Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 166 of 378
Found at i:48477374 original size:17 final size:18
Alignment explanation
Indices: 48477338--48477375 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
48477328 TAAACCATCC
*
48477338 ACTACCTCCATCACCCCT
1 ACTAACTCCATCACCCCT
48477356 ACTAACTCCATCA-CCCT
1 ACTAACTCCATCACCCCT
48477373 ACT
1 ACT
48477376 TGTTATAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.26, C:0.50, G:0.00, T:0.24
Consensus pattern (18 bp):
ACTAACTCCATCACCCCT
Found at i:48477783 original size:19 final size:18
Alignment explanation
Indices: 48477759--48477795 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
48477749 TTATGTTTCA
48477759 TATTATTATATTATTTATT
1 TATTATTATA-TATTTATT
48477778 TATTATTATATATTTATT
1 TATTATTATATATTTATT
48477796 ATGTAAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TATTATTATATATTTATT
Found at i:48477784 original size:63 final size:63
Alignment explanation
Indices: 48477644--48477786 Score: 168
Period size: 63 Copynumber: 2.3 Consensus size: 63
48477634 TTTAACCTCT
* * *
48477644 TTTTTATTTTTGTTATTTTACTGTTAAATTAATTAATTTGAGCTTTATTCTCATTATTTTTATA
1 TTTTTATTTTTATTATTTTACTATTAAATTAATTAATTTGAGC-TTATTCTCATTATTATTATA
* *
48477708 TTTGTT-TTTTTATTATTTT-CTATTAATTTAATTAATTTGAG-TTATGTTTCA-TATTATTATA
1 TTT-TTATTTTTATTATTTTACTATTAAATTAATTAATTTGAGCTTAT-TCTCATTATTATTATA
48477769 TTATTTATTTATTATTAT
1 TT-TTTATTT-TTATTAT
48477787 ATATTTATTA
Statistics
Matches: 69, Mismatches: 5, Indels: 11
0.81 0.06 0.13
Matches are distributed among these distances:
61 17 0.25
62 8 0.12
63 27 0.39
64 15 0.22
65 2 0.03
ACGTcount: A:0.26, C:0.04, G:0.06, T:0.64
Consensus pattern (63 bp):
TTTTTATTTTTATTATTTTACTATTAAATTAATTAATTTGAGCTTATTCTCATTATTATTATA
Found at i:48477797 original size:21 final size:21
Alignment explanation
Indices: 48477759--48477814 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 21
48477749 TTATGTTTCA
48477759 TATTATTATATTATTTA-T-T-
1 TATTATTATA-TATTTATTATG
48477778 TATTATTATATATTTATTATG
1 TATTATTATATATTTATTATG
*
48477799 TA-AATATATATATTTA
1 TATTAT-TATATATTTA
48477815 AGCTAAGTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
18 6 0.19
19 11 0.34
20 3 0.09
21 12 0.38
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (21 bp):
TATTATTATATATTTATTATG
Found at i:48477807 original size:17 final size:14
Alignment explanation
Indices: 48477767--48477797 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
48477757 CATATTATTA
*
48477767 TATTATTTATTTAT
1 TATTATATATTTAT
48477781 TATTATATATTTAT
1 TATTATATATTTAT
48477795 TAT
1 TAT
48477798 GTAAATATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
TATTATATATTTAT
Found at i:48478487 original size:126 final size:126
Alignment explanation
Indices: 48478257--48478495 Score: 406
Period size: 126 Copynumber: 1.9 Consensus size: 126
48478247 ATTTTCTTTC
* *
48478257 AAAATTTTTCAAAATAAAGGCAAAGTTCAGTATTTAAAGAATTCGAAGAATCGTGCCCTAACGTA
1 AAAAATTTTCAAAATAAAGGCAAAGTTCAGTATTTAAAGAATTCGAAGAATCGTACCCTAACGTA
*
48478322 CTGGGTTTCGCTTTCTTTGTTTGTCTTGAATATTTGAATATCCTCTTACCAGTTCACTCTA
66 CTGGGTTTCGCTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTACCAGTTCACTCTA
* * *
48478383 AAAAATTTTCAAAATAAAGGCAATGTTCGGTATTTAAAGAATTCGAAGAATCGTATCCTAACGTA
1 AAAAATTTTCAAAATAAAGGCAAAGTTCAGTATTTAAAGAATTCGAAGAATCGTACCCTAACGTA
* *
48478448 CTGGGTTTTGCTTTCTTTGTTTGTTTTGAATATTCGAATATCCTCTTA
66 CTGGGTTTCGCTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTA
48478496 AGGCTAAAAC
Statistics
Matches: 105, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
126 105 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (126 bp):
AAAAATTTTCAAAATAAAGGCAAAGTTCAGTATTTAAAGAATTCGAAGAATCGTACCCTAACGTA
CTGGGTTTCGCTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTACCAGTTCACTCTA
Found at i:48479843 original size:19 final size:19
Alignment explanation
Indices: 48479819--48479865 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
48479809 GACGTCTTCT
*
48479819 TTTGCATT-CATCCCATGCA
1 TTTGCATTACATCACAT-CA
48479838 TTTGCATTACATCACATCA
1 TTTGCATTACATCACATCA
*
48479857 TGTGCATTA
1 TTTGCATTA
48479866 ATTTAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.26, C:0.26, G:0.11, T:0.38
Consensus pattern (19 bp):
TTTGCATTACATCACATCA
Found at i:48482694 original size:25 final size:24
Alignment explanation
Indices: 48482665--48482739 Score: 87
Period size: 25 Copynumber: 3.0 Consensus size: 24
48482655 TTCACTTTCA
48482665 AAAAAAAAAAGAGAAAAAGGAAAGAG
1 AAAAAAAAAAGAGAAAAA--AAAGAG
* *
48482691 AAAAAAAGAAAGGGAAAAATAAGAG
1 AAAAAAA-AAAGAGAAAAAAAAGAG
*
48482716 AAAAACAAAAAGAGAAAGAAAAGA
1 AAAAA-AAAAAGAGAAAAAAAAGA
48482740 AAAGCAAAGG
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
25 23 0.55
26 9 0.21
27 10 0.24
ACGTcount: A:0.76, C:0.01, G:0.21, T:0.01
Consensus pattern (24 bp):
AAAAAAAAAAGAGAAAAAAAAGAG
Found at i:48482695 original size:14 final size:14
Alignment explanation
Indices: 48482664--48482741 Score: 67
Period size: 14 Copynumber: 5.8 Consensus size: 14
48482654 CTTCACTTTC
*
48482664 AAAAAAAAAAAGAG
1 AAAAAAAGAAAGAG
*
48482678 -AAAAAGGAAAGAG
1 AAAAAAAGAAAGAG
*
48482691 AAAAAAAGAAAGGG
1 AAAAAAAGAAAGAG
48482705 AAAAATAAG--AGA-
1 AAAAA-AAGAAAGAG
*
48482717 AAAACAA-AAAGAG
1 AAAAAAAGAAAGAG
48482730 AAAGAAAAGAAA
1 AAA-AAAAGAAA
48482742 AGCAAAGGAG
Statistics
Matches: 50, Mismatches: 7, Indels: 13
0.71 0.10 0.19
Matches are distributed among these distances:
11 2 0.04
12 7 0.14
13 16 0.32
14 19 0.38
15 6 0.12
ACGTcount: A:0.77, C:0.01, G:0.21, T:0.01
Consensus pattern (14 bp):
AAAAAAAGAAAGAG
Found at i:48482740 original size:23 final size:24
Alignment explanation
Indices: 48482664--48482747 Score: 73
Period size: 25 Copynumber: 3.4 Consensus size: 24
48482654 CTTCACTTTC
*
48482664 AAAAAAAAAAAGAGAAAAAGGAAAGAG
1 AAAAACAAAAAGAG--AAA-GAAAGAG
* *
48482691 AAAAA-AAGAAAGGGAAAAATAAGAG
1 AAAAACAA-AAAGAGAAAGA-AAGAG
48482716 AAAAACAAAAAGAGAAAGAAA-AG
1 AAAAACAAAAAGAGAAAGAAAGAG
*
48482739 AAAAGCAAA
1 AAAAACAAA
48482748 GGAGAGGCCA
Statistics
Matches: 49, Mismatches: 5, Indels: 10
0.77 0.08 0.16
Matches are distributed among these distances:
23 10 0.20
24 3 0.06
25 22 0.45
26 4 0.08
27 10 0.20
ACGTcount: A:0.76, C:0.02, G:0.20, T:0.01
Consensus pattern (24 bp):
AAAAACAAAAAGAGAAAGAAAGAG
Found at i:48484305 original size:46 final size:46
Alignment explanation
Indices: 48484253--48484488 Score: 125
Period size: 46 Copynumber: 5.2 Consensus size: 46
48484243 AGAGTGGAAT
*
48484253 AGATCAAATTTCGACAGATCTTATCTTCGCTGAGCAGGAGCGGAGC
1 AGATCAAATTTCGACAGATCTTATCTTCACTGAGCAGGAGCGGAGC
* * * * * ** **
48484299 AGATCAAATTTTGGCAAATCTTACCTCCA-TGTA--TTG-GC--AAT
1 AGATCAAATTTCGACAGATCTTATCTTCACTG-AGCAGGAGCGGAGC
* * * * *
48484340 AGAGCATATTTCAGCCACCAG-CCTTATCTTCACTGAGCAGGAGTGAAGC
1 AGATCAAATTTC-G--A-CAGATCTTATCTTCACTGAGCAGGAGCGGAGC
* * * * * * * *
48484389 AG-GCTAAATATAG-CAGATCTCATCCT-ACTG-GCTGGAGTGGAAC
1 AGATC-AAATTTCGACAGATCTTATCTTCACTGAGCAGGAGCGGAGC
*
48484432 AGATCAAATTTCGACAGATCTTATCTTCGCTGAGCAGGAGCGGAGC
1 AGATCAAATTTCGACAGATCTTATCTTCACTGAGCAGGAGCGGAGC
48484478 AGATCAAATTT
1 AGATCAAATTT
48484489 TCGCTAATCT
Statistics
Matches: 132, Mismatches: 41, Indels: 34
0.64 0.20 0.16
Matches are distributed among these distances:
41 10 0.08
42 1 0.01
43 20 0.15
44 29 0.22
45 15 0.11
46 46 0.35
47 1 0.01
48 3 0.02
49 7 0.05
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (46 bp):
AGATCAAATTTCGACAGATCTTATCTTCACTGAGCAGGAGCGGAGC
Found at i:48484467 original size:89 final size:88
Alignment explanation
Indices: 48484183--48484471 Score: 250
Period size: 89 Copynumber: 3.2 Consensus size: 88
48484173 AGCCACCAGC
* * * **
48484183 CTTATCTTCACTGAACAAGAGTGGAA-CAGGCTAAATATAGCAGATCTCATCCCACTAGCAAGAG
1 CTTATCTTCACTGAGCAGGAGT-GAAGCAGGCTAAATATAGCAGATCTCATCCTACT-GCTGGAG
48484247 TGGAATAGATCAAATTTCGACAGAT
64 TGGAATAGATCAAATTTCGACAGAT
* * * * * * * * *
48484272 CTTATCTTCGCTGAGCAGGAGCGGAGCA-GATCAAATTTTGGCAAATCTTA-CCT-C--CATGTA
1 CTTATCTTCACTGAGCAGGAGTGAAGCAGGCT-AAA-TATAGCAGATCTCATCCTACTGC-TGGA
* * * *
48484332 TTGGCAATAGAGCATATTTCAGCCACCAG-C
63 GTGG-AATAGATCAAATTTC-G--A-CAGAT
48484362 CTTATCTTCACTGAGCAGGAGTGAAGCAGGCTAAATATAGCAGATCTCATCCTACTGGCTGGAGT
1 CTTATCTTCACTGAGCAGGAGTGAAGCAGGCTAAATATAGCAGATCTCATCCTACT-GCTGGAGT
*
48484427 GGAACAGATCAAATTTCGACAGAT
65 GGAATAGATCAAATTTCGACAGAT
*
48484451 CTTATCTTCGCTGAGCAGGAG
1 CTTATCTTCACTGAGCAGGAG
48484472 CGGAGCAGAT
Statistics
Matches: 151, Mismatches: 33, Indels: 32
0.70 0.15 0.15
Matches are distributed among these distances:
85 1 0.01
86 4 0.03
87 13 0.09
88 9 0.06
89 56 0.37
90 42 0.28
91 7 0.05
92 12 0.08
93 6 0.04
94 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (88 bp):
CTTATCTTCACTGAGCAGGAGTGAAGCAGGCTAAATATAGCAGATCTCATCCTACTGCTGGAGTG
GAATAGATCAAATTTCGACAGAT
Found at i:48484557 original size:90 final size:89
Alignment explanation
Indices: 48484093--48484561 Score: 284
Period size: 90 Copynumber: 5.2 Consensus size: 89
48484083 TTCGACAGAT
* * * * * **
48484093 CTTATCTTCGCTGAGCAGGAGCGGAGCAAATCAAATTTTGGCGAATTTTACCTCTATGTATCGAA
1 CTTATCTTCACTGAGCAGGAGCGGAGCAGATCAAATTTTAGC-AATCTTACCTCCATGTATCGGT
* **
48484158 AATGGAGCAGGTTTCAGCCACCAGC
65 AATAGAGCAAATTTCAGCCACCAGC
* * * * * * * * * *
48484183 CTTATCTTCACTGAACAAGAGTGGAACAG-GCTAAA-TATAGCAGATCTCATC-CCACTAGCA-A
1 CTTATCTTCACTGAGCAGGAGCGGAGCAGATC-AAATTTTAGCA-ATCTTACCTCCA-T-GTATC
* *
48484244 GAGTGGAATAGATCAAATTTC-G--A-CAGAT
62 G-GT--AATAGAGCAAATTTCAGCCACCAG-C
* * * *
48484272 CTTATCTTCGCTGAGCAGGAGCGGAGCAGATCAAATTTTGGCAAATCTTACCTCCATGTATTGGC
1 CTTATCTTCACTGAGCAGGAGCGGAGCAGATCAAATTTTAGC-AATCTTACCTCCATGTATCGGT
*
48484337 AATAGAGCATATTTCAGCCACCAGC
65 AATAGAGCAAATTTCAGCCACCAGC
* * * * * * ** *
48484362 CTTATCTTCACTGAGCAGGAGTGAAGCAG-GCTAAA-TATAGCAGATCTCATCCTAC-TGGCTGG
1 CTTATCTTCACTGAGCAGGAGCGGAGCAGATC-AAATTTTAGCA-ATCTTA-CCTCCATGTATCG
* * *
48484424 AGTGGAACAGATCAAATTTC-G--A-CAGAT
63 -GT--AATAGAGCAAATTTCAGCCACCAG-C
* *
48484451 CTTATCTTCGCTGAGCAGGAGCGGAGCAGATCAAATTTTCGCTAATCTTACCTCCATGTATCGGT
1 CTTATCTTCACTGAGCAGGAGCGGAGCAGATCAAATTTTAGC-AATCTTACCTCCATGTATCGGT
* *
48484516 AATGGAGCAGATTTCAGCCACCAGC
65 AATAGAGCAAATTTCAGCCACCAGC
48484541 CTTATCTTCACTGAGCAGGAG
1 CTTATCTTCACTGAGCAGGAG
48484562 TGGAACAGGC
Statistics
Matches: 276, Mismatches: 71, Indels: 64
0.67 0.17 0.16
Matches are distributed among these distances:
87 24 0.09
88 12 0.04
89 93 0.34
90 111 0.40
91 13 0.05
92 23 0.08
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.26
Consensus pattern (89 bp):
CTTATCTTCACTGAGCAGGAGCGGAGCAGATCAAATTTTAGCAATCTTACCTCCATGTATCGGTA
ATAGAGCAAATTTCAGCCACCAGC
Found at i:48484646 original size:133 final size:132
Alignment explanation
Indices: 48484465--48484793 Score: 507
Period size: 133 Copynumber: 2.5 Consensus size: 132
48484455 TCTTCGCTGA
* * ** * *
48484465 GCAGGAGCGGAGCAGATCAAATTTTC-GCTAATCTTACCTCCATGTATCGGTAATGGAGCAGATT
1 GCAGGAGTGGAACAGATCAAA-TTTCAGCGGA-CTTATCTCCATGTATCGGCAATGGAGCAGATT
48484529 TCAGCCACCAGCCTTATCTTCACTGAGCAGGAGTGGAACAGGCTAAATATAGCAGATCTCATCCC
64 TCAGCCACCAGCCTTATCTTCACTGAGCAGGAGTGGAACAGGCTAAATATAGCAGATCTCATCCC
48484594 ACTG
129 ACTG
* * *
