensus pattern (66 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTA
G
Found at i:47759530 original size:64 final size:64
Alignment explanation
Indices: 47759449--47759632 Score: 203
Period size: 67 Copynumber: 2.8 Consensus size: 64
47759439 AGACATTATG
* * *
47759449 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
47759513 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
47759578 AA
63 AA
* * *
47759580 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
47759633 CGAACTATAT
Statistics
Matches: 99, Mismatches: 16, Indels: 11
0.79 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.25
66 21 0.21
67 33 0.33
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:47763906 original size:68 final size:66
Alignment explanation
Indices: 47763834--47764005 Score: 170
Period size: 67 Copynumber: 2.6 Consensus size: 66
47763824 CATCATGTGT
* * * *
47763834 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
47763897 TGTAG
62 TGTAG
** * *
47763902 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCATGT
47763967 AG
65 AG
* * * *
47763969 ACAAGAGAGCTACGAGATAAAT-TGGCTAGGTCACATG
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATG
47764006 GGTGGTACTG
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
64 24 0.27
65 3 0.03
66 17 0.19
67 32 0.36
68 13 0.15
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.22
Consensus pattern (66 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTA
G
Found at i:47763939 original size:64 final size:64
Alignment explanation
Indices: 47763858--47764041 Score: 203
Period size: 67 Copynumber: 2.8 Consensus size: 64
47763848 AGACATTATG
* * *
47763858 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
47763922 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
47763987 AA
63 AA
* * *
47763989 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
47764042 CGAACTATAT
Statistics
Matches: 99, Mismatches: 16, Indels: 11
0.79 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.25
66 21 0.21
67 33 0.33
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:47770121 original size:47 final size:46
Alignment explanation
Indices: 47770059--47770273 Score: 176
Period size: 47 Copynumber: 4.7 Consensus size: 46
47770049 GACGAGGGCT
* *
47770059 AGTGTAAGA-AGTGTCTGGGACATGCATCAGGCGCATCATGATAGCC
1 AGTGTAAGACA-TGTCTGGGACATGCATCAGGCGAATGATGATAGCC
* * *
47770105 CGTGTAAGACCATGTCTTGGACATGGCATC-GGCGTAGA-GGTGAGT-GCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGGCG-A-ATGATGA-TAGCC
* * *
47770153 AGTGTAAGACATGTCTGGGACATGCATCAGACTTAATGATGTTAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGGC-GAATGATGATAGCC
* * * *
47770200 AGTGTAAGACGTGTCTGGGACATGCATC-GGCTAA-GTTTCG-T-GCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGGCGAATG-AT-GATAGCC
*
47770244 AGTGTAAGATATGTCTGGGACATGCATCAG
1 AGTGTAAGACATGTCTGGGACATGCATCAG
47770274 CATGTATACA
Statistics
Matches: 139, Mismatches: 17, Indels: 27
0.76 0.09 0.15
Matches are distributed among these distances:
44 29 0.21
45 6 0.04
46 18 0.13
47 64 0.46
48 20 0.14
49 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.26
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGGCGAATGATGATAGCC
Found at i:47770176 original size:94 final size:93
Alignment explanation
Indices: 47770015--47770324 Score: 333
Period size: 94 Copynumber: 3.3 Consensus size: 93
47770005 AGAGCCAGAA
* * *
47770015 TAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGGGCTAGTGTAAGAAGTGTCTGGGAC
1 TAAGACCATGTCTGGGACATGGCATCGGC-TAGAGATGAGTGCTAGTGTAAGAA-TGTCTGGGAC
* *
47770080 ATGCATCAGGC-GCATCATGATAGCCCGTG
64 ATGCATCAGGCTGAATCATGATAGCCAGTG
* * *
47770109 TAAGACCATGTCTTGGACATGGCATCGGCGTAGAGGTGAGTGCCAGTGTAAGACATGTCTGGGAC
1 TAAGACCATGTCTGGGACATGGCATCGGC-TAGAGATGAGTGCTAGTGTAAGA-ATGTCTGGGAC
* * * *
47770174 ATGCATCAGACTTAATGATGTTAGCCAGTG
64 ATGCATCAGGCTGAATCATGATAGCCAGTG
* * **
47770204 TAAGA-CGTGTCTGGGACAT-GCATCGGCTA-AGTTTCGTGCTAGTGTAAGATATGTCTGGGACA
1 TAAGACCATGTCTGGGACATGGCATCGGCTAGAGATGAGTGCTAGTGTAAGA-ATGTCTGGGACA
* * * *
47770266 TGCATCA-GCATGTATACACGAGAGCTAGTG
65 TGCATCAGGC-TGAAT-CATGATAGCCAGTG
*
47770296 TAAGACCATGCCTGGGACATGGCATCGGC
1 TAAGACCATGTCTGGGACATGGCATCGGC
47770325 CTTGATGGAG
Statistics
Matches: 180, Mismatches: 30, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
90 1 0.01
