Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 123 of 297
Found at i:43396264 original size:9 final size:9
Alignment explanation
Indices: 43396246--43396281 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
43396236 CTAATACGTA
43396246 TATATATAT
1 TATATATAT
*
43396255 TATATGTAT
1 TATATATAT
43396264 TATATATAT
1 TATATATAT
*
43396273 TATGTATAT
1 TATATATAT
43396282 ATTTTTTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.56
Consensus pattern (9 bp):
TATATATAT
Found at i:43399925 original size:129 final size:129
Alignment explanation
Indices: 43399789--43400033 Score: 314
Period size: 129 Copynumber: 1.9 Consensus size: 129
43399779 CCACGATCTT
* *
43399789 TAGCGACGTTTTTTTATAAAAACGCCGCTAAAGACCATGACCTTTAGCGGCGC-TCTTAAAAAAA
1 TAGCGACG-TTTTTTATAAAAACGCCGCCAAAGACCAGGACCTTTAGCGGCGCTTCTTAAAAAAA
* * * *
43399853 CGCCGCCAAAGACCAGGACCTATAGCGACG-TTTTTTATAAAAGCGCCGCTAAAAGTACAGTTCT
65 CGCCGCCAAAGACCAAGAACTATAGCGACGCTTTTATA-AAAAACGCCGCTAAAAGTACAGTTCT
43399917 A
129 A
* * * * * * *
43399918 TAGCGACGTTTTTTATAAAAGCGTCGCCAAAGACTAGGACCTTTAGCGGTGCTTTTTTAAAAAAT
1 TAGCGACGTTTTTTATAAAAACGCCGCCAAAGACCAGGACCTTTAGCGGCGCTTCTTAAAAAAAC
* * *
43399983 GCCGCTAAAGACCAAGAACTTTAGCGGCGCTTTTATAAAAAACGCCGCTAA
66 GCCGCCAAAGACCAAGAACTATAGCGACGCTTTTATAAAAAACGCCGCTAA
43400034 TTTGCTCAGT
Statistics
Matches: 98, Mismatches: 16, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
128 38 0.39
129 54 0.55
130 6 0.06
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.25
Consensus pattern (129 bp):
TAGCGACGTTTTTTATAAAAACGCCGCCAAAGACCAGGACCTTTAGCGGCGCTTCTTAAAAAAAC
GCCGCCAAAGACCAAGAACTATAGCGACGCTTTTATAAAAAACGCCGCTAAAAGTACAGTTCTA
Found at i:43400008 original size:86 final size:85
Alignment explanation
Indices: 43399774--43400030 Score: 259
Period size: 86 Copynumber: 3.0 Consensus size: 85
43399764 AAATGCCTCT
* * * * *
43399774 AAAGACCACGATCTTTAGCGACGTTTTTTTATAAAAACGCCGCTAAAGACCATGACCTTTAGCGG
1 AAAGACCAGGACCTATAGCGACG-TTTTTTATAAAAACGCCGCTAAAGACCAAGAACTTTAGCGG
* *
43399839 CGCTCTTAAAAAAACGCCGCC
65 CGCTTTTATAAAAACGCCGCC
* ** *
43399860 AAAGACCAGGACCTATAGCGACGTTTTTTATAAAAGCGCCGCTAAAAGTA-C-AGTTCTATAGCG
1 AAAGACCAGGACCTATAGCGACGTTTTTTATAAAAACGCCGCT-AAAG-ACCAAGAACTTTAGCG
* * * *
43399923 ACGTTTTTTATAAAAGCGTCGCC
64 GCG-CTTTTATAAAAACGCCGCC
* * ** *
43399946 AAAGACTAGGACCTTTAGCGGTGCTTTTTTA-AAAAATGCCGCTAAAGACCAAGAACTTTAGCGG
1 AAAGACCAGGACCTATAGCGACG-TTTTTTATAAAAACGCCGCTAAAGACCAAGAACTTTAGCGG
43400010 CGCTTTTATAAAAAACGCCGC
65 CGCTTTTAT-AAAAACGCCGC
43400031 TAATTTGCTC
Statistics
Matches: 137, Mismatches: 27, Indels: 14
0.77 0.15 0.08
Matches are distributed among these distances:
84 1 0.01
85 40 0.29
86 88 0.64
87 8 0.06
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.25
Consensus pattern (85 bp):
AAAGACCAGGACCTATAGCGACGTTTTTTATAAAAACGCCGCTAAAGACCAAGAACTTTAGCGGC
GCTTTTATAAAAACGCCGCC
Found at i:43400031 original size:43 final size:43
Alignment explanation
Indices: 43399761--43400033 Score: 223
Period size: 43 Copynumber: 6.3 Consensus size: 43
43399751 GTTTTTTAGA
* * * * *
43399761 AAAAAATGCCTCTAAAGACCACGATCTTTAGCGACGTTTTTTT
1 AAAAAACGCCGCTAAAGACCAAGACCTTTAGCGACGCTTTTTT
* * * *
43399804 ATAAAAACGCCGCTAAAGACCATGACCTTTAGCGGCGC-TCTTA
1 A-AAAAACGCCGCTAAAGACCAAGACCTTTAGCGACGCTTTTTT
* * *
43399847 AAAAAACGCCGCCAAAGACCAGGACCTATAGCGACG-TTTTTT
1 AAAAAACGCCGCTAAAGACCAAGACCTTTAGCGACGCTTTTTT
* ** *
43399889 ATAAAAGCGCCGCTAAAAGTA-C-AGTTCTATAGCGACG-TTTTTT
1 A-AAAAACGCCGCT-AAAG-ACCAAGACCTTTAGCGACGCTTTTTT
* * * * * **
43399932 ATAAAAGCGTCGCCAAAGACTAGGACCTTTAGCGGTGCTTTTTT
1 A-AAAAACGCCGCTAAAGACCAAGACCTTTAGCGACGCTTTTTT
* * * *
43399976 AAAAAATGCCGCTAAAGACCAAGAACTTTAGCGGCGCTTTTAT
1 AAAAAACGCCGCTAAAGACCAAGACCTTTAGCGACGCTTTTTT
43400019 AAAAAACGCCGCTAA
1 AAAAAACGCCGCTAA
43400034 TTTGCTCAGT
Statistics
Matches: 184, Mismatches: 38, Indels: 16
0.77 0.16 0.07
Matches are distributed among these distances:
41 1 0.01
42 39 0.21
43 101 0.55
44 42 0.23
45 1 0.01
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.25
Consensus pattern (43 bp):
AAAAAACGCCGCTAAAGACCAAGACCTTTAGCGACGCTTTTTT
Found at i:43400365 original size:21 final size:21
Alignment explanation
Indices: 43400335--43400377 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
43400325 TTCTGCTCCA
*
43400335 CCTCCTTCGCTGCTACCTCTG
1 CCTCCCTCGCTGCTACCTCTG
*
43400356 CCTCCCTCGCTGCTGCCTCTG
1 CCTCCCTCGCTGCTACCTCTG
43400377 C
1 C
43400378 TCTAAGTTGA
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:0.02, C:0.51, G:0.16, T:0.30
Consensus pattern (21 bp):
CCTCCCTCGCTGCTACCTCTG
Found at i:43400965 original size:18 final size:18
Alignment explanation
Indices: 43400933--43400970 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
43400923 TACAATATAG
43400933 TAGTAAAAATATTATTTAA
1 TAGTAAAAATATTA-TTAA
*
43400952 TAGTAAAAA-GTTATTAA
1 TAGTAAAAATATTATTAA
43400969 TA
1 TA
43400971 CTTGATAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
18 3 0.17
19 9 0.50
ACGTcount: A:0.53, C:0.00, G:0.08, T:0.39
Consensus pattern (18 bp):
TAGTAAAAATATTATTAA
Found at i:43406550 original size:21 final size:21
Alignment explanation
Indices: 43406526--43406565 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
43406516 AAATTAATTC
*
43406526 ATACTTAAGTTGAATCAAATA
1 ATACTTAAGTTGAACCAAATA
43406547 ATACTTAAGTTGAACCAAA
1 ATACTTAAGTTGAACCAAA
43406566 ATATAAAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.47, C:0.12, G:0.10, T:0.30
Consensus pattern (21 bp):
ATACTTAAGTTGAACCAAATA
Found at i:43407128 original size:132 final size:132
Alignment explanation
Indices: 43406909--43407256 Score: 696
Period size: 132 Copynumber: 2.6 Consensus size: 132
43406899 GTTTCCAGCC
43406909 TATATACTTTGAATCTTTAAAATATTTAAAATAAGGAATGGACAAGCAAGCTACATATATGGTAA
1 TATATACTTTGAATCTTTAAAATATTTAAAATAAGGAATGGACAAGCAAGCTACATATATGGTAA
43406974 TAAAATTAATTCATACTTATTCATACTTCAAATAATTAATACTATAAGATCAGGTTTCCAACCTA
66 TAAAATTAATTCATACTTATTCATACTTCAAATAATTAATACTATAAGATCAGGTTTCCAACCTA
43407039 TA
131 TA
43407041 TATATACTTTGAATCTTTAAAATATTTAAAATAAGGAATGGACAAGCAAGCTACATATATGGTAA
1 TATATACTTTGAATCTTTAAAATATTTAAAATAAGGAATGGACAAGCAAGCTACATATATGGTAA
43407106 TAAAATTAATTCATACTTATTCATACTTCAAATAATTAATACTATAAGATCAGGTTTCCAACCTA
66 TAAAATTAATTCATACTTATTCATACTTCAAATAATTAATACTATAAGATCAGGTTTCCAACCTA
43407171 TA
131 TA
43407173 TATATACTTTGAATCTTTAAAATATTTAAAATAAGGAATGGACAAGCAAGCTACATATATGGTAA
1 TATATACTTTGAATCTTTAAAATATTTAAAATAAGGAATGGACAAGCAAGCTACATATATGGTAA
43407238 TAAAATTAATTCATACTTA
66 TAAAATTAATTCATACTTA
43407257 AGTTGAATCA
Statistics
Matches: 216, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
132 216 1.00
ACGTcount: A:0.44, C:0.12, G:0.09, T:0.35
Consensus pattern (132 bp):
TATATACTTTGAATCTTTAAAATATTTAAAATAAGGAATGGACAAGCAAGCTACATATATGGTAA
TAAAATTAATTCATACTTATTCATACTTCAAATAATTAATACTATAAGATCAGGTTTCCAACCTA
TA
Found at i:43407274 original size:21 final size:21
Alignment explanation
Indices: 43407250--43407289 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
43407240 AAATTAATTC
*
43407250 ATACTTAAGTTGAATCAAATA
1 ATACTTAAGTTGAACCAAATA
43407271 ATACTTAAGTTGAACCAAA
1 ATACTTAAGTTGAACCAAA
43407290 ATATAAAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.47, C:0.12, G:0.10, T:0.30
Consensus pattern (21 bp):
ATACTTAAGTTGAACCAAATA
Found at i:43407474 original size:724 final size:738
Alignment explanation
Indices: 43406449--43407827 Score: 2453
Period size: 724 Copynumber: 1.9 Consensus size: 738
43406439 GTTTCCAGCC
43406449 TATATACTTTGAATCTTTAAAATATTTAAAATAAGGAATGGACAAGCAAGCTACATATATGGTAA
1 TATATACTTTGAATCTTTAAAATATTTAAAATAAGGAATGGACAAGCAAGCTACATATATGGTAA
43406514 TAAAATTAATTCATACTTAAGTTGAATCAAATAATACTTAAGTTGAACCAAAATATAAAAACTTA
66 TAAAATTAATTCATACTTAAGTTGAATCAAATAATACTTAAGTTGAACCAAAATATAAAAACTTA
43406579 TTCATACTTCAAATAATAATTAATAATACTATTTTGATAAAAACTAGTTATAAATTTTAAAGACA
131 TTCATACTTCAAATAATAATTAATAATACTATTTTGATAAAAACTAGTTATAAATTTTAAAGACA
43406644 TTTAAAAATAATAAATATTAAAATCATACATGTTTAATATAACAAAATAGTAATTTGAATATAAT
196 TTTAAAAATAATAAATATTAAAATCATACATGTTTAATATAACAAAATAGTAATTTGAATATAAT
*
43406709 AATATCAAGAAAGAATCGTAGTTTAATTTTTATAAGTAAACTGGAAATAAATTAAGGTTATATAA
261 AATATCAAGAAAGAATCGTAGTTTAATTTTTATAAGTAAACTGGAAATAAATTAAAGTTATATAA
43406774 ATATTCAATAGCGATAGAACTTTTTTCAATTCTTTTTGAATTTTTTAAGATTCATCATACGTGGC
326 ATATTCAATAGCGATAGAACTTTTTTCAATTCTTTTTGAATTTTTTAAGATTCATCATACGTGGC
*
43406839 GTTGTTACACCTAGGGAGGATCCATTATATCTTGCAACTCGATATAAGGCAACCCGTCAGGTTTC
391 GTTGTTACACCTACGGAGGATCCATTATATCTTGCAACTCGATATAAGGCAACCCGTCAGGTTTC
43406904 CAGCCTATATACTTTGAATCTTT-AAA-A-T-AT-TT-A-A-AA-T-A-A-G-G-AATGGACAAG
456 CAGCCTATATACTTTGAATCTTTAAAATATTAATATTGAGAGAAGTAACATGTGTAATGGACAAG
43406955 CAAGCTACATATATGGTAATAAAATTAATTCATACTTATTCATACTTCAAATAATTAATACTATA
521 CAAGCTACATATATGGTAATAAAATTAATTCATACTTATTCATACTTCAAATAATTAATACTATA
43407020 AGATCAGGTTTCCAACCTATATATATACTTTGAATCTTTAAAATATTTAAAATAAGGAATGGACA
586 AGATCAGGTTTCCAACCTATATATATACTTTGAATCTTTAAAATATTTAAAATAAGGAATGGACA
43407085 AGCAAGCTACATATATGGTAATAAAATTAATTCATACTTATTCATACTTCAAATAATTAATACTA
651 AGCAAGCTACATATATGGTAATAAAATTAATTCATACTTATTCATACTTCAAATAATTAATACTA
43407150 TAAGATCAGGTTTCCAACCTATA
716 TAAGATCAGGTTTCCAACCTATA
43407173 TATATACTTTGAATCTTTAAAATATTTAAAATAAGGAATGGACAAGCAAGCTACATATATGGTAA
1 TATATACTTTGAATCTTTAAAATATTTAAAATAAGGAATGGACAAGCAAGCTACATATATGGTAA
43407238 TAAAATTAATTCATACTTAAGTTGAATCAAATAATACTTAAGTTGAACCAAAATATAAAAACTTA
66 TAAAATTAATTCATACTTAAGTTGAATCAAATAATACTTAAGTTGAACCAAAATATAAAAACTTA
*
43407303 TTCATACTTCAAATAATAATTAATAATACTATTTTGATAAAAATTAGTTATAAATTTTAAAGACA
131 TTCATACTTCAAATAATAATTAATAATACTATTTTGATAAAAACTAGTTATAAATTTTAAAGACA
43407368 TTTAAAAATAATAAATATTAAAATCATACATGTTTAATATAACAAAATAGTAATTTGAATATAAT
196 TTTAAAAATAATAAATATTAAAATCATACATGTTTAATATAACAAAATAGTAATTTGAATATAAT
43407433 AATATCAAGAAAGAATCGTAGTTTAATTTTTATAAGTAAACTGGAAATAAATTAAAGTTATATAA
261 AATATCAAGAAAGAATCGTAGTTTAATTTTTATAAGTAAACTGGAAATAAATTAAAGTTATATAA
43407498 ATATTCAATAGCGATAGAACTTTTTTCAATTCTTTTTGAATTTTTTAAGATTCATCATACGTGGC
326 ATATTCAATAGCGATAGAACTTTTTTCAATTCTTTTTGAATTTTTTAAGATTCATCATACGTGGC
*
43407563 GTTGTTACACCTACGGAGGATCCATTATATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTC
391 GTTGTTACACCTACGGAGGATCCATTATATCTTGCAACTCGATATAAGGCAACCCGTCAGGTTTC
43407628 CAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAAGGTCAACTATTGTT
456 CAGCCTATATACTTTGAATCTTTAAAATA-TT--AAT-A--TT-GAGAGAA-GT-AAC-A-TG-T
*
43407693 GTAATTATAATGGACAAGTAAGCTACATATATGGTAATAAAATTAATTCATACTTATTCATACTT
509 G------TAATGGACAAGCAAGCTACATATATGGTAATAAAATTAATTCATACTTATTCATACTT
43407758 CAAATAATTAATACTATAAGATCAGGTTTCCAACCTATATATATACTTTGAATCTTTAAAATATT
568 CAAATAATTAATACTATAAGATCAGGTTTCCAACCTATATATATACTTTGAATCTTTAAAATATT
43407823 TAAAA
633 TAAAA
43407828 CGTACCTTAA
Statistics
Matches: 618, Mismatches: 5, Indels: 32
0.94 0.01 0.05
Matches are distributed among these distances:
724 474 0.77
725 3 0.00
726 1 0.00
728 1 0.00
731 2 0.00
735 2 0.00
737 1 0.00
738 1 0.00
739 2 0.00
741 1 0.00
743 1 0.00
745 1 0.00
747 1 0.00
749 1 0.00
756 126 0.20
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.35
Consensus pattern (738 bp):
TATATACTTTGAATCTTTAAAATATTTAAAATAAGGAATGGACAAGCAAGCTACATATATGGTAA
TAAAATTAATTCATACTTAAGTTGAATCAAATAATACTTAAGTTGAACCAAAATATAAAAACTTA
TTCATACTTCAAATAATAATTAATAATACTATTTTGATAAAAACTAGTTATAAATTTTAAAGACA
TTTAAAAATAATAAATATTAAAATCATACATGTTTAATATAACAAAATAGTAATTTGAATATAAT
AATATCAAGAAAGAATCGTAGTTTAATTTTTATAAGTAAACTGGAAATAAATTAAAGTTATATAA
ATATTCAATAGCGATAGAACTTTTTTCAATTCTTTTTGAATTTTTTAAGATTCATCATACGTGGC
GTTGTTACACCTACGGAGGATCCATTATATCTTGCAACTCGATATAAGGCAACCCGTCAGGTTTC
CAGCCTATATACTTTGAATCTTTAAAATATTAATATTGAGAGAAGTAACATGTGTAATGGACAAG
CAAGCTACATATATGGTAATAAAATTAATTCATACTTATTCATACTTCAAATAATTAATACTATA
AGATCAGGTTTCCAACCTATATATATACTTTGAATCTTTAAAATATTTAAAATAAGGAATGGACA
AGCAAGCTACATATATGGTAATAAAATTAATTCATACTTATTCATACTTCAAATAATTAATACTA
TAAGATCAGGTTTCCAACCTATA
Found at i:43410067 original size:51 final size:51
Alignment explanation
Indices: 43409962--43410067 Score: 126
Period size: 51 Copynumber: 2.1 Consensus size: 51
43409952 AATAAGCTTA
** * * **
43409962 AAAATTTAGGAATGTAATTAAAATGTTAATTAAATGTTAGGAAAAACATTG
1 AAAATTTAGGAATGTAATTAAAATGTTAATTAAACATTAGAAAAAAAAAGG
43410013 AAAATTTAGGAATGTAATT-AAATGTTAATTAAACATT-GAAAACATAAAAGG
1 AAAATTTAGGAATGTAATTAAAATGTTAATTAAACATTAGAAAA-A-AAAAGG
43410064 AAAA
1 AAAA
43410068 ACATGTTGAA
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
49 4 0.09
50 17 0.36
51 26 0.55
ACGTcount: A:0.53, C:0.03, G:0.14, T:0.30
Consensus pattern (51 bp):
AAAATTTAGGAATGTAATTAAAATGTTAATTAAACATTAGAAAAAAAAAGG
Found at i:43412787 original size:10 final size:11
Alignment explanation
Indices: 43412766--43412816 Score: 57
Period size: 12 Copynumber: 4.3 Consensus size: 11
43412756 ACTAAACCAC
43412766 TTTTCATATATA
1 TTTT-ATATATA
43412778 TATTTATATATA
1 T-TTTATATATA
*
43412790 TTTTAAAATAATA
1 TTTT-ATAT-ATA
43412803 TTTTATATATA
1 TTTTATATATA
43412814 TTT
1 TTT
43412817 ATCTTATATA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
11 9 0.26
12 15 0.44
13 10 0.29
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (11 bp):
TTTTATATATA
Found at i:43412825 original size:15 final size:15
Alignment explanation
Indices: 43412805--43412836 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
43412795 AAATAATATT
*
43412805 TTATATATATTTATC
1 TTATATACATTTATC
43412820 TTATATACATTTATC
1 TTATATACATTTATC
43412835 TT
1 TT
