Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr7
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: 47983841
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869652 characters in sequence are not A, C, G, or T
File 122 of 153
Found at i:38365436 original size:14 final size:14
Alignment explanation
Indices: 38365417--38365443 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
38365407 TAATAAATTT
38365417 TAAAAAAGTTATTC
1 TAAAAAAGTTATTC
38365431 TAAAAAAGTTATT
1 TAAAAAAGTTATT
38365444 TGTGTTGTTA
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:0.52, C:0.04, G:0.07, T:0.37
Consensus pattern (14 bp):
TAAAAAAGTTATTC
Found at i:38373110 original size:303 final size:303
Alignment explanation
Indices: 38372563--38373168 Score: 1176
Period size: 303 Copynumber: 2.0 Consensus size: 303
38372553 TTCGACCAAG
38372563 GCATTTAATGGGCTGCTTGGGCTGAATTTTTACATATATAATAATCCCAAAGTCTAAAATTAAAC
1 GCATTTAATGGGCTGCTTGGGCTGAATTTTTACATATATAATAATCCCAAAGTCTAAAATTAAAC
38372628 TAGGTATTTAAAGAATTAGAATTTTACAAATTGGGCCACTTTGACCTTGATTTGGGCTTGGACAT
66 TAGGTATTTAAAGAATTAGAATTTTACAAATTGGGCCACTTTGACCTTGATTTGGGCTTGGACAT
*
38372693 CTTATTGGGCTTTGCCTTCAAGAACTTGGGCTTGTAGTCTGTTTCCTACCGAAATTGTTTCGTTG
131 CTTATTGGGCTTTGCCTTCAAGAACTTGGGCTTGTAGTCTGTTTCCTACCGAAATTGGTTCGTTG
*
38372758 ATACTCTTAACGGAGATCCAATGCACCTTTGCTGCAAGATTCAGTTTCTTGGACCAAGATTTCCA
196 ATACTCGTAACGGAGATCCAATGCACCTTTGCTGCAAGATTCAGTTTCTTGGACCAAGATTTCCA
*
38372823 AGATTTGAAATCTTGATTTTCTTGATTCTTGGAATCGTTCAAA
261 AGATTTGAAATCTTGATTTTCTTGATTCTTGGAATCATTCAAA
38372866 GCATTTAATGGGCTGCTTGGGCTGAATTTTTACATATATAATAATCCCAAAGTCTAAAATTAAAC
1 GCATTTAATGGGCTGCTTGGGCTGAATTTTTACATATATAATAATCCCAAAGTCTAAAATTAAAC
38372931 TAGGTATTTAAAGAATTAGAATTTTACAAATTGGGCCACTTTGACCTTGATTTGGGCTTGGACAT
66 TAGGTATTTAAAGAATTAGAATTTTACAAATTGGGCCACTTTGACCTTGATTTGGGCTTGGACAT
38372996 CTTATTGGGCTTTGCCTTCAAGAACTTGGGCTTGTAGTCTGTTTCCTACCGAAATTGGTTCGTTG
131 CTTATTGGGCTTTGCCTTCAAGAACTTGGGCTTGTAGTCTGTTTCCTACCGAAATTGGTTCGTTG
*
38373061 ATACTCGTAACGGAGATCCAATGCACCTTTGCTGCAAGATTCAGTTTCTTGGGCCAAGATTTCCA
196 ATACTCGTAACGGAGATCCAATGCACCTTTGCTGCAAGATTCAGTTTCTTGGACCAAGATTTCCA
38373126 AGATTTGAAATCTTGATTTTCTTGATTCTTGGAATCATTCAAA
261 AGATTTGAAATCTTGATTTTCTTGATTCTTGGAATCATTCAAA
38373169 ACAGCAAAAT
Statistics
Matches: 299, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
303 299 1.00
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.37
Consensus pattern (303 bp):
GCATTTAATGGGCTGCTTGGGCTGAATTTTTACATATATAATAATCCCAAAGTCTAAAATTAAAC
TAGGTATTTAAAGAATTAGAATTTTACAAATTGGGCCACTTTGACCTTGATTTGGGCTTGGACAT
CTTATTGGGCTTTGCCTTCAAGAACTTGGGCTTGTAGTCTGTTTCCTACCGAAATTGGTTCGTTG
ATACTCGTAACGGAGATCCAATGCACCTTTGCTGCAAGATTCAGTTTCTTGGACCAAGATTTCCA
AGATTTGAAATCTTGATTTTCTTGATTCTTGGAATCATTCAAA
Found at i:38381563 original size:23 final size:22
Alignment explanation
Indices: 38381520--38381563 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
38381510 TTCTAAGTCG
38381520 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
38381543 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
38381564 TTAGTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:38381672 original size:45 final size:45
Alignment explanation
Indices: 38381608--38381701 Score: 161
Period size: 45 Copynumber: 2.1 Consensus size: 45
38381598 AACAGATATT
* *
38381608 CGGTGGATTCAGCACATAGCAACCACCTTATTAATCAATGATGTC
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
*
38381653 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTT
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
38381698 CGGT
1 CGGT
38381702 TCACATAGTA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (45 bp):
CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
Found at i:38381765 original size:51 final size:50
Alignment explanation
Indices: 38381698--38381893 Score: 250
Period size: 51 Copynumber: 3.9 Consensus size: 50
38381688 CAATGATGTT
* * *
38381698 CGGTTCACATAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATC
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCA-TACCATC
* * * *
38381749 CGATACACGTAGTAGCCTGCACATAGTACTACACACGTGATCGAAACTATC
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGA-CCATACCATC
* * * * *
38381800 CGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTC
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATACCA-TC
38381850 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAT
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAT
38381894 CACTTTCACT
Statistics
Matches: 122, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
49 2 0.02
50 41 0.34
51 77 0.63
52 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.23
Consensus pattern (50 bp):
CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATACCATC
Found at i:38381882 original size:101 final size:101
Alignment explanation
Indices: 38381705--38381889 Score: 318
Period size: 101 Copynumber: 1.8 Consensus size: 101
38381695 GTTCGGTTCA
*
38381705 CATAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATCCGATACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCA-TACCATCCGATACACGTAGTAGCCTGCA
38381770 CATAGTACTACACACGTGATCGAAACTATCCGGTACG
65 CATAGTACTACACACGTGATCGAAACTATCCGGTACG
* *
38381807 CATAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTCCGGTACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCATACCA-TCCGATACACGTAGTAGCCTGCA
38381871 CATAGTACTACACACGTGA
65 CATAGTACTACACACGTGA
38381890 CCATCACTTT
Statistics
Matches: 79, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
100 4 0.05
101 41 0.52
102 34 0.43
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.23
Consensus pattern (101 bp):
CATAGTAGCCTGCACATAGTACTACACATGCGACCATACCATCCGATACACGTAGTAGCCTGCAC
ATAGTACTACACACGTGATCGAAACTATCCGGTACG
Found at i:38383644 original size:16 final size:18
Alignment explanation
Indices: 38383623--38383656 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
38383613 TCGTAGTAAT
38383623 AAAAAACA-ATA-AGAAA
1 AAAAAACACATATAGAAA
38383639 AAAAAACACATATAGAAA
1 AAAAAACACATATAGAAA
38383657 TCCTAACAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
17 3 0.19
18 5 0.31
ACGTcount: A:0.76, C:0.09, G:0.06, T:0.09
Consensus pattern (18 bp):
AAAAAACACATATAGAAA
Found at i:38392860 original size:50 final size:50
Alignment explanation
Indices: 38392785--38392888 Score: 183
Period size: 50 Copynumber: 2.1 Consensus size: 50
38392775 GTACGAGGCT
*
38392785 TAACTTGATCTAAATAAACAAATTTAATCCATTTAATATTCATTCTATTC
1 TAACTTGATCTAAATAAACAAATTTAATCCATTTAATATTCATTATATTC
*
38392835 TAACTTGATCTAAATAAGCAAATTTAATCCATTTAATATTCATTATATTC
1 TAACTTGATCTAAATAAACAAATTTAATCCATTTAATATTCATTATATTC
38392885 -AACT
1 TAACT
38392889 CATTCCAGCA
Statistics
Matches: 52, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
49 4 0.08
50 48 0.92
ACGTcount: A:0.40, C:0.15, G:0.03, T:0.41
Consensus pattern (50 bp):
TAACTTGATCTAAATAAACAAATTTAATCCATTTAATATTCATTATATTC
Found at i:38400163 original size:182 final size:181
Alignment explanation
Indices: 38399856--38400378 Score: 893
Period size: 182 Copynumber: 2.9 Consensus size: 181
38399846 TAAAATAATA
* ** *
38399856 ATAAAATAAATATTTTCACGTCAAATTTATGGTCACAAAACCACTATTTCGATTTCACTAAAAAT
1 ATAAAATAAATATTTTCACGTCAAATTTGTGGTCATGAAA-CACTATTTCGATTTCACTGAAAAT
* * * *
38399921 TGACTATTACAACTCTCCCCTTAAAGGAATTTTCATCCCCGAAATCTTACCAGAAAAGAGGTTCG
65 GGACTGTTACAACTCTCCCCCTAAAGGAATTTTCATCCCCAAAATCTTACCAGAAAAGAGGTTCG
*
38399986 GGTATGTTAGTAGTGTCATATAAAAATTTTGTAACATAAATATTTTCATGGT
130 GGTATGTTAGTAGTGTCGTATAAAAATTTTGTAACATAAATATTTTCATGGT
*
38400038 ATAAAATAAATATTTTCACGTAAAATTTGTGGTCATGAAATCACTATTTCGATTTCACTGAAAAT
1 ATAAAATAAATATTTTCACGTCAAATTTGTGGTCATGAAA-CACTATTTCGATTTCACTGAAAAT
38400103 GGACTGTTACAACTCTCCCCCTAAAGGAATTTTCATCCCCAAAATCTTACCAGAAAAGAGGTTCG
65 GGACTGTTACAACTCTCCCCCTAAAGGAATTTTCATCCCCAAAATCTTACCAGAAAAGAGGTTCG
38400168 GGTATGTTAGTAGTGTCGTATAAAAATTTTGTAACATAAATATTTTCATGGT
130 GGTATGTTAGTAGTGTCGTATAAAAATTTTGTAACATAAATATTTTCATGGT
*
38400220 ATAAAATAAATATTTTCACGTCGAATTTGTGGTCATGAAACGACTATTTCGATTTCACTGAAAAT
1 ATAAAATAAATATTTTCACGTCAAATTTGTGGTCATGAAAC-ACTATTTCGATTTCACTGAAAAT
*
38400285 GGACTGTTATAACTCTCCCCCTAAAGGAATTTTCATCCCCAAAATCTTACCAGAAAAGAGGTTCG
65 GGACTGTTACAACTCTCCCCCTAAAGGAATTTTCATCCCCAAAATCTTACCAGAAAAGAGGTTCG
* *
38400350 GGTATGTTAGTGGTGTCGTATACAAATTT
130 GGTATGTTAGTAGTGTCGTATAAAAATTT
38400379 GAAGTGAAAA
Statistics
Matches: 324, Mismatches: 16, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
181 1 0.00
182 323 1.00
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.34
Consensus pattern (181 bp):
ATAAAATAAATATTTTCACGTCAAATTTGTGGTCATGAAACACTATTTCGATTTCACTGAAAATG
GACTGTTACAACTCTCCCCCTAAAGGAATTTTCATCCCCAAAATCTTACCAGAAAAGAGGTTCGG
GTATGTTAGTAGTGTCGTATAAAAATTTTGTAACATAAATATTTTCATGGT
Found at i:38416259 original size:32 final size:32
Alignment explanation
Indices: 38416218--38416287 Score: 133
Period size: 32 Copynumber: 2.2 Consensus size: 32
38416208 GCTCATCTTA
38416218 TGCTTCTAGGGATACTTCTTGAGGATTGTTGT
1 TGCTTCTAGGGATACTTCTTGAGGATTGTTGT
38416250 TGCTTCTAGGGATACTTCTTGAGGATTGTTGT
1 TGCTTCTAGGGATACTTCTTGAGGATTGTTGT
38416282 T-CTTCT
1 TGCTTCT
38416288 TCACAATTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 5 0.13
32 33 0.87
ACGTcount: A:0.14, C:0.14, G:0.26, T:0.46
Consensus pattern (32 bp):
TGCTTCTAGGGATACTTCTTGAGGATTGTTGT
Found at i:38418977 original size:48 final size:48
Alignment explanation
Indices: 38418921--38419018 Score: 187
Period size: 48 Copynumber: 2.0 Consensus size: 48
38418911 TATCATTCAC
38418921 GTGATTATTCTCAAATTTATCATTGCATTCTTACTCTTGTCTGGTTTT
1 GTGATTATTCTCAAATTTATCATTGCATTCTTACTCTTGTCTGGTTTT
*
38418969 GTGATTATTCTCAAATTTCTCATTGCATTCTTACTCTTGTCTGGTTTT
1 GTGATTATTCTCAAATTTATCATTGCATTCTTACTCTTGTCTGGTTTT
38419017 GT
1 GT
38419019 CATAGCATTT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.17, C:0.17, G:0.13, T:0.52
Consensus pattern (48 bp):
GTGATTATTCTCAAATTTATCATTGCATTCTTACTCTTGTCTGGTTTT
Found at i:38427188 original size:75 final size:75
Alignment explanation
Indices: 38427099--38427266 Score: 239
Period size: 75 Copynumber: 2.2 Consensus size: 75
38427089 TGGTTTGTCC
* * * *
38427099 GACTAGCGCTGGGTGCAAATATTGTTTGTTTATCCTACTAGAGCTGTGCTCACTAGTTATTTCGT
1 GACTAGCGCTGGGTGCAAATATCGTTGGTTTATCCAACTAGAGCTGGGCTCACTAGTTATTTC-T
38427164 T-AGTTTATCA
65 TCAGTTTATCA
* *
38427174 GACTAGCGTTGGGTGCAAATATCGTTGGTTTATCCAACTAGAGCTGGGCTCACTATTTATTTCTT
1 GACTAGCGCTGGGTGCAAATATCGTTGGTTTATCCAACTAGAGCTGGGCTCACTAGTTATTTCTT
*
38427239 CAGTTTATCC
66 CAGTTTATCA
* *
38427249 GACTAACGCTGGGCGCAA
1 GACTAGCGCTGGGTGCAA
38427267 CTTCTGTCAG
Statistics
Matches: 82, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
74 2 0.02
75 80 0.98
ACGTcount: A:0.22, C:0.20, G:0.23, T:0.36
Consensus pattern (75 bp):
GACTAGCGCTGGGTGCAAATATCGTTGGTTTATCCAACTAGAGCTGGGCTCACTAGTTATTTCTT
CAGTTTATCA
Found at i:38427288 original size:75 final size:75
Alignment explanation
Indices: 38427099--38427308 Score: 210
Period size: 75 Copynumber: 2.8 Consensus size: 75
38427089 TGGTTTGTCC
* * * ** * * *
38427099 GACTAGCGCTGGGTGCAAATATTGTTTGTTTATCCTACTAGAGCTGTGCTCACTAGTTATTTCGT
1 GACTAACGCTGGGCGCAAATATCGTCAGTTTATCCAACTAGAGCTGGGCTCACTATTTATTTCGT
38427164 TAGTTTATCA
66 TAGTTTATCA
* * * **
38427174 GACTAGCGTTGGGTGCAAATATCGTTGGTTTATCCAACTAGAGCTGGGCTCACTATTTATTTC-T
1 GACTAACGCTGGGCGCAAATATCGTCAGTTTATCCAACTAGAGCTGGGCTCACTATTTATTTCGT
*
38427238 TCAGTTTATCC
66 T-AGTTTATCA
* * * * *
38427249 GACTAACGCTGGGCGCAACT-TCTGTCAGTTTGTCTAACTAGTGCTGGGCACAC-ATTTATT
