Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 186 of 356
Found at i:60290669 original size:45 final size:45
Alignment explanation
Indices: 60290631--60290741 Score: 131
Period size: 45 Copynumber: 2.5 Consensus size: 45
60290621 GGAGTAGATC
60290631 GAAAAT-GACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT
1 GAAAATAG-CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT
* * * *
60290676 GAAGATAGCAAGTCTTATTTTCCTGAAGTTGCAG-GAAGCAGACT
1 GAAAATAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT
60290720 GAAAATTA-C-AGATCTTATCTCC
1 GAAAA-TAGCAAG-TCTTATCTCC
60290742 ATGTATCAGC
Statistics
Matches: 56, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
43 2 0.04
44 22 0.39
45 31 0.55
46 1 0.02
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (45 bp):
GAAAATAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT
Found at i:60290764 original size:134 final size:133
Alignment explanation
Indices: 60290372--60290810 Score: 528
Period size: 134 Copynumber: 3.3 Consensus size: 133
60290362 TAAAGATAGT
* *
60290372 AAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGCAAGTCTTATCTTCCTAAAGT
1 AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAGTCTTATCTTCCTGAAGT
* *
60290437 TGCAGGAAGTAGACTGAAAGTTATAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCAGAAA
66 TGCAGGAAGCAGACTGAAAATTATAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCA-AAA
*
60290502 TGGC
130 TGAC
* ** * * * ** ** * *
60290506 GAGTCTTATCTCTATGTA-TCGGCTA-TGGAGCAGATTTTAGCCA-CTAGTCTTATCTTCTTGAA
1 AAGTCTTATCTCCCTGAAGT-TGC-AGTGGAGCAGACTGAAGATAGCAAGTCTTATCTTCCTGAA
* *
60290568 GTTGCAGGAAGCAGACTGAAAATTTATAGATTTTATCTCCATGTATCGGCTATGGAGTAGATCGA
64 GTTGCAGGAAGCAGACTGAAAA-TTATAGATCTTATCTCCATGTATCGGCTATGGAGCAGATC-A
60290633 AAATGAC
127 AAATGAC
*
60290640 AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAGTCTTATTTTCCTGAAGT
1 AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAGTCTTATCTTCCTGAAGT
* * * **
60290705 TGCAGGAAGCAGACTGAAAATTACAGATCTTATCTCCATGTATCAGCTATGGAGCAGATCTCAGC
66 TGCAGGAAGCAGACTGAAAATTATAGATCTTATCTCCATGTATCGGCTATGGAGCAGATC-AAAA
60290770 T-AC
130 TGAC
* * * *
60290773 TATTCTTATCTTCCTGAAGTTGCAG-GAAGCAGACTGAA
1 AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAA
60290811 AATTACAGAT
Statistics
Matches: 254, Mismatches: 44, Indels: 16
0.81 0.14 0.05
Matches are distributed among these distances:
132 12 0.05
133 62 0.24
134 139 0.55
135 41 0.16
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (133 bp):
AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAGTCTTATCTTCCTGAAGT
TGCAGGAAGCAGACTGAAAATTATAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCAAAAT
GAC
Found at i:60290868 original size:88 final size:88
Alignment explanation
Indices: 60290688--60290881 Score: 273
Period size: 88 Copynumber: 2.2 Consensus size: 88
60290678 AGATAGCAAG
* *
60290688 TCTTATTTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTACAGATCTTATCTCCATGTATCAGCT
1 TCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTACAGATCTTATCTCCATGTAACAGCT
* *
60290753 ATGGAGCAGATCTCAGCTACTAT
66 ATGGAACAGATCTCAGCCACTAT
*
60290776 TCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTACAGATCTTATCTCCATGTAACGGCT
1 TCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTACAGATCTTATCTCCATGTAACAGCT
** ** *
60290841 ATGGAATGGATCTTGGCCATTGA-
66 ATGGAACAGATCTCAGCCACT-AT
*
60290864 TCTTATCTCCCTGAAGTT
1 TCTTATCTTCCTGAAGTT
60290882 ACAGTGGGGC
Statistics
Matches: 94, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
88 93 0.99
89 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (88 bp):
TCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTACAGATCTTATCTCCATGTAACAGCT
ATGGAACAGATCTCAGCCACTAT
Found at i:60293302 original size:124 final size:124
Alignment explanation
Indices: 60293069--60293346 Score: 337
Period size: 124 Copynumber: 2.2 Consensus size: 124
60293059 GTTCGAGGGG
* * *
60293069 TCGTGCCCAATCGTGCCGGGTTTCGATTTTTCGTTCAACTAAAATACGGAATATCTTTTGGAATT
1 TCGTGCCCAATCGTGCCGGGTTTCGATTTTTCG-ACAACTAAAATACAGAATATCTTTTGGAAAT
* * * * *
60293134 TTCGTCCATGCTTTTAAAAATTAAAATGAGGCAATATTTCATATTTGGGGAGTTTGGGAGA
65 TTCATCCATGCTTTTAAAAATTAAAATGAGGCAATATTTCATATTT-GGAAATTCGGGAAA
* * *
60293195 TCGTGCCCAATCGTGCTGGGTTTCGATTTTTC-ACGACTAAAGTACAGAATATCCTTTT-GAAAT
1 TCGTGCCCAATCGTGCCGGGTTTCGATTTTTCGACAACTAAAATACAGAATAT-CTTTTGGAAAT
* ** * * *
60293258 TTCATCCGTG-TTTTCTCAAATTAAAATGAGGCATTGTTTCATATTTGGAAATTCGGTAAA
65 TTCATCCATGCTTTT-AAAAATTAAAATGAGGCAATATTTCATATTTGGAAATTCGGGAAA
*
60293318 TCGTGCCCAATCGTGCCGGGTTTTGATTT
1 TCGTGCCCAATCGTGCCGGGTTTCGATTT
60293347 ACCGTTTGGG
Statistics
Matches: 131, Mismatches: 19, Indels: 7
0.83 0.12 0.04
Matches are distributed among these distances:
123 40 0.31
124 55 0.42
125 5 0.04
126 31 0.24
ACGTcount: A:0.26, C:0.17, G:0.21, T:0.37
Consensus pattern (124 bp):
TCGTGCCCAATCGTGCCGGGTTTCGATTTTTCGACAACTAAAATACAGAATATCTTTTGGAAATT
TCATCCATGCTTTTAAAAATTAAAATGAGGCAATATTTCATATTTGGAAATTCGGGAAA
Found at i:60293944 original size:43 final size:42
Alignment explanation
Indices: 60293884--60293992 Score: 121
Period size: 43 Copynumber: 2.6 Consensus size: 42
60293874 CATACCAATG
* *** * *
60293884 CCATATCCCAGATATGGTCTTACATGTAATCTCGTATCGATG
1 CCATAGCCCAGATATGGTCTTACAAAAAATCTCATATCGATA
*
60293926 CCAATAGCCCA-ACTATGGTCTTAAAAAAAATCTCATATCGATA
1 CC-ATAGCCCAGA-TATGGTCTTACAAAAAATCTCATATCGATA
*
60293969 CCATATCCCAGATATGGTCTTACA
1 CCATAGCCCAGATATGGTCTTACA
60293993 CGAAGTCTCA
Statistics
Matches: 55, Mismatches: 9, Indels: 6
0.79 0.13 0.09
Matches are distributed among these distances:
42 21 0.38
43 34 0.62
ACGTcount: A:0.33, C:0.25, G:0.13, T:0.29
Consensus pattern (42 bp):
CCATAGCCCAGATATGGTCTTACAAAAAATCTCATATCGATA
Found at i:60294002 original size:42 final size:41
Alignment explanation
Indices: 60293881--60294035 Score: 150
Period size: 42 Copynumber: 3.7 Consensus size: 41
60293871 TACCATACCA
* *
60293881 ATGCCATATCCCAGATATGGTCTTACATGTAATCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACACG-AATCTCATATCG
* * **
60293923 ATGCCAATAGCCCA-ACTATGGTCTTAAAAAAAATCTCATATCG
1 ATGCC-ATATCCCAGA-TATGGTCTT-ACACGAATCTCATATCG
* *
60293966 ATACCATATCCCAGATATGGTCTTACACGAAGTCTCATATTG
1 ATGCCATATCCCAGATATGGTCTTACACGAA-TCTCATATCG
* * * *
60294008 TTGTCATATCCCAAATATGGTATTACAC
1 ATGCCATATCCCAGATATGGTCTTACAC
60294036 ATAGACTTAG
Statistics
Matches: 92, Mismatches: 16, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
41 4 0.04
42 54 0.59
43 32 0.35
44 2 0.02
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.31
Consensus pattern (41 bp):
ATGCCATATCCCAGATATGGTCTTACACGAATCTCATATCG
Found at i:60295778 original size:28 final size:29
Alignment explanation
Indices: 60295747--60295811 Score: 89
Period size: 29 Copynumber: 2.3 Consensus size: 29
60295737 ATAGAATTTT
60295747 CCAC-AAGACATTCC-TTTAACAGAGATAG
1 CCACAAAGACA-TCCTTTTAACAGAGATAG
*
60295775 CCACAAAGGCATCCTTTTAACAGAGATAG
1 CCACAAAGACATCCTTTTAACAGAGATAG
*
60295804 CCATAAAG
1 CCACAAAG
60295812 GCTTCATTTG
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
28 7 0.21
29 26 0.79
ACGTcount: A:0.40, C:0.25, G:0.15, T:0.20
Consensus pattern (29 bp):
CCACAAAGACATCCTTTTAACAGAGATAG
Found at i:60295801 original size:29 final size:29
Alignment explanation
Indices: 60295761--60296038 Score: 198
Period size: 29 Copynumber: 9.9 Consensus size: 29
60295751 AAGACATTCC
* * *
60295761 TTTAACAGAGATAGCCACAAAGGCATCCT
1 TTTAACAGAGATAGCCACAAAGGCTTTCA
*
60295790 TTTAACAGAGATAGCCATAAAGGC-TTCA
1 TTTAACAGAGATAGCCACAAAGGCTTTCA
* * * * * *
60295818 TTTGACAAAAAAAACCACAAAGGCATTCA
1 TTTAACAGAGATAGCCACAAAGGCTTTCA
* *
60295847 TTTAATAGAGATCA-CCACAAAGGTTTTC-
1 TTTAACAGAGAT-AGCCACAAAGGCTTTCA
*
60295875 TTATAACAGAGATCGCCACAAAGGCTTTCA
1 TT-TAACAGAGATAGCCACAAAGGCTTTCA
* * * *
60295905 TTTAACAAAGATCGCCATAAAGGC-TTCC
1 TTTAACAGAGATAGCCACAAAGGCTTTCA
* * * *
60295933 TATAACAGAGATCGTCATAAAGGCTTTCA
1 TTTAACAGAGATAGCCACAAAGGCTTTCA
* * * *
60295962 TTTAATAGAGATCGCCATAAAGGC-TTCC
1 TTTAACAGAGATAGCCACAAAGGCTTTCA
* * * *
60295990 TTT-A-ATAGACAGTCACAAAGGC-TTCC
1 TTTAACAGAGATAGCCACAAAGGCTTTCA
*
60296016 TTT--TAGAGATAGCCACAAAGGCT
1 TTTAACAGAGATAGCCACAAAGGCT
60296039 CACTTATATG
Statistics
Matches: 203, Mismatches: 38, Indels: 18
0.78 0.15 0.07
Matches are distributed among these distances:
26 35 0.17
27 1 0.00
28 52 0.26
29 112 0.55
30 3 0.01
ACGTcount: A:0.38, C:0.21, G:0.16, T:0.25
Consensus pattern (29 bp):
TTTAACAGAGATAGCCACAAAGGCTTTCA
Found at i:60295943 original size:86 final size:86
Alignment explanation
Indices: 60295747--60295987 Score: 247
Period size: 86 Copynumber: 2.8 Consensus size: 86
60295737 ATAGAATTTT
* * * *
60295747 CCAC-AAGACATTCCTTTAACAGAGAT-AGCCACAAAGGCATCCTTTTAACAGAGATAGCCATAA
1 CCACAAAGGCATTCCTTTAACAGAGATCA-CCACAAAGGCTTTC-TTTAACAGAGATCGCCATAA
*
60295810 AGGC-TTCATTTGACAAAAAAAA
64 AGGCTTTCATTTAACAAAAAAAA
* * * *
60295832 CCACAAAGGCATTCATTTAATAGAGATCACCACAAAGGTTTTCTTATAACAGAGATCGCCACAAA
1 CCACAAAGGCATTCCTTTAACAGAGATCACCACAAAGGCTTTCTT-TAACAGAGATCGCCATAAA
* ***
60295897 GGCTTTCATTTAACAAAGATCG
65 GGCTTTCATTTAACAAAAAAAA
* * ** * *
60295919 CCATAAAGGC-TTCCTATAACAGAGATCGTCATAAAGGCTTTCATTTAATAGAGATCGCCATAAA
1 CCACAAAGGCATTCCTTTAACAGAGATCACCACAAAGGCTTTC-TTTAACAGAGATCGCCATAAA
60295983 GGCTT
65 GGCTT
60295988 CCTTTAATAG
Statistics
Matches: 128, Mismatches: 23, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
85 6 0.05
86 97 0.76
87 25 0.20
ACGTcount: A:0.39, C:0.22, G:0.15, T:0.24
Consensus pattern (86 bp):
CCACAAAGGCATTCCTTTAACAGAGATCACCACAAAGGCTTTCTTTAACAGAGATCGCCATAAAG
GCTTTCATTTAACAAAAAAAA
Found at i:60295951 original size:28 final size:28
Alignment explanation
Indices: 60295757--60295994 Score: 206
Period size: 29 Copynumber: 8.3 Consensus size: 28
60295747 CCACAAGACA
* *
60295757 TTCCTTTAACAGAGATAGCCACAAAGGC
1 TTCCTTTAACAGAGATCGCCATAAAGGC
* *
60295785 ATCCTTTTAACAGAGATAGCCATAAAGGC