43412837 CTAAATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.09, G:0.00, T:0.59
Consensus pattern (15 bp):
TTATATACATTTATC
Found at i:43413706 original size:14 final size:14
Alignment explanation
Indices: 43413687--43413728 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
43413677 TAATTAAACC
*
43413687 ATCTTAAACCATAT
1 ATCTTAAACCATAA
43413701 ATCTTAAACCATAA
1 ATCTTAAACCATAA
* *
43413715 ACCTTAAACTATAA
1 ATCTTAAACCATAA
43413729 TGATAATTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.48, C:0.21, G:0.00, T:0.31
Consensus pattern (14 bp):
ATCTTAAACCATAA
Found at i:43413943 original size:41 final size:41
Alignment explanation
Indices: 43413886--43414005 Score: 222
Period size: 41 Copynumber: 2.9 Consensus size: 41
43413876 GGGGTTGTGG
*
43413886 GGTTTTTAGCGGCGTTTTCCCTAAAGCGTCGCTAATGCCCT
1 GGTTTTTAGCGGCGTTTTCCCTAAAGCGCCGCTAATGCCCT
*
43413927 GGTTTTTAGCAGCGTTTTCCCTAAAGCGCCGCTAATGCCCT
1 GGTTTTTAGCGGCGTTTTCCCTAAAGCGCCGCTAATGCCCT
43413968 GGTTTTTAGCGGCGTTTTCCCTAAAGCGCCGCTAATGC
1 GGTTTTTAGCGGCGTTTTCCCTAAAGCGCCGCTAATGC
43414006 TCTATTTTTA
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 76 1.00
ACGTcount: A:0.16, C:0.28, G:0.24, T:0.33
Consensus pattern (41 bp):
GGTTTTTAGCGGCGTTTTCCCTAAAGCGCCGCTAATGCCCT
Found at i:43415499 original size:128 final size:128
Alignment explanation
Indices: 43415270--43415517 Score: 397
Period size: 128 Copynumber: 1.9 Consensus size: 128
43415260 TTATTGGAAA
*
43415270 AAAGCGCCGCTAAAGGTCAAGGCTTTTCGCGACGTTTGTGGGAAAAGCGCCGCTAAAGGTCAAGT
1 AAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGACGTTTGTGGGAAAAGCGCCGCTAAAGGTCAAGT
* *
43415335 CTTTTAACGGCGGTTGTGGGAAAAGCACCGCAAAAGGTCAAGGTTTTTAGCGGCGTTTGTGGG
66 CTTTTAACGGCAGTTGTGGGAAAAGCACCGCAAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
* * *
43415398 AAAGCGCCGCTAAAGGTCAAGGTTTTTAGCGGCGTTTGTGGGTAAAGCGCCGCTAAAGGTCAAGT
1 AAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGACGTTTGTGGGAAAAGCGCCGCTAAAGGTCAAGT
* * * * *
43415463 CTTTTAGCTGCATTTGTGGGAAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCG
66 CTTTTAACGGCAGTTGTGGGAAAAGCACCGCAAAAGGTCAAGGCTTTTAGCGGCG
43415518 CTTTTCCCAC
Statistics
Matches: 109, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
128 109 1.00
ACGTcount: A:0.25, C:0.19, G:0.32, T:0.24
Consensus pattern (128 bp):
AAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGACGTTTGTGGGAAAAGCGCCGCTAAAGGTCAAGT
CTTTTAACGGCAGTTGTGGGAAAAGCACCGCAAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
Found at i:43415540 original size:43 final size:43
Alignment explanation
Indices: 43415269--43415517 Score: 374
Period size: 43 Copynumber: 5.8 Consensus size: 43
43415259 TTTATTGGAA
* *
43415269 AAAAGCGCCGCTAAAGGTCAAGGCTTTTCGCGACGTTTGTGGG
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
* * *
43415312 AAAAGCGCCGCTAAAGGTCAAGTCTTTTAACGGCGGTTGTGGG
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
* * *
43415355 AAAAGCACCGCAAAAGGTCAAGGTTTTTAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
*
43415398 -AAAGCGCCGCTAAAGGTCAAGGTTTTTAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
* * * *
43415440 TAAAGCGCCGCTAAAGGTCAAGTCTTTTAGCTGCATTTGTGGG
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
43415483 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCG
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCG
43415518 CTTTTCCCAC
Statistics
Matches: 184, Mismatches: 21, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
42 40 0.22
43 144 0.78
ACGTcount: A:0.25, C:0.19, G:0.32, T:0.24
Consensus pattern (43 bp):
AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
Found at i:43421558 original size:9 final size:9
Alignment explanation
Indices: 43421544--43421671 Score: 121
Period size: 9 Copynumber: 13.6 Consensus size: 9
43421534 ATGTATTAGT
43421544 TAAGTTATG
1 TAAGTTATG
43421553 TAAGTTGTTATG
1 TAA---GTTATG
*
43421565 TACGTTATG
1 TAAGTTATG
*
43421574 TGAGTTATG
1 TAAGTTATG
*
43421583 TAAATTATG
1 TAAGTTATG
43421592 TAAGTTATG
1 TAAGTTATG
*
43421601 TGAGTTATG
1 TAAGTTATG
43421610 TAAGTGGTTATG
1 TAA---GTTATG
*
43421622 TAAATTATG
1 TAAGTTATG
*
43421631 TAAGTTATA
1 TAAGTTATG
*
43421640 TGAGTTATG
1 TAAGTTATG
43421649 TAAGTTATG
1 TAAGTTATG
* *
43421658 TAATTTATT
1 TAAGTTATG
43421667 TAAGT
1 TAAGT
43421672 AATGATCAAT
Statistics
Matches: 96, Mismatches: 17, Indels: 12
0.77 0.14 0.10
Matches are distributed among these distances:
9 79 0.82
12 17 0.18
ACGTcount: A:0.31, C:0.01, G:0.22, T:0.46
Consensus pattern (9 bp):
TAAGTTATG
Found at i:43421671 original size:57 final size:57
Alignment explanation
Indices: 43421544--43421671 Score: 166
Period size: 57 Copynumber: 2.2 Consensus size: 57
43421534 ATGTATTAGT
* ** * *
43421544 TAAGTTATGTAAGTTGTTATGTACGTTATGTGAGTTATGTAAATTATGTAAGTTATG
1 TAAGTTATGTAAGTGGTTATGTAAATTATGTAAGTTATATAAATTATGTAAGTTATG
* * *
43421601 TGAGTTATGTAAGTGGTTATGTAAATTATGTAAGTTATATGAGTTATGTAAGTTATG
1 TAAGTTATGTAAGTGGTTATGTAAATTATGTAAGTTATATAAATTATGTAAGTTATG
* *
43421658 TAATTTATTTAAGT
1 TAAGTTATGTAAGT
43421672 AATGATCAAT
Statistics
Matches: 60, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
57 60 1.00
ACGTcount: A:0.31, C:0.01, G:0.22, T:0.46
Consensus pattern (57 bp):
TAAGTTATGTAAGTGGTTATGTAAATTATGTAAGTTATATAAATTATGTAAGTTATG
Found at i:43422376 original size:23 final size:23
Alignment explanation
Indices: 43422350--43422399 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
43422340 GTTCAAGTTT
43422350 ATTTAAAGGGCTGCAATTCATAC
1 ATTTAAAGGGCTGCAATTCATAC
43422373 ATTTAAAGGGCTGCAATTCATAC
1 ATTTAAAGGGCTGCAATTCATAC
43422396 ATTT
1 ATTT
43422400 GATTAATGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (23 bp):
ATTTAAAGGGCTGCAATTCATAC
Found at i:43424913 original size:14 final size:15
Alignment explanation
Indices: 43424889--43424918 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
43424879 CACAAACTTC
43424889 AGAATTTATGTATTT
1 AGAATTTATGTATTT
43424904 AGAA-TTATGTATTT
1 AGAATTTATGTATTT
43424918 A
1 A
43424919 TATAAACACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.37, C:0.00, G:0.13, T:0.50
Consensus pattern (15 bp):
AGAATTTATGTATTT
Found at i:43425366 original size:122 final size:122
Alignment explanation
Indices: 43425211--43425454 Score: 461
Period size: 122 Copynumber: 2.0 Consensus size: 122
43425201 AATCTGAAGC
*
43425211 AGAAAAGAAATATGCTTTTCCGTTGAACTCAAAAATTATCGAGGAGATGAGCAGAGAAGAACTTA
1 AGAAAAGAAATATGCTTTTCCGTTGAACCCAAAAATTATCGAGGAGATGAGCAGAGAAGAACTTA
*
43425276 CTGGTGTAAACGAAAATGGCAAAAGGGATAGTTAGAAACCTAAATCCAACACCTACA
66 CAGGTGTAAACGAAAATGGCAAAAGGGATAGTTAGAAACCTAAATCCAACACCTACA
43425333 AGAAAAGAAATATGCTTTTCCGTTGAACCCAAAAATTATCGAGGAGATGAGCAGAGAAGAACTTA
1 AGAAAAGAAATATGCTTTTCCGTTGAACCCAAAAATTATCGAGGAGATGAGCAGAGAAGAACTTA
*
43425398 CAGGTGTAAACGAAAATGGCAAAAGGGATAGTTAGAAACCTAAATCCAACGCCTACA
66 CAGGTGTAAACGAAAATGGCAAAAGGGATAGTTAGAAACCTAAATCCAACACCTACA
43425455 GGACACCTGA
Statistics
Matches: 119, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
122 119 1.00
ACGTcount: A:0.43, C:0.16, G:0.21, T:0.20
Consensus pattern (122 bp):
AGAAAAGAAATATGCTTTTCCGTTGAACCCAAAAATTATCGAGGAGATGAGCAGAGAAGAACTTA
CAGGTGTAAACGAAAATGGCAAAAGGGATAGTTAGAAACCTAAATCCAACACCTACA
Found at i:43427399 original size:41 final size:40
Alignment explanation
Indices: 43427354--43427613 Score: 193
Period size: 41 Copynumber: 6.6 Consensus size: 40
43427344 AACTTTTTGC
*
43427354 GGCGTTTGGACCAAAAACGCCGCTATTAATCAGTTTTTAGT
1 GGCGTTTGGA-CAAAAACGCCGCTATTGATCAGTTTTTAGT
* * * * *
43427395 GGCGTTTTGGATAAAAACACCACAATTGATCAGTTTTTTGT
1 GGCG-TTTGGACAAAAACGCCGCTATTGATCAGTTTTTAGT
43427436 GGCGTTTGGGACAAAAACGCCGC-----A--A---TTTAGT
1 GGCGTTT-GGACAAAAACGCCGCTATTGATCAGTTTTTAGT
** *
43427467 GGCGTTTGAGATTAAAACGCCGCTATTGATCAGCTTTTAGT
1 GGCGTTTG-GACAAAAACGCCGCTATTGATCAGTTTTTAGT
* * * *
43427508 AGCGTTTTGAGAAAAACGCCGCTATTGACCAGTTTTTAGT
1 GGCGTTTGGACAAAAACGCCGCTATTGATCAGTTTTTAGT
* * * * * *
43427548 GGCGTTTTTGCCAAAAAAACGCCGCTATAGTTTAGCTTTTAGT
1 GGCG--TTTG-GACAAAAACGCCGCTATTGATCAGTTTTTAGT
43427591 GGCGTTTCGGAC--AAACGCCGCTA
1 GGCGTTT-GGACAAAAACGCCGCTA
43427614 ATGTATATTA
Statistics
Matches: 173, Mismatches: 29, Indels: 36
0.73 0.12 0.15
Matches are distributed among these distances:
30 1 0.01
31 24 0.14
34 1 0.01
36 2 0.01
38 1 0.01
39 11 0.06
40 34 0.20
41 60 0.35
42 10 0.06
43 29 0.17
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (40 bp):
GGCGTTTGGACAAAAACGCCGCTATTGATCAGTTTTTAGT
Found at i:43427484 original size:72 final size:71
Alignment explanation
Indices: 43427389--43427529 Score: 176
Period size: 72 Copynumber: 2.0 Consensus size: 71
43427379 TTAATCAGTT
* * *
43427389 TTTAGTGGCGTTTTGGATAAAAACACCACAATTGATCAGTTTTTTGTGGCGTTTGGGACAAAAAC
1 TTTAGTGGCGTTTTGGATAAAAACACCACAATTGATCAGCTTTTAGTAGCGTTT-GGACAAAAAC
43427454 GCCGCAA
65 GCCGCAA
* * * * * *
43427461 TTTAGTGGCG-TTTGAGATTAAAACGCCGCTATTGATCAGCTTTTAGTAGCGTTTTGAGAAAAAC
1 TTTAGTGGCGTTTTG-GATAAAAACACCACAATTGATCAGCTTTTAGTAGCGTTTGGACAAAAAC
43427525 GCCGC
65 GCCGC
43427530 TATTGACCAG
Statistics
Matches: 59, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
71 17 0.29
72 42 0.71
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (71 bp):
TTTAGTGGCGTTTTGGATAAAAACACCACAATTGATCAGCTTTTAGTAGCGTTTGGACAAAAACG
CCGCAA
Found at i:43427531 original size:40 final size:40
Alignment explanation
Indices: 43427461--43427613 Score: 166
Period size: 40 Copynumber: 3.8 Consensus size: 40
43427451 AACGCCGCAA
43427461 TTTAGTGGCG-TTTGAGATTAAAACGCCGCTATTGATCAGCT
1 TTTAGTGGCGTTTTGAGA--AAAACGCCGCTATTGATCAGCT
* * *
43427502 TTTAGTAGCGTTTTGAGAAAAACGCCGCTATTGACCAGTT
1 TTTAGTGGCGTTTTGAGAAAAACGCCGCTATTGATCAGCT
* * * *
43427542 TTTAGTGGCGTTTTTGCCAAAAAAACGCCGCTATAGTTTAGCT
1 TTTAGTGGCG-TTTTG--AGAAAAACGCCGCTATTGATCAGCT
* *
43427585 TTTAGTGGCGTTTCG-GACAAACGCCGCTA
1 TTTAGTGGCGTTTTGAGAAAAACGCCGCTA
43427614 ATGTATATTA
Statistics
Matches: 95, Mismatches: 13, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
39 12 0.13
40 29 0.31
41 14 0.15
42 11 0.12
43 29 0.31
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.33
Consensus pattern (40 bp):
TTTAGTGGCGTTTTGAGAAAAACGCCGCTATTGATCAGCT
Found at i:43427565 original size:113 final size:114
Alignment explanation
Indices: 43427367--43427572 Score: 281
Period size: 112 Copynumber: 1.8 Consensus size: 114
43427357 GTTTGGACCA
* * * *
43427367 AAAACGCCGCTATTAATCAGTTTTTAGTGGCGTTTTGGATAAAAACACCACAATTGATCAGTTTT
1 AAAACGCCGCTATTAATCAGCTTTTAGTAGCGTTTTGGAGAAAAACACCACAATTGACCAGTTTT
*
43427432 TTGTGGCGTTTGGGAC-AAAAACGCCGCAATTTAGTGGCGTTTGAGATT
66 TAGTGGCGTTTGGGACAAAAAACGCCGCAATTTAGTGGCGTTTGAGATT
* * * *
43427480 AAAACGCCGCTATTGATCAGCTTTTAGTAGCGTTTT-GAGAAAAACGCCGCTATTGACCAGTTTT
1 AAAACGCCGCTATTAATCAGCTTTTAGTAGCGTTTTGGAGAAAAACACCACAATTGACCAGTTTT
** *
43427544 TAGTGGCGTTTTTGCCAAAAAAACGCCGC
66 TAGTGGCGTTTGGGAC-AAAAAACGCCGC
43427573 TATAGTTTAG
Statistics
Matches: 79, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
112 35 0.44
113 33 0.42
114 11 0.14
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.31
Consensus pattern (114 bp):
AAAACGCCGCTATTAATCAGCTTTTAGTAGCGTTTTGGAGAAAAACACCACAATTGACCAGTTTT
TAGTGGCGTTTGGGACAAAAAACGCCGCAATTTAGTGGCGTTTGAGATT
Found at i:43427840 original size:43 final size:42
Alignment explanation
Indices: 43427763--43427844 Score: 103
Period size: 43 Copynumber: 1.9 Consensus size: 42
43427753 TACAATAATA
* * *
43427763 TTTCATGCAAATATAACTTAAAATAACAACATAAATAATCAAT
1 TTTCATGCAAATATAAC-AAAAATAAAAAAATAAATAATCAAT
43427806 TTTCATGCAAATATAA-AAAACATAAAAATAATAAATAAT
1 TTTCATGCAAATATAACAAAA-ATAAAAA-AATAAATAAT
43427845 TTATGAAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
41 3 0.09
42 6 0.18
43 25 0.74
ACGTcount: A:0.57, C:0.11, G:0.02, T:0.29
Consensus pattern (42 bp):
TTTCATGCAAATATAACAAAAATAAAAAAATAAATAATCAAT
Found at i:43428222 original size:7 final size:7
Alignment explanation
Indices: 43428210--43428351 Score: 60
Period size: 7 Copynumber: 19.1 Consensus size: 7
43428200 AATTATACAT
43428210 AATAATA
1 AATAATA
43428217 AATAATA
1 AATAATA
43428224 AATAATTA
1 AATAA-TA
* *
43428232 TATAATG
1 AATAATA
*
43428239 TATAATA
1 AATAATA
43428246 GAATAA-A
1 -AATAATA
43428253 AATAATA
1 AATAATA
43428260 TATATAATAA
1 -A-ATAAT-A
*
43428270 AATGTATA
1 AAT-AATA
43428278 AATCAAAATA
1 AAT---AATA
*
43428288 TATAATA
1 AATAATA
*
43428295 AA-ATGTA
1 AATA-ATA
43428302 AATAATA
1 AATAATA
43428309 TAATAA-A
1 -AATAATA
*
43428316 CAATACACA
1 -AATA-ATA
43428325 AATAA-A
1 AATAATA
43428331 AATAA-A
1 AATAATA
43428337 AATAATA
1 AATAATA
*
43428344 TATAATA
1 AATAATA
43428351 A
1 A
43428352 CCATTTTTAC
Statistics
Matches: 106, Mismatches: 14, Indels: 30
0.71 0.09 0.20
Matches are distributed among these distances:
6 18 0.17
7 45 0.42
8 28 0.26
9 9 0.08
10 6 0.06
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.30
Consensus pattern (7 bp):
AATAATA
Found at i:43428264 original size:30 final size:29
Alignment explanation
Indices: 43428211--43428267 Score: 89
Period size: 29 Copynumber: 1.9 Consensus size: 29
43428201 ATTATACATA
43428211 ATAATAAATAATAAATAATTATATAATGT
1 ATAATAAATAATAAATAATTATATAATGT
43428240 ATAATAGAATAA-AAATAATATATATAAT
1 ATAATA-AATAATAAATAAT-TATATAAT
43428268 AAAATGTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
29 13 0.50
30 13 0.50
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (29 bp):
ATAATAAATAATAAATAATTATATAATGT
Found at i:43428313 original size:26 final size:25
Alignment explanation
Indices: 43428231--43428313 Score: 82
