Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr5
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: 65570391
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1216948 characters in sequence are not A, C, G, or T
File 159 of 203
Found at i:50404579 original size:18 final size:17
Alignment explanation
Indices: 50404547--50404581 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
50404537 CATCCGTATG
*
50404547 GGGCCCACAAGCCCATT
1 GGGCCCACAAACCCATT
50404564 GGGCCCACACAACCCATT
1 GGGCCCACA-AACCCATT
50404582 TCAGCCCAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.26, C:0.43, G:0.20, T:0.11
Consensus pattern (17 bp):
GGGCCCACAAACCCATT
Found at i:50407816 original size:11 final size:11
Alignment explanation
Indices: 50407800--50407824 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
50407790 GAACTTATAA
50407800 AATGTGGTACC
1 AATGTGGTACC
50407811 AATGTGGTACC
1 AATGTGGTACC
50407822 AAT
1 AAT
50407825 TAAGTATGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (11 bp):
AATGTGGTACC
Found at i:50408129 original size:54 final size:54
Alignment explanation
Indices: 50408055--50408161 Score: 153
Period size: 54 Copynumber: 2.0 Consensus size: 54
50408045 CTGTGTGACC
* *
50408055 CAAGTCAGGGAGTTACACGGGCAAAGACACAGG-CTGAGACATGACCGTGTGTCT
1 CAAGTCAGGGACTTACACGGGCAAAGACAC-GGACTGAGACACGACCGTGTGTCT
* * *
50408109 CAAGTCAGTGACTTACACGGGTAAGGACACGGACTGAGACACGACCGTGTGTC
1 CAAGTCAGGGACTTACACGGGCAAAGACACGGACTGAGACACGACCGTGTGTC
50408162 CCAACTTCGA
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
53 2 0.04
54 45 0.96
ACGTcount: A:0.29, C:0.23, G:0.31, T:0.17
Consensus pattern (54 bp):
CAAGTCAGGGACTTACACGGGCAAAGACACGGACTGAGACACGACCGTGTGTCT
Found at i:50410660 original size:35 final size:35
Alignment explanation
Indices: 50410615--50410805 Score: 134
Period size: 35 Copynumber: 5.4 Consensus size: 35
50410605 GATTCGCCCG
* *
50410615 ACTAGCGCTGGGCGCAAATATCGTTGGTTTATCCA
1 ACTAGAGCTGGGCGCAAATATCGTCGGTTTATCCA
* * * * *
50410650 ATTAGAGCTGGGCTCACTAATTATTCGTCAGTTTATTCG
1 ACTAGAGCTGGGCGCA--AA-TA-TCGTCGGTTTATCCA
* * * * * **
50410689 ATTAGCGCTGGGCGCAACTTTCGTCAGTTTATCTG
1 ACTAGAGCTGGGCGCAAATATCGTCGGTTTATCCA
* * * * *
50410724 ACTAGTGTTGGGCACACAT-TCGTCGGTCTATCCA
1 ACTAGAGCTGGGCGCAAATATCGTCGGTTTATCCA
* *
50410758 ACTAGCA-CTAGGCGCAAATATCGTTGGTTTATCCA
1 ACTAG-AGCTGGGCGCAAATATCGTCGGTTTATCCA
50410793 ACTAGAGCTGGGC
1 ACTAGAGCTGGGC
50410806 TCACTAATTA
Statistics
Matches: 118, Mismatches: 31, Indels: 14
0.72 0.19 0.09
Matches are distributed among these distances:
34 25 0.21
35 62 0.53
36 1 0.01
37 3 0.03
38 2 0.02
39 25 0.21
ACGTcount: A:0.23, C:0.23, G:0.24, T:0.31
Consensus pattern (35 bp):
ACTAGAGCTGGGCGCAAATATCGTCGGTTTATCCA
Found at i:50410701 original size:74 final size:74
Alignment explanation
Indices: 50410612--50410848 Score: 259
Period size: 74 Copynumber: 3.3 Consensus size: 74
50410602 GTTGATTCGC
* *
50410612 CCGACTAGCGCTGGGCGCAAATATCGTTGGTTTATCCAATTAGAGCTGGGCTCACTAATTATTCG
1 CCGACTAGCGCTAGGCGCAAATATCGTTGGTTTATCCAACTAGAGCTGGGCTCACTAATTATTCG
50410677 TCAGTTTAT
66 TCAGTTTAT
* * * * * ** ** * * *
50410686 TCGATTAGCGCTGGGCGCAACTTTCGTCAGTTTATCTGACTAGTGTTGGG--CAC--A-CATTCG
1 CCGACTAGCGCTAGGCGCAAATATCGTTGGTTTATCCAACTAGAGCTGGGCTCACTAATTATTCG
* *
50410746 TCGGTCTAT
66 TCAGTTTAT
* *
50410755 CCAACTAGCACTAGGCGCAAATATCGTTGGTTTATCCAACTAGAGCTGGGCTCACTAATTATTCG
1 CCGACTAGCGCTAGGCGCAAATATCGTTGGTTTATCCAACTAGAGCTGGGCTCACTAATTATTCG
*
50410820 TCAATTTAT
66 TCAGTTTAT
*
50410829 CCGGCTAGCGCTAGGCGCAA
1 CCGACTAGCGCTAGGCGCAA
50410849 CCTCCGTCAA
Statistics
Matches: 124, Mismatches: 34, Indels: 10
0.74 0.20 0.06
Matches are distributed among these distances:
69 49 0.40
70 1 0.01
71 3 0.02
72 3 0.02
73 1 0.01
74 67 0.54
ACGTcount: A:0.23, C:0.24, G:0.23, T:0.30
Consensus pattern (74 bp):
CCGACTAGCGCTAGGCGCAAATATCGTTGGTTTATCCAACTAGAGCTGGGCTCACTAATTATTCG
TCAGTTTAT
Found at i:50410873 original size:143 final size:143
Alignment explanation
Indices: 50410615--50410918 Score: 457
Period size: 143 Copynumber: 2.1 Consensus size: 143
50410605 GATTCGCCCG
* * *
50410615 ACTAGCGCTGGGCGCAAATATCGTTGGTTTATCCAATTAGAGCTGGGCTCACTAATTATTCGTCA
1 ACTAGCACTAGGCGCAAATATCGTTGGTTTATCCAACTAGAGCTGGGCTCACTAATTATTCGTCA
* * * * * * * *
50410680 GTTTATTCGATTAGCGCTGGGCGCAACTTTCGTCAGTTTATCTGACTAGTGTTGGGCACACATTC
66 ATTTATCCGACTAGCGCTAGGCGCAACCTCCGTCAATTTATCTGACTAGTGCTGGGCACACATTC
50410745 GTCGGTCTATCCA
131 GTCGGTCTATCCA
50410758 ACTAGCACTAGGCGCAAATATCGTTGGTTTATCCAACTAGAGCTGGGCTCACTAATTATTCGTCA
1 ACTAGCACTAGGCGCAAATATCGTTGGTTTATCCAACTAGAGCTGGGCTCACTAATTATTCGTCA
* * *
50410823 ATTTATCCGGCTAGCGCTAGGCGCAACCTCCGTCAATTTATCTGGCTAGTGCTGGGCACACATTT
66 ATTTATCCGACTAGCGCTAGGCGCAACCTCCGTCAATTTATCTGACTAGTGCTGGGCACACATTC
*
50410888 GTCGGTTTATCCA
131 GTCGGTCTATCCA
50410901 ACTAG-ATCTAGGCGCAAA
1 ACTAGCA-CTAGGCGCAAA
50410919 CTCTTTGGCG
Statistics
Matches: 145, Mismatches: 15, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
142 1 0.01
143 144 0.99
ACGTcount: A:0.23, C:0.24, G:0.23, T:0.31
Consensus pattern (143 bp):
ACTAGCACTAGGCGCAAATATCGTTGGTTTATCCAACTAGAGCTGGGCTCACTAATTATTCGTCA
ATTTATCCGACTAGCGCTAGGCGCAACCTCCGTCAATTTATCTGACTAGTGCTGGGCACACATTC
GTCGGTCTATCCA
Found at i:50410877 original size:74 final size:74
Alignment explanation
Indices: 50410612--50410879 Score: 217
Period size: 74 Copynumber: 3.7 Consensus size: 74
50410602 GTTGATTCGC
* ** ** * *
50410612 CCGACTAGCGCTGGGCGCAA-ATATCGTTGGTTTATCCAATTAGAGCTGGGCTCACTAATTATTC
1 CCGACTAGCGCTAGGCGCAACAT-TCGTCAGTTTATCTGACTAGTGCTGGGCTCACTAATTATTC
50410676 GTCAGTTTAT
65 GTCAGTTTAT
* * * * * *
50410686 TCGATTAGCGCTGGGCGCAACTTTCGTCAGTTTATCTGACTAGTGTTGGG--CAC--A-CATTCG
1 CCGACTAGCGCTAGGCGCAACATTCGTCAGTTTATCTGACTAGTGCTGGGCTCACTAATTATTCG
* *
50410746 TCGGTCTAT
66 TCAGTTTAT
* * ** ** *
50410755 CCAACTAGCACTAGGCGCAA-ATATCGTTGGTTTATCCAACTAGAGCTGGGCTCACTAATTATTC
1 CCGACTAGCGCTAGGCGCAACAT-TCGTCAGTTTATCTGACTAGTGCTGGGCTCACTAATTATTC
*
50410819 GTCAATTTAT
65 GTCAGTTTAT
* * * * *
50410829 CCGGCTAGCGCTAGGCGCAACCTCCGTCAATTTATCTGGCTAGTGCTGGGC
1 CCGACTAGCGCTAGGCGCAACATTCGTCAGTTTATCTGACTAGTGCTGGGC
50410880 ACACATTTGT
Statistics
Matches: 145, Mismatches: 41, Indels: 16
0.72 0.20 0.08
Matches are distributed among these distances:
68 1 0.01
69 48 0.33
70 1 0.01
71 3 0.02
72 3 0.02
73 1 0.01
74 86 0.59
75 2 0.01
ACGTcount: A:0.22, C:0.24, G:0.24, T:0.31
Consensus pattern (74 bp):
CCGACTAGCGCTAGGCGCAACATTCGTCAGTTTATCTGACTAGTGCTGGGCTCACTAATTATTCG
TCAGTTTAT
Found at i:50413114 original size:6 final size:6
Alignment explanation
Indices: 50413103--50413137 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
50413093 GGTTTTCTCA
* *
50413103 AAATGG AAATGG AAATGA AAATGG AAATGG TAATG
1 AAATGG AAATGG AAATGG AAATGG AAATGG AAATG
50413138 AACATGGATT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.51, C:0.00, G:0.29, T:0.20
Consensus pattern (6 bp):
AAATGG
Found at i:50413125 original size:18 final size:18
Alignment explanation
Indices: 50413102--50413145 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
50413092 TGGTTTTCTC
50413102 AAAATGGAAATGGAAATG
1 AAAATGGAAATGGAAATG
*
50413120 AAAATGGAAATGGTAATG
1 AAAATGGAAATGGAAATG
*
50413138 AACATGGA
1 AAAATGGA
50413146 TTTCTCAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.52, C:0.02, G:0.27, T:0.18
Consensus pattern (18 bp):
AAAATGGAAATGGAAATG
Found at i:50413304 original size:25 final size:26
Alignment explanation
Indices: 50413270--50413321 Score: 88
Period size: 25 Copynumber: 2.0 Consensus size: 26
50413260 ATTTTCTTGA
*
50413270 AATTTTACCAGGGGT-AAATTGTCAT
1 AATTTTACCAGAGGTAAAATTGTCAT
50413295 AATTTTACCAGAGGTAAAATTGTCAT
1 AATTTTACCAGAGGTAAAATTGTCAT
50413321 A
1 A
50413322 GGTAAAATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
25 14 0.56
26 11 0.44
ACGTcount: A:0.37, C:0.12, G:0.17, T:0.35
Consensus pattern (26 bp):
AATTTTACCAGAGGTAAAATTGTCAT
Found at i:50415083 original size:22 final size:23
Alignment explanation
Indices: 50415055--50415099 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
50415045 ATGCAATCTT
50415055 AGATATGA-TATGTAATCTTAGA
1 AGATATGATTATGTAATCTTAGA
*
50415077 AGATATGATTTTGTAATCTTAGA
1 AGATATGATTATGTAATCTTAGA
50415100 GATTTAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.38, C:0.04, G:0.18, T:0.40
Consensus pattern (23 bp):
AGATATGATTATGTAATCTTAGA
Found at i:50415109 original size:22 final size:23
Alignment explanation
Indices: 50415065--50415109 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
50415055 AGATATGATA
*
50415065 TGTAATCTTAGAAGATATGATTT
1 TGTAATCTTAGAAGATATAATTT
*
50415088 TGTAATCTTAG-AGATTTAATTT
1 TGTAATCTTAGAAGATATAATTT
50415110 GTAGATACCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.33, C:0.04, G:0.16, T:0.47
Consensus pattern (23 bp):
TGTAATCTTAGAAGATATAATTT
Found at i:50420983 original size:15 final size:14
Alignment explanation
Indices: 50420956--50420998 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
50420946 GCCTTAAGAC
50420956 AAAAAAATCAAAAAA
1 AAAAAAAT-AAAAAA
*
50420971 AAATAAATAAAAAA
1 AAAAAAATAAAAAA
*
50420985 AGAAAAAAGAAAAA
1 A-AAAAAATAAAAA
50420999 GAGGAGAGGC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 7 0.29
15 17 0.71
ACGTcount: A:0.86, C:0.02, G:0.05, T:0.07
Consensus pattern (14 bp):
AAAAAAATAAAAAA
Found at i:50421944 original size:24 final size:24
Alignment explanation
Indices: 50421910--50421988 Score: 131
Period size: 24 Copynumber: 3.3 Consensus size: 24
50421900 GTCCCAAAAG
50421910 TACAGTGGATTGAACCTTGAAGAT
1 TACAGTGGATTGAACCTTGAAGAT
* *
50421934 TACAGTAGATTGATCCTTGAAGAT
1 TACAGTGGATTGAACCTTGAAGAT
*
50421958 TACAGTGGATTGAACCTTAAAGAT
1 TACAGTGGATTGAACCTTGAAGAT
50421982 TACAGTG
1 TACAGTG
50421989 TGGGCAATCT
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 50 1.00
ACGTcount: A:0.34, C:0.13, G:0.23, T:0.30
Consensus pattern (24 bp):
TACAGTGGATTGAACCTTGAAGAT
Found at i:50422457 original size:45 final size:45
Alignment explanation
Indices: 50422393--50423045 Score: 344
Period size: 45 Copynumber: 14.6 Consensus size: 45
50422383 AGTGGAGCGG
50422393 AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTGAAGAAAGC
1 AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTGAAGAAAGC
* ** * *
50422438 AAGTCTTATCCCCCTGAAGTTATAGTGAAGCATACTGAAGAAAGC
1 AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTGAAGAAAGC
* * * * **
50422483 AACTATTATCCCCCTGAAGTTGCAGTGGAACAAACTGAAGATGGC
1 AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTGAAGAAAGC
* * * * * *
50422528 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAA-T
1 AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTGAAG-AAAGC
* * * * * **
50422573 AA-TCCTATCTCTCTGAAGTTGCAATGGAGCGAATTGAAGTTA-C
1 AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTGAAGAAAGC
* * *
