Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 222 of 290
Found at i:72412925 original size:39 final size:39
Alignment explanation
Indices: 72412688--72412930 Score: 122
Period size: 40 Copynumber: 6.1 Consensus size: 39
72412678 TTGAATGCTG
* ** *
72412688 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTGAAC-GAGTGACTATA
* * ** * *
72412728 TCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTATTA-A
1 TCCGGGCTAAG-TCCCGAAGGCA-TTGAACGAGTGACTATA
* * **
72412767 TTCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGAT-ACTA-A
1 -TCCGGGCTAAGTCCCGAAGG-CATTGAACGAG-TGACTATA
* ** ** *
72412807 TTCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGT-TTTAAAA
1 -TCCGGGCTAAGTCCCGAAGGCATT-GAACGAGTGACT-ATA
* * *
72412848 TCCGGGTTAAGTCCCGAAGGCATTGAATGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTGAACGAGTGACTATA
*
72412887 -CCGGGCTATGTCCCGAAGGCACTTGAACGAG-GAGCTATA
1 TCCGGGCTAAGTCCCGAAGGCA-TTGAACGAGTGA-CTATA
72412926 TCCGG
1 TCCGG
72412931 TTAAATTCCG
Statistics
Matches: 166, Mismatches: 24, Indels: 26
0.77 0.11 0.12
Matches are distributed among these distances:
38 20 0.12
39 27 0.16
40 110 0.66
41 9 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (39 bp):
TCCGGGCTAAGTCCCGAAGGCATTGAACGAGTGACTATA
Found at i:72416848 original size:46 final size:45
Alignment explanation
Indices: 72416798--72416970 Score: 172
Period size: 46 Copynumber: 3.8 Consensus size: 45
72416788 TGGTTGAGCA
72416798 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
**** * *
72416844 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGGGAAATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
* *
72416891 TCCAAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
72416937 -CCTGAGCTCGTTGAGTTGAGTCTGAGTTCACTTA
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTA
72416971 GGGGCGGGTT
Statistics
Matches: 101, Mismatches: 18, Indels: 16
0.75 0.13 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 3 0.03
46 59 0.58
47 30 0.30
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:72416954 original size:93 final size:93
Alignment explanation
Indices: 72416795--72416965 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
72416785 GGATGGTTGA
* *
72416795 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
72416860 TGAGTCCGAGTTCGGGAAATGTAACTAG
66 TGAGTCCGAGTTCGGGAAATGTAACTAG
* *
72416888 GCATCCAAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGAG
*
72416952 TTGAGTCTGAGTTC
65 TTGAGTCCGAGTTC
72416966 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGGGAAATGTAACTAG
Found at i:72419758 original size:94 final size:92
Alignment explanation
Indices: 72419511--72419775 Score: 283
Period size: 94 Copynumber: 2.8 Consensus size: 92
72419501 GGATAAATTA
* * *
72419511 CCGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCATATATGCGTGCTGATGCATGTCCCA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-ATGTG-GCAGATGCATGTCCCA
* *
72419576 AACATGTCTTACACTAGCACAACTCTTAG
64 GACATGTCTTACACTAGCACAACTCTGAG
* * * *
72419605 CCGATG-CGTGTCCCAGACA-CGTCTTACATTGGCTAC-C-T-CTGTCCAGGCTA-ATGCATGTC
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCT-CTCATAATGT---GGC-AGATGCATGTC
* *
72419664 CTAGACATGTCTTACACTAGCAC-TCATCTAGATG
61 CCAGACATGTCTTACACTAGCACAAC-TCT-GA-G
*
72419698 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCAGAAGCATGTCCCAGA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCAGATGCATGTCCCAGA
72419763 CATGTCTTACACT
66 CATGTCTTACACT
72419776 GGCGCACAAA
Statistics
Matches: 140, Mismatches: 17, Indels: 28
0.76 0.09 0.15
Matches are distributed among these distances:
89 2 0.01
90 1 0.01
91 36 0.26
92 15 0.11
93 21 0.15
94 47 0.34
95 14 0.10
96 1 0.01
97 3 0.02
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (92 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCAGATGCATGTCCCAGA
CATGTCTTACACTAGCACAACTCTGAG
Found at i:72426761 original size:47 final size:46
Alignment explanation
Indices: 72426616--72426782 Score: 151
Period size: 46 Copynumber: 3.6 Consensus size: 46
72426606 CAAGGCTAAT
* * * * **
72426616 GCATGTCCCGAATATGTCTTACTCTGGCACTCATAATATGGTTGAA
1 GCATGTCCCAAACATGTCTTACACTGGCACTCATAATGTGGCCGAA
* * * * *
72426662 GCATGT-CCAAGACATGTCTTACACTAGCCCTCGT-CTG-GATGCCGAT
1 GCATGTCCCAA-ACATGTCTTACACTGGCACTCATAATGTG--GCCGAA
* *
72426708 GCCATGTCCCATACATGGTCTTACACTGGCTCTCATAATGTGGCCGAA
1 G-CATGTCCCAAACAT-GTCTTACACTGGCACTCATAATGTGGCCGAA
72426756 GCATGTCCCAAACATGTCTTACACTGG
1 GCATGTCCCAAACATGTCTTACACTGG
72426783 TGCACAAATC
Statistics
Matches: 95, Mismatches: 18, Indels: 16
0.74 0.14 0.12
Matches are distributed among these distances:
44 1 0.01
45 4 0.04
46 40 0.42
47 22 0.23
48 25 0.26
49 2 0.02
50 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (46 bp):
GCATGTCCCAAACATGTCTTACACTGGCACTCATAATGTGGCCGAA
Found at i:72443910 original size:90 final size:90
Alignment explanation
Indices: 72443777--72443941 Score: 224
Period size: 90 Copynumber: 1.8 Consensus size: 90
72443767 GTTTGGGTTG
* * * * * *
72443777 ATGAGATCCCGTATAAGACCATATCTAGGATATGGCATCGGCATCG-GTATGTGTTATCATGTAA
1 ATGAGATCCCATATAAGACCATACCTAGGACATGGCATCGGCATCGAGT-TGTGATACCAAGTAA
72443841 GACCATATCTGAGATGTGGTGTTGAT
65 GACCATATCTGAGATGTGGTGTTGAT
* * * *
72443867 ATGAGATCCCATGTAAGACCATGCCTAGGACATGGCATTGGCATCGAGTTGTGATCCCAAGTAAG
1 ATGAGATCCCATATAAGACCATACCTAGGACATGGCATCGGCATCGAGTTGTGATACCAAGTAAG
72443932 ACCATATCTG
66 ACCATATCTG
72443942 GGATATGGCG
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
90 62 0.97
91 2 0.03
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (90 bp):
ATGAGATCCCATATAAGACCATACCTAGGACATGGCATCGGCATCGAGTTGTGATACCAAGTAAG
ACCATATCTGAGATGTGGTGTTGAT
Found at i:72443950 original size:48 final size:48
Alignment explanation
Indices: 72443781--72443959 Score: 140
Period size: 48 Copynumber: 3.9 Consensus size: 48
72443771 GGGTTGATGA
* * *
72443781 GATCCCGTATAAGACCATATCTAGGATATGGCATCGGCATCG-GTATGT
1 GATCCCATGTAAGACCATATCTAGGATATGGCATTGGCATCGAGT-TGT
* ** * ** *
72443829 GTTATCATGTAAGACCATATCT-GAGATGTGGTGTT-G-AT--A--TGA
1 GATCCCATGTAAGACCATATCTAG-GATATGGCATTGGCATCGAGTTGT
** *
72443871 GATCCCATGTAAGACCATGCCTAGGACATGGCATTGGCATCGAGTTGT
1 GATCCCATGTAAGACCATATCTAGGATATGGCATTGGCATCGAGTTGT
* * *
72443919 GATCCCAAGTAAGACCATATCTGGGATATGGCGTTGGCATC
1 GATCCCATGTAAGACCATATCTAGGATATGGCATTGGCATC
72443960 TTACTATGTG
Statistics
Matches: 96, Mismatches: 26, Indels: 18
0.69 0.19 0.13
Matches are distributed among these distances:
42 26 0.27
43 2 0.02
44 2 0.02
46 3 0.03
47 2 0.02
48 61 0.64
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (48 bp):
GATCCCATGTAAGACCATATCTAGGATATGGCATTGGCATCGAGTTGT
Found at i:72445348 original size:66 final size:66
Alignment explanation
Indices: 72445278--72445407 Score: 188
Period size: 66 Copynumber: 2.0 Consensus size: 66
72445268 TAACCCCTTA
* * *
72445278 AATCAACAACCCTTTAAACCCCAGACCCTAAATCTCTAATCATAAACCCCTAAAACTATAAACAC
1 AATCAACAACCCTTTAAACACCAGACCCTAAATATCAAATCATAAACCCCTAAAACTATAAACAC
72445343 T
66 T
* * * * *
72445344 AATCAATAACTCTTTAAACACCAGACCCTAAATATCAAATCATAAACTCTTAAAACTCTAAACA
1 AATCAACAACCCTTTAAACACCAGACCCTAAATATCAAATCATAAACCCCTAAAACTATAAACA
72445408 ATAAACCTTA
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
66 56 1.00
ACGTcount: A:0.46, C:0.29, G:0.02, T:0.23
Consensus pattern (66 bp):
AATCAACAACCCTTTAAACACCAGACCCTAAATATCAAATCATAAACCCCTAAAACTATAAACAC
T
Found at i:72445491 original size:22 final size:23
Alignment explanation
Indices: 72445451--72445503 Score: 72
Period size: 22 Copynumber: 2.3 Consensus size: 23
72445441 TCTCAAATCA
* *
72445451 TAAACCCTTAAAACTCCAACCCC
1 TAAACCCCTAAAACCCCAACCCC
*
72445474 TAAACCCCT-AAACCCCAACCCT
1 TAAACCCCTAAAACCCCAACCCC
72445496 TAAACCCC
1 TAAACCCC
72445504 AAGCCCTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 19 0.70
23 8 0.30
ACGTcount: A:0.38, C:0.47, G:0.00, T:0.15
Consensus pattern (23 bp):
TAAACCCCTAAAACCCCAACCCC
Found at i:72445493 original size:14 final size:14
Alignment explanation
Indices: 72445476--72445513 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
72445466 CCAACCCCTA
72445476 AACCCCTAAACCCC
1 AACCCCTAAACCCC
*
72445490 AACCCTTAAACCCC
1 AACCCCTAAACCCC
*
72445504 AAGCCCTAAA
1 AACCCCTAAA
72445514 ACAATGTTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.39, C:0.47, G:0.03, T:0.11
Consensus pattern (14 bp):
AACCCCTAAACCCC
Found at i:72445495 original size:65 final size:66
Alignment explanation
Indices: 72445371--72445500 Score: 156
Period size: 65 Copynumber: 2.0 Consensus size: 66
72445361 ACACCAGACC
* * * *
72445371 CTAAATATCAAATCATAAACTCTTAAAACTCTAAACAATAAACCTTAATCCCAACACCC-TAAAC
1 CTAAATATCAAATCATAAACCCTTAAAACTCCAAACAATAAACCCTAAACCCAACACCCTTAAAC
72445435 T
66 T
* * ** *
72445436 CTAAATCTCAAATCATAAACCCTTAAAACTCCAACCCCTAAACCCCTAAACCCCA-ACCCTTAAA
1 CTAAATATCAAATCATAAACCCTTAAAACTCCAAACAATAAA-CCCTAAACCCAACACCCTTAAA
72445500 C
65 C
72445501 CCCAAGCCCT
Statistics
Matches: 54, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
65 40 0.74
66 14 0.26
ACGTcount: A:0.45, C:0.34, G:0.00, T:0.22
Consensus pattern (66 bp):
CTAAATATCAAATCATAAACCCTTAAAACTCCAAACAATAAACCCTAAACCCAACACCCTTAAAC
T
Found at i:72445816 original size:7 final size:7
Alignment explanation
Indices: 72445806--72445864 Score: 73
Period size: 7 Copynumber: 8.0 Consensus size: 7
72445796 TAAAAAATAA
72445806 AAAATTT
1 AAAATTT
72445813 AAAATTT
1 AAAATTT
72445820 AAAATTT
1 AAAATTT
72445827 AAAAATTT
1 -AAAATTT
72445835 AAAAATTT
1 -AAAATTT
72445843 AAAAATTT
1 -AAAATTT
*
72445851 AAAAATT
1 AAAATTT
*
72445858 AATATTT
1 AAAATTT
72445865 TAGTCCATAT
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
7 25 0.52
8 23 0.48
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (7 bp):
AAAATTT
Found at i:72445816 original size:8 final size:8
Alignment explanation
Indices: 72445805--72445857 Score: 92
Period size: 8 Copynumber: 6.9 Consensus size: 8
72445795 ATAAAAAATA
72445805 AAAAATTT
1 AAAAATTT
72445813 -AAAATTT
1 AAAAATTT
72445820 -AAAATTT
1 AAAAATTT
72445827 AAAAATTT
1 AAAAATTT
72445835 AAAAATTT
1 AAAAATTT
72445843 AAAAATTT
1 AAAAATTT
72445851 AAAAATT
1 AAAAATT
72445858 AATATTTTAG
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
7 14 0.32
8 30 0.68
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
AAAAATTT
Found at i:72445866 original size:15 final size:15
Alignment explanation
Indices: 72445790--72445859 Score: 86
Period size: 15 Copynumber: 4.6 Consensus size: 15
72445780 AAATAAACTC
* * *
72445790 AAAAAATAAAAAATA
1 AAAAATTAAAAATTT
*
72445805 AAAAATTTAAAATTT
1 AAAAATTAAAAATTT
*
72445820 AAAATTTAAAAATTT
1 AAAAATTAAAAATTT
72445835 AAAAATTTAAAAATTT
1 AAAAA-TTAAAAATTT
72445851 AAAAATTAA
1 AAAAATTAA
72445860 TATTTTAGTC
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
15 32 0.68
16 15 0.32
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
AAAAATTAAAAATTT
Found at i:72445966 original size:9 final size:9
Alignment explanation
Indices: 72445952--72445994 Score: 50
Period size: 9 Copynumber: 4.4 Consensus size: 9
72445942 ATTTTTAAAC
72445952 AAAAAAAAT
1 AAAAAAAAT
72445961 AAAAAAAAT
1 AAAAAAAAT
*
72445970 ATATTAAAAAT
1 A-A-AAAAAAT
72445981 AAAAAAAATT
1 AAAAAAAA-T
72445991 AAAA
1 AAAA
72445995 TTAAACAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
9 15 0.52
10 7 0.24
11 7 0.24
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAAAAAAAT
Found at i:72447260 original size:7 final size:7
Alignment explanation
Indices: 72447248--72447289 Score: 75
Period size: 7 Copynumber: 6.0 Consensus size: 7
72447238 ATTTGTGCCT
72447248 TAACTCA
1 TAACTCA
72447255 TAACTCA
1 TAACTCA
72447262 TAACTCA
1 TAACTCA
72447269 TAACTCA
1 TAACTCA
*
72447276 TAACTTA
1 TAACTCA
72447283 TAACTCA
1 TAACTCA
72447290 CAATAGAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.43, C:0.26, G:0.00, T:0.31
Consensus pattern (7 bp):
TAACTCA
Found at i:72448720 original size:23 final size:23
Alignment explanation
Indices: 72448693--72448989 Score: 192