Period size: 26 Copynumber: 3.3 Consensus size: 25
43428221 ATAAATAATT
* *
43428231 ATATAATGTATAATAGAA--TAAAA
1 ATATAATATATAATAAAATGTAAAA
*
43428254 ATA-ATATATATAATAAAATGTATAA
1 ATATA-ATATATAATAAAATGTAAAA
*
43428279 ATCAAAATATATAATAAAATGTAAATA
1 AT-ATAATATATAATAAAATGTAAA-A
43428306 ATATAATA
1 ATATAATA
43428314 AACAATACAC
Statistics
Matches: 49, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
22 1 0.02
23 14 0.29
25 6 0.12
26 24 0.49
27 4 0.08
ACGTcount: A:0.61, C:0.01, G:0.05, T:0.33
Consensus pattern (25 bp):
ATATAATATATAATAAAATGTAAAA
Found at i:43428320 original size:26 final size:26
Alignment explanation
Indices: 43428265--43428320 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
43428255 TAATATATAT
* * *
43428265 AATAAAATGTATAAATCAAAATATAT
1 AATAAAATGTAAAAATCAAAATAAAC
*
43428291 AATAAAATGTAAATAAT-ATAATAAAC
1 AATAAAATGTAAA-AATCAAAATAAAC
43428317 AATA
1 AATA
43428321 CACAAATAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
26 22 0.88
27 3 0.12
ACGTcount: A:0.64, C:0.04, G:0.04, T:0.29
Consensus pattern (26 bp):
AATAAAATGTAAAAATCAAAATAAAC
Found at i:43428422 original size:25 final size:24
Alignment explanation
Indices: 43428377--43428441 Score: 64
Period size: 25 Copynumber: 2.7 Consensus size: 24
43428367 TAAATAATGT
43428377 TTATAGTAAAAA-T-AAATAAT-AA
1 TTATA-TAAAAATTAAAATAATAAA
* *
43428399 TATATATAATATTTAAAATAAATAAA
1 T-TATATAAAAATTAAAAT-AATAAA
43428425 TTATATAAAAATTAAAA
1 TTATATAAAAATTAAAA
43428442 AAGATTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
22 5 0.15
23 5 0.15
24 4 0.12
25 17 0.50
26 3 0.09
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (24 bp):
TTATATAAAAATTAAAATAATAAA
Found at i:43430928 original size:13 final size:13
Alignment explanation
Indices: 43430910--43430936 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
43430900 TGGGGAAAAG
43430910 CAACAATAAAATC
1 CAACAATAAAATC
43430923 CAACAATAAAATC
1 CAACAATAAAATC
43430936 C
1 C
43430937 TTAGCAAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.59, C:0.26, G:0.00, T:0.15
Consensus pattern (13 bp):
CAACAATAAAATC
Found at i:43435334 original size:30 final size:31
Alignment explanation
Indices: 43435299--43435364 Score: 116
Period size: 30 Copynumber: 2.2 Consensus size: 31
43435289 AAATAAAATG
43435299 CTCTTACTTTTGTAATCTATTACAAATCAAA
1 CTCTTACTTTTGTAATCTATTACAAATCAAA
*
43435330 -TCTTACTTTTGTTATCTATTACAAATCAAA
1 CTCTTACTTTTGTAATCTATTACAAATCAAA
43435360 CTCTT
1 CTCTT
43435365 TTATGAAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
30 29 0.88
31 4 0.12
ACGTcount: A:0.32, C:0.20, G:0.03, T:0.45
Consensus pattern (31 bp):
CTCTTACTTTTGTAATCTATTACAAATCAAA
Found at i:43436843 original size:617 final size:619
Alignment explanation
Indices: 43435330--43436945 Score: 2336
Period size: 626 Copynumber: 2.6 Consensus size: 619
43435320 ACAAATCAAA
*
43435330 TCTTACTTTTGTTATCTATTACAAATCAAACTCTTTTATGAAA-AAAATACTTT-AA--AAAGAA
1 TCTTACTTTTGTTATCTATTACAAATCAAACTCTTATAT-AAAGAAAATACTTTAAACTAAAGAA
* * ** ** * * * *
43435391 A-CAAAGAAAATTTAATACCTTCTA-AGTTATTCCATGCCAAATCTAA-TCTTTCGAGTTGTGTC
65 ACCAAAG-AAATTCAGTACCTTCTAGA-TTATTAAACCCCAAATATAATTC-TTCAAGTAGAGTC
* * * *
43435453 AGATTTCCAATACTTCTTGGAATGATCCCCGTAAATTGATTCA-CGGACAATGCCAACA-TTTTA
127 ATATTTCCAATACTTCTTGGAATGATTCCCGTAAATTGATT-ATAGGACAATGACAA-ATTTTTA
* * ** * * *
43435516 AGGTTGTTGCATTTGTCCATACTTAACGGAATGTTACCAGATAATTCATTTCTA-TGCAAGTAAA
190 AGGTTGTTGCATTTGCCCATGCCAAATGGAATGTTACCAGATAATTCATTCCAACT-CAAGTAAA
*
43435580 GCACTTCAAGCTTGGGAAGATGTTGACACATATCACTAGGCAAACTACCTGATAGGCTATTGTTG
254 GCCCTTCAAGCTTGGGAAGATGTTGACACATATCACTAGGCAAACTACCTGATAGGCTATTGTTG
* * *
43435645 GAGAGATCAATAGTC-TCTAGAGAAGAAATGTTGAAGATCGAAGTTGGTATCTGACCTGTAAGGC
319 GAGAGATCAATAGTCTTC-AAAGAAGAAATGTTGAAGATCGAAG-TGGAATCTGACCAGTAAGGC
* *
43435709 CTTTAATTGCTTTAATATTAAGCATTTCCAAACCAAGAAGATTACCGATTTCCTTAGGAATTTGA
382 CTTTAATTGCTTTAATATTAAGCAGTTCCAAACCAAGAAGATTACCGATTTCCTCAGGAATTTGA
* *
43435774 CCTGCACACATAGTCGAGAAATCAAGGTGTCAAACTACCTATTTTGTTAGCATAAGTCAAAGAGG
447 CCTACACACATAGTCGAAAAATCAAGGTGTCAAACTACCTATTTTGTTAGCATAAGTCAAAGAGG
* * * *
43435839 TTTTCTTTTCTGTTCTACGTAATTTGCAGATGTTAGATTTTAATATTTTTAATCATATTTGTTTT
512 TTTTCTTTTCTGTTCTACATAATTTGCAGATGTTAGACTTTAATATATTTAAGCATATTTGTTTT
** *
43435904 CATCAATTTAACTATTTTGAACTATTTTGCCTTGAATAAAATAAAATGC
577 CATCAA--TAACTA--TT--ACTATTTTGCCTCCAATAAAATAAAAAGC
* *
43435953 TCTTACTTTTGTTATCTATTACAAATCAAACACTTATATAAAGAAAATACTTTAAACTAAAAAAA
1 TCTTACTTTTGTTATCTATTACAAATCAAACTCTTATATAAAGAAAATACTTTAAACTAAAGAAA
43436018 CCAAAGAAATTCAGTACCTTCTAGATTATTAAACCCCAAATATAATTCTTCAAGTAGAGTCATAT
66 CCAAAGAAATTCAGTACCTTCTAGATTATTAAACCCCAAATATAATTCTTCAAGTAGAGTCATAT
* * *
43436083 TTCCAATACTTCTTGGAATGATTCCCATAAATTGATTATAGGACAACGACAAATCTTTAAGGTTG
131 TTCCAATACTTCTTGGAATGATTCCCGTAAATTGATTATAGGACAATGACAAATTTTTAAGGTTG
*
43436148 TTGCATTTGCCCATGCCAAATGGAATGCTACCAGATAATTCATTCCAACTCAAGTAAAGCCCTTC
196 TTGCATTTGCCCATGCCAAATGGAATGTTACCAGATAATTCATTCCAACTCAAGTAAAGCCCTTC
43436213 AAGCTTGGGAAGATGTTGACACATATCACTAGGCAAACTACCTGATAGGCTATTGTTGGAGAGAT
261 AAGCTTGGGAAGATGTTGACACATATCACTAGGCAAACTACCTGATAGGCTATTGTTGGAGAGAT
*
43436278 CAATAGTCTTCAAAGAAGTAATGTTGAAGATCGAAGTCGGAATCTGACCAGTAAGGCCTTTAATT
326 CAATAGTCTTCAAAGAAGAAATGTTGAAGATCGAAGT-GGAATCTGACCAGTAAGGCCTTTAATT
*
43436343 GCTTTAATATTAAGCAGTTCCAAACCAAGAAGATTACCGATTTCCTCAGGAATTTGACCTACAGA
390 GCTTTAATATTAAGCAGTTCCAAACCAAGAAGATTACCGATTTCCTCAGGAATTTGACCTACACA
* *
43436408 CATAGTCGAAAAATCAATGTGTTAAACTACCTACTTTT-TTAGCATAAGTCAAAGAGGTTTTCTT
455 CATAGTCGAAAAATCAAGGTGTCAAACTACCTA-TTTTGTTAGCATAAGTCAAAGAGGTTTTCTT
* *
43436472 TTCTGTTCTACAATAATTTGGAGATGTTAGACTTTAATATATTTCAGCAT-TTAT-TTTTCATC-
519 TTCTGTTCTAC-ATAATTTGCAGATGTTAGACTTTAATATATTTAAGCATATT-TGTTTTCATCA
* * * *
43436534 A-AAGTA-T-CTATTTTTCCTCCAATGAAATAAAAAGT
582 ATAACTATTACTATTTTGCCTCCAATAAAATAAAAAGC
*
43436569 TCTTAGTTTTTGTTATCTATTACAAATCAAACTCTTATATAAAGAAAATACTTTAAACTAAAGAA
1 TCTTA-CTTTTGTTATCTATTACAAATCAAACTCTTATATAAAGAAAATACTTTAAACTAAAGAA
43436634 ACCAAAGAAATTCAGTACCTTCTAGATTATTAAACCCCAAATATAATTCTTCAAGTAGAGTCATA
65 ACCAAAGAAATTCAGTACCTTCTAGATTATTAAACCCCAAATATAATTCTTCAAGTAGAGTCATA
*
43436699 TTTCCAATACTTCTTGGAATGATTCCCGTAAATTGATTATAAGACAATGACAAATTTTTAAGGTT
130 TTTCCAATACTTCTTGGAATGATTCCCGTAAATTGATTATAGGACAATGACAAATTTTTAAGGTT
*
43436764 GTTGCATTTGCCCATGCCAAATGTAATGTTACCAGATAATTCATTCCAACTCAAGTAAAGCCCTT
195 GTTGCATTTGCCCATGCCAAATGGAATGTTACCAGATAATTCATTCCAACTCAAGTAAAGCCCTT
* *
43436829 CAAGCTTGGGAAGATGTTGACACATATCATTAGGCAAACTACCTGATAGGCTATTGCTGGAGAGA
260 CAAGCTTGGGAAGATGTTGACACATATCACTAGGCAAACTACCTGATAGGCTATTGTTGGAGAGA
* * *
43436894 -CTAATAG-CTTTCAAAGAAGAAATCTTGAAGATGGAAGATGGAACCTGACCAG
325 TC-AATAGTC-TTCAAAGAAGAAATGTTGAAGATCGAAG-TGGAATCTGACCAG
43436946 ATAATTGATT
Statistics
Matches: 906, Mismatches: 68, Indels: 44
0.89 0.07 0.04
Matches are distributed among these distances:
616 29 0.03
617 350 0.39
618 1 0.00
619 1 0.00
622 7 0.01
623 47 0.05
624 2 0.00
625 4 0.00
626 417 0.46
627 48 0.05
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (619 bp):
TCTTACTTTTGTTATCTATTACAAATCAAACTCTTATATAAAGAAAATACTTTAAACTAAAGAAA
CCAAAGAAATTCAGTACCTTCTAGATTATTAAACCCCAAATATAATTCTTCAAGTAGAGTCATAT
TTCCAATACTTCTTGGAATGATTCCCGTAAATTGATTATAGGACAATGACAAATTTTTAAGGTTG
TTGCATTTGCCCATGCCAAATGGAATGTTACCAGATAATTCATTCCAACTCAAGTAAAGCCCTTC
AAGCTTGGGAAGATGTTGACACATATCACTAGGCAAACTACCTGATAGGCTATTGTTGGAGAGAT
CAATAGTCTTCAAAGAAGAAATGTTGAAGATCGAAGTGGAATCTGACCAGTAAGGCCTTTAATTG
CTTTAATATTAAGCAGTTCCAAACCAAGAAGATTACCGATTTCCTCAGGAATTTGACCTACACAC
ATAGTCGAAAAATCAAGGTGTCAAACTACCTATTTTGTTAGCATAAGTCAAAGAGGTTTTCTTTT
CTGTTCTACATAATTTGCAGATGTTAGACTTTAATATATTTAAGCATATTTGTTTTCATCAATAA
CTATTACTATTTTGCCTCCAATAAAATAAAAAGC
Found at i:43438672 original size:18 final size:18
Alignment explanation
Indices: 43438649--43438712 Score: 78
Period size: 18 Copynumber: 3.6 Consensus size: 18
43438639 ATACCAAAAA
43438649 TTATTTCACTAAGAAATT
1 TTATTTCACTAAGAAATT
*
43438667 TTATTTCACTCGAA-AAA-A
1 TTATTTCACT--AAGAAATT
*
43438685 TTATTTCACAAAGAAATT
1 TTATTTCACTAAGAAATT
43438703 TTATTTCACT
1 TTATTTCACT
43438713 CGAAAAGTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
16 2 0.05
17 3 0.08
18 28 0.74
19 3 0.08
20 2 0.05
ACGTcount: A:0.39, C:0.14, G:0.05, T:0.42
Consensus pattern (18 bp):
TTATTTCACTAAGAAATT
Found at i:43438685 original size:36 final size:36
Alignment explanation
Indices: 43438644--43438718 Score: 141
Period size: 36 Copynumber: 2.1 Consensus size: 36
43438634 AAAAGATACC
*
43438644 AAAAATTATTTCACTAAGAAATTTTATTTCACTCGA
1 AAAAATTATTTCACAAAGAAATTTTATTTCACTCGA
43438680 AAAAATTATTTCACAAAGAAATTTTATTTCACTCGA
1 AAAAATTATTTCACAAAGAAATTTTATTTCACTCGA
43438716 AAA
1 AAA
43438719 GTTAATGTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.45, C:0.13, G:0.05, T:0.36
Consensus pattern (36 bp):
AAAAATTATTTCACAAAGAAATTTTATTTCACTCGA
Found at i:43439289 original size:16 final size:17
Alignment explanation
Indices: 43439268--43439308 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
43439258 TGAATTTCCC
*
43439268 TTTAAAAA-TATATATT
1 TTTAAAAATTAAATATT
43439284 TTTAAAAATTAAATATT
1 TTTAAAAATTAAATATT
43439301 TTATAAAA
1 TT-TAAAA
43439309 TATTTAAAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 8 0.36
17 9 0.41
18 5 0.23
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
TTTAAAAATTAAATATT
Found at i:43443000 original size:13 final size:13
Alignment explanation
Indices: 43442982--43443015 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
43442972 ATGCCTTTTT
43442982 GAAAATTTCATTC
1 GAAAATTTCATTC
*
43442995 GAAAATTTCGTTC
1 GAAAATTTCATTC
*
43443008 AAAAATTT
1 GAAAATTT
43443016 TGACGTTTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.41, C:0.12, G:0.09, T:0.38
Consensus pattern (13 bp):
GAAAATTTCATTC
Found at i:43444105 original size:17 final size:17
Alignment explanation
Indices: 43444083--43444117 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
43444073 TGTCACTAGG
43444083 GTCATTATGAGTATTGT
1 GTCATTATGAGTATTGT
43444100 GTCATTATGAGTATTGT
1 GTCATTATGAGTATTGT
43444117 G
1 G
43444118 ATTATGTGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.23, C:0.06, G:0.26, T:0.46
Consensus pattern (17 bp):
GTCATTATGAGTATTGT
Found at i:43444123 original size:15 final size:16
Alignment explanation
Indices: 43444085--43444123 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 16
43444075 TCACTAGGGT
43444085 CATTATGAGTATTGTG
1 CATTATGAGTATTGTG
43444101 TCATTATGAGTATTGTG
1 -CATTATGAGTATTGTG
43444118 -ATTATG
1 CATTATG
43444124 TGATCCAGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 6 0.27
17 16 0.73
ACGTcount: A:0.26, C:0.05, G:0.23, T:0.46
Consensus pattern (16 bp):
CATTATGAGTATTGTG
Found at i:43450040 original size:20 final size:21
Alignment explanation
Indices: 43450011--43450059 Score: 57
Period size: 19 Copynumber: 2.4 Consensus size: 21
43450001 AAACAAAGAA
43450011 AAAAACTAAAATAAGAAAT-TT
1 AAAAA-TAAAATAAGAAATATT
* *
43450032 AAGAAT-AAATAATAAATATT
1 AAAAATAAAATAAGAAATATT
43450052 AAAAATAA
1 AAAAATAA
43450060 TAAATAAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 10 0.43
20 8 0.35
21 5 0.22
ACGTcount: A:0.69, C:0.02, G:0.04, T:0.24
Consensus pattern (21 bp):
AAAAATAAAATAAGAAATATT
Found at i:43450061 original size:19 final size:20
Alignment explanation
Indices: 43450019--43450069 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
43450009 AAAAAAACTA
* *
43450019 AAATAAGAAAT-TTAAGAAT
1 AAATAATAAATATTAAAAAT
43450038 AAATAATAAATATTAAAAAT
1 AAATAATAAATATTAAAAAT
43450058 -AATAAATAAATA
1 AAAT-AATAAATA
43450070 AATTATAGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 13 0.46
20 15 0.54
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.27
Consensus pattern (20 bp):
AAATAATAAATATTAAAAAT
Found at i:43450120 original size:17 final size:17
Alignment explanation
Indices: 43450092--43450149 Score: 66
Period size: 17 Copynumber: 3.5 Consensus size: 17
43450082 AAAAGTGGCA
*
43450092 GATGGA-ATGAATAAAT
1 GATGGATATGAATAAAC
*
43450108 GATGGGTATGAATAAAC
1 GATGGATATGAATAAAC
*
43450125 GATGGATATGACATATA-
1 GATGGATATGA-ATAAAC
43450142 GATGGATA
1 GATGGATA
43450150 AGTGTCTGAT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
16 5 0.14
17 27 0.75
18 4 0.11
ACGTcount: A:0.43, C:0.03, G:0.28, T:0.26
Consensus pattern (17 bp):
GATGGATATGAATAAAC
Found at i:43452441 original size:15 final size:15
Alignment explanation
Indices: 43452421--43452450 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
43452411 TAAGTTAATT
*
43452421 TTTTTCTTTTTCTTC
1 TTTTTCTTTCTCTTC
43452436 TTTTTCTTTCTCTTC
1 TTTTTCTTTCTCTTC
43452451 GATCTCGTCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTTTCTTTCTCTTC
Found at i:43454135 original size:46 final size:46
Alignment explanation
Indices: 43454067--43454219 Score: 166
Period size: 46 Copynumber: 3.3 Consensus size: 46
43454057 GGTCATGCTT
* *
43454067 TAAGCACAATCTTAAACTATTCATAAAGAATAAATGATGATCCTCC
1 TAAGCACGAGCTTAAACTATTCATAAAGAATAAATGATGATCCTCC
* * *
43454113 GAAGCACGAGCTTAAACTATTCAT-ATGAAATAAACGATGA-CCTCC
1 TAAGCACGAGCTTAAACTATTCATAAAG-AATAAATGATGATCCTCC
* ** * * * * *
43454158 TAAGCATGAATTTAAATTGTTCATACATAATAAATGATGATACTCC
1 TAAGCACGAGCTTAAACTATTCATAAAGAATAAATGATGATCCTCC
43454204 TAAGCACGAGCTTAAA
1 TAAGCACGAGCTTAAA
43454220 TTGCAGTCCA
Statistics
Matches: 85, Mismatches: 19, Indels: 6
0.77 0.17 0.05
Matches are distributed among these distances:
45 36 0.42
46 49 0.58
ACGTcount: A:0.42, C:0.18, G:0.12, T:0.27