91 38 0.21
92 16 0.09
93 20 0.11
94 86 0.48
95 19 0.11
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (93 bp):
TAAGACCATGTCTGGGACATGGCATCGGCTAGAGATGAGTGCTAGTGTAAGAATGTCTGGGACAT
GCATCAGGCTGAATCATGATAGCCAGTG
Found at i:47773189 original size:40 final size:40
Alignment explanation
Indices: 47773134--47773301 Score: 203
Period size: 40 Copynumber: 4.2 Consensus size: 40
47773124 TGAATGATAC
* *
47773134 CCGGGCTAAGTCCCGAAGGCATTTATGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* *
47773174 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGATATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* *** *
47773214 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * ** *
47773254 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
47773294 CC-GGCTAA
1 CCGGGCTAA
47773302 ATTCCGAAGA
Statistics
Matches: 108, Mismatches: 20, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
39 5 0.05
40 103 0.95
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:47773525 original size:24 final size:24
Alignment explanation
Indices: 47773491--47773556 Score: 80
Period size: 24 Copynumber: 2.8 Consensus size: 24
47773481 TGTGTGTGTT
* *
47773491 TATGATGATGA-AGTGTGAAGTAA
1 TATGATTATGAGAATGTGAAGTAA
* *
47773514 GTATGATTATGAGAATGTGTATTAA
1 -TATGATTATGAGAATGTGAAGTAA
47773539 TATGATTATGAGAATGTG
1 TATGATTATGAGAATGTG
47773557 TATTAATAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
24 28 0.76
25 9 0.24
ACGTcount: A:0.36, C:0.00, G:0.27, T:0.36
Consensus pattern (24 bp):
TATGATTATGAGAATGTGAAGTAA
Found at i:47773557 original size:24 final size:24
Alignment explanation
Indices: 47773515--47773564 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
47773505 GTGAAGTAAG
47773515 TATGATTATGAGAATGTGTATTAA
1 TATGATTATGAGAATGTGTATTAA
47773539 TATGATTATGAGAATGTGTATTAA
1 TATGATTATGAGAATGTGTATTAA
47773563 TA
1 TA
47773565 AAGTTATTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.38, C:0.00, G:0.20, T:0.42
Consensus pattern (24 bp):
TATGATTATGAGAATGTGTATTAA
Found at i:47775325 original size:15 final size:15
Alignment explanation
Indices: 47775305--47775337 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
47775295 ATTTTTGCGT
47775305 TTCTATGATCGTTGC
1 TTCTATGATCGTTGC
47775320 TTCTATGATCGTTGC
1 TTCTATGATCGTTGC
47775335 TTC
1 TTC
47775338 GTGTTCTTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.12, C:0.21, G:0.18, T:0.48
Consensus pattern (15 bp):
TTCTATGATCGTTGC
Found at i:47778720 original size:48 final size:48
Alignment explanation
Indices: 47778649--47778745 Score: 194
Period size: 48 Copynumber: 2.0 Consensus size: 48
47778639 AACTTTGACC
47778649 AACCTGGCCCAACTTGTTTTCCTCGTATACGAAACTAGCCCATATTTA
1 AACCTGGCCCAACTTGTTTTCCTCGTATACGAAACTAGCCCATATTTA
47778697 AACCTGGCCCAACTTGTTTTCCTCGTATACGAAACTAGCCCATATTTA
1 AACCTGGCCCAACTTGTTTTCCTCGTATACGAAACTAGCCCATATTTA
47778745 A
1 A
47778746 TCACAATCTC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.28, C:0.29, G:0.12, T:0.31
Consensus pattern (48 bp):
AACCTGGCCCAACTTGTTTTCCTCGTATACGAAACTAGCCCATATTTA
Found at i:47780905 original size:48 final size:48
Alignment explanation
Indices: 47780837--47780930 Score: 170
Period size: 48 Copynumber: 2.0 Consensus size: 48
47780827 CAAATTTACC
*
47780837 AATCCTAATTGTAATCCCAAGTTGACCAATGCAGAGTTGCAGACAAAT
1 AATCCTAACTGTAATCCCAAGTTGACCAATGCAGAGTTGCAGACAAAT
*
47780885 AATCCTAACTGTAATTCCAAGTTGACCAATGCAGAGTTGCAGACAA
1 AATCCTAACTGTAATCCCAAGTTGACCAATGCAGAGTTGCAGACAA
47780931 TTTTTTTTTT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.24
Consensus pattern (48 bp):
AATCCTAACTGTAATCCCAAGTTGACCAATGCAGAGTTGCAGACAAAT
Found at i:47787300 original size:29 final size:30
Alignment explanation
Indices: 47787251--47787308 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
47787241 TATATCTTGT
*
47787251 TTAAATAAGATCTTGTACTATT-TTTTTAG
1 TTAAATAAGATCTTATACTATTATTTTTAG
*
47787280 TTAAATAAGCATC-TATCCTATTATTTTTA
1 TTAAATAAG-ATCTTATACTATTATTTTTA
47787309 CTCATGAAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 16 0.64
30 9 0.36
ACGTcount: A:0.33, C:0.10, G:0.07, T:0.50
Consensus pattern (30 bp):
TTAAATAAGATCTTATACTATTATTTTTAG
Found at i:47787372 original size:18 final size:17
Alignment explanation
Indices: 47787329--47787372 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 17