50422616 AAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGAAAAC
1 AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTGAAGAAAGC
* * * * ** *
50422661 AAGTATTATCCCCCTGAAGTTGCAGTAGG-GTAGACTGAAGATGGT
1 AAGTCTTATCTCCCTGAAGTTGCAGT-GGAGCAAACTGAAGAAAGC
* * * * * * * *
50422706 AAATCTTATCTCCCTGAAGTTGTAGTAGAGCAGATTAAAGCCAA-T
1 AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTGAAG-AAAGC
* *** * * * * **
50422751 AA-TCCTATCTTTTTGAGGTTGCAGTGGAGCAGATTAAAGTTA-C
1 AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTGAAGAAAGC
* * * * ** *
50422794 AAGTCTTATTTCTCTAAAGTTGTAGTGGAGCAGTCTGAAGATAGC
1 AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTGAAGAAAGC
* * * * * * * * * * *
50422839 GATTCTTATTTCCCTGAAATTACAGTGAAACAGATTAAAGCTATAAATC
1 AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTGAAG----AAAGC
* * * * *
50422888 ACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGA-TCATG---GC
1 A-AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTGAAGAAAGC
* * * * * * *
50422931 AAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCAA-T
1 AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTGAAG-AAAGC
* *
50422976 AA-TCTTATCTCCCTGAAGTTGCAGTAGAGCAAACTGAAGATAGC
1 AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTGAAGAAAGC
*
50423020 GAA-TCTTATCTCCCTAAAGTTGCAGT
1 -AAGTCTTATCTCCCTGAAGTTGCAGT
50423046 AGAACAGATT
Statistics
Matches: 464, Mismatches: 123, Indels: 42
0.74 0.20 0.07
Matches are distributed among these distances:
41 28 0.06
42 4 0.01
43 9 0.02
44 154 0.33
45 236 0.51
46 2 0.00
49 3 0.01
50 4 0.01
51 24 0.05
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (45 bp):
AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTGAAGAAAGC
Found at i:50422739 original size:178 final size:177
Alignment explanation
Indices: 50422399--50423051 Score: 580
Period size: 178 Copynumber: 3.6 Consensus size: 177
50422389 GCGGAAGTCT
* * ** * *
50422399 TATCTCCCTGAAGTTGCAGTGGAGCAAACTGAAGAAAGCAAGTCTTATCCCCCTGAAGTTATAGT
1 TATCTCTCTGAAGTTGCAGTGGAGC-AATTGAAGTTA-CAAGTCTTATCTCCCTGAAGTTGTAGT
* * *
50422464 GAAGCATACTGAAGAAAGCAACTATTATCCCCCTGAAGTTGCAGTGGAACAAACTGAAGATGGCA
64 GGAGCAGACTGAAGAAAACAACTATTATCCCCCTGAAGTTGCAGTGGAACAAACTGAAGATGGCA
*
50422529 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCC
129 AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCCAATAATCC
* *
50422578 TATCTCTCTGAAGTTGCAATGGAGCGAATTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTG
1 TATCTCTCTGAAGTTGCAGTGGAGC-AATTGAAGTTACAAGTCTTATCTCCCTGAAGTTGTAGTG
* * ** * *
50422643 GAGTAGACTGAAGAAAACAAGTATTATCCCCCTGAAGTTGCAGTAGG-GTAGACTGAAGATGGTA
65 GAGCAGACTGAAGAAAACAACTATTATCCCCCTGAAGTTGCAGT-GGAACAAACTGAAGATGGCA
*
50422707 AATCTTATCTCCCTGAAGTTGTAGTAGAGCAGATTAAAGCCAATAATCC
129 AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCCAATAATCC
* * * * * * *
50422756 TATCTTTTTGAGGTTGCAGTGGAGCAGATTAAAGTTACAAGTCTTATTTCTCTAAAGTTGTAGTG
1 TATCTCTCTGAAGTTGCAGTGGAGCA-ATTGAAGTTACAAGTCTTATCTCCCTGAAGTTGTAGTG
* * * * * * ** * * * * * * *
50422821 GAGCAGTCTGAAGATAGCGATTCTTATTTCCCTGAAATTACAGTGAAACAGATTAAAGCTATAAA
65 GAGCAGACTGAAGAAAACAACTATTATCCCCCTGAAGTTGCAGTGGAACAAACTGAAG--AT--G
* * * * * *
50422886 TCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGA-TCATGGC-A-AATCT
126 GCA-A-ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCCAATAATCC
* * * ** * *
50422937 TATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCA-ATAATCTTATCTCCCTGAAGTTGCAGT
1 TATCTCTCTGAAGTTGCAGTGGAGCA-ATTGAAGTTACA-AGTCTTATCTCCCTGAAGTTGTAGT
* * * * * * * *
50423001 AGAGCAAACTGAAGATAGCGAA-TCTTATCTCCCTAAAGTTGCAGTAGAACA
64 GGAGCAGACTGAAGAAAAC-AACTATTATCCCCCTGAAGTTGCAGTGGAACA
50423052 GATTGAAGCT
Statistics
Matches: 387, Mismatches: 76, Indels: 20
0.80 0.16 0.04
Matches are distributed among these distances:
177 2 0.01
178 218 0.56
179 33 0.09
180 3 0.01
181 93 0.24
182 3 0.01
183 5 0.01
184 30 0.08
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.28
Consensus pattern (177 bp):
TATCTCTCTGAAGTTGCAGTGGAGCAATTGAAGTTACAAGTCTTATCTCCCTGAAGTTGTAGTGG
AGCAGACTGAAGAAAACAACTATTATCCCCCTGAAGTTGCAGTGGAACAAACTGAAGATGGCAAA
TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCCAATAATCC
Found at i:50423059 original size:45 final size:44
Alignment explanation
Indices: 50422892--50423059 Score: 171
Period size: 44 Copynumber: 3.9 Consensus size: 44
50422882 TAAATCACAG
* * * * *
50422892 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGA-TCATGGC-A-A
1 ATCTTATCTCCCTAAAGTTGCAGTAGAGCAGATTGAAGACAAGA
* * * *
50422933 ATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCAATA
1 ATCTTATCTCCCTAAAGTTGCAGTAGAGCAGATTGAAGACAAGA
* * * * *
50422977 ATCTTATCTCCCTGAAGTTGCAGTAGAGCAAACTGAAGATAGCGA
1 ATCTTATCTCCCTAAAGTTGCAGTAGAGCAGATTGAAGACA-AGA
*
50423022 ATCTTATCTCCCTAAAGTTGCAGTAGAACAGATTGAAG
1 ATCTTATCTCCCTAAAGTTGCAGTAGAGCAGATTGAAG
50423060 CTACAAATCC
Statistics
Matches: 104, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
41 29 0.28
42 4 0.04
43 1 0.01
44 35 0.34
45 35 0.34
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (44 bp):
ATCTTATCTCCCTAAAGTTGCAGTAGAGCAGATTGAAGACAAGA
Found at i:50423115 original size:90 final size:89
Alignment explanation
Indices: 50422930--50423116 Score: 234
Period size: 89 Copynumber: 2.1 Consensus size: 89
50422920 CAGATCATGG
* * *
50422930 CAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCTTATCTCCCTGAAGT
1 CAAATCTTATCTCCCTAAAGTTGCAGTAGAACAGATTAAAGCCAATAATCTTACCTCCCTGAAGT
*
50422995 TGCAGTAGAGCAAACTGAAGATAG
66 TGCAGTAGAGCAAACTGAAGATAA
* * * *
50423019 CGAATCTTATCTCCCTAAAGTTGCAGTAGAACAGATTGAAGCTACA-AATCCTTGCCTCCCTG-A
1 CAAATCTTATCTCCCTAAAGTTGCAGTAGAACAGATTAAAGCCA-ATAAT-CTTACCTCCCTGAA
* * *
50423082 GTTTGCAGTGGAGCATATTGAAGATAA
64 G-TTGCAGTAGAGCAAACTGAAGATAA
50423109 CAAATCTT
1 CAAATCTT
50423117 GTCTTCTTGT
Statistics
Matches: 83, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
89 44 0.53
90 39 0.47
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (89 bp):
CAAATCTTATCTCCCTAAAGTTGCAGTAGAACAGATTAAAGCCAATAATCTTACCTCCCTGAAGT
TGCAGTAGAGCAAACTGAAGATAA
Found at i:50423430 original size:132 final size:132
Alignment explanation
Indices: 50423265--50423678 Score: 600
Period size: 131 Copynumber: 3.1 Consensus size: 132
50423255 TCTGAGTTTA
* *
50423265 CAGTGGAGTAGGTTGAAGATTGTAGATTCTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACG
1 CAGTGGAGTAGGTTGAAAATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACG
* *
50423330 GCGAATCTTATCCTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTGAGT
66 GCGAATCTTATCTTCCCGAGGTAGTAGGGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTGAGT
50423395 AG
131 AG
* * * * *
50423397 CAGTGGAGTAGGTTGAAAATTGTAGATCCTGTCTCCTTAAGCAATAGTGAATCAGATCGAAGACG
1 CAGTGGAGTAGGTTGAAAATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACG
* * *
50423462 GCGAATCTTATCTTCCCGAGATAGT-GGGAAGCAGATTTAAGCCACCAGTTCTATCTCCCTGAGC
66 GCGAATCTTATCTTCCCGAGGTAGTAGGGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTGAGT
50423526 AG
131 AG
* * *
50423528 TAGTGGAGTAGGTTGAAGATTGTATATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACG
1 CAGTGGAGTAGGTTGAAAATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACG
* * * *
50423593 GCGAGTCTTATCTTCCCGAGGAAGTAGAGAAGCAGATTTAAGCCACCA-ACCTTATCTCCCTGAA
66 GCGAATCTTATCTTCCCGAGGTAGTAGGGAAGCAGATTTAAGCCACCAGTCC-TATCTCCCTG-A
50423657 GTTA-
129 G-TAG
*
50423661 CAGTGGAGCAGGTTGAAA
1 CAGTGGAGTAGGTTGAAA
50423679 TTACCAATTC
Statistics
Matches: 248, Mismatches: 30, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
131 119 0.48
132 111 0.45
133 17 0.07
134 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (132 bp):
CAGTGGAGTAGGTTGAAAATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACG
GCGAATCTTATCTTCCCGAGGTAGTAGGGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTGAGT
AG
Found at i:50424143 original size:22 final size:23
Alignment explanation
Indices: 50424115--50424159 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
50424105 ATTCAATCTT
50424115 AGATATGA-AATGCAATCTTAGA
1 AGATATGATAATGCAATCTTAGA
**
50424137 AGATATGATTTTGCAATCTTAGA
1 AGATATGATAATGCAATCTTAGA
50424160 GATTTAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.40, C:0.09, G:0.18, T:0.33
Consensus pattern (23 bp):
AGATATGATAATGCAATCTTAGA
Found at i:50424171 original size:23 final size:23
Alignment explanation
Indices: 50424125--50424170 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
50424115 AGATATGAAA
*
50424125 TGCAATCTTAGAAGATATGATTT
1 TGCAATCTTAGAAGATATAATTT
*
50424148 TGCAATCTTAG-AGATTTAATTT
1 TGCAATCTTAGAAGATATAATTT
50424170 T
1 T
50424171 TAGGTACCCT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.33, C:0.09, G:0.15, T:0.43
Consensus pattern (23 bp):
TGCAATCTTAGAAGATATAATTT
Found at i:50426827 original size:70 final size:70
Alignment explanation
Indices: 50426714--50426854 Score: 282
Period size: 70 Copynumber: 2.0 Consensus size: 70
50426704 AATCAAGATT
50426714 TCTAAGGTCGATGATAGGATTCACCTTTTCATACGTGACATGATTAAATACTTTACTATTGTTAA
1 TCTAAGGTCGATGATAGGATTCACCTTTTCATACGTGACATGATTAAATACTTTACTATTGTTAA
50426779 ATTTC
66 ATTTC
50426784 TCTAAGGTCGATGATAGGATTCACCTTTTCATACGTGACATGATTAAATACTTTACTATTGTTAA
1 TCTAAGGTCGATGATAGGATTCACCTTTTCATACGTGACATGATTAAATACTTTACTATTGTTAA
50426849 ATTTC
66 ATTTC
50426854 T
1 T
50426855 TTGTTTACTT
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
70 71 1.00
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.40
Consensus pattern (70 bp):
TCTAAGGTCGATGATAGGATTCACCTTTTCATACGTGACATGATTAAATACTTTACTATTGTTAA
ATTTC
Found at i:50429308 original size:9 final size:9
Alignment explanation
Indices: 50429294--50429318 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
50429284 AATCTTGTTG
50429294 TGTTGTTAT
1 TGTTGTTAT
50429303 TGTTGTTAT
1 TGTTGTTAT
50429312 TGTTGTT
1 TGTTGTT
50429319 TACTTGGACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.08, C:0.00, G:0.24, T:0.68
Consensus pattern (9 bp):
TGTTGTTAT
Found at i:50429498 original size:21 final size:21
Alignment explanation
Indices: 50429474--50429521 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
50429464 AAATATATTC
*
50429474 AATTCGATTCGAATCGAATCG
1 AATTCGATTCCAATCGAATCG
* * *
50429495 AATTCTATTCCACTCGACTCG
1 AATTCGATTCCAATCGAATCG
50429516 -ATTCGA
1 AATTCGA
50429522 AAAAATTTTA
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
20 5 0.23
21 17 0.77
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (21 bp):
AATTCGATTCCAATCGAATCG
Found at i:50429499 original size:26 final size:26
Alignment explanation
Indices: 50429470--50429522 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
50429460 GAACAAATAT
* *
50429470 ATTCAATTCGATTCGAATCGAATCGA
1 ATTCAATTCCACTCGAATCGAATCGA
* * *
50429496 ATTCTATTCCACTCGACTCGATTCGA
1 ATTCAATTCCACTCGAATCGAATCGA
50429522 A