Period size: 23 Copynumber: 12.9 Consensus size: 23
72448683 TGGCTGCTGT
72448693 TGTTTAAATGCTGCAAATTGAAG
1 TGTTTAAATGCTGCAAATTGAAG
* *
72448716 TGTTTGAATGCTGTAAATTGAAG
1 TGTTTAAATGCTGCAAATTGAAG
* *
72448739 TGTTTAAATGTTGTAAATTGAAG
1 TGTTTAAATGCTGCAAATTGAAG
* *
72448762 TGTTTAAGTACTGCAAATTGAAG
1 TGTTTAAATGCTGCAAATTGAAG
* ***
72448785 TGTTGAAGCACTGCAAATTGAAG
1 TGTTTAAATGCTGCAAATTGAAG
** *
72448808 TGTTTAGTTGCTGGAAATTG-AG
1 TGTTTAAATGCTGCAAATTGAAG
* * *
72448830 ATGTTT-TATCGTTG-TAATTG-AG
1 -TGTTTAAAT-GCTGCAAATTGAAG
** * **
72448852 TTGTACAAATGTTGTTAATTG-AG
1 -TGTTTAAATGCTGCAAATTGAAG
*
72448875 ATG-TTAAAGTGCTGCAAATTGAAA
1 -TGTTTAAA-TGCTGCAAATTGAAG
* *
72448899 TGTTTAAATACTGTAAATTGAAG
1 TGTTTAAATGCTGCAAATTGAAG
** * *
72448922 TACTTAAATGTTGTAAATTGAAG
1 TGTTTAAATGCTGCAAATTGAAG
* * *
72448945 TGTTTTAAGTACTACAAATTGAAG
1 TG-TTTAAATGCTGCAAATTGAAG
** *
72448969 TGTTTAGTTGCTGGAAATTGA
1 TGTTTAAATGCTGCAAATTGA
72448990 GATGTTTCAT
Statistics
Matches: 216, Mismatches: 50, Indels: 16
0.77 0.18 0.06
Matches are distributed among these distances:
22 20 0.09
23 173 0.80
24 23 0.11
ACGTcount: A:0.33, C:0.06, G:0.23, T:0.38
Consensus pattern (23 bp):
TGTTTAAATGCTGCAAATTGAAG
Found at i:72448940 original size:114 final size:114
Alignment explanation
Indices: 72448696--72448951 Score: 268
Period size: 114 Copynumber: 2.2 Consensus size: 114
72448686 CTGCTGTTGT
* * * **
72448696 TTAAATGCTGCAAATTGAAGTGTTTGAAT-GCTGTAAATTGAAG-TGTTTAAATGTTGTAAATTG
1 TTAAATGCTGGAAATTGAAGTGTTT-TATCGTTGT-AATTG-AGTTGTACAAATGTTGTAAATTG
* * * **
72448759 AAGTGTTTAAGTACTGCAAATTGAAGTGTTGAAGCACTGCAAATTGAAGTGT
63 AAGTGTTAAAGTACTGCAAATTGAAATGTTGAAACACTGCAAATTGAAGTAC
** *
72448811 TTAGTTGCTGGAAATTG-AGATGTTTTATCGTTGTAATTGAGTTGTACAAATGTTGTTAATTG-A
1 TTAAATGCTGGAAATTGAAG-TGTTTTATCGTTGTAATTGAGTTGTACAAATGTTGTAAATTGAA
* * * *
72448874 GATGTTAAAGTGCTGCAAATTGAAATGTTTAAATACTGTAAATTGAAGTAC
65 G-TGTTAAAGTACTGCAAATTGAAATGTTGAAACACTGCAAATTGAAGTAC
* *
72448925 TTAAATGTTGTAAATTGAAGTGTTTTA
1 TTAAATGCTGGAAATTGAAGTGTTTTA
72448952 AGTACTACAA
Statistics
Matches: 115, Mismatches: 21, Indels: 11
0.78 0.14 0.07
Matches are distributed among these distances:
113 4 0.03
114 86 0.75
115 25 0.22
ACGTcount: A:0.33, C:0.06, G:0.22, T:0.39
Consensus pattern (114 bp):
TTAAATGCTGGAAATTGAAGTGTTTTATCGTTGTAATTGAGTTGTACAAATGTTGTAAATTGAAG
TGTTAAAGTACTGCAAATTGAAATGTTGAAACACTGCAAATTGAAGTAC
Found at i:72448988 original size:70 final size:69
Alignment explanation
Indices: 72448858--72448989 Score: 158
Period size: 70 Copynumber: 1.9 Consensus size: 69
72448848 TGAGTTGTAC
* * * *
72448858 AAATGTTGTTAATTGAGATGTTAAAGTGCTGCAAATTGAAATGTTTAAATACTGTAAATTGAAGT
1 AAATGTTGTAAATTGAGATGTTAAAGTACTACAAATTGAAATGTTTAAATACTGGAAATTGAAGT
72448923 ACTT
66 ACTT
* * ** *
72448927 AAATGTTGTAAATTGA-AGTGTTTTAAGTACTACAAATTGAAGTGTTTAGTTGCTGGAAATTGA
1 AAATGTTGTAAATTGAGA-TG-TTAAAGTACTACAAATTGAAATGTTTAAATACTGGAAATTGA
72448990 GATGTTTCAT
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
68 1 0.02
69 17 0.33
70 34 0.65
ACGTcount: A:0.36, C:0.05, G:0.20, T:0.38
Consensus pattern (69 bp):
AAATGTTGTAAATTGAGATGTTAAAGTACTACAAATTGAAATGTTTAAATACTGGAAATTGAAGT
ACTT
Found at i:72449472 original size:19 final size:19
Alignment explanation
Indices: 72449449--72449495 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
72449439 ATTTAATCTA
*
72449449 ATTTTTATTATTTA-TTTT
1 ATTTTTATTATATATTTTT
* *
72449467 AGTTTTGATTCTATATTTTT
1 A-TTTTTATTATATATTTTT
72449487 ATTTTTATT
1 ATTTTTATT
72449496 TTAATAATTA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 1 0.04
19 17 0.74
20 5 0.22
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.72
Consensus pattern (19 bp):
ATTTTTATTATATATTTTT
Found at i:72449497 original size:31 final size:30
Alignment explanation
Indices: 72449416--72449507 Score: 91
Period size: 31 Copynumber: 3.0 Consensus size: 30
72449406 AAAATACTTG
*
72449416 CTATA-TTTTATTTATATCTTTATATTTAAT
1 CTATATTTTTATTTTTAT-TTTATATTTAAT
*
72449446 CTA-ATTTTTATTATTTATTTTAGT-TTTGATT
1 CTATATTTTTATT-TTTATTTTA-TATTT-AAT
*
72449477 CTATATTTTTATTTTTATTTTAATAATTAAT
1 CTATATTTTTATTTTTATTTT-ATATTTAAT
72449508 AACTTGAGTT
Statistics
Matches: 51, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
29 1 0.02
30 17 0.33
31 21 0.41
32 12 0.24
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.65
Consensus pattern (30 bp):
CTATATTTTTATTTTTATTTTATATTTAAT
Found at i:72454322 original size:93 final size:93
Alignment explanation
Indices: 72454210--72454381 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
72454200 ACCCATAAGT
* * *
72454210 GAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGTGAACTCGGAGTCAACTTAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
72454275 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
72454303 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
72454368 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
72454382 CAAACATCCT
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:72454377 original size:46 final size:46
Alignment explanation
Indices: 72454202--72454377 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
72454192 TGTGACCCAC
*
72454202 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* * *
72454248 CCATAAGTGAACTCGGAGTCAACTTAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
72454294 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
72454341 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
72454378 TGCCCAAACA
Statistics
Matches: 108, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
46 68 0.63
47 30 0.28
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:72456311 original size:20 final size:20
Alignment explanation
Indices: 72456283--72456334 Score: 50
Period size: 20 Copynumber: 2.6 Consensus size: 20
72456273 AATCAAGTGC
* **
72456283 AAATGATTTTAACCATTTCA
1 AAATCATTTTAACCAAGTCA
* * *
72456303 AAATTATTTCAATCAAGTCA
1 AAATCATTTTAACCAAGTCA
72456323 AAATCATTTTAA
1 AAATCATTTTAA
72456335 AATGATTTTT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.44, C:0.13, G:0.04, T:0.38
Consensus pattern (20 bp):
AAATCATTTTAACCAAGTCA
Found at i:72461075 original size:24 final size:24
Alignment explanation
Indices: 72461024--72461264 Score: 351
Period size: 24 Copynumber: 10.0 Consensus size: 24
72461014 GCTTTATAAT
* *
72461024 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTG
*
72461049 ATAACTGGGGCGA-AAGCCCTTTTA
1 ATAACTGGGGC-ATAAGCCCTTTTG
72461073 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
* *
72461097 ATAACTGGGGCGTAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTG
72461121 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
*
72461145 ATAGCTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
*
72461169 ATAACTGGGGCATAAGCTCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
*
72461193 ATAGCTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
* *
72461217 ATAACTGGGGCATAAGCTCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTG
72461241 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
72461265 CACTTCCTCC
Statistics
Matches: 197, Mismatches: 16, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
23 1 0.01
24 184 0.93
25 12 0.06
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTG
Found at i:72461338 original size:20 final size:21
Alignment explanation
Indices: 72461313--72461369 Score: 77
Period size: 20 Copynumber: 2.9 Consensus size: 21
72461303 TTATGATTAC
*
72461313 ATCATGTGCATTTCATA-CAT
1 ATCATGTGCATATCATATCAT
72461333 ATCATGTGCATATCATATCAT
1 ATCATGTGCATATCATATCAT
72461354 -TCATGT--ATATCATATC
1 ATCATGTGCATATCATATC
72461370 CCACTTATCA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
18 10 0.29
20 22 0.63
21 3 0.09
ACGTcount: A:0.32, C:0.19, G:0.09, T:0.40
Consensus pattern (21 bp):
ATCATGTGCATATCATATCAT
Found at i:72461479 original size:24 final size:24
Alignment explanation
Indices: 72461452--72461605 Score: 236
Period size: 24 Copynumber: 6.4 Consensus size: 24
72461442 TCATAGGCGA
*
72461452 AAGCCCTTTTAATAACTAGGGCAT
1 AAGCCCTTTTAATAACTGGGGCAT
* *
72461476 AAGCCCTTTTGATAACTGGGGCGT
1 AAGCCCTTTTAATAACTGGGGCAT
72461500 AAGCCCTTTTAATAACTGGGGCAT
1 AAGCCCTTTTAATAACTGGGGCAT
* *
72461524 AAGCCCTTTTGATAGCTGGGGCAT
1 AAGCCCTTTTAATAACTGGGGCAT
*
72461548 AAGCCCTTTTGATAACTGGGGCAT
1 AAGCCCTTTTAATAACTGGGGCAT
* *
72461572 AAGCTCTTTTAATAACTAGGGCAT
1 AAGCCCTTTTAATAACTGGGGCAT
72461596 AAGCCCTTTT
1 AAGCCCTTTT
72461606 GCACTTCCTC
Statistics
Matches: 118, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 118 1.00
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.31
Consensus pattern (24 bp):
AAGCCCTTTTAATAACTGGGGCAT
Found at i:72461680 original size:20 final size:21
Alignment explanation
Indices: 72461655--72461701 Score: 71
Period size: 20 Copynumber: 2.3 Consensus size: 21
72461645 TTATGATTAC
*
72461655 ATCATGTGCATTTCATA-CAT
1 ATCATGTGCATATCATATCAT
72461675 ATCATGTGCATATCATATCAT
1 ATCATGTGCATATCATATCAT
72461696 -TCATGT
1 ATCATGT
72461702 ACATCATATC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 22 0.88
21 3 0.12
ACGTcount: A:0.30, C:0.19, G:0.11, T:0.40
Consensus pattern (21 bp):
ATCATGTGCATATCATATCAT
Found at i:72461735 original size:342 final size:342
Alignment explanation
Indices: 72461105--72461788 Score: 1296
Period size: 342 Copynumber: 2.0 Consensus size: 342
72461095 TGATAACTGG
* * * *
72461105 GGCGTAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTGATAGCTGGGGCATAAGCCCTTTTGA
1 GGCGAAAGCCCTTTTAATAACTAGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTAA
*
72461170 TAACTGGGGCATAAGCTCTTTTGATAGCTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCT
66 TAACTGGGGCATAAGCCCTTTTGATAGCTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCT
*
72461235 CTTTTAATAACTGGGGCATAAGCCCTTTTGCACTTCCTCCATCCATATAAAAACCCAACCCAATG
131 CTTTTAATAACTAGGGCATAAGCCCTTTTGCACTTCCTCCATCCATATAAAAACCCAACCCAATG
*
72461300 CATTTATGATTACATCATGTGCATTTCATACATATCATGTGCATATCATATCATTCATGTATATC
196 CATTTATGATTACATCATGTGCATTTCATACATATCATGTGCATATCATATCATTCATGTACATC
72461365 ATATCCCACTTATCAAATTTATAATTAAACCCTAGGTGTATAATGGTCATTTTTACCTAGGGGCA
261 ATATCCCACTTATCAAATTTATAATTAAACCCTAGGTGTATAATGGTCATTTTTACCTAGGGGCA
72461430 AAGCAGTCATTTTCATA
326 AAGCAGTCATTTTCATA
*
72461447 GGCGAAAGCCCTTTTAATAACTAGGGCATAAGCCCTTTTGATAACTGGGGCGTAAGCCCTTTTAA
1 GGCGAAAGCCCTTTTAATAACTAGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTAA
72461512 TAACTGGGGCATAAGCCCTTTTGATAGCTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCT
66 TAACTGGGGCATAAGCCCTTTTGATAGCTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCT
72461577 CTTTTAATAACTAGGGCATAAGCCCTTTTGCACTTCCTCCATCCATATAAAAACCCAACCCAATG
131 CTTTTAATAACTAGGGCATAAGCCCTTTTGCACTTCCTCCATCCATATAAAAACCCAACCCAATG
72461642 CATTTATGATTACATCATGTGCATTTCATACATATCATGTGCATATCATATCATTCATGTACATC
196 CATTTATGATTACATCATGTGCATTTCATACATATCATGTGCATATCATATCATTCATGTACATC
72461707 ATATCCCACTTATCAAATTTATAATTAAACCCTAGGTGTATAATGGTCATTTTTACCTAGGGGCA
261 ATATCCCACTTATCAAATTTATAATTAAACCCTAGGTGTATAATGGTCATTTTTACCTAGGGGCA
72461772 AAGCAGTCATTTTCATA
326 AAGCAGTCATTTTCATA
72461789 TTATAAAGGT
Statistics
Matches: 334, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
342 334 1.00
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (342 bp):
GGCGAAAGCCCTTTTAATAACTAGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTAA
TAACTGGGGCATAAGCCCTTTTGATAGCTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCT
CTTTTAATAACTAGGGCATAAGCCCTTTTGCACTTCCTCCATCCATATAAAAACCCAACCCAATG
CATTTATGATTACATCATGTGCATTTCATACATATCATGTGCATATCATATCATTCATGTACATC
ATATCCCACTTATCAAATTTATAATTAAACCCTAGGTGTATAATGGTCATTTTTACCTAGGGGCA
AAGCAGTCATTTTCATA
Found at i:72469508 original size:24 final size:24
Alignment explanation
Indices: 72469457--72469648 Score: 269
Period size: 24 Copynumber: 8.0 Consensus size: 24
72469447 GCTTTATCAT
*
72469457 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