48484598 GCAGGAGTGGAACAGATTAAATTTCAGCGGATCTTGTCTCTATGTATCGGCAATGGAGCAGATTT
1 GCAGGAGTGGAACAGATCAAATTTCAGCGGA-CTTATCTCCATGTATCGGCAATGGAGCAGATTT
* * *
48484663 CAGCCACCAGCCTTATCTTTACTGAGCATGAGTGGAACATGCTAAATATAGCAGATCTCATCCCA
65 CAGCCACCAGCCTTATCTTCACTGAGCAGGAGTGGAACAGGCTAAATATAGCAGATCTCATCCCA
48484728 CTG
130 CTG
*
48484731 GCAGGAGTGGAACAGATCAAATTTCAGCGGACTTATCTCCATGTATCGGCAATGGAACAGATT
1 GCAGGAGTGGAACAGATCAAATTTCAGCGGACTTATCTCCATGTATCGGCAATGGAGCAGATT
48484794 CAAACCACCA
Statistics
Matches: 179, Mismatches: 16, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
132 33 0.18
133 146 0.82
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.25
Consensus pattern (132 bp):
GCAGGAGTGGAACAGATCAAATTTCAGCGGACTTATCTCCATGTATCGGCAATGGAGCAGATTTC
AGCCACCAGCCTTATCTTCACTGAGCAGGAGTGGAACAGGCTAAATATAGCAGATCTCATCCCAC
TG
Found at i:48484660 original size:179 final size:179
Alignment explanation
Indices: 48484002--48484622 Score: 976
Period size: 179 Copynumber: 3.5 Consensus size: 179
48483992 GATGTCGGCA
* * *
48484002 AGCCTTATC-CCACTGAGCAGGAGTGGAACAGGCTAAATATAACAGATCTCATCCCATTAGCAAG
1 AGCCTTATCTTCACTGAGCAGGAGTGGAACAGGCTAAATATAGCAGATCTCATCCCACTAGCAAG
* *
48484066 AGTGGAATAGATCAAATTTCGACAGATCTTATCTTCGCTGAGCAGGAGCGGAGCAAATCAAATTT
66 AGTGGAACAGATCAAATTTCGACAGATCTTATCTTCGCTGAGCAGGAGCGGAGCAGATCAAATTT
* * * * *
48484131 TGGCGAATTTTACCTCTATGTATCGAAAATGGAGCAGGTTTCAGCCACC
131 TGGCAAATCTTACCTCCATGTATCGGAAATGGAGCAGATTTCAGCCACC
* *
48484180 AGCCTTATCTTCACTGAACAAGAGTGGAACAGGCTAAATATAGCAGATCTCATCCCACTAGCAAG
1 AGCCTTATCTTCACTGAGCAGGAGTGGAACAGGCTAAATATAGCAGATCTCATCCCACTAGCAAG
*
48484245 AGTGGAATAGATCAAATTTCGACAGATCTTATCTTCGCTGAGCAGGAGCGGAGCAGATCAAATTT
66 AGTGGAACAGATCAAATTTCGACAGATCTTATCTTCGCTGAGCAGGAGCGGAGCAGATCAAATTT
* * * *
48484310 TGGCAAATCTTACCTCCATGTATTGGCAATAGAGCATATTTCAGCCACC
131 TGGCAAATCTTACCTCCATGTATCGGAAATGGAGCAGATTTCAGCCACC
* * **
48484359 AGCCTTATCTTCACTGAGCAGGAGT-GAAGCAGGCTAAATATAGCAGATCTCATCCTACTGGCTG
1 AGCCTTATCTTCACTGAGCAGGAGTGGAA-CAGGCTAAATATAGCAGATCTCATCCCACTAGCAA
48484423 GAGTGGAACAGATCAAATTTCGACAGATCTTATCTTCGCTGAGCAGGAGCGGAGCAGATCAAATT
65 GAGTGGAACAGATCAAATTTCGACAGATCTTATCTTCGCTGAGCAGGAGCGGAGCAGATCAAATT
* * *
48484488 TTCGCTAATCTTACCTCCATGTATCGGTAATGGAGCAGATTTCAGCCACC
130 TTGGCAAATCTTACCTCCATGTATCGGAAATGGAGCAGATTTCAGCCACC
* *
48484538 AGCCTTATCTTCACTGAGCAGGAGTGGAACAGGCTAAATATAGCAGATCTCATCCCACTGGCAGG
1 AGCCTTATCTTCACTGAGCAGGAGTGGAACAGGCTAAATATAGCAGATCTCATCCCACTAGCAAG
*
48484603 AGTGGAACAGATTAAATTTC
66 AGTGGAACAGATCAAATTTC
48484623 AGCGGATCTT
Statistics
Matches: 409, Mismatches: 31, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
178 12 0.03
179 394 0.96
180 3 0.01
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (179 bp):
AGCCTTATCTTCACTGAGCAGGAGTGGAACAGGCTAAATATAGCAGATCTCATCCCACTAGCAAG
AGTGGAACAGATCAAATTTCGACAGATCTTATCTTCGCTGAGCAGGAGCGGAGCAGATCAAATTT
TGGCAAATCTTACCTCCATGTATCGGAAATGGAGCAGATTTCAGCCACC
Found at i:48484948 original size:44 final size:43
Alignment explanation
Indices: 48484899--48485049 Score: 164
Period size: 44 Copynumber: 3.4 Consensus size: 43
48484889 CAGGCTTTAA
*
48484899 CTCCCTAAGCAATAGGGCAACAAGCTGAAGATTACAGATCTTAT
1 CTCCCTAAGCAATAGGG-AACAAGCTAAAGATTACAGATCTTAT
* * * * *
48484943 CTCCCTAAGTAATAGTGGAGC-AGATCAAAGA-TACACGCT-TTAA
1 CTCCCTAAGCAATAG-GGAACAAGCT-AAAGATTACA-GATCTTAT
*
48484986 CTCCCTAAGCAATAGGGTAACAAGCTAAAGATTATAGATCTTAT
1 CTCCCTAAGCAATAGGG-AACAAGCTAAAGATTACAGATCTTAT
48485030 CTCCCTAAGCAATAGTGGAA
1 CTCCCTAAGCAATAG-GGAA
48485050 TAGATCAAAG
Statistics
Matches: 87, Mismatches: 12, Indels: 16
0.76 0.10 0.14
Matches are distributed among these distances:
42 2 0.02
43 33 0.38
44 48 0.55
45 4 0.05
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.24
Consensus pattern (43 bp):
CTCCCTAAGCAATAGGGAACAAGCTAAAGATTACAGATCTTAT
Found at i:48485008 original size:87 final size:87
Alignment explanation
Indices: 48484807--48485113 Score: 350
Period size: 87 Copynumber: 3.5 Consensus size: 87
48484797 ACCACCAGTC
* * * * * * * * *
48484807 TTAACCCCCTAAGCAGTAGGGTAATAGGCTAAAAACTACAGATCTTGTCTCCTTAAACAATAGTG
1 TTAACTCCCTAAGCAATAGGGTAACAAGCTAAAGATTACAGATCTTATCTCCCTAAGCAATAGTG
* *
48484872 G-GACAGATCGAAA-ACAGCAGGCT
66 GAG-CAGATC-AAAGATA-CACGCT
* * *
48484895 TTAACTCCCTAAGCAATAGGGCAACAAGCTGAAGATTACAGATCTTATCTCCCTAAGTAATAGTG
1 TTAACTCCCTAAGCAATAGGGTAACAAGCTAAAGATTACAGATCTTATCTCCCTAAGCAATAGTG
48484960 GAGCAGATCAAAGATACACGCT
66 GAGCAGATCAAAGATACACGCT
*
48484982 TTAACTCCCTAAGCAATAGGGTAACAAGCTAAAGATTATAGATCTTATCTCCCTAAGCAATAGTG
1 TTAACTCCCTAAGCAATAGGGTAACAAGCTAAAGATTACAGATCTTATCTCCCTAAGCAATAGTG
** *
48485047 GAATAGATCAAAGATACACGCC
66 GAGCAGATCAAAGATACACGCT
* * * **
48485069 TTAAC-CCCTTAAGTAGTAGGGTAACAGGCTAAACTTTACAGATCT
1 TTAACTCCC-TAAGCAATAGGGTAACAAGCTAAAGATTACAGATCT
48485114 GGGCTCGTCG
Statistics
Matches: 189, Mismatches: 27, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
86 3 0.02
87 123 0.65
88 62 0.33
89 1 0.01
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.24
Consensus pattern (87 bp):
TTAACTCCCTAAGCAATAGGGTAACAAGCTAAAGATTACAGATCTTATCTCCCTAAGCAATAGTG
GAGCAGATCAAAGATACACGCT
Found at i:48485060 original size:44 final size:44
Alignment explanation
Indices: 48484843--48485061 Score: 159
Period size: 44 Copynumber: 5.0 Consensus size: 44
48484833 GGCTAAAAAC
* * * * *
48484843 TACAGATCTTGTCTCCTTAAACAATAGTGGGACAGATCGAA-A-
1 TACAGATCTTATCTCCCTAAGCAATAGTGGAACAGATCAAAGAT
* * * *
48484885 -ACAGCAGGCTTTAACTCCCTAAGCAATAG-GGCAACA-AGCTGAAGAT
1 TACAG-A-TC-TTATCTCCCTAAGCAATAGTGG-AACAGATC-AAAGAT
* *
48484931 TACAGATCTTATCTCCCTAAGTAATAGTGGAGCAGATCAAAGA-
1 TACAGATCTTATCTCCCTAAGCAATAGTGGAACAGATCAAAGAT
* * *
48484974 TACACGCT-TTAACTCCCTAAGCAATAG-GGTAACA-AGCTAAAGAT
1 TACA-GATCTTATCTCCCTAAGCAATAGTGG-AACAGATC-AAAGAT
* *
48485018 TATAGATCTTATCTCCCTAAGCAATAGTGGAATAGATCAAAGAT
1 TACAGATCTTATCTCCCTAAGCAATAGTGGAACAGATCAAAGAT
48485062 ACACGCCTTA
Statistics
Matches: 137, Mismatches: 23, Indels: 32
0.71 0.12 0.17
Matches are distributed among these distances:
41 4 0.03
42 5 0.04
43 36 0.26
44 77 0.56
45 10 0.07
46 1 0.01
47 4 0.03
ACGTcount: A:0.37, C:0.20, G:0.18, T:0.24
Consensus pattern (44 bp):
TACAGATCTTATCTCCCTAAGCAATAGTGGAACAGATCAAAGAT
Found at i:48485172 original size:85 final size:86
Alignment explanation
Indices: 48485065--48485432 Score: 557
Period size: 85 Copynumber: 4.3 Consensus size: 86
48485055 CAAAGATACA
* * *
48485065 CGCCTTAACCCCTTAAGTAGTAGGGTAACAGGCTAAACTTTACAGATC-TGGGCTCGTCGAGCAG
1 CGCCTTAACCCCTTAAGCAGTAGGGTAACAGGCTAAAGTTTACAGATCTTGGGCTCGCCGAGCAG
* *
48485129 TGGCGGAGCAGGTCGAAGACT
66 TGGTGGAGCAGGTCAAAGACT
48485150 CGCCTTAACCCCTTAAGCAGTAGGGTAACAGGCTAAAGTTTACAGA-CTTGGGCTCGCCGAGCAG
1 CGCCTTAACCCCTTAAGCAGTAGGGTAACAGGCTAAAGTTTACAGATCTTGGGCTCGCCGAGCAG
48485214 TGGTGGAGCAGGTCAAAGACT
66 TGGTGGAGCAGGTCAAAGACT
* * * *
48485235 TGCCTTAA-CCCTCTAGGCAGTAGGGTAACAGGCTAAAGTTTACAG-GCTTGGGCTTGCCGAGCA
1 CGCCTTAACCCCT-TAAGCAGTAGGGTAACAGGCTAAAGTTTACAGATCTTGGGCTCGCCGAGCA
48485298 GTGGTGGAGCAGGTCAAAGACT
65 GTGGTGGAGCAGGTCAAAGACT
* * * * *
48485320 CGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCCT-GGCTCTCTGAGCAG
1 CGCCTTAACCCCTTAAGCAGTAGGGTAACAGGCTAAAGTTTACAGATCTTGGGCTCGCCGAGCAG
*
48485384 TGGTGGAGCAGGTCGAAGACT
66 TGGTGGAGCAGGTCAAAGACT
48485405 CGCCTTAACCCCTTAAGCAGTAGGGTAA
1 CGCCTTAACCCCTTAAGCAGTAGGGTAA
48485433 TGACTAAAAT
Statistics
Matches: 259, Mismatches: 19, Indels: 10
0.90 0.07 0.03
Matches are distributed among these distances:
84 5 0.02
85 249 0.96
86 5 0.02
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (86 bp):
CGCCTTAACCCCTTAAGCAGTAGGGTAACAGGCTAAAGTTTACAGATCTTGGGCTCGCCGAGCAG
TGGTGGAGCAGGTCAAAGACT
Found at i:48485722 original size:29 final size:29
Alignment explanation
Indices: 48485689--48485793 Score: 86
Period size: 29 Copynumber: 3.4 Consensus size: 29
48485679 CCAAATTAAA
*
48485689 CACCCCACTAAATCGA-CCACTAACTCCAT
1 CACCCCACTAAA-CCATCCACTAACTCCAT
* * *
48485718 CACCCTATTAAACCATCCACTACCTCCAT
1 CACCCCACTAAACCATCCACTAACTCCAT
*
48485747 CACCCCCACCCTACTAAACCATCCACTACCTCCAT
1 CA----C-CCC-ACTAAACCATCCACTAACTCCAT
48485782 CACCCCTACTAA
1 CACCCC-ACTAA
48485794 CTCCATCACC
Statistics
Matches: 63, Mismatches: 6, Indels: 13
0.77 0.07 0.16
Matches are distributed among these distances:
28 2 0.03
29 24 0.38
30 9 0.14
31 1 0.02
33 1 0.02
34 2 0.03
35 24 0.38
ACGTcount: A:0.31, C:0.49, G:0.01, T:0.19
Consensus pattern (29 bp):
CACCCCACTAAACCATCCACTAACTCCAT
Found at i:48485765 original size:35 final size:35
Alignment explanation
Indices: 48485718--48485787 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
48485708 CTAACTCCAT
*
48485718 CACCCTATTAAACCATCCACTACCTCCATCACCCC
1 CACCCTACTAAACCATCCACTACCTCCATCACCCC
48485753 CACCCTACTAAACCATCCACTACCTCCATCACCCC
1 CACCCTACTAAACCATCCACTACCTCCATCACCCC
48485788 TACTAACTCC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.29, C:0.53, G:0.00, T:0.19
Consensus pattern (35 bp):
CACCCTACTAAACCATCCACTACCTCCATCACCCC
Found at i:48485807 original size:17 final size:18
Alignment explanation
Indices: 48485771--48485808 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
48485761 TAAACCATCC
*
48485771 ACTACCTCCATCACCCCT
1 ACTAACTCCATCACCCCT
48485789 ACTAACTCCATCA-CCCT
1 ACTAACTCCATCACCCCT
48485806 ACT
1 ACT
48485809 TGTTATAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.26, C:0.50, G:0.00, T:0.24
Consensus pattern (18 bp):
ACTAACTCCATCACCCCT
Found at i:48486204 original size:8 final size:8
Alignment explanation
Indices: 48486191--48486226 Score: 51
Period size: 7 Copynumber: 4.9 Consensus size: 8
48486181 GTTATGTTTC
48486191 ATATTATT
1 ATATTATT
48486199 ATATTATT
1 ATATTATT
48486207 -TATTATT
1 ATATTATT
48486214 ATA-TATT
1 ATATTATT
48486221 -TATTAT
1 ATATTAT
48486227 GTAAATATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
6 2 0.08
7 14 0.54
8 10 0.38
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (8 bp):
ATATTATT
Found at i:48486207 original size:64 final size:63
Alignment explanation
Indices: 48486083--48486203 Score: 158
Period size: 63 Copynumber: 1.9 Consensus size: 63
48486073 CCCTTTTTTA
* *
48486083 TTTTTGTTATTTTACTCTTAAATTAATTAATTTGAGCTTTATTCTCATTATTTTTATATTTGTT
1 TTTTTATTATTTTACTATTAAATTAATTAATTTGAGC-TTATTCTCATTATTTTTATATTTGTT
* * *
48486147 TTTTTATTATTTT-CTATTAATTTAATTAATTTGAG-TTATGTTTCA-TATTATTATATT
1 TTTTTATTATTTTACTATTAAATTAATTAATTTGAGCTTAT-TCTCATTATTTTTATATT
48486204 ATTTATTATT
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
61 15 0.29
62 4 0.08
63 20 0.39
64 12 0.24
ACGTcount: A:0.26, C:0.06, G:0.06, T:0.63
Consensus pattern (63 bp):
TTTTTATTATTTTACTATTAAATTAATTAATTTGAGCTTATTCTCATTATTTTTATATTTGTT
Found at i:48486210 original size:15 final size:14
Alignment explanation
Indices: 48486192--48486226 Score: 61
Period size: 14 Copynumber: 2.4 Consensus size: 14
48486182 TTATGTTTCA
48486192 TATTATTATATTATT
1 TATTATTATA-TATT
48486207 TATTATTATATATT
1 TATTATTATATATT
48486221 TATTAT
1 TATTAT
48486227 GTAAATATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.50
15 10 0.50
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (14 bp):
TATTATTATATATT
Found at i:48486221 original size:63 final size:63
Alignment explanation