Consensus pattern (46 bp):
TAAGCACGAGCTTAAACTATTCATAAAGAATAAATGATGATCCTCC
Found at i:43459279 original size:31 final size:27
Alignment explanation
Indices: 43459210--43459264 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
43459200 AAATTAAGGC
43459210 TTAACTTTTCACTAACCTTAGTTCATT
1 TTAACTTTTCACTAACCTTAGTTCATT
*
43459237 TTAACTTTTCACTAACCTTAGTTTATT
1 TTAACTTTTCACTAACCTTAGTTCATT
43459264 T
1 T
43459265 AGTCTAACTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.25, C:0.20, G:0.04, T:0.51
Consensus pattern (27 bp):
TTAACTTTTCACTAACCTTAGTTCATT
Found at i:43461945 original size:32 final size:34
Alignment explanation
Indices: 43461899--43461964 Score: 109
Period size: 33 Copynumber: 2.0 Consensus size: 34
43461889 TGAGCCCACA
*
43461899 TGCCCTTGTGAGCCCACAC-GCCCAAAATGGCCT
1 TGCCCGTGTGAGCCCACACGGCCCAAAATGGCCT
43461932 TGCCCGTGT-AGCCCACACGGCCCAAAATGGCCT
1 TGCCCGTGTGAGCCCACACGGCCCAAAATGGCCT
43461965 AGGCCTTATG
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 9 0.29
33 22 0.71
ACGTcount: A:0.21, C:0.39, G:0.23, T:0.17
Consensus pattern (34 bp):
TGCCCGTGTGAGCCCACACGGCCCAAAATGGCCT
Found at i:43468136 original size:26 final size:26
Alignment explanation
Indices: 43468105--43468186 Score: 139
Period size: 26 Copynumber: 3.2 Consensus size: 26
43468095 TGAAATTCCC
43468105 ATCATGGAACATTTACCTAAACC-ATT
1 ATCATGGAACATTTACCT-AACCTATT
43468131 ATCATGGAACATTTACCTAACCTATT
1 ATCATGGAACATTTACCTAACCTATT
*
43468157 ATCATGGAACCTTTACCTAACCTATT
1 ATCATGGAACATTTACCTAACCTATT
43468183 ATCA
1 ATCA
43468187 ATTTGTATCA
Statistics
Matches: 54, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
25 4 0.07
26 50 0.93
ACGTcount: A:0.35, C:0.24, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCTATT
Found at i:43472438 original size:15 final size:15
Alignment explanation
Indices: 43472398--43472446 Score: 73
Period size: 15 Copynumber: 3.3 Consensus size: 15
43472388 ATATATTTAG
43472398 ATTAAATCTTAATTA
1 ATTAAATCTTAATTA
* *
43472413 ATCAAAT-TTAATAA
1 ATTAAATCTTAATTA
43472427 ATTAAATCTTAATTA
1 ATTAAATCTTAATTA
43472442 ATTAA
1 ATTAA
43472447 CCTTAATCAC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
14 12 0.41
15 17 0.59
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (15 bp):
ATTAAATCTTAATTA
Found at i:43472451 original size:14 final size:14
Alignment explanation
Indices: 43472398--43472453 Score: 58
Period size: 14 Copynumber: 3.9 Consensus size: 14
43472388 ATATATTTAG
43472398 ATTAAATCTTAATTA
1 ATTAAA-CTTAATTA
* * *
43472413 ATCAAATTTAATAA
1 ATTAAACTTAATTA
43472427 ATTAAATCTTAATTA
1 ATTAAA-CTTAATTA
*
43472442 ATTAACCTTAAT
1 ATTAAACTTAAT
43472454 CACAATTAAT
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
14 17 0.52
15 16 0.48
ACGTcount: A:0.48, C:0.09, G:0.00, T:0.43
Consensus pattern (14 bp):
ATTAAACTTAATTA
Found at i:43472452 original size:29 final size:31
Alignment explanation
Indices: 43472398--43472462 Score: 89
Period size: 29 Copynumber: 2.2 Consensus size: 31
43472388 ATATATTTAG
*
43472398 ATTAAATCTTAATTAATCAAATTTAAT-A-A
1 ATTAAATCTTAATTAATCAAACTTAATCACA
* *
43472427 ATTAAATCTTAATTAATTAACCTTAATCACA
1 ATTAAATCTTAATTAATCAAACTTAATCACA
43472458 ATTAA
1 ATTAA
43472463 TAAAAATTAG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
29 24 0.77
30 1 0.03
31 6 0.19
ACGTcount: A:0.49, C:0.11, G:0.00, T:0.40
Consensus pattern (31 bp):
ATTAAATCTTAATTAATCAAACTTAATCACA
Found at i:43478344 original size:10 final size:10
Alignment explanation
Indices: 43478329--43478368 Score: 62
Period size: 10 Copynumber: 3.9 Consensus size: 10
43478319 TGATTTTGTA
43478329 CATGATATGC
1 CATGATATGC
43478339 CATGATATGC
1 CATGATATGC
*
43478349 ACATGATATTC
1 -CATGATATGC
43478360 CATGATATG
1 CATGATATG
43478369 TTCATAAATG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
10 18 0.67
11 9 0.33
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (10 bp):
CATGATATGC
Found at i:43478353 original size:21 final size:21
Alignment explanation
Indices: 43478328--43478368 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
43478318 CTGATTTTGT
43478328 ACATGATATGCCATGATATGC
1 ACATGATATGCCATGATATGC
*
43478349 ACATGATATTCCATGATATG
1 ACATGATATGCCATGATATG
43478369 TTCATAAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Consensus pattern (21 bp):
ACATGATATGCCATGATATGC
Found at i:43478441 original size:25 final size:25
Alignment explanation
Indices: 43478413--43478482 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
43478403 GAGGAAGTGC
* * *
43478413 AAAAGGGCTATGCCCTAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
43478438 AAAAGGGCTTTGCCCCAATTTACCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
43478463 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
43478483 ATTAAAAGAG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:43478495 original size:24 final size:24
Alignment explanation
Indices: 43478463--43478509 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
43478453 CAATTTACCA
**
43478463 AAAAGGGCTTTGCC-CCAGTTATT
1 AAAAGGGCTAGGCCTCCAGTTATT
43478486 AAAAGAGGCTAGGCCTCCAGTTAT
1 AAAAG-GGCTAGGCCTCCAGTTAT
43478510 ATGATAAAGC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 5 0.25
24 7 0.35
25 8 0.40
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTAGGCCTCCAGTTATT
Found at i:43480663 original size:27 final size:27
Alignment explanation
Indices: 43480621--43480760 Score: 153
Period size: 27 Copynumber: 5.2 Consensus size: 27
43480611 GGAAGCGTCT
*
43480621 TGGTGGCTATGCCACAATTATCTGATC
1 TGGTGGCTCTGCCACAATTATCTGATC
*
43480648 TGGTGGCTCTGGCAC-ATATATCTG-TCC
1 TGGTGGCTCTGCCACAAT-TATCTGAT-C
* * *
43480675 TTGTGGCTATGCCACAATTTTCTGATC
1 TGGTGGCTCTGCCACAATTATCTGATC
* *
43480702 TGGTGGCTCTGCCAC-ATATATCTGTTT
1 TGGTGGCTCTGCCACAAT-TATCTGATC
43480729 TGGTGGCTCTGCCACAA-TATCTGTATC
1 TGGTGGCTCTGCCACAATTATCTG-ATC
43480756 TGGTG
1 TGGTG
43480761 ACTCCATAAC
Statistics
Matches: 93, Mismatches: 13, Indels: 14
0.77 0.11 0.12
Matches are distributed among these distances:
26 11 0.12
27 78 0.84
28 4 0.04
ACGTcount: A:0.17, C:0.23, G:0.24, T:0.36
Consensus pattern (27 bp):
TGGTGGCTCTGCCACAATTATCTGATC
Found at i:43480705 original size:54 final size:54
Alignment explanation
Indices: 43480617--43480760 Score: 220
Period size: 54 Copynumber: 2.7 Consensus size: 54
43480607 TGGAGGAAGC
*
43480617 GTCTTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGGCACATATATCT
1 GTCTTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
*
43480671 GTCCTT-GTGGCTATGCCACAATTTTCTGATCTGGTGGCTCTGCCACATATATCT
1 GT-CTTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
* *
43480725 GTTTTGGTGGCTCTGCCACAA-TATCTGTATCTGGTG
1 GTCTTGGTGGCTATGCCACAATTATCTG-ATCTGGTG
43480761 ACTCCATAAC
Statistics
Matches: 82, Mismatches: 5, Indels: 6
0.88 0.05 0.06
Matches are distributed among these distances:
53 7 0.09
54 72 0.88
55 3 0.04
ACGTcount: A:0.17, C:0.23, G:0.24, T:0.37
Consensus pattern (54 bp):
GTCTTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
Found at i:43481373 original size:31 final size:31
Alignment explanation
Indices: 43481338--43481421 Score: 134
Period size: 31 Copynumber: 2.7 Consensus size: 31
43481328 CGTTTACCGT
43481338 AAAGGCTTCGGCCCAGTGATATGAATAATGA
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
* *
43481369 AAAGGCTTCGGCCCAATGATATGAATAATGT
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
*
43481400 AAAGGCTTCAGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
43481422 TTGAAATTGA
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
30 5 0.10
31 44 0.90
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGAATAATGA
Found at i:43483138 original size:46 final size:45
Alignment explanation
Indices: 43483063--43483269 Score: 222
Period size: 46 Copynumber: 4.6 Consensus size: 45
43483053 CAGCTTATCA
* * *
43483063 GTTATGCGAACTCACATGTTAGCAGTATGCGAACCTATATATATTT
1 GTTATGCAAACTCACATATTAGCAGTATGCGAACCTATATAT-TCT
* *
43483109 GTTAAGCAAACTCACATATTAGTAGTATGCGAACCTATATATGTCT
1 GTTATGCAAACTCACATATTAGCAGTATGCGAACCTATATAT-TCT
* * * *
43483155 GTTATGCAAACTCACATGTCAGCAGTATGCAAACCCATAT-TTCT
1 GTTATGCAAACTCACATATTAGCAGTATGCGAACCTATATATTCT
* * **
43483199 GTTATGCAAACTCACACATTGGCAGTATG-GAACCCTATATACGCCT
1 GTTATGCAAACTCACATATTAGCAGTATGCGAA-CCTATATA-TTCT
*
43483245 -TTATGCAAACTCATATGATTAGCAG
1 GTTATGCAAACTCACAT-ATTAGCAG
43483270 CATGTGATCC
Statistics
Matches: 134, Mismatches: 23, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
43 2 0.01
44 34 0.25
45 15 0.11
46 83 0.62
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.31
Consensus pattern (45 bp):
GTTATGCAAACTCACATATTAGCAGTATGCGAACCTATATATTCT
Found at i:43483150 original size:23 final size:23
Alignment explanation
Indices: 43483081--43483150 Score: 54
Period size: 23 Copynumber: 3.0 Consensus size: 23
43483071 AACTCACATG
*
43483081 TTAGCAGTATGCGAACCTATATA
1 TTAGTAGTATGCGAACCTATATA
* * * * *
43483104 -TATTTGTTAAGC-AAACTCACATA
1 TTAGTAG-TATGCGAACCT-ATATA
43483127 TTAGTAGTATGCGAACCTATATA
1 TTAGTAGTATGCGAACCTATATA
43483150 T
1 T
43483151 GTCTGTTATG
Statistics
Matches: 32, Mismatches: 11, Indels: 8
0.63 0.22 0.16
Matches are distributed among these distances:
22 7 0.22
23 17 0.53
24 8 0.25
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (23 bp):
TTAGTAGTATGCGAACCTATATA
Found at i:43483174 original size:21 final size:21
Alignment explanation
Indices: 43483149--43483214 Score: 69
Period size: 21 Copynumber: 3.0 Consensus size: 21
43483139 GAACCTATAT
43483149 ATGTCTGTTATGCAAACTCAC
1 ATGTCTGTTATGCAAACTCAC
* * * *
43483170 ATGTCAGCAGTATGCAAACCCAT
1 ATGTCTG--TTATGCAAACTCAC
*
43483193 ATTTCTGTTATGCAAACTCAC
1 ATGTCTGTTATGCAAACTCAC
43483214 A
1 A
43483215 CATTGGCAGT
Statistics
Matches: 34, Mismatches: 9, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
21 18 0.53
23 16 0.47
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.30
Consensus pattern (21 bp):
ATGTCTGTTATGCAAACTCAC
Found at i:43487837 original size:16 final size:16
Alignment explanation
Indices: 43487810--43487868 Score: 66
Period size: 16 Copynumber: 3.6 Consensus size: 16
43487800 GAAGAGTAAT
43487810 AAATAGAATAAGAATAA
1 AAATA-AATAAGAATAA
*
43487827 GAATAAATAAGAATAA
1 AAATAAATAAGAATAA
*
43487843 AAATTAAATAA-AATAT
1 AAA-TAAATAAGAATAA
*
43487859 AAATTAATAA
1 AAATAAATAA
43487869 CTATAAATTT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
15 6 0.16
16 20 0.54
17 11 0.30
ACGTcount: A:0.69, C:0.00, G:0.07, T:0.24
Consensus pattern (16 bp):
AAATAAATAAGAATAA
Found at i:43487852 original size:21 final size:21
Alignment explanation
Indices: 43487807--43487854 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
43487797 ATAGAAGAGT
*
43487807 AATAAATAGAATAAGAATAAG
1 AATAAATAGAATAAAAATAAG
*
43487828 AATAAATAAGAATAAAAATTA-
1 AATAAAT-AGAATAAAAATAAG
43487849 AATAAA
1 AATAAA
43487855 ATATAAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 13 0.54
22 11 0.46
ACGTcount: A:0.71, C:0.00, G:0.08, T:0.21
Consensus pattern (21 bp):
AATAAATAGAATAAAAATAAG
Found at i:43490110 original size:41 final size:41
Alignment explanation
Indices: 43490053--43490138 Score: 163
Period size: 41 Copynumber: 2.1 Consensus size: 41
43490043 TATGTGCCAA
*
43490053 GGATAGAATCTTAAGCATGGAAGCATTGGAGATAGATTTGG
1 GGATAGAATCTTAAGCATGGAAGCATTGGAGATAGAGTTGG
43490094 GGATAGAATCTTAAGCATGGAAGCATTGGAGATAGAGTTGG
1 GGATAGAATCTTAAGCATGGAAGCATTGGAGATAGAGTTGG
43490135 GGAT
1 GGAT
43490139 GATTCCGCTA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.34, C:0.07, G:0.34, T:0.26
Consensus pattern (41 bp):
GGATAGAATCTTAAGCATGGAAGCATTGGAGATAGAGTTGG
Found at i:43495036 original size:47 final size:51
Alignment explanation
Indices: 43494940--43495037 Score: 125
Period size: 47 Copynumber: 2.0 Consensus size: 51
43494930 ATTATTAAAT
* *
43494940 TAGTTAATTTTATTATTTTCCTTTACTATTCTTTATTATATTTTTACTATTA
1 TAGTTAATTTTATTATTTTCCATTACTA-TCTTTATTATATTTGTACTATTA
43494992 TAGTT-ATTTT-TTATTTT-CATTACTA-CTTTATTAT-TATTGTACTATT
1 TAGTTAATTTTATTATTTTCCATTACTATCTTTATTATAT-TTGTACTATT
43495038 GTTATTATTT
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
46 1 0.02
47 18 0.42
49 7 0.16
50 7 0.16
51 5 0.12
52 5 0.12
ACGTcount: A:0.24, C:0.09, G:0.03, T:0.63
Consensus pattern (51 bp):
TAGTTAATTTTATTATTTTCCATTACTATCTTTATTATATTTGTACTATTA
Found at i:43495181 original size:14 final size:13
Alignment explanation
Indices: 43495128--43495182 Score: 56
Period size: 14 Copynumber: 3.8 Consensus size: 13
43495118 ATCATTATTA
*
43495128 CTATTATATTTAAT
1 CTATTTTATTT-AT
43495142 CTATATTTATTTTAT
1 CTAT-TTTA-TTTAT
43495157 CTAATTTTATTTAT
1 CT-ATTTTATTTAT
43495171 CTATTTATATTT
1 CTATTT-TATTT
43495183 CTATTATTAT
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
13 4 0.11
14 16 0.44
15 11 0.31
16 5 0.14
ACGTcount: A:0.29, C:0.07, G:0.00, T:0.64
Consensus pattern (13 bp):
CTATTTTATTTAT
Found at i:43495467 original size:3 final size:3
Alignment explanation
Indices: 43495459--43495548 Score: 74
Period size: 3 Copynumber: 28.3 Consensus size: 3
43495449 TAGTAATGTG
* *
43495459 TTA TTA TTA TTA TTA TTTG TTGC TCTA TT- TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA -TTA TT-A T-TA TTA TTA TTA TTA TTA TTA TTA
* * *
43495506 TTTA TATA TTTA TCA TTA TTA TCA TTA TTA TTA TTA TCA TTA T
1 -TTA T-TA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
43495549 ATTTATACTT
Statistics
Matches: 71, Mismatches: 9, Indels: 14
0.76 0.10 0.15
Matches are distributed among these distances:
2 2 0.03
3 56 0.79
4 11 0.15
5 2 0.03
ACGTcount: A:0.29, C:0.06, G:0.02, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:43495517 original size:8 final size:7
Alignment explanation
Indices: 43495487--43495567 Score: 50
Period size: 6 Copynumber: 11.9 Consensus size: 7
43495477 GTTGCTCTAT
43495487 TTTATTA
1 TTTATTA
43495494 -TTATTA
1 TTTATTA
43495500 -TTATTA
1 TTTATTA
43495506 TTTATATA
1 TTTAT-TA
*
43495514 TTTATCA
1 TTTATTA
43495521 -TTATTA
1 TTTATTA
43495527 TCATTATTA
1 T--TTATTA
43495536 -TTATTA
1 TTTATTA
43495542 TCATTA-TA
1 T--TTATTA
43495550 TTTA-TA
1 TTTATTA
*
43495556 CTTA-TA
1 TTTATTA
43495562 TTTATT
1 TTTATT
43495568 TTATTCGAAT
Statistics
Matches: 61, Mismatches: 4, Indels: 18
0.73 0.05 0.22
Matches are distributed among these distances:
6 36 0.59
7 6 0.10
8 10 0.16
9 9 0.15
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (7 bp):
TTTATTA
Found at i:43496026 original size:3 final size:3
Alignment explanation
Indices: 43496018--43496091 Score: 62
Period size: 3 Copynumber: 25.0 Consensus size: 3
43496008 TTTTTACTTA
* * * *
43496018 TAT TAT TAT TAC TAT TAT CAT TAT GATT TAT TAC T-T TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT
* * *
43496063 CAT TAT TAC TAC TAT TA- TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
43496092 ATTTTTGTCC
Statistics
Matches: 56, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
2 3 0.05
3 51 0.91
4 2 0.04
ACGTcount: A:0.32, C:0.08, G:0.01, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:43508170 original size:43 final size:44
Alignment explanation
Indices: 43508109--43508195 Score: 131
Period size: 43 Copynumber: 2.0 Consensus size: 44
43508099 ATTCACCAAG
* * *
43508109 CCTTAAGCCCCTAAGCAGTAGGGTAACAGG-TTAAATTTACAGA
1 CCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGA
*
43508152 CCTTAACCCCCTAAGCAGTAGGGTAATAGGCTGAAAATTACAGA
1 CCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGA
43508196 TCTTGTCTCC
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
43 28 0.72
44 11 0.28
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.22
Consensus pattern (44 bp):
CCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGA
Found at i:43508410 original size:43 final size:42
Alignment explanation
Indices: 43508334--43508446 Score: 118
Period size: 42 Copynumber: 2.6 Consensus size: 42
43508324 GATGGGCTTC
* * * *
43508334 AACCCCTTAAGCAATAGGGTAACAAGCCAAATTTTCAAACCTTA
1 AACCCC-TAAGCAGTAGGGTAACAGGTCAAATTTACAAACC-TA
** * *
43508378 AACCCCTAAGCAGTAGGGTAACAGGTTGAATTTACAGATCTA
1 AACCCCTAAGCAGTAGGGTAACAGGTCAAATTTACAAACCTA
* *
43508420 AACCCCTAAGTAGTAGGGAAACAGGTC
1 AACCCCTAAGCAGTAGGGTAACAGGTC
43508447 GAGCTTTAAC
Statistics
Matches: 58, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
42 26 0.45
43 26 0.45
44 6 0.10
ACGTcount: A:0.38, C:0.22, G:0.19, T:0.21
Consensus pattern (42 bp):
AACCCCTAAGCAGTAGGGTAACAGGTCAAATTTACAAACCTA
Found at i:43513212 original size:47 final size:47
Alignment explanation
Indices: 43513104--43513214 Score: 127
Period size: 47 Copynumber: 2.4 Consensus size: 47
43513094 CCGGGATAAG
* *
43513104 CACATAGTGCTTCATCGGAATAAATCCAGAACTGTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCAGAACTGTAACAGTATAGTA
* * * *
43513151 CACAAAGTACTTCATCGGAACAAATCC-GAAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCAG-AACTGTAACAGTA-TAGTA
*
43513198 CACATAGTGTTTCATCG
1 CACATAGTGCTTCATCG
43513215 ACTCAATGTC
Statistics
Matches: 53, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
46 1 0.02
47 50 0.94
48 2 0.04
ACGTcount: A:0.37, C:0.22, G:0.15, T:0.26
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCAGAACTGTAACAGTATAGTA
Found at i:43514474 original size:5 final size:5
Alignment explanation
Indices: 43514466--43514512 Score: 53
Period size: 5 Copynumber: 9.6 Consensus size: 5
43514456 AACCTAAATT
* *
43514466 AATAA AATAA AAT-A AATAA TAA-AT AATAA AATAA AACAA AATAA AAT
1 AATAA AATAA AATAA AATAA -AATAA AATAA AATAA AATAA AATAA AAT
43514513 CTTTCTATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
4 6 0.17
5 27 0.77
6 2 0.06
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (5 bp):
AATAA
Found at i:43517870 original size:46 final size:46
Alignment explanation
Indices: 43517777--43518034 Score: 180
Period size: 46 Copynumber: 5.6 Consensus size: 46
43517767 ATCACAAATC
* * * * * ***
43517777 AAATGAATAAGACCATAATTGAAAGATATTATGACAACTCGGTGGA
1 AAATGAATAAGACCATAGTTGAAAGACACTATGGCAACACGACAGA
* * *
43517823 AAATGAATATGAACATAGTTGAAAGACACTATGGCAACACGACGGA
1 AAATGAATAAGACCATAGTTGAAAGACACTATGGCAACACGACAGA
* * * * * * * *
43517869 AAATAAATAAAACTATGGTTGAAAGACACAATGGCGACAAGACAAA
1 AAATGAATAAGACCATAGTTGAAAGACACTATGGCAACACGACAGA
* * * * *
43517915 AAATAAATAAGGCCATAGGT-AAA-ATACGTAATGGCAACACGATAGA
1 AAATGAATAAGACCATAGTTGAAAGACAC-T-ATGGCAACACGACAGA
* * * * * *
43517961 AAATGAATAAGACCATGGTTAAAAGACACTATAGCATCAAGTCA-A
1 AAATGAATAAGACCATAGTTGAAAGACACTATGGCAACACGACAGA
* * *
43518006 TAATAAATAAGACCATGGTTGAAAGACAC
1 AAATGAATAAGACCATAGTTGAAAGACAC
43518035 CAAGGCACCC
Statistics
Matches: 164, Mismatches: 44, Indels: 9
0.76 0.20 0.04
Matches are distributed among these distances:
44 3 0.02
45 30 0.18
46 124 0.76
47 4 0.02
48 3 0.02
ACGTcount: A:0.49, C:0.14, G:0.19, T:0.19
Consensus pattern (46 bp):
AAATGAATAAGACCATAGTTGAAAGACACTATGGCAACACGACAGA
Found at i:43520598 original size:13 final size:13
Alignment explanation
Indices: 43520580--43520611 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
43520570 TTTCCAGCAA
43520580 TTATGAATTTATT
1 TTATGAATTTATT
43520593 TTATGAATTTATT
1 TTATGAATTTATT
*
43520606 TGATGA
1 TTATGA
43520612 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:43520819 original size:50 final size:50
Alignment explanation
Indices: 43520706--43520947 Score: 304
Period size: 50 Copynumber: 4.7 Consensus size: 50
43520696 ATTTGGGTAA
* *
43520706 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--AAGA-C--G
*
43520762 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGACG
* * * *
43520812 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGACG
* * **
43520862 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGACG
**
43520912 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
43520948 TTTGGCATGT
Statistics
Matches: 165, Mismatches: 20, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
50 90 0.55
51 29 0.18
52 1 0.01
53 4 0.02
55 2 0.01
56 39 0.24
ACGTcount: A:0.27, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGACG
Found at i:43520895 original size:100 final size:103
Alignment explanation
Indices: 43520706--43520955 Score: 371
Period size: 100 Copynumber: 2.4 Consensus size: 103
43520696 ATTTGGGTAA
43520706 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
43520771 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACCAACACG
* * *
43520812 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
*
43520874 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCAACACG
* *
43520912 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
43520956 GTTATTATCA
Statistics
Matches: 133, Mismatches: 9, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
100 52 0.39
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCAACACG
Found at i:43523450 original size:26 final size:24
Alignment explanation
Indices: 43523420--43523467 Score: 69
Period size: 26 Copynumber: 1.9 Consensus size: 24
43523410 ATAAAAAAAA
*
43523420 TTAAAAATATAATAAATCAAATATAT
1 TTAAAAACATAA-AAA-CAAATATAT
43523446 TTAAAAACATAAAAACAAATAT
1 TTAAAAACATAAAAACAAATAT
43523468 TAAAACAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.33
25 3 0.14
26 11 0.52
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (24 bp):
TTAAAAACATAAAAACAAATATAT
Found at i:43525010 original size:18 final size:18
Alignment explanation
Indices: 43524971--43525014 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
43524961 AGAAGAAGCA
43524971 GAAGAAGAGGAGGACGAC
1 GAAGAAGAGGAGGACGAC
* * *
43524989 GAAGAGGAGGAGGAGGAG
1 GAAGAAGAGGAGGACGAC
43525007 GAAGAAGA
1 GAAGAAGA
43525015 AGAAGGTAGG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.45, C:0.05, G:0.50, T:0.00
Consensus pattern (18 bp):
GAAGAAGAGGAGGACGAC
Found at i:43534968 original size:116 final size:116
Alignment explanation
Indices: 43534827--43535241 Score: 830
Period size: 116 Copynumber: 3.6 Consensus size: 116
43534817 TTTTTACATA
43534827 TATAAACATTACTGGCTAAAAAGATATTTTATTTTTTTGGTAAAGAAAGCAATTCAATCCATTAC
1 TATAAACATTACTGGCTAAAAAGATATTTTATTTTTTTGGTAAAGAAAGCAATTCAATCCATTAC
43534892 AAAATAATCTTTTATGTATTTTTAAAAATAAAGGATCAAACTATCGAAAAC
66 AAAATAATCTTTTATGTATTTTTAAAAATAAAGGATCAAACTATCGAAAAC
43534943 TATAAACATTACTGGCTAAAAAGATATTTTATTTTTTTGGTAAAGAAAGCAATTCAATCCATTAC
1 TATAAACATTACTGGCTAAAAAGATATTTTATTTTTTTGGTAAAGAAAGCAATTCAATCCATTAC
43535008 AAAATAATCTTTTATGTATTTTTAAAAATAAAGGATCAAACTATCGAAAAC
66 AAAATAATCTTTTATGTATTTTTAAAAATAAAGGATCAAACTATCGAAAAC
43535059 TATAAACATTACTGGCTAAAAAGATATTTTATTTTTTTGGTAAAGAAAGCAATTCAATCCATTAC
1 TATAAACATTACTGGCTAAAAAGATATTTTATTTTTTTGGTAAAGAAAGCAATTCAATCCATTAC
43535124 AAAATAATCTTTTATGTATTTTTAAAAATAAAGGATCAAACTATCGAAAAC
66 AAAATAATCTTTTATGTATTTTTAAAAATAAAGGATCAAACTATCGAAAAC
43535175 TATAAACATTACTGGCTAAAAAGATATTTTATTTTTTTGGTAAAGAAAGCAATTCAATCCATTAC
1 TATAAACATTACTGGCTAAAAAGATATTTTATTTTTTTGGTAAAGAAAGCAATTCAATCCATTAC
43535240 AA
66 AA
43535242 CAAAGCTATA
Statistics
Matches: 299, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
116 299 1.00
ACGTcount: A:0.44, C:0.11, G:0.10, T:0.35
Consensus pattern (116 bp):
TATAAACATTACTGGCTAAAAAGATATTTTATTTTTTTGGTAAAGAAAGCAATTCAATCCATTAC
AAAATAATCTTTTATGTATTTTTAAAAATAAAGGATCAAACTATCGAAAAC
Found at i:43536035 original size:39 final size:39
Alignment explanation
Indices: 43535992--43536095 Score: 145
Period size: 39 Copynumber: 2.6 Consensus size: 39
43535982 GAAATCTAGT
* *
43535992 TGAAGCACATAAGTGCTAAACGGAAGCCCGGAGGCTAAC
1 TGAAGCACATAAGTGCTAAACGAAAGCCCGAAGGCTAAC
* *
43536031 TGAAGCATATAAGTGCTAAACGAAAGCCCGAAGGCTAAT
1 TGAAGCACATAAGTGCTAAACGAAAGCCCGAAGGCTAAC
* *
43536070 TTAAGCACATAAGTGCTGAACTGAAA
1 TGAAGCACATAAGTGCTAAAC-GAAA
43536096 CCCCAAAAGG
Statistics
Matches: 57, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
39 53 0.93
40 4 0.07
ACGTcount: A:0.39, C:0.19, G:0.24, T:0.17
Consensus pattern (39 bp):
TGAAGCACATAAGTGCTAAACGAAAGCCCGAAGGCTAAC
Found at i:43538725 original size:16 final size:16
Alignment explanation
Indices: 43538686--43538726 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
43538676 TAAATTATGA
43538686 TTTAAATATTTTTATT
1 TTTAAATATTTTTATT
*
43538702 TTTGAATA-TTTTATAT
1 TTTAAATATTTTTAT-T
43538718 TTTAAATAT
1 TTTAAATAT
43538727 ATTAAATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 6 0.29
16 15 0.71
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.63
Consensus pattern (16 bp):
TTTAAATATTTTTATT
Found at i:43539452 original size:14 final size:14
Alignment explanation
Indices: 43539415--43539452 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
43539405 TATTTAATTA
*
43539415 AAAATAACTTTTAG
1 AAAATAATTTTTAG
43539429 AAAATAATTTTTAG
1 AAAATAATTTTTAG
*
43539443 AAAATGATTT
1 AAAATAATTT
43539453 ATTTTTTAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.50, C:0.03, G:0.08, T:0.39
Consensus pattern (14 bp):
AAAATAATTTTTAG
Found at i:43543318 original size:41 final size:41
Alignment explanation
Indices: 43543268--43543349 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
43543258 TTCCCCATGG
*
43543268 TGACGATTGAGAACACACCACATCACATGCATCAAGAACGA
1 TGACAATTGAGAACACACCACATCACATGCATCAAGAACGA
43543309 TGACAATTGAGAACACACCACATCACATGCATCAAGAACGA
1 TGACAATTGAGAACACACCACATCACATGCATCAAGAACGA
43543350 CAAATTAAAG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.43, C:0.27, G:0.16, T:0.15
Consensus pattern (41 bp):
TGACAATTGAGAACACACCACATCACATGCATCAAGAACGA
Found at i:43560059 original size:45 final size:44
Alignment explanation
Indices: 43559880--43560433 Score: 170
Period size: 45 Copynumber: 12.4 Consensus size: 44
43559870 TACTCTACTA
* * * ** *
43559880 CAACTTCAGATAGATAAGATTTGCTATCTTCAGTCTATTCCACTA
1 CAACTTCAGAGAGATAAGA-TTGTTATATTCAGTCTGCTCCACTG
* * * ** *
43559925 CAACTTTAGGGAGATAAGACTTGGTA-ATTTCAAACTGCTACACTG
1 CAACTTCAGAGAGATAAGA-TTGTTATA-TTCAGTCTGCTCCACTG
* * * * ** *** * * *
43559970 CACCTTCAGGGAGATGAGGTTAATGGCTTTAATCTGCTCTACTG
1 CAACTTCAGAGAGATAAGATTGTTATATTCAGTCTGCTCCACTG
43560014 CAACTTCAGAGAGATAAGATGTGTTATATTCAGTCTGCTCCACTG
1 CAACTTCAGAGAGATAAGAT-TGTTATATTCAGTCTGCTCCACTG
* * * * * * ** * *
43560059 CAACTTTAGGGAGACAAGACATG-CATCTTCAACCTACTCCACTA
1 CAACTTCAGAGAGATAAGA-TTGTTATATTCAGTCTGCTCCACTG
* * ** * *
43560103 CAACTTCAGGGAGATAAGATTCGTCATGGT-AGATTTGATCCGACCTGCTG
1 CAACTTCAGAGAGATAAGATT-GTTATATTCAG-TCTGCTCC-A----CTG
* * * *
43560153 CAACTTCAGAG-GTATAGGA-T-TTATAGCTTTAATCTGCTCTACTG
1 CAACTTCAGAGAG-ATAAGATTGTTATA--TTCAGTCTGCTCCACTG
* * * *
43560197 CAACTTCAGAGAGATAAGATCTGCTATCTTTAGTCTACTCCACTG
1 CAACTTCAGAGAGATAAGAT-TGTTATATTCAGTCTGCTCCACTG
**
43560242 CAACTTCA-AGGAGATAAGACTTG-TA-ACTTCAACCTGCTCCACTG
1 CAACTTCAGA-GAGATAAGA-TTGTTATA-TTCAGTCTGCTCCACTG
* * * * * * *
43560286 CAACTTTAGGGAGATAAGGTTCGATATCTTTAGTCTACTCCACTG
1 CAACTTCAGAGAGATAAGATT-GTTATATTCAGTCTGCTCCACTG
* * * * *
43560331 AAACTTCAGGGAGATAAGA--CTTATAACTTC-GACCTGCTCCGCTG
1 CAACTTCAGAGAGATAAGATTGTTAT-A-TTCAG-TCTGCTCCACTG
* * *
43560375 CAACTTCA-AGGAGATAAAGTTTG-T-T-TTGA-TCTGCTCTACTG
1 CAACTTCAGA-GAGAT-AAGATTGTTATATTCAGTCTGCTCCACTG