72469482 ATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
72469506 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
72469530 ATAACTGGGGCGTAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
72469554 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
* *
72469578 ATAGCTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
72469602 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
** *
72469626 ATAACTAAGGTATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
72469649 GCACTTCTTC
Statistics
Matches: 152, Mismatches: 14, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
24 140 0.92
25 12 0.08
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:72469723 original size:20 final size:20
Alignment explanation
Indices: 72469698--72469792 Score: 151
Period size: 20 Copynumber: 4.8 Consensus size: 20
72469688 TTATGATTAC
*
72469698 ATCATGTGCATTTCATACAT
1 ATCATGTGCATATCATACAT
72469718 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
72469738 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
72469758 ATCATGTGCATATCATATCAT
1 ATCATGTGCATATCATA-CAT
72469779 -TCATGT--ATATCATA
1 ATCATGTGCATATCATA
72469793 TCCCACTTAT
Statistics
Matches: 73, Mismatches: 1, Indels: 4
0.94 0.01 0.05
Matches are distributed among these distances:
18 8 0.11
20 62 0.85
21 3 0.04
ACGTcount: A:0.34, C:0.19, G:0.09, T:0.38
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:72469729 original size:11 final size:11
Alignment explanation
Indices: 72469698--72469773 Score: 74
Period size: 11 Copynumber: 7.5 Consensus size: 11
72469688 TTATGATTAC
72469698 ATCATGTGCAT
1 ATCATGTGCAT
* *
72469709 TTCA--TACAT
1 ATCATGTGCAT
72469718 ATCATGTGCAT
1 ATCATGTGCAT
*
72469729 ATCA--TACAT
1 ATCATGTGCAT
72469738 ATCATGTGCAT
1 ATCATGTGCAT
*
72469749 ATCA--TACAT
1 ATCATGTGCAT
72469758 ATCATGTGCAT
1 ATCATGTGCAT
72469769 ATCAT
1 ATCAT
72469774 ATCATTCATG
Statistics
Matches: 51, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
9 23 0.45
11 28 0.55
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.37
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:72469738 original size:9 final size:9
Alignment explanation
Indices: 72469710--72469762 Score: 52
Period size: 9 Copynumber: 5.4 Consensus size: 9
72469700 CATGTGCATT
72469710 TCATACATA
1 TCATACATA
*
72469719 TCATGTGCATA
1 TCA--TACATA
72469730 TCATACATA
1 TCATACATA
*
72469739 TCATGTGCATA
1 TCA--TACATA
72469750 TCATACATA
1 TCATACATA
72469759 TCAT
1 TCAT
72469763 GTGCATATCA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
9 20 0.56
11 16 0.44
ACGTcount: A:0.36, C:0.21, G:0.08, T:0.36
Consensus pattern (9 bp):
TCATACATA
Found at i:72479019 original size:28 final size:28
Alignment explanation
Indices: 72478987--72479051 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
72478977 ATTTACTAGG
*
72478987 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
* *
72479015 ATACCCCTATGTATGCTAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
72479043 ATACCCCTA
1 ATACCCCTA
72479052 GGGTTAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.32, C:0.28, G:0.08, T:0.32
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:72479198 original size:28 final size:28
Alignment explanation
Indices: 72479157--72479245 Score: 121
Period size: 27 Copynumber: 3.2 Consensus size: 28
72479147 AGGAAGCGTC
72479157 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAATTATCTGTT
*
72479185 CTGGTGGCCCTGCCAC-AATTATCTG-T
1 CTGGTGGCACTGCCACAAATTATCTGTT
*
72479211 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCACAAATTATCTGT-T
72479240 CTGGTG
1 CTGGTG
72479246 ACTCTGTCAC
Statistics
Matches: 54, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
26 16 0.30
27 17 0.31
28 14 0.26
29 7 0.13
ACGTcount: A:0.20, C:0.25, G:0.24, T:0.31
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAATTATCTGTT
Found at i:72479264 original size:54 final size:54
Alignment explanation
Indices: 72479157--72479264 Score: 139
Period size: 54 Copynumber: 2.0 Consensus size: 54
72479147 AGGAAGCGTC
* *
72479157 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACAATTATCTGT
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACAATTATCTGT
* * *
72479211 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCAC-ATTTTCTGT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACAATTATCTGT
72479265 ATCTGGCAGC
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
53 1 0.02
54 32 0.68
55 14 0.30
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.34
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACAATTATCTGT
Found at i:72479734 original size:18 final size:18
Alignment explanation
Indices: 72479695--72479735 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
72479685 TAATAAGGCC
* *
72479695 TTTTAATTATTTTTATGG
1 TTTTAATTACTTTTATGA
*
72479713 TTTTAATTACTTTTATTA
1 TTTTAATTACTTTTATGA
72479731 TTTTA
1 TTTTA
72479736 TTTTACTATG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.24, C:0.02, G:0.05, T:0.68
Consensus pattern (18 bp):
TTTTAATTACTTTTATGA
Found at i:72480607 original size:5 final size:5
Alignment explanation
Indices: 72480597--72480623 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
72480587 CAATTTTTGA
72480597 AAAAT AAAAT AAAAT AAAAT AAAAT AA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AA
72480624 CACACAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:72481123 original size:43 final size:43
Alignment explanation
Indices: 72481013--72481139 Score: 141
Period size: 43 Copynumber: 3.0 Consensus size: 43
72481003 GATCTTACTT
* * * ** * *
72481013 GTAATCACATATCGATGCCACTATCCTGGACAGGGTGTTACAC
1 GTAATCACAAATCGATGCCAATGTCCCAGACATGGTCTTACAC
* * *
72481056 G-AATCAAAAAT-GATGTCGATGTCCCAGACATGGTCTTACAC
1 GTAATCACAAATCGATGCCAATGTCCCAGACATGGTCTTACAC
*
72481097 GTAATCACACATCGATGCCAATGTCCCAGACATGGTCTTACAC
1 GTAATCACAAATCGATGCCAATGTCCCAGACATGGTCTTACAC
72481140 AAGAACACAT
Statistics
Matches: 68, Mismatches: 14, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
41 23 0.34
42 16 0.24
43 29 0.43
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (43 bp):
GTAATCACAAATCGATGCCAATGTCCCAGACATGGTCTTACAC
Found at i:72486605 original size:28 final size:28
Alignment explanation
Indices: 72486569--72486648 Score: 99
Period size: 29 Copynumber: 2.8 Consensus size: 28
72486559 CATACATGCT
* *
72486569 TATGGCCCACTAGGCCCATTCTCAT-TCA
1 TATGGCCCACTAGGCCCAATCACATCT-A
* *
72486597 TATGACCCATTAGGCCCAAATCACATCTA
1 TATGGCCCACTAGGCCC-AATCACATCTA
72486626 TATGGCCCACTAGGCCCAATCAC
1 TATGGCCCACTAGGCCCAATCAC
72486649 TTTTACAGTC
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
28 21 0.48
29 22 0.50
30 1 0.02
ACGTcount: A:0.28, C:0.35, G:0.14, T:0.24
Consensus pattern (28 bp):
TATGGCCCACTAGGCCCAATCACATCTA
Found at i:72486634 original size:29 final size:28
Alignment explanation
Indices: 72486569--72486648 Score: 99
Period size: 28 Copynumber: 2.8 Consensus size: 28
72486559 CATACATGCT
* *
72486569 TATGGCCCACTAGGCCCATTCTCATTCA
1 TATGGCCCACTAGGCCCAATCACATTCA
* *
72486597 TATGACCCATTAGGCCCAAATCACA-TCTA
1 TATGGCCCACTAGGCCC-AATCACATTC-A
72486626 TATGGCCCACTAGGCCCAATCAC
1 TATGGCCCACTAGGCCCAATCAC
72486649 TTTTACAGTC
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
28 23 0.52
29 21 0.48
ACGTcount: A:0.28, C:0.35, G:0.14, T:0.24
Consensus pattern (28 bp):
TATGGCCCACTAGGCCCAATCACATTCA
Found at i:72486892 original size:16 final size:17
Alignment explanation
Indices: 72486873--72486909 Score: 67
Period size: 16 Copynumber: 2.2 Consensus size: 17
72486863 AAATTTTGGC
72486873 TTTTCGACATTTCAG-T
1 TTTTCGACATTTCAGCT
72486889 TTTTCGACATTTCAGCT
1 TTTTCGACATTTCAGCT
72486906 TTTT
1 TTTT
72486910 GGGATTTGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 15 0.75
17 5 0.25
ACGTcount: A:0.16, C:0.19, G:0.11, T:0.54
Consensus pattern (17 bp):
TTTTCGACATTTCAGCT
Found at i:72495215 original size:45 final size:45
Alignment explanation
Indices: 72495166--72495282 Score: 171
Period size: 45 Copynumber: 2.6 Consensus size: 45
72495156 GTATTTCTGA
* * * *
72495166 GTAAGACCACGTCTGGGACGTTGGCATCGATATATGTGTTTTCGT
1 GTAAGACCACGTCTGGGACATTGGCATCGATATATATGGTTACGT
*
72495211 GTAAGACCACGTCTAGGACATTGGCATCGATATATATGGTTACGT
1 GTAAGACCACGTCTGGGACATTGGCATCGATATATATGGTTACGT
* *
72495256 GTAAGACCATGTCTGGGACATCGGCAT
1 GTAAGACCACGTCTGGGACATTGGCAT
72495283 TGTATTAGAT
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 64 1.00
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (45 bp):
GTAAGACCACGTCTGGGACATTGGCATCGATATATATGGTTACGT
Found at i:72495323 original size:41 final size:43
Alignment explanation
Indices: 72495187--72495329 Score: 132
Period size: 45 Copynumber: 3.3 Consensus size: 43
72495177 TCTGGGACGT
* *
72495187 TGGCATCGATATATGTGTTTTCGTGTAAGACCAC-GTCTAGGACA
1 TGGCATCGATATATATG-ATTCGTGTAAGACC-CTGTCTAGGACA
* * *
72495231 TTGGCATCGATATATATGGTTACGTGTAAGACCATGTCTGGGACA
1 -TGGCATCGATATATATGATT-CGTGTAAGACCCTGTCTAGGACA
* *
72495276 TCGGCATTG-TAT-TA-GATTCGAGTAAGACCCTGTCTAGGACA
1 T-GGCATCGATATATATGATTCGTGTAAGACCCTGTCTAGGACA
*
72495317 GTGGCATCAATAT
1 -TGGCATCGATAT
72495330 GAGATAGCAT
Statistics
Matches: 82, Mismatches: 11, Indels: 13
0.77 0.10 0.12
Matches are distributed among these distances:
41 25 0.30
42 7 0.09
43 2 0.02
44 6 0.07
45 42 0.51
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (43 bp):
TGGCATCGATATATATGATTCGTGTAAGACCCTGTCTAGGACA
Found at i:72497363 original size:40 final size:40
Alignment explanation
Indices: 72497092--72497356 Score: 333
Period size: 40 Copynumber: 6.7 Consensus size: 40
72497082 TTGAATGATG
* * * *
72497092 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
72497132 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* **
72497172 TCCGGGCTAAG-CCCGAAGGCATTTTTATGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
72497211 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
72497251 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
72497291 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
72497332 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
72497357 AACGAGTAGC
Statistics
Matches: 197, Mismatches: 21, Indels: 14
0.85 0.09 0.06
Matches are distributed among these distances:
39 33 0.17
40 154 0.78
41 10 0.05
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:72497363 original size:80 final size:78
Alignment explanation
Indices: 72497093--72497389 Score: 314
Period size: 80 Copynumber: 3.7 Consensus size: 78
72497083 TGAATGATGT
* * * * * **
72497093 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTAC-GAGTTACTAAATCCGGGTTAAG-TCCGAAGGCATTT
* *
72497157 GTGCGAGATACTAATT
64 GTGCGAGTTACTAA-A
* * **
72497173 CCGGGCTAAG-CCCGAAGGCATTTTTATGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTAAATCCGGGTTAAG-TCCGAAGGCATTTG
72497237 TGCGAGTTACTAAA
65 TGCGAGTTACTAAA
* *
72497251 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 -CCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTAAATCCGGGTTAAGT-CCGAAGGCATTT
72497316 GTGCGAGTTACTATAA
64 GTGCGAGTTACTA-AA
* * * *
72497332 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTA-CTAAATCCGGGTT-AAGTCCGAAGG
72497390 TACGTGATTT
Statistics
Matches: 189, Mismatches: 21, Indels: 15
0.84 0.09 0.07
Matches are distributed among these distances:
79 77 0.41
80 110 0.58
81 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (78 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTAAATCCGGGTTAAGTCCGAAGGCATTTGT
GCGAGTTACTAAA
Found at i:72497363 original size:120 final size:118
Alignment explanation
Indices: 72497145--72497389 Score: 307
Period size: 120 Copynumber: 2.1 Consensus size: 118
72497135 GGACTAAGAT
* * *
72497145 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTTTATGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTACGAGTTACTAA
** *
72497210 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTA-CTAAATCCGGGTTAAGTC
66 ATCCGGACTAAGATCCGAAGGCATTTGAACGAG-TAGCTAAATCC-GGTTAAATC
* * *