Indices: 48486089--48486221 Score: 148
Period size: 63 Copynumber: 2.1 Consensus size: 63
48486079 TTTATTTTTG
* * *
48486089 TTATTTTACTCTTAAATTAATTAATTTGAGCTTTATTCTCATTATTTTTATATTTGTTTTTTTA
1 TTATTTTACTATTAAATTAATTAATTTGAGC-TTATTCTCATTATTATTATATTTGTTTTATTA
* *
48486153 TTATTTT-CTATTAATTTAATTAATTTGAG-TTATGTTTCA-TATTATTATATTAT-TTATTATT
1 TTATTTTACTATTAAATTAATTAATTTGAGCTTAT-TCTCATTATTATTATATT-TGTT-TTATT
48486214 A
63 A
48486215 TATATTT
1 T-TATTT
48486222 ATTATGTAAA
Statistics
Matches: 60, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
61 17 0.28
62 11 0.18
63 25 0.42
64 7 0.12
ACGTcount: A:0.28, C:0.05, G:0.05, T:0.62
Consensus pattern (63 bp):
TTATTTTACTATTAAATTAATTAATTTGAGCTTATTCTCATTATTATTATATTTGTTTTATTA
Found at i:48486226 original size:17 final size:16
Alignment explanation
Indices: 48486192--48486243 Score: 52
Period size: 15 Copynumber: 3.1 Consensus size: 16
48486182 TTATGTTTCA
*
48486192 TATTATTATAT-TATT
1 TATTATTATATATTTT
48486207 TATTATTATATATTTAT
1 TATTATTATATATTT-T
*
48486224 TATGTAAATATATATTTT
1 TAT-T-ATTATATATTTT
48486242 TA
1 TA
48486244 AGCGAAGTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
15 11 0.35
16 2 0.06
17 4 0.13
18 4 0.13
19 10 0.32
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (16 bp):
TATTATTATATATTTT
Found at i:48486911 original size:126 final size:126
Alignment explanation
Indices: 48486686--48486929 Score: 434
Period size: 126 Copynumber: 1.9 Consensus size: 126
48486676 CATTGATCTT
**
48486686 CTCTCAAAATTTTTCAAAATAAAGGCAATGTTAGGTATTTAAAAAATTCGAAGAATCGTGCCCTA
1 CTCTCAAAAAGTTTCAAAATAAAGGCAATGTTAGGTATTTAAAAAATTCGAAGAATCGTGCCCTA
*
48486751 ACGTACTGGGTTTCGCTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTACCAGTTCA
66 ACGTACTGAGTTTCGCTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTACCAGTTCA
* *
48486812 CTCTCAAAAAGTTTCAAAATAAAGGCAATGTTCGGTATTTAAAGAATTCGAAGAATCGTGCCCTA
1 CTCTCAAAAAGTTTCAAAATAAAGGCAATGTTAGGTATTTAAAAAATTCGAAGAATCGTGCCCTA
*
48486877 ACGTACTGAGTTTCGCTTTCTTTGTTTGTTTTGAATATTCGAATATCCTCTTA
66 ACGTACTGAGTTTCGCTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTA
48486930 AGGCTAAAAT
Statistics
Matches: 112, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
126 112 1.00
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.37
Consensus pattern (126 bp):
CTCTCAAAAAGTTTCAAAATAAAGGCAATGTTAGGTATTTAAAAAATTCGAAGAATCGTGCCCTA
ACGTACTGAGTTTCGCTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTACCAGTTCA
Found at i:48488122 original size:2 final size:2
Alignment explanation
Indices: 48488117--48488165 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
48488107 AGGGGGGCTA
48488117 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
48488159 AG AG AG A
1 AG AG AG A
48488166 AATCTAGATC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:48493335 original size:9 final size:9
Alignment explanation
Indices: 48493316--48493365 Score: 50
Period size: 8 Copynumber: 5.6 Consensus size: 9
48493306 TCTTTCCATA
48493316 AAATAAAAAT
1 AAAT-AAAAT
*
48493326 AATTAAAAT
1 AAATAAAAT
48493335 AAAT-AAAT
1 AAATAAAAT
48493343 AAATAAAAAT
1 AAAT-AAAAT
*
48493353 GAAT-AAAT
1 AAATAAAAT
48493361 AAATA
1 AAATA
48493366 TTTAGACTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
8 15 0.45
9 8 0.24
10 10 0.30
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (9 bp):
AAATAAAAT
Found at i:48493357 original size:14 final size:13
Alignment explanation
Indices: 48493316--48493363 Score: 53
Period size: 14 Copynumber: 3.5 Consensus size: 13
48493306 TCTTTCCATA
48493316 AAATAAAAATAATT
1 AAATAAAAATAA-T
*
48493330 AAA-ATAAATAAAT
1 AAATAAAAAT-AAT
48493343 AAATAAAAATGAAT
1 AAATAAAAAT-AAT
48493357 AAATAAA
1 AAATAAA
48493364 TATTTAGACT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
13 9 0.31
14 20 0.69
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (13 bp):
AAATAAAAATAAT
Found at i:48493357 original size:18 final size:18
Alignment explanation
Indices: 48493316--48493365 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
48493306 TCTTTCCATA
* *
48493316 AAATAAAAATAATTAAAAT
1 AAATAAATA-AATAAAAAT
48493335 AAATAAATAAATAAAAAT
1 AAATAAATAAATAAAAAT
*
48493353 GAATAAATAAATA
1 AAATAAATAAATA
48493366 TTTAGACTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
18 20 0.71
19 8 0.29
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (18 bp):
AAATAAATAAATAAAAAT
Found at i:48499732 original size:5 final size:5
Alignment explanation
Indices: 48499722--48499770 Score: 62
Period size: 5 Copynumber: 9.8 Consensus size: 5
48499712 GTATACCTTG
* * * *
48499722 TCATA TCATA TCATA TCATA TCACA TCATA CCTTA GCATA TCATA TCAT
1 TCATA TCATA TCATA TCATA TCATA TCATA TCATA TCATA TCATA TCAT
48499771 GTCTTACCCC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
5 37 1.00
ACGTcount: A:0.37, C:0.24, G:0.02, T:0.37
Consensus pattern (5 bp):
TCATA
Found at i:48499776 original size:20 final size:20
Alignment explanation
Indices: 48499722--48499776 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
48499712 GTATACCTTG
* *
48499722 TCATATCATATCATATCATA
1 TCATATCATATCTTAGCATA
* *
48499742 TCACATCATACCTTAGCATA
1 TCATATCATATCTTAGCATA
*
48499762 TCATATCATGTCTTA
1 TCATATCATATCTTA
48499777 CCCCTATCCG
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.35, C:0.24, G:0.04, T:0.38
Consensus pattern (20 bp):
TCATATCATATCTTAGCATA
Found at i:48501775 original size:42 final size:42
Alignment explanation
Indices: 48501702--48501828 Score: 128
Period size: 42 Copynumber: 3.0 Consensus size: 42
48501692 GTCCTAGACG
* ** * * **
48501702 TGGTCTTACATGGGATCTCACATCGATGCCATATCCCTGATA
1 TGGTCTTACACGAAATCTCATATCGACGCCATATCCCAAATA
* * * * * *
48501744 TGGTCTTATACGAATTCTCGTTTCGACGCCATGTCCCAAATG
1 TGGTCTTACACGAAATCTCATATCGACGCCATATCCCAAATA
*
48501786 TGGTCTTACACGAAATCTCATATCAACGCCATATCCCAAATA
1 TGGTCTTACACGAAATCTCATATCGACGCCATATCCCAAATA
48501828 T
1 T
48501829 TGCCATACAT
Statistics
Matches: 65, Mismatches: 20, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
42 65 1.00
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.31
Consensus pattern (42 bp):
TGGTCTTACACGAAATCTCATATCGACGCCATATCCCAAATA
Found at i:48508170 original size:20 final size:20
Alignment explanation
Indices: 48508147--48508198 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
48508137 GTGTGGTCAC
48508147 ACACGCCCGTGTGGCATGGG
1 ACACGCCCGTGTGGCATGGG
48508167 ACACGCCCGTGTGGCATGGG
1 ACACGCCCGTGTGGCATGGG
*
48508187 ACACACCCGTGT
1 ACACGCCCGTGT
48508199 CCTCAGCCCG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.17, C:0.33, G:0.35, T:0.15
Consensus pattern (20 bp):
ACACGCCCGTGTGGCATGGG
Found at i:48509588 original size:42 final size:42
Alignment explanation
Indices: 48509456--48509588 Score: 115
Period size: 42 Copynumber: 3.2 Consensus size: 42
48509446 TAAGATGCCA
* ** *
48509456 ACGCCATGTCCCAGACGTGGTCTTACATGGGATCTCACATCG
1 ACGCCATGTCCCAGACGTGGTCTTACACGAAATCTCATATCG
* * * * ** * * * *
48509498 ATGTCATATCTCAGATATGGTCTTATACGAATTCTCGTTTCG
1 ACGCCATGTCCCAGACGTGGTCTTACACGAAATCTCATATCG
*
48509540 ATGCCATGTCCCAGACGTGGTCTTACACGAAATCTCATATC-
1 ACGCCATGTCCCAGACGTGGTCTTACACGAAATCTCATATCG
48509581 AGCGCCAT
1 A-CGCCAT
48509589 ATGCCGGATA
Statistics
Matches: 66, Mismatches: 24, Indels: 2
0.72 0.26 0.02
Matches are distributed among these distances:
41 1 0.02
42 65 0.98
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (42 bp):
ACGCCATGTCCCAGACGTGGTCTTACACGAAATCTCATATCG
Found at i:48510381 original size:10 final size:9
Alignment explanation
Indices: 48510356--48510382 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
48510346 CTTCAATGAT
48510356 ATCAAAAAC
1 ATCAAAAAC
48510365 ATCAAAAAC
1 ATCAAAAAC
48510374 ATCAAAAAC
1 ATCAAAAAC
48510383 TAACACCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.67, C:0.22, G:0.00, T:0.11
Consensus pattern (9 bp):
ATCAAAAAC
Found at i:48529539 original size:40 final size:40
Alignment explanation
Indices: 48529461--48529642 Score: 249
Period size: 40 Copynumber: 4.5 Consensus size: 40
48529451 TACACCACAA
* * * *
48529461 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCAGATATAACAACTC
* *
48529501 GTACAAATGCCTTCGGGTCTTAGCCCAGATATAACAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCAGATATAACAACTC
* *
48529541 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCAGATATAACAACTC
*
48529581 GCACAAATGCCTTCGGGTCTTAACCCAGATATAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAACCCAGATATAA-CAACTC
* *
48529621 GCATAAATGCCTTCGGGGCTTA
1 GCACAAATGCCTTCGGGTCTTA
48529643 GCCCGGGTAT
Statistics
Matches: 126, Mismatches: 15, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
40 125 0.99
41 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAACCCAGATATAACAACTC
Found at i:48529594 original size:80 final size:80
Alignment explanation
Indices: 48529460--48529648 Score: 290
Period size: 80 Copynumber: 2.4 Consensus size: 80
48529450 ATACACCACA
* * * *
48529460 AGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGTACAAATGCCTTCGGGTCTTAGC
1 AGCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAAC
48529525 CCAGATATAA-CAACT
66 CCAGATATAATC-ACT
*
48529540 CGCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAAC
1 AGCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAAC
48529605 CCAGATATAATCACT
66 CCAGATATAATCACT
* * *
48529620 AGCATAAATGCCTTCGGGGCTTAGCCCGG
1 AGCACAAATGCCTTCGGGTCTTAACCCGG
48529649 GTATCATTCA
Statistics
Matches: 99, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
80 98 0.99
81 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.24
Consensus pattern (80 bp):
AGCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAAC
CCAGATATAATCACT
Found at i:48537598 original size:79 final size:80
Alignment explanation
Indices: 48537505--48537710 Score: 319
Period size: 80 Copynumber: 2.6 Consensus size: 80
48537495 TCTTCGGAAT
* *
48537505 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGG-TATAGCAACTCGCAC
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCAC
48537568 AAATGCCTTCGGGTC
66 AAATGCCTTCGGGTC
* *
48537583 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCAC
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCAC
48537648 AAATGCCTTCGGGTC
66 AAATGCCTTCGGGTC
* * * *
48537663 TTAACCCGGATATAATCACTAGCATAAATGCCTTCGGG-CTTAGCCCGG
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAACCCGG
48537711 GTATCATTCA
Statistics
Matches: 116, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
78 4 0.03
79 49 0.42
80 63 0.54
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.23
Consensus pattern (80 bp):
TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCAC
AAATGCCTTCGGGTC
Found at i:48537613 original size:40 final size:40
Alignment explanation
Indices: 48537509--48537710 Score: 284
Period size: 40 Copynumber: 5.1 Consensus size: 40
48537499 CGGAATTTAG
* ** *
48537509 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAAC
* *
48537549 CCGG-TATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAAC
48537588 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAAC
*
48537628 CCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAAC
* * *