1 TTCC-TTTAACAGAGATCGCCATAAAGGC
* * * * *** *
60295814 TTCATTTGACAAAAAAAACCACAAAGGC
1 TTCCTTTAACAGAGATCGCCATAAAGGC
* * * * *
60295842 ATTCATTTAATAGAGATCACCACAAAGGT
1 -TTCCTTTAACAGAGATCGCCATAAAGGC
* *
60295871 TTTCTTATAACAGAGATCGCCACAAAGGC
1 TTCCTT-TAACAGAGATCGCCATAAAGGC
* *
60295900 TTTCATTTAACAAAGATCGCCATAAAGGC
1 -TTCCTTTAACAGAGATCGCCATAAAGGC
* *
60295929 TTCCTATAACAGAGATCGTCATAAAGGC
1 TTCCTTTAACAGAGATCGCCATAAAGGC
* *
60295957 TTTCATTTAATAGAGATCGCCATAAAGGC
1 -TTCCTTTAACAGAGATCGCCATAAAGGC
60295986 TTCCTTTAA
1 TTCCTTTAA
60295995 TAGACAGTCA
Statistics
Matches: 170, Mismatches: 35, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
28 57 0.34
29 109 0.64
30 4 0.02
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (28 bp):
TTCCTTTAACAGAGATCGCCATAAAGGC
Found at i:60295957 original size:57 final size:57
Alignment explanation
Indices: 60295757--60295990 Score: 243
Period size: 57 Copynumber: 4.1 Consensus size: 57
60295747 CCACAAGACA
* * * * * * *
60295757 TTCCTTTAACAGAGATAGCCACAAAGGCATCCTTTTAACAGAGATAGCCATAAAGGC
1 TTCCTATAACAGAGATCGCCACAAAGGCTTTCATTTAATAGAGATCGCCATAAAGGC
* * * * * *** * * * *
60295814 TTCATTTGACAAAAAAAACCACAAAGGCATTCATTTAATAGAGATCACCACAAAGGTT
1 TTCCTATAACAGAGATCGCCACAAAGGCTTTCATTTAATAGAGATCGCCATAAAGG-C
* * *
60295872 TTCTTATAACAGAGATCGCCACAAAGGCTTTCATTTAACAAAGATCGCCATAAAGGC
1 TTCCTATAACAGAGATCGCCACAAAGGCTTTCATTTAATAGAGATCGCCATAAAGGC
* *
60295929 TTCCTATAACAGAGATCGTCATAAAGGCTTTCATTTAATAGAGATCGCCATAAAGGC
1 TTCCTATAACAGAGATCGCCACAAAGGCTTTCATTTAATAGAGATCGCCATAAAGGC
60295986 TTCCT
1 TTCCT
60295991 TTAATAGACA
Statistics
Matches: 144, Mismatches: 32, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
57 101 0.70
58 43 0.30
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (57 bp):
TTCCTATAACAGAGATCGCCACAAAGGCTTTCATTTAATAGAGATCGCCATAAAGGC
Found at i:60296016 original size:26 final size:26
Alignment explanation
Indices: 60295975--60296038 Score: 83
Period size: 26 Copynumber: 2.5 Consensus size: 26
60295965 AATAGAGATC
* *
60295975 GCCATAAAGGCTTCCTTTAATAGACA
1 GCCACAAAGGCTTCCTTTAAGAGACA
* * *
60296001 GTCACAAAGGCTTCCTTTTAGAGATA
1 GCCACAAAGGCTTCCTTTAAGAGACA
60296027 GCCACAAAGGCT
1 GCCACAAAGGCT
60296039 CACTTATATG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.25
Consensus pattern (26 bp):
GCCACAAAGGCTTCCTTTAAGAGACA
Found at i:60298139 original size:30 final size:30
Alignment explanation
Indices: 60298105--60298164 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
60298095 ATTTAATACG
60298105 AACTTTTGCAAAATTACA-TATTTGCCCCTA
1 AACTTTTGCAAAATTACACT-TTTGCCCCTA
*
60298135 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTTGCAAAATTACACTTTTGCCCCTA
60298165 GGCTCGAGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
30 27 0.96
31 1 0.04
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.38
Consensus pattern (30 bp):
AACTTTTGCAAAATTACACTTTTGCCCCTA
Found at i:60302171 original size:40 final size:40
Alignment explanation
Indices: 60302086--60302225 Score: 120
Period size: 40 Copynumber: 3.4 Consensus size: 40
60302076 GACTATGTTC
*
60302086 GGCACTAAGTGTGCGATTTGAAATAGCTTCAACTATAAAT
1 GGCACTAAGTGTGCGAATTGAAATAGCTTCAACTATAAAT
* * ** **
60302126 AGCACTAAGTGTGCGAATTGGAATAGCTTCGGCT-TCATGT
1 GGCACTAAGTGTGCGAATTGAAATAGCTTCAACTAT-AAAT
* * * **
60302166 GGCACTAAGTGTGCAATATTGAGATAGTTTCGATTTAATATAAT
1 GGCACTAAGTGTGCGA-ATTGAAATAGCTTC-AACT-ATA-AAT
60302210 GGCACTAAGTGTGCGA
1 GGCACTAAGTGTGCGA
60302226 TATTTTATAG
Statistics
Matches: 76, Mismatches: 18, Indels: 8
0.75 0.18 0.08
Matches are distributed among these distances:
39 1 0.01
40 45 0.59
41 11 0.14
42 1 0.01
43 1 0.01
44 17 0.22
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.31
Consensus pattern (40 bp):
GGCACTAAGTGTGCGAATTGAAATAGCTTCAACTATAAAT
Found at i:60302224 original size:84 final size:80
Alignment explanation
Indices: 60302086--60302243 Score: 192
Period size: 84 Copynumber: 1.9 Consensus size: 80
60302076 GACTATGTTC
*
60302086 GGCACTAAGTGTGCGATTTGAAATAGCTTCAACTATAAATAGCACTAAGTGTGCGA-ATTGGAAT
1 GGCACTAAGTGTGCAATTTGAAATAGCTTCAACTATAAATAGCACTAAGTGTGCGATATT-GAAT
60302150 AGCTTCGGCTTCATGT
65 AGCTTCGGCTTCATGT
* * ** * *
60302166 GGCACTAAGTGTGCAATATTGAGATAGTTTCGATTTAATATAATGGCACTAAGTGTGCGATATTT
1 GGCACTAAGTGTGCAAT-TTGAAATAGCTTC-AACT-ATA-AATAGCACTAAGTGTGCGATATTG
*
60302231 TATAGCTTCGGCT
62 AATAGCTTCGGCT
60302244 AGATTATTGG
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
80 16 0.25
81 11 0.17
82 2 0.03
83 3 0.05
84 30 0.46
85 3 0.05
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.33
Consensus pattern (80 bp):
GGCACTAAGTGTGCAATTTGAAATAGCTTCAACTATAAATAGCACTAAGTGTGCGATATTGAATA
GCTTCGGCTTCATGT
Found at i:60334440 original size:15 final size:15
Alignment explanation
Indices: 60334422--60334456 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
60334412 ATAAACATTA
60334422 AAATAATAATAAAAT
1 AAATAATAATAAAAT
60334437 AAATAATAATAAAAT
1 AAATAATAATAAAAT
60334452 AAATA
1 AAATA
60334457 TTTTAACTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (15 bp):
AAATAATAATAAAAT
Found at i:60340142 original size:43 final size:42
Alignment explanation
Indices: 60340074--60340239 Score: 167
Period size: 43 Copynumber: 3.9 Consensus size: 42
60340064 TAAGCTCGTA
* * ** *
60340074 CAATGCCATATCCCAGATATAGTCTTACATGTTATCATATAT
1 CAATGCCATGTCCCAGACACGGTCTTACATGTAATCATATAT
* * *
60340116 CGATGCCACTGTCCCAGACAGGGTCTTACATGAAATCATATAAT
1 CAATGCCA-TGTCCCAGACACGGTCTTACATGTAATCATAT-AT
*
60340160 -AATGCCTATGTCCCAGACATGGTCTTACATGTAATGACA-ATA-
1 CAATGCC-ATGTCCCAGACACGGTCTTACATGTAAT--CATATAT
*
60340202 CAATACCAATGTCCCAGACACGGTCTTACATGTAATCA
1 CAATGCC-ATGTCCCAGACACGGTCTTACATGTAATCA
60340240 CCTCTCGATA
Statistics
Matches: 105, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
41 2 0.02
42 7 0.07
43 89 0.85
44 5 0.05
45 2 0.02
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.28
Consensus pattern (42 bp):
CAATGCCATGTCCCAGACACGGTCTTACATGTAATCATATAT
Found at i:60344591 original size:40 final size:40
Alignment explanation
Indices: 60344528--60344738 Score: 293
Period size: 40 Copynumber: 5.3 Consensus size: 40
60344518 ATTCGGATTG
60344528 ATAACCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * * *
60344567 ATATCCAGGCTAAGTCCTGAAGGCATTTGTGTGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
60344607 ATAACCGGGCCAAGTCCCGAAGGCAATTGTGTGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
60344647 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
60344687 ATAACCGGGCTAAGTTCCGAAGGCATTTGAGCGAG-TAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
*
60344727 ATATCC-GGCTAA
1 ATAACCGGGCTAA
60344739 ACCTCGAAGG
Statistics
Matches: 155, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 20 0.13
40 135 0.87
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:60353660 original size:27 final size:27
Alignment explanation
Indices: 60353630--60353807 Score: 137
Period size: 27 Copynumber: 6.6 Consensus size: 27
60353620 ATATTGAGCC
* *
60353630 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * * *
60353657 CGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
60353684 CGCACACTTAGTGCTACATAGTCAAACC
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
60353712 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
60353739 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
60353766 CGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTACATAA-TCA-ACT
60353793 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
60353808 GTACAATTTA
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 96 0.79
28 23 0.19
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:60353742 original size:55 final size:54
Alignment explanation
Indices: 60353630--60353807 Score: 164
Period size: 54 Copynumber: 3.3 Consensus size: 54
60353620 ATATTGAGCC
* * * * *
60353630 CGCACACTCAGTGCTATATAATCAACTCGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
* * ** *
60353684 CGCACACTTAGTGCTACATAGTCAAACCCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATC-AACCCGCACACTTAGTGCCACATAATCAAAT
* *** *
60353739 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTA-CATAATCAACCCGCACACTTAGTGCCACATAA-TCA-AAT
60353793 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
60353808 GTACAATTTA
Statistics
Matches: 100, Mismatches: 19, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
53 1 0.01
54 55 0.55
55 44 0.44
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
Found at i:60355471 original size:1 final size:1
Alignment explanation
Indices: 60355465--60355563 Score: 189
Period size: 1 Copynumber: 99.0 Consensus size: 1
60355455 CAATCGATTC
60355465 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
*
60355530 AAAAAAAAAAAAAAAAAAAATAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
60355564 TACTCACCAT
Statistics
Matches: 96, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
1 96 1.00
ACGTcount: A:0.99, C:0.00, G:0.00, T:0.01
Consensus pattern (1 bp):
A
Found at i:60356209 original size:13 final size:13
Alignment explanation
Indices: 60356191--60356216 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
60356181 ACCTGAAAGC
60356191 AATTTAATTCATA
1 AATTTAATTCATA
60356204 AATTTAATTCATA
1 AATTTAATTCATA
60356217 TTAGGACACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (13 bp):
AATTTAATTCATA
Found at i:60356631 original size:20 final size:21
Alignment explanation
Indices: 60356606--60356644 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
60356596 TCAAACAAGA
60356606 AAATGAGCTCAA-TGAGCTGG
1 AAATGAGCTCAATTGAGCTGG
*
60356626 AAATGAGCTGAATTGAGCT
1 AAATGAGCTCAATTGAGCT
60356645 CAACGAGCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.36, C:0.13, G:0.28, T:0.23
Consensus pattern (21 bp):
AAATGAGCTCAATTGAGCTGG
Found at i:60358941 original size:23 final size:23
Alignment explanation
Indices: 60358911--60359003 Score: 91