1 GACTAACGCTGGGCGCAAATATC-GTCAGTTTATCCAACTAGAGCTGGGCTCACTATTTATT
38427309 GATTTATCCG
Statistics
Matches: 116, Mismatches: 17, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
74 11 0.09
75 105 0.91
ACGTcount: A:0.21, C:0.20, G:0.22, T:0.37
Consensus pattern (75 bp):
GACTAACGCTGGGCGCAAATATCGTCAGTTTATCCAACTAGAGCTGGGCTCACTATTTATTTCGT
TAGTTTATCA
Found at i:38434753 original size:17 final size:18
Alignment explanation
Indices: 38434728--38434764 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
38434718 TAAAATGAGA
*
38434728 TTTAGAGGTTTTAAGAAT
1 TTTAGAGGTTTTAAAAAT
38434746 TTTA-AGGTTTTAAAAAT
1 TTTAGAGGTTTTAAAAAT
38434763 TT
1 TT
38434765 AAAGAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.35, C:0.00, G:0.16, T:0.49
Consensus pattern (18 bp):
TTTAGAGGTTTTAAAAAT
Found at i:38439901 original size:11 final size:11
Alignment explanation
Indices: 38439848--38439902 Score: 60
Period size: 11 Copynumber: 4.9 Consensus size: 11
38439838 AAACTAATCC
38439848 TCTCTCAAATTT
1 TCTCTCAAA-TT
38439860 TCTCTC-AATT
1 TCTCTCAAATT
38439870 TGCTCTCAAATT
1 T-CTCTCAAATT
*
38439882 CCT-TCCAAATT
1 TCTCT-CAAATT
38439893 TCTCTCAAAT
1 TCTCTCAAAT
38439903 ACATATTTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
10 4 0.11
11 22 0.59
12 11 0.30
ACGTcount: A:0.25, C:0.29, G:0.02, T:0.44
Consensus pattern (11 bp):
TCTCTCAAATT
Found at i:38441941 original size:21 final size:21
Alignment explanation
Indices: 38441904--38441943 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
38441894 CAACTCTGAC
*
38441904 AACCAGATGCCCTACCGGAAG
1 AACCAGATGCCCGACCGGAAG
38441925 AACCAGAAT-CCCGACCGGA
1 AACCAG-ATGCCCGACCGGA
38441944 GGAGCCACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 15 0.88
22 2 0.12
ACGTcount: A:0.35, C:0.35, G:0.23, T:0.07
Consensus pattern (21 bp):
AACCAGATGCCCGACCGGAAG
Found at i:38442265 original size:21 final size:21
Alignment explanation
Indices: 38442239--38442360 Score: 145
Period size: 21 Copynumber: 5.8 Consensus size: 21
38442229 ACCCTAACTC
**
38442239 TAACCCTTAACTTAAAAACGG
1 TAACCCTTAACTTAAAAACCA
*
38442260 TAACCCTTAAATTAAAAACCA
1 TAACCCTTAACTTAAAAACCA
*
38442281 TAAACCCTTAACTTTAAAACCA
1 T-AACCCTTAACTTAAAAACCA
* * * *
38442303 TAACCTTTAAATAAAAAACCT
1 TAACCCTTAACTTAAAAACCA
* *
38442324 TAACACTTAACTTAAAAACCC
1 TAACCCTTAACTTAAAAACCA
38442345 TAACCCTTAACTTAAA
1 TAACCCTTAACTTAAA
38442361 TATAATTTGA
Statistics
Matches: 84, Mismatches: 16, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
21 65 0.77
22 19 0.23
ACGTcount: A:0.48, C:0.25, G:0.02, T:0.26
Consensus pattern (21 bp):
TAACCCTTAACTTAAAAACCA
Found at i:38442333 original size:42 final size:43
Alignment explanation
Indices: 38442239--38442354 Score: 153
Period size: 43 Copynumber: 2.7 Consensus size: 43
38442229 ACCCTAACTC
** *
38442239 TAACCCTTAACTTAAAAACGGTAACCCTTAAATTAAAAACCAT
1 TAACCCTTAACTTAAAAACCATAACCCTTAAATAAAAAACCAT
* * *
38442282 AAACCCTTAACTTTAAAACCATAACCTTTAAATAAAAAACC-T
1 TAACCCTTAACTTAAAAACCATAACCCTTAAATAAAAAACCAT
* *
38442324 TAACACTTAACTTAAAAACCCTAACCCTTAA
1 TAACCCTTAACTTAAAAACCATAACCCTTAA
38442355 CTTAAATATA
Statistics
Matches: 62, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
42 27 0.44
43 35 0.56
ACGTcount: A:0.47, C:0.25, G:0.02, T:0.26
Consensus pattern (43 bp):
TAACCCTTAACTTAAAAACCATAACCCTTAAATAAAAAACCAT
Found at i:38446016 original size:125 final size:126
Alignment explanation
Indices: 38445457--38446020 Score: 789
Period size: 126 Copynumber: 4.5 Consensus size: 126
38445447 CCCAAACATG
* *
38445457 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATACCATCCTG-
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCACGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* * * *
38445521 TTAGTAGCG-TTTTTATACTATTTGCTCAGAAACGTCAACTCAAAATTATTT-TTCTAGGAC
66 TT-GAAGCGTTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGAC
*
38445581 CTACTGTAGCAAAAGCGCGTCTACGAGGGCACGATTTCACAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCACGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* * *
38445646 TTGAAGCGTTTTTTAAACTATTTGCTCAGAAATGTCAACTAGAAATTATTTCTTCCAAGAC
66 TTGAAGCGTTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGAC
**
38445707 CTACTGTAGCAAAAGCGCGTCCACGAGGGTGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCACGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* * *
38445772 TTAAAGCGTTTTTTAAACTATTTGCTCACAAACGTCAACTCGAAAGTATTTCTTCCAGGAC
66 TTGAAGCGTTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGAC
* * * *
38445833 CTACTGTAGCAAAAGCGCGTCCACGAGGGAACTATTTCAGAAATTCTTCTCATAA-AGCATCTTG
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCACGATTTCACAAATTCTTCTCA-AATAGCATCCTG
* * *
38445897 CTTGAAGTGTTTTTTATACTATTTGCTCAAAAACGTCAACTCGAAATTATTT-TTCCAGGAC
65 CTTGAAGCGTTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGAC
* * * * * * * *
38445958 CTACTGTAGCAAAAGTGCATACACGTGGGCACGACTTCAGAAATCCTTCTGATAA-AGCATCCT
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCACGATTTCACAAATTCTTCTCA-AATAGCATCCT
38446021 ACTTTGATTT
Statistics
Matches: 397, Mismatches: 39, Indels: 7
0.90 0.09 0.02
Matches are distributed among these distances:
124 66 0.17
125 102 0.26
126 227 0.57
127 2 0.01
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.30
Consensus pattern (126 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCACGATTTCACAAATTCTTCTCAAATAGCATCCTGC
TTGAAGCGTTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGAC
Found at i:38447261 original size:16 final size:16
Alignment explanation
Indices: 38447240--38447271 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
38447230 TTGCTCCACT
*
38447240 CTTCCTTCTCTGCTCA
1 CTTCCTCCTCTGCTCA
38447256 CTTCCTCCTCTGCTCA
1 CTTCCTCCTCTGCTCA
38447272 TTCTTGATGA
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:0.06, C:0.47, G:0.06, T:0.41
Consensus pattern (16 bp):
CTTCCTCCTCTGCTCA
Found at i:38448452 original size:25 final size:25
Alignment explanation
Indices: 38448422--38448507 Score: 118
Period size: 25 Copynumber: 3.4 Consensus size: 25
38448412 TTCGCCATAT
*
38448422 AGGCTTTCCAGATAATATGTCACAA
1 AGGCTTTCCAGATAATATGCCACAA
* * * *
38448447 AAGCTTTCAAGATAACATGCCATAA
1 AGGCTTTCCAGATAATATGCCACAA
*
38448472 AGGCTTTCCAGATAATATACCACAA
1 AGGCTTTCCAGATAATATGCCACAA
38448497 AGGCTTTCCAG
1 AGGCTTTCCAG
38448508 TTATCTGTCA
Statistics
Matches: 51, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 51 1.00
ACGTcount: A:0.37, C:0.22, G:0.15, T:0.26
Consensus pattern (25 bp):
AGGCTTTCCAGATAATATGCCACAA
Found at i:38450155 original size:50 final size:50
Alignment explanation
Indices: 38450074--38450173 Score: 182
Period size: 50 Copynumber: 2.0 Consensus size: 50
38450064 CAATGAGTAA
*
38450074 CATTTGTTTCTATTTTGATTTACGTGTAAAAACCATATAAGAAAAATCAT
1 CATTTGTTTCTATTTTGATTTACGTGCAAAAACCATATAAGAAAAATCAT
*
38450124 CATTTGTTTCTATTTTGATTTGCGTGCAAAAACCATATAAGAAAAATCAT
1 CATTTGTTTCTATTTTGATTTACGTGCAAAAACCATATAAGAAAAATCAT
38450174 ACAAATTATA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.39
Consensus pattern (50 bp):
CATTTGTTTCTATTTTGATTTACGTGCAAAAACCATATAAGAAAAATCAT
Found at i:38473190 original size:24 final size:24
Alignment explanation
Indices: 38473155--38473231 Score: 86
Period size: 24 Copynumber: 3.2 Consensus size: 24
38473145 GTACATAGAC
*
38473155 GAAGACGGGGGT-GAGGATGAAGAT
1 GAAGACGAGGGTCGA-GATGAAGAT
38473179 GAAGACGAGGGTCGAGATGAAGAT
1 GAAGACGAGGGTCGAGATGAAGAT
* * *
38473203 GAATACAAGGGTCAATG-TGAAGAT
1 GAAGACGAGGGTCGA-GATGAAGAT
38473227 GAAGA
1 GAAGA
38473232 TAATGAATAG
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
24 43 0.93
25 3 0.07
ACGTcount: A:0.39, C:0.06, G:0.40, T:0.14
Consensus pattern (24 bp):
GAAGACGAGGGTCGAGATGAAGAT
Found at i:38473807 original size:39 final size:41
Alignment explanation
Indices: 38473683--38473817 Score: 145
Period size: 40 Copynumber: 3.4 Consensus size: 41
38473673 GCGTTTGGAT
* * *
38473683 AAAAACGCCGCTAAAAATCAATCATTAACGGCGCTA-TCTA
1 AAAAACGCCGCTAAAAATCAAGCATTAGCGGCGCTATTCCA
* * * *
38473723 AAAAACGCCGCTAAAAATCAAGTATTAGCTGCGCTTTTTC-
1 AAAAACGCCGCTAAAAATCAAGCATTAGCGGCGCTATTCCA
* *
38473763 GAAAACGCCGCTAAAAAT-GAGCATTAGCGGCG-TATTCCA
1 AAAAACGCCGCTAAAAATCAAGCATTAGCGGCGCTATTCCA
*
38473802 AAAAACGTCGC-AAAAA
1 AAAAACGCCGCTAAAAA
38473818 CCTAAACCTA
Statistics
Matches: 78, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
38 9 0.12
39 20 0.26
40 48 0.62
41 1 0.01
ACGTcount: A:0.41, C:0.23, G:0.16, T:0.20
Consensus pattern (41 bp):
AAAAACGCCGCTAAAAATCAAGCATTAGCGGCGCTATTCCA
Found at i:38473983 original size:41 final size:41
Alignment explanation
Indices: 38473855--38474009 Score: 145
Period size: 41 Copynumber: 3.8 Consensus size: 41
38473845 AGTTTTGGGG
* * * * * *
38473855 ATTTAGCGACGTATTTT-AAGAAGCGCTGCTAAAGACCCAAGC
1 ATTTAGCGGCGT-TTTTGAAGAAGCGCCGCTAATG-CTCAGGT
* * *
38473897 A-TTAGCGGTGTTTTTGAAGAAGCGCCGCTAATGTTCTGGT
1 ATTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCAGGT
38473937 ATTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCA-GT
1 ATTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCAGGT
* * * *
38473977 GCTTTAGTGGCGGTTTTGAACAAGCGCCGCTAA
1 -ATTTAGCGGCGTTTTTGAAGAAGCGCCGCTAA
38474010 AAACATTTTA
Statistics
Matches: 94, Mismatches: 16, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
40 9 0.10
41 84 0.89
42 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (41 bp):
ATTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCAGGT
Found at i:38474333 original size:15 final size:15
Alignment explanation
Indices: 38474296--38474329 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
38474286 AGGGTTTTTA
38474296 GTTTAGGGAGTATGT
1 GTTTAGGGAGTATGT
*
38474311 GTTTAGGGATTATG-
1 GTTTAGGGAGTATGT
38474325 GTTTA
1 GTTTA
38474330 AGGGTTGGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.21, C:0.00, G:0.35, T:0.44
Consensus pattern (15 bp):
GTTTAGGGAGTATGT
Found at i:38474350 original size:21 final size:20
Alignment explanation
Indices: 38474316--38474356 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
38474306 TATGTGTTTA
*
38474316 GGGATTATGGTTTAAGGGTT
1 GGGATTAAGGTTTAAGGGTT
*
38474336 GGGATTTAAGGTTTAGGGGTT
1 GGGA-TTAAGGTTTAAGGGTT
38474357 AAAGGGTTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.20, C:0.00, G:0.41, T:0.39
Consensus pattern (20 bp):
GGGATTAAGGTTTAAGGGTT
Found at i:38474366 original size:15 final size:15
Alignment explanation
Indices: 38474324--38474381 Score: 73
Period size: 15 Copynumber: 3.9 Consensus size: 15
38474314 TAGGGATTAT
38474324 GGTTTAAGGGTT-GG
1 GGTTTAAGGGTTAGG
* *
38474338 GATTTAAGGTTTAGG
1 GGTTTAAGGGTTAGG
*
38474353 GGTTAAAGGGTTAGG
1 GGTTTAAGGGTTAGG
*
38474368 GGTTTAGGGGTTAG
1 GGTTTAAGGGTTAG
38474382 ACATGTTAGG
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
14 10 0.28
15 26 0.72
ACGTcount: A:0.21, C:0.00, G:0.45, T:0.34
Consensus pattern (15 bp):
GGTTTAAGGGTTAGG
Found at i:38474602 original size:15 final size:15
Alignment explanation
Indices: 38474582--38474613 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
38474572 TATTTTAAGG
38474582 TTTAGGGAGTATGGA
1 TTTAGGGAGTATGGA
*
38474597 TTTAGGGATTATGGA
1 TTTAGGGAGTATGGA
38474612 TT
1 TT
38474614 AGCGATTATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.25, C:0.00, G:0.34, T:0.41
Consensus pattern (15 bp):
TTTAGGGAGTATGGA
Found at i:38474620 original size:14 final size:15
Alignment explanation
Indices: 38474591--38474628 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
38474581 GTTTAGGGAG
*
38474591 TATGGATTTAGGGAT
1 TATGGATTTAGCGAT
38474606 TATGGA-TTAGCGAT
1 TATGGATTTAGCGAT