72497264 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAG-CCCGAAGGCATTTGTACGAGTTACTA
* * * *
72497329 TAA-CCGGGCTATG-TCCCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAAATT
65 -AATCCGGACTAAGAT-CCGAAGGCATTTGAACGAGTAGCTAAATCCGGTTAAATC
72497383 CCGAAGG
1 CCGAAGG
72497390 TACGTGATTT
Statistics
Matches: 109, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
119 52 0.48
120 55 0.50
121 2 0.02
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (118 bp):
CCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTACGAGTTACTAA
ATCCGGACTAAGATCCGAAGGCATTTGAACGAGTAGCTAAATCCGGTTAAATC
Found at i:72500063 original size:38 final size:38
Alignment explanation
Indices: 72500020--72500130 Score: 168
Period size: 38 Copynumber: 2.9 Consensus size: 38
72500010 TTGCAAATTA
* *
72500020 ACATGTATAACCGTGGCATATCCACTTAGCACTACGTT
1 ACATGTATAACCGTGGTATATCCACTTAGCACCACGTT
* *
72500058 ACATGTTTAACCGTGGTATATCAACTTAGCACCACGTT
1 ACATGTATAACCGTGGTATATCCACTTAGCACCACGTT
* *
72500096 ACACGTATAACTGTGGTATATCCACTTAGCACCAC
1 ACATGTATAACCGTGGTATATCCACTTAGCACCAC
72500131 ATTTTCCCAT
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 65 1.00
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (38 bp):
ACATGTATAACCGTGGTATATCCACTTAGCACCACGTT
Found at i:72502756 original size:30 final size:30
Alignment explanation
Indices: 72502721--72502778 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
72502711 AAAAACTAAG
*
72502721 TAAAGAAATTCAAG-ATAGAGAAACCCAAAA
1 TAAAGAAA-TCAAGAATAAAGAAACCCAAAA
*
72502751 TAAAGAAATCCAGAATAAAGAAACCCAA
1 TAAAGAAATCAAGAATAAAGAAACCCAA
72502779 GATACGATAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 4 0.16
30 21 0.84
ACGTcount: A:0.60, C:0.16, G:0.12, T:0.12
Consensus pattern (30 bp):
TAAAGAAATCAAGAATAAAGAAACCCAAAA
Found at i:72502757 original size:15 final size:15
Alignment explanation
Indices: 72502739--72502778 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
72502729 TTCAAGATAG
72502739 AGAAACCCAAAATAA
1 AGAAACCCAAAATAA
* *
72502754 AGAAATCCAGAATAA
1 AGAAACCCAAAATAA
72502769 AGAAACCCAA
1 AGAAACCCAA
72502779 GATACGATAC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.62, C:0.20, G:0.10, T:0.07
Consensus pattern (15 bp):
AGAAACCCAAAATAA
Found at i:72509604 original size:32 final size:32
Alignment explanation
Indices: 72509563--72509623 Score: 122
Period size: 32 Copynumber: 1.9 Consensus size: 32
72509553 AAAAGATTCG
72509563 AAGATGGTTTGAATGAAGACATTAAACTTTCA
1 AAGATGGTTTGAATGAAGACATTAAACTTTCA
72509595 AAGATGGTTTGAATGAAGACATTAAACTT
1 AAGATGGTTTGAATGAAGACATTAAACTT
72509624 ATTGTTGGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.41, C:0.08, G:0.20, T:0.31
Consensus pattern (32 bp):
AAGATGGTTTGAATGAAGACATTAAACTTTCA
Found at i:72519881 original size:40 final size:40
Alignment explanation
Indices: 72519804--72519941 Score: 199
Period size: 40 Copynumber: 3.5 Consensus size: 40
72519794 AGACCAAGTA
* * * *
72519804 CCTTTGGGATTTAG-CCGGATATAGCT-ACTCACTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
72519843 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
72519883 CCTTCGAGACTTAGCCCGAATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
72519923 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
72519942 TTACCATCTG
Statistics
Matches: 89, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
39 13 0.15
40 76 0.85
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:72523198 original size:28 final size:28
Alignment explanation
Indices: 72523165--72523285 Score: 136
Period size: 28 Copynumber: 4.3 Consensus size: 28
72523155 ATTGCATGAC
* *
72523165 TATGAATGTGATTGGGCCTGACGGGCCA
1 TATGAATATGATTGGGCCTGATGGGCCA
*
72523193 TATGAA-AGTGATTGGGCTTGATGGGCCA
1 TATGAATA-TGATTGGGCCTGATGGGCCA
**
72523221 TATGAATATGATTGGGCCCAATGGGCCA
1 TATGAATATGATTGGGCCTGATGGGCCA
* * *
72523249 TATGAATAAGATTGGGCCTAAAGGGGCCA
1 TATGAATATGATTGGGCCT-GATGGGCCA
*
72523278 AATGAATA
1 TATGAATA
72523286 AGTATGGATC
Statistics
Matches: 80, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
28 64 0.80
29 16 0.20
ACGTcount: A:0.30, C:0.14, G:0.31, T:0.25
Consensus pattern (28 bp):
TATGAATATGATTGGGCCTGATGGGCCA
Found at i:72525972 original size:36 final size:36
Alignment explanation
Indices: 72525925--72525996 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
72525915 ATATATCATG
72525925 AATGTTGGTATTCGACAATTAGCATGGAAATTTGAT
1 AATGTTGGTATTCGACAATTAGCATGGAAATTTGAT
*
72525961 AATGTTGGTATTCGACAATTAGCATTGAAATTTGAT
1 AATGTTGGTATTCGACAATTAGCATGGAAATTTGAT
72525997 TATTATTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.33, C:0.08, G:0.21, T:0.38
Consensus pattern (36 bp):
AATGTTGGTATTCGACAATTAGCATGGAAATTTGAT
Found at i:72527395 original size:19 final size:19
Alignment explanation
Indices: 72527371--72527408 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
72527361 AAAACTTGAA
*
72527371 ACAAATAGGAATGATTTTC
1 ACAAATAGAAATGATTTTC
72527390 ACAAATAGAAATGATTTTC
1 ACAAATAGAAATGATTTTC
72527409 TTCTCTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.45, C:0.11, G:0.13, T:0.32
Consensus pattern (19 bp):
ACAAATAGAAATGATTTTC
Found at i:72537573 original size:28 final size:28
Alignment explanation
Indices: 72537499--72537598 Score: 128
Period size: 28 Copynumber: 3.5 Consensus size: 28
72537489 ATTGCATGAC
*
72537499 TATGAATGTGATTGGGGCCGATGGGCCA
1 TATGAATGTGATTGGGGCTGATGGGCCA
*
72537527 TATGAATGTGATTGGGGCTGATGGGTCA
1 TATGAATGTGATTGGGGCTGATGGGCCA
* * *
72537555 TATGAAAGTGATTGGGGCTTAATAGGCCA
1 TATGAATGTGATTGGGGC-TGATGGGCCA
* *
72537584 TATGTATGAGATTGG
1 TATGAATGTGATTGG
72537599 ACCTAAAGGG
Statistics
Matches: 62, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
28 43 0.69
29 19 0.31
ACGTcount: A:0.25, C:0.09, G:0.36, T:0.30
Consensus pattern (28 bp):
TATGAATGTGATTGGGGCTGATGGGCCA
Found at i:72542153 original size:29 final size:29
Alignment explanation
Indices: 72542098--72542175 Score: 88
Period size: 28 Copynumber: 2.8 Consensus size: 29
72542088 ATTGTATGAT
* ** *
72542098 TATGAATGTGATTGGGGCC-GCTGGGCCA
1 TATGAATGTGATTTGGGCCTAATAGGCCA
72542126 TATGAATGTGATTTGGGCCTAATAGGCCA
1 TATGAATGTGATTTGGGCCTAATAGGCCA
* *
72542155 CATGAATGAGA-TTGGGCCTAA
1 TATGAATGTGATTTGGGCCTAA
72542176 AGGGGCAAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
28 28 0.65
29 15 0.35
ACGTcount: A:0.26, C:0.15, G:0.32, T:0.27
Consensus pattern (29 bp):
TATGAATGTGATTTGGGCCTAATAGGCCA
Found at i:72542169 original size:28 final size:29
Alignment explanation
Indices: 72542121--72542175 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
72542111 GGGGCCGCTG
* *
72542121 GGCCATATGAATGTGATTTGGGCCTAATA
1 GGCCACATGAATGAGATTTGGGCCTAATA
72542150 GGCCACATGAATGAGA-TTGGGCCTAA
1 GGCCACATGAATGAGATTTGGGCCTAA
72542176 AGGGGCAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 10 0.42
29 14 0.58
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.25
Consensus pattern (29 bp):
GGCCACATGAATGAGATTTGGGCCTAATA
Found at i:72546165 original size:34 final size:34
Alignment explanation
Indices: 72546119--72546187 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
72546109 TGATAGATTA
*
72546119 TCATCCGGGTAAGGCAAACGTTGTTGCTGATGCT
1 TCATCCGAGTAAGGCAAACGTTGTTGCTGATGCT
72546153 TCATCCGAGTAAGGCAAACGTTGTTGCTGATGCT
1 TCATCCGAGTAAGGCAAACGTTGTTGCTGATGCT
72546187 T
1 T
72546188 TGAGCTGGAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (34 bp):
TCATCCGAGTAAGGCAAACGTTGTTGCTGATGCT
Found at i:72547829 original size:42 final size:42
Alignment explanation
Indices: 72547709--72547830 Score: 101
Period size: 42 Copynumber: 2.9 Consensus size: 42
72547699 CATGACATAG
* *
72547709 GATTTCGTGTAAGACCAC-GTCTAGGAT-GTTGGCATCGACTTCT
1 GATTTTGTGTAAGACC-CTGTCTGGGATAG-TGGCATC-ACTTCT
* * *
72547752 -ATTTTACGTGTAAGACCATGTTTGGGACA-TCGGCATC-CTATCT
1 GATTTT--GTGTAAGACCCTGTCTGGGATAGT-GGCATCACT-TCT
72547795 GATTTTGTGTAAGACCCTGTCTGGGATAGTGGCATC
1 GATTTTGTGTAAGACCCTGTCTGGGATAGTGGCATC
72547831 GATGTTTGAT
Statistics
Matches: 63, Mismatches: 8, Indels: 17
0.72 0.09 0.19
Matches are distributed among these distances:
42 31 0.49
43 5 0.08
44 27 0.43
ACGTcount: A:0.21, C:0.20, G:0.25, T:0.34
Consensus pattern (42 bp):
GATTTTGTGTAAGACCCTGTCTGGGATAGTGGCATCACTTCT
Found at i:72556583 original size:39 final size:40
Alignment explanation
Indices: 72556483--72556667 Score: 200
Period size: 40 Copynumber: 4.7 Consensus size: 40
72556473 TCGAATGATG
* * * *
72556483 TCCGGGCTAAGTCTCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* *
72556522 ATCCAGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
72556563 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
72556602 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
72556641 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
72556668 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
39 36 0.29
40 77 0.63
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:72556689 original size:79 final size:79
Alignment explanation
Indices: 72556536--72556700 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
72556526 AGACTAAGAT
* **
72556536 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
72556601 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
72556615 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
72556678 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
72556694 CCGAAGG
1 CCGAAGG
72556701 TACGTGATTC
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 49 0.65
80 24 0.32
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:72559673 original size:37 final size:37
Alignment explanation
Indices: 72559623--72559701 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
72559613 TTATTACGAA
* * *
72559623 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
72559660 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
72559697 GTCTT
1 GTCTT
72559702 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:72560088 original size:49 final size:47
Alignment explanation
Indices: 72559820--72560376 Score: 902
Period size: 47 Copynumber: 11.7 Consensus size: 47
72559810 CCCTTCGGGA
* * * * * *
72559820 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
72559867 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
72559914 CTTACCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
72559961 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
72560008 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
72560055 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGTC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
72560104 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
72560153 CTTATCACATATATACATTTTCACATTCATCACATCGGCCATTGGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
72560200 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
72560249 CTTATCACATATATACACTTTCA-ATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
72560295 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
72560342 CTTATCACATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
72560377 AGAATCCTAA
Statistics
Matches: 482, Mismatches: 22, Indels: 12
0.93 0.04 0.02
Matches are distributed among these distances:
46 47 0.10
47 298 0.62
49 137 0.28
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:72560097 original size:96 final size:94
Alignment explanation
Indices: 72559820--72560376 Score: 902
Period size: 96 Copynumber: 5.9 Consensus size: 94
72559810 CCCTTCGGGA
* * * * * * * *
72559820 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
72559885 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
*
72559914 CTTACCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
72559979 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
72560008 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
* *
72560073 ACTTTCACATTCATCACATTGGCCATTAGTC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
72560104 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
* *