Period size: 23 Copynumber: 4.0 Consensus size: 23
60358901 ATCGAAATAG
*
60358911 AGCCTTTGTGGCGTATTTTGATT
1 AGCCTTTGTGGCGTATTCTGATT
* **
60358934 AGACTTTGTGGCACATTCTGATT
1 AGCCTTTGTGGCGTATTCTGATT
*
60358957 AGCCTTTGT-GCTGTACTCTGATT
1 AGCCTTTGTGGC-GTATTCTGATT
* *
60358980 AGCCTGTT-TGGTGTATTTTGATT
1 AGCCT-TTGTGGCGTATTCTGATT
60359003 A
1 A
60359004 ACCTCTTTTG
Statistics
Matches: 56, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
22 2 0.04
23 51 0.91
24 3 0.05
ACGTcount: A:0.16, C:0.15, G:0.24, T:0.45
Consensus pattern (23 bp):
AGCCTTTGTGGCGTATTCTGATT
Found at i:60360932 original size:48 final size:48
Alignment explanation
Indices: 60360868--60360960 Score: 116
Period size: 48 Copynumber: 1.9 Consensus size: 48
60360858 ACACCATATG
* * *
60360868 TGGACAAACCAGCACATAAATGCCGATAAACGACCAGATAA-CACATTA
1 TGGACAAACCACCACATAAATACCGAT-AACGACCACATAATCACATTA
* * *
60360916 TGGACAAGCCACCACATAATTATCGATAACGACCACATAATCACA
1 TGGACAAACCACCACATAAATACCGATAACGACCACATAATCACA
60360961 GATAAGCTAC
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
47 12 0.32
48 26 0.68
ACGTcount: A:0.44, C:0.27, G:0.13, T:0.16
Consensus pattern (48 bp):
TGGACAAACCACCACATAAATACCGATAACGACCACATAATCACATTA
Found at i:60360938 original size:22 final size:21
Alignment explanation
Indices: 60360912--60360956 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
60360902 CAGATAACAC
*
60360912 ATTATGGACAAGCCACCACATA
1 ATTATCGACAA-CCACCACATA
* *
60360934 ATTATCGATAACGACCACATA
1 ATTATCGACAACCACCACATA
60360955 AT
1 AT
60360957 CACAGATAAG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.42, C:0.24, G:0.11, T:0.22
Consensus pattern (21 bp):
ATTATCGACAACCACCACATA
Found at i:60360975 original size:22 final size:22
Alignment explanation
Indices: 60360921--60360977 Score: 64
Period size: 21 Copynumber: 2.6 Consensus size: 22
60360911 CATTATGGAC
*
60360921 AAGCCACCACATAATTATCGAT
1 AAGCCACCACATAATCATCGAT
*
60360943 AA-CGACCACATAATCA-CAGAT
1 AAGCCACCACATAATCATC-GAT
*
60360964 AAGCTACCACATAA
1 AAGCCACCACATAA
60360978 CTTCCACCTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 1 0.03
21 17 0.57
22 12 0.40
ACGTcount: A:0.46, C:0.28, G:0.09, T:0.18
Consensus pattern (22 bp):
AAGCCACCACATAATCATCGAT
Found at i:60364316 original size:13 final size:13
Alignment explanation
Indices: 60364298--60364323 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
60364288 ATACGTGGAA
60364298 CACATGGCCATGT
1 CACATGGCCATGT
60364311 CACATGGCCATGT
1 CACATGGCCATGT
60364324 GTCATACACG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.31, G:0.23, T:0.23
Consensus pattern (13 bp):
CACATGGCCATGT
Found at i:60365879 original size:12 final size:13
Alignment explanation
Indices: 60365848--60365884 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 13
60365838 GGATAACAAG
60365848 TTGTGAAAAAAAT
1 TTGTGAAAAAAAT
60365861 TTCGTGAAAAAAA-
1 TT-GTGAAAAAAAT
60365874 TTGTGAAAAAA
1 TTGTGAAAAAA
60365885 GAAGCTAGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 9 0.39
13 4 0.17
14 10 0.43
ACGTcount: A:0.54, C:0.03, G:0.16, T:0.27
Consensus pattern (13 bp):
TTGTGAAAAAAAT
Found at i:60368511 original size:10 final size:10
Alignment explanation
Indices: 60368493--60368535 Score: 59
Period size: 11 Copynumber: 4.1 Consensus size: 10
60368483 TAGTAGTTCT
*
60368493 TCAAAAAAATT
1 TCAAAAAAA-A
60368504 TCAAAAAAAA
1 TCAAAAAAAA
60368514 TCAAAAAAAAA
1 TC-AAAAAAAA
60368525 TCAAAAAAAA
1 TCAAAAAAAA
60368535 T
1 T
60368536 TGGTTCCATC
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
10 11 0.37
11 19 0.63
ACGTcount: A:0.74, C:0.09, G:0.00, T:0.16
Consensus pattern (10 bp):
TCAAAAAAAA
Found at i:60368519 original size:21 final size:21
Alignment explanation
Indices: 60368493--60368535 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
60368483 TAGTAGTTCT
**
60368493 TCAAAAAAATTTCAAAAAAAA
1 TCAAAAAAAAATCAAAAAAAA
60368514 TCAAAAAAAAATCAAAAAAAA
1 TCAAAAAAAAATCAAAAAAAA
60368535 T
1 T
60368536 TGGTTCCATC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.74, C:0.09, G:0.00, T:0.16
Consensus pattern (21 bp):
TCAAAAAAAAATCAAAAAAAA
Found at i:60368589 original size:14 final size:14
Alignment explanation
Indices: 60368570--60368621 Score: 77
Period size: 14 Copynumber: 3.5 Consensus size: 14
60368560 ATACAAGTGA
60368570 AAAAAAAATTCGTG
1 AAAAAAAATTCGTG
60368584 AAAAAAAATTCGTG
1 AAAAAAAATTCGTG
60368598 AAAAAAAAAATTTCGTG
1 --AAAAAAAA-TTCGTG
60368615 AAAAAAA
1 AAAAAAA
60368622 GAAGAAGCAG
Statistics
Matches: 35, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
14 14 0.40
15 7 0.20
16 8 0.23
17 6 0.17
ACGTcount: A:0.63, C:0.06, G:0.12, T:0.19
Consensus pattern (14 bp):
AAAAAAAATTCGTG
Found at i:60368591 original size:17 final size:17
Alignment explanation
Indices: 60368569--60368621 Score: 76
Period size: 17 Copynumber: 3.3 Consensus size: 17
60368559 GATACAAGTG
60368569 AAAAAAAAATTCGTG--
1 AAAAAAAAATTCGTGAA
60368584 -AAAAAAAATTCGTGAA
1 AAAAAAAAATTCGTGAA
*
60368600 AAAAAAAATTTCGTGAA
1 AAAAAAAAATTCGTGAA
60368617 AAAAA
1 AAAAA
60368622 GAAGAAGCAG
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
14 14 0.41
17 20 0.59
ACGTcount: A:0.64, C:0.06, G:0.11, T:0.19
Consensus pattern (17 bp):
AAAAAAAAATTCGTGAA
Found at i:60383199 original size:13 final size:13
Alignment explanation
Indices: 60383177--60383209 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
60383167 AAGGGTTTGT
60383177 TTAT-TAAACTAA
1 TTATCTAAACTAA
60383189 TTATCTAAACTAA
1 TTATCTAAACTAA
*
60383202 TTAACTAA
1 TTATCTAA
60383210 TTTAATCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:60389587 original size:4 final size:5
Alignment explanation
Indices: 60389566--60389623 Score: 66
Period size: 5 Copynumber: 11.2 Consensus size: 5
60389556 AAGAAAAAGA
60389566 AAAAT AAGAAT AAAAT -AAAT AAAAT AAAAT AAAAAT AAGAAT -AAAT
1 AAAAT AA-AAT AAAAT AAAAT AAAAT AAAAT -AAAAT AA-AAT AAAAT
60389612 AAAAAT AAAAT A
1 -AAAAT AAAAT A
60389624 GGAGGATTAA
Statistics
Matches: 47, Mismatches: 0, Indels: 12
0.80 0.00 0.20
Matches are distributed among these distances:
4 7 0.15
5 23 0.49
6 17 0.36
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:60389603 original size:31 final size:32
Alignment explanation
Indices: 60389532--60389623 Score: 107
Period size: 31 Copynumber: 2.8 Consensus size: 32
60389522 TATGTCTTTC
* *
60389532 AAAATAAGAA-AATTGAAAAATCAAAAGAAAAAGA
1 AAAATAAGAATAAAT-AAAAAT-AAAA-TAAAAGA
* *
60389566 AAAATAAGAATAAA-ATAAATAAAATAAAATA
1 AAAATAAGAATAAATAAAAATAAAATAAAAGA
60389597 AAAATAAGAATAAATAAAAATAAAATA
1 AAAATAAGAATAAATAAAAATAAAATA
60389624 GGAGGATTAA
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
31 19 0.37
32 15 0.29
33 5 0.10
34 10 0.20
35 2 0.04
ACGTcount: A:0.76, C:0.01, G:0.07, T:0.16
Consensus pattern (32 bp):
AAAATAAGAATAAATAAAAATAAAATAAAAGA
Found at i:60394686 original size:5 final size:5
Alignment explanation
Indices: 60394676--60394700 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
60394666 ATACATAGTA
60394676 AAATT AAATT AAATT AAATT AAATT
1 AAATT AAATT AAATT AAATT AAATT
60394701 GGAAGAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
AAATT
Found at i:60408367 original size:24 final size:24
Alignment explanation
Indices: 60408335--60408405 Score: 124
Period size: 24 Copynumber: 3.0 Consensus size: 24
60408325 CTGTCAGGAG
60408335 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
60408359 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
**
60408383 AGGATTTAGGAGCAGATAAGGGA
1 AGGATTTAGGAGTTGATAAGGGA
60408406 AGAAATCTAG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.35, C:0.01, G:0.38, T:0.25
Consensus pattern (24 bp):
AGGATTTAGGAGTTGATAAGGGAT
Found at i:60408417 original size:48 final size:49
Alignment explanation
Indices: 60408335--60408428 Score: 120
Period size: 48 Copynumber: 1.9 Consensus size: 49
60408325 CTGTCAGGAG
** * * *
60408335 AGGATTTAGGAGTTGATAAGGGATAGGATTTAGGAGTTGAT-AAGGGAT
1 AGGATTTAGGAGCAGATAAGGGATAGAATCTAGGAGCTGATCAAGGGAT
60408383 AGGATTTAGGAGCAGATAAGGGA-AGAAATCTAGGAGCTGATCAAGG
1 AGGATTTAGGAGCAGATAAGGGATAG-AATCTAGGAGCTGATCAAGG
60408429 AACAAGAGGT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
47 2 0.05
48 33 0.85
49 4 0.10
ACGTcount: A:0.36, C:0.04, G:0.36, T:0.23
Consensus pattern (49 bp):
AGGATTTAGGAGCAGATAAGGGATAGAATCTAGGAGCTGATCAAGGGAT
Found at i:60408595 original size:27 final size:27
Alignment explanation
Indices: 60408468--60408585 Score: 173
Period size: 27 Copynumber: 4.1 Consensus size: 27
60408458 GCATGGGAAT
60408468 TTCGGCTAGGGTTAGTGCCAGTATAAA
1 TTCGGCTAGGGTTAGTGCCAGTATAAA
*
60408495 TTCGGCATTAGTGGTAAGTGGTGCCAGTATAAA
1 TTCGGC--TAG-GGT---TAGTGCCAGTATAAA
60408528 TTCGGCTAGGGTTAGTGCCAGTATAAA
1 TTCGGCTAGGGTTAGTGCCAGTATAAA
60408555 TTCGGCTAGGGTTAGTGCCAGTATAAA
1 TTCGGCTAGGGTTAGTGCCAGTATAAA
60408582 TTCG
1 TTCG
60408586 ACTTTTGTTA
Statistics
Matches: 83, Mismatches: 2, Indels: 12
0.86 0.02 0.12
Matches are distributed among these distances:
27 51 0.61
29 3 0.04
30 6 0.07
31 3 0.04
33 20 0.24
ACGTcount: A:0.25, C:0.14, G:0.30, T:0.31
Consensus pattern (27 bp):
TTCGGCTAGGGTTAGTGCCAGTATAAA
Found at i:60409545 original size:27 final size:26
Alignment explanation
Indices: 60409505--60409616 Score: 134
Period size: 27 Copynumber: 4.2 Consensus size: 26
60409495 AGGAAGCATC
*
60409505 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
60409532 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
60409559 CTGGTGGTTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTG-AT
* * *
60409587 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGAT
60409613 CTGG
1 CTGG
60409617 CAGCCATGCT
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
26 7 0.09
27 51 0.69
28 16 0.22
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.38
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:60409609 original size:54 final size:54
Alignment explanation