48537668 CCGGATATAATC-ACTAGCATAAATGCCTTCGGG-CTTAGC
1 CCGGATATAA-CAACTCGCACAAATGCCTTCGGGTCTTAAC
48537707 CCGG
1 CCGG
48537711 GTATCATTCA
Statistics
Matches: 147, Mismatches: 13, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
39 42 0.29
40 104 0.71
41 1 0.01
ACGTcount: A:0.27, C:0.30, G:0.20, T:0.23
Consensus pattern (40 bp):
CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAAC
Found at i:48548821 original size:49 final size:48
Alignment explanation
Indices: 48548626--48548843 Score: 221
Period size: 49 Copynumber: 4.6 Consensus size: 48
48548616 TTTGTATGCT
** * *
48548626 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCC-ACATTATGATAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCCTA-AAGACGAGAGCC
* * * ** * *
48548672 AATGTAAGACCATGTCTGGGAAATGGCATCAGCGTTGAGACGAGGGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCCTAAAGACGAGAGCC
* * *
48548720 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCACGTATATACGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGC-C-TAAAGACGAGAGCC
* *
48548768 AGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCAAAGATGATAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCCT-AAAGACGAGAGCC
48548817 AGTGTAAGACCATGTCTGGGACATGGC
1 AGTGTAAGACCATGTCTGGGACATGGC
48548844 TTCGGTAACT
Statistics
Matches: 141, Mismatches: 23, Indels: 13
0.80 0.13 0.07
Matches are distributed among these distances:
46 16 0.11
47 26 0.18
48 41 0.29
49 50 0.35
50 8 0.06
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCAGCCTAAAGACGAGAGCC
Found at i:48553610 original size:4 final size:4
Alignment explanation
Indices: 48553601--48553632 Score: 55
Period size: 4 Copynumber: 7.8 Consensus size: 4
48553591 TAAGTTTATT
48553601 TTTA TTTA TTTA TTTA TTTA TTTA TTTCA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT-A TTT
48553633 TTCCATTGCA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 23 0.85
5 4 0.15
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:48557834 original size:23 final size:24
Alignment explanation
Indices: 48557801--48557858 Score: 68
Period size: 23 Copynumber: 2.5 Consensus size: 24
48557791 CAGCTCTCCG
*
48557801 TGAACATCCTGTATA-GGCTCT-T
1 TGAACTTCCTGTATATGGCTCTCT
*
48557823 ATGAGCTTCCTG-ATATGGCTCTCT
1 -TGAACTTCCTGTATATGGCTCTCT
48557847 TGAACTTCCTGT
1 TGAACTTCCTGT
48557859 TATCCTATCC
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
22 3 0.10
23 25 0.86
24 1 0.03
ACGTcount: A:0.19, C:0.24, G:0.19, T:0.38
Consensus pattern (24 bp):
TGAACTTCCTGTATATGGCTCTCT
Found at i:48560139 original size:47 final size:47
Alignment explanation
Indices: 48560070--48560506 Score: 696
Period size: 47 Copynumber: 9.3 Consensus size: 47
48560060 CCCTTCGGGA
* * * *
48560070 CTTATCACACATATGCACTTTCACATTCATCATATCGGCCATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
48560117 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACACATATACACTTTCACATTCATCACATTGGCCATTCGGC
48560164 CTTATCACACATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACACATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
48560211 CTTATCACACATATGCACTTTCACATTCATCACATGGGCCATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
48560258 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACACATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * * *
48560305 CTTATCACACATATGCACTTTCACATTCATCATATGGGCCATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
48560352 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACACATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
48560399 CTTATCACACATATGCACTTTCACATTCATCATA-TGGCCATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
48560445 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACACATATACACTTTCACATTCATCACATTGGCCATTCGGC
48560492 CTTATCACACATATA
1 CTTATCACACATATA
48560507 TGTATATCAT
Statistics
Matches: 355, Mismatches: 34, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
46 42 0.12
47 313 0.88
ACGTcount: A:0.28, C:0.30, G:0.10, T:0.32
Consensus pattern (47 bp):
CTTATCACACATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:48560243 original size:25 final size:25
Alignment explanation
Indices: 48560167--48560244 Score: 67
Period size: 25 Copynumber: 3.2 Consensus size: 25
48560157 ATTCGGCCTT
*
48560167 ATCACACATATACACTTTCACATTC
1 ATCACACATATGCACTTTCACATTC
* * *
48560192 AT--CACAT-TGGC-CATTCGGCCTT-
1 ATCACACATAT-GCACTTTC-ACATTC
48560214 ATCACACATATGCACTTTCACATTC
1 ATCACACATATGCACTTTCACATTC
48560239 ATCACA
1 ATCACA
48560245 TGGGCCATTA
Statistics
Matches: 39, Mismatches: 7, Indels: 14
0.65 0.12 0.23
Matches are distributed among these distances:
22 7 0.18
23 9 0.23
24 10 0.26
25 13 0.33
ACGTcount: A:0.31, C:0.32, G:0.06, T:0.31
Consensus pattern (25 bp):
ATCACACATATGCACTTTCACATTC
Found at i:48570191 original size:38 final size:38
Alignment explanation
Indices: 48570002--48570172 Score: 218
Period size: 38 Copynumber: 4.5 Consensus size: 38
48569992 GGATCAAAGG
* * * * * *
48570002 CCCGAATATAATACCAGCACTAGGCCCGCTGGATTTAA
1 CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAA
* * * *
48570040 CCTGGATATATTACCAGCATGAAGCCTGCGAGAATTAA
1 CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAA
*
48570078 CCCAGATATATTACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAA
*
48570116 CCCGGATATATTACCAGCACGAAACCTGCGGGATTTAA
1 CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAA
48570154 CCCGGATATAATT-CCAGCA
1 CCCGGATAT-ATTACCAGCA
48570173 TATAGCCTGC
Statistics
Matches: 115, Mismatches: 17, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
38 112 0.97
39 3 0.03
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.22
Consensus pattern (38 bp):
CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAA
Found at i:48570577 original size:43 final size:44
Alignment explanation
Indices: 48570469--48570603 Score: 184
Period size: 43 Copynumber: 3.1 Consensus size: 44
48570459 ACATAACATT
*
48570469 TCATTTCACCGGCATTATAGCCTGCTAGGCTCAAAGGCTCGAATAA
1 TCATTTCACCGGCATTATAGCCTGCTAGGCTCAAA-GCCCGAAT-A
* * *
48570515 T-ATTTCACCGGCATCATAGCCTACTAAGCTCAAAGCCCG-ATA
1 TCATTTCACCGGCATTATAGCCTGCTAGGCTCAAAGCCCGAATA
* *
48570557 TCATTTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGAATA
1 TCATTTCACCGGCATTATAGCCTGCTAGGCTCAAAGCCCGAATA
48570601 TCA
1 TCA
48570604 CATTTCGATA
Statistics
Matches: 78, Mismatches: 9, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
42 2 0.03
43 35 0.45
44 10 0.13
45 30 0.38
46 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.24
Consensus pattern (44 bp):
TCATTTCACCGGCATTATAGCCTGCTAGGCTCAAAGCCCGAATA
Found at i:48577275 original size:2 final size:2
Alignment explanation
Indices: 48577268--48577320 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
48577258 AAAGCAAGTT
48577268 TA TA 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 TA TA
48577310 TA TA TA TA TA T
1 TA TA TA TA TA T
48577321 TTAAGATTCA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:48578598 original size:15 final size:14
Alignment explanation
Indices: 48578578--48578624 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 14
48578568 TGTGATATTT
48578578 AATAATATAATAAAA
1 AATAAT-TAATAAAA
48578593 AATAATT-ATAAGAA
1 AATAATTAATAA-AA
48578607 TAATAATTACATAAAA
1 -AATAATTA-ATAAAA
48578623 AA
1 AA
48578625 AATATAAAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
13 4 0.14
14 3 0.11
15 15 0.54
16 2 0.07
17 4 0.14
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (14 bp):
AATAATTAATAAAA
Found at i:48578884 original size:3 final size:3
Alignment explanation
Indices: 48578871--48579101 Score: 79
Period size: 3 Copynumber: 73.3 Consensus size: 3
48578861 TTAAAACCTT
* * * *
48578871 TAA TGA TAA TAA TATA TAGA TAA AAA TGGA TAA TAA T-A TAA AAA TGACA
1 TAA TAA TAA TAA TA-A TA-A TAA TAA T-AA TAA TAA TAA TAA TAA T-A-A
* * *
48578920 TAA TAA TATA TAA T-A TAA TTA TAA TGTA TAA T-A TAA -AGG T-A TATA
1 TAA TAA TA-A TAA TAA TAA TAA TAA T-AA TAA TAA TAA TA-A TAA TA-A
* *
48578965 TATA TAA AAA TAA TATA TAA T-A TAA TTAA TAAA TGTA TAA T-A TAA
1 TA-A TAA TAA TAA TA-A TAA TAA TAA -TAA T-AA T-AA TAA TAA TAA
* * *
48579010 TAA TAA TATA TAAA TAA TAA T-G TAA -AA TAA TAA TTTA TGAA AAA TAA
1 TAA TAA TA-A T-AA TAA TAA TAA TAA TAA TAA TAA -TAA T-AA TAA TAA
48579057 TACA TAA TAAA TAA TAA TAA T-A TAAA TAA TATA TAA TAA -AA TAA T
1 TA-A TAA T-AA TAA TAA TAA TAA T-AA TAA TA-A TAA TAA TAA TAA T
48579102 TATATAACAT
Statistics
Matches: 172, Mismatches: 26, Indels: 60
0.67 0.10 0.23
Matches are distributed among these distances:
2 19 0.11
3 99 0.58
4 51 0.30
5 3 0.02
ACGTcount: A:0.60, C:0.01, G:0.05, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:48578922 original size:19 final size:18
Alignment explanation
Indices: 48578890--48578929 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
48578880 TAATATATAG
*
48578890 ATAAAAATGGATAATAAT
1 ATAAAAATGCATAATAAT
48578908 ATAAAAATGACATAATAAT
1 ATAAAAATG-CATAATAAT
48578927 ATA
1 ATA
48578930 TAATATAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.62, C:0.03, G:0.07, T:0.28
Consensus pattern (18 bp):
ATAAAAATGCATAATAAT
Found at i:48578984 original size:41 final size:39
Alignment explanation
Indices: 48578959--48579113 Score: 113
Period size: 38 Copynumber: 3.8 Consensus size: 39
48578949 AATATAAAGG
48578959 TATATATATATAAAAATAATATATAATATAATTAATAAA
1 TATATATATATAAAAATAATATATAATATAATTAATAAA
* *
48578998 TGTATA-ATATAATAATAATATATAA-ATAA-TAATGTAAA
1 TATATATATATAAAAATAATATATAATATAATTAA--TAAA
* *
48579036 -ATAATAATTTATGAAAAATAATACATAATA-AATAATAATAATA
1 TAT-AT-ATATAT-AAAAATAATATATAATATAAT--TAATAA-A
* *
48579079 TAAATAATATATAATAAAATAATTATATAACATAA
1 TATAT-ATATAT-A-AAAATAA-TATATAATATAA
48579114 AAAATAAGGT
Statistics
Matches: 90, Mismatches: 11, Indels: 23
0.73 0.09 0.19
Matches are distributed among these distances:
36 3 0.03
37 5 0.06
38 24 0.27
39 6 0.07
40 3 0.03
41 15 0.17
42 4 0.04
43 10 0.11
44 11 0.12
45 7 0.08
46 2 0.02
ACGTcount: A:0.61, C:0.01, G:0.02, T:0.35
Consensus pattern (39 bp):
TATATATATATAAAAATAATATATAATATAATTAATAAA
Found at i:48579003 original size:20 final size:19
Alignment explanation
Indices: 48578920--48579108 Score: 118
Period size: 18 Copynumber: 10.3 Consensus size: 19
48578910 AAAAATGACA
48578920 TAATAATATATAATATAAT
1 TAATAATATATAATATAAT
*
48578939 T-ATAATGTATAATATAA-
1 TAATAATATATAATATAAT
*
48578956 -AGGT-ATATAT-ATATAA-
1 TA-ATAATATATAATATAAT
*
48578972 AAATAATATATAATATAAT
1 TAATAATATATAATATAAT
*
48578991 TAATAAATGTATAATATAA-
1 TAAT-AATATATAATATAAT
48579010 TAATAATATATAAATAATAAT
1 TAATAATATAT-AAT-ATAAT
*
48579031 GTAA-AATA-ATAAT-TTAT
1 -TAATAATATATAATATAAT
* * *
48579048 GAAAAATA-AT-ACATAAT
1 TAATAATATATAATATAAT
* *
48579065 AAATAATA-ATAATATAAA
1 TAATAATATATAATATAAT
*
48579083 TAAT-ATATAATAAAATAAT
1 TAATAATAT-ATAATATAAT
48579102 TATATAA
1 TA-ATAA
48579109 CATAAAAAAT
Statistics
Matches: 134, Mismatches: 18, Indels: 34
0.72 0.10 0.18
Matches are distributed among these distances:
16 10 0.07
17 35 0.26
18 36 0.27
19 24 0.18
20 21 0.16
21 5 0.04
22 3 0.02
ACGTcount: A:0.60, C:0.01, G:0.03, T:0.37
Consensus pattern (19 bp):
TAATAATATATAATATAAT