*
43560416 CAACTTCAAAGAGATAAG
1 CAACTTCAGAGAGATAAG
43560434 GTCTGTAATT
Statistics
Matches: 370, Mismatches: 103, Indels: 77
0.67 0.19 0.14
Matches are distributed among these distances:
40 3 0.01
41 22 0.06
42 6 0.02
43 4 0.01
44 140 0.38
45 158 0.43
46 4 0.01
47 6 0.02
48 1 0.00
49 8 0.02
50 18 0.05
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.30
Consensus pattern (44 bp):
CAACTTCAGAGAGATAAGATTGTTATATTCAGTCTGCTCCACTG
Found at i:43560286 original size:89 final size:89
Alignment explanation
Indices: 43560003--43560391 Score: 311
Period size: 89 Copynumber: 4.3 Consensus size: 89
43559993 TGGCTTTAAT
* * * * * * *
43560003 CTGCTCTACTGCAACTTCAGAGAGATAAGATGTGTTATATTCAGTCTGCTCCACTGCAACTTTAG
1 CTGCTCCACTGCAACTTCAGAGAGATAAGATCTGATATATTTAGTCTACTCCACTGCAACTTCAA
* * ** *
43560068 GGAGACAAGACATGCATCTTCAAC
66 GGAGATAAGACTTATAACTTCAAC
* * * * * * **
43560092 CTACTCCACTACAACTTCAGGGAGATAAGATTCGTCATGGTAGATTT-GATCCGAC-CTGCTGCA
1 CTGCTCCACTGCAACTTCAGAGAGATAAGA----TC-TGATATATTTAG-T-CTACTCCACTGCA
* * * * * *
43560155 ACTTCAGAGG-TATAGGATTTATAGCTTTAAT
59 ACTTCA-AGGAGATAAGACTTATAACTTCAAC
* * *
43560186 CTGCTCTACTGCAACTTCAGAGAGATAAGATCTGCTATCTTTAGTCTACTCCACTGCAACTTCAA
1 CTGCTCCACTGCAACTTCAGAGAGATAAGATCTGATATATTTAGTCTACTCCACTGCAACTTCAA
*
43560251 GGAGATAAGACTTGTAACTTCAAC
66 GGAGATAAGACTTATAACTTCAAC
* * * * *
43560275 CTGCTCCACTGCAACTTTAGGGAGATAAGGT-TCGATATCTTTAGTCTACTCCACTGAAACTTCA
1 CTGCTCCACTGCAACTTCAGAGAGATAAGATCT-GATATATTTAGTCTACTCCACTGCAACTTCA
* *
43560339 GGGAGATAAGACTTATAACTTCGAC
65 AGGAGATAAGACTTATAACTTCAAC
*
43560364 CTGCTCCGCTGCAACTTCA-AGGAGATAA
1 CTGCTCCACTGCAACTTCAGA-GAGATAA
43560392 AGTTTGTTTT
Statistics
Matches: 234, Mismatches: 53, Indels: 26
0.75 0.17 0.08
Matches are distributed among these distances:
88 7 0.03
89 162 0.69
90 3 0.01
93 2 0.01
94 56 0.24
95 4 0.02
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (89 bp):
CTGCTCCACTGCAACTTCAGAGAGATAAGATCTGATATATTTAGTCTACTCCACTGCAACTTCAA
GGAGATAAGACTTATAACTTCAAC
Found at i:43560299 original size:44 final size:44
Alignment explanation
Indices: 43559730--43560391 Score: 263
Period size: 44 Copynumber: 14.7 Consensus size: 44
43559720 TGCTACTTTG
* * * * * *
43559730 ATCTACTCCACTGCAATTTCAGGGAGATGAG-GTTTTCGACTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGT-AACTTCA
* * *
43559774 ATCTGCTCCACTGCAACTTCAGGGAGATGAGATTTGCCATGGTAACTT-G
1 ATCTGCTCCACTGCAACTTCAGGGAGAT-A-A---GAC-TTGTAACTTCA
* * * * * *
43559823 ATCTGAC-CTACTGCAACTTCAGAGG-TATAGGATTTATAGCCTT-A
1 ATCTG-CTCCACTGCAACTTCAG-GGAGATAAGACTTGTA-ACTTCA
* * * ** * *
43559867 ATCTACTCTACTACAACTTCAGATAGATAAGATTTGCTATCTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTG-TAACTTCA
* ** * * *
43559912 GTCTATTCCACTACAACTTTAGGGAGATAAGACTTGGTAATTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGACTT-GTAACTTCA
* * * * * * ** *
43559957 AACTGCTACACTGCACCTTCAGGGAGATGAG-GTTAATGGCTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGACTT-GTAACTTCA
* *
43560001 ATCTGCTCTACTGCAACTTCAGAGAGATAAGA-TGTGTTATA-TTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGACT-TG-TA-ACTTCA
* * * * * *
43560046 GTCTGCTCCACTGCAACTTTAGGGAGACAAGACATGCATCTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCA
* * * *
43560090 ACCTACTCCACTACAACTTCAGGGAGATAAGA-TTCGTCA-TGGT-A
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGACTT-GTAACT--TCA
* * * * * * * *
43560134 GATTTGATCCGACCTGCTGCAACTTCAGAGG-TATAGGATTTATAGCTTTA
1 -ATCTGCTCC-A----CTGCAACTTCAG-GGAGATAAGACTTGTAACTTCA
* * * *
43560184 ATCTGCTCTACTGCAACTTCAGAGAGATAAGA-TCTGCTATCTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGACT-TG-TAACTTCA
* * *
43560229 GTCTACTCCACTGCAACTTCAAGGAGATAAGACTTGTAACTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCA
* * * * *
43560273 ACCTGCTCCACTGCAACTTTAGGGAGATAAG-GTTCGATATCTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGACTT-G-TAACTTCA
* * * * *
43560318 GTCTACTCCACTGAAACTTCAGGGAGATAAGACTTATAACTTCG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCA
* * *
43560362 ACCTGCTCCGCTGCAACTTCAAGGAGATAA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAA
43560392 AGTTTGTTTT
Statistics
Matches: 450, Mismatches: 127, Indels: 82
0.68 0.19 0.12
Matches are distributed among these distances:
43 10 0.02
44 204 0.45
45 167 0.37
46 6 0.01
48 2 0.00
49 29 0.06
50 25 0.06
51 7 0.02
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (44 bp):
ATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCA
Found at i:43560338 original size:317 final size:316
Alignment explanation
Indices: 43559769--43560349 Score: 840
Period size: 317 Copynumber: 1.8 Consensus size: 316
43559759 AGGTTTTCGA
* * * * * *
43559769 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATGAGATTTGCCATGGTAACTTGATCTGACCTAC
1 CTTCAACCTACTCCACTACAACTTCAGGGAGATAAGATTCGCCATGGTAACTTGATCCGACCTAC
*
43559834 TGCAACTTCAGAGGTATAGGATTTATAGCCTTAATCTACTCTACTACAACTTCAGATAGATAAGA
66 TGCAACTTCAGAGGTATAGGATTTATAGCCTTAATCTACTCTACTACAACTTCAGAGAGATAAGA
* * * * *
43559899 TTTGCTATCTTCAGTCTATTCCACTACAACTTTAGGGAGATAAGACTTGGTAATTTCAAACTGCT
131 TCTGCTATCTTCAGTCTACTCCACTACAACTTCAAGGAGATAAGACTTGGTAACTTCAAACTGCT
* * * * * *
43559964 ACACTGCACCTTCAGGGAGATGAGGTTAATGGCTTTAATCTGCTCTACTGCAACTTCAGAGAGAT
196 ACACTGCAACTTCAGGGAGATAAGGTTAATAGCTTTAATCTACTCCACTGAAACTTCAGAGAGAT
43560029 AAGATGTGTTATATTCAGTCTGCTCCACTGCAACTTTAGGGAGACAAGACATGCAT
261 AAGATGTGTTATATTCAGTCTGCTCCACTGCAACTTTAGGGAGACAAGACATGCAT
* * *
43560085 CTTCAACCTACTCCACTACAACTTCAGGGAGATAAGATTCGTCATGGTAGATTTGATCCGACCTG
1 CTTCAACCTACTCCACTACAACTTCAGGGAGATAAGATTCGCCATGGTA-ACTTGATCCGACCTA
* * *
43560150 CTGCAACTTCAGAGGTATAGGATTTATAGCTTTAATCTGCTCTACTGCAACTTCAGAGAGATAAG
65 CTGCAACTTCAGAGGTATAGGATTTATAGCCTTAATCTACTCTACTACAACTTCAGAGAGATAAG
* * *
43560215 ATCTGCTATCTTTAGTCTACTCCACTGCAACTTCAAGGAGATAAGACTT-GTAACTTCAACCTGC
130 ATCTGCTATCTTCAGTCTACTCCACTACAACTTCAAGGAGATAAGACTTGGTAACTTCAAACTGC
* * * * * *
43560279 TCCACTGCAACTTTAGGGAGATAAGGTTCGATATCTTTAGTCTACTCCACTGAAACTTCAGGGAG
195 TACACTGCAACTTCAGGGAGATAAGGTT-AATAGCTTTAATCTACTCCACTGAAACTTCAGAGAG
43560344 ATAAGA
259 ATAAGA
43560350 CTTATAACTT
Statistics
Matches: 230, Mismatches: 33, Indels: 3
0.86 0.12 0.01
Matches are distributed among these distances:
316 80 0.35
317 150 0.65
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (316 bp):
CTTCAACCTACTCCACTACAACTTCAGGGAGATAAGATTCGCCATGGTAACTTGATCCGACCTAC
TGCAACTTCAGAGGTATAGGATTTATAGCCTTAATCTACTCTACTACAACTTCAGAGAGATAAGA
TCTGCTATCTTCAGTCTACTCCACTACAACTTCAAGGAGATAAGACTTGGTAACTTCAAACTGCT
ACACTGCAACTTCAGGGAGATAAGGTTAATAGCTTTAATCTACTCCACTGAAACTTCAGAGAGAT
AAGATGTGTTATATTCAGTCTGCTCCACTGCAACTTTAGGGAGACAAGACATGCAT
Found at i:43560662 original size:45 final size:45
Alignment explanation
Indices: 43560000--43560662 Score: 119
Period size: 45 Copynumber: 14.8 Consensus size: 45
43559990 TAATGGCTTT
* * * ** *
43560000 AATCTGCTCTACTGCAACTTCAGAGAGATAAGATGT-GTTATATTC
1 AATCTGCTCCACTGCAACTTCAGGGAGACAAGAT-TCGCCATCTTC
* * *
43560045 AGTCTGCTCCACTGCAACTTTAGGGAGACAAGACAT-G-CATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGACAAGA-TTCGCCATCTTC
* * * * * **
43560089 AACCTACTCCACTACAACTTCAGGGAGATAAGATTCGTCATGGT-
1 AATCTGCTCCACTGCAACTTCAGGGAGACAAGATTCGCCATCTTC
* * * * * *** * *
43560133 AGATTTGATCCGACCTGCTGCAACTTCAGAGG-TATAGGATT-TATAGCTTT
1 A-ATCTGCTCC-A----CTGCAACTTCAG-GGAGACAAGATTCGCCATCTTC
* * * * *
43560183 AATCTGCTCTACTGCAACTTCAGAGAGATAAGA-TCTGCTATCTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGACAAGATTC-GCCATCTTC
* * * * * *
43560228 AGTCTACTCCACTGCAACTTCAAGGAGATAAGACTT-G-TAACTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGACAAGA-TTCGCCATCTTC
* * * * ** *
43560272 AACCTGCTCCACTGCAACTTTAGGGAGATAAGGTTCGATATCTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGACAAGATTCGCCATCTTC
* * * * ** *
43560317 AGTCTACTCCACTGAAACTTCAGGGAGATAAGACTT--ATAACTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGACAAGA-TTCGCCATCTTC
* * * * * * *
43560361 GACCTGCTCCGCTGCAACTTCAAGGAGATAA-AGTTTG---T-TTT
1 AATCTGCTCCACTGCAACTTCAGGGAGACAAGA-TTCGCCATCTTC
* * ** * * ** *
43560402 GATCTGCTCTACTGCAACTTCAAAGAGATAAG-GTCTGTAATTTATAGCTCC
1 AATCTGCTCCACTGCAACTTCAGGGAGACAAGATTC-G----CCAT--CTTC
* * * *
43560453 AATTTGTTCCACTGCAACTTCAGGAAGACAAGATTCGCCGTCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGACAAGATTCGCCATCTTC
* * * * *
43560498 GATCTGTTTCACTGTAACTTCAGGGAGACAAGA-TCTGCAATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGACAAGATTC-GCCATCTTC
* * * ** * * **** *
43560543 AACCTGCTTCACTACTGCTT-AGGGAGATAGGA-T-GGTGGCTTA
1 AATCTGCTCCACTGCAACTTCAGGGAGACAAGATTCGCCATCTTC
* * *** * *
43560585 AATCTGTTCCACTACTGGTT-AGGGAGATAAGATTCGCCATCTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGACAAGATTCGCCATCTTC
*
43560629 GATCTGCTCCACTGCAACTTCAGGGAGACAAGAT
1 AATCTGCTCCACTGCAACTTCAGGGAGACAAGAT
43560663 CTGTGAATTT
Statistics
Matches: 449, Mismatches: 131, Indels: 76
0.68 0.20 0.12
Matches are distributed among these distances:
40 1 0.00
41 30 0.07
42 31 0.07
43 9 0.02
44 145 0.32
45 169 0.38
46 3 0.01
47 2 0.00
48 2 0.00
49 8 0.02
50 19 0.04
51 28 0.06
52 2 0.00
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (45 bp):
AATCTGCTCCACTGCAACTTCAGGGAGACAAGATTCGCCATCTTC
Found at i:43560833 original size:64 final size:64
Alignment explanation
Indices: 43560732--43560923 Score: 251
Period size: 64 Copynumber: 3.0 Consensus size: 64
43560722 TCATGTATCT
* * * ** * *
43560732 ATGCTTACGCCAAATAATTAGGATACCCTGATCGAAATGAATCAAATGCTTCTAACTAGATGTG
1 ATGCTTATGTCAAATAATTAGGATGCTATAATCGAAATGAATCAAATGCTCCTAACTAGATGTG
43560796 ATGCTTATGTCAAATAATTAGGATGCTATAATCGAAATGAATCAAATGCTCCTAACTAGATGTG
1 ATGCTTATGTCAAATAATTAGGATGCTATAATCGAAATGAATCAAATGCTCCTAACTAGATGTG
* * * * * *
43560860 TTGCATATGTCAAATAATCAGGATGCTA-AGACCGAAATGAACCAAATACTCCTAACTAGATGTG
1 ATGCTTATGTCAAATAATTAGGATGCTATA-ATCGAAATGAATCAAATGCTCCTAACTAGATGTG
43560924 TTATGAATGA
Statistics
Matches: 114, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
63 1 0.01
64 113 0.99
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (64 bp):
ATGCTTATGTCAAATAATTAGGATGCTATAATCGAAATGAATCAAATGCTCCTAACTAGATGTG
Found at i:43561754 original size:53 final size:52
Alignment explanation
Indices: 43561669--43561771 Score: 161
Period size: 53 Copynumber: 2.0 Consensus size: 52
43561659 CAGAGCGTAG
*
43561669 CTCAAAATGAATAAATTAATCAAAGATTGCAAATGCAATAAGAAGGAAATTAA
1 CTCAAAATGAATAAATTAATCAAAGATAGCAAA-GCAATAAGAAGGAAATTAA
* * *
43561722 CTCAAAATGAATAAGTTAATCAAAGATAGCAAAGCAATAGGAATGAAATT
1 CTCAAAATGAATAAATTAATCAAAGATAGCAAAGCAATAAGAAGGAAATT
43561772 TATTGGAGAC
Statistics
Matches: 46, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
52 15 0.33
53 31 0.67
ACGTcount: A:0.53, C:0.10, G:0.15, T:0.22
Consensus pattern (52 bp):
CTCAAAATGAATAAATTAATCAAAGATAGCAAAGCAATAAGAAGGAAATTAA
Found at i:43571373 original size:35 final size:35
Alignment explanation
Indices: 43571301--43571428 Score: 166
Period size: 35 Copynumber: 3.5 Consensus size: 35
43571291 ACGGGAAATG
**
43571301 CCATACCTACATTTCTTAACTCAGTATGGATTTGATAATA
1 CCATACCTACATTTCACAACTCAGTAT-G----GATAATA
*
43571341 CCATACCTACATTTCACAGCTCAGTATGGATAATA
1 CCATACCTACATTTCACAACTCAGTATGGATAATA
*
43571376 CCATACCTACATTTCACAACTCAGTATGGATGATA
1 CCATACCTACATTTCACAACTCAGTATGGATAATA
*
43571411 CCATACCAACATTTCACA
1 CCATACCTACATTTCACA
43571429 CTTTGCCATG
Statistics
Matches: 82, Mismatches: 6, Indels: 5
0.88 0.06 0.05
Matches are distributed among these distances:
35 57 0.70
39 1 0.01
40 24 0.29
ACGTcount: A:0.34, C:0.26, G:0.09, T:0.30
Consensus pattern (35 bp):
CCATACCTACATTTCACAACTCAGTATGGATAATA
Found at i:43578874 original size:35 final size:35
Alignment explanation
Indices: 43578771--43578897 Score: 159
Period size: 35 Copynumber: 3.6 Consensus size: 35
43578761 TCCCCATTGA
** *
43578771 AATACCATACCTACATTTTTCAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* *
43578806 AATGCCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
43578841 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
* *
43578876 GATACCGA-ACGTACATTTCACA
1 AATACC-ATACCTACATTTCACA
43578898 CTTTTCCATG
Statistics
Matches: 81, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
34 3 0.04
35 77 0.95
36 1 0.01
ACGTcount: A:0.34, C:0.25, G:0.13, T:0.28
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:43580866 original size:25 final size:24
Alignment explanation
Indices: 43580808--43580909 Score: 82
Period size: 24 Copynumber: 4.0 Consensus size: 24
43580798 TCTAAGCTAC
*
43580808 ATAATATA-ATAAAGTTTAAAATAT
1 ATAATATATA-AAAGTTTAAAATAA
43580832 ATAATATATAAAAGTTTAAAATAAA
1 ATAATATATAAAAGTTTAAAAT-AA
*
43580857 ATAATCTATACGTAAAA-TATAAAATAA
1 ATAA--TATA--TAAAAGTTTAAAATAA
* *
43580884 ATAATATACCAAATAATTTAAAATAA
1 ATAATATA-TAAA-AGTTTAAAATAA
43580910 TATATAGTAA
Statistics
Matches: 65, Mismatches: 5, Indels: 14
0.77 0.06 0.17
Matches are distributed among these distances:
24 23 0.35
25 11 0.17
26 9 0.14
27 10 0.15
28 7 0.11
29 5 0.08
ACGTcount: A:0.61, C:0.04, G:0.03, T:0.32
Consensus pattern (24 bp):
ATAATATATAAAAGTTTAAAATAA
Found at i:43582477 original size:29 final size:29
Alignment explanation
Indices: 43582430--43582487 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
43582420 TGATTGTTGT
43582430 GACAAATATTACAGAAAAACGAAGAAGGA
1 GACAAATATTACAGAAAAACGAAGAAGGA
*
43582459 GACAAGTATTAC-GAGAAAACGAAGAAGGA
1 GACAAATATTACAGA-AAAACGAAGAAGGA
43582488 TTGGTGTTGC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 2 0.07