Indices: 60409505--60409616 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
60409495 AGGAAGCATC
*
60409505 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
* * * *
60409559 CTGGTGGTTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTGTT
60409613 CTGG
1 CTGG
60409617 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
Found at i:60415055 original size:14 final size:14
Alignment explanation
Indices: 60415036--60415065 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
60415026 AACTAAGGAG
*
60415036 TACAAAATTAAAAA
1 TACAAAAATAAAAA
60415050 TACAAAAATAAAAA
1 TACAAAAATAAAAA
60415064 TA
1 TA
60415066 ATCAAAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.73, C:0.07, G:0.00, T:0.20
Consensus pattern (14 bp):
TACAAAAATAAAAA
Found at i:60424536 original size:27 final size:26
Alignment explanation
Indices: 60424506--60424682 Score: 158
Period size: 27 Copynumber: 6.5 Consensus size: 26
60424496 AAATTGTACA
* *
60424506 GCACTAAGTGTACGATTCGACTATGTT
1 GCACTAAGTGTGCGATT-GACTATGTG
* *
60424533 GCACTAAGTGTGCGAAATGAATATGAT-
1 GCACTAAGTGTGCG-ATTGACTATG-TG
* *
60424560 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCG-ATTGACTATGTG
*
60424587 GCACTAAGTGTGCGAGTCTGACTATGTA
1 GCACTAAGTGTGCGA-T-TGACTATGTG
* *
60424615 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGA-TTGACTATGTG
* * *
60424642 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGA-TTGACTATGTG
*
60424669 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
60424683 GGCTCAATAT
Statistics
Matches: 126, Mismatches: 19, Indels: 10
0.81 0.12 0.06
Matches are distributed among these distances:
26 1 0.01
27 99 0.79
28 26 0.21
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (26 bp):
GCACTAAGTGTGCGATTGACTATGTG
Found at i:60424619 original size:82 final size:81
Alignment explanation
Indices: 60424506--60424661 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
60424496 AAATTGTACA
* * *
60424506 GCACTAAGTGTACGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGTGTACGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACG-TGGCACTAAGTG
60424570 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
60424587 GCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGTGTACGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
*
60424652 TGCGAGTTGA
65 TGCGAATTGA
60424662 TTATATAGCA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 17 0.26
82 48 0.74
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTACGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:60424673 original size:82 final size:81
Alignment explanation
Indices: 60424502--60424682 Score: 211
Period size: 82 Copynumber: 2.2 Consensus size: 81
60424492 GATTAAATTG
* * * *
60424502 TACAGCACTAAGTGTACGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
60424567 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
60424583 TGCGGCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACT
1 TACAGCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
60424647 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
60424665 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
60424683 GGCTCAATAT
Statistics
Matches: 82, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
81 19 0.23
82 63 0.77
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:60453358 original size:27 final size:27
Alignment explanation
Indices: 60453328--60453505 Score: 169
Period size: 27 Copynumber: 6.6 Consensus size: 27
60453318 ATATTGAGTC
* *
60453328 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
60453355 CGCACACTTAATGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
60453382 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
60453410 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
60453437 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * * *
60453464 CGCACACTTAGTGCAACATAGTTAAAT
1 CGCACACTTAGTGCTACATAATCAACT
60453491 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
60453506 GTACAATTTA
Statistics
Matches: 126, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 102 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:60453477 original size:54 final size:55
Alignment explanation
Indices: 60453328--60453505 Score: 191
Period size: 54 Copynumber: 3.3 Consensus size: 55
60453318 ATATTGAGTC
* * * * * * *
60453328 CGCACACTCAGTGCTATATAATC-AACTCGCACACTTAATGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCAACATAGTCAAAT
** * *
60453382 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCAACATAGTCAAAT
* ** *
60453437 CGCACACTTAGTGC-ATCATATTC-ATTTCGCACACTTAGTGCAACATAGTTAAAT
1 CGCACACTTAGTGCTA-CATAGTCAAACTCGCACACTTAGTGCAACATAGTCAAAT
60453491 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
60453506 GTACAATTTA
Statistics
Matches: 103, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
54 59 0.57
55 44 0.43
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCAACATAGTCAAAT
Found at i:60480304 original size:40 final size:40
Alignment explanation
Indices: 60480230--60480343 Score: 178
Period size: 40 Copynumber: 2.9 Consensus size: 40
60480220 AAACTACAGG
60480230 GTTACTAAATCCGGGCTAAG-CCCGAAGGCATTTGTGCGA
1 GTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGTGCGA
*
60480269 GTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGA
1 GTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGTGCGA
* *
60480309 ATTACTATAA-CCGGGCTATGTCCCGAAGGCATTTG
1 GTTACTA-AATCCGGGCTAAGTCCCGAAGGCATTTG
60480344 AACGAGGAGC
Statistics
Matches: 69, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
39 19 0.28
40 48 0.70
41 2 0.03
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
GTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGTGCGA
Found at i:60487069 original size:105 final size:101
Alignment explanation
Indices: 60486891--60487087 Score: 313
Period size: 105 Copynumber: 1.9 Consensus size: 101
60486881 ATGTTATAGA
*
60486891 TATTTTTCGGGTTGAATCAGGTGAACCAGATAGCTTTTACTGATTTCTTCTATGACTGCTGTGAA
1 TATTTTTAGGGTTGAATCAGGTGAACCAGATAGCTTTTACTGATTTCTTCTATGACTGCTGTGAA
* *
60486956 ATATATGAGAAGAGGGTATGAGTCTTAACTTACGTT
66 ATATATGAGAAAAAGGTATGAGTCTTAACTTACGTT
*
60486992 TATTTTTAGGGTTGAATCAGGTGAACCAGATAGCTTACCTGTACTGGTTTCTTCTATGACTGCTG
1 TATTTTTAGGGTTGAATCAGGTGAACCAGATAGCTT---T-TACTGATTTCTTCTATGACTGCTG
*
60487057 TGAAATATATGAGAAAAATGTATGAGTCTTA
62 TGAAATATATGAGAAAAAGGTATGAGTCTTA
60487088 TCTCGCATTT
Statistics
Matches: 87, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
101 35 0.40
104 1 0.01
105 51 0.59
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.37
Consensus pattern (101 bp):
TATTTTTAGGGTTGAATCAGGTGAACCAGATAGCTTTTACTGATTTCTTCTATGACTGCTGTGAA
ATATATGAGAAAAAGGTATGAGTCTTAACTTACGTT
Found at i:60489580 original size:46 final size:46
Alignment explanation
Indices: 60489530--60489702 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
60489520 TTGGGCATCT
60489530 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATGTCC
* * * *
60489576 GAACTCATTGAGTTGAGTCCGAGTTC-GTGA--GAT-TTAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAA-T--G--TCC
* * *
60489623 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATGTCC
* *
60489669 GAACTCGTTGAGTTGAGTCTGAGTTCGCTTATGG
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
60489703 GCGGGTTACA
Statistics
Matches: 104, Mismatches: 14, Indels: 18
0.76 0.10 0.13
Matches are distributed among these distances:
42 3 0.03
43 4 0.04
45 3 0.03
46 58 0.56
47 27 0.26
48 3 0.03
50 3 0.03
51 3 0.03
ACGTcount: A:0.21, C:0.18, G:0.29, T:0.31
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATGTCC
Found at i:60489682 original size:93 final size:93
Alignment explanation
Indices: 60489523--60489695 Score: 292
Period size: 93 Copynumber: 1.9 Consensus size: 93
60489513 TGGATATTTG
* * *
60489523 GGCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATGTCCGAACTCATTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCCGAACTCATTGAG
60489588 TTGAGTCCGAGTTCGTGAGATTTAACTA
66 TTGAGTCCGAGTTCGTGAGATTTAACTA
* *
60489616 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCCGAACTCATTGAG
*
60489681 TTGAGTCTGAGTTCG
66 TTGAGTCCGAGTTCG
60489696 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.31
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCCGAACTCATTGAG
TTGAGTCCGAGTTCGTGAGATTTAACTA
Found at i:60500868 original size:23 final size:23
Alignment explanation
Indices: 60500824--60500869 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
60500814 CGTGATAAAA
*
60500824 ATATACAAATGTAATACTAATAT
1 ATATACAAATGTAACACTAATAT
*
60500847 ATATACAATTGTAACA-TAA-AT
1 ATATACAAATGTAACACTAATAT
60500868 AT
1 AT
60500870 TTAATTACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 4 0.19
22 3 0.14
23 14 0.67
ACGTcount: A:0.52, C:0.09, G:0.04, T:0.35
Consensus pattern (23 bp):
ATATACAAATGTAACACTAATAT
Found at i:60501862 original size:3 final size:3
Alignment explanation
Indices: 60501854--60501880 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
60501844 ATATGAGGTA
60501854 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
60501881 GAGATGAGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:60504318 original size:28 final size:28
Alignment explanation
Indices: 60504263--60504318 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
60504253 ACAGGGGTTT
60504263 TCACACGGCCTGACACATGCCCGTGTCCC
1 TCACACGGCCTGACACA-GCCCGTGTCCC
60504292 TCACACGGCCATGACAC-GCCCGTGTCC
1 TCACACGGCC-TGACACAGCCCGTGTCC
60504319 TAGCCCGTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
28 10 0.38
29 10 0.38
30 6 0.23
ACGTcount: A:0.18, C:0.45, G:0.21, T:0.16
Consensus pattern (28 bp):
TCACACGGCCTGACACAGCCCGTGTCCC
Found at i:60505420 original size:46 final size:45
Alignment explanation
Indices: 60505325--60505443 Score: 161
Period size: 46 Copynumber: 2.6 Consensus size: 45
60505315 GGGCCAACAC
*
60505325 CATGTCCCAGACATGGTCTTACACTGAC-ACATCTCGTAGCCCATA