1 A
50429523 AAAATTTTAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.30, C:0.25, G:0.13, T:0.32
Consensus pattern (26 bp):
ATTCAATTCCACTCGAATCGAATCGA
Found at i:50433318 original size:18 final size:18
Alignment explanation
Indices: 50433277--50433312 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
50433267 AGGCATTGAT
50433277 AGAGTGCGAGGACGATTC
1 AGAGTGCGAGGACGATTC
50433295 AGAGTGCGAGGACGATTC
1 AGAGTGCGAGGACGATTC
50433313 TAAGTGTGGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.17, G:0.39, T:0.17
Consensus pattern (18 bp):
AGAGTGCGAGGACGATTC
Found at i:50436000 original size:20 final size:20
Alignment explanation
Indices: 50435975--50436015 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
50435965 CAACAGTACA
50435975 ACTTGCTACTTATGATGACT
1 ACTTGCTACTTATGATGACT
50435995 ACTTGCTACTTATGATGACT
1 ACTTGCTACTTATGATGACT
50436015 A
1 A
50436016 TAAACAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.39
Consensus pattern (20 bp):
ACTTGCTACTTATGATGACT
Found at i:50439381 original size:18 final size:18
Alignment explanation
Indices: 50439353--50439397 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
50439343 CAATAATGTA
*
50439353 ATATATATGTGTATATAT
1 ATATGTATGTGTATATAT
* *
50439371 GTATGTATGTGTGTATAT
1 ATATGTATGTGTATATAT
50439389 ATATGTATG
1 ATATGTATG
50439398 CGCCTTATTC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.20, T:0.49
Consensus pattern (18 bp):
ATATGTATGTGTATATAT
Found at i:50445555 original size:20 final size:20
Alignment explanation
Indices: 50445530--50445578 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
50445520 TTCCCCTTGA
* *
50445530 ATTATTTTGTTTATAAGATT
1 ATTATTTTATTTATAAAATT
50445550 ATTATTTTATTTATAAAATT
1 ATTATTTTATTTATAAAATT
50445570 ATTATTTTA
1 ATTATTTTA
50445579 ATAAATAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (20 bp):
ATTATTTTATTTATAAAATT
Found at i:50445588 original size:20 final size:19
Alignment explanation
Indices: 50445542--50445589 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
50445532 TATTTTGTTT
**
50445542 ATAAGATTATTATTTTATTT
1 ATAA-ATTATTATTTTATAA
50445562 ATAAAATTATTATTTTAATAA
1 AT-AAATTATTATTTT-ATAA
50445583 ATAAATT
1 ATAAATT
50445590 TCATGTTAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 18 0.75
21 6 0.25
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (19 bp):
ATAAATTATTATTTTATAA
Found at i:50445725 original size:23 final size:25
Alignment explanation
Indices: 50445684--50445729 Score: 69
Period size: 23 Copynumber: 1.9 Consensus size: 25
50445674 ATTTTAATTG
50445684 AAAAATAAACTTTTAAAATTTTTTA
1 AAAAATAAACTTTTAAAATTTTTTA
*
50445709 AAAAATTAA-TTTT-AAATTTTT
1 AAAAATAAACTTTTAAAATTTTT
50445730 AAGAATCAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 8 0.40
24 4 0.20
25 8 0.40
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (25 bp):
AAAAATAAACTTTTAAAATTTTTTA
Found at i:50447963 original size:20 final size:19
Alignment explanation
Indices: 50447938--50448000 Score: 69
Period size: 20 Copynumber: 3.3 Consensus size: 19
50447928 ATTTAAGATA
50447938 AAAATATGATAAAACTAAT
1 AAAATATGATAAAACTAAT
*
50447957 AATAATA-AAT-AAA-TAAAT
1 AA-AATATGATAAAACT-AAT
50447975 AAAATATGATAAAACATAAT
1 AAAATATGATAAAAC-TAAT
50447995 AAAATA
1 AAAATA
50448001 AAGTTATCTT
Statistics
Matches: 36, Mismatches: 2, Indels: 11
0.73 0.04 0.22
Matches are distributed among these distances:
17 5 0.14
18 10 0.28
19 7 0.19
20 13 0.36
21 1 0.03
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.25
Consensus pattern (19 bp):
AAAATATGATAAAACTAAT
Found at i:50447986 original size:10 final size:10
Alignment explanation
Indices: 50447938--50448000 Score: 53
Period size: 10 Copynumber: 6.6 Consensus size: 10
50447928 ATTTAAGATA
*
50447938 AAAATATGAT
1 AAAATATAAT
*
50447948 AAAA-CTAAT
1 AAAATATAAT
50447957 AATAATA-AAT
1 AA-AATATAAT
50447967 -AAATA-AAT
1 AAAATATAAT
*
50447975 AAAATATGAT
1 AAAATATAAT
*
50447985 AAAACATAAT
1 AAAATATAAT
50447995 AAAATA
1 AAAATA
50448001 AAGTTATCTT
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
8 7 0.17
9 11 0.26
10 24 0.57
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.25
Consensus pattern (10 bp):
AAAATATAAT
Found at i:50452850 original size:13 final size:13
Alignment explanation
Indices: 50452834--50452876 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 13
50452824 GGCTTCCTTG
50452834 GCAAAACAGTAAA
1 GCAAAACAGTAAA
*
50452847 GCAAAGCAGTAAA
1 GCAAAACAGTAAA
50452860 GCAGTAAAGCAGTAAA
1 GCA--AAA-CAGTAAA
50452876 G
1 G
50452877 TAAAGAAGAG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 15 0.60
15 2 0.08
16 8 0.32
ACGTcount: A:0.53, C:0.14, G:0.23, T:0.09
Consensus pattern (13 bp):
GCAAAACAGTAAA
Found at i:50452862 original size:8 final size:8
Alignment explanation
Indices: 50452849--50452876 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
50452839 ACAGTAAAGC
50452849 AAAGCAGT
1 AAAGCAGT
50452857 AAAGCAGT
1 AAAGCAGT
50452865 AAAGCAGT
1 AAAGCAGT
50452873 AAAG
1 AAAG
50452877 TAAAGAAGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.54, C:0.11, G:0.25, T:0.11
Consensus pattern (8 bp):
AAAGCAGT
Found at i:50467672 original size:22 final size:21
Alignment explanation
Indices: 50467644--50467704 Score: 59
Period size: 24 Copynumber: 2.7 Consensus size: 21
50467634 TTTAGCTCAG
*
50467644 ATACAGAACAGATCAGTTACAT
1 ATACAGAACA-ATCAATTACAT
*
50467666 ATACAGAAGCAATTTCAATTTCAT
1 ATACAGAA-CAA--TCAATTACAT
50467690 ATACAGAACATATCA
1 ATACAGAACA-ATCA
50467705 TATCCATATG
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
22 12 0.36
23 4 0.12
24 17 0.52
ACGTcount: A:0.46, C:0.18, G:0.10, T:0.26
Consensus pattern (21 bp):
ATACAGAACAATCAATTACAT
Found at i:50468315 original size:42 final size:41
Alignment explanation
Indices: 50468202--50468316 Score: 131
Period size: 42 Copynumber: 2.8 Consensus size: 41
50468192 TTATTTATAT
*
50468202 GCCACACGGCCTGGACACACGCCCATGTACTTGCCCGTATG
1 GCCACACGGCCTGGACACACGCCCATGTCCTTGCCCGTATG
* * * * *
50468243 GCTTACACGACCTGGATACACGCCCGTGTCCTTGCCCGTGTG
1 GC-CACACGGCCTGGACACACGCCCATGTCCTTGCCCGTATG
* * *
50468285 AGCCACATGGCCTGGACGCACGCCTATGTCCT
1 -GCCACACGGCCTGGACACACGCCCATGTCCT
50468317 CTGCTCATGT
Statistics
Matches: 59, Mismatches: 13, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
41 2 0.03
42 55 0.93
43 2 0.03
ACGTcount: A:0.17, C:0.37, G:0.25, T:0.20
Consensus pattern (41 bp):
GCCACACGGCCTGGACACACGCCCATGTCCTTGCCCGTATG
Found at i:50473093 original size:78 final size:78
Alignment explanation
Indices: 50472964--50473577 Score: 331
Period size: 78 Copynumber: 7.7 Consensus size: 78
50472954 TCTACGCACC
* *
50472964 AACTTGTGGGGGAGTGTCGAGATTAAAAGAAATATGTTGTAACATTTGACCTTAACTAATTGATA
1 AACTTGTGGGGAAGTGTCGAGATTAGAAGAAATATGTTGTAACATTTGACCTTAACTAATTGATA
** *
50473029 TTAGGATCTAGTT
66 TTAAAATCCAGTT
* * *
50473042 AACTTGTGGGGAAGTGTCAATATTAGAAGAAATATGTTGTAATC-TTTGACCTTAAGTAATTGAT
1 AACTTGTGGGGAAGTGTCGAGATTAGAAGAAATATGTTGTAA-CATTTGACCTTAACTAATTGAT
50473106 ATTAAAATCCAGTT
65 ATTAAAATCCAGTT
* * ** * * *
50473120 AATTTGTGGGGGAA-TGTCGAGATTAGAAGAAGTCGA-GATTAAAAGAAATATG--TTGTAATCT
1 AACTTGT-GGGGAAGTGTCGAGATTAGAAGAAAT--ATG-TT-GTA-ACATTTGACCT-TAA-CT
** * ** *
50473181 --TTGACCTTAGGTAATTGATATT
58 AATTGATATTA--AAATCCA-GTT
** * *** * * *
50473203 AAAATCCAGTTAGCTTA-TG-GGGGAGTGTAGAGATTAAAAGAAATATGTTGAAATC-TTTGACC
1 --AA-CTTG-TGGGGAAGTGTCGAGA-T-T--AG-----AAGAAATATGTTGTAA-CATTTGACC
* ** *
50473265 TTAAGTAATTGATATTAGGATCTAGTT
52 TTAACTAATTGATATTAAAATCCAGTT
* * *
50473292 AACTTGTGGGGGAGTGTCGAGATTAGAAGAAATTTGTTGTAATC-TTTGACCTTAAGTAATTGAT
1 AACTTGTGGGGAAGTGTCGAGATTAGAAGAAATATGTTGTAA-CATTTGACCTTAACTAATTGAT
* * *
50473356 TTTAAGATCCAATT
65 ATTAAAATCCAGTT
* * *
50473370 AACTTGTGGGGGAGTGTCGAGATTAGAAGAAATATGTTATAATC-TTTGACCTTAATTAATTGAT
1 AACTTGTGGGGAAGTGTCGAGATTAGAAGAAATATGTTGTAA-CATTTGACCTTAACTAATTGAT
*
50473434 ATTAAAATCCAATT
65 ATTAAAATCCAGTT
* * * * * * *
50473448 AGCTTAT-GGGAGAGTATCGAGATTAAAAGAAATATGTTGTAATATTTGACCTTAAGTAATTTAT
1 AACTTGTGGGGA-AGTGTCGAGATTAGAAGAAATATGTTGTAACATTTGACCTTAACTAATTGAT
** *
50473512 ATTAGGATCCAATT
65 ATTAAAATCCAGTT
* * **
50473526 AACTTGTGGGGGAA-TGTCGAGATTA-AAAAAAAATGTTGTATTATTTGACCTT
1 AACTTGT-GGGGAAGTGTCGAGATTAGAAGAAATATGTTGTAACATTTGACCTT
50473578 TAAGTATTTG
Statistics
Matches: 416, Mismatches: 82, Indels: 77
0.72 0.14 0.13
Matches are distributed among these distances:
77 27 0.06
78 286 0.69
79 9 0.02
80 15 0.04
81 4 0.01
82 9 0.02
83 4 0.01
85 9 0.02
86 11 0.03
87 7 0.02
89 4 0.01
90 8 0.02
91 5 0.01
92 11 0.03
93 1 0.00
94 6 0.01
ACGTcount: A:0.35, C:0.08, G:0.22, T:0.35
Consensus pattern (78 bp):
AACTTGTGGGGAAGTGTCGAGATTAGAAGAAATATGTTGTAACATTTGACCTTAACTAATTGATA
TTAAAATCCAGTT
Found at i:50473156 original size:16 final size:16
Alignment explanation
Indices: 50473135--50473166 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
50473125 GTGGGGGAAT
*
50473135 GTCGAGATTAGAAGAA
1 GTCGAGATTAAAAGAA
50473151 GTCGAGATTAAAAGAA
1 GTCGAGATTAAAAGAA
50473167 ATATGTTGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.06, G:0.28, T:0.19
Consensus pattern (16 bp):
GTCGAGATTAAAAGAA
Found at i:50473236 original size:94 final size:94
Alignment explanation
Indices: 50473063--50473244 Score: 292
Period size: 94 Copynumber: 1.9 Consensus size: 94
50473053 AAGTGTCAAT
* * *
50473063 ATTAGAAGAAATATGTTGTAATCTTTGACCTTAAGTAATTGATATTAAAATCCAGTTAATTTGTG
1 ATTAAAAGAAATATGTTGTAATCTTTGACCTTAAGTAATTGATATTAAAATCCAGTTAACTTATG
* *
50473128 GGGGAATGTCGAGATTAGAAGAAGTCGAG
66 GGGGAATGTAGAGATTAAAAGAAGTCGAG
* *
50473157 ATTAAAAGAAATATGTTGTAATCTTTGACCTTAGGTAATTGATATTAAAATCCAGTTAGCTTATG
1 ATTAAAAGAAATATGTTGTAATCTTTGACCTTAAGTAATTGATATTAAAATCCAGTTAACTTATG
*
50473222 GGGGAGTGTAGAGATTAAAAGAA
66 GGGGAATGTAGAGATTAAAAGAA
50473245 ATATGTTGAA
Statistics
Matches: 80, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
94 80 1.00
ACGTcount: A:0.37, C:0.07, G:0.23, T:0.33
Consensus pattern (94 bp):
ATTAAAAGAAATATGTTGTAATCTTTGACCTTAAGTAATTGATATTAAAATCCAGTTAACTTATG
GGGGAATGTAGAGATTAAAAGAAGTCGAG
Found at i:50473265 original size:172 final size:171
Alignment explanation
Indices: 50472979--50473589 Score: 624
Period size: 156 Copynumber: 3.7 Consensus size: 171
50472969 GTGGGGGAGT
* * *
50472979 GTCGAGATTAAAAGAAATATGTTGTAA-CATTTGACCTTAACTAATTGATATTAGGATCTAGTTA
1 GTCGAGATTAAAAGAAATATGTTGTAATC-TTTGACCTTAAGTAATTGATATTAAGATCCAGTTA
* * *
50473043 ACTTGTGGGGAAGTGTCA-ATATTAGAAGAAATATGTTGTAATCTTTGACCTTAAGTAATTGATA
65 ACTTGTGGGGGAGTGT-AGAGATTAGAAGAAATATGTTGAAATCTTTGACCTTAAGTAATTGATA
*
50473107 TTAAAATCCAGTTAATTTGTGGGGGAATGTCGAGATTAGAAGAA
129 TTAAAATCCAGTTAACTTGTGGGGGAATGTCGAGATTAGAAG-A
* * *
50473151 GTCGAGATTAAAAGAAATATGTTGTAATCTTTGACCTTAGGTAATTGATATTAAAATCCAGTTAG
1 GTCGAGATTAAAAGAAATATGTTGTAATCTTTGACCTTAAGTAATTGATATTAAGATCCAGTTAA
* *