38474620 TATGG-TTTA
1 TATGGATTTA
38474629 AGGGTTGGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.26, C:0.03, G:0.29, T:0.42
Consensus pattern (15 bp):
TATGGATTTAGCGAT
Found at i:38474647 original size:21 final size:22
Alignment explanation
Indices: 38474575--38474664 Score: 60
Period size: 21 Copynumber: 4.2 Consensus size: 22
38474565 GAGTTCATAT
* *
38474575 TTTAAGGTTT-AGGGAGTATGGA
1 TTTAAGGTTTAAGGG-TTAGGGA
* * * * *
38474597 TTTAGGGATTATGGATTAGCGA
1 TTTAAGGTTTAAGGGTTAGGGA
*
38474619 -TTATGGTTTAAGGGTT-GGGA
1 TTTAAGGTTTAAGGGTTAGGGA
* *
38474639 TTTAAGGTTTAGGGGTTAGGGG
1 TTTAAGGTTTAAGGGTTAGGGA
38474661 TTTA
1 TTTA
38474665 GGGGTTAGAT
Statistics
Matches: 50, Mismatches: 15, Indels: 6
0.70 0.21 0.08
Matches are distributed among these distances:
20 3 0.06
21 26 0.52
22 19 0.38
23 2 0.04
ACGTcount: A:0.23, C:0.01, G:0.37, T:0.39
Consensus pattern (22 bp):
TTTAAGGTTTAAGGGTTAGGGA
Found at i:38474664 original size:15 final size:15
Alignment explanation
Indices: 38474644--38474672 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
38474634 TGGGATTTAA
38474644 GGTTTAGGGGTTAGG
1 GGTTTAGGGGTTAGG
38474659 GGTTTAGGGGTTAG
1 GGTTTAGGGGTTAG
38474673 ATGTTAGGGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.00, G:0.52, T:0.34
Consensus pattern (15 bp):
GGTTTAGGGGTTAGG
Found at i:38474672 original size:22 final size:22
Alignment explanation
Indices: 38474630--38474693 Score: 60
Period size: 21 Copynumber: 3.0 Consensus size: 22
38474620 TATGGTTTAA
* *
38474630 GGGTT-GGGATTTAAGGTTTAG
1 GGGTTAGGGGTTTAAGGGTTAG
*
38474651 GGGTTAGGGGTTTAGGGGTTAG
1 GGGTTAGGGGTTTAAGGGTTAG
** *
38474673 ATGTTA-GGGTTTAAGAGTTAG
1 GGGTTAGGGGTTTAAGGGTTAG
38474694 AGATTTAAGG
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
21 18 0.51
22 17 0.49
ACGTcount: A:0.20, C:0.00, G:0.44, T:0.36
Consensus pattern (22 bp):
GGGTTAGGGGTTTAAGGGTTAG
Found at i:38476565 original size:12 final size:12
Alignment explanation
Indices: 38476544--38476582 Score: 69
Period size: 12 Copynumber: 3.2 Consensus size: 12
38476534 TTTTGCTTAA
*
38476544 ACTGGATTGTAG
1 ACTGGTTTGTAG
38476556 ACTGGTTTGTAG
1 ACTGGTTTGTAG
38476568 ACTGGTTTGTAG
1 ACTGGTTTGTAG
38476580 ACT
1 ACT
38476583 CTTTTATAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.21, C:0.10, G:0.31, T:0.38
Consensus pattern (12 bp):
ACTGGTTTGTAG
Found at i:38477212 original size:20 final size:20
Alignment explanation
Indices: 38477187--38477225 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
38477177 CAAGGTAAAG
*
38477187 TCTTCCCTTTCCCGATTCGA
1 TCTTCCCTTTCCAGATTCGA
38477207 TCTTCCCTTTCCAGATTCG
1 TCTTCCCTTTCCAGATTCG
38477226 GAACTTAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.10, C:0.38, G:0.10, T:0.41
Consensus pattern (20 bp):
TCTTCCCTTTCCAGATTCGA
Found at i:38477288 original size:10 final size:10
Alignment explanation
Indices: 38477273--38477303 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
38477263 TGTGGTGGAC
*
38477273 TTGCTTGACT
1 TTGCTTAACT
38477283 TTGCTTAACT
1 TTGCTTAACT
38477293 TTGCTTAACT
1 TTGCTTAACT
38477303 T
1 T
38477304 ACATTATTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.16, C:0.19, G:0.13, T:0.52
Consensus pattern (10 bp):
TTGCTTAACT
Found at i:38479343 original size:42 final size:42
Alignment explanation
Indices: 38479164--38479370 Score: 249
Period size: 43 Copynumber: 4.9 Consensus size: 42
38479154 CGTTTTCAGA
* * *
38479164 AAAGCGCCGCTAAAGGTCTAT--TCTATAGCGGCGCTTGTGTG
1 AAAGCGCCGCTAAAGGTCT-TGGTCTTTAGCGGCGTTTGTGGG
* * * *
38479205 AAAACTGTCGCTAAAGGTCATGGTCTTTAGTGGCGTTTGTGGG
1 AAAGC-GCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGG
* *
38479248 ACAAGCGCTGCTAAAGGTCTTGCTCTTTAGCGGCGTTTGTGGG
1 A-AAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGG
**
38479291 AATATAGCCGCTAAAGGTCTTGGTCTTTAGCGGCG-TTGTGGG
1 AA-AGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGG
38479333 AATAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTT
1 AA-AGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTT
38479371 ATTTATAAAA
Statistics
Matches: 141, Mismatches: 19, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
41 5 0.04
42 53 0.38
43 80 0.57
44 3 0.02
ACGTcount: A:0.19, C:0.19, G:0.31, T:0.30
Consensus pattern (42 bp):
AAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGG
Found at i:38479348 original size:85 final size:85
Alignment explanation
Indices: 38479165--38479370 Score: 267
Period size: 85 Copynumber: 2.4 Consensus size: 85
38479155 GTTTTCAGAA
* * * *
38479165 AAGCGCCGCTAAAGGTCTAT-TCTATAGCGGCGCTTGTGTGAAAACTGTCGCTAAAGGTCATGGT
1 AAGCGCCGCTAAAGGTCT-TGTCTTTAGCGGCGTTTGTGGGAAAACTGCCGCTAAAGGTCATGGT
*
38479229 CTTTAGTGGCGTTTGTGGGAC
65 CTTTAGCGGCGTTTGTGGGAC
* * *
38479250 AAGCGCTGCTAAAGGTCTTGCTCTTTAGCGGCGTTTGTGGGAATA-TAGCCGCTAAAGGTCTTGG
1 AAGCGCCGCTAAAGGTCTTG-TCTTTAGCGGCGTTTGTGGGAAAACT-GCCGCTAAAGGTCATGG
38479314 TCTTTAGCGGCG-TTGTGGGA-
64 TCTTTAGCGGCGTTTGTGGGAC
38479334 ATAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTT
1 A-AGCGCCGCTAAAGGTCTT-GTCTTTAGCGGCGTTT
38479371 ATTTATAAAA
Statistics
Matches: 107, Mismatches: 9, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
84 2 0.02
85 58 0.54
86 47 0.44
ACGTcount: A:0.19, C:0.19, G:0.32, T:0.31
Consensus pattern (85 bp):
AAGCGCCGCTAAAGGTCTTGTCTTTAGCGGCGTTTGTGGGAAAACTGCCGCTAAAGGTCATGGTC
TTTAGCGGCGTTTGTGGGAC
Found at i:38481278 original size:29 final size:27
Alignment explanation
Indices: 38481193--38481281 Score: 85
Period size: 29 Copynumber: 3.3 Consensus size: 27
38481183 CACTAAGGCG
* *
38481193 TAGTAGGCTTTGTG-TCGGTG-TATATT
1 TAGTAGGCTTCGTGCT-GGTGTTTTATT
*
38481219 TAGTAGGCTTCGTGCTGGTGTTTT-TGG
1 TAGTAGGCTTCGTGCTGGTGTTTTAT-T
*
38481246 TAGTAGGCACTTTGTGCTGGTGTTTTATT
1 TAGTAGG--CTTCGTGCTGGTGTTTTATT
38481275 TAGTAGG
1 TAGTAGG
38481282 TACTATGTAT
Statistics
Matches: 52, Mismatches: 5, Indels: 9
0.79 0.08 0.14
Matches are distributed among these distances:
26 18 0.35
27 10 0.19
29 23 0.44
30 1 0.02
ACGTcount: A:0.13, C:0.09, G:0.33, T:0.45
Consensus pattern (27 bp):
TAGTAGGCTTCGTGCTGGTGTTTTATT
Found at i:38490587 original size:261 final size:261
Alignment explanation
Indices: 38490123--38490644 Score: 1044
Period size: 261 Copynumber: 2.0 Consensus size: 261
38490113 GAGCGATTTG
38490123 ATTCAATTTTCAAGCATCAACCTGTGATGCCAGAAAAGGGTTTTAACCTGAAGAGCAATGATGTG
1 ATTCAATTTTCAAGCATCAACCTGTGATGCCAGAAAAGGGTTTTAACCTGAAGAGCAATGATGTG
38490188 ATGGTTGTCCCTGTGTCGATTAGAAAGATAATCAATGCTCTGAAGTGGGAACGATTCTGTGATGC
66 ATGGTTGTCCCTGTGTCGATTAGAAAGATAATCAATGCTCTGAAGTGGGAACGATTCTGTGATGC
38490253 TCGTTCACTTCCTGATGATGAACTAGTTCGAGAATTCTATGCTAGTTTGATTACACAAGATGCTA
131 TCGTTCACTTCCTGATGATGAACTAGTTCGAGAATTCTATGCTAGTTTGATTACACAAGATGCTA
38490318 CTGAAGTCATCGTTCGAAAGAAAAAGGTATCTCTTACTTCTGAGTCCATCAATGATTTGTTTAAT
196 CTGAAGTCATCGTTCGAAAGAAAAAGGTATCTCTTACTTCTGAGTCCATCAATGATTTGTTTAAT
38490383 C
261 C
38490384 ATTCAATTTTCAAGCATCAACCTGTGATGCCAGAAAAGGGTTTTAACCTGAAGAGCAATGATGTG
1 ATTCAATTTTCAAGCATCAACCTGTGATGCCAGAAAAGGGTTTTAACCTGAAGAGCAATGATGTG
38490449 ATGGTTGTCCCTGTGTCGATTAGAAAGATAATCAATGCTCTGAAGTGGGAACGATTCTGTGATGC
66 ATGGTTGTCCCTGTGTCGATTAGAAAGATAATCAATGCTCTGAAGTGGGAACGATTCTGTGATGC
38490514 TCGTTCACTTCCTGATGATGAACTAGTTCGAGAATTCTATGCTAGTTTGATTACACAAGATGCTA
131 TCGTTCACTTCCTGATGATGAACTAGTTCGAGAATTCTATGCTAGTTTGATTACACAAGATGCTA
38490579 CTGAAGTCATCGTTCGAAAGAAAAAGGTATCTCTTACTTCTGAGTCCATCAATGATTTGTTTAAT
196 CTGAAGTCATCGTTCGAAAGAAAAAGGTATCTCTTACTTCTGAGTCCATCAATGATTTGTTTAAT
38490644 C
261 C
38490645 TACTTGATGT
Statistics
Matches: 261, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
261 261 1.00
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (261 bp):
ATTCAATTTTCAAGCATCAACCTGTGATGCCAGAAAAGGGTTTTAACCTGAAGAGCAATGATGTG
ATGGTTGTCCCTGTGTCGATTAGAAAGATAATCAATGCTCTGAAGTGGGAACGATTCTGTGATGC
TCGTTCACTTCCTGATGATGAACTAGTTCGAGAATTCTATGCTAGTTTGATTACACAAGATGCTA
CTGAAGTCATCGTTCGAAAGAAAAAGGTATCTCTTACTTCTGAGTCCATCAATGATTTGTTTAAT
C
Found at i:38497487 original size:24 final size:24
Alignment explanation
Indices: 38497453--38497499 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
38497443 TACATAGACG
*
38497453 AAGACGGGGGT-GAGGATGAAGATA
1 AAGACGAGGGTCGA-GATGAAGATA
38497477 AAGACGAGGGTCGAGATGAAGAT
1 AAGACGAGGGTCGAGATGAAGAT
38497500 GATATCTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 19 0.90
25 2 0.10
ACGTcount: A:0.38, C:0.06, G:0.43, T:0.13
Consensus pattern (24 bp):
AAGACGAGGGTCGAGATGAAGATA
Found at i:38499669 original size:29 final size:28
Alignment explanation
Indices: 38499606--38499672 Score: 75
Period size: 29 Copynumber: 2.4 Consensus size: 28
38499596 CGTCGGTGTA
38499606 TATTTAGT-AGGCTTCGTGCCGGTGTTT
1 TATTTAGTAAGGCTTCGTGCCGGTGTTT
* * *
38499633 T-TGGTAGTAAGCGCTTTGTGCTGGTGTTT
1 TAT-TTAGTAAG-GCTTCGTGCCGGTGTTT
38499662 TATTTAGTAAG
1 TATTTAGTAAG
38499673 TACTATATAT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 5 0.16
28 2 0.06
29 23 0.72
30 1 0.03
ACGTcount: A:0.15, C:0.10, G:0.30, T:0.45
Consensus pattern (28 bp):
TATTTAGTAAGGCTTCGTGCCGGTGTTT
Found at i:38500999 original size:16 final size:17
Alignment explanation
Indices: 38500974--38501008 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
38500964 CCTTTTCCAA
38500974 TCATCCCTCATCC-CTC
1 TCATCCCTCATCCTCTC
*
38500990 TCATCTCTCATCCTCTC
1 TCATCCCTCATCCTCTC
38501007 TC
1 TC
38501009 TCGACTCTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.11, C:0.51, G:0.00, T:0.37
Consensus pattern (17 bp):
TCATCCCTCATCCTCTC
Found at i:38506254 original size:23 final size:23
Alignment explanation
Indices: 38506228--38506303 Score: 125
Period size: 23 Copynumber: 3.3 Consensus size: 23
38506218 ATAAGTGCCA
38506228 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
38506251 CACTGATATGTAGTCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
38506274 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
38506297 CACTGAT
1 CACTGAT
38506304 CAATAACACT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:38506403 original size:8 final size:8
Alignment explanation
Indices: 38506390--38506417 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
38506380 ACTCGGGACT
38506390 CACTGTAA
1 CACTGTAA
38506398 CACTGTAA
1 CACTGTAA
38506406 CACTGTAA
1 CACTGTAA
38506414 CACT
1 CACT
38506418 AGTCTCTAGT
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:0.36, C:0.29, G:0.11, T:0.25
Consensus pattern (8 bp):
CACTGTAA
Found at i:38506563 original size:18 final size:17
Alignment explanation
Indices: 38506537--38506575 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
38506527 ATTTTCCTTC
38506537 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
38506554 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
38506572 CACA
1 CACA
38506576 ATTTATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:38517796 original size:12 final size:12
Alignment explanation
Indices: 38517771--38517809 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
38517761 ACTCGCTTCT
* *
38517771 TTACTTACTCAC
1 TTACTTGCTTAC
*
38517783 TTACTTGTTTAC
1 TTACTTGCTTAC
38517795 TTACTTGCTTAC
1 TTACTTGCTTAC
38517807 TTA
1 TTA
38517810 AATAACTCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.21, C:0.23, G:0.05, T:0.51
Consensus pattern (12 bp):
TTACTTGCTTAC
Found at i:38518126 original size:50 final size:50
Alignment explanation
Indices: 38518058--38518246 Score: 189
Period size: 50 Copynumber: 3.7 Consensus size: 50
38518048 CTTTCTGTAC
* * **
38518058 TGCCAATGCCATATCCCAGATATGGTCTTACATAGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATAGGACCTCTCATATCGG
* **** *
38518108 TGCCCATGCCATGTCCCAGACATGGTCTTATGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATAGGACCTCTCATATCGG
* * * * *
38518158 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTGTAATCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATAGGACCTC---TCATATC---GG
38518214 TGCCAATGCCATGTCCCAGACATGGTCTTACAT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAT
38518247 GGGATCTCAT
Statistics
Matches: 115, Mismatches: 18, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
50 76 0.66
53 6 0.05
56 33 0.29
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATAGGACCTCTCATATCGG
Found at i:38518626 original size:30 final size:30
Alignment explanation
Indices: 38518592--38518649 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
38518582 CCTTGACTCG
38518592 AACTTTGGAAAAATTATGA-TTTTGCCCCTA
1 AACTTTGGAAAAATTAT-ACTTTTGCCCCTA
* * *
38518622 AACTTTTGCATAATTATACTTTTGCCCC
1 AACTTTGGAAAAATTATACTTTTGCCCC
38518650 AAAGCTCGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 1 0.04
30 23 0.96
ACGTcount: A:0.29, C:0.21, G:0.10, T:0.40
Consensus pattern (30 bp):
AACTTTGGAAAAATTATACTTTTGCCCCTA
Found at i:38519147 original size:17 final size:19
Alignment explanation
Indices: 38519125--38519161 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
38519115 CTAAATGACT
38519125 AAAATA-CC-TTTCACTTA
1 AAAATATCCATTTCACTTA
38519142 AAAATATCCTATTTCACTTA
1 AAAATATCC-ATTTCACTTA
38519162 TCTCATGTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
17 6 0.35
18 2 0.12
20 9 0.53
ACGTcount: A:0.41, C:0.22, G:0.00, T:0.38
Consensus pattern (19 bp):
AAAATATCCATTTCACTTA
Found at i:38523221 original size:19 final size:18
Alignment explanation
Indices: 38523197--38523243 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 18
38523187 ATATAGAAAG
38523197 TATTATAATAATATTA-AAT
1 TATTATAA-AA-ATTATAAT
38523216 TATTATTAAAAATTATAAT
1 TATTA-TAAAAATTATAAT
*
38523235 TTTTATAAA
1 TATTATAAA
38523244 TTTATGCATG
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 8 0.32
19 14 0.56
20 3 0.12
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
TATTATAAAAATTATAAT
Found at i:38535853 original size:22 final size:22
Alignment explanation
Indices: 38535819--38535872 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
38535809 ACCGTGTCCT
*
38535819 GAAACACTAATAGTACCCAGAAC
1 GAAAC-CTTATAGTACCCAGAAC
* *
38535842 GAAATCTTATAGTACCCAGAAT
1 GAAACCTTATAGTACCCAGAAC
38535864 GAAACCTTA
1 GAAACCTTA
38535873 CACACCATAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
22 23 0.85
23 4 0.15
ACGTcount: A:0.44, C:0.22, G:0.13, T:0.20
Consensus pattern (22 bp):
GAAACCTTATAGTACCCAGAAC
Found at i:38537584 original size:24 final size:24
Alignment explanation
Indices: 38537557--38537607 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
38537547 TTTCATCGTG
38537557 TTCATTTTCCTTACAAAATTATAC
1 TTCATTTTCCTTACAAAATTATAC
38537581 TTCATTTTCCTTACAAAATTATAC
1 TTCATTTTCCTTACAAAATTATAC
38537605 TTC
1 TTC
38537608 TTTCAAGTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.31, C:0.22, G:0.00, T:0.47
Consensus pattern (24 bp):
TTCATTTTCCTTACAAAATTATAC
Found at i:38543284 original size:15 final size:16
Alignment explanation
Indices: 38543275--38543316 Score: 68
Period size: 15 Copynumber: 2.7 Consensus size: 16
38543265 AAAATTAGAG
38543275 AAATTAAAATTAAATA
1 AAATTAAAATTAAATA
*
38543291 AAATTAAAA-TAACTA
1 AAATTAAAATTAAATA
38543306 AAATTAAAATT
1 AAATTAAAATT
38543317 TTTATCTATA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 14 0.58
16 10 0.42
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (16 bp):
AAATTAAAATTAAATA
Found at i:38548006 original size:54 final size:54
Alignment explanation
Indices: 38547938--38548076 Score: 183
Period size: 54 Copynumber: 2.6 Consensus size: 54
38547928 CATGGTCGTA
*
38547938 TCCCAGCCCATGTCTCCTCCCATGTAACTCACTAACTTGAGACACACGA-CTATG
1 TCCCAGCCCATGTCTCCTCCCATGTAACTCACTAAATTGAGACACACGATC-ATG
* ** * *
38547992 TCCCAGCCCATGTCTCCGCCTGTGTAACTCACTAAATTGAGACACATGATCGTG
1 TCCCAGCCCATGTCTCCTCCCATGTAACTCACTAAATTGAGACACACGATCATG
*
38548046 TCTCAGCCCATGTCT-CTACCCATGTAACTCA
1 TCCCAGCCCATGTCTCCT-CCCATGTAACTCA
38548077 ATGACTTGGG
Statistics
Matches: 73, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
53 1 0.01
54 71 0.97
55 1 0.01
ACGTcount: A:0.24, C:0.35, G:0.14, T:0.26
Consensus pattern (54 bp):
TCCCAGCCCATGTCTCCTCCCATGTAACTCACTAAATTGAGACACACGATCATG
Found at i:38549216 original size:13 final size:13
Alignment explanation
Indices: 38549198--38549234 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
38549188 CCTTTTACTA
38549198 TTTCTTTCTTTCT
1 TTTCTTTCTTTCT
38549211 TTTCTTAT-TTTCT
1 TTTCTT-TCTTTCT
38549224 TTTCTTTCTTT
1 TTTCTTTCTTT
38549235 AATGTTTGCA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 1 0.05
13 20 0.91
14 1 0.05
ACGTcount: A:0.03, C:0.19, G:0.00, T:0.78
Consensus pattern (13 bp):
TTTCTTTCTTTCT
Found at i:38553106 original size:14 final size:14
Alignment explanation
Indices: 38553087--38553116 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
38553077 GTCACACATA
38553087 CATAGCCCATCATC
1 CATAGCCCATCATC
38553101 CATAGCCCATCATC
1 CATAGCCCATCATC
38553115 CA
1 CA
38553117 CTTAGGATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.30, C:0.43, G:0.07, T:0.20
Consensus pattern (14 bp):
CATAGCCCATCATC
Found at i:38554928 original size:25 final size:25
Alignment explanation
Indices: 38554895--38555000 Score: 81
Period size: 25 Copynumber: 4.2 Consensus size: 25
38554885 CTCATGAGAG
*
38554895 CTTATCGATTCTCAGCTCGTATGAA
1 CTTACCGATTCTCAGCTCGTATGAA
* * *
38554920 CTTACCGATT-GCAGCTCGTAAGAG
1 CTTACCGATTCTCAGCTCGTATGAA
* ** * *
38554944 TTTTTCGATTCTCAGCTCGTTTGAG
1 CTTACCGATTCTCAGCTCGTATGAA
*
38554969 C-TATCTCGATTCTCAGCTCATATGAA
1 CTTA-C-CGATTCTCAGCTCGTATGAA
*
38554995 ATTACC
1 CTTACC
38555001 AATTGTAGCT
Statistics
Matches: 60, Mismatches: 17, Indels: 8
0.71 0.20 0.09
Matches are distributed among these distances:
24 19 0.32
25 21 0.35
26 18 0.30
27 2 0.03
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.36
Consensus pattern (25 bp):
CTTACCGATTCTCAGCTCGTATGAA
Found at i:38555027 original size:75 final size:75
Alignment explanation
Indices: 38554899--38555038 Score: 183
Period size: 75 Copynumber: 1.9 Consensus size: 75
38554889 TGAGAGCTTA
* * * ** *
38554899 TCGATTCTCAGCTCGTATGAACTTACCGATTGCAGCTCGTAAGAGTTTTTCGATTC-TCAGCTCG
1 TCGATTCTCAGCTCATATGAAATTACCAATTGCAGCTCGTAAGAGCATATCGATTCAT-AGCTCG
38554963 TTTGAGCTATC
65 TTTGAGCTATC
* * *
38554974 TCGATTCTCAGCTCATATGAAATTACCAATTGTAGCTTGTGAGAGCATATCGATTCATAGCTCGT
1 TCGATTCTCAGCTCATATGAAATTACCAATTGCAGCTCGTAAGAGCATATCGATTCATAGCTCGT
38555039 ATAAGCATAC
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
75 54 0.98
76 1 0.02
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.35
Consensus pattern (75 bp):
TCGATTCTCAGCTCATATGAAATTACCAATTGCAGCTCGTAAGAGCATATCGATTCATAGCTCGT
TTGAGCTATC
Found at i:38562223 original size:48 final size:48
Alignment explanation
Indices: 38562152--38562348 Score: 277
Period size: 48 Copynumber: 4.1 Consensus size: 48
38562142 TATTATGCGT
* * * *
38562152 ACCGATGTTCTGTTATGACACAAGAGTGGCACGGATTGTGTGCAGGCC
1 ACCGATATTCTGTTATGATACAAGGGTGGCACGGACTGTGTGCAGGCC
*
38562200 ACCGATATTCTGTTATGATACAAGGGTGGCACGGACTGTGTGCAAGCC
1 ACCGATATTCTGTTATGATACAAGGGTGGCACGGACTGTGTGCAGGCC
* *
38562248 ACCGATATTTTGTTATGATACAAGGGTGGCACGGACTGTGTGCAGGAC
1 ACCGATATTCTGTTATGATACAAGGGTGGCACGGACTGTGTGCAGGCC
** * * * *
38562296 ACTAATAATCTGTTAAGATACAAGGGTGGCACGGACTATGTGCAGGCT
1 ACCGATATTCTGTTATGATACAAGGGTGGCACGGACTGTGTGCAGGCC
38562344 ACCGA
1 ACCGA
38562349 GAAATCTGTT
Statistics
Matches: 131, Mismatches: 18, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 131 1.00
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.25
Consensus pattern (48 bp):
ACCGATATTCTGTTATGATACAAGGGTGGCACGGACTGTGTGCAGGCC
Found at i:38566181 original size:25 final size:24
Alignment explanation
Indices: 38566104--38566190 Score: 129
Period size: 24 Copynumber: 3.6 Consensus size: 24
38566094 ACAGCTTGTG
38566104 AGAGCTTACCGATTGCAACTCATA
1 AGAGCTTACCGATTGCAACTCATA
*
38566128 AGAGCTTAACGATTGCAACTCATA
1 AGAGCTTACCGATTGCAACTCATA
* *
38566152 AGAGCTTACCAATTCTCAACTCATA
1 AGAGCTTACCGATT-GCAACTCATA
*
38566177 TGAGCTTACCGATT
1 AGAGCTTACCGATT
38566191 TGCAGCTCGT
Statistics
Matches: 56, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
24 35 0.62
25 21 0.38
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.28
Consensus pattern (24 bp):
AGAGCTTACCGATTGCAACTCATA
Found at i:38568409 original size:13 final size:13
Alignment explanation
Indices: 38568391--38568416 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
38568381 TTTTCTATAA
38568391 AAAATTTAAATTT
1 AAAATTTAAATTT
38568404 AAAATTTAAATTT
1 AAAATTTAAATTT
38568417 TGTCTAGAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
AAAATTTAAATTT
Found at i:38570577 original size:19 final size:18
Alignment explanation
Indices: 38570542--38570576 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
38570532 ATTGCACCCT
38570542 AATTTATACCTTATTTTC
1 AATTTATACCTTATTTTC
38570560 AATTTGATA-CTTATTTT
1 AATTT-ATACCTTATTTT
38570577 TTTGTCTGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 13 0.81
19 3 0.19
ACGTcount: A:0.29, C:0.11, G:0.03, T:0.57
Consensus pattern (18 bp):
AATTTATACCTTATTTTC
Found at i:38570632 original size:10 final size:10
Alignment explanation
Indices: 38570617--38570641 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
38570607 ACCATTGTCC
38570617 AAATTATCCA
1 AAATTATCCA
38570627 AAATTATCCA
1 AAATTATCCA
38570637 AAATT
1 AAATT
38570642 TTAACACCGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (10 bp):
AAATTATCCA
Found at i:38571439 original size:6 final size:6
Alignment explanation
Indices: 38571428--38571460 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
38571418 ATTATTTTTA
38571428 ATTAAT ATTAAT ATTAAT ATTAAT ATTAA- ATTA
1 ATTAAT ATTAAT ATTAAT ATTAAT ATTAAT ATTA
38571461 TAAAATAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 4 0.15
6 23 0.85
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
ATTAAT
Found at i:38571448 original size:25 final size:23
Alignment explanation
Indices: 38571394--38571448 Score: 65
Period size: 25 Copynumber: 2.3 Consensus size: 23
38571384 GGGGAGGGAA
* *
38571394 AATATTTTTATTATTGTTAATAT
1 AATATTTTTATTAATATTAATAT
38571417 AATTATTTTTAATTAATATTAATATT
1 AA-TATTTTT-ATTAATATTAATA-T
38571443 AATATT
1 AATATT
38571449 AATATTAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 2 0.07
24 7 0.26
25 15 0.56
26 3 0.11
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (23 bp):
AATATTTTTATTAATATTAATAT
Found at i:38572180 original size:10 final size:10
Alignment explanation
Indices: 38572167--38572218 Score: 59
Period size: 10 Copynumber: 5.1 Consensus size: 10
38572157 TTTAAAATAA
38572167 TTTTAAATTT
1 TTTTAAATTT
*
38572177 TTTTATATTT
1 TTTTAAATTT
**
38572187 TTTTAAAATAA
1 TTTT-AAATTT
38572198 TTTTAAATTT
1 TTTTAAATTT
*
38572208 TTTTATATTT
1 TTTTAAATTT
38572218 T
1 T
38572219 CATCAATAGC
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
10 27 0.79
11 7 0.21
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (10 bp):
TTTTAAATTT
Found at i:38572193 original size:31 final size:31
Alignment explanation
Indices: 38572155--38572218 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
38572145 CTCAATTTCA
38572155 TTTTTAAAATAATTTTAAATTTTTTTATATT
1 TTTTTAAAATAATTTTAAATTTTTTTATATT
38572186 TTTTTAAAATAATTTTAAATTTTTTTATATT