72560169 ATTTTCACATTCATCACATCGGCCATTGGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
72560200 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
72560265 ACTTTCA-ATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
*
72560295 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATGCA-
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
72560359 TGTTCACATCCATCACAT
66 T-TTCACATTCATCACAT
72560377 AGAATCCTAA
Statistics
Matches: 437, Mismatches: 20, Indels: 12
0.93 0.04 0.03
Matches are distributed among these distances:
92 1 0.00
93 59 0.14
94 149 0.34
95 30 0.07
96 151 0.35
98 47 0.11
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:72564265 original size:40 final size:40
Alignment explanation
Indices: 72564236--72564464 Score: 359
Period size: 40 Copynumber: 5.7 Consensus size: 40
72564226 GCATGATTGT
* * *
72564236 TCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGC
1 TCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGC
** * *
72564276 TCTTCGGGGTTTAGCACGGATATATCTCTAGCACGAATGC
1 TCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGC
* * *
72564316 TCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGC
1 TCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGC
*
72564356 TCTTCGGGATTTAGCCCGGATATATCACTAGCACGAATGC
1 TCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGC
72564396 TCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGC
1 TCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGC
72564436 TCTTCGGGACTTAGCCCGGATATATCACT
1 TCTTCGGGACTTAGCCCGGATATATCACT
72564465 CTCAATTCTC
Statistics
Matches: 170, Mismatches: 19, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 170 1.00
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
TCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGC
Found at i:72565730 original size:37 final size:37
Alignment explanation
Indices: 72565680--72565758 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
72565670 TTATTACGAA
* * *
72565680 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
72565717 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
72565754 GTCTT
1 GTCTT
72565759 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:72566051 original size:49 final size:47
Alignment explanation
Indices: 72565877--72566245 Score: 578
Period size: 47 Copynumber: 7.7 Consensus size: 47
72565867 CCCTTCGGGA
* * * * * *
72565877 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
72565924 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
72565971 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
72566018 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTGGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
72566067 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTGGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
72566116 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
72566163 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
72566210 CTTATCACATATATGCA-TGTTCACATTCCATCACAT
1 CTTATCACATATATACACT-TTCACATT-CATCACAT
72566246 AGAATCCTAA
Statistics
Matches: 305, Mismatches: 13, Indels: 7
0.94 0.04 0.02
Matches are distributed among these distances:
46 1 0.00
47 201 0.66
48 8 0.03
49 95 0.31
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:72566215 original size:192 final size:190
Alignment explanation
Indices: 72565877--72566223 Score: 613
Period size: 192 Copynumber: 1.8 Consensus size: 190
72565867 CCCTTCGGGA
* * *
72565877 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATTTATACACTTTCACATCCATCACATCGGCCACTCGGCCCTATCACATATATACAC
72565942 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
72566007 GGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTGGGC
131 GGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTGGGC
* * * *
72566067 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTGGGCCTTATCACATATATAC
1 CTTATCACAT-T-TATACACTTTCACATCCATCACATCGGCCACTCGGCCCTATCACATATATAC
72566132 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
72566197 TCGGCCATTAGGCCTTATCACATATAT
129 TCGGCCATTAGGCCTTATCACATATAT
72566224 GCATGTTCAC
Statistics
Matches: 148, Mismatches: 7, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
190 10 0.07
191 1 0.01
192 137 0.93
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (190 bp):
CTTATCACATTTATACACTTTCACATCCATCACATCGGCCACTCGGCCCTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTGGGC
Found at i:72580604 original size:55 final size:55
Alignment explanation
Indices: 72580510--72580613 Score: 131
Period size: 55 Copynumber: 1.9 Consensus size: 55
72580500 AGGTCCATGC
* * *
72580510 CCGTGTTAATTTGACAGGTTCACCCACGGGTGATGGGCACGGGCGTGTCACACGT
1 CCGTGTTAATTTGACAGGTTCACCCACGGGTCATAGGCACGAGCGTGTCACACGT
* *
72580565 CCGTGCTT-ATTTGACAGGTTCGCCCACGGTTTCA-AGGCACGAGCGTGTC
1 CCGTG-TTAATTTGACAGGTTCACCCACGG-GTCATAGGCACGAGCGTGTC
72580614 GCACTCTCAT
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
55 38 0.90
56 4 0.10
ACGTcount: A:0.17, C:0.27, G:0.31, T:0.25
Consensus pattern (55 bp):
CCGTGTTAATTTGACAGGTTCACCCACGGGTCATAGGCACGAGCGTGTCACACGT
Found at i:72585198 original size:13 final size:13
Alignment explanation
Indices: 72585189--72585233 Score: 63
Period size: 13 Copynumber: 3.5 Consensus size: 13
72585179 TGGCATGCCT
*
72585189 GTGTGACATGCCC
1 GTGTGACACGCCC
*
72585202 ATGTGACACGCCC
1 GTGTGACACGCCC
*
72585215 GTGTGACACGCCT
1 GTGTGACACGCCC
72585228 GTGTGA
1 GTGTGA
72585234 GGAAGCCCTG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.18, C:0.29, G:0.31, T:0.22
Consensus pattern (13 bp):
GTGTGACACGCCC
Found at i:72588297 original size:29 final size:29
Alignment explanation
Indices: 72588230--72588422 Score: 200
Period size: 29 Copynumber: 6.8 Consensus size: 29
72588220 TACATACATG
* *
72588230 CATATGGCCCACTAGACCCAATCTCA--TT
1 CATATGGCCCATTAGGCCCAAT-TCACGTT
* *
72588258 TATATGGCCCATTTGGCCCAATTCACGTT
1 CATATGGCCCATTAGGCCCAATTCACGTT
** *
72588287 CATATAACCCATTAGGCCCAATTCACATT
1 CATATGGCCCATTAGGCCCAATTCACGTT
*
72588316 CATATGGCCCATTAGGCCCAATCTTA--TT
1 CATATGGCCCATTAGGCCCAAT-TCACGTT
* *
72588344 TATATGGCCCATCCA-GCCCAATTCACGTT
1 CATATGGCCCAT-TAGGCCCAATTCACGTT
*
72588373 CATATGGCCCATCAGGCCCAATTCACGTT
1 CATATGGCCCATTAGGCCCAATTCACGTT
* *
72588402 TATATGTCCCA-TAGGCCCAAT
1 CATATGGCCCATTAGGCCCAAT
72588423 CTCATTTATG
Statistics
Matches: 139, Mismatches: 19, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
27 5 0.04
28 49 0.35
29 83 0.60
30 2 0.01
ACGTcount: A:0.26, C:0.32, G:0.13, T:0.28
Consensus pattern (29 bp):
CATATGGCCCATTAGGCCCAATTCACGTT
Found at i:72588307 original size:57 final size:57
Alignment explanation
Indices: 72588231--72588454 Score: 206
Period size: 57 Copynumber: 3.9 Consensus size: 57
72588221 ACATACATGC
* * * * ** *
72588231 ATATGGCCCACTAGACCCAATCTCATTTATATGGCCCATTTGGCCCAATTCACGTTC
1 ATATGACCCATTAGGCCCAATCTCATTCATATGGCCCATCAGGCCCAATTCACGTTT
* * * *
72588288 ATATAACCCATTAGGCCCAATTCACATTCATATGGCCCATTAGGCCCAATCTTA--TTT
1 ATATGACCCATTAGGCCCAA-TCTCATTCATATGGCCCATCAGGCCCAAT-TCACGTTT
* *
72588345 ATATGGCCCATCCA-GCCCAAT-TCACGTTCATATGGCCCATCAGGCCCAATTCACGTTT
1 ATATGACCCAT-TAGGCCCAATCTCA--TTCATATGGCCCATCAGGCCCAATTCACGTTT
* * * * *
72588403 ATATGTCCCA-TAGGCCCAATCTCATTTATGTGGCCCATCCGGCCCAAATCAC
1 ATATGACCCATTAGGCCCAATCTCATTCATATGGCCCATCAGGCCCAATTCAC
72588455 ATTATATTCA
Statistics
Matches: 137, Mismatches: 21, Indels: 19
0.77 0.12 0.11
Matches are distributed among these distances:
55 2 0.01
56 28 0.20
57 63 0.46
58 42 0.31
59 2 0.01
ACGTcount: A:0.26, C:0.32, G:0.14, T:0.28
Consensus pattern (57 bp):
ATATGACCCATTAGGCCCAATCTCATTCATATGGCCCATCAGGCCCAATTCACGTTT
Found at i:72588375 original size:86 final size:85
Alignment explanation
Indices: 72588225--72588454 Score: 316
Period size: 86 Copynumber: 2.7 Consensus size: 85
72588215 ACCGCTACAT
* * **
72588225 ACATGCATATGGCCCACTAGACCCAATCTCATTTATATGGCCCATTTGGCCCAATTCACGTTCAT
1 ACATTCATATGGCCCA-TAGGCCCAATCTCATTTATATGGCCCATCCGGCCCAATTCACGTTCAT
*
72588290 ATAACCCATTAGGCCCAATTC
65 ATAACCCATCAGGCCCAATTC
* *
72588311 ACATTCATATGGCCCATTAGGCCCAATCTTATTTATATGGCCCATCCAGCCCAATTCACGTTCAT
1 ACATTCATATGGCCCA-TAGGCCCAATCTCATTTATATGGCCCATCCGGCCCAATTCACGTTCAT
**
72588376 ATGGCCCATCAGGCCCAATTC
65 ATAACCCATCAGGCCCAATTC
* * * * *
72588397 ACGTTTATATGTCCCATAGGCCCAATCTCATTTATGTGGCCCATCCGGCCCAAATCAC
1 ACATTCATATGGCCCATAGGCCCAATCTCATTTATATGGCCCATCCGGCCCAATTCAC
72588455 ATTATATTCA
Statistics
Matches: 127, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
85 38 0.30
86 89 0.70
ACGTcount: A:0.26, C:0.32, G:0.14, T:0.28
Consensus pattern (85 bp):
ACATTCATATGGCCCATAGGCCCAATCTCATTTATATGGCCCATCCGGCCCAATTCACGTTCATA
TAACCCATCAGGCCCAATTC
Found at i:72588459 original size:28 final size:28
Alignment explanation
Indices: 72588231--72588461 Score: 150
Period size: 29 Copynumber: 8.1 Consensus size: 28
72588221 ACATACATGC
* *
72588231 ATATGGCCCA-CTAGACCC-AATCTCATTT
1 ATATGGCCCATC-AGGCCCAAATCACA-TT
** * *
72588259 ATATGGCCCATTTGGCCCAATTCACGTT
1 ATATGGCCCATCAGGCCCAAATCACATT
** * *
72588287 CATATAACCCATTAGGCCCAATTCACATT
1 -ATATGGCCCATCAGGCCCAAATCACATT
* **
72588316 CATATGGCCCATTAGGCCC-AATCTTATTT
1 -ATATGGCCCATCAGGCCCAAATCACA-TT
* *
72588345 ATATGGCCCATCCA-GCCCAATTCACGTT
1 ATATGGCCCAT-CAGGCCCAAATCACATT
* *
72588373 CATATGGCCCATCAGGCCCAATTCACGTTT
1 -ATATGGCCCATCAGGCCCAAATCAC-ATT
* *
72588403 ATATGTCCCAT-AGGCCC-AATCTCATTT
1 ATATGGCCCATCAGGCCCAAATCACA-TT
* *
72588430 ATGTGGCCCATCCGGCCCAAATCACATT
1 ATATGGCCCATCAGGCCCAAATCACATT
72588458 ATAT
1 ATAT
72588462 TCATGCTTAT
Statistics
Matches: 161, Mismatches: 30, Indels: 24
0.75 0.14 0.11
Matches are distributed among these distances:
27 15 0.09
28 55 0.34
29 89 0.55
30 2 0.01
ACGTcount: A:0.26, C:0.31, G:0.13, T:0.29
Consensus pattern (28 bp):
ATATGGCCCATCAGGCCCAAATCACATT
Found at i:72592899 original size:29 final size:29
Alignment explanation
Indices: 72592828--72593016 Score: 186
Period size: 29 Copynumber: 6.6 Consensus size: 29
72592818 ACCGCTACAT
* *
72592828 ACATGCATATGGCCCA-CTAGACCCAA-TC
1 ACATTCATATGGCCCATC-AGGCCCAATTC
* * **
72592856 TCATTTATATGGCCCATTTGGCCCAATTC
1 ACATTCATATGGCCCATCAGGCCCAATTC
*
72592885 ACGTTCATATGGCCCATCAGGCCCAATTC
1 ACATTCATATGGCCCATCAGGCCCAATTC
*
72592914 ACATTCATATGGCCCATTAGGCCCAA-TC
1 ACATTCATATGGCCCATCAGGCCCAATTC
* * * * * * *
72592942 GCATTTATTTGACCCATCCGACACAATTC
1 ACATTCATATGGCCCATCAGGCCCAATTC
*
72592971 ACGTTCATATGGCCCATCAGGCCCAATTC
1 ACATTCATATGGCCCATCAGGCCCAATTC
* *
72593000 ATATTCATATGACCCAT
1 ACATTCATATGGCCCAT
72593017 TAGCTTAATC
Statistics
Matches: 126, Mismatches: 32, Indels: 5
0.77 0.20 0.03
Matches are distributed among these distances:
28 39 0.31
29 87 0.69
ACGTcount: A:0.27, C:0.32, G:0.14, T:0.28
Consensus pattern (29 bp):
ACATTCATATGGCCCATCAGGCCCAATTC
Found at i:72592910 original size:57 final size:57
Alignment explanation
Indices: 72592828--72593040 Score: 191
Period size: 57 Copynumber: 3.7 Consensus size: 57
72592818 ACCGCTACAT
* * * *
72592828 ACATGCATATGGCCCA-CTAGACCCAATCTCATTTATATGGCCCATTTGGCCCAATTC
1 ACATTCATATGACCCATC-AGACCCAATCTCATTCATATGGCCCATTAGGCCCAATTC
* * * *
72592885 ACGTTCATATGGCCCATCAGGCCCAATTCACATTCATATGGCCCATTAGGCCCAA-TC
1 ACATTCATATGACCCATCAGACCCAA-TCTCATTCATATGGCCCATTAGGCCCAATTC
* * * * * *
72592942 GCATTTATTTGACCCATCCGACACAAT-TCACGTTCATATGGCCCATCAGGCCCAATTC
1 ACATTCATATGACCCATCAGACCCAATCTCA--TTCATATGGCCCATTAGGCCCAATTC
* * ** *
72593000 ATATTCATATGACCCATTAG-CTTAATCTCATTTATATGGCC
1 ACATTCATATGACCCATCAGACCCAATCTCATTCATATGGCC
72593041 TATCCGGCCC
Statistics
Matches: 125, Mismatches: 25, Indels: 13
0.77 0.15 0.08
Matches are distributed among these distances:
55 2 0.02
56 11 0.09
57 67 0.54
58 45 0.36
ACGTcount: A:0.27, C:0.31, G:0.14, T:0.29
Consensus pattern (57 bp):
ACATTCATATGACCCATCAGACCCAATCTCATTCATATGGCCCATTAGGCCCAATTC
Found at i:72592978 original size:86 final size:86
Alignment explanation
Indices: 72592828--72593046 Score: 278
Period size: 86 Copynumber: 2.6 Consensus size: 86