50473216 CTTATGGGGGAGTGTAGAGATTAAAAGAAATATGTTGAAATCTTTGACCTTAAGTAATTGATATT
66 CTTGTGGGGGAGTGTAGAGATTAGAAGAAATATGTTGAAATCTTTGACCTTAAGTAATTGATATT
** * *
50473281 AGGATCTAGTTAACTTGTGGGGGAGTGTCGAGATTAGAAGA
131 AAAATCCAGTTAACTTGTGGGGGAATGTCGAGATTAGAAGA
* *
50473322 ----A-A-T--------T-TGTTGTAATCTTTGACCTTAAGTAATTGATTTTAAGATCCAATTAA
1 GTCGAGATTAAAAGAAATATGTTGTAATCTTTGACCTTAAGTAATTGATATTAAGATCCAGTTAA
* *
50473372 CTTGTGGGGGAGTGTCGAGATTAGAAGAAATATGTT-ATAATCTTTGACCTTAATTAATTGATAT
66 CTTGTGGGGGAGTGTAGAGATTAGAAGAAATATGTTGA-AATCTTTGACCTTAAGTAATTGATAT
* * *
50473436 TAAAATCCAATTAGCTTAT--GGG-A----GAG--T-----A
130 TAAAATCCAGTTAACTTGTGGGGGAATGTCGAGATTAGAAGA
* * * *
50473464 -TCGAGATTAAAAGAAATATGTTGTAATATTTGACCTTAAGTAATTTATATTAGGATCCAATTAA
1 GTCGAGATTAAAAGAAATATGTTGTAATCTTTGACCTTAAGTAATTGATATTAAGATCCAGTTAA
* * * * * * * *
50473528 CTTGTGGGGGAATGTCGAGATTA-AAAAAAAATGTTGTATTATTTGACCTTTAAGTATTTGAT
66 CTTGTGGGGGAGTGTAGAGATTAGAAGAAATATGTTGAAATCTTTGACC-TTAAGTAATTGAT
50473590 CTAGTTAACT
Statistics
Matches: 376, Mismatches: 44, Indels: 54
0.79 0.09 0.11
Matches are distributed among these distances:
142 1 0.00
145 1 0.00
146 1 0.00
147 2 0.01
149 3 0.01
154 3 0.01
155 21 0.06
156 187 0.50
157 1 0.00
165 1 0.00
166 1 0.00
167 1 0.00
171 2 0.01
172 150 0.40
173 1 0.00
ACGTcount: A:0.35, C:0.08, G:0.21, T:0.36
Consensus pattern (171 bp):
GTCGAGATTAAAAGAAATATGTTGTAATCTTTGACCTTAAGTAATTGATATTAAGATCCAGTTAA
CTTGTGGGGGAGTGTAGAGATTAGAAGAAATATGTTGAAATCTTTGACCTTAAGTAATTGATATT
AAAATCCAGTTAACTTGTGGGGGAATGTCGAGATTAGAAGA
Found at i:50473581 original size:78 final size:78
Alignment explanation
Indices: 50473151--50473589 Score: 601
Period size: 78 Copynumber: 5.6 Consensus size: 78
50473141 ATTAGAAGAA
* * * *
50473151 GTCGAGATTAAAAGAAATATGTTGTAATCTTTGACCTTAGGTAATTGATATTAAAATCCAGTTAG
1 GTCGAGATTAAAAGAAATATGTTGTAATCTTTGACCTTAAGTAATTGATATTAAGATCCAATTAA
*
50473216 CTTATGGGGGAGT
66 CTTGTGGGGGAGT
* * * * *
50473229 GTAGAGATTAAAAGAAATATGTTGAAATCTTTGACCTTAAGTAATTGATATTAGGATCTAGTTAA
1 GTCGAGATTAAAAGAAATATGTTGTAATCTTTGACCTTAAGTAATTGATATTAAGATCCAATTAA
50473294 CTTGTGGGGGAGT
66 CTTGTGGGGGAGT
* * *
50473307 GTCGAGATTAGAAGAAATTTGTTGTAATCTTTGACCTTAAGTAATTGATTTTAAGATCCAATTAA
1 GTCGAGATTAAAAGAAATATGTTGTAATCTTTGACCTTAAGTAATTGATATTAAGATCCAATTAA
50473372 CTTGTGGGGGAGT
66 CTTGTGGGGGAGT
* * * * *
50473385 GTCGAGATTAGAAGAAATATGTTATAATCTTTGACCTTAATTAATTGATATTAAAATCCAATTAG
1 GTCGAGATTAAAAGAAATATGTTGTAATCTTTGACCTTAAGTAATTGATATTAAGATCCAATTAA
* *
50473450 CTTATGGGAGAGT
66 CTTGTGGGGGAGT
* * * *
50473463 ATCGAGATTAAAAGAAATATGTTGTAATATTTGACCTTAAGTAATTTATATTAGGATCCAATTAA
1 GTCGAGATTAAAAGAAATATGTTGTAATCTTTGACCTTAAGTAATTGATATTAAGATCCAATTAA
*
50473528 CTTGTGGGGGAAT
66 CTTGTGGGGGAGT
* * * *
50473541 GTCGAGATTAAAA-AAAAATGTTGTATTATTTGACCTTTAAGTATTTGAT
1 GTCGAGATTAAAAGAAATATGTTGTAATCTTTGACC-TTAAGTAATTGAT
50473590 CTAGTTAACT
Statistics
Matches: 319, Mismatches: 41, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
77 20 0.06
78 299 0.94
ACGTcount: A:0.35, C:0.08, G:0.21, T:0.36
Consensus pattern (78 bp):
GTCGAGATTAAAAGAAATATGTTGTAATCTTTGACCTTAAGTAATTGATATTAAGATCCAATTAA
CTTGTGGGGGAGT
Found at i:50473583 original size:234 final size:234
Alignment explanation
Indices: 50473151--50473589 Score: 682
Period size: 234 Copynumber: 1.9 Consensus size: 234
50473141 ATTAGAAGAA
* * *
50473151 GTCGAGATTAAAAGAAATATGTTGTAATCTTTGACCTTAGGTAATTGATATTAAAATCCAGTTAG
1 GTCGAGATTAAAAGAAATATGTTATAATCTTTGACCTTAAGTAATTGATATTAAAATCCAATTAG
* * *
50473216 CTTATGGGGGAGTGTAGAGATTAAAAGAAATATGTTGAAATCTTTGACCTTAAGTAATTGATATT
66 CTTATGGGAGAGTATAGAGATTAAAAGAAATATGTTGAAATATTTGACCTTAAGTAATTGATATT
* * * * ** *
50473281 AGGATCTAGTTAACTTGTGGGGGAGTGTCGAGATTAGAAGAAATTTGTTGTAATCTTTGACCTTA
131 AGGATCCAATTAACTTGTGGGGGAATGTCGAGATTAGAAAAAAAATGTTGTAATATTTGACCTTA
50473346 AGTAATTGATTTTAAGATCCAATTAACTTGTGGGGGAGT
196 AGTAATTGATTTTAAGATCCAATTAACTTGTGGGGGAGT
* *
50473385 GTCGAGATTAGAAGAAATATGTTATAATCTTTGACCTTAATTAATTGATATTAAAATCCAATTAG
1 GTCGAGATTAAAAGAAATATGTTATAATCTTTGACCTTAAGTAATTGATATTAAAATCCAATTAG
* * *
50473450 CTTATGGGAGAGTATCGAGATTAAAAGAAATATGTTGTAATATTTGACCTTAAGTAATTTATATT
66 CTTATGGGAGAGTATAGAGATTAAAAGAAATATGTTGAAATATTTGACCTTAAGTAATTGATATT
*
50473515 AGGATCCAATTAACTTGTGGGGGAATGTCGAGATTA-AAAAAAAATGTTGTATTATTTGACCTTT
131 AGGATCCAATTAACTTGTGGGGGAATGTCGAGATTAGAAAAAAAATGTTGTAATATTTGACC-TT
*
50473579 AAGTATTTGAT
195 AAGTAATTGAT
50473590 CTAGTTAACT
Statistics
Matches: 184, Mismatches: 20, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
233 20 0.11
234 164 0.89
ACGTcount: A:0.35, C:0.08, G:0.21, T:0.36
Consensus pattern (234 bp):
GTCGAGATTAAAAGAAATATGTTATAATCTTTGACCTTAAGTAATTGATATTAAAATCCAATTAG
CTTATGGGAGAGTATAGAGATTAAAAGAAATATGTTGAAATATTTGACCTTAAGTAATTGATATT
AGGATCCAATTAACTTGTGGGGGAATGTCGAGATTAGAAAAAAAATGTTGTAATATTTGACCTTA
AGTAATTGATTTTAAGATCCAATTAACTTGTGGGGGAGT
Found at i:50478124 original size:18 final size:18
Alignment explanation
Indices: 50478086--50478124 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
50478076 TCCCTCACAG
* *
50478086 TTTCTTTTTCTTTTTTAT
1 TTTCCTTTTCTTCTTTAT
*
50478104 TTTCCTTTTCTTCTTTCT
1 TTTCCTTTTCTTCTTTAT
50478122 TTT
1 TTT
50478125 GGCATCGTTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTCCTTTTCTTCTTTAT
Found at i:50492309 original size:14 final size:14
Alignment explanation
Indices: 50492292--50492344 Score: 70
Period size: 14 Copynumber: 3.6 Consensus size: 14
50492282 AAAATAAAAA
50492292 TTAAAAAAAGTATT
1 TTAAAAAAAGTATT
**
50492306 TTAAATTAAAAAAATT
1 TTAAA--AAAAGTATT
50492322 TTAAAAAAAGTATT
1 TTAAAAAAAGTATT
50492336 TTAAAAAAA
1 TTAAAAAAA
50492345 TTTAAACAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
14 21 0.64
16 12 0.36
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (14 bp):
TTAAAAAAAGTATT
Found at i:50492327 original size:11 final size:11
Alignment explanation
Indices: 50492311--50492363 Score: 54
Period size: 12 Copynumber: 4.5 Consensus size: 11
50492301 GTATTTTAAA
50492311 TTAAAAAAATT
1 TTAAAAAAATT
50492322 TTAAAAAAAGTATT
1 TT-AAAAAA--ATT
50492336 TTAAAAAAA-T
1 TTAAAAAAATT
*
50492346 TTAAACAAAAAT
1 TTAAA-AAAATT
50492358 TTAAAA
1 TTAAAA
50492364 TTAAAAAAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
10 6 0.16
11 8 0.22
12 12 0.32
13 6 0.16
14 5 0.14
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (11 bp):
TTAAAAAAATT
Found at i:50492328 original size:30 final size:29
Alignment explanation
Indices: 50492277--50492412 Score: 133
Period size: 30 Copynumber: 4.8 Consensus size: 29
50492267 TTTATTTTAA
*
50492277 AAATTAAAATAAAAATTAAAAAAAGTATTTT
1 AAATT-AAA-AAAATTTAAAAAAAGTATTTT
50492308 AAATTAAAAAAATTTTAAAAAAAGTA--TT
1 AAATTAAAAAAA-TTTAAAAAAAGTATTTT
*
50492336 ---TTAAAAAAATTTAAACAAAA--ATTTA
1 AAATTAAAAAAATTTAAA-AAAAGTATTTT
*
50492361 AAATTAAAAAAATTAAAAAAAAGTATTTT
1 AAATTAAAAAAATTTAAAAAAAGTATTTT
**
50492390 AAAATTAAAAACTTTTAAAAAAA
1 -AAATTAAAAAAATTTAAAAAAA
50492413 TAAAAATATT
Statistics
Matches: 88, Mismatches: 7, Indels: 21
0.76 0.06 0.18
Matches are distributed among these distances:
23 1 0.01
24 6 0.07
25 14 0.16
27 4 0.05
28 16 0.18
29 8 0.09
30 34 0.39
31 5 0.06
ACGTcount: A:0.65, C:0.01, G:0.02, T:0.31
Consensus pattern (29 bp):
AAATTAAAAAAATTTAAAAAAAGTATTTT
Found at i:50492330 original size:12 final size:11
Alignment explanation
Indices: 50492311--50492363 Score: 61
Period size: 11 Copynumber: 4.5 Consensus size: 11
50492301 GTATTTTAAA
*
50492311 TTAAAAAAATT
1 TTAAAAAAAAT
50492322 TTAAAAAAAGTAT
1 TTAAAAAAA--AT
*
50492335 TTTAAAAAAAT
1 TTAAAAAAAAT
50492346 TTAAACAAAAAT
1 TTAAA-AAAAAT
50492358 TTAAAA
1 TTAAAA
50492364 TTAAAAAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
11 16 0.44
12 11 0.31
13 9 0.25
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (11 bp):
TTAAAAAAAAT
Found at i:50492344 original size:53 final size:52
Alignment explanation
Indices: 50492287--50492393 Score: 155
Period size: 53 Copynumber: 2.0 Consensus size: 52
50492277 AAATTAAAAT
* *
50492287 AAAAA-TTAAA-AAAAGTATTTTAAATTAAAAAAATTTTAAAAAAAGTATTTTAA
1 AAAAATTTAAACAAAA--ATTTAAAATTAAAAAAA-TTAAAAAAAAGTATTTTAA
50492340 AAAAATTTAAACAAAAATTTAAAATTAAAAAAATTAAAAAAAAGTATTTTAA
1 AAAAATTTAAACAAAAATTTAAAATTAAAAAAATTAAAAAAAAGTATTTTAA
50492392 AA
1 AA
50492394 TTAAAAACTT
Statistics
Matches: 50, Mismatches: 2, Indels: 5
0.88 0.04 0.09
Matches are distributed among these distances:
52 20 0.40
53 21 0.42
54 5 0.10
55 4 0.08
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.31
Consensus pattern (52 bp):
AAAAATTTAAACAAAAATTTAAAATTAAAAAAATTAAAAAAAAGTATTTTAA
Found at i:50494940 original size:12 final size:12
Alignment explanation
Indices: 50494925--50495003 Score: 56
Period size: 12 Copynumber: 6.7 Consensus size: 12
50494915 GAAATGATTA
*
50494925 AAAACTTGATGG
1 AAAACTTGATAG
* *
50494937 AAAATTTTAT-G
1 AAAACTTGATAG
50494948 AAAGACTTGAT-G
1 AAA-ACTTGATAG
* *
50494960 AAAAACTT-AAAA
1 -AAAACTTGATAG
* *
50494972 AAAACTTGCTAC
1 AAAACTTGATAG
50494984 AAAACTTGATAG
1 AAAACTTGATAG
50494996 AAAACTTG
1 AAAACTTG
50495004 GTAATTAAAA
Statistics
Matches: 52, Mismatches: 11, Indels: 8
0.73 0.15 0.11
Matches are distributed among these distances:
11 12 0.23
12 37 0.71
13 3 0.06
ACGTcount: A:0.49, C:0.10, G:0.14, T:0.27
Consensus pattern (12 bp):
AAAACTTGATAG
Found at i:50494978 original size:23 final size:24
Alignment explanation
Indices: 50494924--50494979 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 24
50494914 CGAAATGATT
** **
50494924 AAAAACTTGATGGAAAATTTTATG
1 AAAAACTTGATGGAAAAACTTAAA
*
50494948 AAAGACTTGAT-GAAAAACTTAAA
1 AAAAACTTGATGGAAAAACTTAAA
50494971 AAAAACTTG
1 AAAAACTTG
50494980 CTACAAAACT
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
23 16 0.62
24 10 0.38
ACGTcount: A:0.52, C:0.07, G:0.14, T:0.27
Consensus pattern (24 bp):
AAAAACTTGATGGAAAAACTTAAA
Found at i:50495057 original size:18 final size:18
Alignment explanation
Indices: 50495034--50495071 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
50495024 AGAATTAAAT
*
50495034 GAAAAATACTTGAA-GAAA
1 GAAAAACACTT-AATGAAA
50495052 GAAAAACACTTAATGAAA
1 GAAAAACACTTAATGAAA
50495070 GA
1 GA
50495072 CTTAATTGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 2 0.11
18 16 0.89
ACGTcount: A:0.61, C:0.08, G:0.16, T:0.16
Consensus pattern (18 bp):
GAAAAACACTTAATGAAA
Found at i:50504441 original size:17 final size:18
Alignment explanation
Indices: 50504421--50504461 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
50504411 ATAAACATAA
50504421 ATCATTCATTTCAT-TAT-
1 ATCATT-ATTTCATGTATC
*
50504438 ATCAATATTTCATGTATC
1 ATCATTATTTCATGTATC
50504456 ATCATT
1 ATCATT
50504462 TTTATGCATT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 7 0.35
17 8 0.40
18 5 0.25
ACGTcount: A:0.32, C:0.17, G:0.02, T:0.49
Consensus pattern (18 bp):
ATCATTATTTCATGTATC