1 TTTTTAAAATAATTTTAAATTTTTTTATATT
38572217 TT
1 TT
38572219 CATCAATAGC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (31 bp):
TTTTTAAAATAATTTTAAATTTTTTTATATT
Found at i:38573310 original size:7 final size:7
Alignment explanation
Indices: 38573300--38573324 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
38573290 AGTCGATTGA
38573300 TATTTAG
1 TATTTAG
38573307 TATTTAG
1 TATTTAG
38573314 TATTTAG
1 TATTTAG
38573321 TATT
1 TATT
38573325 ATGTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:38573996 original size:18 final size:18
Alignment explanation
Indices: 38573975--38574009 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
38573965 AGGTATGTTT
* *
38573975 CCTAGCCCTTATATGTAC
1 CCTAACCCTTACATGTAC
38573993 CCTAACCCTTACATGTA
1 CCTAACCCTTACATGTA
38574010 TCCTTTTCCG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.34, G:0.09, T:0.31
Consensus pattern (18 bp):
CCTAACCCTTACATGTAC
Found at i:38574161 original size:30 final size:30
Alignment explanation
Indices: 38574125--38574184 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
38574115 ATCGTAAGAA
*
38574125 GGGCCGTCGGGGAGCTCTCCTTTTTACCAC
1 GGGCCGTCGGGAAGCTCTCCTTTTTACCAC
38574155 GGGCCGTCGGGAAGCTCTCCTTTTTACCAC
1 GGGCCGTCGGGAAGCTCTCCTTTTTACCAC
38574185 TCGCCACCAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.12, C:0.33, G:0.28, T:0.27
Consensus pattern (30 bp):
GGGCCGTCGGGAAGCTCTCCTTTTTACCAC
Found at i:38574507 original size:26 final size:25
Alignment explanation
Indices: 38574443--38574511 Score: 84
Period size: 25 Copynumber: 2.7 Consensus size: 25
38574433 TTTAAATTTA
* *
38574443 TTATCTGATGTAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAAT
* * *
38574468 TTATTTAATATAATAAAATATAAAT
1 TTATTTGATGTAATAAAATAGAAAT
38574493 TCTATTTGATGTAATAAAA
1 T-TATTTGATGTAATAAAA
38574512 ACCCTAATTT
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
25 21 0.58
26 15 0.42
ACGTcount: A:0.48, C:0.03, G:0.09, T:0.41
Consensus pattern (25 bp):
TTATTTGATGTAATAAAATAGAAAT
Found at i:38574556 original size:29 final size:29
Alignment explanation
Indices: 38574514--38575014 Score: 598
Period size: 29 Copynumber: 17.8 Consensus size: 29
38574504 TAATAAAAAC
38574514 CCTAATTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
38574543 CCTAATTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
38574572 CCTAATTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
*
38574601 CCTAACTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
38574630 CCTAATTTAATTAAAAATCCTAACCCTAACCCTAA
1 CCTAATTTAATT--AAA----AACCCTAACCCTAA
** *
38574665 CCCTAACCTAATTAAAAACCCTAA-CTTAA
1 -CCTAATTTAATTAAAAACCCTAACCCTAA
* * ***
38574694 -TTAA---AAATCCTAACCCTAA-CCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
*
38574718 -C----TTAATTAAAAACCCTAA-CTTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
* *** *
38574741 -TTAA---AAACCATAACCCTAA---T--
1 CCTAATTTAATTAAAAACCCTAACCCTAA
38574761 -CTAATTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
38574789 CCTAATTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
38574818 CCTAATTTAATTAAAAACCCTAA-CCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
* *
38574846 CCTGATTTAATTAAACACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
*
38574875 CCTAATTTGATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
38574904 CCTAATTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
*
38574933 CCTAATTTGATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
38574962 CCTAATTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
*
38574991 CCTAATTTAATTAAAAATCCTAAC
1 CCTAATTTAATTAAAAACCCTAAC
38575015 TTAATTAAAA
Statistics
Matches: 414, Mismatches: 36, Indels: 44
0.84 0.07 0.09
Matches are distributed among these distances:
20 3 0.01
22 1 0.00
23 26 0.06
24 26 0.06
26 1 0.00
27 3 0.01
28 26 0.06
29 290 0.70
30 8 0.02
31 3 0.01
34 3 0.01
35 14 0.03
36 10 0.02
ACGTcount: A:0.45, C:0.27, G:0.01, T:0.28
Consensus pattern (29 bp):
CCTAATTTAATTAAAAACCCTAACCCTAA
Found at i:38574596 original size:58 final size:58
Alignment explanation
Indices: 38574514--38575061 Score: 701
Period size: 58 Copynumber: 9.9 Consensus size: 58
38574504 TAATAAAAAC
38574514 CCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAA
*
38574572 CCTAATTTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAA
* ** *
38574630 CCTAATTTAATTAAAAATCCTAACCCTAACCCTAACCCTAACCTAATTAAA----AACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA-CCTAA-TTTAA-TTAA--AAACCCTAACCCTAA
* *
38574689 -C----TTAATTAAAAATCCTAACCCTAACCTAACTTAATT--AAA----AACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAA
* *
38574736 -C----TTAATTAAAAACCATAACCCTAATCTAATTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAA
38574789 CCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAA-CCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAA
* * *
38574846 CCTGATTTAATTAAACACCCTAACCCTAACCTAATTTGATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAA
*
38574904 CCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTGATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAA
38574962 CCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAA---T---CCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAA
*
38575014 -C----TTAATTAAAAACCCTAACCCTAACCTAAATTAATTAAAAACCCTAAC
1 CCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAC
38575062 TTAATTAAAA
Statistics
Matches: 448, Mismatches: 19, Indels: 51
0.86 0.04 0.10
Matches are distributed among these distances:
47 82 0.18
49 3 0.01
50 1 0.00
51 2 0.00
52 9 0.02
53 13 0.03
54 24 0.05
55 1 0.00
57 54 0.12
58 236 0.53
59 13 0.03
60 4 0.01
61 3 0.01
63 3 0.01
ACGTcount: A:0.45, C:0.27, G:0.01, T:0.27
Consensus pattern (58 bp):
CCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAA
Found at i:38574652 original size:87 final size:86
Alignment explanation
Indices: 38574514--38575061 Score: 686
Period size: 87 Copynumber: 6.6 Consensus size: 86
38574504 TAATAAAAAC
38574514 CCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATT
1 CCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATT
38574579 TAATTAAAAACCCTAACCCTAA
66 TAATTAAAAACCCTAA-CCTAA
* *
38574601 CCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAATCCTAACCCTAACCCTAAC
1 CCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAA-CCTAA-
** *
38574666 CCTAACCTAATTAAA----AA-C---
64 TTTAA-TTAA--AAACCCTAACCTAA
* * *
38574684 CCTAACTTAATTAAAAATCCTAACCCTAACCTAACTTAATT--AAA----AACCCTAA-C----T
1 CCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATT
*
38574738 TAATTAAAAACCATAACCCTAA
66 TAATTAAAAACCCTAA-CCTAA
*
38574760 TCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATT
1 CCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATT
38574825 TAATTAAAAACCCTAACCTAA
66 TAATTAAAAACCCTAACCTAA
* * *
38574846 CCTGATTTAATTAAACACCCTAACCCTAACCTAATTTGATTAAAAACCCTAACCCTAACCTAATT
1 CCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATT
38574911 TAATTAAAAACCCTAACCCTAA
66 TAATTAAAAACCCTAA-CCTAA
*
38574933 CCTAATTTGATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATT
1 CCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATT
38574998 TAATTAAAAA---T--CCTAA
66 TAATTAAAAACCCTAACCTAA
*
38575014 -C----TTAATTAAAAACCCTAACCCTAACCTAAATTAATTAAAAACCCTAAC
1 CCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAC
38575062 TTAATTAAAA
Statistics
Matches: 411, Mismatches: 24, Indels: 63
0.83 0.05 0.13
Matches are distributed among these distances:
67 3 0.01
69 3 0.01
70 3 0.01
71 2 0.00
73 1 0.00
75 1 0.00
76 82 0.20
77 8 0.02
78 3 0.01
80 1 0.00
81 8 0.02
82 8 0.02
83 40 0.10
84 1 0.00
86 83 0.20
87 148 0.36
88 7 0.02
89 3 0.01
90 3 0.01
92 3 0.01
ACGTcount: A:0.45, C:0.27, G:0.01, T:0.27
Consensus pattern (86 bp):
CCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATT
TAATTAAAAACCCTAACCTAA
Found at i:38574659 original size:6 final size:6
Alignment explanation
Indices: 38574648--38574672 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
38574638 AATTAAAAAT
38574648 CCTAAC CCTAAC CCTAAC CCTAAC C
1 CCTAAC CCTAAC CCTAAC CCTAAC C
38574673 TAATTAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.52, G:0.00, T:0.16
Consensus pattern (6 bp):
CCTAAC
Found at i:38574684 original size:18 final size:18
Alignment explanation
Indices: 38574663--38574760 Score: 84
Period size: 18 Copynumber: 5.8 Consensus size: 18
38574653 CCCTAACCCT
38574663 AACCCTAACCTAATTAAA
1 AACCCTAACCTAATTAAA
*
38574681 AACCCTAACTTAATTAAA
1 AACCCTAACCTAATTAAA
* *
38574699 AATCCTAACC---CT---
1 AACCCTAACCTAATTAAA
*
38574711 AA-CCTAACTTAATTAAA
1 AACCCTAACCTAATTAAA
*
38574728 AACCCTAACTTAATTAAA
1 AACCCTAACCTAATTAAA
*
38574746 AACCATAACCCTAAT
1 AACCCTAA-CCTAAT
38574761 CTAATTTAAT
Statistics
Matches: 64, Mismatches: 8, Indels: 15
0.74 0.09 0.17
Matches are distributed among these distances:
11 6 0.09
12 2 0.03
14 1 0.02
15 1 0.02
17 2 0.03
18 47 0.73
19 5 0.08
ACGTcount: A:0.48, C:0.27, G:0.00, T:0.26
Consensus pattern (18 bp):
AACCCTAACCTAATTAAA
Found at i:38574948 original size:173 final size:163
Alignment explanation
Indices: 38574507--38575061 Score: 718
Period size: 173 Copynumber: 3.4 Consensus size: 163
38574497 TTTGATGTAA
* * *
38574507 TAAAAACCCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAA
1 TAAAAATCCTAACTTAATTAAAAACCCTAACCCTAACCTAAATTAATTAAAAACCCTAACCCTAA
* * *
38574572 CCTAATTTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAACCCTAACCCTAACCTAATT
66 CCTAACTTAATTAAAAACCATAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATT
**
38574637 TAATTAAAAATCCTAACCCTAACCCTAACCCTAACCTAAT
131 TAATT--AAA----AACCCTAACCCTAA-CCTAATTTAAT
* * *
38574677 TAAAAACCCTAACTTAATTAAAAATCCTAACCCTAACCTAACTTAATT--AAA----AA--C---
1 TAAAAATCCTAACTTAATTAAAAACCCTAACCCTAACCTAAATTAATTAAAAACCCTAACCCTAA
*
38574731 CCTAACTTAATTAAAAACCATAACCCTAATCTAATTTAATTAAAAACCCTAACCCTAACCTAATT
66 CCTAACTTAATTAAAAACCATAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATT
38574796 TAATTAAAAACCCTAACCCTAACCTAATTTAAT
131 TAATTAAAAACCCTAACCCTAACCTAATTTAAT
* * *
38574829 TAAAAACCCTAACCTAACCTGATTTAATTAAACACCCTAACCCTAACCTAATTTGATTAAAAACC
1 TAAAAA---T--CCTAA-C----TTAATTAAAAACCCTAACCCTAACCTAAATTAATTAAAAACC
* * *
38574894 CTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTGATTAAAAACCCTAACCC
56 CTAACCCTAACCTAACTTAATTAAAAACCATAACCCTAACCTAATTTAATTAAAAACCCTAACCC
38574959 TAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAAT
121 TAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAAT
38575002 TAAAAATCCTAACTTAATTAAAAACCCTAACCCTAACCTAAATTAATTAAAAACCCTAAC
1 TAAAAATCCTAACTTAATTAAAAACCCTAACCCTAACCTAAATTAATTAAAAACCCTAAC
38575062 TTAATTAAAA
Statistics
Matches: 343, Mismatches: 21, Indels: 49
0.83 0.05 0.12
Matches are distributed among these distances:
152 15 0.04
153 14 0.04
157 8 0.02
158 1 0.00
159 66 0.19
162 32 0.09
163 44 0.13
164 5 0.01
167 1 0.00
168 10 0.03
170 47 0.14
173 100 0.29
ACGTcount: A:0.45, C:0.27, G:0.01, T:0.27
Consensus pattern (163 bp):
TAAAAATCCTAACTTAATTAAAAACCCTAACCCTAACCTAAATTAATTAAAAACCCTAACCCTAA
CCTAACTTAATTAAAAACCATAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATT
TAATTAAAAACCCTAACCCTAACCTAATTTAAT
Found at i:38575018 original size:18 final size:18
Alignment explanation
Indices: 38574991--38575079 Score: 84
Period size: 18 Copynumber: 5.3 Consensus size: 18
38574981 CTAACCCTAA
* *
38574991 CCTAATTTAATTAAAAAT
1 CCTAACTTAATTAAAAAC
38575009 CCTAACTTAATTAAAAAC
1 CCTAACTTAATTAAAAAC
**
38575027 CCTAAC---CCT---AA-
1 CCTAACTTAATTAAAAAC
*