29 25 0.93
ACGTcount: A:0.55, C:0.10, G:0.24, T:0.10
Consensus pattern (29 bp):
GACAAATATTACAGAAAAACGAAGAAGGA
Found at i:43591469 original size:17 final size:17
Alignment explanation
Indices: 43591447--43591505 Score: 68
Period size: 17 Copynumber: 3.4 Consensus size: 17
43591437 AAATTAAATT
43591447 ATATTATATTTTTATTC
1 ATATTATATTTTTATTC
*
43591464 ATATTAT-TTGATTGAATT-
1 ATATTATATT--TT-TATTC
43591482 ATATTATATTTTTATTC
1 ATATTATATTTTTATTC
43591499 ATATTAT
1 ATATTAT
43591506 TTGATTGATT
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
16 5 0.14
17 16 0.46
18 9 0.26
19 5 0.14
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.61
Consensus pattern (17 bp):
ATATTATATTTTTATTC
Found at i:43591482 original size:35 final size:35
Alignment explanation
Indices: 43591443--43591513 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
43591433 TAAAAAATTA
43591443 AATTATATTATATTTTTATTCATATTATTTGATTG
1 AATTATATTATATTTTTATTCATATTATTTGATTG
43591478 AATTATATTATATTTTTATTCATATTATTTGATTG
1 AATTATATTATATTTTTATTCATATTATTTGATTG
43591513 A
1 A
43591514 TTAATTGAAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.32, C:0.03, G:0.06, T:0.59
Consensus pattern (35 bp):
AATTATATTATATTTTTATTCATATTATTTGATTG
Found at i:43602000 original size:289 final size:289
Alignment explanation
Indices: 43601481--43602064 Score: 1150
Period size: 289 Copynumber: 2.0 Consensus size: 289
43601471 CAGACGCCCG
43601481 TCCCATCGCCTTTGCTCACCTACTCTGACGTTACCTGCAAAAAGCACGCAAAGCAGAAGAAAAGA
1 TCCCATCGCCTTTGCTCACCTACTCTGACGTTACCTGCAAAAAGCACGCAAAGCAGAAGAAAAGA
43601546 GAGCAAAAAAACAACAAACAAGAGAAGAGAGCAGAAAATATTTTCTATGGTAATCGGCTATAAAG
66 GAGCAAAAAAACAACAAACAAGAGAAGAGAGCAGAAAATATTTTCTATGGTAATCGGCTATAAAG
*
43601611 CCGAAAGGAAACCAAATGTAACAGGGGGGGTTTCTTTTTTTTAATACAAAAGTGTATTACATATA
131 CCGAAAGGAAACCAAATGTAAAAGGGGGGGTTTCTTTTTTTTAATACAAAAGTGTATTACATATA
43601676 CAGGTGGAGAAAAAAAAAAGAGAAAAGCTTCAAAGGTTTTTTATCTTCGTTTTAAGTTCTTGTTC
196 CAGGTGGAGAAAAAAAAAAGAGAAAAGCTTCAAAGGTTTTTTATCTTCGTTTTAAGTTCTTGTTC
43601741 GTTTTTGTTTTTTTATTGATTACTTTATA
261 GTTTTTGTTTTTTTATTGATTACTTTATA
*
43601770 TCCCATCGCCTTTGCTCACCTACTCTGACGTTACCTGCAAAAATCACGCAAAGCAGAAGAAAAGA
1 TCCCATCGCCTTTGCTCACCTACTCTGACGTTACCTGCAAAAAGCACGCAAAGCAGAAGAAAAGA
43601835 GAGCAAAAAAACAACAAACAAGAGAAGAGAGCAGAAAATATTTTCTATGGTAATCGGCTATAAAG
66 GAGCAAAAAAACAACAAACAAGAGAAGAGAGCAGAAAATATTTTCTATGGTAATCGGCTATAAAG
43601900 CCGAAAGGAAACCAAATGTAAAAGGGGGGGTTTCTTTTTTTTAATACAAAAGTGTATTACATATA
131 CCGAAAGGAAACCAAATGTAAAAGGGGGGGTTTCTTTTTTTTAATACAAAAGTGTATTACATATA
43601965 CAGGTGGAGAAAAAAAAAAGAGAAAAGCTTCAAAGGTTTTTTATCTTCGTTTTAAGTTCTTGTTC
196 CAGGTGGAGAAAAAAAAAAGAGAAAAGCTTCAAAGGTTTTTTATCTTCGTTTTAAGTTCTTGTTC
43602030 GTTTTTGTTTTTTTATTGATTACTTTATA
261 GTTTTTGTTTTTTTATTGATTACTTTATA
43602059 TCCCAT
1 TCCCAT
43602065 TTATATATGT
Statistics
Matches: 293, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
289 293 1.00
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.30
Consensus pattern (289 bp):
TCCCATCGCCTTTGCTCACCTACTCTGACGTTACCTGCAAAAAGCACGCAAAGCAGAAGAAAAGA
GAGCAAAAAAACAACAAACAAGAGAAGAGAGCAGAAAATATTTTCTATGGTAATCGGCTATAAAG
CCGAAAGGAAACCAAATGTAAAAGGGGGGGTTTCTTTTTTTTAATACAAAAGTGTATTACATATA
CAGGTGGAGAAAAAAAAAAGAGAAAAGCTTCAAAGGTTTTTTATCTTCGTTTTAAGTTCTTGTTC
GTTTTTGTTTTTTTATTGATTACTTTATA
Found at i:43603274 original size:141 final size:140
Alignment explanation
Indices: 43602928--43603885 Score: 1075
Period size: 141 Copynumber: 6.9 Consensus size: 140
43602918 CAAAACAGTG
* * * *
43602928 CTAATACGACACT-TATGGGGCAACACTTTCTTAAGTGTTGGGATAGAC-TGGCCAACAAACGCT
1 CTAAGACGACACTAT-TGTGGCAACACTTTCTTAAGTGTTGGGATAGACAT-GCCAATATACGCT
* * * ** * * *
43602991 TTAGCCAACTTTTTGTATAAGGGTTGGGATATGCATGTTTAAAGCAACTCTTAAATAAGAGTTGG
64 TTAGGCAACTCTTTGTATAAGGGTTGGGATATGTATGCCTAAGGCAACGCTTGAATAAGAGTTGG
* * *
43603056 CTTTGTTTAGCC
129 TTTTGTATAGTC
* * * * * * * * *
43603068 CTAAGACAACACTATTATCGCGACGCTTTTTTAAGTGTTGCGATAGACATGCCAAGATACACTTT
1 CTAAGACGACACTATTGTGGCAACACTTTCTTAAGTGTTGGGATAGACATGCCAATATACGCTTT
* * * *
43603133 AGGCAACTCTTTATATAAGGCTTGAGATATGTATGCCTAAGGCAATGCTTGAATAAGAGTTGGTT
66 AGGCAACTCTTTGTATAAGGGTTGGGATATGTATGCCTAAGGCAACGCTTGAATAAGAGTTGGTT
43603198 TCTGTATAGTC
131 T-TGTATAGTC
* * * *
43603209 TTAAGACGACACTATTTTGGCAACACTTTCTTATGTGTTGGGATAGACATGCCAGTATACGCTTT
1 CTAAGACGACACTATTGTGGCAACACTTTCTTAAGTGTTGGGATAGACATGCCAATATACGCTTT
*
43603274 AGGCAACTCTTTGTATAAGGGTTGGGAGATGTATGCCTAAGGCAACGCTTGAATAAGAGTTGGTT
66 AGGCAACTCTTTGTATAAGGGTTGGGATATGTATGCCTAAGGCAACGCTTGAATAAGAGTTGGTT
*
43603339 TCTGTGTAGTC
131 T-TGTATAGTC
* * * *
43603350 CTAAGACGACACTATTTTGGCAACACTTTCTTATGTTTTGGGATAGACATGCCAATATATGCTTT
1 CTAAGACGACACTATTGTGGCAACACTTTCTTAAGTGTTGGGATAGACATGCCAATATACGCTTT
* * *
43603415 AAGCAACTCTTTGTATAAGGGTTGGGAGATGTATGCCAAAGGCAACGCTTGAATAAGAGTTGGCT
66 AGGCAACTCTTTGTATAAGGGTTGGGATATGTATGCCTAAGGCAACGCTTGAATAAGAGTTGG-T
* *
43603480 TTTGTGTAGCC
130 TTTGTATAGTC
* * *
43603491 CTAAGACGACATTATTGT-GCGACACTTTCTTAAGTGTTGGGATATACATGCCAATATACGCTTT
1 CTAAGACGACACTATTGTGGCAACACTTTCTTAAGTGTTGGGATAGACATGCCAATATACGCTTT
* *
43603555 AGGCAACTCTTTGTATAAGGGTTGGAATATGTATGCCTAAGGCAATGCTTGAATAAGAGTTGGCT
66 AGGCAACTCTTTGTATAAGGGTTGGGATATGTATGCCTAAGGCAACGCTTGAATAAGAGTTGG-T
43603620 TTTGTATAGTC
130 TTTGTATAGTC
* * *
43603631 CTAAGACGACACTATTGTGGCGACACTTTCTTAAGTGTTGGGATAGACTTGCCAACT-TATG-TT
1 CTAAGACGACACTATTGTGGCAACACTTTCTTAAGTGTTGGGATAGACATGCCAA-TATACGCTT
* * * * * *
43603694 TTGGCCAACTCTTTGTATAAGGGTTGGTATATGTATGCCTAAGTCAACGCTTAAATAATATTTGG
65 TAGG-CAACTCTTTGTATAAGGGTTGGGATATGTATGCCTAAGGCAACGCTTGAATAAGAGTTGG
* **
43603759 ATTTGTCCAGTC
129 TTTTGTATAGTC
* * * * * *
43603771 CTAAGACG--A-TA-TAT----ATA-TTTC-TAAGTGTTGGGATAGACTTTCCGACATACGCTTT
1 CTAAGACGACACTATTGTGGCAACACTTTCTTAAGTGTTGGGATAGACATGCCAATATACGCTTT
* * * ** *
43603826 -GGTCAATTTTTTGTATAAGGGTTGGGATATGTATGCTTAAGGCAAAACTTAAATAAGAGT
66 AGG-CAACTCTTTGTATAAGGGTTGGGATATGTATGCCTAAGGCAACGCTTGAATAAGAGT
43603886 CGGCTTTATC
Statistics
Matches: 713, Mismatches: 96, Indels: 28
0.85 0.11 0.03
Matches are distributed among these distances:
130 75 0.11
131 7 0.01
132 2 0.00
136 2 0.00
137 2 0.00
138 1 0.00
140 251 0.35
141 369 0.52
142 4 0.01
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.34
Consensus pattern (140 bp):
CTAAGACGACACTATTGTGGCAACACTTTCTTAAGTGTTGGGATAGACATGCCAATATACGCTTT
AGGCAACTCTTTGTATAAGGGTTGGGATATGTATGCCTAAGGCAACGCTTGAATAAGAGTTGGTT
TTGTATAGTC
Found at i:43603573 original size:281 final size:277
Alignment explanation
Indices: 43602950--43603885 Score: 1084
Period size: 281 Copynumber: 3.4 Consensus size: 277
43602940 TTATGGGGCA
* * *
43602950 ACACTTTCTTAAGTGTTGGGATAGAC-TGGCCAACAAACGCTTTAGCCAACTTTTTGTATAAGGG
1 ACACTTTCTTAAGTGTTGGGATAGACAT-GCCAACATACGCTTTAGGCAACTCTTTGTATAAGGG
* ** * * * * * *
43603014 TTGGGATATGCATGTTTAAAGCAACTCTTAAATAAGAGTTGGCTTTGTTTAGCCCTAAGACAACA
65 TTGGGATATGTATGCCTAAGGCAACGCTTAAATAAGAGTTGGTTTTGTATAGTCCTAAGACGACA
* * * * * **
43603079 CTATTATCGCGACGCTTTTTTAAGTGTTGCGATAGACATGCCAAGATACACTTTAGGCAACTCTT
130 CTATTATGGCGACACTTTCTTAAGTGTTGGGATAGACATGCCAATATATGCTTTAGGCAACTCTT
* * * *
43603144 TATATAAGGCTTGAGATATGTATGCCTAAGGCAATGCTTGAATAAGAGTTGGTTTCTGTATAGTC
195 TGTATAAGGGTTGGGATATGTATGCCTAAGGCAACGCTTGAATAAGAGTTGGTTT-TGTATAGTC
* *
43603209 TTAAGACGACACTATTTTGGC
259 CTAAGACGACA-TATTAT-GC
* **
43603230 AACACTTTCTTATGTGTTGGGATAGACATGCCAGTATACGCTTTAGGCAACTCTTTGTATAAGGG
1 -ACACTTTCTTAAGTGTTGGGATAGACATGCCAACATACGCTTTAGGCAACTCTTTGTATAAGGG
* * *
43603295 TTGGGAGATGTATGCCTAAGGCAACGCTTGAATAAGAGTTGGTTTCTGTGTAGTCCTAAGACGAC
65 TTGGGATATGTATGCCTAAGGCAACGCTTAAATAAGAGTTGGTTT-TGTATAGTCCTAAGACGAC
* * * * *
43603360 ACTATTTTGGCAACACTTTCTTATGTTTTGGGATAGACATGCCAATATATGCTTTAAGCAACTCT
129 ACTATTATGGCGACACTTTCTTAAGTGTTGGGATAGACATGCCAATATATGCTTTAGGCAACTCT
* * * *
43603425 TTGTATAAGGGTTGGGAGATGTATGCCAAAGGCAACGCTTGAATAAGAGTTGGCTTTTGTGTAGC
194 TTGTATAAGGGTTGGGATATGTATGCCTAAGGCAACGCTTGAATAAGAGTTGG-TTTTGTATAGT
*
43603490 CCTAAGACGACATTATTGTGC
258 CCTAAGACGACA-TATTATGC
* *
43603511 GACACTTTCTTAAGTGTTGGGATATACATGCCAATATACGCTTTAGGCAACTCTTTGTATAAGGG
1 -ACACTTTCTTAAGTGTTGGGATAGACATGCCAACATACGCTTTAGGCAACTCTTTGTATAAGGG
* * *
43603576 TTGGAATATGTATGCCTAAGGCAATGCTTGAATAAGAGTTGGCTTTTGTATAGTCCTAAGACGAC
65 TTGGGATATGTATGCCTAAGGCAACGCTTAAATAAGAGTTGG-TTTTGTATAGTCCTAAGACGAC
* * *
43603641 ACTATTGTGGCGACACTTTCTTAAGTGTTGGGATAGACTTGCCAACT-TATG-TTTTGGCCAACT
129 ACTATTATGGCGACACTTTCTTAAGTGTTGGGATAGACATGCCAA-TATATGCTTTAGG-CAACT
* * * * * * **
43603704 CTTTGTATAAGGGTTGGTATATGTATGCCTAAGTCAACGCTTAAATAATATTTGGATTTGTCCAG
192 CTTTGTATAAGGGTTGGGATATGTATGCCTAAGGCAACGCTTGAATAAGAGTTGGTTTTGTATAG
43603769 TCCTAAGACG--ATA-TAT--
257 TCCTAAGACGACATATTATGC
* * * * * *
43603785 ATA-TTTC-TAAGTGTTGGGATAGACTTTCCGACATACGCTTT-GGTCAATTTTTTGTATAAGGG
1 ACACTTTCTTAAGTGTTGGGATAGACATGCCAACATACGCTTTAGG-CAACTCTTTGTATAAGGG
* **
43603847 TTGGGATATGTATGCTTAAGGCAAAACTTAAATAAGAGT
65 TTGGGATATGTATGCCTAAGGCAACGCTTAAATAAGAGT
43603886 CGGCTTTATC
Statistics
Matches: 568, Mismatches: 80, Indels: 24
0.85 0.12 0.04
Matches are distributed among these distances:
270 2 0.00
271 79 0.14
272 4 0.01
273 2 0.00
276 2 0.00
277 2 0.00
278 1 0.00
280 20 0.04
281 310 0.55
282 143 0.25
283 3 0.01
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.34
Consensus pattern (277 bp):
ACACTTTCTTAAGTGTTGGGATAGACATGCCAACATACGCTTTAGGCAACTCTTTGTATAAGGGT
TGGGATATGTATGCCTAAGGCAACGCTTAAATAAGAGTTGGTTTTGTATAGTCCTAAGACGACAC
TATTATGGCGACACTTTCTTAAGTGTTGGGATAGACATGCCAATATATGCTTTAGGCAACTCTTT
GTATAAGGGTTGGGATATGTATGCCTAAGGCAACGCTTGAATAAGAGTTGGTTTTGTATAGTCCT
AAGACGACATATTATGC
Found at i:43603717 original size:422 final size:421
Alignment explanation
Indices: 43602946--43603779 Score: 1162
Period size: 422 Copynumber: 2.0 Consensus size: 421
43602936 ACACTTATGG
*
43602946 GGCAACACTTTCTTAAGTGTTGGGATAGACTGGCCAACAAACGCTTTAGCCAACTTTTTGTATAA
1 GGCAACACTTTCTTAAGTGTTGGGATAGACTGGCCAACAAACGCTTTAGCCAACTCTTTGTATAA
* ** * *
43603011 GGGTTGGGATATGCATGTTTAAAGCAACTCTTAAATAAGAGTTGGCTTTGTTTAGCCCTAAGACA
66 GGGTTGGGAGATGCATGTCCAAAGCAACGCTTAAATAAGAGTTGGCTTTGTGTAGCCCTAAGACA
* *
43603076 ACACTATTATCGCGACGCTTTTTTAAGTGTTGCGATAGACATGCCAAGATACACTTTAGGCAACT
131 ACACTATTATCGCGACACTTTCTTAAGTGTTGCGATAGACATGCCAAGATACACTTTAGGCAACT
43603141 CTTTATATAAGGCTTGAGATATGTATGCCTAAGGCAATGCTTGAATAAGAGTTGGTTTCTGTATA
196 CTTTATATAAGGCTTGAGATATGTATGCCTAAGGCAATGCTTGAATAAGAGTTGGTTTCTGTATA
* * * *
43603206 GTCTTAAGACGACACTATTTTGGCAACACTTTCTTATGTGTTGGGATAGACATGCCAGTATACGC
261 GTCCTAAGACGACACTATTGTGGCAACACTTTCTTAAGTGTTGGGATAGACATGCCACTATACGC
*
43603271 TTTAGGCAACTCTTTGTATAAGGGTTGGGAGATGTATGCCTAAGGCAACGCTTGAATAAGAGTTG
326 TTTAGGCAACTCTTTGTATAAGGGTTGGGAGATGTATGCCTAAGGCAACGCTTAAATAAGAGTTG
* **
43603336 GTTTCTGTGTAGTCCTAAGACGACACTATTTT
391 GATT-TGTCCAGTCCTAAGACGACACTATTTT
* * * * *
43603368 GGCAACACTTTCTTATGTTTTGGGATAGACAT-GCCAATATATGCTTTAAG-CAACTCTTTGTAT
1 GGCAACACTTTCTTAAGTGTTGGGATAGAC-TGGCCAACAAACGCTTT-AGCCAACTCTTTGTAT
* *
43603431 AAGGGTTGGGAGATGTATG-CCAAAGGCAACGCTTGAATAAGAGTTGGCTTTTGTGTAGCCCTAA
64 AAGGGTTGGGAGATGCATGTCCAAA-GCAACGCTTAAATAAGAGTTGGC-TTTGTGTAGCCCTAA
* * * * * * *
43603495 GACGACATTATTGT-GCGACACTTTCTTAAGTGTTGGGATATACATGCCAATATACGCTTTAGGC
127 GACAACACTATTATCGCGACACTTTCTTAAGTGTTGCGATAGACATGCCAAGATACACTTTAGGC
* *
43603559 AACTCTTTGTATAAGGGTTG-GAATATGTATGCCTAAGGCAATGCTTGAATAAGAGTTGGCTTT-
192 AACTCTTTATATAAGGCTTGAG-ATATGTATGCCTAAGGCAATGCTTGAATAAGAGTTGG-TTTC
* *
43603622 TGTATAGTCCTAAGACGACACTATTGTGGCGACACTTTCTTAAGTGTTGGGATAGACTTGCCAAC
255 TGTATAGTCCTAAGACGACACTATTGTGGCAACACTTTCTTAAGTGTTGGGATAGACATGCC-AC
* * * * *
43603687 T-TATG-TTTTGGCCAACTCTTTGTATAAGGGTTGGTATATGTATGCCTAAGTCAACGCTTAAAT
319 TATACGCTTTAGG-CAACTCTTTGTATAAGGGTTGGGAGATGTATGCCTAAGGCAACGCTTAAAT
* *
43603750 AATATTTGGATTTGTCCAGTCCTAAGACGA
383 AAGAGTTGGATTTGTCCAGTCCTAAGACGA
43603780 TATATATATT
Statistics
Matches: 363, Mismatches: 41, Indels: 17
0.86 0.10 0.04
Matches are distributed among these distances:
421 25 0.07
422 305 0.84
423 33 0.09
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.33
Consensus pattern (421 bp):
GGCAACACTTTCTTAAGTGTTGGGATAGACTGGCCAACAAACGCTTTAGCCAACTCTTTGTATAA
GGGTTGGGAGATGCATGTCCAAAGCAACGCTTAAATAAGAGTTGGCTTTGTGTAGCCCTAAGACA
ACACTATTATCGCGACACTTTCTTAAGTGTTGCGATAGACATGCCAAGATACACTTTAGGCAACT
CTTTATATAAGGCTTGAGATATGTATGCCTAAGGCAATGCTTGAATAAGAGTTGGTTTCTGTATA
GTCCTAAGACGACACTATTGTGGCAACACTTTCTTAAGTGTTGGGATAGACATGCCACTATACGC
TTTAGGCAACTCTTTGTATAAGGGTTGGGAGATGTATGCCTAAGGCAACGCTTAAATAAGAGTTG
GATTTGTCCAGTCCTAAGACGACACTATTTT
Found at i:43604047 original size:7 final size:7
Alignment explanation
Indices: 43604035--43604111 Score: 61
Period size: 7 Copynumber: 11.4 Consensus size: 7
43604025 ATGGTGTATA
43604035 GTTTAGG
1 GTTTAGG
43604042 GTTTAGG
1 GTTTAGG
43604049 GTTTAGG
1 GTTTAGG
43604056 GTTTAGG
1 GTTTAGG
* *
43604063 ATTTAAG
1 GTTTAGG
* *
43604070 ATTTAAG
1 GTTTAGG
* *
43604077 GTATAAG
1 GTTTAGG
* *
43604084 GTGTGGG
1 GTTTAGG
43604091 GTTTA--
1 GTTTAGG
43604096 G-TTAGG
1 GTTTAGG
43604102 GTTTAGG
1 GTTTAGG
43604109 GTT
1 GTT
43604112 AAGAGTTAGC
Statistics
Matches: 58, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
4 3 0.05
5 1 0.02
6 1 0.02
7 53 0.91
ACGTcount: A:0.21, C:0.00, G:0.38, T:0.42
Consensus pattern (7 bp):
GTTTAGG
Found at i:43605144 original size:29 final size:29
Alignment explanation
Indices: 43605111--43605172 Score: 115
Period size: 29 Copynumber: 2.1 Consensus size: 29
43605101 ATTTAGGGTC
43605111 TGGCAATAGTTTTCAATTACTTGAACACT