Found at i:50504810 original size:25 final size:25
Alignment explanation
Indices: 50504780--50504850 Score: 74
Period size: 25 Copynumber: 2.9 Consensus size: 25
50504770 GCACTCTCTC
*
50504780 GAGCCATATAACAGGAAGCTCATGT
1 GAGCCATATAACAGGAAGCTCATCT
* * *
50504805 GAGCCATGTAGCAGGAAGCTTATCT
1 GAGCCATATAACAGGAAGCTCATCT
* *
50504830 G-GGC-TATAACAGGAAACTCAT
1 GAGCCATATAACAGGAAGCTCAT
50504851 AAGAGTTTAG
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
23 13 0.35
24 2 0.05
25 22 0.59
ACGTcount: A:0.34, C:0.20, G:0.25, T:0.21
Consensus pattern (25 bp):
GAGCCATATAACAGGAAGCTCATCT
Found at i:50504992 original size:26 final size:25
Alignment explanation
Indices: 50504897--50505000 Score: 72
Period size: 25 Copynumber: 4.2 Consensus size: 25
50504887 GGTAACTCTG
* * **
50504897 AAGAGCTAT-TATCAAGAAGCTCCG
1 AAGAGCCATATATCAGGAAGCTCAT
* * *
50504921 AATAGCCATATATTAGGAAGTTCA-
1 AAGAGCCATATATCAGGAAGCTCAT
*
50504945 AGTGAG-C-TATATCAGGAAGCTCAT
1 A-AGAGCCATATATCAGGAAGCTCAT
* *
50504969 AAAGAGCCATATATCGGGACGCTCAT
1 -AAGAGCCATATATCAGGAAGCTCAT
50504995 AAGAGC
1 AAGAGC
50505001 TACGGTATGT
Statistics
Matches: 61, Mismatches: 13, Indels: 11
0.72 0.15 0.13
Matches are distributed among these distances:
23 14 0.23
24 12 0.20
25 20 0.33
26 15 0.25
ACGTcount: A:0.38, C:0.18, G:0.22, T:0.22
Consensus pattern (25 bp):
AAGAGCCATATATCAGGAAGCTCAT
Found at i:50506827 original size:22 final size:24
Alignment explanation
Indices: 50506781--50506834 Score: 67
Period size: 22 Copynumber: 2.3 Consensus size: 24
50506771 ATATACTAAA
50506781 TAAAATAATAAATAAAATATCTCAT
1 TAAAATAATAAATAAAATA-CTCAT
*
50506806 TAAAATAAT-TATAAAATA-TCAT
1 TAAAATAATAAATAAAATACTCAT
*
50506828 CAAAATA
1 TAAAATA
50506835 TCTCTAATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
22 10 0.37
24 8 0.30
25 9 0.33
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.31
Consensus pattern (24 bp):
TAAAATAATAAATAAAATACTCAT
Found at i:50508710 original size:42 final size:42
Alignment explanation
Indices: 50508618--50508713 Score: 111
Period size: 42 Copynumber: 2.3 Consensus size: 42
50508608 TGTTAACTTA
* * ** *
50508618 TATGAGTTTCTGTTCAACCCTTATGGATTTCTGTTCAGCTCT
1 TATGAGCTTCTGTTCAACCCTTAAGGATTTCCATTCAGCTCC
* * * *
50508660 TTTAAGCTTCTGTTGAACCCTTAAGGGTTTCCATTCAGCTCC
1 TATGAGCTTCTGTTCAACCCTTAAGGATTTCCATTCAGCTCC
50508702 TATGAGCTTCTG
1 TATGAGCTTCTG
50508714 CTCAGCTCTT
Statistics
Matches: 43, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.18, C:0.23, G:0.18, T:0.42
Consensus pattern (42 bp):
TATGAGCTTCTGTTCAACCCTTAAGGATTTCCATTCAGCTCC
Found at i:50508720 original size:21 final size:21
Alignment explanation
Indices: 50508694--50508734 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
50508684 GGGTTTCCAT
50508694 TCAGCTCCTATGAGCTTCTGC
1 TCAGCTCCTATGAGCTTCTGC
* *
50508715 TCAGCTCTTTTGAGCTTCTG
1 TCAGCTCCTATGAGCTTCTG
50508735 TTTAATCCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.12, C:0.29, G:0.20, T:0.39
Consensus pattern (21 bp):
TCAGCTCCTATGAGCTTCTGC
Found at i:50508774 original size:63 final size:63
Alignment explanation
Indices: 50508646--50508776 Score: 165
Period size: 63 Copynumber: 2.1 Consensus size: 63
50508636 CCTTATGGAT
* *
50508646 TTCTGTTCAGCTCTTTTAAGCTTCTGTTGAACCCTTAAGGGTTTCCATTCAGCTCCTATGAGC
1 TTCTGCTCAGCTCTTTTAAGCTTCTGTTGAACCCTTAAGGGTTTCCATTCAGCACCTATGAGC
* * * * * * *
50508709 TTCTGCTCAGCTCTTTTGAGCTTCTGTTTAATCCTTATGGGTTTCTATTTAGCACTTAT-ATGC
1 TTCTGCTCAGCTCTTTTAAGCTTCTGTTGAACCCTTAAGGGTTTCCATTCAGCACCTATGA-GC
50508772 TTCTG
1 TTCTG
50508777 TGCAGCCTTC
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
62 1 0.02
63 57 0.98
ACGTcount: A:0.16, C:0.23, G:0.17, T:0.44
Consensus pattern (63 bp):
TTCTGCTCAGCTCTTTTAAGCTTCTGTTGAACCCTTAAGGGTTTCCATTCAGCACCTATGAGC
Found at i:50509720 original size:30 final size:30
Alignment explanation
Indices: 50509681--50509745 Score: 94
Period size: 30 Copynumber: 2.2 Consensus size: 30
50509671 ACGACCTAAG
* *
50509681 ACACAGGCGTATCTCTTTGCTGTGTGAGCC
1 ACACAGGCGTATCTCTTGGCCGTGTGAGCC
* *
50509711 ACACGGGCGTGTCTCTTGGCCGTGTGAGCC
1 ACACAGGCGTATCTCTTGGCCGTGTGAGCC
50509741 ACACA
1 ACACA
50509746 ACTTCGCCAC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.17, C:0.29, G:0.29, T:0.25
Consensus pattern (30 bp):
ACACAGGCGTATCTCTTGGCCGTGTGAGCC
Found at i:50511297 original size:32 final size:32
Alignment explanation
Indices: 50511235--50511302 Score: 84
Period size: 32 Copynumber: 2.1 Consensus size: 32
50511225 GATAAATTTC
50511235 TAATCAAACCTAATTTCTTCAAGGGATTGTAT
1 TAATCAAACCTAATTTCTTCAAGGGATTGTAT
* * * *
50511267 TAATCAATCCTATTTTTTTTAA-GGATTTGTAT
1 TAATCAAACCTAATTTCTTCAAGGGA-TTGTAT
50511299 TAAT
1 TAAT
50511303 ATTTTCTAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 3 0.10
32 28 0.90
ACGTcount: A:0.32, C:0.12, G:0.10, T:0.46
Consensus pattern (32 bp):
TAATCAAACCTAATTTCTTCAAGGGATTGTAT
Found at i:50515742 original size:40 final size:40
Alignment explanation
Indices: 50515664--50515738 Score: 113
Period size: 37 Copynumber: 2.0 Consensus size: 40
50515654 TAAACACCAA
50515664 AAAAATTATTTTAAATATAAAAAGAATAAAAAAGTATTTT
1 AAAAATTATTTTAAATATAAAAAGAATAAAAAAGTATTTT
*
50515704 AAAAA-TATTTTAAA-AT-TAAAGAATAAAAAA-TATTT
1 AAAAATTATTTTAAATATAAAAAGAATAAAAAAGTATTT
50515739 ATTTATTATA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
36 5 0.15
37 13 0.38
38 2 0.06
39 9 0.26
40 5 0.15
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (40 bp):
AAAAATTATTTTAAATATAAAAAGAATAAAAAAGTATTTT
Found at i:50518352 original size:2 final size:2
Alignment explanation
Indices: 50518345--50518371 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
50518335 CCCTTAATTT
50518345 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
50518372 TGCTTTGTTA
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:50519598 original size:14 final size:15
Alignment explanation
Indices: 50519579--50519611 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
50519569 ACTTACTAAA
*
50519579 GTATTTG-TTGAATT
1 GTATTTGTTTCAATT
50519593 GTATTTGTTTCAATT
1 GTATTTGTTTCAATT
50519608 GTAT
1 GTAT
50519612 GTTTATATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.21, C:0.03, G:0.18, T:0.58
Consensus pattern (15 bp):
GTATTTGTTTCAATT
Found at i:50520030 original size:28 final size:29
Alignment explanation
Indices: 50519965--50520031 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
50519955 TACGATATCC
50519965 ACTTCTGTGAGCAAATTCATAAAATGTCA
1 ACTTCTGTGAGCAAATTCATAAAATGTCA
** * *
50519994 GGTTCTGTGAGCAAATTTAT-AAATGTTA
1 ACTTCTGTGAGCAAATTCATAAAATGTCA
*
50520022 ACTTGTGTGA
1 ACTTCTGTGA
50520032 ACAACCCTGA
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
28 14 0.45
29 17 0.55
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.36
Consensus pattern (29 bp):
ACTTCTGTGAGCAAATTCATAAAATGTCA
Found at i:50525483 original size:19 final size:18
Alignment explanation
Indices: 50525447--50525496 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 18
50525437 GGTTCATATC
*
50525447 TTCAAATCTCATATATCAA
1 TTCAAAT-TCACATATCAA
50525466 TTTCAAATTCACATATCAA
1 -TTCAAATTCACATATCAA
50525485 TTCACAATTCAC
1 TTCA-AATTCAC
50525497 TTTCGCATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 4 0.14
19 17 0.61
20 7 0.25
ACGTcount: A:0.40, C:0.24, G:0.00, T:0.36
Consensus pattern (18 bp):
TTCAAATTCACATATCAA
Found at i:50530748 original size:41 final size:41
Alignment explanation
Indices: 50530691--50530796 Score: 185
Period size: 41 Copynumber: 2.6 Consensus size: 41
50530681 AATGAGATAA
* *
50530691 TTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAAATGT
1 TTCAGACTTTACGTCTAGCAGGCTTGACGCCGGTGAAATAT
50530732 TTCAGACTTTACGTCTAGCAGGCTTGACGCCGGTGAAATAT
1 TTCAGACTTTACGTCTAGCAGGCTTGACGCCGGTGAAATAT
*
50530773 TTCGGACTTTACGTCTAGCAGGCT
1 TTCAGACTTTACGTCTAGCAGGCT
50530797 AATTGCCAGT
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 62 1.00
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.31
Consensus pattern (41 bp):
TTCAGACTTTACGTCTAGCAGGCTTGACGCCGGTGAAATAT
Found at i:50533816 original size:57 final size:57
Alignment explanation
Indices: 50533755--50533896 Score: 189
Period size: 57 Copynumber: 2.5 Consensus size: 57
50533745 TTAATATAGT
* *
50533755 ATTTGGTACATGAATTTGACACTTTTTCTT-ATTTAGATATATAAGTTTTTTT-GTCCA
1 ATTTGGTAC-TGAACTTGACACTTTTTCTTAATTTAG-TACATAAGTTTTTTTGGTCCA
*
50533812 ATTTGGTACTTGAACTTGACACTTTTTCTTAATTTAGTACATTAGTTTTTTTGGTCCA
1 ATTTGGTAC-TGAACTTGACACTTTTTCTTAATTTAGTACATAAGTTTTTTTGGTCCA
* *
50533870 ATGTGGTATCTAAACTTGACACTTTTT
1 ATTTGGTA-CTGAACTTGACACTTTTT
50533897 TTTTTCTAAT
Statistics
Matches: 76, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
57 41 0.54
58 34 0.45
59 1 0.01
ACGTcount: A:0.25, C:0.13, G:0.13, T:0.49
Consensus pattern (57 bp):
ATTTGGTACTGAACTTGACACTTTTTCTTAATTTAGTACATAAGTTTTTTTGGTCCA
Found at i:50535281 original size:13 final size:13
Alignment explanation
Indices: 50535263--50535290 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
50535253 GATAAATTGG
50535263 AAAGATGATAAAT
1 AAAGATGATAAAT
50535276 AAAGATGATAAAT
1 AAAGATGATAAAT
50535289 AA
1 AA
50535291 TAAAAATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.64, C:0.00, G:0.14, T:0.21
Consensus pattern (13 bp):
AAAGATGATAAAT
Found at i:50536248 original size:24 final size:25
Alignment explanation
Indices: 50536195--50536242 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
50536185 TTAGCCCTCT
* *
50536195 CGAGCTTCTCGTTATATGGTTCTTG
1 CGAGCTTCTCGTTATATAGCTCTTG
50536220 CGAGCTTCTCGTTA-ATAGCTCTT
1 CGAGCTTCTCGTTATATAGCTCTT
50536243 CGGAGCATCC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.15, C:0.23, G:0.21, T:0.42
Consensus pattern (25 bp):
CGAGCTTCTCGTTATATAGCTCTTG
Found at i:50536347 original size:26 final size:25
Alignment explanation
Indices: 50536318--50536385 Score: 66
Period size: 26 Copynumber: 2.7 Consensus size: 25
50536308 CCAATATATG
50536318 GCTCTTCATGAGCTTCTCGATTAAAA
1 GCTCTTCATGAGCTTC-CGATTAAAA
** **
50536344 GCTCTTTGTGAGCTTCCTGATTAATG
1 GCTCTTCATGAGCTTCC-GATTAAAA
*
50536370 GCTC-TCAGGAGCTTCC
1 GCTCTTCATGAGCTTCC
50536386 CGATATGGCT
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
25 10 0.29
26 24 0.71
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.35
Consensus pattern (25 bp):
GCTCTTCATGAGCTTCCGATTAAAA
Found at i:50541084 original size:36 final size:36
Alignment explanation
Indices: 50541044--50541114 Score: 106
Period size: 36 Copynumber: 2.0 Consensus size: 36
50541034 ATCAAAGGCT
* *
50541044 ACAATTAAAAGTTGTATACAATTAGAACTCCAAGAC
1 ACAATTAAAAGCTATATACAATTAGAACTCCAAGAC
* *
50541080 ACAATTAGAAGCTATATACAATTAGAACTCTAAGA
1 ACAATTAAAAGCTATATACAATTAGAACTCCAAGA
50541115 TTACATAATC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.48, C:0.15, G:0.11, T:0.25
Consensus pattern (36 bp):
ACAATTAAAAGCTATATACAATTAGAACTCCAAGAC