Found at i:48579107 original size:27 final size:28
Alignment explanation
Indices: 48578965--48579113 Score: 127
Period size: 29 Copynumber: 5.4 Consensus size: 28
48578955 AAGGTATATA
48578965 TATATAAA-AATA-ATATATAAT-ATAAT
1 TATATAAATAATATATA-ATAATAATAAT
*
48578991 TA-ATAAAT-GTATA-ATATAATAATAA-
1 TATATAAATAATATATA-ATAATAATAAT
*
48579016 TATATAAATAATAATGTAA-AATAATAATT
1 TATATAAATAAT-ATATAATAATAATAA-T
* *
48579045 TATGAAAAATAATACATAATAAATAATAAT
1 TAT-ATAAATAATATATAAT-AATAATAAT
*
48579075 AATATAAATAATATATAATAA-AATAAT
1 TATATAAATAATATATAATAATAATAAT
48579102 TATATAACATAA
1 TATATAA-ATAA
48579114 AAAATAAGGT
Statistics
Matches: 100, Mismatches: 10, Indels: 24
0.75 0.07 0.18
Matches are distributed among these distances:
25 16 0.16
26 13 0.13
27 21 0.21
28 9 0.09
29 22 0.22
30 11 0.11
31 8 0.08
ACGTcount: A:0.62, C:0.01, G:0.02, T:0.35
Consensus pattern (28 bp):
TATATAAATAATATATAATAATAATAAT
Found at i:48589571 original size:14 final size:14
Alignment explanation
Indices: 48589552--48589578 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
48589542 CTGGTTCAAC
48589552 TTTATTTAGAAAAT
1 TTTATTTAGAAAAT
48589566 TTTATTTAGAAAA
1 TTTATTTAGAAAA
48589579 AAGAATATCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.48
Consensus pattern (14 bp):
TTTATTTAGAAAAT
Found at i:48593270 original size:15 final size:14
Alignment explanation
Indices: 48593250--48593296 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 14
48593240 TTTGATATTT
48593250 AATAATATAATAAAA
1 AATAAT-TAATAAAA
48593265 AATAATT-ATAAGAA
1 AATAATTAATAA-AA
48593279 TAATAATTACATAAAA
1 -AATAATTA-ATAAAA
48593295 AA
1 AA
48593297 ATATAAAAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
13 4 0.14
14 3 0.11
15 15 0.54
16 2 0.07
17 4 0.14
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (14 bp):
AATAATTAATAAAA
Found at i:48593555 original size:3 final size:3
Alignment explanation
Indices: 48593542--48593773 Score: 81
Period size: 3 Copynumber: 73.3 Consensus size: 3
48593532 TTAAAACCTT
* * * *
48593542 TAA TGA TAA TAA TATA TAGA TAA AAA TCGA TAA TAA T-A TAA AAA TGACA
1 TAA TAA TAA TAA TA-A TA-A TAA TAA T-AA TAA TAA TAA TAA TAA T-A-A
* * *
48593591 TAA TAA TATA TAA T-A TAA TTA TAA TGTA TAA T-A TAA -AGG T-A TATA
1 TAA TAA TA-A TAA TAA TAA TAA TAA T-AA TAA TAA TAA TA-A TAA TA-A
*
48593636 TATA TAAA TAA TATA TAA T-A TAA TTAA TAAA TATA TAA T-A TTA TAA
1 TA-A T-AA TAA TA-A TAA TAA TAA -TAA T-AA TA-A TAA TAA TAA TAA
* * *
48593682 TAA TATA TAAA TAA TAA T-G TAA -AA TAA TAA TAA TTTA TGAA AAA TAA
1 TAA TA-A T-AA TAA TAA TAA TAA TAA TAA TAA TAA -TAA T-AA TAA TAA
48593729 TACA TAA TAAA TAA TAA TAA T-A TAAA TAA TATA TAA TAA -AA TAA T
1 TA-A TAA T-AA TAA TAA TAA TAA T-AA TAA TA-A TAA TAA TAA TAA T
48593774 TATATAACAT
Statistics
Matches: 175, Mismatches: 22, Indels: 64
0.67 0.08 0.25
Matches are distributed among these distances:
2 19 0.11
3 99 0.57
4 53 0.30
5 4 0.02
ACGTcount: A:0.59, C:0.01, G:0.04, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:48593639 original size:32 final size:33
Alignment explanation
Indices: 48593597--48593658 Score: 83
Period size: 32 Copynumber: 1.9 Consensus size: 33
48593587 GACATAATAA
* *
48593597 TATATAATATA-ATTATAATGTATAATATAAAGG
1 TATATAATATATA-AATAATATATAATATAAAGG
48593630 TATAT-ATATATAAATAATATATAATATAA
1 TATATAATATATAAATAATATATAATATAA
48593659 TTAATAAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
32 20 0.77
33 6 0.23
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (33 bp):
TATATAATATATAAATAATATATAATATAAAGG
Found at i:48593773 original size:30 final size:30
Alignment explanation
Indices: 48593641--48593791 Score: 112
Period size: 29 Copynumber: 4.8 Consensus size: 30
48593631 ATATATATAT
48593641 AAATAATATATAATATAATTAATAAATATATAATA
1 AAATAATA-ATAATAT-A--AAT-AATATATAATA
** *
48593676 TTATAATAAT-ATATAAATAATA-AT-GTA
1 AAATAATAATAATATAAATAATATATAATA
*
48593703 AAATAATAATAATTTATGAAAAATAATACATAAT-
1 AAATAATAATAA--TAT---AAATAATATATAATA
48593737 AAATAATAATAATATAAATAATATATAATA
1 AAATAATAATAATATAAATAATATATAATA
* *
48593767 AAATAATTATATAACATAAAAAATA
1 AAATAA-TA-ATAATATAAATAATA
48593792 AGGTTAAAAA
Statistics
Matches: 96, Mismatches: 9, Indels: 25
0.74 0.07 0.19
Matches are distributed among these distances:
27 10 0.10
28 3 0.03
29 17 0.18
30 12 0.12
31 2 0.02
32 17 0.18
33 12 0.12
34 16 0.17
35 7 0.07
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.34
Consensus pattern (30 bp):
AAATAATAATAATATAAATAATATATAATA
Found at i:48593784 original size:50 final size:48
Alignment explanation
Indices: 48593592--48593791 Score: 137
Period size: 50 Copynumber: 4.1 Consensus size: 48
48593582 AAAATGACAT
* * ** *
48593592 AATAATATATAATATAATTATAATGTATAATATAAAGGTATATATATATA
1 AATAATATATAATATAA--ATAATATATAATAAAAAATTATATACATATA
* * * * *
48593642 AATAATATATAATATAATTAATAAAT-ATATAATATTATAATAATATATA
1 AATAATATATAATATAAATAATATATAATAAAAAATTAT-AT-ACATATA
* * * *
48593691 AATAATAATGTAAAAT-AATAATA-ATTTATGAAAAA-TA-ATACATAATA
1 AATAAT-ATATAATATAAATAATATA-TAATAAAAAATTATATACAT-ATA
48593738 AATAATA-ATAATATAAATAATATATAATAAAATAATTATATAACATA-A
1 AATAATATATAATATAAATAATATATAATAAAA-AATTATAT-ACATATA
48593786 AA-AATA
1 AATAATA
48593792 AGGTTAAAAA
Statistics
Matches: 121, Mismatches: 17, Indels: 27
0.73 0.10 0.16
Matches are distributed among these distances:
45 5 0.04
46 17 0.14
47 27 0.22
48 14 0.12
49 25 0.21
50 33 0.27
ACGTcount: A:0.60, C:0.01, G:0.03, T:0.36
Consensus pattern (48 bp):
AATAATATATAATATAAATAATATATAATAAAAAATTATATACATATA
Found at i:48602240 original size:2 final size:2
Alignment explanation
Indices: 48602233--48602259 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
48602223 CTTGCTGCTT
48602233 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
48602260 GGTTGGTCAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:48605633 original size:27 final size:27
Alignment explanation
Indices: 48605595--48605649 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
48605585 AAGCGGTAAG
48605595 AAATAGGAATAATTAATGAGAAACTAT
1 AAATAGGAATAATTAATGAGAAACTAT
*
48605622 AAATAGGAATAATTAATGAGAAATTAT
1 AAATAGGAATAATTAATGAGAAACTAT
48605649 A
1 A
48605650 TATTTATCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.56, C:0.02, G:0.15, T:0.27
Consensus pattern (27 bp):
AAATAGGAATAATTAATGAGAAACTAT
Found at i:48606150 original size:11 final size:11
Alignment explanation
Indices: 48606094--48606154 Score: 50
Period size: 11 Copynumber: 5.3 Consensus size: 11
48606084 ACATAATTAA
*
48606094 AAAACATATTT
1 AAAATATATTT
* *
48606105 AAATTACATTAT
1 AAAATATATT-T
48606117 AAAAATATATTTT
1 -AAAATATA-TTT
*
48606130 AAAATTTATTT
1 AAAATATATTT
*
48606141 AGAATATATTT
1 AAAATATATTT
48606152 AAA
1 AAA
48606155 TCTATTACAA
Statistics
Matches: 38, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
11 21 0.55
12 8 0.21
13 7 0.18
14 2 0.05
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.43
Consensus pattern (11 bp):
AAAATATATTT
Found at i:48606529 original size:12 final size:13
Alignment explanation
Indices: 48606504--48606538 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
48606494 ATTTAATCAA
48606504 TTTAAAAATATAT
1 TTTAAAAATATAT
48606517 TTTAAAAAT-TAT
1 TTTAAAAATATAT
*
48606529 TTAAAAAATA
1 TTTAAAAATA
48606539 AAAAATCTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 11 0.55
13 9 0.45
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
TTTAAAAATATAT
Found at i:48606533 original size:11 final size:12
Alignment explanation
Indices: 48606503--48606535 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
48606493 AATTTAATCA
48606503 ATTTAAAAATAT
1 ATTTAAAAATAT
48606515 ATTTTAAAAAT-T
1 A-TTTAAAAATAT
48606527 ATTTAAAAA
1 ATTTAAAAA
48606536 ATAAAAAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 8 0.40
12 3 0.15
13 9 0.45
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (12 bp):
ATTTAAAAATAT
Found at i:48607437 original size:15 final size:15
Alignment explanation
Indices: 48607417--48607447 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
48607407 AATTATGAAA
48607417 GATATGTTTTGGATT
1 GATATGTTTTGGATT
*
48607432 GATATGTTTTGTATT
1 GATATGTTTTGGATT
48607447 G
1 G
48607448 GATTTTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.26, T:0.55
Consensus pattern (15 bp):
GATATGTTTTGGATT
Found at i:48607720 original size:15 final size:15
Alignment explanation
Indices: 48607700--48607729 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
48607690 GTGAAAATAT
48607700 ATTTGAATAAGTTTA
1 ATTTGAATAAGTTTA
*
48607715 ATTTGAATATGTTTA
1 ATTTGAATAAGTTTA
48607730 GATCAAGAAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.13, T:0.50
Consensus pattern (15 bp):
ATTTGAATAAGTTTA
Found at i:48612607 original size:2 final size:2
Alignment explanation
Indices: 48612600--48612624 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
48612590 TGATGCTTAT
48612600 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
48612625 GCATGTGTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:48614778 original size:48 final size:48
Alignment explanation
Indices: 48614716--48615508 Score: 1285
Period size: 48 Copynumber: 16.9 Consensus size: 48
48614706 TATATATGTG
*
48614716 TGTGGTAAAGCCGAATGGCTAGTGTGAAATTTGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
*
48614764 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
*
48614812 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
*
48614860 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
* * *
48614908 TGTGGTAAAGCCGAATGGCTAATGTGAAATATATATTAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
*
48614956 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
*
48615004 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
*
48615052 TGTGGTAAAGCCGAATGGCTAGCGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
*
48615100 TGTGGTAAAGCCGAATGGCTAATGTG-AA-A--TATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
*
48615144 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
*
48615192 --T-GT------G---GGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
48615228 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
*
48615276 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
* * *
48615324 TGTGGTAAAGCCGAATGGCTAGCGTGAAATATATTTGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
* *
48615372 TGTGGTAAAGCCGAATGGCTAGCGTGAAATATGTATGAGATATATATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
*
48615420 TGTGGTAAAGCCGAATGGCTAGCGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
*
48615468 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGAGAT
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGAT
48615509 GTGTGTATAT
Statistics
Matches: 707, Mismatches: 22, Indels: 32
0.93 0.03 0.04
Matches are distributed among these distances:
36 32 0.05
38 1 0.00
39 3 0.00
44 41 0.06
45 5 0.01
46 3 0.00
47 2 0.00
48 620 0.88
ACGTcount: A:0.35, C:0.07, G:0.28, T:0.31
Consensus pattern (48 bp):
TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
Found at i:48615168 original size:22 final size:22
Alignment explanation
Indices: 48615099--48615169 Score: 60