72592818 ACCGCTACAT
* * * * ** * *
72592828 ACATGCATATGGCCCACTAGACCCAATCTCATTTATATGGCCCATTTGGCCCAATTCACGTTCAT
1 ACATTCATATGGCCCATTAGACCCAATCGCATTTATATGACCCATCCGACACAATTCACGTTCAT
72592893 ATGGCCCATCAGGCCCAATTC
66 ATGGCCCATCAGGCCCAATTC
* *
72592914 ACATTCATATGGCCCATTAGGCCCAATCGCATTTATTTGACCCATCCGACACAATTCACGTTCAT
1 ACATTCATATGGCCCATTAGACCCAATCGCATTTATATGACCCATCCGACACAATTCACGTTCAT
72592979 ATGGCCCATCAGGCCCAATTC
66 ATGGCCCATCAGGCCCAATTC
* * ** * * *
72593000 ATATTCATATGACCCATTAG-CTTAATCTCATTTATATGGCCTATCCG
1 ACATTCATATGGCCCATTAGACCCAATCGCATTTATATGACCCATCCG
72593047 GCCCAAATCT
Statistics
Matches: 115, Mismatches: 18, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
85 21 0.18
86 94 0.82
ACGTcount: A:0.26, C:0.31, G:0.14, T:0.29
Consensus pattern (86 bp):
ACATTCATATGGCCCATTAGACCCAATCGCATTTATATGACCCATCCGACACAATTCACGTTCAT
ATGGCCCATCAGGCCCAATTC
Found at i:72602567 original size:47 final size:47
Alignment explanation
Indices: 72602504--72602608 Score: 165
Period size: 47 Copynumber: 2.2 Consensus size: 47
72602494 CCCTTCGGGA
* *
72602504 CTTATCACATTTATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
* *
72602551 TTTATCACATATATACACTTTCACATCCATTACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
*
72602598 CTTACCACATA
1 CTTATCACATA
72602609 ATTAATACTA
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 52 1.00
ACGTcount: A:0.28, C:0.30, G:0.08, T:0.35
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
Found at i:72606167 original size:21 final size:20
Alignment explanation
Indices: 72606139--72606180 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
72606129 CAAAATTTGT
*
72606139 ATAACTATCATTAAACATTC
1 ATAACTATCATCAAACATTC
*
72606159 ATAATCTATCATCAATCATTC
1 ATAA-CTATCATCAAACATTC
72606180 A
1 A
72606181 AATACATGCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.43, C:0.21, G:0.00, T:0.36
Consensus pattern (20 bp):
ATAACTATCATCAAACATTC
Found at i:72616587 original size:19 final size:20
Alignment explanation
Indices: 72616550--72616590 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
72616540 TATTTTTCTG
72616550 TTGCTTACATCCACGTACCA
1 TTGCTTACATCCACGTACCA
72616570 TTGCTTACATCC-CGTACCA
1 TTGCTTACATCCACGTACCA
72616589 TT
1 TT
72616591 ATCTTTTTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.22, C:0.34, G:0.10, T:0.34
Consensus pattern (20 bp):
TTGCTTACATCCACGTACCA
Found at i:72621671 original size:9 final size:9
Alignment explanation
Indices: 72621657--72621687 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
72621647 ATATTCTTGC
72621657 TTCATGCAT
1 TTCATGCAT
72621666 TTCATGCAT
1 TTCATGCAT
*
72621675 TTCATGTAT
1 TTCATGCAT
72621684 TTCA
1 TTCA
72621688 CACACACTAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.23, C:0.19, G:0.10, T:0.48
Consensus pattern (9 bp):
TTCATGCAT
Found at i:72628445 original size:20 final size:20
Alignment explanation
Indices: 72628417--72628458 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
72628407 ATGGTAGCCA
* *
72628417 TAAATGGTAATTAAATCATT
1 TAAAAGGTAATTAAACCATT
72628437 TAAAAGGTAATTAAACCATT
1 TAAAAGGTAATTAAACCATT
72628457 TA
1 TA
72628459 TATGTTTAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.48, C:0.07, G:0.10, T:0.36
Consensus pattern (20 bp):
TAAAAGGTAATTAAACCATT
Found at i:72631649 original size:6 final size:6
Alignment explanation
Indices: 72631638--72631748 Score: 82
Period size: 6 Copynumber: 17.8 Consensus size: 6
72631628 ATTAGGTGAT
* * *
72631638 AGAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC AGTATC AGAATC
1 AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC AGAATC
* * * *
72631687 AGTATC AGGTAA-C AGAATC AAAATC AGAATC AGTATC AGATAAC AGAATC
1 AGAATC A-G-AATC AGAATC AGAATC AGAATC AGAATC AGA-ATC AGAATC
*
72631737 AAAAATC AGAAT
1 -AGAATC AGAAT
72631749 GTGAATGCAA
Statistics
Matches: 81, Mismatches: 16, Indels: 16
0.72 0.14 0.14
Matches are distributed among these distances:
5 3 0.04
6 61 0.75
7 15 0.19
8 2 0.02
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:72631667 original size:19 final size:18
Alignment explanation
Indices: 72631643--72631713 Score: 81
Period size: 19 Copynumber: 3.8 Consensus size: 18
72631633 GTGATAGAAT
*
72631643 CAGAATCAGAATTAGGTGA
1 CAGAATCAGAATCAGGT-A
72631662 CAGAATCAGAATCA-GTA
1 CAGAATCAGAATCAGGTA
*
72631679 TCAGAATCAGTATCAGGTAA
1 -CAGAATCAGAATCAGGT-A
*
72631699 CAGAATCAAAATCAG
1 CAGAATCAGAATCAG
72631714 AATCAGTATC
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
17 1 0.02
18 15 0.33
19 28 0.62
20 1 0.02
ACGTcount: A:0.45, C:0.15, G:0.20, T:0.20
Consensus pattern (18 bp):
CAGAATCAGAATCAGGTA
Found at i:72631673 original size:31 final size:31
Alignment explanation
Indices: 72631640--72631748 Score: 101
Period size: 31 Copynumber: 3.3 Consensus size: 31
72631630 TAGGTGATAG
*
72631640 AATCAGAATCAGAATTAGGTGACAGAATCAGAA
1 AATCAGAATCAGAATTAGGTAACAGAATC--AA
* *
72631673 TCAGTATCAGAATCAGTATCAGGTAACAGAATCAA
1 --A--ATCAGAATCAGAATTAGGTAACAGAATCAA
* * *
72631708 AATCAGAATCAGTATCAGATAACAGAATCAAA
1 AATCAGAATCAGAATTAGGTAACAGAATC-AA
72631740 AATCAGAAT
1 AATCAGAAT
72631749 GTGAATGCAA
Statistics
Matches: 67, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
31 27 0.40
32 11 0.16
33 1 0.01
35 3 0.04
37 25 0.37
ACGTcount: A:0.49, C:0.15, G:0.17, T:0.20
Consensus pattern (31 bp):
AATCAGAATCAGAATTAGGTAACAGAATCAA
Found at i:72631676 original size:25 final size:25
Alignment explanation
Indices: 72631619--72631676 Score: 98
Period size: 25 Copynumber: 2.3 Consensus size: 25
72631609 TATCAGAACT
* *
72631619 AGAATCAAAATTAGGTGATAGAATC
1 AGAATCAGAATTAGGTGACAGAATC
72631644 AGAATCAGAATTAGGTGACAGAATC
1 AGAATCAGAATTAGGTGACAGAATC
72631669 AGAATCAG
1 AGAATCAG
72631677 TATCAGAATC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.47, C:0.10, G:0.22, T:0.21
Consensus pattern (25 bp):
AGAATCAGAATTAGGTGACAGAATC
Found at i:72631682 original size:37 final size:37
Alignment explanation
Indices: 72631638--72631726 Score: 124
Period size: 37 Copynumber: 2.4 Consensus size: 37
72631628 ATTAGGTGAT
* * *
72631638 AGAATCAGAATCAGAATTAGGTGACAGAATCAGAATC
1 AGAATCAGAATCAGAATCAGGTAACAGAATCAAAATC
* *
72631675 AGTATCAGAATCAGTATCAGGTAACAGAATCAAAATC
1 AGAATCAGAATCAGAATCAGGTAACAGAATCAAAATC
*
72631712 AGAATCAGTATCAGA
1 AGAATCAGAATCAGA
72631727 TAACAGAATC
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 44 1.00
ACGTcount: A:0.46, C:0.15, G:0.19, T:0.20
Consensus pattern (37 bp):
AGAATCAGAATCAGAATCAGGTAACAGAATCAAAATC
Found at i:72631927 original size:27 final size:26
Alignment explanation
Indices: 72631885--72631986 Score: 132
Period size: 27 Copynumber: 3.8 Consensus size: 26
72631875 GCTCAGTTAT
* *
72631885 CAGATATTGTGACAGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGA-A
72631912 CAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
*
72631938 CAGATATTTGTGGCATAGCCACCAGAAA
1 CAGATA-TTGTGGCAGAGCCACCAG-AA
* *
72631966 CAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
72631987 TTAACAGAAT
Statistics
Matches: 68, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
26 7 0.10
27 53 0.78
28 8 0.12
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.19
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:72632173 original size:22 final size:22
Alignment explanation
Indices: 72632145--72632209 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
72632135 GTAAATACGT
*
72632145 TTGGCACATAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
72632167 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
72632189 TTGACACAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
72632210 AAGGCTTTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 2 0.06
22 32 0.89
23 2 0.06
ACGTcount: A:0.34, C:0.22, G:0.23, T:0.22
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:72632668 original size:27 final size:27
Alignment explanation
Indices: 72632635--72632876 Score: 265
Period size: 27 Copynumber: 9.0 Consensus size: 27
72632625 AGGGGCAAAA
* *
72632635 TGGTAATTTTACCCCACAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
** *
72632662 TAATAATTCTACCCTACAGGGGAATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
* * *
72632689 CGATAATTCTACCCTACAGGGGTATTG
1 TGGTAATTCTACCCTACAGGGGTATTT
* * *
72632716 CGATAATTCTACCCTACAGGGGCATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
* *
72632743 CGGTAATTCTACCCTACAGGGGTATTC
1 TGGTAATTCTACCCTACAGGGGTATTT
72632770 TGGTAATTCTACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
* **
72632797 TGGTAATTTTA-CAAACTAGGGGTATTT
1 TGGTAATTCTACCCTAC-AGGGGTATTT
* **
72632824 TGGTAATTTTA-CAAACTAGGGGTATTT
1 TGGTAATTCTACCCTAC-AGGGGTATTT
*
72632851 T-GTAATTCTATCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
72632877 CAGTAATTTC
Statistics
Matches: 191, Mismatches: 22, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
26 21 0.11
27 170 0.89
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.36
Consensus pattern (27 bp):
TGGTAATTCTACCCTACAGGGGTATTT
Found at i:72632923 original size:27 final size:27
Alignment explanation
Indices: 72632893--72633032 Score: 165
Period size: 27 Copynumber: 5.2 Consensus size: 27
72632883 TTTCACAATT
* *
72632893 GAGGGTAAAACGGTAATTTTGTAAA-C
1 GAGGGTAAAATGGTAATTTTATAAATC
72632919 AGAGGGTAAAATGGTAATTTTATAAATC
1 -GAGGGTAAAATGGTAATTTTATAAATC
** * *
72632947 GAGGGTAAAACAGTAATTTTGTAATTC
1 GAGGGTAAAATGGTAATTTTATAAATC
* *
72632974 GAGGGTGAAATGGTAATTTTATAAATT
1 GAGGGTAAAATGGTAATTTTATAAATC
* * *
72633001 AAGGGTAAAATGGTAATTCTACAAATC
1 GAGGGTAAAATGGTAATTTTATAAATC
72633028 GAGGG
1 GAGGG
72633033 CATTTCAGTA
Statistics
Matches: 94, Mismatches: 18, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
27 93 0.99
28 1 0.01
ACGTcount: A:0.39, C:0.06, G:0.25, T:0.30
Consensus pattern (27 bp):
GAGGGTAAAATGGTAATTTTATAAATC
Found at i:72633006 original size:81 final size:80
Alignment explanation
Indices: 72632889--72633051 Score: 211
Period size: 81 Copynumber: 2.0 Consensus size: 80
72632879 GTAATTTCAC
* * * *
72632889 AATTGAGGGTAAAACGGTAATTTTGTAAACAGAGGGTAAAATGGTAATTTTATAAATCGAGGGTA
1 AATTGAGGGTAAAACGGTAATTTTATAAACAGAGGGTAAAATGGTAATTCTACAAATCGAGGGCA
72632954 AAACAGTAATTTTGT
66 AAACAGTAATTTTGT
* * *
72632969 AATTCGAGGGTGAAATGGTAATTTTATAAATTA-AGGGTAAAATGGTAATTCTACAAATCGAGGG
1 AATT-GAGGGTAAAACGGTAATTTTATAAA-CAGAGGGTAAAATGGTAATTCTACAAATCGAGGG
***
72633033 CATTTCAGTAATTTTGT
64 CAAAACAGTAATTTTGT
72633050 AA
1 AA
72633052 ACCAATGGTA
Statistics
Matches: 71, Mismatches: 10, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
80 4 0.06
81 66 0.93
82 1 0.01
ACGTcount: A:0.39, C:0.06, G:0.23, T:0.33
Consensus pattern (80 bp):
AATTGAGGGTAAAACGGTAATTTTATAAACAGAGGGTAAAATGGTAATTCTACAAATCGAGGGCA
AAACAGTAATTTTGT
Found at i:72633030 original size:54 final size:54
Alignment explanation
Indices: 72632889--72633032 Score: 191
Period size: 54 Copynumber: 2.7 Consensus size: 54
72632879 GTAATTTCAC
72632889 AATTGAGGGTAAAACGGTAATTTTGTAAA-CAGAGGGTAAAATGGTAATTTTATA
1 AATTGAGGGTAAAACGGTAATTTTGTAAATC-GAGGGTAAAATGGTAATTTTATA
* * * *
72632943 AATCGAGGGTAAAACAGTAATTTTGTAATTCGAGGGTGAAATGGTAATTTTATA
1 AATTGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAATGGTAATTTTATA
* * * **
72632997 AATTAAGGGTAAAATGGTAATTCTACAAATCGAGGG
1 AATTGAGGGTAAAACGGTAATTTTGTAAATCGAGGG
72633033 CATTTCAGTA
Statistics
Matches: 77, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
54 76 0.99
55 1 0.01
ACGTcount: A:0.40, C:0.06, G:0.24, T:0.31
Consensus pattern (54 bp):
AATTGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAATGGTAATTTTATA
Found at i:72633133 original size:109 final size:108
Alignment explanation
Indices: 72633014--72633236 Score: 270
Period size: 109 Copynumber: 2.1 Consensus size: 108
72633004 GGTAAAATGG
* ****
72633014 TAATTCTACAAATCGAGGGCATTTCAGTAATTTTGTAAACCAATGGTATTTCT-ATAATTTTTAA
1 TAATTTTACAAATCGAGGGCATTTCAGTAATTACACAAACCAATGGTATTT-TGATAA-TTTTAA
* * * *
72633078 AAAGTCAAGGGTATTTTTGTAATTTT-TAAATCAGGGGTATTTTGA