Found at i:50545957 original size:48 final size:48
Alignment explanation
Indices: 50545886--50545980 Score: 172
Period size: 48 Copynumber: 2.0 Consensus size: 48
50545876 TCTTTGCTTA
*
50545886 AAAAATGCCTAAGTCAGCCTAACTTACAATGATAAAGGATTCAACAGC
1 AAAAACGCCTAAGTCAGCCTAACTTACAATGATAAAGGATTCAACAGC
*
50545934 AAAAACGCCTAAGTCAGCCTAACTTGCAATGATAAAGGATTCAACAG
1 AAAAACGCCTAAGTCAGCCTAACTTACAATGATAAAGGATTCAACAG
50545981 AATTCCCTCA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.43, C:0.21, G:0.16, T:0.20
Consensus pattern (48 bp):
AAAAACGCCTAAGTCAGCCTAACTTACAATGATAAAGGATTCAACAGC
Found at i:50546196 original size:17 final size:17
Alignment explanation
Indices: 50546174--50546237 Score: 67
Period size: 17 Copynumber: 3.6 Consensus size: 17
50546164 CATCAAAGGC
*
50546174 TACAATTAAAAGCTGTA
1 TACAATTAGAAGCTGTA
*
50546191 TACAATTAGAA-CTCTAAGA
1 TACAATTAGAAGCTGT---A
*
50546210 CACAATTAGAAGCTGTA
1 TACAATTAGAAGCTGTA
50546227 TACAATTAGAA
1 TACAATTAGAA
50546238 CTCTAAGATT
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
16 3 0.08
17 21 0.55
19 11 0.29
20 3 0.08
ACGTcount: A:0.47, C:0.14, G:0.12, T:0.27
Consensus pattern (17 bp):
TACAATTAGAAGCTGTA
Found at i:50546216 original size:19 final size:19
Alignment explanation
Indices: 50546192--50546245 Score: 60
Period size: 17 Copynumber: 2.9 Consensus size: 19
50546182 AAAGCTGTAT
50546192 ACAATTAGAACTCTAAGAC
1 ACAATTAGAACTCTAAGAC
* *
50546211 ACAATTAGAA-GCT--GTAT
1 ACAATTAGAACTCTAAG-AC
50546228 ACAATTAGAACTCTAAGA
1 ACAATTAGAACTCTAAGA
50546246 TTACATAATC
Statistics
Matches: 28, Mismatches: 3, Indels: 8
0.72 0.08 0.21
Matches are distributed among these distances:
16 1 0.04
17 11 0.39
18 4 0.14
19 11 0.39
20 1 0.04
ACGTcount: A:0.46, C:0.17, G:0.13, T:0.24
Consensus pattern (19 bp):
ACAATTAGAACTCTAAGAC
Found at i:50546223 original size:36 final size:36
Alignment explanation
Indices: 50546175--50546245 Score: 133
Period size: 36 Copynumber: 2.0 Consensus size: 36
50546165 ATCAAAGGCT
50546175 ACAATTAAAAGCTGTATACAATTAGAACTCTAAGAC
1 ACAATTAAAAGCTGTATACAATTAGAACTCTAAGAC
*
50546211 ACAATTAGAAGCTGTATACAATTAGAACTCTAAGA
1 ACAATTAAAAGCTGTATACAATTAGAACTCTAAGA
50546246 TTACATAATC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.46, C:0.15, G:0.13, T:0.25
Consensus pattern (36 bp):
ACAATTAAAAGCTGTATACAATTAGAACTCTAAGAC
Found at i:50558841 original size:13 final size:13
Alignment explanation
Indices: 50558819--50558848 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
50558809 AAATCACATC
50558819 TAAT-AAATTTAA
1 TAATAAAATTTAA
50558831 TAATAAAATTTAA
1 TAATAAAATTTAA
50558844 TAATA
1 TAATA
50558849 TTAACAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.24
13 13 0.76
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
TAATAAAATTTAA
Found at i:50558852 original size:22 final size:23
Alignment explanation
Indices: 50558819--50558862 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
50558809 AAATCACATC
*
50558819 TAATAAATTTAATAA-TAAAATT
1 TAATAAATTTAACAATTAAAATT
50558841 TAAT-AATATTAACAATTAAAAT
1 TAATAAAT-TTAACAATTAAAAT
50558863 AAATTAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 3 0.16
22 10 0.53
23 6 0.32
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (23 bp):
TAATAAATTTAACAATTAAAATT
Found at i:50559125 original size:9 final size:9
Alignment explanation
Indices: 50559113--50559143 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
50559103 CAGGTTAGAA
50559113 TTTTTAGGG
1 TTTTTAGGG
*
50559122 TTTTTAGGA
1 TTTTTAGGG
50559131 TTTTTAGGG
1 TTTTTAGGG
50559140 TTTT
1 TTTT
50559144 GGGAGAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.13, C:0.00, G:0.26, T:0.61
Consensus pattern (9 bp):
TTTTTAGGG
Found at i:50559133 original size:18 final size:18
Alignment explanation
Indices: 50559107--50559143 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
50559097 GTTTCCCAGG
50559107 TTAGAATTTTTAGGGTTT
1 TTAGAATTTTTAGGGTTT
*
50559125 TTAGGATTTTTAGGGTTT
1 TTAGAATTTTTAGGGTTT
50559143 T
1 T
50559144 GGGAGAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.19, C:0.00, G:0.24, T:0.57
Consensus pattern (18 bp):
TTAGAATTTTTAGGGTTT
Found at i:50559631 original size:126 final size:126
Alignment explanation
Indices: 50559339--50559798 Score: 647
Period size: 126 Copynumber: 3.7 Consensus size: 126
50559329 TCCTGGAAAA
* * * * *
50559339 TAGTTTAAAA-AACGCTTCAAGCAAGATGCTTTATGAGAAAAATTTGTGAAATCGCGCCCTCGTG
1 TAGTATAAAACAACACTGCAAGCAAGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTG
* * * * * * *
50559403 GATGCGCTTTTGCTACAGTTGGTCCTGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAA
66 GACGCGCTTTTGCTACAGTAGGTCCT-GAAAAAATAATTTCGACTTGACATTTCTAAGCAAG
* * * * * *
50559465 TAATTTAAAAAAACGCTTCAAGCAAGATGCTTTATGAGAAGAATTTGTGAAATTGCGCCCACGTG
1 TAGTATAAAACAACACTGCAAGCAAGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTG
50559530 GACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGACTTGACATTTCTAAGCAAG
66 GACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGACTTGACATTTCTAAGCAAG
* **
50559591 TAGTATAAAACAACACTGCAAGCAGGATGCTATT-TGAGAAGAATTTGTGAAATCGCGCCCTTGT
1 TAGTATAAAACAACACTGCAAGCAAGATGCT-TTATGAGAAGAATTTGTGAAATCGCGCCCACGT
50559655 GGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGACTTGACATTTCTAAGCAAG
65 GGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGACTTGACATTTCTAAGCAAG
* * *
50559717 TAGTATAAAACAACACTGCAAGCAGGATGCTATT-TGAGAAGAATTTGTGAAATTGCGCCCATGT
1 TAGTATAAAACAACACTGCAAGCAAGATGCT-TTATGAGAAGAATTTGTGAAATCGCGCCCACGT
*
50559781 GGATGCGCTTTTGCTACA
65 GGACGCGCTTTTGCTACA
50559799 ATAGCATGTT
Statistics
Matches: 309, Mismatches: 23, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
126 232 0.75
127 77 0.25
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (126 bp):
TAGTATAAAACAACACTGCAAGCAAGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTG
GACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGACTTGACATTTCTAAGCAAG
Found at i:50562572 original size:22 final size:21
Alignment explanation
Indices: 50562546--50563210 Score: 783
Period size: 22 Copynumber: 30.8 Consensus size: 21
50562536 CACGTTTTCC
*
50562546 TTTTAAGTTAAGTGTTAGGGT
1 TTTTAAGTTAAGGGTTAGGGT
* * **
50562567 TTTTTATTTAAGGGTTACAGT
1 TTTTAAGTTAAGGGTTAGGGT
*
50562588 TTTTAATTTAAGGGTTTAGGGT
1 TTTTAAGTTAAGGG-TTAGGGT
* **
50562610 TTTTAATTTAAGGGTTATAGT
1 TTTTAAGTTAAGGGTTAGGGT
* *
50562631 TTTTAAGTTAAGTGTTTAGTGT
1 TTTTAAGTTAAG-GGTTAGGGT
*
50562653 TTTAAAGTTAAGGGTTAGGGT
1 TTTTAAGTTAAGGGTTAGGGT
* *
50562674 TTTTAACTTAAAGGTTTAGGGT
1 TTTTAAGTT-AAGGGTTAGGGT
*
50562696 TTTTAATTTTAAGGGTTTAGGGT
1 TTTTAA-GTTAAGGG-TTAGGGT
*
50562719 TTTTAA-TTCAAAGGTTTAGGGT
1 TTTTAAGTT--AAGGGTTAGGGT
* *
50562741 TTTTAAGTCAAGAGGTTCGGGT
1 TTTTAAGTTAAG-GGTTAGGGT
* *
50562763 TTTAAAGTTAAAGGTTAGGGT
1 TTTTAAGTTAAGGGTTAGGGT
* *
50562784 TTTTAAGTTAAATGTTTAGGGT
1 TTTTAAGTT-AAGGGTTAGGGT
*
50562806 TTTTAATTTAAGGGTTTAGGGT
1 TTTTAAGTTAAGGG-TTAGGGT
* *
50562828 TTTTAATTTAAGGGTTAGAGT
1 TTTTAAGTTAAGGGTTAGGGT
*
50562849 TTTTAAGTTAAGGGTTTAGGAT
1 TTTTAAGTTAAGGG-TTAGGGT
* *
50562871 TTTTAATTTAAGGGTTTAAGGT
1 TTTTAAGTTAAGGG-TTAGGGT
*
50562893 TTTTAAGTTAAAGAGTTAGGGT
1 TTTTAAGTT-AAGGGTTAGGGT
50562915 TTTTAAGTTAAGGGTTAGGGT
1 TTTTAAGTTAAGGGTTAGGGT
50562936 TTTTAAGTTAAGGGTTTAGGGT
1 TTTTAAGTTAAGGG-TTAGGGT
*
50562958 TTTTAATTTAAGGGTTTAGGGT
1 TTTTAAGTTAAGGG-TTAGGGT
50562980 TTTTAAGTTAAGGGGTTAGGGT
1 TTTTAAGTTAA-GGGTTAGGGT
*
50563002 TTTAAAGTTAAGGGTTAGGGT
1 TTTTAAGTTAAGGGTTAGGGT
* *
50563023 TTTTAATTTAAGGGTTTATGGT
1 TTTTAAGTTAAGGG-TTAGGGT
* *
50563045 TTTGAAGTTAAGGGTTAGAGT
1 TTTTAAGTTAAGGGTTAGGGT
50563066 TTTTAAGTTAAGGGTTTAGGGT
1 TTTTAAGTTAAGGG-TTAGGGT
50563088 TTTTAAGTTAAGGGGTTAGGGT
1 TTTTAAGTTAA-GGGTTAGGGT
*
50563110 TTTTATGTTAAGGGTTAGGGT
1 TTTTAAGTTAAGGGTTAGGGT
*
50563131 TTTTAGGTTAAGGGTTTAGGGT
1 TTTTAAGTTAAGGG-TTAGGGT
*
50563153 TTTTAATTTAAGGGTTAGGGT
1 TTTTAAGTTAAGGGTTAGGGT
50563174 TTTTAAGTTAAGGGTTAGGGT
1 TTTTAAGTTAAGGGTTAGGGT
* *
50563195 TTTTAGGTTAAAGGTT
1 TTTTAAGTTAAGGGTT
50563211 TAAGGTTTGT
Statistics
Matches: 559, Mismatches: 66, Indels: 38
0.84 0.10 0.06
Matches are distributed among these distances:
21 231 0.41
22 298 0.53
23 30 0.05
ACGTcount: A:0.25, C:0.01, G:0.28, T:0.46
Consensus pattern (21 bp):
TTTTAAGTTAAGGGTTAGGGT
Found at i:50562620 original size:43 final size:43
Alignment explanation
Indices: 50562546--50563218 Score: 836
Period size: 43 Copynumber: 15.6 Consensus size: 43
50562536 CACGTTTTCC
* * * **
50562546 TTTTAAGTTAAGTG-TTAGGGTTTTTTATTTAAGGGTTACAGT
1 TTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTAGGGT
* * **
50562588 TTTTAATTTAAGGGTTTAGGGTTTTTAATTTAAGGGTTATAGT
1 TTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTAGGGT
* * *
50562631 TTTTAAGTTAAGTGTTTAGTGTTTTAAAGTTAAGGGTTAGGGT
1 TTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTAGGGT
* * *
50562674 TTTTAACTTAAAGGTTTAGGGTTTTTAATTTTAAGGGTTTAGGGT
1 TTTTAAGTTAAGGGTTTAGGGTTTTTAA-GTTAAGGG-TTAGGGT
* * *
50562719 TTTTAA-TTCAAAGGTTTAGGGTTTTTAAGTCAAGAGGTTCGGGT
1 TTTTAAGTT-AAGGGTTTAGGGTTTTTAAGTTAAG-GGTTAGGGT
* * * *
50562763 TTTAAAGTTAAAGG-TTAGGGTTTTTAAGTTAAATGTTTAGGGT
1 TTTTAAGTTAAGGGTTTAGGGTTTTTAAGTT-AAGGGTTAGGGT
* * *
50562806 TTTTAATTTAAGGGTTTAGGGTTTTTAATTTAAGGGTTAGAGT
1 TTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTAGGGT
* * *
50562849 TTTTAAGTTAAGGGTTTAGGATTTTTAATTTAAGGGTTTAAGGT
1 TTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGG-TTAGGGT
*
50562893 TTTTAAGTTAAAGAG-TTAGGGTTTTTAAGTTAAGGGTTAGGGT
1 TTTTAAGTT-AAGGGTTTAGGGTTTTTAAGTTAAGGGTTAGGGT
*
50562936 TTTTAAGTTAAGGGTTTAGGGTTTTTAATTTAAGGGTTTAGGGT
1 TTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGG-TTAGGGT
* *
50562980 TTTTAAGTTAAGGGGTTAGGGTTTTAAAGTTAAGGGTTAGGGT
1 TTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTAGGGT
* * * *
50563023 TTTTAATTTAAGGGTTTATGGTTTTGAAGTTAAGGGTTAGAGT
1 TTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTAGGGT
50563066 TTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGGTTAGGGT
1 TTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAA-GGGTTAGGGT
* *
50563110 TTTTATGTTAAGGG-TTAGGGTTTTTAGGTTAAGGGTTTAGGGT
1 TTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGG-TTAGGGT
*
50563153 TTTTAATTTAAGGG-TTAGGGTTTTTAAGTTAAGGGTTAGGGT
1 TTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTAGGGT
* * *
50563195 TTTTAGGTTAAAGGTTTAAGGTTT
1 TTTTAAGTTAAGGGTTTAGGGTTT
50563219 GTCAATTAAA
Statistics
Matches: 553, Mismatches: 63, Indels: 29
0.86 0.10 0.04
Matches are distributed among these distances:
42 37 0.07
43 335 0.61
44 141 0.25
45 40 0.07
ACGTcount: A:0.25, C:0.01, G:0.28, T:0.46
Consensus pattern (43 bp):
TTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTAGGGT
Found at i:50562701 original size:65 final size:65
Alignment explanation