Period size: 22 Copynumber: 3.2 Consensus size: 22
48615089 AGATATGTAT
48615099 ATGTGGTAAAGCCGAATGGCTA
1 ATGTGGTAAAGCCGAATGGCTA
* *
48615121 ATGT-GAAATATG-AGATAT-G-TA
1 ATGTGGTAA-A-GCCGA-ATGGCTA
48615142 TATGTGGTAAAGCCGAATGGCTA
1 -ATGTGGTAAAGCCGAATGGCTA
48615165 ATGTG
1 ATGTG
48615170 AAATATGTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 16
0.65 0.07 0.28
Matches are distributed among these distances:
21 8 0.22
22 21 0.57
23 8 0.22
ACGTcount: A:0.34, C:0.08, G:0.30, T:0.28
Consensus pattern (22 bp):
ATGTGGTAAAGCCGAATGGCTA
Found at i:48615194 original size:17 final size:17
Alignment explanation
Indices: 48615172--48615230 Score: 50
Period size: 17 Copynumber: 3.4 Consensus size: 17
48615162 CTAATGTGAA
48615172 ATATGTATGAGATATGT
1 ATATGTATGAGATATGT
* *
48615189 ATATG--TGGGCTAATGT
1 ATATGTATGAGAT-ATGT
48615205 GAAATATGTATGAGATATGT
1 ---ATATGTATGAGATATGT
48615225 ATATGT
1 ATATGT
48615231 GGTAAAGCCG
Statistics
Matches: 32, Mismatches: 4, Indels: 12
0.67 0.08 0.25
Matches are distributed among these distances:
15 4 0.12
16 4 0.12
17 11 0.34
19 5 0.16
20 4 0.12
21 4 0.12
ACGTcount: A:0.34, C:0.02, G:0.25, T:0.39
Consensus pattern (17 bp):
ATATGTATGAGATATGT
Found at i:48615203 original size:36 final size:36
Alignment explanation
Indices: 48615160--48615232 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
48615150 AAAGCCGAAT
48615160 GGCTAATGTGAAATATGTATGAGATATGTATATGTG
1 GGCTAATGTGAAATATGTATGAGATATGTATATGTG
48615196 GGCTAATGTGAAATATGTATGAGATATGTATATGTG
1 GGCTAATGTGAAATATGTATGAGATATGTATATGTG
48615232 G
1 G
48615233 TAAAGCCGAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.33, C:0.03, G:0.29, T:0.36
Consensus pattern (36 bp):
GGCTAATGTGAAATATGTATGAGATATGTATATGTG
Found at i:48617046 original size:40 final size:40
Alignment explanation
Indices: 48616993--48617151 Score: 309
Period size: 40 Copynumber: 4.0 Consensus size: 40
48616983 TTGAGAGTTA
*
48616993 TATATCCGGGCTAAGTCCCGAAGAGCATTCGCGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
48617033 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
48617073 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
48617113 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTG
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTG
48617152 ATGTGTATTC
Statistics
Matches: 118, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
40 118 1.00
ACGTcount: A:0.20, C:0.23, G:0.30, T:0.26
Consensus pattern (40 bp):
TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
Found at i:48618152 original size:37 final size:37
Alignment explanation
Indices: 48618098--48618242 Score: 263
Period size: 37 Copynumber: 3.9 Consensus size: 37
48618088 GCTCAGACGA
* *
48618098 AATCTCCACACGAAGTCATCGGGTCTGACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
48618135 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
48618172 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
*
48618209 AATCTCCACACGTAGTCATCGGGCCTTACCCGGA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
48618243 ATATATTTCC
Statistics
Matches: 105, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 105 1.00
ACGTcount: A:0.25, C:0.33, G:0.20, T:0.22
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
Found at i:48618456 original size:47 final size:47
Alignment explanation
Indices: 48618405--48618496 Score: 130
Period size: 47 Copynumber: 2.0 Consensus size: 47
48618395 TTTCACACTA
* * *
48618405 GCCATTCGGCTTTACCACATATATGCATGTTCACAATCATCACATTG
1 GCCATTCGGCCTTACCACATATATACACGTTCACAATCATCACATTG
* * *
48618452 GCCATTCGGCCTTATCTCATATATACACGTTCACATTCATCACAT
1 GCCATTCGGCCTTACCACATATATACACGTTCACAATCATCACAT
48618497 AAAATCCTAA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
47 39 1.00
ACGTcount: A:0.27, C:0.29, G:0.11, T:0.33
Consensus pattern (47 bp):
GCCATTCGGCCTTACCACATATATACACGTTCACAATCATCACATTG
Found at i:48622329 original size:28 final size:29
Alignment explanation
Indices: 48622264--48622364 Score: 134
Period size: 28 Copynumber: 3.5 Consensus size: 29
48622254 ATAGTGAATC
48622264 CGCACACTTAGTGCTATATACATTC-AACT
1 CGCACACTTAGTGCTATATA-ATTCAAACT
48622293 CGCACACTTAGTGCTATATAA-TCAAACT
1 CGCACACTTAGTGCTATATAATTCAAACT
* * * *
48622321 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA-TTCAAACT
48622351 CGCACACTTAGTGC
1 CGCACACTTAGTGC
48622365 CAATCTTGTC
Statistics
Matches: 65, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
27 2 0.03
28 24 0.37
29 20 0.31
30 19 0.29
ACGTcount: A:0.31, C:0.28, G:0.13, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATAATTCAAACT
Found at i:48630244 original size:28 final size:29
Alignment explanation
Indices: 48630179--48630279 Score: 134
Period size: 28 Copynumber: 3.5 Consensus size: 29
48630169 ATAGTGAATC
48630179 CGCACACTTAGTGCTATATACATTC-AACT
1 CGCACACTTAGTGCTATATA-ATTCAAACT
48630208 CGCACACTTAGTGCTATATAA-TCAAACT
1 CGCACACTTAGTGCTATATAATTCAAACT
* * * *
48630236 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA-TTCAAACT
48630266 CGCACACTTAGTGC
1 CGCACACTTAGTGC
48630280 CAATCTTGTC
Statistics
Matches: 65, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
27 2 0.03
28 24 0.37
29 20 0.31
30 19 0.29
ACGTcount: A:0.31, C:0.28, G:0.13, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATAATTCAAACT
Found at i:48632581 original size:25 final size:25
Alignment explanation
Indices: 48632531--48632581 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
48632521 TGTGTAACAA
* *
48632531 CAAATGAATAGGGGCACTATATGTG
1 CAAATGAATAGAGGCACTAGATGTG
*
48632556 CAAATGATTAGAGGCACTGAGA-GTG
1 CAAATGAATAGAGGCACT-AGATGTG
48632581 C
1 C
48632582 GAGTTCTTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 20 0.91
26 2 0.09
ACGTcount: A:0.35, C:0.14, G:0.29, T:0.22
Consensus pattern (25 bp):
CAAATGAATAGAGGCACTAGATGTG
Found at i:48637340 original size:29 final size:29
Alignment explanation
Indices: 48637307--48637442 Score: 141
Period size: 29 Copynumber: 4.6 Consensus size: 29
48637297 GTGTCGAGAT
*
48637307 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGAGCTGGAAATATA
* *
48637336 TGGCACTAAGTGTGCGTGCTGGAAATATT
1 TGGCACTAAGTGTGCGAGCTGGAAATATA
* *
48637365 TGGCACTAAGTGTGCAAGCTGGAAAAAAAATA
1 TGGCACTAAGTGTGCGAGCTGG---AAATATA
** *
48637397 TGGCACTGTGTGTGCGAGCT-TAAAT-TA
1 TGGCACTAAGTGTGCGAGCTGGAAATATA
48637424 CGTGGCACTAAGTGTGCGA
1 --TGGCACTAAGTGTGCGA
48637443 AATCGAGTAG
Statistics
Matches: 90, Mismatches: 12, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
27 2 0.02
28 3 0.03
29 63 0.70
32 22 0.24
ACGTcount: A:0.29, C:0.15, G:0.30, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTGGAAATATA
Found at i:48645238 original size:29 final size:29
Alignment explanation
Indices: 48645205--48645340 Score: 141
Period size: 29 Copynumber: 4.6 Consensus size: 29
48645195 GTGTCGAGAT
*
48645205 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGAGCTGGAAATATA
* *
48645234 TGGCACTAAGTGTGCGTGCTGGAAATATT
1 TGGCACTAAGTGTGCGAGCTGGAAATATA
* *
48645263 TGGCACTAAGTGTGCAAGCTGGAAAAAAAATA
1 TGGCACTAAGTGTGCGAGCTGG---AAATATA
** *
48645295 TGGCACTGTGTGTGCGAGCT-TAAAT-TA
1 TGGCACTAAGTGTGCGAGCTGGAAATATA
48645322 CGTGGCACTAAGTGTGCGA
1 --TGGCACTAAGTGTGCGA
48645341 AATCGAGTAG
Statistics
Matches: 90, Mismatches: 12, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
27 2 0.02
28 3 0.03
29 63 0.70
32 22 0.24
ACGTcount: A:0.29, C:0.15, G:0.30, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTGGAAATATA
Found at i:48646828 original size:28 final size:29
Alignment explanation
Indices: 48646768--48646828 Score: 79
Period size: 28 Copynumber: 2.1 Consensus size: 29
48646758 AGATATGTAT
* *
48646768 ATATGGTAAAGCCGAATGGCTAGTATGAG
1 ATATGGTAAAGCCGAATGGCTAGCATGAA
* *
48646797 ATAT-GTATAGCCGAATGGCTAGCGTGAA
1 ATATGGTAAAGCCGAATGGCTAGCATGAA
48646825 ATAT
1 ATAT
48646829 ATATGAGATA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 24 0.86
29 4 0.14
ACGTcount: A:0.34, C:0.11, G:0.28, T:0.26
Consensus pattern (29 bp):
ATATGGTAAAGCCGAATGGCTAGCATGAA
Found at i:48646865 original size:48 final size:48
Alignment explanation
Indices: 48646805--48647029 Score: 396
Period size: 48 Copynumber: 4.7 Consensus size: 48
48646795 AGATATGTAT
*
48646805 AGCCGAATGGCTAGCGTGAAATATATATGAGATATGTATATGTGGTAA
1 AGCCGAATGGCTAGCGTGAAATATGTATGAGATATGTATATGTGGTAA
* *
48646853 AGCCGAATGGCTAGTGTGAAATATGTATGAGATATGAATATGTGGTAA
1 AGCCGAATGGCTAGCGTGAAATATGTATGAGATATGTATATGTGGTAA
48646901 AGCCGAATGGCTAGCGTGAAATATGTATGAGATATGTATATGTGGTAA
1 AGCCGAATGGCTAGCGTGAAATATGTATGAGATATGTATATGTGGTAA
*
48646949 AGTCGAATGGCTAGCGTGAAATATGTATGAGATATGTATATGTGGTAA
1 AGCCGAATGGCTAGCGTGAAATATGTATGAGATATGTATATGTGGTAA
* *
48646997 AGCCGAATGGCTAGTGTGAAATATGTAGGAGAT
1 AGCCGAATGGCTAGCGTGAAATATGTATGAGAT
48647030 GTGTGTATAT
Statistics
Matches: 168, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 168 1.00
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.29
Consensus pattern (48 bp):
AGCCGAATGGCTAGCGTGAAATATGTATGAGATATGTATATGTGGTAA
Found at i:48650547 original size:14 final size:15
Alignment explanation
Indices: 48650522--48650550 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
48650512 TATTTTCTGT
48650522 GTTTATTATGTGTGA
1 GTTTATTATGTGTGA
48650537 GTTTA-TATGTGTGA
1 GTTTATTATGTGTGA
48650551 AATTTTCGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.21, C:0.00, G:0.28, T:0.52
Consensus pattern (15 bp):
GTTTATTATGTGTGA
Found at i:48651088 original size:15 final size:15
Alignment explanation
Indices: 48651068--48651097 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
48651058 ATTATGAAAT
48651068 ATATGTTTTGGATTG
1 ATATGTTTTGGATTG
*
48651083 ATATGTTTTGTATTG
1 ATATGTTTTGGATTG
48651098 GAATTTTTGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.20, C:0.00, G:0.23, T:0.57
Consensus pattern (15 bp):
ATATGTTTTGGATTG
Found at i:48653357 original size:23 final size:23
Alignment explanation
Indices: 48653331--48653376 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
48653321 AAAATGAAGT
48653331 ATATGAAAATGTATGATTAATGC
1 ATATGAAAATGTATGATTAATGC
48653354 ATATGAAAATGTATGATTAATGC
1 ATATGAAAATGTATGATTAATGC
48653377 CGTATGGATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.43, C:0.04, G:0.17, T:0.35
Consensus pattern (23 bp):
ATATGAAAATGTATGATTAATGC
Found at i:48655542 original size:94 final size:94
Alignment explanation
Indices: 48655413--48655594 Score: 265
Period size: 94 Copynumber: 1.9 Consensus size: 94
48655403 TAAAGCTCAT
* * * *
48655413 TGATTTATGGTCACAATCTAAGTTCATTAACTTATGATTATGAACAATTTTTCCTGAGTTTGCTG
1 TGATTTATGATCACAACCTAAGTTCATTAACTTATGATCATGAACAATTTCTCCTGAGTTTGCTG
48655478 ACTTACAATCACAACTCCAAACAGCTCGA
66 ACTTACAATCACAACTCCAAACAGCTCGA
* * * *
48655507 TGATTTATGATCACAGCCTAAGTTCATTTATTTATGATCATGAACAATTTCTCTTGAGTTTGCTG
1 TGATTTATGATCACAACCTAAGTTCATTAACTTATGATCATGAACAATTTCTCCTGAGTTTGCTG
* **
48655572 ATTTATGATCACAACTCCAAACA
66 ACTTACAATCACAACTCCAAACA
48655595 ACTCACTAAT
Statistics
Matches: 77, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
94 77 1.00
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.37
Consensus pattern (94 bp):
TGATTTATGATCACAACCTAAGTTCATTAACTTATGATCATGAACAATTTCTCCTGAGTTTGCTG