1 CATGTCCCAGACAT-GTCTTACACTGGCTACATCTCGTAGCCCATA
* *
60505370 CATGTCCCAGACATGTCTTACACTGGCTTACATCTCG-AGGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGC-TACATCTCGTA-GCCCATA
*
60505416 CATGTCCCAGACATGTCTTACACGGGCT
1 CATGTCCCAGACATGTCTTACACTGGCT
60505444 CATAAATAAC
Statistics
Matches: 67, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
44 12 0.18
45 16 0.24
46 39 0.58
ACGTcount: A:0.24, C:0.32, G:0.19, T:0.25
Consensus pattern (45 bp):
CATGTCCCAGACATGTCTTACACTGGCTACATCTCGTAGCCCATA
Found at i:60515981 original size:18 final size:19
Alignment explanation
Indices: 60515960--60515998 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
60515950 TCTCCCATTT
*
60515960 TTCTCCCCTC-TCTCTCCC
1 TTCTCCCCTCTTCTCACCC
60515978 TTCTCCCCTCTTCTCACCC
1 TTCTCCCCTCTTCTCACCC
60515997 TT
1 TT
60515999 GCGCACATAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.03, C:0.56, G:0.00, T:0.41
Consensus pattern (19 bp):
TTCTCCCCTCTTCTCACCC
Found at i:60519790 original size:13 final size:13
Alignment explanation
Indices: 60519772--60519797 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
60519762 CTAAGCCACC
60519772 CCACACGGGCGTG
1 CCACACGGGCGTG
60519785 CCACACGGGCGTG
1 CCACACGGGCGTG
60519798 TCCCTGTCGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.38, G:0.38, T:0.08
Consensus pattern (13 bp):
CCACACGGGCGTG
Found at i:60526713 original size:7 final size:7
Alignment explanation
Indices: 60526697--60526729 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
60526687 TTCCTGAATG
*
60526697 TTTCTTA
1 TTTCTCA
60526704 TTTCTCA
1 TTTCTCA
60526711 TTTCTCA
1 TTTCTCA
60526718 TTTCTCA
1 TTTCTCA
60526725 TTTCT
1 TTTCT
60526730 TATTCATTCC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.12, C:0.24, G:0.00, T:0.64
Consensus pattern (7 bp):
TTTCTCA
Found at i:60532273 original size:30 final size:29
Alignment explanation
Indices: 60532225--60532350 Score: 155
Period size: 29 Copynumber: 4.3 Consensus size: 29
60532215 GAAAACATGT
*
60532225 ATATGAATGTGATTTGGGCCTAATGGGTC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* *
60532254 GTATGAATGTGATTTTGGGCCTAATGTGCC
1 ATATGAATGTGA-TTTGGGCCTAATGGGCC
* *
60532284 ATACGAATATGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* * *
60532313 ATTTGAATGAGA-TTGGGCCTAGTGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
60532341 ATATGCATGT
1 ATATGAATGT
60532351 ATGTAGACTT
Statistics
Matches: 81, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
28 22 0.27
29 35 0.43
30 24 0.30
ACGTcount: A:0.24, C:0.13, G:0.30, T:0.33
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:60534304 original size:13 final size:13
Alignment explanation
Indices: 60534286--60534310 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
60534276 AGGTCATGTG
60534286 AGGGACACGGGCC
1 AGGGACACGGGCC
60534299 AGGGACACGGGC
1 AGGGACACGGGC
60534311 GTGTGCTTGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.28, G:0.48, T:0.00
Consensus pattern (13 bp):
AGGGACACGGGCC
Found at i:60536503 original size:15 final size:16
Alignment explanation
Indices: 60536479--60536511 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
60536469 ATTAAATGAA
60536479 TTTATCTTGAAT-TAT
1 TTTATCTTGAATATAT
*
60536494 TTTATTTTGAATATAT
1 TTTATCTTGAATATAT
60536510 TT
1 TT
60536512 AGATCAAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.27, C:0.03, G:0.06, T:0.64
Consensus pattern (16 bp):
TTTATCTTGAATATAT
Found at i:60536887 original size:43 final size:43
Alignment explanation
Indices: 60536812--60536940 Score: 149
Period size: 43 Copynumber: 3.0 Consensus size: 43
60536802 ATAGGATTTA
*
60536812 CGATATGTGATTGCATGTAAGACCATGTCTGGGACA-TCGGCAT
1 CGATATGTGATTACATGTAAGACCATGTCTGGGACAGT-GGCAT
* *
60536855 CGTATATGTGATT-CGTGTAAGACCCT-TCCTGGGACAGTGGCAT
1 CG-ATATGTGATTACATGTAAGACCATGT-CTGGGACAGTGGCAT
* *
60536898 CGATATGTGATTACATGTAAGACCACGTCTAGGAC-GTTGGCAT
1 CGATATGTGATTACATGTAAGACCATGTCTGGGACAG-TGGCAT
60536941 TGTACGATAT
Statistics
Matches: 74, Mismatches: 6, Indels: 12
0.80 0.07 0.13
Matches are distributed among these distances:
42 12 0.16
43 50 0.68
44 12 0.16
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (43 bp):
CGATATGTGATTACATGTAAGACCATGTCTGGGACAGTGGCAT
Found at i:60543299 original size:26 final size:26
Alignment explanation
Indices: 60543270--60543377 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
60543260 TGGTACAAAT
60543270 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
60543296 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
60543322 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
60543348 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
60543374 TGAT
1 TGAT
60543378 GAGCATTTCT
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:60548161 original size:28 final size:28
Alignment explanation
Indices: 60548062--60548148 Score: 138
Period size: 28 Copynumber: 3.1 Consensus size: 28
60548052 GCAATCAAAT
* *
60548062 ATGGTACTCAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
60548090 ATGGCACTTAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
* *
60548118 ATGGCACTTAGTGTGCGAGATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
60548146 ATG
1 ATG
60548149 ATACTTCGTG
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 55 1.00
ACGTcount: A:0.33, C:0.10, G:0.28, T:0.29
Consensus pattern (28 bp):
ATGGCACTTAGTGTACGAAATATTGAGA
Found at i:60548168 original size:28 final size:28
Alignment explanation
Indices: 60548062--60548168 Score: 133
Period size: 28 Copynumber: 3.8 Consensus size: 28
60548052 GCAATCAAAT
* * *
60548062 ATGGTACTCAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
*
60548090 ATGGCACTTAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
*
60548118 ATGGCACTTAGTGTGCGAGATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
** * *
60548146 ATGATACTTCGTGTGCAAAATAT
1 ATGGCACTTAGTGTGCGAAATAT
60548169 CGAATGATTC
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 70 1.00
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.30
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCGAAATATTGAGA
Found at i:60557219 original size:31 final size:31
Alignment explanation
Indices: 60557184--60557243 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
60557174 CTTTTCACAC
*
60557184 TTCATATTTCATAACACTAGGCCGAAGCCAT
1 TTCATACTTCATAACACTAGGCCGAAGCCAT
** *
60557215 TTCATACTTCATATTACTGGGCCGAAGCC
1 TTCATACTTCATAACACTAGGCCGAAGCC
60557244 TTTACTGTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.30
Consensus pattern (31 bp):
TTCATACTTCATAACACTAGGCCGAAGCCAT
Found at i:60557546 original size:25 final size:24
Alignment explanation
Indices: 60557440--60557582 Score: 173
Period size: 25 Copynumber: 5.9 Consensus size: 24
60557430 GCTTTATCAT
*
60557440 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
60557465 ATAACTAGGG-AAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
60557488 ATAATTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
* *
60557512 ATAATTGGGGCATAAGCCCTTTATC
1 ATAACTGGGGCATAAGCCCTTT-TA
*
60557537 ATAACTGGGGCATAAGCCCTTTATC
1 ATAACTGGGGCATAAGCCCTTT-TA
60557562 ATAACTGGGGCATAAGCCCTT
1 ATAACTGGGGCATAAGCCCTT
60557583 CTACACTTCC
Statistics
Matches: 107, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
23 14 0.13
24 40 0.37
25 53 0.50
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:60557659 original size:20 final size:20
Alignment explanation
Indices: 60557634--60557700 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
60557624 TTATGAATAC
60557634 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
60557654 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
60557674 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
60557694 ACCATGT
1 ATCATGT
60557701 TTATCAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:60557665 original size:11 final size:11
Alignment explanation
Indices: 60557634--60557689 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
60557624 TTATGAATAC
60557634 ATCATGTGCAT
1 ATCATGTGCAT
*
60557645 ATCA--TACAT
1 ATCATGTGCAT
60557654 ATCATGTGCAT
1 ATCATGTGCAT
*
60557665 ATCA--TACAT
1 ATCATGTGCAT
*
60557674 GTCATGTGCAT
1 ATCATGTGCAT
60557685 ATCAT
1 ATCAT
60557690 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:60565328 original size:31 final size:31
Alignment explanation
Indices: 60565286--60565348 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
60565276 CTTTTCACAC
*
60565286 TTCATATTTCATAACACTGGGCCGAAGCCTT
1 TTCATACTTCATAACACTGGGCCGAAGCCTT
**
60565317 TTCATACTTCATATTACTGGGCCGAAGCCTT
1 TTCATACTTCATAACACTGGGCCGAAGCCTT
60565348 T
1 T
60565349 ACTGTAAATC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.24, C:0.25, G:0.16, T:0.35
Consensus pattern (31 bp):
TTCATACTTCATAACACTGGGCCGAAGCCTT
Found at i:60565623 original size:25 final size:25
Alignment explanation
Indices: 60565567--60565685 Score: 197
Period size: 25 Copynumber: 4.8 Consensus size: 25
60565557 TCCTCTTTTA
* *
60565567 ATAACTGGGG-AAAAGCCCTTT-TA
1 ATAACTGGGGCATAAGCCCTTTATC
60565590 ATAACTGGGGCATAAGCCCTTTATC
1 ATAACTGGGGCATAAGCCCTTTATC
*
60565615 ATAACTGGGGTATAAGCCCTTTATC
1 ATAACTGGGGCATAAGCCCTTTATC
60565640 ATAACTGGGGCATAAGCCCTTTATC
1 ATAACTGGGGCATAAGCCCTTTATC
60565665 ATAACTGGGGCATAAGCCCTT
1 ATAACTGGGGCATAAGCCCTT
60565686 CTACACTTCC
Statistics
Matches: 90, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
23 10 0.11
24 10 0.11
25 70 0.78
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (25 bp):
ATAACTGGGGCATAAGCCCTTTATC
Found at i:60565762 original size:20 final size:20
Alignment explanation
Indices: 60565737--60565803 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
60565727 TTATGAATAC
60565737 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
60565757 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
60565777 GTCATGTGCAGATCATACAT
1 ATCATGTGCATATCATACAT
*
60565797 ACCATGT
1 ATCATGT