Indices: 50562546--50563218 Score: 837
Period size: 65 Copynumber: 10.4 Consensus size: 65
50562536 CACGTTTTCC
* * ** *
50562546 TTTTAAGTTAAGTG-TTAGGGTTTTTTATTTAAGGG-TTACAGTTTTTAATTTAAGGGTTTAGGG
1 TTTTAAGTTAAGGGTTTAGGGTTTTTAATTTAAGGGTTTAGGGTTTTTAAGTTAAGGG-TTAGGG
50562609 T
65 T
* * * * *
50562610 TTTTAATTTAAGGGTTATA--GTTTTTAAGTTAAGTGTTTAGTGTTTTAAAGTTAAGGGTTAGGG
1 TTTTAAGTTAAGGGTT-TAGGGTTTTTAATTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTAGGG
50562673 T
65 T
* * *
50562674 TTTTAACTTAAAGGTTTAGGGTTTTTAATTTTAAGGGTTTAGGGTTTTTAA-TTCAAAGGTTTAG
1 TTTTAAGTTAAGGGTTTAGGGTTTTTAA-TTTAAGGGTTTAGGGTTTTTAAGTT--AAGGGTTAG
50562738 GGT
63 GGT
* * * * * * *
50562741 TTTTAAGTCAAGAGG-TTCGGGTTTTAAAGTTAAAGG-TTAGGGTTTTTAAGTTAAATGTTTAGG
1 TTTTAAGTTAAG-GGTTTAGGGTTTTTAATTTAAGGGTTTAGGGTTTTTAAGTT-AAGGGTTAGG
50562804 GT
64 GT
* * *
50562806 TTTTAATTTAAGGGTTTAGGGTTTTTAATTTAAGGG-TTAGAGTTTTTAAGTTAAGGGTTTAGGA
1 TTTTAAGTTAAGGGTTTAGGGTTTTTAATTTAAGGGTTTAGGGTTTTTAAGTTAAGGG-TTAGGG
50562870 T
65 T
* * * *
50562871 TTTTAATTTAAGGGTTTAAGGTTTTTAAGTTAAAGAG-TTAGGGTTTTTAAGTTAAGGGTTAGGG
1 TTTTAAGTTAAGGGTTTAGGGTTTTTAA-TTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTAGGG
50562935 T
65 T
50562936 TTTTAAGTTAAGGGTTTAGGGTTTTTAATTTAAGGGTTTAGGGTTTTTAAGTTAAGGGGTTAGGG
1 TTTTAAGTTAAGGGTTTAGGGTTTTTAATTTAAGGGTTTAGGGTTTTTAAGTTAA-GGGTTAGGG
50563001 T
65 T
* * * *
50563002 TTTAAAGTTAAGGG-TTAGGGTTTTTAATTTAAGGGTTTATGGTTTTGAAGTTAAGGGTTAGAGT
1 TTTTAAGTTAAGGGTTTAGGGTTTTTAATTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTAGGGT
* * *
50563066 TTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGGTTAGGGTTTTTATGTTAAGGGTTAGGGT
1 TTTTAAGTTAAGGGTTTAGGGTTTTTAATTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTAGGGT
*
50563131 TTTTAGGTTAAGGGTTTAGGGTTTTTAATTTAAGGG-TTAGGGTTTTTAAGTTAAGGGTTAGGGT
1 TTTTAAGTTAAGGGTTTAGGGTTTTTAATTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTAGGGT
* * *
50563195 TTTTAGGTTAAAGGTTTAAGGTTT
1 TTTTAAGTTAAGGGTTTAGGGTTT
50563219 GTCAATTAAA
Statistics
Matches: 534, Mismatches: 59, Indels: 32
0.85 0.09 0.05
Matches are distributed among these distances:
63 2 0.00
64 128 0.24
65 294 0.55
66 77 0.14
67 31 0.06
68 2 0.00
ACGTcount: A:0.25, C:0.01, G:0.28, T:0.46
Consensus pattern (65 bp):
TTTTAAGTTAAGGGTTTAGGGTTTTTAATTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTAGGGT
Found at i:50564461 original size:7 final size:7
Alignment explanation
Indices: 50564451--50564476 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
50564441 TTATATACAT
50564451 AATACTA
1 AATACTA
50564458 AATACTA
1 AATACTA
50564465 AATACTA
1 AATACTA
50564472 AATAC
1 AATAC
50564477 CAATCGACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:50564681 original size:20 final size:20
Alignment explanation
Indices: 50564643--50564681 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
50564633 CTTTTATTTT
*
50564643 TAAAATCTACATAATAATTG
1 TAAAATCTACATAAAAATTG
50564663 TAAAATCTA-ATATAAAATT
1 TAAAATCTACATA-AAAATT
50564682 TACCTTGTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.54, C:0.08, G:0.03, T:0.36
Consensus pattern (20 bp):
TAAAATCTACATAAAAATTG
Found at i:50565702 original size:52 final size:51
Alignment explanation
Indices: 50565620--50565720 Score: 114
Period size: 52 Copynumber: 2.0 Consensus size: 51
50565610 AATTATTTAA
*
50565620 AAATAGGGATTTAAGAGAAATTTAAGAGGAACTTGAGAGAAAAATTGAGATT
1 AAATAGGGATTTAAGAGAAATTTAAGAGGAACTTGAAAG-AAAATTGAGATT
* * * * * *
50565672 AAATATGGATTTGAGAGAAGTTT-GGAAGGAATTTGAAAGCAAATTGAGA
1 AAATAGGGATTTAAGAGAAATTTAAG-AGGAACTTGAAAGAAAATTGAGA
50565721 GGAAATTTAG
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
51 10 0.24
52 31 0.76
ACGTcount: A:0.46, C:0.02, G:0.27, T:0.26
Consensus pattern (51 bp):
AAATAGGGATTTAAGAGAAATTTAAGAGGAACTTGAAAGAAAATTGAGATT
Found at i:50565726 original size:11 final size:11
Alignment explanation
Indices: 50565698--50565755 Score: 62
Period size: 11 Copynumber: 5.2 Consensus size: 11
50565688 GAAGTTTGGA
* *
50565698 AGGAATTTGAA
1 AGGAAATTGAG
*
50565709 AGCAAATTGAG
1 AGGAAATTGAG
*
50565720 AGGAAATTTAG
1 AGGAAATTGAG
50565731 AGGAAATTGAG
1 AGGAAATTGAG
*
50565742 AGAAAATTTGAG
1 AGGAAA-TTGAG
50565754 AG
1 AG
50565756 AGGATTAGTT
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
11 32 0.82
12 7 0.18
ACGTcount: A:0.47, C:0.02, G:0.29, T:0.22
Consensus pattern (11 bp):
AGGAAATTGAG
Found at i:50567721 original size:12 final size:12
Alignment explanation
Indices: 50567704--50567737 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
50567694 AGGCAACGGC
50567704 ATGATGATGACG
1 ATGATGATGACG
50567716 ATGATGATGACG
1 ATGATGATGACG
*
50567728 ACGATGATGA
1 ATGATGATGA
50567738 TGACATGGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.35, C:0.09, G:0.32, T:0.24
Consensus pattern (12 bp):
ATGATGATGACG
Found at i:50567724 original size:15 final size:15
Alignment explanation
Indices: 50567704--50567741 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
50567694 AGGCAACGGC
*
50567704 ATGATGATGACGATG
1 ATGATGACGACGATG
50567719 ATGATGACGACGATG
1 ATGATGACGACGATG
50567734 ATGATGAC
1 ATGATGAC
50567742 ATGGAAACTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.34, C:0.11, G:0.32, T:0.24
Consensus pattern (15 bp):
ATGATGACGACGATG
Found at i:50576319 original size:2 final size:2
Alignment explanation
Indices: 50576314--50576344 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
50576304 CCTGCTTCAT
50576314 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
50576345 TCCAATATAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:50576929 original size:27 final size:26
Alignment explanation
Indices: 50576884--50576939 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 26
50576874 GAAGAATGTG
* *
50576884 TTTGAACTTTCTGGGGTTATCCTTTA
1 TTTGAAATTTCTGGGGTTATCATTTA
*
50576910 TTTGAAATTTGCTGGTGTTATCATTTA
1 TTTGAAATTT-CTGGGGTTATCATTTA
50576937 TTT
1 TTT
50576940 TGAATTTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 9 0.35
27 17 0.65
ACGTcount: A:0.18, C:0.11, G:0.18, T:0.54
Consensus pattern (26 bp):
TTTGAAATTTCTGGGGTTATCATTTA
Found at i:50576945 original size:27 final size:25
Alignment explanation
Indices: 50576884--50576946 Score: 72
Period size: 27 Copynumber: 2.4 Consensus size: 25
50576874 GAAGAATGTG
*
50576884 TTTGAACTTTCTGGGGTTATCCTTTA
1 TTTGAA-TTTCTGGGGTTATCATTTA
*
50576910 TTTGAAATTTGCTGGTGTTATCATTTA
1 TTTG-AATTT-CTGGGGTTATCATTTA
50576937 TTTTGAATTT
1 -TTTGAATTT
50576947 TTTTTGTTTG
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
26 7 0.22
27 21 0.66
28 4 0.12
ACGTcount: A:0.19, C:0.10, G:0.17, T:0.54
Consensus pattern (25 bp):
TTTGAATTTCTGGGGTTATCATTTA
Found at i:50577725 original size:27 final size:27
Alignment explanation
Indices: 50577695--50577774 Score: 74
Period size: 27 Copynumber: 3.0 Consensus size: 27
50577685 TTTTAACTTT
50577695 CTGGTGTAATTC-TTTA-TTTGAATTTTG
1 CTGGTGTAA-TCATTTATTTTGAA-TTTG
*
50577722 CTGGTGTTATCATTTATTTTGAATTTG
1 CTGGTGTAATCATTTATTTTGAATTTG
* ** * *
50577749 CTGCTGTTTTCCTTTGTTTTGAATTT
1 CTGGTGTAATCATTTATTTTGAATTT
50577775 TGTTGTTTGT
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
26 2 0.04
27 38 0.83
28 6 0.13
ACGTcount: A:0.15, C:0.10, G:0.17, T:0.57
Consensus pattern (27 bp):
CTGGTGTAATCATTTATTTTGAATTTG
Found at i:50578656 original size:16 final size:16
Alignment explanation
Indices: 50578631--50578665 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
50578621 ATCATCTCTC
* *
50578631 TCTTTTTTTTCCCTTT
1 TCTTTATTTTCCCATT
50578647 TCTTTATTTTCCCATT
1 TCTTTATTTTCCCATT
50578663 TCT
1 TCT
50578666 GTTTCCTATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.06, C:0.26, G:0.00, T:0.69
Consensus pattern (16 bp):
TCTTTATTTTCCCATT
Found at i:50580960 original size:27 final size:27
Alignment explanation
Indices: 50580930--50580981 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
50580920 ATTTGAAATT
*
50580930 TTCTGTTATCATTTTTTTTGAATTTGC
1 TTCTGTTATCATTTGTTTTGAATTTGC
* *
50580957 TTCTGTTTTCCTTTGTTTTGAATTT
1 TTCTGTTATCATTTGTTTTGAATTT
50580982 TGTTGTTTGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.12, C:0.12, G:0.12, T:0.65
Consensus pattern (27 bp):
TTCTGTTATCATTTGTTTTGAATTTGC
Found at i:50583588 original size:16 final size:16
Alignment explanation
Indices: 50583567--50583613 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 16
50583557 CGTTACTTTT
50583567 GCTTCCAGCTAGCTTC
1 GCTTCCAGCTAGCTTC
* *
50583583 GCTTCCTGCTAGTTTC
1 GCTTCCAGCTAGCTTC
* *
50583599 GGTCCCA-CTAGCTTC
1 GCTTCCAGCTAGCTTC
50583614 ACTCTGCGCT
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
15 7 0.28
16 18 0.72
ACGTcount: A:0.11, C:0.36, G:0.19, T:0.34
Consensus pattern (16 bp):
GCTTCCAGCTAGCTTC
Found at i:50590824 original size:13 final size:14
Alignment explanation
Indices: 50590806--50590868 Score: 62
Period size: 13 Copynumber: 4.8 Consensus size: 14
50590796 AGTTCTTTAT
50590806 TGCTTTTGAAAGA-
1 TGCTTTTGAAAGAG
50590819 TGCTTTTGAAA-AG
1 TGCTTTTGAAAGAG
* *
50590832 TGC-TGTGAAAAAG
1 TGCTTTTGAAAGAG
* *
50590845 TACTTTTGAGA-AG
1 TGCTTTTGAAAGAG
50590858 TGCTTTTGAAA
1 TGCTTTTGAAA
50590869 AATTTGAGTG
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
12 7 0.17
13 29 0.71
14 5 0.12
ACGTcount: A:0.32, C:0.08, G:0.24, T:0.37
Consensus pattern (14 bp):
TGCTTTTGAAAGAG
Found at i:50590835 original size:26 final size:27
Alignment explanation
Indices: 50590806--50590870 Score: 80
Period size: 26 Copynumber: 2.5 Consensus size: 27
50590796 AGTTCTTTAT
* *
50590806 TGCTTTTGAAAGA-TGCTTTTGAAAAG
1 TGCTTTTGAAAAAGTACTTTTGAAAAG
* *
50590832 TGC-TGTGAAAAAGTACTTTTGAGAAG
1 TGCTTTTGAAAAAGTACTTTTGAAAAG
50590858 TGCTTTTGAAAAA
1 TGCTTTTGAAAAA
50590871 TTTGAGTGTT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
25 7 0.22
26 17 0.53
27 8 0.25
ACGTcount: A:0.34, C:0.08, G:0.23, T:0.35
Consensus pattern (27 bp):
TGCTTTTGAAAAAGTACTTTTGAAAAG
Found at i:50591290 original size:18 final size:18
Alignment explanation
Indices: 50591267--50591303 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
50591257 TGAATATATC
50591267 TCATATTAGATATTAACA
1 TCATATTAGATATTAACA
50591285 TCATATTAGATATTAACA
1 TCATATTAGATATTAACA
50591303 T
1 T
50591304 AACATAGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.43, C:0.11, G:0.05, T:0.41
Consensus pattern (18 bp):
TCATATTAGATATTAACA
Found at i:50609770 original size:16 final size:16
Alignment explanation
Indices: 50609741--50609795 Score: 65
Period size: 16 Copynumber: 3.4 Consensus size: 16
50609731 TTAAATTACT
* *
50609741 TATTACAACTCTATTC
1 TATTACAGCACTATTC
*
50609757 TACTACAGCACTATTC
1 TATTACAGCACTATTC
* *
50609773 AATTACAGCCCTATTC
1 TATTACAGCACTATTC
50609789 TATTACA
1 TATTACA
50609796 ACCAACCAAA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.33, C:0.27, G:0.04, T:0.36
Consensus pattern (16 bp):