64 AAA-CCAAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGA
* * * * *
72633123 TAATTTTACAAATTGAGGGTATTTCGGTAATTACACAAACCAGTGGTATTTTGATAATTTTACAA
1 TAATTTTACAAATCGAGGGCATTTCAGTAATTACACAAACCAATGGTATTTTGATAATTTTAAAA
*
72633188 ACCAAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGG
66 ACCAAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGA
72633231 TAATTT
1 TAATTT
72633237 GGTAAACTAA
Statistics
Matches: 97, Mismatches: 15, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
107 20 0.21
108 31 0.32
109 46 0.47
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.40
Consensus pattern (108 bp):
TAATTTTACAAATCGAGGGCATTTCAGTAATTACACAAACCAATGGTATTTTGATAATTTTAAAA
ACCAAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGA
Found at i:72633224 original size:81 final size:80
Alignment explanation
Indices: 72633087--72633235 Score: 194
Period size: 81 Copynumber: 1.9 Consensus size: 80
72633077 AAAAGTCAAG
* * * **
72633087 GGTATTTTTGTAATTTTTAAATCAGGGGTATTTTGATAATTTTACAAATTGAGGGTATTTCGGTA
1 GGTATTTTTGTAATTTTCAAACCAAGGGTATTTTGATAATTTTACAAACAGAGGGTATTTCGGTA
72633152 ATTACACAAACCAGT
66 ATTACACAAACCAGT
* *
72633167 GGTA-TTTTGATAATTTTACAAACCAAGGGTATTTTGGTAATTTTACAAACCAG-GGGTATTTTG
1 GGTATTTTTG-TAATTTT-CAAACCAAGGGTATTTTGATAATTTTACAAA-CAGAGGGTATTTCG
72633230 GTAATT
63 GTAATT
72633236 TGGTAAACTA
Statistics
Matches: 59, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
79 5 0.08
80 11 0.19
81 42 0.71
82 1 0.02
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (80 bp):
GGTATTTTTGTAATTTTCAAACCAAGGGTATTTTGATAATTTTACAAACAGAGGGTATTTCGGTA
ATTACACAAACCAGT
Found at i:72633243 original size:27 final size:27
Alignment explanation
Indices: 72633086--72633236 Score: 171
Period size: 27 Copynumber: 5.6 Consensus size: 27
72633076 AAAAAGTCAA
* * *
72633086 GGGTATTTTTGTAATTTT-TAAATCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* **
72633112 GGGTATTTTGATAATTTTACAAA-TTG
1 GGGTATTTTGGTAATTTTACAAACCAG
* **
72633138 AGGGTATTTCGGTAATTACACAAACCAG
1 -GGGTATTTTGGTAATTTTACAAACCAG
* * *
72633166 TGGTATTTTGATAATTTTACAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
72633193 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
72633220 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
72633237 GGTAAACTAA
Statistics
Matches: 102, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
26 17 0.17
27 84 0.82
28 1 0.01
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAG
Found at i:72636470 original size:40 final size:40
Alignment explanation
Indices: 72636399--72636644 Score: 316
Period size: 40 Copynumber: 6.2 Consensus size: 40
72636389 CAGAATTTAG
* * * *
72636399 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
* * * * *
72636439 CCGGGT-ATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAAC
* * * *
72636479 CCGGAT-ATATCAATTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAAC
72636519 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
72636559 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
* * *
72636599 CCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
72636639 CCGGAT
1 CCGGAT
72636645 CTCATTCAAA
Statistics
Matches: 186, Mismatches: 18, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 2 0.01
40 180 0.97
41 4 0.02
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (40 bp):
CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
Found at i:72638869 original size:6 final size:6
Alignment explanation
Indices: 72638845--72638979 Score: 80
Period size: 6 Copynumber: 22.0 Consensus size: 6
72638835 AAGAAACATT
* * * *
72638845 ATCAGA A-CTAGA TTCAGA ATCAGA ATCAAA ATTAG- GTGACAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* * * * *
72638894 ATCAGA ATTAG- GTGACAAA ATCAGA ATCAGA ATCAGT ATCAGA ATCAGT
1 ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* *
72638943 ATCAGGTA A-CAGA ATCAAA ATCAGA ATCAGT ATCAGA
1 ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
72638980 TAACAGAATA
Statistics
Matches: 96, Mismatches: 22, Indels: 22
0.69 0.16 0.16
Matches are distributed among these distances:
5 5 0.05
6 81 0.84
7 7 0.07
8 3 0.03
ACGTcount: A:0.47, C:0.15, G:0.18, T:0.21
Consensus pattern (6 bp):
ATCAGA
Found at i:72638929 original size:31 final size:26
Alignment explanation
Indices: 72638858--72638947 Score: 116
Period size: 25 Copynumber: 3.6 Consensus size: 26
72638848 AGAACTAGAT
*
72638858 TCAGAATCAGAATCAAAATTAGGTGA
1 TCAGAATCAGAATCAGAATTAGGTGA
72638884 -CAGAATCAGAATCAGAATTAGGTGA
1 TCAGAATCAGAATCAGAATTAGGTGA
* *
72638909 -CAAAATCAGAATCAGAATCA-GT-A
1 TCAGAATCAGAATCAGAATTAGGTGA
*
72638932 TCAGAATCAGTATCAG
1 TCAGAATCAGAATCAG
72638948 GTAACAGAAT
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
23 1 0.02
24 15 0.26
25 42 0.72
ACGTcount: A:0.46, C:0.14, G:0.19, T:0.21
Consensus pattern (26 bp):
TCAGAATCAGAATCAGAATTAGGTGA
Found at i:72638935 original size:43 final size:43
Alignment explanation
Indices: 72638888--72638988 Score: 139
Period size: 43 Copynumber: 2.3 Consensus size: 43
72638878 AGGTGACAGA
* * *
72638888 ATCAGAATCAGAATTAGGTGACAAAATCAGAATCAGAATCAGT
1 ATCAGAATCAGAATCAGGTAACAAAATCAAAATCAGAATCAGT
* *
72638931 ATCAGAATCAGTATCAGGTAACAGAATCAAAATCAGAATCAGT
1 ATCAGAATCAGAATCAGGTAACAAAATCAAAATCAGAATCAGT
*
72638974 ATCAGATAACAGAAT
1 ATCAGA-ATCAGAAT
72638989 AAAAAATCAG
Statistics
Matches: 50, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
43 44 0.88
44 6 0.12
ACGTcount: A:0.48, C:0.15, G:0.17, T:0.21
Consensus pattern (43 bp):
ATCAGAATCAGAATCAGGTAACAAAATCAAAATCAGAATCAGT
Found at i:72638956 original size:31 final size:31
Alignment explanation
Indices: 72638913--72639001 Score: 117
Period size: 31 Copynumber: 2.9 Consensus size: 31
72638903 AGGTGACAAA
* **
72638913 ATCAGA-ATCAGAATCAGTATCAGAATCAGT
1 ATCAGATAACAGAATCAAAATCAGAATCAGT
*
72638943 ATCAGGTAACAGAATCAAAATCAGAATCAGT
1 ATCAGATAACAGAATCAAAATCAGAATCAGT
*
72638974 ATCAGATAACAGAATAAAAAATCAGAAT
1 ATCAGATAACAGAAT-CAAAATCAGAAT
72639002 GTGAATGCAA
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
30 5 0.10
31 35 0.69
32 11 0.22
ACGTcount: A:0.51, C:0.15, G:0.15, T:0.20
Consensus pattern (31 bp):
ATCAGATAACAGAATCAAAATCAGAATCAGT
Found at i:72639180 original size:27 final size:26
Alignment explanation
Indices: 72639138--72639239 Score: 114
Period size: 27 Copynumber: 3.8 Consensus size: 26
72639128 GCTCAGTTAT
* * *
72639138 CAGATACTGTGACAGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGA-A
*
72639165 CAGATATTGTGGCAGAGCCACCATAA
1 CAGATATTGTGGCAGAGCCACCAGAA
*
72639191 CAGATATTTGTGGCATAGCCACCAGAAA
1 CAGATA-TTGTGGCAGAGCCACCAG-AA
* *
72639219 CAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
72639240 TTAACAGAAT
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
26 7 0.11
27 50 0.77
28 8 0.12
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.19
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:72639265 original size:54 final size:54
Alignment explanation
Indices: 72639156--72639257 Score: 127
Period size: 54 Copynumber: 1.9 Consensus size: 54
72639146 GTGACAGAGT
* * * ** *
72639156 CACCAGATACAGATATTGTGGCAGAGCCACCATAACAGATATTTGTGGCATAGC
1 CACCAGAAACAGATAATGTGGCAAAGCCACCATAACAGATATACGTGGCAAAGC
*
72639210 CACCAGAAACAGATAATGTGGCAAAGCCA-CTTAACAGA-ATACGTGGCA
1 CACCAGAAACAGATAATGTGGCAAAGCCACCATAACAGATATACGTGGCA
72639258 CAAAGCCATC
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
52 8 0.19
53 8 0.19
54 26 0.62
ACGTcount: A:0.37, C:0.23, G:0.22, T:0.19
Consensus pattern (54 bp):
CACCAGAAACAGATAATGTGGCAAAGCCACCATAACAGATATACGTGGCAAAGC
Found at i:72639442 original size:22 final size:22
Alignment explanation
Indices: 72639398--72639462 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 22
72639388 GCAAATACGT
*
72639398 TTGGCACACAGCCATACTCAGG
1 TTGGCACAAAGCCATACTCAGG
* *
72639420 TTGGCACAGAGCCATA-TGTAGG
1 TTGGCACAAAGCCATACT-CAGG
** *
72639442 TTAACACAAAGCCATAATCAG
1 TTGGCACAAAGCCATACTCAG
72639463 AAGGCCCATC
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 1 0.03
22 33 0.94
23 1 0.03
ACGTcount: A:0.34, C:0.25, G:0.22, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATACTCAGG
Found at i:72639940 original size:27 final size:27
Alignment explanation
Indices: 72639883--72640318 Score: 504
Period size: 27 Copynumber: 16.3 Consensus size: 27
72639873 GGGGTAAAAT
* * * *
72639883 GGTAATTTTACCCCACA-AGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
72639909 GGTAATTCCACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
72639936 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
72639963 GATAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
72639990 GGTAATTCTACCCTACAGGAG--TTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
72640015 GGTAATTCTACCCTACAGGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
**
72640042 AATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
72640069 GATAATTCTACCTTACAGGGGTGTTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
72640096 GGTAATTCTATCCTACAGGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
72640123 GATAATTCTACCCTACAGTGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
72640150 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
72640177 GGTAATTCTACCCTACAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
72640204 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* ** *
72640231 GGTAATTTTA-CAAACTAGGGGTATTTT
1 GGTAATTCTACCCTAC-AGGGGTATTTC
* ** *
72640258 GGTAATTTTA-CAAACTAGGGGTATTTT
1 GGTAATTCTACCCTAC-AGGGGTATTTC
* *
72640285 GGTAATTCTATCCTACGGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
72640312 AGTAATT
1 GGTAATT
72640319 TCACAATCGA
Statistics
Matches: 357, Mismatches: 48, Indels: 9
0.86 0.12 0.02
Matches are distributed among these distances:
25 24 0.07
26 17 0.05
27 313 0.88
28 3 0.01
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:72640369 original size:27 final size:27
Alignment explanation
Indices: 72640323--72640520 Score: 245
Period size: 27 Copynumber: 7.3 Consensus size: 27
72640313 GTAATTTCAC
* ** * *
72640323 AATCGACGGTAAAACAGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTCTATA
* *
72640350 AA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAATGGTAATTCTATA
* *
72640377 AATCAAGGGTAAAAGGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
72640404 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
* * * *
72640431 AATCAAGGGTAAAATAGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTCTATA
*
72640458 AATCGAGGGTGAAATGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
*
72640485 AATCGAGGGTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAATGGTAATTCTATA
72640512 AATCGAGGG
1 AATCGAGGG
72640521 CATTTCAGTA
Statistics
Matches: 149, Mismatches: 20, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
26 1 0.01
27 147 0.99
28 1 0.01
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.29
Consensus pattern (27 bp):
AATCGAGGGTAAAATGGTAATTCTATA
Found at i:72640540 original size:81 final size:81
Alignment explanation
Indices: 72640355--72640520 Score: 278
Period size: 81 Copynumber: 2.0 Consensus size: 81
72640345 TTGTAAACTG
*
72640355 AGGGTAAAATGGTAATTTTGTAAATCAAGGGTAAAAGGGTAATTCTATAAATCGAGGGTAAAATG
1 AGGGTAAAATAGTAATTTTGTAAATCAAGGGTAAAAGGGTAATTCTATAAATCGAGGGTAAAATG
*
72640420 GTAATTCTATAAATCA
66 GTAATTCTACAAATCA
* * *
72640436 AGGGTAAAATAGTAATTTTGTAAATCGAGGGTGAAATGGTAATTCTATAAATCGAGGGTAAAATG
1 AGGGTAAAATAGTAATTTTGTAAATCAAGGGTAAAAGGGTAATTCTATAAATCGAGGGTAAAATG
*
72640501 GTAATTCTACAAATCG
66 GTAATTCTACAAATCA
72640517 AGGG
1 AGGG
72640521 CATTTCAGTA
Statistics
Matches: 79, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
81 79 1.00
ACGTcount: A:0.40, C:0.07, G:0.24, T:0.29
Consensus pattern (81 bp):
AGGGTAAAATAGTAATTTTGTAAATCAAGGGTAAAAGGGTAATTCTATAAATCGAGGGTAAAATG
GTAATTCTACAAATCA
Found at i:72640560 original size:81 final size:81
Alignment explanation
Indices: 72640355--72640544 Score: 211