ACTTACAATCACAACTCCAAACAGCTCGA
Found at i:48655578 original size:63 final size:62
Alignment explanation
Indices: 48655507--48655742 Score: 188
Period size: 63 Copynumber: 3.7 Consensus size: 62
48655497 AACAGCTCGA
* * *
48655507 TGATTTATGATCACAGCCTAAGTTCATTTATTTATGATCATGAACAATTTCTCTTGAGTTTGC
1 TGATTTATGATCACA-CCTAAATTCATTAATTTACGATCATGAACAATTTCTCTTGAGTTTGC
* * * * * * * ** *
48655570 TGATTTATGATCACAACTCCAAACAACTCACTAATTTACGATCAT-AGCTGATAT-TATAAAGGC
1 TGATTTATGATCAC-A--CC-TA-AATTCATTAATTTACGATCATGAAC-AATTTCTCTTGA-GT
*
48655633 TTGT
59 TTGC
* * * * *
48655637 TGATTTATGATCACAACCTAAGTTCATTGATTTACAATCATGAACAATTTCTCCTGAGTTCGC
1 TGATTTATGATCAC-ACCTAAATTCATTAATTTACGATCATGAACAATTTCTCTTGAGTTTGC
* *
48655700 TGATTTACGATTACACCTAAATTCATTAATTTACGATCATGAA
1 TGATTTATGATCACACCTAAATTCATTAATTTACGATCATGAA
48655743 TAATCTTTCC
Statistics
Matches: 129, Mismatches: 36, Indels: 17
0.71 0.20 0.09
Matches are distributed among these distances:
62 26 0.20
63 48 0.37
64 6 0.05
65 4 0.03
66 6 0.05
67 39 0.30
ACGTcount: A:0.32, C:0.18, G:0.12, T:0.37
Consensus pattern (62 bp):
TGATTTATGATCACACCTAAATTCATTAATTTACGATCATGAACAATTTCTCTTGAGTTTGC
Found at i:48655733 original size:62 final size:63
Alignment explanation
Indices: 48655637--48655778 Score: 173
Period size: 62 Copynumber: 2.3 Consensus size: 63
48655627 AAAGGCTTGT
* * *
48655637 TGATTTATGATCACAACCTAAGTTCATTGATTTACAATCATGAACAAT-TTCTCCTGAGTTCGC
1 TGATTTACGATCACAACCTAAATTCATTAATTTACAATCATGAACAATCTT-TCCTGAGTTCGC
* * * *
48655700 TGATTTACGATTAC-ACCTAAATTCATTAATTTACGATCATGAATAATCTTTCCTGAGTTAG-
1 TGATTTACGATCACAACCTAAATTCATTAATTTACAATCATGAACAATCTTTCCTGAGTTCGC
*
48655761 TGGATTCACGATCACAAC
1 T-GATTTACGATCACAAC
48655779 TTAGGTACGA
Statistics
Matches: 67, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
61 1 0.01
62 50 0.75
63 16 0.24
ACGTcount: A:0.32, C:0.20, G:0.13, T:0.36
Consensus pattern (63 bp):
TGATTTACGATCACAACCTAAATTCATTAATTTACAATCATGAACAATCTTTCCTGAGTTCGC
Found at i:48659747 original size:20 final size:21
Alignment explanation
Indices: 48659713--48659753 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
48659703 AGGGACTAAA
48659713 TTGTGCAAAAATTTGAAATTT
1 TTGTGCAAAAATTTGAAATTT
*
48659734 TTGTG-AAAATTTTGAAATTT
1 TTGTGCAAAAATTTGAAATTT
48659754 AGGTGTTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.37, C:0.02, G:0.15, T:0.46
Consensus pattern (21 bp):
TTGTGCAAAAATTTGAAATTT
Found at i:48660229 original size:16 final size:16
Alignment explanation
Indices: 48660210--48660243 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
48660200 AAATGAATAT
* *
48660210 ATGTGTAAATGTGATA
1 ATGTGCAAATATGATA
48660226 ATGTGCAAATATGATA
1 ATGTGCAAATATGATA
48660242 AT
1 AT
48660244 TGGATATTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.41, C:0.03, G:0.21, T:0.35
Consensus pattern (16 bp):
ATGTGCAAATATGATA
Found at i:48663053 original size:29 final size:29
Alignment explanation
Indices: 48662993--48663069 Score: 100
Period size: 29 Copynumber: 2.7 Consensus size: 29
48662983 AATCATATTC
*
48662993 ATATGGCCTATTAGGCCCAAATCACCTGT
1 ATATGGCCTATTAGGCCCAAATCACATGT
* * *
48663022 ATATGGCCTATTAGGCCCAAATTAGATTT
1 ATATGGCCTATTAGGCCCAAATCACATGT
**
48663051 ATATGGCCCGTTAGGCCCA
1 ATATGGCCTATTAGGCCCA
48663070 GCCACATTCA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (29 bp):
ATATGGCCTATTAGGCCCAAATCACATGT
Found at i:48668154 original size:40 final size:40
Alignment explanation
Indices: 48668099--48668210 Score: 136
Period size: 40 Copynumber: 2.8 Consensus size: 40
48668089 ATAACCACAT
* * *
48668099 GCACAATTGCCTTCGGGTCTTAACCCGGGTAT-AGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGGTATAAGC-ACTA
* * *
48668139 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAATCATTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGGTATAAGCACTA
* *
48668179 GCATAAATGCCTTCGGGGCTTAGCCCGGGTAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGGTAT
48668211 CATTCAAATG
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
40 60 0.97
41 2 0.03
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGGTATAAGCACTA
Found at i:48679444 original size:46 final size:47
Alignment explanation
Indices: 48679283--48679550 Score: 284
Period size: 46 Copynumber: 5.7 Consensus size: 47
48679273 TAGGGATAAT
* * *
48679283 GCCGATGTCATGTCCCAGAAATGGTCTTACACTTGCTCTCACATATCCG-T
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCT-ACATAT-CGAG
* * * *
48679333 GCTGATGCATGTCCCAGACATGTCTTACACTAG---AACATCTC-ATA
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTACATATCGA-G
48679377 GCCGATGCATGTCCCAGACATGTCTTACACTAGCT-TACATATCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTACATATCGAG
* * * *
48679423 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCT-CGTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTACATATCGAG
* *
48679469 GCCGATGTCATGTCCCAGACATGGTCTTACACTGGCTCT-CATAAT-GTG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTACAT-ATCGAG
48679517 GCCGATGCATGTCCCAGACATGTCTTACACTAGC
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGC
48679551 ACACACACAT
Statistics
Matches: 188, Mismatches: 21, Indels: 22
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 37 0.20
46 65 0.35
47 30 0.16
48 35 0.19
49 14 0.07
50 6 0.03
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (47 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTACATATCGAG
Found at i:48679535 original size:94 final size:94
Alignment explanation
Indices: 48679280--48679551 Score: 362
Period size: 94 Copynumber: 2.9 Consensus size: 94
48679270 ACATAGGGAT
* * * *
48679280 AATGCCGATGTCATGTCCCAGAAATGGTCTTACACTTGCTCTCACATATCCGT-GCTGATGCATG
1 AATGCCGATGTCATGTCCCAGACATGGTCTTACACTAGCTCTCATA-AT-CGTGGCCGATGCATG
48679344 TCCCAGACATGTCTTACACTAG-AACATCTC
64 TCCCAGACATGTCTTACACTAGCAACATCTC
*
48679374 -ATAGCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCT-TACAT-ATCGAGGCCGATGCATG
1 AAT-GCCGATGTCATGTCCCAGACATGGTCTTACACTAGCTCT-CATAATCGTGGCCGATGCATG
** *
48679434 TCCCAGACATGTCTTACACTAGCTCTCGTCTC
64 TCCCAGACATGTCTTACACTAGC-AACATCTC
*
48679466 AATGCCGATGTCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCCGATGCATGTC
1 AATGCCGATGTCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATCGTGGCCGATGCATGTC
48679530 CCAGACATGTCTTACACTAGCA
66 CCAGACATGTCTTACACTAGCA
48679552 CACACACATC
Statistics
Matches: 157, Mismatches: 11, Indels: 21
0.83 0.06 0.11
Matches are distributed among these distances:
89 2 0.01
90 34 0.22
91 1 0.01
92 27 0.17
93 31 0.20
94 59 0.38
95 3 0.02
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.28
Consensus pattern (94 bp):
AATGCCGATGTCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATCGTGGCCGATGCATGTC
CCAGACATGTCTTACACTAGCAACATCTC
Found at i:48679535 original size:140 final size:139
Alignment explanation
Indices: 48679283--48679550 Score: 350
Period size: 140 Copynumber: 1.9 Consensus size: 139
48679273 TAGGGATAAT
* ** *
48679283 GCCGATGTCATGTCCCAGAAATGGTCTTACACTTGCTCTCACATATCCGTGCTGATGCATGTCCC
1 GCCGATGTCATGTCCCAGAAATGGTCTTACACTAGCTCT-ACATATCAATGCCGATGCATGTCCC
48679348 AGACATGTCTTACACTAGAACATCTCATAGCCGATGCATGTCCCAGACATGTCTTACACTAGCTT
65 AGACATGTCTTACACTAGAACATCTCATAGCCGATGCATGTCCCAGACATGTCTTACACTAGCTT
48679413 ACATATCGAG
130 ACATATCGAG
* * *
48679423 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCT-CGTCTCAATGCCGATGTCATGTCCC
1 GCCGATGTCATGTCCCAGAAATGGTCTTACACTAGCTCTACATATCAATGCCGATG-CATGTCCC
*
48679485 AGACATGGTCTTACACT-G-GC-TCTCATAATGTGGCCGATGCATGTCCCAGACATGTCTTACAC
65 AGACAT-GTCTTACACTAGAACATCTCAT-A----GCCGATGCATGTCCCAGACATGTCTTACAC
48679547 TAGC
124 TAGC
48679551 ACACACACAT
Statistics
Matches: 113, Mismatches: 8, Indels: 14
0.84 0.06 0.10
Matches are distributed among these distances:
135 6 0.05
136 13 0.12
137 15 0.13
138 25 0.22
139 13 0.12
140 41 0.36
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (139 bp):
GCCGATGTCATGTCCCAGAAATGGTCTTACACTAGCTCTACATATCAATGCCGATGCATGTCCCA
GACATGTCTTACACTAGAACATCTCATAGCCGATGCATGTCCCAGACATGTCTTACACTAGCTTA
CATATCGAG
Found at i:48684436 original size:46 final size:45
Alignment explanation
Indices: 48684383--48684558 Score: 212
Period size: 46 Copynumber: 3.8 Consensus size: 45
48684373 TATTTGGGCA
48684383 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
48684429 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
48684476 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
48684522 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
48684559 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 69 0.62
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:48684538 original size:93 final size:93
Alignment explanation
Indices: 48684379--48684550 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
48684369 AGGATATTTG
* *
48684379 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
48684444 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
48684472 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
48684537 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
48684551 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:48687538 original size:15 final size:15
Alignment explanation
Indices: 48687500--48687578 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
48687490 ATATCTTGGG
*
48687500 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
48687515 TCT-TTTATTCTGGA
1 TTTCTTTATTCTGGA
*
48687529 TTTCTTTATTCTGGG
1 TTTCTTTATTCTGGA
*
48687544 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
48687559 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
48687573 TTTCTT
1 TTTCTT
48687579 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
14 22 0.42
15 29 0.55
16 2 0.04
ACGTcount: A:0.10, C:0.16, G:0.14, T:0.59
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:48687542 original size:29 final size:30
Alignment explanation
Indices: 48687491--48687577 Score: 92
Period size: 29 Copynumber: 3.0 Consensus size: 30
48687481 CATAGTATCA
* *
48687491 TATCTTGGGTTTCTTTATCCTGGATCTT-T-
1 TATCTTGGATTTCTTTATTCTGGAT-TTCTC
*
48687520 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
48687550 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
48687578 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
28 3 0.06
29 28 0.56
30 18 0.36
31 1 0.02
ACGTcount: A:0.10, C:0.16, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:48690017 original size:46 final size:46
Alignment explanation
Indices: 48689964--48690139 Score: 191
Period size: 46 Copynumber: 3.8 Consensus size: 46
48689954 TATTTGGGCA
*
48689964 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
48690010 TCCGAACTCGTTGAGTTGAGTCCGAGTTCA---A-GAGATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCAA--A--CG
* * *
48690057 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTGTGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
48690103 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
48690140 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 10, Indels: 20
0.79 0.07 0.14
Matches are distributed among these distances:
42 1 0.01
43 7 0.06
45 3 0.03
46 63 0.57
47 29 0.26
48 1 0.01
50 5 0.05