TATTACAGCACTATTC
Found at i:50615859 original size:21 final size:21
Alignment explanation
Indices: 50615833--50615873 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
50615823 AGACGAGCAA
* *
50615833 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
50615854 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
50615874 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:50625651 original size:19 final size:21
Alignment explanation
Indices: 50625625--50625670 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
50625615 GCTCAACCCA
50625625 GATACC-TTAAC-AAAGTATC
1 GATACCTTTAACAAAAGTATC
* *
50625644 GGTACCTTTCACAAAAGTATC
1 GATACCTTTAACAAAAGTATC
50625665 GATACC
1 GATACC
50625671 CTGCTTAGTA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 5 0.23
20 4 0.18
21 13 0.59
ACGTcount: A:0.37, C:0.24, G:0.13, T:0.26
Consensus pattern (21 bp):
GATACCTTTAACAAAAGTATC
Found at i:50626739 original size:16 final size:17
Alignment explanation
Indices: 50626718--50626767 Score: 59
Period size: 16 Copynumber: 3.0 Consensus size: 17
50626708 AATTATCATT
50626718 TATTAAATAAAA-ATTA
1 TATTAAATAAAATATTA
*
50626734 TATTAATTAAAATATTA
1 TATTAAATAAAATATTA
*
50626751 T-TTCAATAAAATGATTA
1 TATTAAATAAAAT-ATTA
50626768 AATTTCACGT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
16 20 0.69
17 9 0.31
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (17 bp):
TATTAAATAAAATATTA
Found at i:50635152 original size:35 final size:35
Alignment explanation
Indices: 50635106--50635176 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
50635096 TCCATTAAAA
50635106 TTCTTCTTCTTTTGCAATAAAACCGAGCATGGCTT
1 TTCTTCTTCTTTTGCAATAAAACCGAGCATGGCTT
50635141 TTCTTCTTCTTTTGCAATAAAACCGAGCATGGCTT
1 TTCTTCTTCTTTTGCAATAAAACCGAGCATGGCTT
50635176 T
1 T
50635177 CTGGATGGAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.23, C:0.23, G:0.14, T:0.41
Consensus pattern (35 bp):
TTCTTCTTCTTTTGCAATAAAACCGAGCATGGCTT
Found at i:50640383 original size:17 final size:17
Alignment explanation
Indices: 50640350--50640383 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
50640340 AAAAAGTATT
* *
50640350 TTAAAAATATTTTAAAA
1 TTAAAAAAATTTAAAAA
50640367 TTAAAAAAATTTAAAAA
1 TTAAAAAAATTTAAAAA
50640384 GTATTTTTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
TTAAAAAAATTTAAAAA
Found at i:50640383 original size:40 final size:40
Alignment explanation
Indices: 50640313--50640456 Score: 184
Period size: 40 Copynumber: 3.5 Consensus size: 40
50640303 ACCAAAAATT
*
50640313 TATTTTAAAAATTAAAACAAAAATTAAAAAAAGTATTTTAAAAA
1 TATTTT-AAAATT--AA-AAAAATTTAAAAAAGTATTTTAAAAA
50640357 TATTTTAAAATTAAAAAAATTT-AAAAAGTATTTTTAAAAA
1 TATTTTAAAATTAAAAAAATTTAAAAAAGTA-TTTTAAAAA
* * *
50640397 AATTTT-AAATTTAAAAAATTTAAAAAAAGTATTTTAAAAG
1 TATTTTAAAATTAAAAAAATTT-AAAAAAGTATTTTAAAAA
50640437 TATTTTAAAATTAAAAAAAT
1 TATTTTAAAATTAAAAAAAT
50640457 AAAAATATTT
Statistics
Matches: 90, Mismatches: 6, Indels: 11
0.84 0.06 0.10
Matches are distributed among these distances:
39 22 0.24
40 34 0.38
41 22 0.24
43 6 0.07
44 6 0.07
ACGTcount: A:0.60, C:0.01, G:0.03, T:0.37
Consensus pattern (40 bp):
TATTTTAAAATTAAAAAAATTTAAAAAAGTATTTTAAAAA
Found at i:50640430 original size:29 final size:29
Alignment explanation
Indices: 50640373--50640434 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 29
50640363 AAAATTAAAA
*
50640373 AAATTTAAAAAGTATTTTTAAAAAAATTTT
1 AAATTTAAAAAG-ATTTTAAAAAAAATTTT
50640403 AAATTTAAAAA-A-TTTAAAAAAAGTATTTT
1 AAATTTAAAAAGATTTTAAAAAAA--ATTTT
50640432 AAA
1 AAA
50640435 AGTATTTTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
27 9 0.31
28 1 0.03
29 8 0.28
30 11 0.38
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (29 bp):
AAATTTAAAAAGATTTTAAAAAAAATTTT
Found at i:50644151 original size:15 final size:14
Alignment explanation
Indices: 50644119--50644189 Score: 63
Period size: 15 Copynumber: 4.7 Consensus size: 14
50644109 CCACTAAATT
50644119 GATTAATTAAAGTTAA
1 GATTAATT-AA-TTAA
50644135 GATTAACTTAATTAA
1 GATTAA-TTAATTAA
*
50644150 GATTTATTAAGTTAA
1 GATTAATTAA-TTAA
50644165 -ATTAGATTAATTAAA
1 GATTA-ATTAATT-AA
*
50644180 TATTAATTAA
1 GATTAATTAA
50644190 CTATATAAGC
Statistics
Matches: 48, Mismatches: 2, Indels: 11
0.79 0.03 0.18
Matches are distributed among these distances:
14 9 0.19
15 25 0.52
16 12 0.25
17 2 0.04
ACGTcount: A:0.48, C:0.01, G:0.08, T:0.42
Consensus pattern (14 bp):
GATTAATTAATTAA
Found at i:50644164 original size:19 final size:19
Alignment explanation
Indices: 50644136--50644178 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
50644126 TAAAGTTAAG
*
50644136 ATTAACTT-AATTAAGATTT
1 ATTAACTTAAATT-AGATTA
*
50644155 ATTAAGTTAAATTAGATTA
1 ATTAACTTAAATTAGATTA
50644174 ATTAA
1 ATTAA
50644179 ATATTAATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.47, C:0.02, G:0.07, T:0.44
Consensus pattern (19 bp):
ATTAACTTAAATTAGATTA
Found at i:50645825 original size:11 final size:12
Alignment explanation
Indices: 50645809--50645843 Score: 56
Period size: 11 Copynumber: 3.1 Consensus size: 12
50645799 GGAATGAGAT
50645809 AAAAGAAAAGA-
1 AAAAGAAAAGAG
50645820 AAAAGAAAA-AG
1 AAAAGAAAAGAG
50645831 AAAAGAAAAGAG
1 AAAAGAAAAGAG
50645843 A
1 A
50645844 TATATGTGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 1 0.05
11 18 0.82
12 3 0.14
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (12 bp):
AAAAGAAAAGAG
Found at i:50647571 original size:25 final size:25
Alignment explanation
Indices: 50647543--50647593 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
50647533 TTCAGTATGT
50647543 CATCCTAACATTCTTCTGTAATAGG
1 CATCCTAACATTCTTCTGTAATAGG
50647568 CATCCTAACATTCTTCTGTAATAGG
1 CATCCTAACATTCTTCTGTAATAGG
50647593 C
1 C
50647594 TCAAGTCTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.27, C:0.25, G:0.12, T:0.35
Consensus pattern (25 bp):
CATCCTAACATTCTTCTGTAATAGG
Found at i:50654171 original size:22 final size:22
Alignment explanation
Indices: 50654146--50654188 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
50654136 TAGTCTCCTA
50654146 CTTT-TACTTTTAAGAATATAAT
1 CTTTCTACTTTTAAG-ATATAAT
* *
50654168 CTTTCTATTTTTTAGATATAA
1 CTTTCTACTTTTAAGATATAA
50654189 AAATTCAGGT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.33, C:0.09, G:0.05, T:0.53
Consensus pattern (22 bp):
CTTTCTACTTTTAAGATATAAT
Found at i:50654920 original size:43 final size:43
Alignment explanation
Indices: 50654872--50654961 Score: 128
Period size: 43 Copynumber: 2.1 Consensus size: 43
50654862 TTTTTAAAAG
50654872 CGCCGCTAAAG-AACATGTTCTTTAGCGGCGCTTCTAACACAAA
1 CGCCGCTAAAGCAA-ATGTTCTTTAGCGGCGCTTCTAACACAAA
* * **
50654915 CGCCGCTAAAGCTAATGTTCTTTAGCGGCGCTTTTTTCACAAA
1 CGCCGCTAAAGCAAATGTTCTTTAGCGGCGCTTCTAACACAAA
50654958 CGCC
1 CGCC
50654962 ACTTTTGTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
43 41 0.98
44 1 0.02
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.27
Consensus pattern (43 bp):
CGCCGCTAAAGCAAATGTTCTTTAGCGGCGCTTCTAACACAAA
Found at i:50655016 original size:43 final size:43
Alignment explanation
Indices: 50654935--50655016 Score: 103
Period size: 44 Copynumber: 1.9 Consensus size: 43
50654925 GCTAATGTTC
* * **
50654935 TTTAGCGGCGCTTTTTTCACAAACGCCACTTTTGTTTGGTTGT
1 TTTAGCGGCGCTTTTTTAAAAAACGCCACTAATGTTTGGTTGT
*
50654978 TTTAGCGGCGTTTTTTTTAAAAAACGCCACTAAT-TTTGG
1 TTTAGCGGCG-CTTTTTTAAAAAACGCCACTAATGTTTGG
50655017 GGTTTTTTAA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
43 15 0.45
44 18 0.55
ACGTcount: A:0.20, C:0.18, G:0.20, T:0.43
Consensus pattern (43 bp):
TTTAGCGGCGCTTTTTTAAAAAACGCCACTAATGTTTGGTTGT
Found at i:50656203 original size:12 final size:12
Alignment explanation
Indices: 50656186--50656222 Score: 74
Period size: 12 Copynumber: 3.1 Consensus size: 12
50656176 ATGATATACT
50656186 TAGACATACGAA
1 TAGACATACGAA
50656198 TAGACATACGAA
1 TAGACATACGAA
50656210 TAGACATACGAA
1 TAGACATACGAA
50656222 T
1 T
50656223 GCCTCTAGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.49, C:0.16, G:0.16, T:0.19
Consensus pattern (12 bp):
TAGACATACGAA
Found at i:50659162 original size:22 final size:21
Alignment explanation
Indices: 50659123--50659163 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
50659113 ACTCTGACTA
50659123 TAAAAACTAAACTCCAAACTT
1 TAAAAACTAAACTCCAAACTT
50659144 TAAAACACTAAA-TCACAAAC
1 TAAAA-ACTAAACTC-CAAAC
50659164 CCAATATAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.56, C:0.24, G:0.00, T:0.20
Consensus pattern (21 bp):
TAAAAACTAAACTCCAAACTT
Found at i:50659208 original size:16 final size:16
Alignment explanation
Indices: 50659187--50659256 Score: 56
Period size: 16 Copynumber: 4.4 Consensus size: 16
50659177 CCCTAAACCA
50659187 TAAACTATAAAACCCT
1 TAAACTATAAAACCCT
* * **
50659203 TAAACTA-CATACTAT
1 TAAACTATAAAACCCT
*
50659218 AGTAAAC-ATTAAA-CCT
1 --TAAACTATAAAACCCT
50659234 TAAACTATAAAACCCT
1 TAAACTATAAAACCCT
50659250 TAAACTA
1 TAAACTA
50659257 CATACTATAG
Statistics
Matches: 40, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
14 5 0.12
15 9 0.22
16 19 0.47
17 7 0.17
ACGTcount: A:0.50, C:0.21, G:0.01, T:0.27
Consensus pattern (16 bp):
TAAACTATAAAACCCT
Found at i:50659216 original size:23 final size:23
Alignment explanation
Indices: 50659190--50659265 Score: 86
Period size: 23 Copynumber: 3.3 Consensus size: 23
50659180 TAAACCATAA
50659190 ACTATAAAACCCTTAAACTACAT
1 ACTATAAAACCCTTAAACTACAT
*
50659213 ACTATAGTAAA-CATTAAACCTTA-A-
1 ACTATA--AAACCCTTAAA-C-TACAT
50659237 ACTATAAAACCCTTAAACTACAT
1 ACTATAAAACCCTTAAACTACAT
50659260 ACTATA
1 ACTATA
50659266 GCCCTTAAAC
Statistics
Matches: 44, Mismatches: 2, Indels: 14
0.73 0.03 0.23
Matches are distributed among these distances:
21 2 0.05
22 5 0.11
23 18 0.41
24 12 0.27
25 5 0.11
26 2 0.05
ACGTcount: A:0.49, C:0.22, G:0.01, T:0.28
Consensus pattern (23 bp):
ACTATAAAACCCTTAAACTACAT
Found at i:50659737 original size:41 final size:40
Alignment explanation
Indices: 50659692--50659887 Score: 259
Period size: 41 Copynumber: 4.8 Consensus size: 40
50659682 AGGCCTGCGA
* * *
50659692 ATTAGCGGCGCATCAATAAAAAAGCCGTTAAAGCCCAGAAC
1 ATTAGCGGCGC-TTAATAAAAAAGCCGCTAAATCCCAGAAC
* *
50659733 ATTAGCGGCGCTTAATTAAAAACGCCACTAAATCCCAGAAC
1 ATTAGCGGCGCTTAA-TAAAAAAGCCGCTAAATCCCAGAAC
*
50659774 ATTAGCGGCGCTTAAATAAAAACGCCGCTAAATCCCAGAAC
1 ATTAGCGGCGCTT-AATAAAAAAGCCGCTAAATCCCAGAAC
50659815 ATTAGCGGCGCTTAA-AACAAAACGCCGCTAAATCCCAGAAC
1 ATTAGCGGCGCTTAATAA-AAAA-GCCGCTAAATCCCAGAAC
**
50659856 ATTAGCGGCGCTTACATAAAAACTCCGCTAAA
1 ATTAGCGGCGCTTA-ATAAAAAAGCCGCTAAA
50659888 GCCCCCGAAA
Statistics
Matches: 140, Mismatches: 9, Indels: 12
0.87 0.06 0.07
Matches are distributed among these distances:
39 2 0.01
40 8 0.06
41 122 0.87
42 6 0.04
43 2 0.01
ACGTcount: A:0.39, C:0.27, G:0.17, T:0.17
Consensus pattern (40 bp):
ATTAGCGGCGCTTAATAAAAAAGCCGCTAAATCCCAGAAC
Done.