Period size: 81 Copynumber: 2.3 Consensus size: 81
72640345 TTGTAAACTG
* * * * * * *
72640355 AGGGTAAAATGGTAATTTTGTAAATCAAGGGTAAAAGGGTAATTCTATAAATCGAGGGTAAAATG
1 AGGGTAAAATAGTAATTCTGTAAACCAAGAGTGAAATGATAATTCTATAAATCGAGGGTAAAATG
*
72640420 GTAATTCTATAAATCA
66 GTAATTCTACAAATCA
* * * * *
72640436 AGGGTAAAATAGTAATTTTGTAAATCGAGGGTGAAATGGTAATTCTATAAATCGAGGGTAAAATG
1 AGGGTAAAATAGTAATTCTGTAAACCAAGAGTGAAATGATAATTCTATAAATCGAGGGTAAAATG
*
72640501 GTAATTCTACAAATCG
66 GTAATTCTACAAATCA
* **
72640517 AGGG-CATTTCAGTAATTCTGTAAACCAA
1 AGGGTAAAAT-AGTAATTCTGTAAACCAA
72640545 TAGTATTTCT
Statistics
Matches: 96, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
80 2 0.02
81 94 0.98
ACGTcount: A:0.40, C:0.08, G:0.22, T:0.29
Consensus pattern (81 bp):
AGGGTAAAATAGTAATTCTGTAAACCAAGAGTGAAATGATAATTCTATAAATCGAGGGTAAAATG
GTAATTCTACAAATCA
Found at i:72640739 original size:54 final size:54
Alignment explanation
Indices: 72640572--72640778 Score: 231
Period size: 54 Copynumber: 3.9 Consensus size: 54
72640562 TTAGAAAGTC
** * ***
72640572 AAGGGTATTTCT-GTAATTTTGA-AAATTAGGGGTATTTTGGTAATTTTACAATTT
1 AAGGGTATTT-TGGTAATTTT-ACAAACCAGGGGTATTTTGATAATTTTACAAACA
* * * * *
72640626 GAGGGTATTTCGGTAATTTCAC-AACCAGTGGTATTTTGATAATTTTACAAACC
1 AAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGATAATTTTACAAACA
* * * *
72640679 AGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTATAAACA
1 AAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGATAATTTTACAAACA
*
72640733 AAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGATAATTT
1 AAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGATAATTT
72640779 GGTAAACTAA
Statistics
Matches: 127, Mismatches: 23, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
53 43 0.34
54 84 0.66
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (54 bp):
AAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGATAATTTTACAAACA
Found at i:72640785 original size:27 final size:27
Alignment explanation
Indices: 72640574--72640778 Score: 195
Period size: 27 Copynumber: 7.6 Consensus size: 27
72640564 AGAAAGTCAA
**
72640574 GGGTATTTCTG-TAATTTTGA-AAATTAG
1 GGGTATTT-TGATAATTTT-ACAAACCAG
* ***
72640601 GGGTATTTTGGTAATTTTAC-AATTTG
1 GGGTATTTTGATAATTTTACAAACCAG
* * *
72640627 AGGGTATTTCGGTAATTTCAC-AACCAG
1 -GGGTATTTTGATAATTTTACAAACCAG
*
72640654 TGGTATTTTGATAATTTTACAAACCAG
1 GGGTATTTTGATAATTTTACAAACCAG
* *
72640681 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGATAATTTTACAAACCAG
* * * *
72640708 GGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTGATAATTTTACAAACCAG
72640735 GGGTATTTT-AGTAATTTTACAAACCAG
1 GGGTATTTTGA-TAATTTTACAAACCAG
72640762 GGGTATTTTGATAATTT
1 GGGTATTTTGATAATTT
72640779 GGTAAACTAA
Statistics
Matches: 152, Mismatches: 20, Indels: 12
0.83 0.11 0.07
Matches are distributed among these distances:
26 24 0.16
27 127 0.84
28 1 0.01
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.41
Consensus pattern (27 bp):
GGGTATTTTGATAATTTTACAAACCAG
Found at i:72641970 original size:27 final size:27
Alignment explanation
Indices: 72641869--72641971 Score: 82
Period size: 27 Copynumber: 3.8 Consensus size: 27
72641859 ATACTTTAGT
* *
72641869 TTACCAAATTATTGAAATACCCTCGAC
1 TTACAAAATTACTGAAATACCCTCGAC
** * *
72641896 TTGTAAAATTAC-CAAAGTACCCCCGAC
1 TTACAAAATTACTGAAA-TACCCTCGAC
* * *** *
72641923 TTACAGAATTACCGTTTTACCCTCGAT
1 TTACAAAATTACTGAAATACCCTCGAC
72641950 TTACAAAATTACTGAAATACCC
1 TTACAAAATTACTGAAATACCC
72641972 CTATAGGGTA
Statistics
Matches: 54, Mismatches: 20, Indels: 4
0.69 0.26 0.05
Matches are distributed among these distances:
26 3 0.06
27 51 0.94
ACGTcount: A:0.36, C:0.26, G:0.09, T:0.29
Consensus pattern (27 bp):
TTACAAAATTACTGAAATACCCTCGAC
Found at i:72641986 original size:27 final size:27
Alignment explanation
Indices: 72641956--72642425 Score: 543
Period size: 27 Copynumber: 17.3 Consensus size: 27
72641946 CGATTTACAA
*
72641956 AATTACTGAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
72641983 AATTACTAATTACTGAAATA-CCCTGTAGGGTAG
1 -A--A-T---TACTGAAATACCCCTGTAGGGTAG
*
72642016 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* **
72642043 AAATACCAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
72642070 AATTATTGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
72642097 AA-TACCGAAATACCCTTGTAAGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* ***
72642123 AATTACCGAAATACATTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * * *
72642150 AAATACAGAAATACCCCTATAAGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
72642177 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
72642204 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
72642231 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
72642258 AATTACTGAAATACTCCTGTAAGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
72642285 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
72642312 AATTACTGAAACACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
72642339 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
72642366 AAATA-TCGAAATACCCCTGTAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
* * * *
72642393 AATTACTGAGATACCTC-GTGGGGTAA
1 AATTACTGAAATACCCCTGTAGGGTAG
72642419 AATTACT
1 AATTACT
72642426 ATTTTGCCCC
Statistics
Matches: 384, Mismatches: 48, Indels: 22
0.85 0.11 0.05
Matches are distributed among these distances:
26 46 0.12
27 309 0.80
28 2 0.01
29 1 0.00
30 2 0.01
31 1 0.00
32 1 0.00
33 12 0.03
34 10 0.03
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.26
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:72642017 original size:33 final size:34
Alignment explanation
Indices: 72641956--72642021 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 34
72641946 CGATTTACAA
72641956 AATTACTGAAATACCCCTATAGGGTAGAATTACT
1 AATTACTGAAATACCCCTATAGGGTAGAATTACT
*
72641990 AATTACTGAAATA-CCCTGTAGGGTAGAATTAC
1 AATTACTGAAATACCCCTATAGGGTAGAATTAC
72642022 CGAAATACCC
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
33 18 0.58
34 13 0.42
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.29
Consensus pattern (34 bp):
AATTACTGAAATACCCCTATAGGGTAGAATTACT
Found at i:72642216 original size:81 final size:81
Alignment explanation
Indices: 72641990--72642424 Score: 599
Period size: 81 Copynumber: 5.4 Consensus size: 81
72641980 TAGAATTACT
* * *
72641990 AATTACTGAAATA-CCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAAATACCAAAA
1 AATTACTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAATTACCGAAA
*
72642054 TACCCCTGTAGGGTAG
66 TACCCTTGTAGGGTAG
* * *
72642070 AATTATTGAAATACCCTTGTAGGGTAGAA-TACCGAAATACCCTTGTAAGGTAGAATTACCGAAA
1 AATTACTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAATTACCGAAA
**
72642134 TACATTTGTAGGGTAG
66 TACCCTTGTAGGGTAG
* * * * * *
72642150 AAATACAGAAATACCCCTATAAGGTAGAATTACTGAAATACCCTTGTAGGGTAGAATTACTGAAA
1 AATTACTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAATTACCGAAA
72642215 TACCCTTGTAGGGTAG
66 TACCCTTGTAGGGTAG
* * *
72642231 AATTACTGAAATACCCTTGTAGGGTAGAATTACTGAAATACTCC-TGTAAGGTAGAATTACCGAA
1 AATTACTGAAATACCCCTGTAGGGTAGAATTACCGAAATAC-CCTTGTAGGGTAGAATTACCGAA
72642295 ATACCCTTGTAGGGTAG
65 ATACCCTTGTAGGGTAG
* * *
72642312 AATTACTGAAACACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAATATCGAAA
1 AATTACTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAATTACCGAAA
*
72642377 TACCCCTGTAGGGTAG
66 TACCCTTGTAGGGTAG
* * * *
72642393 AATTACTGAGATACCTC-GTGGGGTAAAATTAC
1 AATTACTGAAATACCCCTGTAGGGTAGAATTAC
72642425 TATTTTGCCC
Statistics
Matches: 312, Mismatches: 39, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
80 94 0.30
81 216 0.69
82 2 0.01
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.26
Consensus pattern (81 bp):
AATTACTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAATTACCGAAA
TACCCTTGTAGGGTAG
Found at i:72645590 original size:48 final size:47
Alignment explanation
Indices: 72645519--72645720 Score: 235
Period size: 47 Copynumber: 4.5 Consensus size: 47
72645509 TGAAAAAACA
72645519 TGGTGCTAAGTGGATATACCACGATTACACATATTGATACATGTAACG
1 TGGTGCTAAGTGGATATACCACGATTACACATATTGATACAT-TAACG
* * * *
72645567 TGGTGCTAAGTGGATATGCCACGATTACATATATTGATTCATTAATG
1 TGGTGCTAAGTGGATATACCACGATTACACATATTGATACATTAACG
**
72645614 TGGTGCTAAGTGGATATA-C-C-A-T-GGC-TA---A-ACATGTAACG
1 TGGTGCTAAGTGGATATACCACGATTACACATATTGATACAT-TAACG
* * *
72645652 TGGTGCTAAGTGGATATGCCACGATTACATATATTGATTCATTAACG
1 TGGTGCTAAGTGGATATACCACGATTACACATATTGATACATTAACG
72645699 TGGTGCTAAGTGGATATACCAC
1 TGGTGCTAAGTGGATATACCAC
72645721 AGTTAAACAT
Statistics
Matches: 127, Mismatches: 16, Indels: 23
0.77 0.10 0.14
Matches are distributed among these distances:
37 3 0.02
38 22 0.17
39 1 0.01
40 1 0.01
41 3 0.02
42 1 0.01
43 1 0.01
44 3 0.02
45 1 0.01
46 1 0.01
47 48 0.38
48 42 0.33
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (47 bp):
TGGTGCTAAGTGGATATACCACGATTACACATATTGATACATTAACG
Found at i:72645664 original size:38 final size:38
Alignment explanation
Indices: 72645613--72645753 Score: 133
Period size: 38 Copynumber: 3.5 Consensus size: 38
72645603 ATTCATTAAT
*
72645613 GTGGTGCTAAGTGGATATACCATGGCTAAACATGTAAC
1 GTGGTGCTAAGTGGATATACCATAGCTAAACATGTAAC
*
72645651 GTGGTGCTAAGTGGATATGCCACGATTA-CATATATTGATTCAT-TAAC
1 GTGGTGCTAAGTGGATAT---ACCA-TAGC-TA-A---A--CATGTAAC
* *
72645698 GTGGTGCTAAGTGGATATACCACAGTTAAACATGTAAC
1 GTGGTGCTAAGTGGATATACCATAGCTAAACATGTAAC
72645736 GTGGTGCTAAGTGGATAT
1 GTGGTGCTAAGTGGATAT
72645754 GCCACAGTTA
Statistics
Matches: 85, Mismatches: 5, Indels: 26
0.73 0.04 0.22
Matches are distributed among these distances:
37 3 0.04
38 40 0.47
39 1 0.01
41 4 0.05
42 4 0.05
43 4 0.05
44 3 0.04
46 1 0.01
47 22 0.26
48 3 0.04
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (38 bp):
GTGGTGCTAAGTGGATATACCATAGCTAAACATGTAAC
Found at i:72645702 original size:85 final size:85
Alignment explanation
Indices: 72645557--72645758 Score: 368
Period size: 85 Copynumber: 2.4 Consensus size: 85
72645547 ACATATTGAT
*
72645557 ACATGTAACGTGGTGCTAAGTGGATATGCCACGATTACATATATTGATTCATTAATGTGGTGCTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGATTACATATATTGATTCATTAACGTGGTGCTA
**
72645622 AGTGGATATACCATGGCTAA
66 AGTGGATATACCACAGCTAA
72645642 ACATGTAACGTGGTGCTAAGTGGATATGCCACGATTACATATATTGATTCATTAACGTGGTGCTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGATTACATATATTGATTCATTAACGTGGTGCTA
*
72645707 AGTGGATATACCACAGTTAA
66 AGTGGATATACCACAGCTAA
72645727 ACATGTAACGTGGTGCTAAGTGGATATGCCAC
1 ACATGTAACGTGGTGCTAAGTGGATATGCCAC
72645759 AGTTATACAT
Statistics
Matches: 113, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
85 113 1.00
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (85 bp):
ACATGTAACGTGGTGCTAAGTGGATATGCCACGATTACATATATTGATTCATTAACGTGGTGCTA
AGTGGATATACCACAGCTAA
Found at i:72645759 original size:38 final size:38
Alignment explanation
Indices: 72645694--72645770 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
72645684 ATTGATTCAT
72645694 TAACGTGGTGCTAAGTGGATATACCACAGTTAAACATG
1 TAACGTGGTGCTAAGTGGATATACCACAGTTAAACATG
* *
72645732 TAACGTGGTGCTAAGTGGATATGCCACAGTTATACATG
1 TAACGTGGTGCTAAGTGGATATACCACAGTTAAACATG
72645770 T
1 T
72645771 TAATTTGAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.29
Consensus pattern (38 bp):
TAACGTGGTGCTAAGTGGATATACCACAGTTAAACATG
Found at i:72650673 original size:31 final size:31
Alignment explanation
Indices: 72650635--72650718 Score: 116
Period size: 31 Copynumber: 2.7 Consensus size: 31
72650625 TCGTTACAGT
72650635 AAAGGCTTTGGCCCAGTGATATGAATAATGA
1 AAAGGCTTTGGCCCAGTGATATGAATAATGA
* * *
72650666 AAAGGCTTTGGCCTAGTGACATGAATAATGT
1 AAAGGCTTTGGCCCAGTGATATGAATAATGA
* *
72650697 GAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTTGGCCCAGTGATATG
72650719 CTGAGATTGA
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
30 4 0.09
31 42 0.91
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.26
Consensus pattern (31 bp):
AAAGGCTTTGGCCCAGTGATATGAATAATGA
Done.