60565804 TTATCAAAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.33, C:0.21, G:0.13, T:0.33
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:60582900 original size:20 final size:20
Alignment explanation
Indices: 60582871--60582923 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
60582861 ACGGATGGGA
*
60582871 CACACGGGCGTGTCCCTAGG
1 CACACAGGCGTGTCCCTAGG
60582891 CACACAGGCGTGTCCCTAGG
1 CACACAGGCGTGTCCCTAGG
60582911 CACACAGGCGTGT
1 CACACAGGCGTGT
60582924 GCTTTGCCTC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.19, C:0.34, G:0.32, T:0.15
Consensus pattern (20 bp):
CACACAGGCGTGTCCCTAGG
Found at i:60584613 original size:40 final size:40
Alignment explanation
Indices: 60584569--60584756 Score: 331
Period size: 40 Copynumber: 4.7 Consensus size: 40
60584559 GCAAACACAT
* *
60584569 TTGCCTTCGGGTCTTAACCCGGATATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
60584609 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
60584649 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
60584689 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCGTAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
60584729 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
60584757 TCCAATGCTC
Statistics
Matches: 143, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 143 1.00
ACGTcount: A:0.22, C:0.26, G:0.21, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:60598601 original size:27 final size:27
Alignment explanation
Indices: 60598563--60598618 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
60598553 GGCGCATATG
60598563 TTAATTTCTTCTTATTATTATTTGGCA
1 TTAATTTCTTCTTATTATTATTTGGCA
*
60598590 TTAATTTCTTCTTCTTATTATTTGGCA
1 TTAATTTCTTCTTATTATTATTTGGCA
60598617 TT
1 TT
60598619 TTTGGGGGAC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.20, C:0.12, G:0.07, T:0.61
Consensus pattern (27 bp):
TTAATTTCTTCTTATTATTATTTGGCA
Found at i:60620718 original size:27 final size:26
Alignment explanation
Indices: 60620687--60620864 Score: 169
Period size: 27 Copynumber: 6.6 Consensus size: 26
60620677 TAAATTGTAC
60620687 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * *
60620714 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* *
60620740 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
*
60620768 GGCACTAAGTGTGCGAGTCTGACTATGT
1 AGCACTAAGTGTGCGA-T-TGACTATGT
* *
60620796 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* * *
60620823 GGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
60620850 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
60620865 GGCTCAATAT
Statistics
Matches: 126, Mismatches: 20, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
26 1 0.01
27 100 0.79
28 25 0.20
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:60620803 original size:82 final size:81
Alignment explanation
Indices: 60620688--60620843 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
60620678 AAATTGTACA
* * *
60620688 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACG-TGGCACTAAGTG
60620752 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
60620769 GCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
*
60620834 TGCGAGTTGA
65 TGCGAATTGA
60620844 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 18 0.27
82 48 0.73
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:60620855 original size:82 final size:81
Alignment explanation
Indices: 60620684--60620864 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
60620674 GATTAAATTG
* * *
60620684 TACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
60620749 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
60620765 TGCGGCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACT
1 TACAGCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
60620829 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
60620847 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
60620865 GGCTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 20 0.24
82 63 0.76
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:60628814 original size:27 final size:26
Alignment explanation
Indices: 60628783--60628960 Score: 169
Period size: 27 Copynumber: 6.6 Consensus size: 26
60628773 TAAATTGTAC
60628783 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * *
60628810 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* *
60628836 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
*
60628864 GGCACTAAGTGTGCGAGTCTGACTATGT
1 AGCACTAAGTGTGCGA-T-TGACTATGT
* *
60628892 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* * *
60628919 GGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
60628946 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
60628961 GGCTCAATAT
Statistics
Matches: 126, Mismatches: 20, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
26 1 0.01
27 100 0.79
28 25 0.20
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:60628899 original size:82 final size:81
Alignment explanation
Indices: 60628784--60628939 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
60628774 AAATTGTACA
* * *
60628784 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACG-TGGCACTAAGTG
60628848 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
60628865 GCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
*
60628930 TGCGAGTTGA
65 TGCGAATTGA
60628940 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 18 0.27
82 48 0.73
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:60628951 original size:82 final size:81
Alignment explanation
Indices: 60628780--60628960 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
60628770 GATTAAATTG
* * *
60628780 TACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
60628845 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
60628861 TGCGGCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACT
1 TACAGCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
60628925 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
60628943 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
60628961 GGCTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 20 0.24
82 63 0.76
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:60631044 original size:24 final size:24
Alignment explanation
Indices: 60631017--60631065 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
60631007 TTAAGAAAAG
60631017 TTAGTAGATATTTTTGATGAATCA
1 TTAGTAGATATTTTTGATGAATCA
*
60631041 TTAGTTGATATTTTTGATGAATCA
1 TTAGTAGATATTTTTGATGAATCA
60631065 T
1 T
60631066 CCATGGAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.31, C:0.04, G:0.16, T:0.49
Consensus pattern (24 bp):
TTAGTAGATATTTTTGATGAATCA
Found at i:60635136 original size:14 final size:14
Alignment explanation
Indices: 60635098--60635140 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
60635088 CAAAATTTAC
60635098 AATATAATTAAA-T
1 AATATAATTAAATT
60635111 AATATAAATTAAATT
1 AATAT-AATTAAATT
*
60635126 AA-ATAATTTAATT
1 AATATAATTAAATT
60635139 AA
1 AA
60635141 CTATTTACCC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
13 15 0.56
14 9 0.33
15 3 0.11
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
AATATAATTAAATT
Found at i:60640830 original size:25 final size:26
Alignment explanation
Indices: 60640792--60640844 Score: 74
Period size: 25 Copynumber: 2.0 Consensus size: 26
60640782 AAAGAAACGA
60640792 ATCAAGACAAAAAAAAAT-TAGGTACTT
1 ATCAAGAC--AAAAAAATCTAGGTACTT
60640819 ATCAAGAC-AAAAAATCTAGGTACTT
1 ATCAAGACAAAAAAATCTAGGTACTT
60640844 A
1 A
60640845 CTTGAAAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
24 7 0.28
25 10 0.40
27 8 0.32
ACGTcount: A:0.53, C:0.13, G:0.11, T:0.23
Consensus pattern (26 bp):
ATCAAGACAAAAAAATCTAGGTACTT
Found at i:60641836 original size:16 final size:17
Alignment explanation
Indices: 60641817--60641852 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
60641807 AAAATGAAAT
60641817 TAAAGATA-TAAATAAA
1 TAAAGATAGTAAATAAA
60641833 TAAAGATAGTAAATAAA
1 TAAAGATAGTAAATAAA
60641850 TAA
1 TAA
60641853 GCAAAATTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.67, C:0.00, G:0.08, T:0.25
Consensus pattern (17 bp):
TAAAGATAGTAAATAAA
Found at i:60645797 original size:38 final size:38
Alignment explanation
Indices: 60645718--60645926 Score: 204
Period size: 38 Copynumber: 5.4 Consensus size: 38
60645708 AAACCCAAAC
* * * * * *
60645718 ATAACACCAGCACGAAGCCTACAGGACTTTAAACTCAGAT
1 ATAATACCAGCACAAAGCCTGCGGGA-TTT-AACCCGGAT
* * *
60645758 ATAATACCAACACCAGGCCTGCGGGATTTAACCCGGAT
1 ATAATACCAGCACAAAGCCTGCGGGATTTAACCCGGAT
* *
60645796 ATAATACTAGCACGAAGCCTGCGGGATTTAACCCGGAT
1 ATAATACCAGCACAAAGCCTGCGGGATTTAACCCGGAT
* *
60645834 ATATTACCAGCACAAAGCCTGCCGGATTTAACCCGGAT
1 ATAATACCAGCACAAAGCCTGCGGGATTTAACCCGGAT
* * * *
60645872 ATAATTCCAGCATATAGCCTGCGGGTCTTTAAGCCCGGAT
1 ATAATACCAGCACAAAGCCTGCGGG-ATTTAA-CCCGGAT
*
60645912 ACAAT-CTCAGCACAA
1 ATAATAC-CAGCACAA
60645927 TTTATTTTAT
Statistics
Matches: 141, Mismatches: 25, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
38 95 0.67
39 9 0.06
40 37 0.26
ACGTcount: A:0.33, C:0.27, G:0.19, T:0.21
Consensus pattern (38 bp):
ATAATACCAGCACAAAGCCTGCGGGATTTAACCCGGAT
Found at i:60653122 original size:43 final size:43
Alignment explanation
Indices: 60653061--60653192 Score: 219
Period size: 43 Copynumber: 3.1 Consensus size: 43
60653051 TGCTCGAATT
* *
60653061 ACCGGCATTAAGCCTGCTAGGCACGAAGACCCGAATACACATC
1 ACCGGCATGAAGCCTGCTAGGCACGAAGGCCCGAATACACATC
* *
60653104 ACCGGCATGAATCTTGCTAGGCACGAAGGCCCGAATACACATC
1 ACCGGCATGAAGCCTGCTAGGCACGAAGGCCCGAATACACATC
*
60653147 ACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACACATC
1 ACCGGCATGAAGCCTGCTAGGCACGAAGGCCCGAATACACATC
60653190 ACC
1 ACC
60653193 AAGTTTTCAT
Statistics
Matches: 82, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 82 1.00
ACGTcount: A:0.31, C:0.33, G:0.23, T:0.13
Consensus pattern (43 bp):