47787319 TCTTTTATTT
47787329 TAATATTAAATTAAAAAA
1 TAAT-TTAAATTAAAAAA
*
47787347 TATTTTTAAATTAAAAAA
1 TA-ATTTAAATTAAAAAA
47787365 CTAATTTA
1 -TAATTTA
47787373 TTAATAGGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 19 0.86
19 3 0.14
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (17 bp):
TAATTTAAATTAAAAAA
Found at i:47787520 original size:40 final size:40
Alignment explanation
Indices: 47787469--47787546 Score: 120
Period size: 40 Copynumber: 1.9 Consensus size: 40
47787459 TGAAAGTGCT
* *
47787469 TATATAAATATCATAATTAACCACTCTTTTGAAAAATCTA
1 TATATAAATATCACAATTAACCACTCTTTTAAAAAATCTA
* *
47787509 TATATACATATCACAATTAATCACTCTTTTAAAAAATC
1 TATATAAATATCACAATTAACCACTCTTTTAAAAAATC
47787547 AACTTACTTG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.45, C:0.17, G:0.01, T:0.37
Consensus pattern (40 bp):
TATATAAATATCACAATTAACCACTCTTTTAAAAAATCTA
Found at i:47793866 original size:27 final size:27
Alignment explanation
Indices: 47793828--47793883 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
47793818 ATTTAAAGCT
47793828 TACCAAGCTCAACCCCGAGCATGAACA
1 TACCAAGCTCAACCCCGAGCATGAACA
47793855 TACCAAGCTCAACCCCGAGCATGAACA
1 TACCAAGCTCAACCCCGAGCATGAACA
47793882 TA
1 TA
47793884 TTACCTATTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.38, C:0.36, G:0.14, T:0.12
Consensus pattern (27 bp):
TACCAAGCTCAACCCCGAGCATGAACA
Found at i:47794094 original size:29 final size:29
Alignment explanation
Indices: 47794062--47794163 Score: 123
Period size: 29 Copynumber: 3.5 Consensus size: 29
47794052 ATTTAAGCCC
* * * *
47794062 GCACACATAGTGCCATACCCTTCGAGCTT
1 GCACACTTAGTGCCATACACTTCCAGCAT
* *
47794091 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATACACTTCCAGCAT
* * *
47794120 GCACACTTAGTGCCATATATTTCCAGCAC
1 GCACACTTAGTGCCATACACTTCCAGCAT
47794149 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
47794164 ATCTCGTCAC
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 66 1.00
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.26
Consensus pattern (29 bp):
GCACACTTAGTGCCATACACTTCCAGCAT
Found at i:47801865 original size:29 final size:29
Alignment explanation
Indices: 47801800--47801900 Score: 141
Period size: 29 Copynumber: 3.5 Consensus size: 29
47801790 ATTTAAGCCC
* *** *
47801800 GCACACATAGTGCCATACCCTTCGAGC-T
1 GCACACTTAGTGCCATATATTTCCAGCAT
47801828 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
*
47801857 GCACACTTAGTGCCATATATTTCCAGCAC
1 GCACACTTAGTGCCATATATTTCCAGCAT
47801886 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
47801901 ATCTCGTCAC
Statistics
Matches: 66, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
28 22 0.33
29 44 0.67
ACGTcount: A:0.27, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:47807732 original size:48 final size:48
Alignment explanation
Indices: 47807541--47807764 Score: 208
Period size: 48 Copynumber: 4.8 Consensus size: 48
47807531 GGTTATGTAC
* *
47807541 GATCCCATGTAAGACCATGTCTGGGATATGGCTTTGGCATCGATATGT
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGT
* ** * * *
47807589 AATTTCGTGTAAGACCATAGT-TGGG-C-T---ATCGGCATTGATATGT
1 GATCCCATGTAAGACCAT-GTCTGGGACATGGCATTGGCATCGATATGT
* * * * * **
47807632 TATCCCATGTAAGACCATGTTTGGGGCATGGAATTGGCATCGATCTAC
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGT
*
47807680 GATCCCACGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGT
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGT
* * ** *
47807728 GATCCCATGCAAGACCATATCCAGGATATGGCATTGG
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGG
47807765 TATCCTACCA
Statistics
Matches: 138, Mismatches: 31, Indels: 14
0.75 0.17 0.08
Matches are distributed among these distances:
42 2 0.01
43 31 0.22
44 1 0.01
45 1 0.01
46 1 0.01
48 100 0.72
49 2 0.01
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.29
Consensus pattern (48 bp):
GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGT
Found at i:47811579 original size:14 final size:14
Alignment explanation
Indices: 47811560--47811588 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
47811550 TATGAATGAT
47811560 TGGTTCACCCAATA
1 TGGTTCACCCAATA
47811574 TGGTTCACCCAATA
1 TGGTTCACCCAATA
47811588 T
1 T
47811589 ATTAGAACCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.31
Consensus pattern (14 bp):
TGGTTCACCCAATA
Done.