38575038 CCTAAATTAATTAAAAAC
1 CCTAACTTAATTAAAAAC
38575056 CCTAACTTAATTAAAAAC
1 CCTAACTTAATTAAAAAC
38575074 CCTAAC
1 CCTAAC
38575080 CCTAACCATT
Statistics
Matches: 56, Mismatches: 8, Indels: 14
0.72 0.10 0.18
Matches are distributed among these distances:
11 5 0.09
12 2 0.04
14 1 0.02
15 1 0.02
17 2 0.04
18 45 0.80
ACGTcount: A:0.48, C:0.24, G:0.00, T:0.28
Consensus pattern (18 bp):
CCTAACTTAATTAAAAAC
Found at i:38575132 original size:18 final size:18
Alignment explanation
Indices: 38575109--38575143 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
38575099 TTTGGACTTA
38575109 ATAATTTTACATAATTTG
1 ATAATTTTACATAATTTG
*
38575127 ATAATTTTACCTAATTT
1 ATAATTTTACATAATTT
38575144 AATTAAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.37, C:0.09, G:0.03, T:0.51
Consensus pattern (18 bp):
ATAATTTTACATAATTTG
Found at i:38575180 original size:10 final size:10
Alignment explanation
Indices: 38575165--38575191 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
38575155 TTTTGGCTTA
38575165 ATAATTTTAC
1 ATAATTTTAC
38575175 ATAATTTTAC
1 ATAATTTTAC
38575185 ATAATTT
1 ATAATTT
38575192 GATAATTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (10 bp):
ATAATTTTAC
Found at i:38575245 original size:10 final size:10
Alignment explanation
Indices: 38575230--38575254 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
38575220 TTGAGACTTA
38575230 ATAATTTTAC
1 ATAATTTTAC
38575240 ATAATTTTAC
1 ATAATTTTAC
38575250 ATAAT
1 ATAAT
38575255 GTTAGATTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (10 bp):
ATAATTTTAC
Found at i:38575253 original size:65 final size:66
Alignment explanation
Indices: 38575109--38575254 Score: 199
Period size: 65 Copynumber: 2.2 Consensus size: 66
38575099 TTTGGACTTA
* * * ** *
38575109 ATAATTTTACATAATTTGATAATTTTACCTAATTTAATTAAATTTTTTTTGGCTTAATAATTTTA
1 ATAATTTTACATAATTTGATAATTTTACCTAAATTAATCAAATATTTTGAGACTTAATAATTTTA
38575174 C
66 C
38575175 ATAATTTTACATAATTTGATAATTTTA-CTAACCATTAA-CAAA-ATTTTGAGACTTAATAATTT
1 ATAATTTTACATAATTTGATAATTTTACCTAA--ATTAATCAAATATTTTGAGACTTAATAATTT
38575237 TAC
64 TAC
38575240 ATAATTTTACATAAT
1 ATAATTTTACATAAT
38575255 GTTAGATTTG
Statistics
Matches: 72, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
65 38 0.53
66 30 0.42
67 4 0.06
ACGTcount: A:0.39, C:0.09, G:0.04, T:0.48
Consensus pattern (66 bp):
ATAATTTTACATAATTTGATAATTTTACCTAAATTAATCAAATATTTTGAGACTTAATAATTTTA
C
Found at i:38578667 original size:122 final size:122
Alignment explanation
Indices: 38578367--38578832 Score: 754
Period size: 122 Copynumber: 3.8 Consensus size: 122
38578357 AACTTGCTAT
* * * **
38578367 TGTAGCAAAATCGCGTCCACGAGGGCGCGATTTTATAATTTCTTCTCAAATAGCATTTTGGTAGA
1 TGTAGCAAAATCGCATCCACGAGGGCGCAATTTCATAATTTCTTCTCAAATAGCATCCTGGTAGA
* * *
38578432 GGCGATTTTATACTATTTGCTCAGAAACGTAAAAAAAAATTATTTCTTACATGACTTAC
66 GGCAATTTTATACTATTTGCTCAGAAACGTCAAAAAAAA--ATTTCTTACATGACCTAC
* * * ** *
38578491 TATAGCAAAATCGCGTCCATGAGGGCGTGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGA
1 TGTAGCAAAATCGCATCCACGAGGGCGCAATTTCATAATTTCTTCTCAAATAGCATCCTGGTAGA
38578556 GGCAATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAATTTCTTACATGACCTAC
66 GGCAATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAATTTCTTACATGACCTAC
38578613 TGTAGCAAAATCGCATCCACGAGGGCGCAATTTCATAATTTCTTCTCAAATAGCATCCTGGTAGA
1 TGTAGCAAAATCGCATCCACGAGGGCGCAATTTCATAATTTCTTCTCAAATAGCATCCTGGTAGA
38578678 GGCAATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAATTTCTTACATGACCTAC
66 GGCAATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAATTTCTTACATGACCTAC
38578735 TGTAGCAAAATCGCATCCACGAGGGCGCAATTTCATAATTTCTTCTCAAATAGCATCCTGGTAGA
1 TGTAGCAAAATCGCATCCACGAGGGCGCAATTTCATAATTTCTTCTCAAATAGCATCCTGGTAGA
* *
38578800 AGCGATTTTATACTATTTGAC-CAGAAACGTCAA
66 GGCAATTTTATACTATTTG-CTCAGAAACGTCAA
38578833 CTCGAAATAA
Statistics
Matches: 323, Mismatches: 18, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
122 227 0.70
123 1 0.00
124 95 0.29
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (122 bp):
TGTAGCAAAATCGCATCCACGAGGGCGCAATTTCATAATTTCTTCTCAAATAGCATCCTGGTAGA
GGCAATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAATTTCTTACATGACCTAC
Found at i:38582207 original size:14 final size:15
Alignment explanation
Indices: 38582188--38582221 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
38582178 AGCTCGCATT
38582188 TGAAAAACCGAAG-A
1 TGAAAAACCGAAGCA
*
38582202 TGAAAAACTGAAGCA
1 TGAAAAACCGAAGCA
38582217 TGAAA
1 TGAAA
38582222 TTCAATGTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.67
15 6 0.33
ACGTcount: A:0.56, C:0.12, G:0.21, T:0.12
Consensus pattern (15 bp):
TGAAAAACCGAAGCA
Found at i:38582581 original size:24 final size:23
Alignment explanation
Indices: 38582554--38582600 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
38582544 ATTTTTATAC
38582554 TTTAAATTTTGATATAAT-TTATTT
1 TTTAAATTTT--TATAATATTATTT
*
38582578 TTTATATTTTTATAATATTATTT
1 TTTAAATTTTTATAATATTATTT
38582601 ACTAGTCTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 6 0.29
24 9 0.43
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (23 bp):
TTTAAATTTTTATAATATTATTT
Found at i:38588262 original size:21 final size:21
Alignment explanation
Indices: 38588246--38588320 Score: 87
Period size: 21 Copynumber: 3.4 Consensus size: 21
38588236 ACGAAGTGAG
*
38588246 TTAGACAAAAAGAGAAGCAAC
1 TTAGACAAAAAGAGAAGTAAC
*
38588267 TTGGACAAAAAGAGAAGTAAC
1 TTAGACAAAAAGAGAAGTAAC
* *
38588288 TTGGACAAAAAGAAACGAAGTGAC
1 TTAGACAAAAAG--A-GAAGTAAC
38588312 TTAGACAAA
1 TTAGACAAA
38588321 TCTTTTTTGT
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
21 31 0.66
23 1 0.02
24 15 0.32
ACGTcount: A:0.53, C:0.12, G:0.21, T:0.13
Consensus pattern (21 bp):
TTAGACAAAAAGAGAAGTAAC
Found at i:38591562 original size:54 final size:54
Alignment explanation
Indices: 38591470--38591577 Score: 153
Period size: 54 Copynumber: 2.0 Consensus size: 54
38591460 CCATGGCAAG
* * ** * *
38591470 TGAAGACCATATAGTGTTAGACCTAGTTTGGGTTTATGGTATCATATGGGGAAA
1 TGAAGACCACATAGTGTAAGACCTAGTTTGGGACTATGGCATCATATGGAGAAA
*
38591524 TGAAGACCACATAGTGTAAGACCTAGTTTGGGACTATGGCATCATGTGGAGAAA
1 TGAAGACCACATAGTGTAAGACCTAGTTTGGGACTATGGCATCATATGGAGAAA
38591578 AAATGAAAAA
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 47 1.00
ACGTcount: A:0.31, C:0.12, G:0.28, T:0.29
Consensus pattern (54 bp):
TGAAGACCACATAGTGTAAGACCTAGTTTGGGACTATGGCATCATATGGAGAAA
Found at i:38593302 original size:24 final size:24
Alignment explanation
Indices: 38593275--38593331 Score: 105
Period size: 24 Copynumber: 2.4 Consensus size: 24
38593265 CTGAAGTAAT
*
38593275 CTTCTCATTCTTTGAGGAAGTGAC
1 CTTCTCATTCTCTGAGGAAGTGAC
38593299 CTTCTCATTCTCTGAGGAAGTGAC
1 CTTCTCATTCTCTGAGGAAGTGAC
38593323 CTTCTCATT
1 CTTCTCATT
38593332 TAACTGAGTG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.19, C:0.25, G:0.18, T:0.39
Consensus pattern (24 bp):
CTTCTCATTCTCTGAGGAAGTGAC
Found at i:38594746 original size:20 final size:20
Alignment explanation
Indices: 38594721--38594800 Score: 97
Period size: 20 Copynumber: 4.0 Consensus size: 20
38594711 AGATGCATAG
* *
38594721 CAGAGGCACCGAAGTGCAGA
1 CAGAGGCACCAAAGTGCAAA
***
38594741 CAGAGGCATTGAAGTGCAAA
1 CAGAGGCACCAAAGTGCAAA
* *
38594761 CAAAAGCACCAAAGTGCAAA
1 CAGAGGCACCAAAGTGCAAA
38594781 CAGAGGCACCAAAGTGCAAA
1 CAGAGGCACCAAAGTGCAAA
38594801 TCCTGTACAA
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 50 1.00
ACGTcount: A:0.44, C:0.23, G:0.26, T:0.07
Consensus pattern (20 bp):
CAGAGGCACCAAAGTGCAAA
Found at i:38597497 original size:50 final size:52
Alignment explanation
Indices: 38597400--38597511 Score: 174
Period size: 50 Copynumber: 2.2 Consensus size: 52
38597390 TGAGTAACTG
* *
38597400 AATGCATGACTTAATTTAATGATGCAAACTTTAACTAACATGGGAGTTACAT
1 AATGCATGACATAATTTAATGATGCAAACTTTAACTAACATGAGAGTTACAT
*
38597452 AATGCATGTCATAATTT-ATGATGCAAAC-TTAACTAACATGAGAGTTACAT
1 AATGCATGACATAATTTAATGATGCAAACTTTAACTAACATGAGAGTTACAT
*
38597502 AATGCTTGAC
1 AATGCATGAC
38597512 TTTATTAAAT
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
50 29 0.53
51 11 0.20
52 15 0.27
ACGTcount: A:0.38, C:0.14, G:0.15, T:0.32
Consensus pattern (52 bp):
AATGCATGACATAATTTAATGATGCAAACTTTAACTAACATGAGAGTTACAT
Found at i:38602856 original size:50 final size:50
Alignment explanation
Indices: 38602781--38603065 Score: 396
Period size: 50 Copynumber: 5.7 Consensus size: 50
38602771 TATTTGGGTA
38602781 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
* * *
38602831 AAGAGGTCCCATGTAAGACCATGTCTGGGAGAAGGCGTTGGCACCAAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
* *
38602881 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGACACTGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
* **
38602931 GAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
* * * * *
38602981 AAGAGGTCCCATGTAAGACCATATCTGGGATATGGCATTGGCAGTACAAGA-
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA--CCGAGAT
* *
38603032 AACA--TCACATGTAAGACCATGTCTGGGACATGGC
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGC
38603066 TTTGTCATGT
Statistics
Matches: 208, Mismatches: 25, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
49 27 0.13
50 174 0.84
51 3 0.01
52 4 0.02
ACGTcount: A:0.28, C:0.21, G:0.30, T:0.20
Consensus pattern (50 bp):
AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
Found at i:38602987 original size:150 final size:148
Alignment explanation
Indices: 38602782--38603065 Score: 444
Period size: 150 Copynumber: 1.9 Consensus size: 148
38602772 ATTTGGGTAA
*
38602782 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATAAGAGGTCCCATGTAA
1 AGAGGTCCCACGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATAAGAGGTCCCATGTAA
* * * * *
38602847 GACCATGTCTGGGAGAAGGCGTTGGCA-CCAAGATAAGAGGTCCCATGTAAGACCATGTCTGGGA
66 GACCATATCTGGGAGAAGGCATTGGCAGACAAGA-AACA--TCACATGTAAGACCATGTCTGGGA
38602911 CATGGCGTTGACACTGAGATG
128 CATGGCGTTGACACTGAGATG
*
38602932 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATAAGAGGTCCCATGTAA
1 AGAGGTCCCACGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATAAGAGGTCCCATGTAA
* *
38602997 GACCATATCTGGGATATGGCATTGGCAGTACAAGAAACATCACATGTAAGACCATGTCTGGGACA
66 GACCATATCTGGGAGAAGGCATTGGCAG-ACAAGAAACATCACATGTAAGACCATGTCTGGGACA
38603062 TGGC
130 TGGC
38603066 TTTGTCATGT
Statistics
Matches: 123, Mismatches: 9, Indels: 5
0.90 0.07 0.04
Matches are distributed among these distances:
149 29 0.24
150 86 0.70
151 3 0.02
152 5 0.04
ACGTcount: A:0.28, C:0.21, G:0.30, T:0.20
Consensus pattern (148 bp):
AGAGGTCCCACGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATAAGAGGTCCCATGTAA
GACCATATCTGGGAGAAGGCATTGGCAGACAAGAAACATCACATGTAAGACCATGTCTGGGACAT
GGCGTTGACACTGAGATG
Found at i:38611355 original size:23 final size:23
Alignment explanation
Indices: 38611329--38611372 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
38611319 GTAATTATAA
38611329 ATACATGTGTAATAAATATATGT
1 ATACATGTGTAATAAATATATGT
* *
38611352 ATACATTTGTAATTAATATAT
1 ATACATGTGTAATAAATATAT
38611373 TTACATACTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.43, C:0.05, G:0.09, T:0.43
Consensus pattern (23 bp):
ATACATGTGTAATAAATATATGT
Found at i:38611464 original size:18 final size:18
Alignment explanation
Indices: 38611431--38611469 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
38611421 TTAATTAAAC
38611431 AAAAGAAAGAAATGAAAAT
1 AAAAGAAAGAAATG-AAAT
*
38611450 AAAAGAAA-CAATGAAAT
1 AAAAGAAAGAAATGAAAT
38611467 AAA
1 AAA
38611470 GATAGAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 7 0.37
18 4 0.21
19 8 0.42