ACCGGCATGAAGCCTGCTAGGCACGAAGGCCCGAATACACATC
Found at i:60654397 original size:16 final size:16
Alignment explanation
Indices: 60654376--60654406 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
60654366 AAATGATGAA
60654376 TCATTCCACTTACTTT
1 TCATTCCACTTACTTT
*
60654392 TCATTCCATTTACTT
1 TCATTCCACTTACTT
60654407 AGCATAAGCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.19, C:0.29, G:0.00, T:0.52
Consensus pattern (16 bp):
TCATTCCACTTACTTT
Found at i:60655095 original size:40 final size:39
Alignment explanation
Indices: 60655043--60655134 Score: 112
Period size: 40 Copynumber: 2.3 Consensus size: 39
60655033 CACCAGAAAA
* *
60655043 AAGCTCATAAGAGCTAATCCAACTGAAATACGCCAAACAG
1 AAGCTCATAAGAGCTAATCCAACTGAAACAC-ACAAACAG
* ** * *
60655083 AAGCTCATAAGAGTTGGTCCACCTGAAACACACTAACAG
1 AAGCTCATAAGAGCTAATCCAACTGAAACACACAAACAG
60655122 AAGCTCATAAGAG
1 AAGCTCATAAGAG
60655135 TTAAAAAGAA
Statistics
Matches: 45, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 19 0.42
40 26 0.58
ACGTcount: A:0.42, C:0.24, G:0.17, T:0.16
Consensus pattern (39 bp):
AAGCTCATAAGAGCTAATCCAACTGAAACACACAAACAG
Found at i:60659271 original size:6 final size:6
Alignment explanation
Indices: 60659260--60659284 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
60659250 TAAGTCACAA
60659260 ATTTTT ATTTTT ATTTTT ATTTTT A
1 ATTTTT ATTTTT ATTTTT ATTTTT A
60659285 GAGTTTAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (6 bp):
ATTTTT
Found at i:60667521 original size:42 final size:42
Alignment explanation
Indices: 60667473--60667630 Score: 165
Period size: 42 Copynumber: 3.7 Consensus size: 42
60667463 TAAGGGTTAC
* *
60667473 TGAGATTATGTGTAAGACTATATCTGGGATATGACATCTATA
1 TGAGATTATGTGTAAGACCATATCTGGGATATGGCATCTATA
*
60667515 TGAGATTTTGTGTAAGACCATATCTGGGATATGGCAT-TGATA
1 TGAGATTATGTGTAAGACCATATCTGGGATATGGCATCT-ATA
* * * * * * *
60667557 TAAGATTTTGTGTAAGACTATAGCTAGGCTATTGGCATCGATA
1 TGAGATTATGTGTAAGACCATATCTGGGATA-TGGCATCTATA
* ** *
60667600 TGGGATTACATATAAGACCATATCTGGGATA
1 TGAGATTATGTGTAAGACCATATCTGGGATA
60667631 AGGAATTGGT
Statistics
Matches: 94, Mismatches: 19, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
41 1 0.01
42 63 0.67
43 30 0.32
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.34
Consensus pattern (42 bp):
TGAGATTATGTGTAAGACCATATCTGGGATATGGCATCTATA
Found at i:60670450 original size:55 final size:53
Alignment explanation
Indices: 60670363--60670617 Score: 211
Period size: 55 Copynumber: 4.8 Consensus size: 53
60670353 ATTAGGGTTT
*
60670363 AAGGATACCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGG-AATTGGTAA-GTTTCTAAGGC
* * * * * * *
60670418 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGAC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGAATTGGTAAGTT--TCTAAGGC
* * * *
60670473 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGAATTGGTAAGTTTC-TAAGGC
* * **
60670526 AATGATACCATGTAAGACCATGTCTTGACATGGCAA-TGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGG-AATTGGTAAGTTTCTAAGGC
* * *
60670575 AAGGATACCACGTAAGACCATGACAAGTCATGGCAA-TGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGG-AATTGGTAAG
60670618 GTACCCGCGT
Statistics
Matches: 162, Mismatches: 31, Indels: 20
0.76 0.15 0.09
Matches are distributed among these distances:
49 37 0.23
52 6 0.04
53 37 0.23
54 12 0.07
55 66 0.41
56 4 0.02
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.22
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGAATTGGTAAGTTTCTAAGGC
Found at i:60670569 original size:108 final size:110
Alignment explanation
Indices: 60670370--60670570 Score: 291
Period size: 108 Copynumber: 1.8 Consensus size: 110
60670360 TTTAAGGATA
*
60670370 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
*
60670435 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGACAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGACAAAGGTC
* * * *
60670480 CCATGTAAGACCATGCCAAGGCATGG-CATTGGTGA-G-TTCATAAGGCAATGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAG
** *
60670542 ACCATGTCTTGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGATAAGTT
60670571 TCAAAAGGAT
Statistics
Matches: 81, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
107 3 0.04
108 45 0.56
109 7 0.09
110 26 0.32
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.24
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGACAAAGGTC
Found at i:60670723 original size:23 final size:24
Alignment explanation
Indices: 60670686--60670733 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
60670676 AAGGTAAGGT
**
60670686 AAGGTAAGATGAGTT-ATACTAAA
1 AAGGTAAGACAAGTTCATACTAAA
*
60670709 AAGGTAAGACAAGTTCATGCTAAA
1 AAGGTAAGACAAGTTCATACTAAA
60670733 A
1 A
60670734 GAGCAAAGGT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 13 0.62
24 8 0.38
ACGTcount: A:0.48, C:0.08, G:0.21, T:0.23
Consensus pattern (24 bp):
AAGGTAAGACAAGTTCATACTAAA
Found at i:60670830 original size:16 final size:16
Alignment explanation
Indices: 60670809--60670839 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
60670799 ATAAATTTGA
60670809 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
60670825 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
60670840 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:60673829 original size:20 final size:21
Alignment explanation
Indices: 60673804--60673842 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
60673794 CTCTTGAAGT
60673804 AGGGC-ACACGCCCGTGTGAA
1 AGGGCAACACGCCCGTGTGAA
60673824 AGGGCAACACGCCCGTGTG
1 AGGGCAACACGCCCGTGTG
60673843 GTTATTATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.23, C:0.31, G:0.36, T:0.10
Consensus pattern (21 bp):
AGGGCAACACGCCCGTGTGAA
Found at i:60675325 original size:48 final size:49
Alignment explanation
Indices: 60675224--60675340 Score: 133
Period size: 47 Copynumber: 2.5 Consensus size: 49
60675214 GACATGTTCT
60675224 TGCCGATG-CATGTCCCAGACAT-GTCTTACGATAGCTCTCATCTCAATG
1 TGCCGATGTCATGTCCCAGACATGGTCTTACGATAGCTCTCA-CTCAATG
*
60675272 T--CGATGTCATGTCCCAGACATGGTCTTAC-ACTGGCTCTCA-T-AATG
1 TGCCGATGTCATGTCCCAGACATGGTCTTACGA-TAGCTCTCACTCAATG
*
60675317 TGGCCGATGT-ATGTCTCAGACATG
1 T-GCCGATGTCATGTCCCAGACATG
60675341 TTTTGCACTA
Statistics
Matches: 61, Mismatches: 2, Indels: 13
0.80 0.03 0.17
Matches are distributed among these distances:
45 5 0.08
46 6 0.10
47 28 0.46
48 22 0.36
ACGTcount: A:0.22, C:0.26, G:0.21, T:0.30
Consensus pattern (49 bp):
TGCCGATGTCATGTCCCAGACATGGTCTTACGATAGCTCTCACTCAATG
Found at i:60677780 original size:5 final size:5
Alignment explanation
Indices: 60677759--60677798 Score: 53
Period size: 5 Copynumber: 7.8 Consensus size: 5
60677749 AATATATATA
* *
60677759 TCAAT TTAAT CCAAT TCAAT TCAAT TCAAT TCAAT ATCAA
1 TCAAT TCAAT TCAAT TCAAT TCAAT TCAAT TCAAT -TCAA
60677799 AGTACCAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
5 26 0.87
6 4 0.13
ACGTcount: A:0.42, C:0.20, G:0.00, T:0.38
Consensus pattern (5 bp):
TCAAT
Found at i:60679752 original size:48 final size:49
Alignment explanation
Indices: 60679686--60679924 Score: 274
Period size: 48 Copynumber: 4.9 Consensus size: 49
60679676 ATACTAGGGT
* *
60679686 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTG-A
1 TATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGAA
* *
60679734 TATGAGAGCTAGTGTAAGACCATGTTTGGAACATTGCATCGGCATT-TA
1 TATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGAA
* * * * * * *
60679782 TATAAGAGCTAGTGTAAGCCCATGTCTAGG-ACATGCCATCGACCTCGACA
1 TATGAGAGCTAGTGTAAGACCATGT-TTGGAACATGGCATCGGCATTGA-A
* *
60679832 TATG-G-GCTAGTGTAAGACCATGTTTGGAACATGACATCGGCACTGATA
1 TATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGA-A
*
60679880 TATGAGAGCCAGTGTAAGACCATGTTT-GAGACATGGCATCGGCAT
1 TATGAGAGCTAGTGTAAGACCATGTTTGGA-ACATGGCATCGGCAT
60679925 CTTACCCTTT
Statistics
Matches: 159, Mismatches: 24, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
47 3 0.02
48 113 0.71
49 7 0.04
50 36 0.23
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.26
Consensus pattern (49 bp):
TATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGAA
Found at i:60681474 original size:15 final size:16
Alignment explanation
Indices: 60681454--60681491 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
60681444 GTGCGTCTCA
60681454 TTCTTTTTC-TTCTTT
1 TTCTTTTTCTTTCTTT
60681469 TTCTTTTTCTTTCTTT
1 TTCTTTTTCTTTCTTT
60681485 TTCTTTT
1 TTCTTTT
60681492 AAATTTTGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (16 bp):
TTCTTTTTCTTTCTTT
Found at i:60686440 original size:32 final size:32
Alignment explanation
Indices: 60686399--60686462 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
60686389 TACTTATTAT
60686399 TATTTAAGCCTAAATCTTGTTATGATTGTGAA
1 TATTTAAGCCTAAATCTTGTTATGATTGTGAA
60686431 TATTTAAGCCTAAATCTTGTTATGATTGTGAA
1 TATTTAAGCCTAAATCTTGTTATGATTGTGAA
60686463 CGAGTGGAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.31, C:0.09, G:0.16, T:0.44
Consensus pattern (32 bp):
TATTTAAGCCTAAATCTTGTTATGATTGTGAA
Found at i:60695359 original size:26 final size:26
Alignment explanation
Indices: 60695330--60695409 Score: 88
Period size: 29 Copynumber: 3.0 Consensus size: 26
60695320 AAGGCATTTA
*
60695330 TTTCATATTGCGCCACAAAAGCTTTC
1 TTTCATATTACGCCACAAAAGCTTTC
* *
60695356 TTTCATATTACGCCACAAAGGCTTTTTTT
1 TTTCATATTACGCCACAAAAGC---TTTC
* *
60695385 TTTCATATTACACCACAAAGGCTTT
1 TTTCATATTACGCCACAAAAGCTTT
60695410 TCCTTCTTAA
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
26 23 0.49
29 24 0.51
ACGTcount: A:0.28, C:0.24, G:0.10, T:0.39
Consensus pattern (26 bp):
TTTCATATTACGCCACAAAAGCTTTC
Found at i:60698982 original size:19 final size:18
Alignment explanation
Indices: 60698958--60698998 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
60698948 GTTGTGATTA
* *
60698958 AATTATATTTGAATTGATG
1 AATTATATGTGAAAT-ATG
60698977 AATTATATGTGAAATATG
1 AATTATATGTGAAATATG
60698995 AATT
1 AATT