1 TGGCAATAGTTTTCAATTACTTGAACACT
*
43605140 TGGCAATAGTTTTCAATTACTTGAATACT
1 TGGCAATAGTTTTCAATTACTTGAACACT
43605169 TGGC
1 TGGC
43605173 TGTTTTCATT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.39
Consensus pattern (29 bp):
TGGCAATAGTTTTCAATTACTTGAACACT
Found at i:43615887 original size:46 final size:44
Alignment explanation
Indices: 43615828--43615961 Score: 144
Period size: 46 Copynumber: 3.0 Consensus size: 44
43615818 ACAGGATAGA
*
43615828 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGG-ATTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCA-TTGGAG
* *
43615874 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* ** * *
43615918 ACAGGAATAATTCATGTAAGTCCATGTCAAAGATATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATAT-TAA-ATATGGCATTGG
43615962 CAGGATATTG
Statistics
Matches: 75, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
44 35 0.47
45 2 0.03
46 38 0.51
ACGTcount: A:0.36, C:0.13, G:0.24, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:43615923 original size:44 final size:45
Alignment explanation
Indices: 43615828--43615942 Score: 144
Period size: 44 Copynumber: 2.6 Consensus size: 45
43615818 ACAGGATAGA
*
43615828 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGATTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGATTTGGAG
* *
43615874 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCA-TTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGG-ATTTGGAG
* **
43615918 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
43615943 GTCAAAGATA
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
44 34 0.56
45 1 0.02
46 26 0.43
ACGTcount: A:0.37, C:0.13, G:0.23, T:0.28
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGATTTGGAG
Found at i:43628141 original size:18 final size:18
Alignment explanation
Indices: 43628080--43628142 Score: 54
Period size: 18 Copynumber: 3.3 Consensus size: 18
43628070 CTCTGGTGAA
*
43628080 CTTCAGTTAGCCTTCGGG
1 CTTCAGTTAGACTTCGGG
* * * *
43628098 CATCCGTTTAGCACTTATGTG
1 CTTCAG-TTAG-ACTT-CGGG
43628119 CTTCAGTTAGACTTCGGG
1 CTTCAGTTAGACTTCGGG
43628137 CTTCAG
1 CTTCAG
43628143 ATCACGATGT
Statistics
Matches: 33, Mismatches: 9, Indels: 6
0.69 0.19 0.12
Matches are distributed among these distances:
18 12 0.36
19 8 0.24
20 7 0.21
21 6 0.18
ACGTcount: A:0.16, C:0.25, G:0.24, T:0.35
Consensus pattern (18 bp):
CTTCAGTTAGACTTCGGG
Found at i:43630634 original size:45 final size:45
Alignment explanation
Indices: 43630570--43630656 Score: 147
Period size: 45 Copynumber: 1.9 Consensus size: 45
43630560 CAGTTGTCTC
* *
43630570 ATAATTTTTTGGTGTCATGGGAATCAAGTCGACAAAATGTTTTGT
1 ATAATTTTTTGATATCATGGGAATCAAGTCGACAAAATGTTTTGT
*
43630615 ATAATTTTTTGATATCATGGGAATCAAGTTGACAAAATGTTT
1 ATAATTTTTTGATATCATGGGAATCAAGTCGACAAAATGTTT
43630657 GCAACGTGTT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.40
Consensus pattern (45 bp):
ATAATTTTTTGATATCATGGGAATCAAGTCGACAAAATGTTTTGT
Found at i:43631115 original size:36 final size:37
Alignment explanation
Indices: 43631054--43631144 Score: 114
Period size: 36 Copynumber: 2.5 Consensus size: 37
43631044 AAGTCAATAC
* * *
43631054 CAACCTTTTCTAAAAGTTACCTTAGACGAGATTTATCT
1 CAACCTTTTTTAAAGGTTACCTTAGACG-GATTTATCA
* *
43631092 CAA-CTTTTTT-AAGGTTACCTTAGATGGGTTTATCA
1 CAACCTTTTTTAAAGGTTACCTTAGACGGATTTATCA
43631127 CAACCTTTTTTAAAGGTT
1 CAACCTTTTTTAAAGGTT
43631145 TCATTAGATA
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
35 10 0.22
36 21 0.46
37 12 0.26
38 3 0.07
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.41
Consensus pattern (37 bp):
CAACCTTTTTTAAAGGTTACCTTAGACGGATTTATCA
Found at i:43631152 original size:37 final size:35
Alignment explanation
Indices: 43631085--43631153 Score: 93
Period size: 37 Copynumber: 1.9 Consensus size: 35
43631075 TTAGACGAGA
* *
43631085 TTTATCTCAACTTTTTTAAGGTTACCTTAGATGGG
1 TTTATCACAACTTTTTTAAGGTTACATTAGATGGG
*
43631120 TTTATCACAACCTTTTTTAAAGGTTTCATTAGAT
1 TTTATCACAA-CTTTTTT-AAGGTTACATTAGAT
43631154 AATATTTATC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
35 9 0.31
36 7 0.24
37 13 0.45
ACGTcount: A:0.26, C:0.14, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTATCACAACTTTTTTAAGGTTACATTAGATGGG
Found at i:43631161 original size:73 final size:73
Alignment explanation
Indices: 43631012--43631480 Score: 377
Period size: 73 Copynumber: 6.4 Consensus size: 73
43631002 TGTAAATAGG
* * * * ** * * * * *
43631012 TCTATCCCAACATTGTTAACGTTGTCTTAGATAAGTCAATACCAACCTTTTCTAAAAGTTACCTT
1 TCTATCCCAACCTTTTTAAGGTTGCCTTAGATGGGTCTATCCCAACCTTTTTTAAAGGTTGCCTT
** *
43631077 AGACGAGA
66 AGATAATA
* * * * * * * *
43631085 TTTATCTCAACTTTTTTAAGGTTACCTTAGATGGGTTTATCACAACCTTTTTTAAAGGTTTCATT
1 TCTATCCCAACCTTTTTAAGGTTGCCTTAGATGGGTCTATCCCAACCTTTTTTAAAGGTTGCCTT
43631150 AGATAATA
66 AGATAATA
* ** * * ** * *
43631158 TTTATCCCAACCTTTCCAAGGTTGCTTTAAATGGACCTATGCCAACCTTTTTTAAAAGTTGCCTT
1 TCTATCCCAACCTTTTTAAGGTTGCCTTAGATGGGTCTATCCCAACCTTTTTTAAAGGTTGCCTT
* **
43631223 AGACAAGG
66 AGATAATA
* * * *
43631231 TCCATCCCAACCATTTTAATGTTGCCTTAGATGGGTCTATCCCAACATTTTTTAAAGGTTGCCTT
1 TCTATCCCAACCTTTTTAAGGTTGCCTTAGATGGGTCTATCCCAACCTTTTTTAAAGGTTGCCTT
*
43631296 AGAT-ATGG
66 AGATAAT-A
* * *
43631304 TCTATCCCAACCTATTTAAGGTTGCCTTAGATAGGTCTATCCCAACCTTTTTTTATAA-GTTGTC
1 TCTATCCCAACCTTTTTAAGGTTGCCTTAGATGGGTCTATCCCAACC-TTTTTTA-AAGGTTGCC
* **
43631368 TTAGACAAGG
64 TTAGATAATA
* * * * *
43631378 TCTATACCAACCTTTTTAAGGTTGCCTTAGACGGATCTATCCCAACAGTTTTTAAAAGG-TGCCT
1 TCTATCCCAACCTTTTTAAGGTTGCCTTAGATGGGTCTATCCCAAC-CTTTTTTAAAGGTTGCCT
* *
43631442 TAGACAAGA
65 TAGATAATA
* ** *
43631451 ACTATAGCAACCTTTTTAATGTTGCCTTAG
1 TCTATCCCAACCTTTTTAAGGTTGCCTTAG
43631481 CAAGGTTTCT
Statistics
Matches: 316, Mismatches: 74, Indels: 12
0.79 0.18 0.03
Matches are distributed among these distances:
72 1 0.00
73 246 0.78
74 66 0.21
75 3 0.01
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.37
Consensus pattern (73 bp):
TCTATCCCAACCTTTTTAAGGTTGCCTTAGATGGGTCTATCCCAACCTTTTTTAAAGGTTGCCTT
AGATAATA
Found at i:43631217 original size:146 final size:145
Alignment explanation
Indices: 43631053--43631433 Score: 426
Period size: 146 Copynumber: 2.6 Consensus size: 145
43631043 TAAGTCAATA
* * * * * * *
43631053 CCAACCTTTTCTAAAAGTTACCTTAGACGAGATTTATCTCAACTTTTTTAAGGTTACCTTAGATG
1 CCAACCTTTTTTAAAAGTTGCCTTAGACAAGGTCTATC-CAACCTTTTTAAGGTTGCCTTAGATG
* * * *
43631118 GGTTTATCACAACCTTTTTTAAAGGTTTCATTAGATAAT-ATTTATCCCAACCT-TTCCAAGGTT
65 GGTCTATCACAACATTTTTTAAAGGTTGCATTAGAT-ATGATCTATCCCAACCTATT-CAAGGTT
* *
43631181 GCTTTAAAT-GGACCTATG
128 GCCTTAAATAGG-CCTATC
* * *
43631199 CCAACCTTTTTTAAAAGTTGCCTTAGACAAGGTCCATCCCAACCATTTTAATGTTGCCTTAGATG
1 CCAACCTTTTTTAAAAGTTGCCTTAGACAAGGTCTAT-CCAACCTTTTTAAGGTTGCCTTAGATG
* * * *
43631264 GGTCTATCCCAACATTTTTTAAAGGTTGCCTTAGATATGGTCTATCCCAACCTATTTAAGGTTGC
65 GGTCTATCACAACATTTTTTAAAGGTTGCATTAGATATGATCTATCCCAACCTATTCAAGGTTGC
* *
43631329 CTTAGATAGGTCTATC
130 CTTAAATAGGCCTATC
* * *
43631345 CCAACCTTTTTTTATAAGTTGTCTTAGACAAGGTCTATACCAACCTTTTTAAGGTTGCCTTAGAC
1 CCAACC-TTTTTTAAAAGTTGCCTTAGACAAGGTCTAT-CCAACCTTTTTAAGGTTGCCTTAGAT
* * *
43631410 GGATCTATCCCAACAGTTTTTAAA
64 GGGTCTATCACAACATTTTTTAAA
43631434 AGGTGCCTTA
Statistics
Matches: 199, Mismatches: 31, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
145 2 0.01
146 119 0.60
147 78 0.39
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.37
Consensus pattern (145 bp):
CCAACCTTTTTTAAAAGTTGCCTTAGACAAGGTCTATCCAACCTTTTTAAGGTTGCCTTAGATGG
GTCTATCACAACATTTTTTAAAGGTTGCATTAGATATGATCTATCCCAACCTATTCAAGGTTGCC
TTAAATAGGCCTATC
Found at i:43631467 original size:37 final size:37
Alignment explanation
Indices: 43631194--43631469 Score: 154
Period size: 38 Copynumber: 7.5 Consensus size: 37
43631184 TTAAATGGAC
* * *
43631194 CTATGCCAACCTTTTTTAAAAGTTGCCTTAGACAAGGT
1 CTATACCAACC-TTTTTAAAAGGTGCCTTAGACAAGAT
* * * * * ** *
43631232 CCATCCCAACCATTTT-AATGTTGCCTTAGA-TGGGT
1 CTATACCAACCTTTTTAAAAGGTGCCTTAGACAAGAT
* * * * * *
43631267 CTATCCCAACATTTTTTAAAGGTTGCCTTAGATATGGT
1 CTATACCAACCTTTTTAAAAGG-TGCCTTAGACAAGAT
* * * *
43631305 CTATCCCAACCTATTT--AAGGTTGCCTTAGA-TAGGT
1 CTATACCAACCTTTTTAAAAGG-TGCCTTAGACAAGAT
* * * * *
43631340 CTATCCCAACCTTTTTTTATAAGTTGTCTTAGACAAGGT
1 CTATACCAACC--TTTTTAAAAGGTGCCTTAGACAAGAT
*
43631379 CTATACCAACCTTTTT--AAGGTTGCCTTAGAC-GGAT
1 CTATACCAACCTTTTTAAAAGG-TGCCTTAGACAAGAT
* * *
43631414 CTATCCCAACAGTTTTTAAAAGGTGCCTTAGACAAGAA
1 CTATACCAAC-CTTTTTAAAAGGTGCCTTAGACAAGAT
*
43631452 CTATAGCAACCTTTTTAA
1 CTATACCAACCTTTTTAA
43631470 TGTTGCCTTA
Statistics
Matches: 192, Mismatches: 33, Indels: 27
0.76 0.13 0.11
Matches are distributed among these distances:
35 44 0.23
36 44 0.23
37 39 0.20
38 48 0.25
39 17 0.09
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (37 bp):
CTATACCAACCTTTTTAAAAGGTGCCTTAGACAAGAT
Found at i:43631499 original size:220 final size:219
Alignment explanation
Indices: 43631099--43631500 Score: 486
Period size: 220 Copynumber: 1.8 Consensus size: 219
43631089 TCTCAACTTT
* * * * * *
43631099 TTTAAGGTTACCTTAGATGGGTTTATCACAACCTTTTTTAAAGGTTTCATTAGATAATATTTATC
1 TTTAAGGTTACCTTAGATAGGTCTATCACAACCTTTTTTAAAGGTTTCATTAGACAAGATCTATA
* * * ** *
43631164 CCAACCTTTCCAAGGTTGCTTTAAATGGACCTATGCCAACCTTTTTTAAAAGTTGCCTTAGACAA
66 CCAACCTTTCCAAGGTTGCCTTAAACGGACCTATCCCAACAGTTTTTAAAAGGTGCCTTAGACAA
** * * *
43631229 GGTCCATCCCAACCATTTTAATGTTGCCTTAGATGGGTCTATCCCAACATTTTTTAAAGGTTGCC
131 GAACCATACCAACCATTTTAATGTTGCCTTAGATAGGTCTATCACAACATTTTTTAAAGGTTGCC
43631294 TTAGATATGGTCTATCCCAACCTA
196 TTAGATATGGTCTATCCCAACCTA
* * *
43631318 TTTAAGGTTGCCTTAGATAGGTCTATCCCAACCTTTTTTTATAA-GTTGTC-TTAGACAAGGTCT
1 TTTAAGGTTACCTTAGATAGGTCTATCACAACC-TTTTTTA-AAGGTT-TCATTAGACAAGATCT
** * *
43631381 ATACCAACCTTTTTAAGGTTGCCTTAGACGGATCTATCCCAACAGTTTTTAAAAGGTGCCTTAGA
63 ATACCAACCTTTCCAAGGTTGCCTTAAACGGACCTATCCCAACAGTTTTTAAAAGGTGCCTTAGA
* * * * *
43631446 CAAGAACTATAGCAACCTTTTTAATGTTGCCTTAGCA-AGGTTTCTCACAACATTT
128 CAAGAACCATACCAACCATTTTAATGTTGCCTTAG-ATAGGTCTATCACAACATTT
43631501 GAAAAGGTTG
Statistics
Matches: 150, Mismatches: 29, Indels: 7
0.81 0.16 0.04
Matches are distributed among these distances:
219 29 0.19
220 116 0.77
221 5 0.03
ACGTcount: A:0.28, C:0.21, G:0.15, T:0.37
Consensus pattern (219 bp):
TTTAAGGTTACCTTAGATAGGTCTATCACAACCTTTTTTAAAGGTTTCATTAGACAAGATCTATA
CCAACCTTTCCAAGGTTGCCTTAAACGGACCTATCCCAACAGTTTTTAAAAGGTGCCTTAGACAA
GAACCATACCAACCATTTTAATGTTGCCTTAGATAGGTCTATCACAACATTTTTTAAAGGTTGCC
TTAGATATGGTCTATCCCAACCTA
Found at i:43632475 original size:26 final size:25
Alignment explanation
Indices: 43632395--43632475 Score: 81
Period size: 26 Copynumber: 3.1 Consensus size: 25
43632385 TAAACTATCT
* *
43632395 TACATTATTTATTTCAATTTGTTTTG
1 TACATTATTCATTT-AATTTGTTTTA
* * *
43632421 TACATTATTCGTTTTAAATTGTTTCA
1 TACATTATTC-ATTTAATTTGTTTTA
*
43632447 TACATTATTCATTCTAATTTATTTTA
1 TACATTATTCATT-TAATTTGTTTTA
43632473 TAC
1 TAC
43632476 TAGTTACTTC
Statistics
Matches: 44, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
25 2 0.05
26 39 0.89
27 3 0.07
ACGTcount: A:0.27, C:0.11, G:0.05, T:0.57
Consensus pattern (25 bp):
TACATTATTCATTTAATTTGTTTTA
Found at i:43633960 original size:18 final size:20
Alignment explanation
Indices: 43633924--43633962 Score: 64
Period size: 18 Copynumber: 2.0 Consensus size: 20
43633914 ATACACTTTT
43633924 AAATTATCATTTAATATATG
1 AAATTATCATTTAATATATG
43633944 AAATTA-CATTT-ATATATG
1 AAATTATCATTTAATATATG
43633962 A
1 A
43633963 TTTTAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 8 0.42
19 5 0.26
20 6 0.32
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.44
Consensus pattern (20 bp):
AAATTATCATTTAATATATG
Found at i:43638912 original size:23 final size:23
Alignment explanation
Indices: 43638878--43638928 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
43638868 ATGAATAATG
*
43638878 TTAAAATATTTT-TTTACCAAACT
1 TTAAAATATTTTATTAACCAAA-T
*
43638901 TTAAAATTTTTTATTAACCAAAT
1 TTAAAATATTTTATTAACCAAAT
43638924 TTAAA
1 TTAAA
43638929 CTTTAAACTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 17 0.68
24 8 0.32
ACGTcount: A:0.43, C:0.10, G:0.00, T:0.47
Consensus pattern (23 bp):
TTAAAATATTTTATTAACCAAAT
Found at i:43639219 original size:21 final size:21
Alignment explanation
Indices: 43639193--43639234 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
43639183 TGTGAATTTT
*
43639193 ATTAATAAATATTTTTTTATA
1 ATTAATAAATATTTTTATATA
*
43639214 ATTAATTAATATTTTTATATA
1 ATTAATAAATATTTTTATATA
43639235 CTAAATAGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
ATTAATAAATATTTTTATATA
Found at i:43665645 original size:16 final size:16
Alignment explanation
Indices: 43665621--43665652 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
43665611 CAACCAAAAT
43665621 GTTCCACCTTCAATCA
1 GTTCCACCTTCAATCA
*
43665637 GTTCTACCTTCAATCA
1 GTTCCACCTTCAATCA
43665653 ACATTGAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.34, G:0.06, T:0.34
Consensus pattern (16 bp):
GTTCCACCTTCAATCA
Found at i:43676737 original size:15 final size:15
Alignment explanation
Indices: 43676698--43676737 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
43676688 ACTAGTAGAC
43676698 ACCATTACTTTCTAT
1 ACCATTACTTTCTAT
*
43676713 ACC-TTCACTTTGTAT
1 ACCATT-ACTTTCTAT
43676728 ACCATTACTT
1 ACCATTACTT
43676738 AACATCATTG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
14 2 0.09
15 18 0.82
16 2 0.09
ACGTcount: A:0.25, C:0.28, G:0.03, T:0.45
Consensus pattern (15 bp):
ACCATTACTTTCTAT
Done.