51 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:48690119 original size:93 final size:93
Alignment explanation
Indices: 48689960--48690131 Score: 283
Period size: 93 Copynumber: 1.8 Consensus size: 93
48689950 AGGATATTTG
*
48689960 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCGTTGAG
48690025 TTGAGTCCGAGTTCAAGAGATGTAACTA
66 TTGAGTCCGAGTTCAAGAGATGTAACTA
* * * *
48690053 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTGTGGATGCGAACG-CCTGAGCTCGTTGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCC-GAACTCGTTGA
48690117 GTTGAGTCCGAGTTC
65 GTTGAGTCCGAGTTC
48690132 GCTTATGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 2 0.03
93 71 0.97
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCGTTGAG
TTGAGTCCGAGTTCAAGAGATGTAACTA
Found at i:48694967 original size:12 final size:12
Alignment explanation
Indices: 48694950--48695038 Score: 61
Period size: 12 Copynumber: 7.9 Consensus size: 12
48694940 AAAATATTAT
48694950 TTTAATATTAAA
1 TTTAATATTAAA
48694962 TTTAATATTAAA
1 TTTAATATTAAA
* *
48694974 TTT-ATTTTGATAG
1 TTTAATATT-A-AA
*
48694987 TTT-TTATT-AA
1 TTTAATATTAAA
48694997 TTTAATATTAAA
1 TTTAATATTAAA
48695009 -TT-A-ATT--A
1 TTTAATATTAAA
48695016 TCTTAATATTAAA
1 T-TTAATATTAAA
48695029 TTTAAT-TTAA
1 TTTAATATTAA
48695039 TATTGATCTT
Statistics
Matches: 61, Mismatches: 6, Indels: 21
0.69 0.07 0.24
Matches are distributed among these distances:
7 1 0.02
9 5 0.08
10 6 0.10
11 17 0.28
12 23 0.38
13 9 0.15
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.55
Consensus pattern (12 bp):
TTTAATATTAAA
Found at i:48695007 original size:11 final size:11
Alignment explanation
Indices: 48694942--48695039 Score: 55
Period size: 11 Copynumber: 8.8 Consensus size: 11
48694932 ATTTCAAAAA
*
48694942 AATATTATTTT
1 AATATTAATTT
48694953 AATATTAAATTT
1 AATATT-AATTT
48694965 AATATTAAATTT
1 AATATT-AATTT
*
48694977 -ATTTTGATAGTTT
1 AATATT-A-A-TTT
*
48694990 -TTATTAATTT
1 AATATTAATTT
*
48695000 AATATTAAATT
1 AATATTAATTT
48695011 -A-ATT-ATCTT
1 AATATTAAT-TT
48695020 AATATTAAATTT
1 AATATT-AATTT
48695032 AAT-TTAAT
1 AATATTAAT
48695040 ATTGATCTTG
Statistics
Matches: 70, Mismatches: 8, Indels: 19
0.72 0.08 0.20
Matches are distributed among these distances:
8 1 0.01
9 5 0.07
10 8 0.11
11 25 0.36
12 23 0.33
13 8 0.11
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.55
Consensus pattern (11 bp):
AATATTAATTT
Found at i:48695023 original size:67 final size:69
Alignment explanation
Indices: 48694940--48695084 Score: 181
Period size: 67 Copynumber: 2.1 Consensus size: 69
48694930 CTATTTCAAA
* * * * *
48694940 AAAAT-ATTATTTTAATATTAAATTTAATATTAA-ATTTATTTTGAT-AGT-TTTTATTAATTTA
1 AAAATAATTATCTTAATATTAAATTTAAT-TTAATATTGATCTTGATAAATATTATATTAATTTA
48695001 ATATT
65 ATATT
* * *
48695006 AAATTAATTATCTTAATATTAAATTTAATTTAATATTGATCTTGATAAATATTATATTTATTTAT
1 AAAATAATTATCTTAATATTAAATTTAATTTAATATTGATCTTGATAAATATTATATTAATTTAA
48695071 TATT
66 TATT
48695075 AAAATAATTA
1 AAAATAATTA
48695085 AGTTTAATTA
Statistics
Matches: 66, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
66 8 0.12
67 32 0.48
68 2 0.03
69 24 0.36
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.53
Consensus pattern (69 bp):
AAAATAATTATCTTAATATTAAATTTAATTTAATATTGATCTTGATAAATATTATATTAATTTAA
TATT
Found at i:48697506 original size:29 final size:29
Alignment explanation
Indices: 48697465--48697544 Score: 72
Period size: 32 Copynumber: 2.7 Consensus size: 29
48697455 ATGAATTTAA
* *
48697465 AAATTT-ATAAACTTATAAATTGATTACTT
1 AAATTTAAT-AACTTATAAATTAATTAATT
48697494 AAATTTAATAACTCATGATAAATTAATTAATT
1 AAATTTAATAACT--T-ATAAATTAATTAATT
** *
48697526 TTATTTAATAACTCATAAA
1 AAATTTAATAACTTATAAA
48697545 AAAATACATG
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
29 15 0.36
30 2 0.05
31 1 0.02
32 24 0.57
ACGTcount: A:0.47, C:0.07, G:0.03, T:0.42
Consensus pattern (29 bp):
AAATTTAATAACTTATAAATTAATTAATT
Found at i:48703661 original size:29 final size:28
Alignment explanation
Indices: 48703601--48703667 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 28
48703591 TAATTTAACA
* * *
48703601 AAAAAATTAATGATATATTTTAAAATTC
1 AAAAAATAAATGAAATATTTTAAAAATC
48703629 AAAAAATAAATGAAATAATTATTAAAAAT-
1 AAAAAATAAATGAAAT-ATT-TTAAAAATC
*
48703658 AAAATATAAA
1 AAAAAATAAA
48703668 AATTTTAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
28 14 0.42
29 12 0.36
30 7 0.21
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.31
Consensus pattern (28 bp):
AAAAAATAAATGAAATATTTTAAAAATC
Found at i:48706002 original size:17 final size:18
Alignment explanation
Indices: 48705970--48706005 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
48705960 TGATTTAACT
*
48705970 TTTTTTTATATCAATCAA
1 TTTTTATATATCAATCAA
48705988 TTTTTATATAT-AATCAA
1 TTTTTATATATCAATCAA
48706005 T
1 T
48706006 ATTCTCTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTTTATATATCAATCAA
Found at i:48711863 original size:25 final size:25
Alignment explanation
Indices: 48711830--48711877 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
48711820 ACGAGCGGTA
*
48711830 AACGGTAAGCTCTTCCGAGCTGAAT
1 AACGGTAAGCTATTCCGAGCTGAAT
48711855 AACGGTAAGCTATTCCGAGCTGA
1 AACGGTAAGCTATTCCGAGCTGA
48711878 GTATCCATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.29, C:0.23, G:0.25, T:0.23
Consensus pattern (25 bp):
AACGGTAAGCTATTCCGAGCTGAAT
Found at i:48711888 original size:25 final size:25
Alignment explanation
Indices: 48711835--48711890 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
48711825 CGGTAAACGG
* **
48711835 TAAGCTCTTCCGAGCTGAATAACGG
1 TAAGCTATTCCGAGCTGAATAACCA
* *
48711860 TAAGCTATTCCGAGCTGAGTATCCA
1 TAAGCTATTCCGAGCTGAATAACCA
48711885 TAAGCT
1 TAAGCT
48711891 CATAAGATCT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (25 bp):
TAAGCTATTCCGAGCTGAATAACCA
Found at i:48716110 original size:3 final size:3
Alignment explanation
Indices: 48716072--48716176 Score: 119
Period size: 3 Copynumber: 35.7 Consensus size: 3
48716062 AGATTATATA
* * *
48716072 TAT TA- TAT TA- TAT TA- TAT AAT TGAT TAT TAT AAT TAT TAAT TGT
1 TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT T-AT TAT
**
48716116 TAT GGT T-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
48716163 TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TA
48716177 AATAAATTAA
Statistics
Matches: 87, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
2 8 0.09
3 73 0.84
4 6 0.07
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:48716482 original size:38 final size:37
Alignment explanation
Indices: 48716389--48716482 Score: 92
Period size: 33 Copynumber: 2.6 Consensus size: 37
48716379 TGTAATGATA
* *
48716389 ATATTTATACAATTATAATATT-TTATTTAAATTAGTAG
1 ATATTTAT-TAATTA-AATATTATTATTAAAATTAGTAG
48716427 ATATTTATT-ATT---TATTATTATTAAAATTAAG-AG
1 ATATTTATTAATTAAATATTATTATTAAAATT-AGTAG
48716460 ATATTTATTAATTAAATAATTAT
1 ATATTTATTAATTAAAT-ATTAT
48716483 AAAATAAGAT
Statistics
Matches: 47, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
32 4 0.09
33 21 0.45
34 5 0.11
36 3 0.06
37 1 0.02
38 13 0.28
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (37 bp):
ATATTTATTAATTAAATATTATTATTAAAATTAGTAG
Found at i:48716491 original size:33 final size:33
Alignment explanation
Indices: 48716411--48716491 Score: 87
Period size: 33 Copynumber: 2.5 Consensus size: 33
48716401 TTATAATATT
* * *
48716411 TTATTTAAATT-AGTAGATATTTATTATTTATTA
1 TTATTAAAATTAAG-AGATATTTATTATTAATAA
48716444 TTATTAAAATTAAGAGATATTTATTAATTAAATAA
1 TTATTAAAATTAAGAGATATTTATT-ATT-AATAA
48716479 TTA-TAAAA-TAAGA
1 TTATTAAAATTAAGA
48716492 TTTTTATGTG
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
33 26 0.62
34 10 0.24
35 6 0.14
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (33 bp):
TTATTAAAATTAAGAGATATTTATTATTAATAA
Found at i:48716660 original size:22 final size:20
Alignment explanation
Indices: 48716625--48716669 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 20
48716615 AATATAATAT
48716625 AAATAAAATAAAATAAAAAG
1 AAATAAAATAAAATAAAAAG
*
48716645 AAATAAAGCATAAAATAAATAG
1 AAATAAA--ATAAAATAAAAAG
48716667 AAA
1 AAA
48716670 CCAAACAAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 7 0.32
22 15 0.68
ACGTcount: A:0.76, C:0.02, G:0.07, T:0.16
Consensus pattern (20 bp):
AAATAAAATAAAATAAAAAG
Found at i:48716732 original size:6 final size:6
Alignment explanation
Indices: 48716713--48716755 Score: 52
Period size: 6 Copynumber: 7.2 Consensus size: 6
48716703 AAAACAGGGG
* *
48716713 AGAAAA AGAGAA AGAAAA AG-GAA AGAAAA AGAAAA AGGAAAA A
1 AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA A-GAAAA A
48716756 CTAGAGATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
5 4 0.13
6 21 0.68
7 6 0.19
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (6 bp):
AGAAAA
Found at i:48716736 original size:11 final size:12
Alignment explanation
Indices: 48716713--48716755 Score: 61
Period size: 11 Copynumber: 3.6 Consensus size: 12
48716703 AAAACAGGGG
48716713 AGAAAAAGAGAA
1 AGAAAAAGAGAA
48716725 AGAAAAAG-GAA
1 AGAAAAAGAGAA
*
48716736 AGAAAAAGAAAA
1 AGAAAAAGAGAA
48716748 AGGAAAAA
1 A-GAAAAA
48716756 CTAGAGATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
11 11 0.39
12 11 0.39
13 6 0.21
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (12 bp):
AGAAAAAGAGAA
Found at i:48716743 original size:17 final size:17
Alignment explanation
Indices: 48716717--48716753 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
48716707 CAGGGGAGAA
*
48716717 AAAGAGAAAGAAAAAGG
1 AAAGAAAAAGAAAAAGG
48716734 AAAGAAAAAGAAAAAGG
1 AAAGAAAAAGAAAAAGG
48716751 AAA
1 AAA
48716754 AACTAGAGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (17 bp):
AAAGAAAAAGAAAAAGG
Found at i:48717801 original size:44 final size:44
Alignment explanation
Indices: 48717742--48717853 Score: 154
Period size: 44 Copynumber: 2.5 Consensus size: 44
48717732 CGACTACTGT
*
48717742 TACTGTTACCATTACTGTTACTGATTC-GACACTTTGTGTGTCGAA
1 TACTGTTA-CGTTACTGTTACTGATTCAG-CACTTTGTGTGTCGAA
* *
48717787 TACTGTTACGTTACTGTTACAGATTCAGCACTTTGTGTGTTGAA
1 TACTGTTACGTTACTGTTACTGATTCAGCACTTTGTGTGTCGAA
*
48717831 TACTGTTACTGTTACTGCTACTG
1 TACTGTTAC-GTTACTGTTACTG
48717854 CTACCGTTGC
Statistics
Matches: 60, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
44 40 0.67
45 20 0.33
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.41
Consensus pattern (44 bp):
TACTGTTACGTTACTGTTACTGATTCAGCACTTTGTGTGTCGAA
Found at i:48726506 original size:46 final size:44
Alignment explanation
Indices: 48726416--48726532 Score: 123
Period size: 46 Copynumber: 2.6 Consensus size: 44
48726406 ATTGAGACGA
* * *
48726416 GTGCTAATGTAAGACATGACTGGGACATGCATTGGCCTCAAGAC
1 GTGCTAGTGTAAGACATGTCTGGGACATGCATTAGCCTCAAGAC
48726460 GTAAGCTAGTGTAAGACATGTCTGGGACATGCATTAG-CT-ATGAGAC
1 GT--GCTAGTGTAAGACATGTCTGGGACATGCATTAGCCTCA--AGAC
*
48726506 GTG-TCAGTGTAAGTCCATGTCTGGGAC
1 GTGCT-AGTGTAAG-ACATGTCTGGGAC
48726533 GTGACATCGA
Statistics
Matches: 63, Mismatches: 4, Indels: 11
0.81 0.05 0.14
Matches are distributed among these distances:
43 1 0.02
44 12 0.19
45 14 0.22
46 36 0.57
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (44 bp):
GTGCTAGTGTAAGACATGTCTGGGACATGCATTAGCCTCAAGAC
Done.