60698999 TAAAAGTGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.41, C:0.00, G:0.15, T:0.44
Consensus pattern (18 bp):
AATTATATGTGAAATATG
Found at i:60699216 original size:22 final size:22
Alignment explanation
Indices: 60699191--60699235 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
60699181 ACTATGTGTC
*
60699191 AAACCGTGCATGATTCAAAATA
1 AAACCATGCATGATTCAAAATA
60699213 AAACCATGCATGATTCAAAATA
1 AAACCATGCATGATTCAAAATA
60699235 A
1 A
60699236 GGTCACAAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.49, C:0.18, G:0.11, T:0.22
Consensus pattern (22 bp):
AAACCATGCATGATTCAAAATA
Found at i:60706520 original size:47 final size:47
Alignment explanation
Indices: 60706451--60706544 Score: 170
Period size: 47 Copynumber: 2.0 Consensus size: 47
60706441 TTGAGTAGAA
*
60706451 GATTGGTTCAAAATGGATGGAAAAACTTTTCACGAACTTTTAGTTGT
1 GATTGGTTCAAAATGGATGGAAAAACTTTTCACGAACCTTTAGTTGT
*
60706498 GATTGGTTCACAATGGATGGAAAAACTTTTCACGAACCTTTAGTTGT
1 GATTGGTTCAAAATGGATGGAAAAACTTTTCACGAACCTTTAGTTGT
60706545 AACTTTCACA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.31, C:0.13, G:0.21, T:0.35
Consensus pattern (47 bp):
GATTGGTTCAAAATGGATGGAAAAACTTTTCACGAACCTTTAGTTGT
Found at i:60715598 original size:15 final size:15
Alignment explanation
Indices: 60715580--60715609 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
60715570 TATGAACATG
60715580 ATAAAAATGAATTAA
1 ATAAAAATGAATTAA
60715595 ATAAAAATGAATTAA
1 ATAAAAATGAATTAA
60715610 GTCAATTGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.27
Consensus pattern (15 bp):
ATAAAAATGAATTAA
Found at i:60718609 original size:36 final size:35
Alignment explanation
Indices: 60718538--60718609 Score: 99
Period size: 36 Copynumber: 2.0 Consensus size: 35
60718528 AACATTTATA
*
60718538 TATTTTAAAAAAAATTGAGAAATTTTATAATTTTT
1 TATTTTAAAAAAAATTGAGAAATTTTATAAGTTTT
* * *
60718573 TATTTTAATAAAAAATTGAGATATTTTGTGAGTTTT
1 TATTTTAA-AAAAAATTGAGAAATTTTATAAGTTTT
60718609 T
1 T
60718610 GAAATTTTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
35 8 0.25
36 24 0.75
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (35 bp):
TATTTTAAAAAAAATTGAGAAATTTTATAAGTTTT
Found at i:60720335 original size:27 final size:27
Alignment explanation
Indices: 60720305--60720482 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
60720295 ATATTGAGTC
* * * *
60720305 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
60720332 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
60720359 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
60720387 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
60720414 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
60720441 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
60720468 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
60720483 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:60720444 original size:82 final size:81
Alignment explanation
Indices: 60720326--60720481 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
60720316 TGCTATATAA
* *
60720326 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
60720391 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
60720408 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
60720472 CACTTAGTGC
65 CACTTAGTGC
60720482 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:60732392 original size:31 final size:31
Alignment explanation
Indices: 60732352--60732427 Score: 100
Period size: 31 Copynumber: 2.5 Consensus size: 31
60732342 TTCAAAACTT
*
60732352 ACAAAAATATCACTAATATTATC-GTATTATT
1 ACAAAAATATCACTAATATTATCAG-ATTATC
* *
60732383 ATAAAAATATCATTAATATTATCAGATTATC
1 ACAAAAATATCACTAATATTATCAGATTATC
*
60732414 ACAAAAATGTCACT
1 ACAAAAATATCACT
60732428 TTAACAGTGT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
31 37 0.97
32 1 0.03
ACGTcount: A:0.47, C:0.13, G:0.04, T:0.36
Consensus pattern (31 bp):
ACAAAAATATCACTAATATTATCAGATTATC
Found at i:60739395 original size:45 final size:45
Alignment explanation
Indices: 60739345--60739454 Score: 132
Period size: 45 Copynumber: 2.4 Consensus size: 45
60739335 TTTAAGCTCA
* ** *
60739345 TTGAGTTGGTCTGAGTTTGTGATATATGTG-AGAAATCCGAACTTG
1 TTGAGTTGGTCCGAGTTCATGATATATGTGAAG-AATCCGAACTCG
* * * *
60739390 TTGAGTTGGTCCAAGTTCATGATATATGTGAAGCATCTGAGCTCG
1 TTGAGTTGGTCCGAGTTCATGATATATGTGAAGAATCCGAACTCG
60739435 TTGAGTTGGTCCGAGTTCAT
1 TTGAGTTGGTCCGAGTTCAT
60739455 TATGGATACG
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
45 53 0.96
46 2 0.04
ACGTcount: A:0.23, C:0.13, G:0.28, T:0.36
Consensus pattern (45 bp):
TTGAGTTGGTCCGAGTTCATGATATATGTGAAGAATCCGAACTCG
Found at i:60739484 original size:44 final size:48
Alignment explanation
Indices: 60739429--60739555 Score: 154
Period size: 52 Copynumber: 2.6 Consensus size: 48
60739419 GAAGCATCTG
*
60739429 AGCTCGTTGAGTTGGTCCGAGTTCATTATGGAT-A-C-GAG-CATCCA
1 AGCTCGTTGAGTTGGTCTGAGTTCATTATGGATGAGCAGAGACATCCA
* * *
60739473 AGCTCGTTGAGTTGGTCTGAGTTTATTATGGATGCGATGCATGTGACATCCG
1 AGCTCGTTGAGTTGGTCTGAGTTCATTATGGAT--GA-GCA-GAGACATCCA
60739525 AGCTCGTTGAGTTGGTCTGAGTTCATTATGG
1 AGCTCGTTGAGTTGGTCTGAGTTCATTATGG
60739556 TTGTATACAT
Statistics
Matches: 70, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
44 31 0.44
47 1 0.01
49 1 0.01
51 2 0.03
52 35 0.50
ACGTcount: A:0.20, C:0.17, G:0.30, T:0.34
Consensus pattern (48 bp):
AGCTCGTTGAGTTGGTCTGAGTTCATTATGGATGAGCAGAGACATCCA
Found at i:60747094 original size:53 final size:53
Alignment explanation
Indices: 60747027--60747133 Score: 187
Period size: 53 Copynumber: 2.0 Consensus size: 53
60747017 ACATACAGCC
60747027 TAAGCATCTAGGGACATGCCCCTATCCCATACCCGTGTGAATTAAATTCTAAA
1 TAAGCATCTAGGGACATGCCCCTATCCCATACCCGTGTGAATTAAATTCTAAA
* * *
60747080 TAAGCATCTAGGGACATGCCCGTGTCCCATACCTGTGTGAATTAAATTCTAAA
1 TAAGCATCTAGGGACATGCCCCTATCCCATACCCGTGTGAATTAAATTCTAAA
60747133 T
1 T
60747134 TCAAACCTAC
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 51 1.00
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (53 bp):
TAAGCATCTAGGGACATGCCCCTATCCCATACCCGTGTGAATTAAATTCTAAA
Found at i:60750727 original size:137 final size:136
Alignment explanation
Indices: 60750556--60750816 Score: 294
Period size: 137 Copynumber: 1.9 Consensus size: 136
60750546 TATATTATAA
*** * * *
60750556 GATATTTATATGATAAATAAATTAAATTGTGACAAGTGTGTGATAAAAATAAAATAT-ATGTGTA
1 GATATTTATATGATAAATAAATTAAATAAAGACAAATGTATGAT--AAATAAAATATAAAGTGTA
* *
60750620 ATAAATATTATACATACATTTGTAATATA-TGTATGTATTTACTTATTATTTAAGTAAATATTAT
64 ATAAATA-TATACATACAATTGTAATATATTGTATGTAATTACTTATTATTTAAGTAAATATTAT
60750684 TATTAAATT
128 TATTAAATT
* *
60750693 GATA-TTATATTATGAAATAAATTAAATAAAGACAAATGTATGGTAAATAAAATATACAAGTGTA
1 GATATTTATATGAT-AAATAAATTAAATAAAGACAAATGTATGATAAATAAAATATA-AAGTGTA
* *** * * * *
60750757 ATACATATATTTGTACAATTGTAATATATTTTATTTAATTGCTTTTTATTTAAGTAAATA
64 ATAAATATATACATACAATTGTAATATATTGTATGTAATTACTTATTATTTAAGTAAATA
60750817 GATTTTTATA
Statistics
Matches: 102, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
135 11 0.11
136 25 0.25
137 66 0.65
ACGTcount: A:0.44, C:0.03, G:0.10, T:0.42
Consensus pattern (136 bp):
GATATTTATATGATAAATAAATTAAATAAAGACAAATGTATGATAAATAAAATATAAAGTGTAAT
AAATATATACATACAATTGTAATATATTGTATGTAATTACTTATTATTTAAGTAAATATTATTAT
TAAATT
Found at i:60750883 original size:24 final size:24
Alignment explanation
Indices: 60750855--60750911 Score: 114
Period size: 24 Copynumber: 2.4 Consensus size: 24
60750845 TAAAAGAAAG
60750855 ACAAGTGTATAAAAATGATTTGGT
1 ACAAGTGTATAAAAATGATTTGGT
60750879 ACAAGTGTATAAAAATGATTTGGT
1 ACAAGTGTATAAAAATGATTTGGT
60750903 ACAAGTGTA
1 ACAAGTGTA
60750912 ATAATATATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.42, C:0.05, G:0.21, T:0.32
Consensus pattern (24 bp):
ACAAGTGTATAAAAATGATTTGGT
Found at i:60750944 original size:22 final size:23
Alignment explanation
Indices: 60750902--60750944 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
60750892 AATGATTTGG
*
60750902 TACAAGTGTAATAATATATATGC
1 TACAAGTGTAATAATAAATATGC
*
60750925 TACAAGTGTTA-AATAAATAT
1 TACAAGTGTAATAATAAATAT
60750945 TTGTTATTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.47, C:0.07, G:0.12, T:0.35
Consensus pattern (23 bp):
TACAAGTGTAATAATAAATATGC
Found at i:60752437 original size:18 final size:18
Alignment explanation
Indices: 60752328--60752437 Score: 123
Period size: 18 Copynumber: 6.1 Consensus size: 18
60752318 TAAATAAAGA
**
60752328 TACTGAATAACTGACTAC
1 TACTGAATAACTGACTGT
*
60752346 TGCTGAATAACTGACTGT
1 TACTGAATAACTGACTGT
* *
60752364 TACTGGATAACTGACTGC
1 TACTGAATAACTGACTGT
* *
60752382 TACTGAATAATTGATTGT
1 TACTGAATAACTGACTGT
* *
60752400 TACTGAATAATTTA-TCGT
1 TACTGAATAACTGACT-GT
60752418 TACTGAATAACTGACTGT
1 TACTGAATAACTGACTGT
60752436 TA
1 TA
60752438 AAGAGTGATT
Statistics
Matches: 77, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
17 1 0.01
18 75 0.97
19 1 0.01
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.35
Consensus pattern (18 bp):
TACTGAATAACTGACTGT
Found at i:60754354 original size:14 final size:14
Alignment explanation
Indices: 60754335--60754365 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
60754325 TGCTACTATT
60754335 TTACTATTATGTTG
1 TTACTATTATGTTG
*
60754349 TTACTATTTTGTTG
1 TTACTATTATGTTG
60754363 TTA
1 TTA
60754366 TTGTTTGGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.19, C:0.06, G:0.13, T:0.61
Consensus pattern (14 bp):
TTACTATTATGTTG
Found at i:60754430 original size:30 final size:30
Alignment explanation
Indices: 60754396--60754457 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
60754386 ACTTATTTTA
60754396 TTGTTAATTTTGTTATTATTTTAAAGAGAT
1 TTGTTAATTTTGTTATTATTTTAAAGAGAT
* *
60754426 TTGTTAATTTTGTTATTATTTTAGAGATAT
1 TTGTTAATTTTGTTATTATTTTAAAGAGAT
60754456 TT
1 TT
60754458 TCTTGTTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.27, C:0.00, G:0.13, T:0.60
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGAGAT
Done.