ACGTcount: A:0.74, C:0.03, G:0.13, T:0.10
Consensus pattern (18 bp):
AAAAGAAAGAAATGAAAT
Found at i:38634915 original size:16 final size:18
Alignment explanation
Indices: 38634894--38634926 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
38634884 TTTTAAAAAA
38634894 TAATTT-AT-GTTAATTT
1 TAATTTAATAGTTAATTT
38634910 TAATTTAATAGTTAATT
1 TAATTTAATAGTTAATT
38634927 ATTTTATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 2 0.13
18 7 0.47
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (18 bp):
TAATTTAATAGTTAATTT
Found at i:38636842 original size:24 final size:23
Alignment explanation
Indices: 38636778--38636846 Score: 77
Period size: 24 Copynumber: 2.9 Consensus size: 23
38636768 CAAATAAAAT
38636778 AATAATAATACAACATAACTTTTA
1 AATAATAATACAA-ATAACTTTTA
*
38636802 AGTAATAATACATAATAA-TTTTA
1 AATAATAATACA-AATAACTTTTA
*
38636825 GAATAATAAAACACAATAACTT
1 -AATAATAATACA-AATAACTT
38636847 CAAAAATATG
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
23 5 0.13
24 30 0.79
25 3 0.08
ACGTcount: A:0.55, C:0.10, G:0.03, T:0.32
Consensus pattern (23 bp):
AATAATAATACAAATAACTTTTA
Found at i:38639160 original size:120 final size:119
Alignment explanation
Indices: 38638938--38639200 Score: 307
Period size: 120 Copynumber: 2.2 Consensus size: 119
38638928 TCCTCGTTCA
* * **
38638938 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACTTAGCCCGGATTTAACAACTCACACAATGCCTTCGGGACATAACCCGGATT
* * * *
38639003 TAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTA-ACAAC-TCGCAC
66 TAACAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATATAC-ACTTAGCAC
* * *
38639056 GAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGA
1 -AATGCCTTCGGGACTTAGCCCGGATTTAACAACTCACAC-AATGCCTTCGGGACATAACCCGGA
** * ** *
38639121 TTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
64 TTTAACAACTCGCACAAAGGCCTTCGGGA-CTTAACCCGGATATATACACTTAGCAC
*
38639177 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
38639201 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 36 0.30
120 79 0.65
121 6 0.05
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.24
Consensus pattern (119 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAACAACTCACACAATGCCTTCGGGACATAACCCGGATT
TAACAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATATACACTTAGCAC
Found at i:38639161 original size:40 final size:40
Alignment explanation
Indices: 38638938--38639147 Score: 305
Period size: 40 Copynumber: 5.3 Consensus size: 40
38638928 TCCTCGTTCA
* * * ** *
38638938 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
38638977 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
38639017 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
38639057 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
** * *
38639097 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
38639137 AAGGCCTTCGG
1 AATGCCTTCGG
38639148 ATCTTAGTCC
Statistics
Matches: 159, Mismatches: 11, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 34 0.21
40 125 0.79
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:38639184 original size:80 final size:80
Alignment explanation
Indices: 38638941--38639200 Score: 258
Period size: 80 Copynumber: 3.3 Consensus size: 80
38638931 TCGTTCAAAT
* * * ** * * * *
38638941 GCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-AATGCCTTCGGGACATAACCCGGATTTA
1 GCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATA
* *
38639005 ACAACTCGCACGAAT
66 ACAACTAGCACGAAA
* * *
38639020 GCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTA
1 GCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATA
* *
38639085 ACAACTCGCACGAAT
66 ACAACTAGCACGAAA
** * **
38639100 GCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAGTCCGGATAT
1 GCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAAAGGCCTTCGGGA-CTTAACCCGGATAT
*
38639164 ATTC-ACTTAGCAC-AAA
65 A-ACAAC-TAGCACGAAA
*
38639180 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
38639201 CAGCATTCAA
Statistics
Matches: 158, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
79 33 0.21
80 119 0.75
81 6 0.04
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATA
ACAACTAGCACGAAA
Found at i:38639209 original size:41 final size:41
Alignment explanation
Indices: 38639132--38639209 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
38639122 TTAGTATCTC
* * *
38639132 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
38639173 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
38639210 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:38647430 original size:13 final size:13
Alignment explanation
Indices: 38647412--38647436 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
38647402 AAAAGAATCC
38647412 AAAGAAGAAAAAG
1 AAAGAAGAAAAAG
38647425 AAAGAAGAAAAA
1 AAAGAAGAAAAA
38647437 TCTGCAATCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (13 bp):
AAAGAAGAAAAAG
Found at i:38648267 original size:88 final size:88
Alignment explanation
Indices: 38648148--38648310 Score: 254
Period size: 88 Copynumber: 1.9 Consensus size: 88
38648138 GGACCATTGG
*
38648148 CTTCGATCTGCTTAACTATCGATGCAAGAAGGCAAGACCTGCTATCTTCAACATGTTCCACTACA
1 CTTCGATCTGCTTAACTATCGATGCAAGAAGGCAAGACCTGCTATCTTCAACATGCTCCACTACA
*
38648213 ACTGAGGGAGGCAAGACTTGTGT
66 ACCGAGGGAGGCAAGACTTGTGT
* * * * * *
38648236 CTTCGATCTGCTTCACTGTCGATGTAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACA
1 CTTCGATCTGCTTAACTATCGATGCAAGAAGGCAAGACCTGCTATCTTCAACATGCTCCACTACA
38648301 ACCGAGGGAG
66 ACCGAGGGAG
38648311 ATAAGATTTG
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
88 67 1.00
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (88 bp):
CTTCGATCTGCTTAACTATCGATGCAAGAAGGCAAGACCTGCTATCTTCAACATGCTCCACTACA
ACCGAGGGAGGCAAGACTTGTGT
Found at i:38648292 original size:45 final size:42
Alignment explanation
Indices: 38648155--38648297 Score: 101
Period size: 44 Copynumber: 3.2 Consensus size: 42
38648145 TGGCTTCGAT
* *
38648155 CTGCTTAACTATCGATGCAAGAAGGCAAGACCTGCTATCTTCAAC
1 CTGCTTCACT-TCGATG-AGGAAGGCAAGA-CTGCTATCTTCAAC
* * * * * * *
38648200 ATG-TTCCACTACAACTGAGGGAGGCAAGACTTG-TGTCTTCGAT
1 CTGCTT-CACTTCGA-TGAGGAAGGCAAGAC-TGCTATCTTCAAC
38648243 CTGCTTCACTGTCGATGTAGGAAGGCAAGATCTGCTATCTTCAAC
1 CTGCTTCACT-TCGATG-AGGAAGGCAAGA-CTGCTATCTTCAAC
*
38648288 CTGCTCCACT
1 CTGCTTCACT
38648298 ACAACCGAGG
Statistics
Matches: 73, Mismatches: 17, Indels: 16
0.69 0.16 0.15
Matches are distributed among these distances:
43 16 0.22
44 33 0.45
45 24 0.33
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (42 bp):
CTGCTTCACTTCGATGAGGAAGGCAAGACTGCTATCTTCAAC
Found at i:38648395 original size:44 final size:44
Alignment explanation
Indices: 38648330--38649498 Score: 1510
Period size: 44 Copynumber: 26.7 Consensus size: 44
38648320 GTAATTTTCA
* * * * *
38648330 ACCTACTCCACAGCTGCTCAGGGAGCTAGGACTTACAATCTTCT
1 ACCTATTCCACTGCTGGTCAGGGAGCTAGGACTTACAGTCTTCC
*
38648374 ACCTCTTCCACTGCTGGTCAGGGAGCTAGGACTTACAGTCTTCC
1 ACCTATTCCACTGCTGGTCAGGGAGCTAGGACTTACAGTCTTCC
** * *
38648418 ACC--TTCCACTATTGGTCAGGGAGCTAGGACTTACAATCTTCT
1 ACCTATTCCACTGCTGGTCAGGGAGCTAGGACTTACAGTCTTCC
* * *
38648460 ACCTATTACACTGCTTGTCAGGGAGTTAGGACTTACAGTCTTCC
1 ACCTATTCCACTGCTGGTCAGGGAGCTAGGACTTACAGTCTTCC
*
38648504 ACCTATTCCACTGCTGGTCAGGGAGCTAGGATTTACAGTCTTCC
1 ACCTATTCCACTGCTGGTCAGGGAGCTAGGACTTACAGTCTTCC
* * * * *
38648548 GCCTATTCCACTACTGTTCAGGGAGCTAGGACTTTCAGCCTTCC
1 ACCTATTCCACTGCTGGTCAGGGAGCTAGGACTTACAGTCTTCC
* * *
38648592 ACCTATTCCACTGTTGGTCAGGGAGCTAGGATTTACAATCTTCC
1 ACCTATTCCACTGCTGGTCAGGGAGCTAGGACTTACAGTCTTCC
* * * *
38648636 GCCTATTCCACTGTTGTTCAGGGAGCTAGGACTTTCAGTCTTCC
1 ACCTATTCCACTGCTGGTCAGGGAGCTAGGACTTACAGTCTTCC
* * *
38648680 ACCTATTCCACTGCTGGTCAGAGAGCTAGGATTTACAATCTTCC
1 ACCTATTCCACTGCTGGTCAGGGAGCTAGGACTTACAGTCTTCC
* *
38648724 GCCTATTCCACTGCT-GTACAGGGAGCTAGGACTTTCAGTCTTCC
1 ACCTATTCCACTGCTGGT-CAGGGAGCTAGGACTTACAGTCTTCC
* * * *
38648768 ACCTATTCCACTGCTGGTCAGGAAGCTAGGATTTACAATCTTCT
1 ACCTATTCCACTGCTGGTCAGGGAGCTAGGACTTACAGTCTTCC
* * * * *
38648812 GCCTATTCCACTACTGTTCAGGGAGTTAGGACTTTCAGTCTTCC
1 ACCTATTCCACTGCTGGTCAGGGAGCTAGGACTTACAGTCTTCC
38648856 ACCTATTCCACTGCTGGTCAGGGAGCTAGGACTTACAGTCTTCC
1 ACCTATTCCACTGCTGGTCAGGGAGCTAGGACTTACAGTCTTCC
* * *
38648900 ACC--TTCCACTACTGGTCAGGGAGCTAGGACTTACAATCTTCT
1 ACCTATTCCACTGCTGGTCAGGGAGCTAGGACTTACAGTCTTCC
*
38648942 ACCTATTACACTGCTGGTCAGGGAGCTAGGACTTACAGTCTTCC
1 ACCTATTCCACTGCTGGTCAGGGAGCTAGGACTTACAGTCTTCC
* * *
38648986 ACC--TTCCACTACTGGTCAGGGAGCT-GGACTTACAATCTTCT
1 ACCTATTCCACTGCTGGTCAGGGAGCTAGGACTTACAGTCTTCC
* *
38649027 ACCTATTACACTGCTTGTCAGGGAGCTAGGACTTACAGTCTTCC
1 ACCTATTCCACTGCTGGTCAGGGAGCTAGGACTTACAGTCTTCC
*
38649071 ACCTATTCCACTGCTGGTCAGGGAGCTAGGATTTACAGTCTTCC
1 ACCTATTCCACTGCTGGTCAGGGAGCTAGGACTTACAGTCTTCC
* * *
38649115 GCCTATTCCACTGCTGTTCAGGGAGCTAGGACTTTCAGTCTTCC
1 ACCTATTCCACTGCTGGTCAGGGAGCTAGGACTTACAGTCTTCC
* * * *
38649159 ACCTATTCCATTGTTGGTCAGGGAGCTAGGATTTACAATCTTCC
1 ACCTATTCCACTGCTGGTCAGGGAGCTAGGACTTACAGTCTTCC
* * * *
38649203 GCCTATTCCACTGTTGTTCAGGGAGCTAGGACTTTCAGTCTTCC
1 ACCTATTCCACTGCTGGTCAGGGAGCTAGGACTTACAGTCTTCC
* * * *
38649247 ACCTATTCCACTGCTGGTCAGAGAGCTAGGATTTACAATCTTCT
1 ACCTATTCCACTGCTGGTCAGGGAGCTAGGACTTACAGTCTTCC
* *
38649291 GCCTATTCCACTGCT-GTACAGGGAGCTAGGACTTTCAGTCTTCC
1 ACCTATTCCACTGCTGGT-CAGGGAGCTAGGACTTACAGTCTTCC
* * * * *
38649335 ACCTATTCCACTGCTAGTCAGGAAGCTAGGATTTACAATCTTCT
1 ACCTATTCCACTGCTGGTCAGGGAGCTAGGACTTACAGTCTTCC
* * * *
38649379 GCCTATTCCACTACTGTTCAGGGAGCTAGGACTTTCAGTCTTCC
1 ACCTATTCCACTGCTGGTCAGGGAGCTAGGACTTACAGTCTTCC
* * *
38649423 ACCTATTCCACTACTGGTCAGGGAGCTAGGACTTACAATCTTCT
1 ACCTATTCCACTGCTGGTCAGGGAGCTAGGACTTACAGTCTTCC
* * * *
38649467 ACCTATTCCACTACTGTTCATGGAGATAGGAC
1 ACCTATTCCACTGCTGGTCAGGGAGCTAGGAC
38649499 ATATAGTTTC
Statistics
Matches: 969, Mismatches: 145, Indels: 22
0.85 0.13 0.02
Matches are distributed among these distances:
41 17 0.02
42 97 0.10
43 23 0.02
44 828 0.85
45 4 0.00
ACGTcount: A:0.21, C:0.28, G:0.21, T:0.30
Consensus pattern (44 bp):
ACCTATTCCACTGCTGGTCAGGGAGCTAGGACTTACAGTCTTCC
Found at i:38651952 original size:24 final size:25
Alignment explanation
Indices: 38651923--38651991 Score: 83
Period size: 24 Copynumber: 2.8 Consensus size: 25
38651913 CAAATAATAA
38651923 AATAATAATACAACATAACTTTTA-
1 AATAATAATACAACATAACTTTTAG
*
38651947 AGTAATAATACATA-ATAA-TTTTAG
1 AATAATAATACA-ACATAACTTTTAG
38651971 AATAATAATAC-ACGATAACTT
1 AATAATAATACAAC-ATAACTT
38651992 CAAAAATATG
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
22 1 0.03
23 5 0.13
24 29 0.76
25 3 0.08
ACGTcount: A:0.52, C:0.10, G:0.04, T:0.33
Consensus pattern (25 bp):
AATAATAATACAACATAACTTTTAG
Found at i:38652710 original size:13 final size:13
Alignment explanation
Indices: 38652692--38652716 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
38652682 AAAAGAATCC
38652692 AAAGAAGAAAAAG
1 AAAGAAGAAAAAG
38652705 AAAGAAGAAAAA
1 AAAGAAGAAAAA
38652717 TCTGCAATCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (13 bp):
AAAGAAGAAAAAG
Found at i:38656498 original size:40 final size:40
Alignment explanation
Indices: 38656443--38656790 Score: 642
Period size: 40 Copynumber: 8.7 Consensus size: 40
38656433 GAGCATTGGA
38656443 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
38656483 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
38656523 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
38656563 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
38656603 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
38656643 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* * *
38656683 ATATGTCCGGGCTATGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
38656723 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
38656763 ATATGTCCGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
38656791 ATGTGTTTGC
Statistics
Matches: 299, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 299 1.00
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:38664558 original size:40 final size:39
Alignment explanation
Indices: 38664527--38664736 Score: 233
Period size: 40 Copynumber: 5.3 Consensus size: 39
38664517 GGACTAAGAT
* *
38664527 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
38664567 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
38664607 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* ** *
38664647 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGAT-ACAAATCCGGGTTAAGTC
* * * * *
38664687 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
38664726 CCGAAGGCATT
1 CCGAAGGCATT
38664737 TGAACGAGGA
Statistics
Matches: 153, Mismatches: 13, Indels: 9
0.87 0.07 0.05
Matches are distributed among these distances:
39 33 0.22
40 117 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:38664690 original size:120 final size:120
Alignment explanation
Indices: 38664474--38664736 Score: 300
Period size: 120 Copynumber: 2.2 Consensus size: 120
38664464 TTGAATGCTG
* *
38664474 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
38664538 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
38664594 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* ** * * * *
38664657 TCGTGCGAGTTGTTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGAT-ACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
38664713 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
38664737 TGAACGAGGA
Statistics
Matches: 120, Mismatches: 20, Indels: 7
0.82 0.14 0.05
Matches are distributed among these distances:
119 38 0.32
120 73 0.61
121 9 0.08
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:38664756 original size:79 final size:80
Alignment explanation
Indices: 38664527--38664771 Score: 228
Period size: 80 Copynumber: 3.1 Consensus size: 80
38664517 GGACTAAGAT
* * * * * * * ** *
38664527 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGA-GATAC
1 CCGAAGGCATTCGTGCGAGTTACTAAA-ACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGA-GC
38664590 TAAATCCGGGTTAAGTC
64 TAAATCCGGGTTAAGTC
* * * ** ** *
38664607 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
*
38664672 AATCCGGGTTATGTC
66 AATCCGGGTTAAGTC
* * *
38664687 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
* *
38664751 TATCC-GGTTAAATC
66 AATCCGGGTTAAGTC
38664765 CCGAAGG
1 CCGAAGG
38664772 TACGTGATTT
Statistics
Matches: 138, Mismatches: 25, Indels: 6
0.82 0.15 0.04
Matches are distributed among these distances:
78 14 0.10
79 46 0.33
80 75 0.54
81 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
AATCCGGGTTAAGTC
Found at i:38669849 original size:40 final size:40
Alignment explanation
Indices: 38669805--38670002 Score: 209
Period size: 40 Copynumber: 4.9 Consensus size: 40
38669795 ACACACCAGT
* * *
38669805 TTGTGGACAAGCCACCAGTATTACAAATAAACTACCAATA
1 TTGTGGACAAGCCACCAGTATTACAGATAAGCTGCCAATA
* * *
38669845 TTGTGGACAAGCCACCAGTATTGCAGACAAGCTGCCACTA
1 TTGTGGACAAGCCACCAGTATTACAGATAAGCTGCCAATA
* *
38669885 CTGTGGACAAGCCACCAATATTACAGATAAGCTGCCAATA
1 TTGTGGACAAGCCACCAGTATTACAGATAAGCTGCCAATA
* * * * *
38669925 TTATGGACAAGTCACCAGTATT-GAGACAAGATGCCAATAA
1 TTGTGGACAAGCCACCAGTATTACAGATAAGCTGCCAAT-A
* * * * *
38669965 TATGTGGTCAAGCCACCAGTGTTGCAAACAAGCTGCCA
1 T-TGTGGACAAGCCACCAGTATTACAGATAAGCTGCCA
38670003 TTACTTCCTC
Statistics
Matches: 130, Mismatches: 25, Indels: 4
0.82 0.16 0.03
Matches are distributed among these distances:
39 13 0.10
40 89 0.68
41 17 0.13
42 11 0.08
ACGTcount: A:0.36, C:0.24, G:0.19, T:0.21
Consensus pattern (40 bp):
TTGTGGACAAGCCACCAGTATTACAGATAAGCTGCCAATA
Found at i:38669861 original size:20 final size:20
Alignment explanation
Indices: 38669838--38669947 Score: 76
Period size: 20 Copynumber: 5.5 Consensus size: 20
38669828 CAAATAAACT
38669838 ACCAATATTGTGGACAAGCC
1 ACCAATATTGTGGACAAGCC
* ** *
38669858 ACCAGTATTGCAGACAAGCT
1 ACCAATATTGTGGACAAGCC
* * *
38669878 GCCACTACTGTGGACAAGCC
1 ACCAATATTGTGGACAAGCC
*** * *
38669898 ACCAATATTACAGATAAGCT
1 ACCAATATTGTGGACAAGCC
* * *
38669918 GCCAATATTATGGACAAGTC
1 ACCAATATTGTGGACAAGCC
*
38669938 ACCAGTATTG
1 ACCAATATTG
38669948 AGACAAGATG
Statistics
Matches: 63, Mismatches: 27, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
20 63 1.00
ACGTcount: A:0.35, C:0.25, G:0.19, T:0.22
Consensus pattern (20 bp):
ACCAATATTGTGGACAAGCC
Found at i:38669941 original size:80 final size:79
Alignment explanation
Indices: 38669806--38669960 Score: 238
Period size: 80 Copynumber: 1.9 Consensus size: 79
38669796 CACACCAGTT
* *
38669806 TGTGGACAAGCCACCAGTATTACAAATAAACTACCAATATTGTGGACAAGCCACCAGTATTGCAG
1 TGTGGACAAGCCACCAATATTACAAATAAACTACCAATATTATGGACAAGCCACCAGTATTG-AG
*
38669871 ACAAGCTGCCACTAC
65 ACAAGATGCCACTAC
* * * *
38669886 TGTGGACAAGCCACCAATATTACAGATAAGCTGCCAATATTATGGACAAGTCACCAGTATTGAGA
1 TGTGGACAAGCCACCAATATTACAAATAAACTACCAATATTATGGACAAGCCACCAGTATTGAGA
38669951 CAAGATGCCA
66 CAAGATGCCA
38669961 ATAATATGTG
Statistics
Matches: 68, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
79 12 0.18
80 56 0.82
ACGTcount: A:0.37, C:0.24, G:0.19, T:0.21
Consensus pattern (79 bp):
TGTGGACAAGCCACCAATATTACAAATAAACTACCAATATTATGGACAAGCCACCAGTATTGAGA
CAAGATGCCACTAC
Found at i:38682949 original size:24 final size:24
Alignment explanation
Indices: 38682917--38682965 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
38682907 ATTTTTAGTA
38682917 GGTTTACAACTGCATCACTCATGT
1 GGTTTACAACTGCATCACTCATGT
* *
38682941 GGTTTACAAGTGTATCACTCATGT
1 GGTTTACAACTGCATCACTCATGT
38682965 G
1 G
38682966 ATTCACGCCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.35
Consensus pattern (24 bp):
GGTTTACAACTGCATCACTCATGT
Found at i:38689791 original size:67 final size:68
Alignment explanation
Indices: 38689665--38689864 Score: 186
Period size: 67 Copynumber: 2.9 Consensus size: 68
38689655 CAACATTCGA
* * * * * ** * * *
38689665 GTCGTATTCAGGCTCACAGGTGAAGAGCCGAAACCTTGAATACAGTTAGCAAGAACAAAGCTCCC
1 GTCG-ATTAAGGCTGACAGGCGAAGAGTCGTAACCTCCAAAACAGTTAGCGAGAGCAAAGCTCCC
*
38689730 AGTT
65 AGCT
* * * *
38689734 GTC-ATTAGGGCTTACAGGCGAAGAGTCGTAACCTCCAACACAGTTAGCGAGAGCAAAGCTCCTA
1 GTCGATTAAGGCTGACAGGCGAAGAGTCGTAACCTCCAAAACAGTTAGCGAGAGCAAAGCTCCCA
38689798 GCT
66 GCT
* * * * **
38689801 GTCGTATTAAGGCTGGCATGTGAAGAGTCGTAACCTCCAAAATAGTTATAGAGAGCAAAGCTCC
1 GTCG-ATTAAGGCTGACAGGCGAAGAGTCGTAACCTCCAAAACAGTTAGCGAGAGCAAAGCTCC
38689865 GAACTGTCAT
Statistics
Matches: 107, Mismatches: 22, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
67 54 0.50
69 53 0.50
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.21
Consensus pattern (68 bp):
GTCGATTAAGGCTGACAGGCGAAGAGTCGTAACCTCCAAAACAGTTAGCGAGAGCAAAGCTCCCA
GCT
Found at i:38689839 original size:69 final size:69
Alignment explanation
Indices: 38689665--38689883 Score: 208
Period size: 69 Copynumber: 3.2 Consensus size: 69
38689655 CAACATTCGA
* * * ** * * *
38689665 GTCGTATTCAGGCTCACAGGTGAAGAGCCGAAACCTTGAATACAGTTAGCAAGAACAAAGCTCCC
1 GTCGTATTAAGGCTCACAGGTGAAGAGTCGTAACCTCCAAAACAGTTAGCGAGAGCAAAGCTCCC
*
38689730 AGTT
66 AGCT
* * * * *
38689734 GTC--ATTAGGGCTTACAGGCGAAGAGTCGTAACCTCCAACACAGTTAGCGAGAGCAAAGCTCCT
1 GTCGTATTAAGGCTCACAGGTGAAGAGTCGTAACCTCCAAAACAGTTAGCGAGAGCAAAGCTCCC
38689797 AGCT
66 AGCT
** * * ** *
38689801 GTCGTATTAAGGCTGGCATGTGAAGAGTCGTAACCTCCAAAATAGTTATAGAGAGCAAAGCTCCG
1 GTCGTATTAAGGCTCACAGGTGAAGAGTCGTAACCTCCAAAACAGTTAGCGAGAGCAAAGCTCCC
*
38689866 AACT
66 AGCT
* *
38689870 GTCATATCAAGGCT
1 GTCGTATTAAGGCT
38689884 TGCAAGCGAA
Statistics
Matches: 122, Mismatches: 26, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
67 54 0.44
69 68 0.56
ACGTcount: A:0.32, C:0.22, G:0.24, T:0.21
Consensus pattern (69 bp):
GTCGTATTAAGGCTCACAGGTGAAGAGTCGTAACCTCCAAAACAGTTAGCGAGAGCAAAGCTCCC
AGCT
Found at i:38689895 original size:69 final size:69
Alignment explanation
Indices: 38689742--38689967 Score: 193
Period size: 69 Copynumber: 3.3 Consensus size: 69
38689732 TTGTCATTAG
* * * * * * *
38689742 GGCTTACAGGCGAAGAGTCGTAACCTCCAACACAGTTAGCGAGAGCAAAGCTCCTAGCTGTCGTA
1 GGCTTGCAAGCGAAGAGTCGTAACCTCCAAAACAGTTAGAGAGAGCAAAGCTCCGAACTGTCATA
*
38689807 TTAA
66 TCAA
* * * * *
38689811 GGCTGGCATGTGAAGAGTCGTAACCTCCAAAATAGTTATAGAGAGCAAAGCTCCGAACTGTCATA
1 GGCTTGCAAGCGAAGAGTCGTAACCTCCAAAACAGTTAGAGAGAGCAAAGCTCCGAACTGTCATA
38689876 TCAA
66 TCAA
* * ** * * * * * *
38689880 GGCTTGCAAGCGAAGAG-CTGCAGCCTCCAACGCCGTTAGTGAGACCAAAGTTCCCAACTTTCAT
1 GGCTTGCAAGCGAAGAGTC-GTAACCTCCAAAACAGTTAGAGAGAGCAAAGCTCCGAACTGTCAT
*
38689944 ATTAA
65 ATCAA
* * *
38689949 GGCTCGCAGGCGAATAGTC
1 GGCTTGCAAGCGAAGAGTC
38689968 ACGCCTTCAA
Statistics
Matches: 124, Mismatches: 31, Indels: 3
0.78 0.20 0.02
Matches are distributed among these distances:
68 1 0.01
69 122 0.98
70 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.24, T:0.21
Consensus pattern (69 bp):
GGCTTGCAAGCGAAGAGTCGTAACCTCCAAAACAGTTAGAGAGAGCAAAGCTCCGAACTGTCATA
TCAA
Found at i:38690084 original size:69 final size:69
Alignment explanation
Indices: 38689834--38690138 Score: 211
Period size: 69 Copynumber: 4.4 Consensus size: 69
38689824 AGAGTCGTAA
* * * * * * * * * *
38689834 CCTCCAAAATAGTTATAGAGAGCAAAGCT-CCGAACTGTCATATCAAGGCTTGCAAGCGAAGAGC
1 CCTCCAACACAGTTAGAGAGAGCAAAGCTGTC-AACTATCATATTAAGGCTCGCAGGCAAAAAGC
**
38689898 TGCAG
65 CACAG
* * * * * ** * * * *
38689903 CCTCCAACGCCGTTAGTGAGACCAAAGTTCCCAACTTTCATATTAAGGCTCGCAGGCGAATAGTC
1 CCTCCAACACAGTTAGAGAGAGCAAAGCTGTCAACTATCATATTAAGGCTCGCAGGCAAAAAGCC
38689968 AC-G
66 ACAG
* * * * * * ** * *
38689971 CCTTCAACATAGTTAGTGAG-GACAAAACTCTTAGTTGTCATATTAAGGCTCGTAGGCAAAAAGC
1 CCTCCAACACAGTTAGAGAGAG-CAAAGCTGTCAACTATCATATTAAGGCTCGCAGGCAAAAAGC
38690035 CACAG
65 CACAG
*** * *
38690040 CCTCCAATGTAGTTAGAGAGAGCAAAGCTGTCAACTATCATATTAAGGTTCGCAGGCAAAGAGCC
1 CCTCCAACACAGTTAGAGAGAGCAAAGCTGTCAACTATCATATTAAGGCTCGCAGGCAAAAAGCC
38690105 ACAG
66 ACAG
* *
38690109 CCTCCAACACAGTTAGCGAGTGCAAAGCTG
1 CCTCCAACACAGTTAGAGAGAGCAAAGCTG
38690139 CTAGCTTTGC
Statistics
Matches: 182, Mismatches: 50, Indels: 8
0.76 0.21 0.03
Matches are distributed among these distances:
68 51 0.28
69 128 0.70
70 3 0.02
ACGTcount: A:0.33, C:0.24, G:0.22, T:0.21
Consensus pattern (69 bp):
CCTCCAACACAGTTAGAGAGAGCAAAGCTGTCAACTATCATATTAAGGCTCGCAGGCAAAAAGCC
ACAG
Found at i:38704733 original size:49 final size:49
Alignment explanation
Indices: 38704669--38704844 Score: 140
Period size: 56 Copynumber: 3.4 Consensus size: 49
38704659 AGTCATGTCT
* * * *
38704669 CAGACATGGTTTTACATGGGATGTT-TCTTGTAC-TGCCAATGCCATATCC
1 CAGACATGGTCTTACATGGGA-GTTCTCATCT-CGTGCCAACGCCATATCC
* *
38704718 CAGATATGGTCTTACATGGGAGTTCTCATCTCGGTGCCAACGCCATGTCC
1 CAGACATGGTCTTACATGGGAGTTCTCATCTC-GTGCCAACGCCATATCC
* * * * *
38704768 CAAACATGGTCTTACATGGGACCTCTCATAATCTCAATGATGCCAATGCCATGTCC
1 CAGACATGGTCTTACATGGGA-GT-TC-TCATCTC---G-TGCCAACGCCATATCC
*
38704824 CATACATGGTCTTACATGGGA
1 CAGACATGGTCTTACATGGGA
38704845 TCTCTTTACC
Statistics
Matches: 105, Mismatches: 13, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
48 4 0.04
49 23 0.22
50 33 0.31
51 1 0.01
52 2 0.02
53 6 0.06
55 1 0.01
56 35 0.33
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.30
Consensus pattern (49 bp):
CAGACATGGTCTTACATGGGAGTTCTCATCTCGTGCCAACGCCATATCC
Done.