Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr1
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: 37323695
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 1370832 characters in sequence are not A, C, G, or T
File 38 of 93
Found at i:14690030 original size:23 final size:22
Alignment explanation
Indices: 14690004--14690049 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
14689994 TTTAATTTAA
14690004 TTTTTA-AATTTAAAATAATAAC
1 TTTTTATAATTTAAAATAA-AAC
*
14690026 TTTTTATAATTTAAATTAAAAC
1 TTTTTATAATTTAAAATAAAAC
14690048 TT
1 TT
14690050 AAACCTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 11 0.50
23 11 0.50
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (22 bp):
TTTTTATAATTTAAAATAAAAC
Found at i:14691152 original size:33 final size:32
Alignment explanation
Indices: 14691101--14691185 Score: 116
Period size: 33 Copynumber: 2.5 Consensus size: 32
14691091 AAAGAAGTTA
*
14691101 AAATAAAATATATAATATAAAAAATTATATTAAG
1 AAATAAAATA-A-AATATAAAAAATTATAATAAG
*
14691135 AAATGAAAATAAAATATATAAAATTATAATAAG
1 AAAT-AAAATAAAATATAAAAAATTATAATAAG
14691168 AAATAAAAATAAAATATA
1 AAAT-AAAATAAAATATA
14691186 GAATATAGAA
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
33 36 0.77
34 5 0.11
35 6 0.13
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (32 bp):
AAATAAAATAAAATATAAAAAATTATAATAAG
Found at i:14699628 original size:29 final size:29
Alignment explanation
Indices: 14699566--14699747 Score: 97
Period size: 29 Copynumber: 6.7 Consensus size: 29
14699556 AAGTATTAAA
* * *
14699566 GTGTAACAA-AAT-TTTTTTAAATATTAC
1 GTGTAACAATAATATTTTTTCAACATGAC
* *
14699593 GTATAACAATAATATTTTTTCAACATGGC
1 GTGTAACAATAATATTTTTTCAACATGAC
* * *
14699622 GTGTAACAATAACATTTGTTTCAACATAAA
1 GTGTAACAATAATATTT-TTTCAACATGAC
* * * *
14699652 GTATAAC-AT-GT-TTTTGT--ACATGGC
1 GTGTAACAATAATATTTTTTCAACATGAC
*
14699676 GTGTAATAATAATATTTTTT-AACCATGAC
1 GTGTAACAATAATATTTTTTCAA-CATGAC
*
14699705 GTG---CAAT-ATGTTTTATT---CATGAC
1 GTGTAACAATAATATTTT-TTCAACATGAC
*
14699728 GTGTAACAACAATATTTTTT
1 GTGTAACAATAATATTTTTT
14699748 TTTTCAACAT
Statistics
Matches: 116, Mismatches: 26, Indels: 27
0.69 0.15 0.16
Matches are distributed among these distances:
23 9 0.08
24 9 0.08
25 8 0.07
26 13 0.11
27 22 0.19
28 4 0.03
29 36 0.31
30 15 0.13
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.41
Consensus pattern (29 bp):
GTGTAACAATAATATTTTTTCAACATGAC
Found at i:14699659 original size:30 final size:29
Alignment explanation
Indices: 14699593--14699659 Score: 80
Period size: 30 Copynumber: 2.3 Consensus size: 29
14699583 TAAATATTAC
* ***
14699593 GTATAACAATAATATTTTTTCAACATGGC
1 GTATAACAATAACATTTTTTCAACATAAA
*
14699622 GTGTAACAATAACATTTGTTTCAACATAAA
1 GTATAACAATAACATTT-TTTCAACATAAA
14699652 GTATAACA
1 GTATAACA
14699660 TGTTTTTGTA
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
29 15 0.48
30 16 0.52
ACGTcount: A:0.42, C:0.13, G:0.10, T:0.34
Consensus pattern (29 bp):
GTATAACAATAACATTTTTTCAACATAAA
Found at i:14699718 original size:23 final size:23
Alignment explanation
Indices: 14699686--14699730 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
14699676 GTGTAATAAT
*
14699686 AATATTTTTTAACCATGACGTGC
1 AATATGTTTTAACCATGACGTGC
**
14699709 AATATGTTTTATTCATGACGTG
1 AATATGTTTTAACCATGACGTG
14699731 TAACAACAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.29, C:0.13, G:0.16, T:0.42
Consensus pattern (23 bp):
AATATGTTTTAACCATGACGTGC
Found at i:14699780 original size:82 final size:81
Alignment explanation
Indices: 14699690--14700073 Score: 297
Period size: 80 Copynumber: 4.7 Consensus size: 81
14699680 AATAATAATA
* * * *
14699690 TTTTTTAACCATGACGTGCAATATGTTTTATTCATGACGTGTAACAACAATATTTTTTTTTTCAA
1 TTTTTTAACCATGACGTGTAACATATTTTATACATGACGTGTAACAACAATATTTTTTTTTTCAA
*
14699755 CAT-GACATGTAACAAC
66 CATAG-CATATAACAAC
* * * * *
14699771 ATTTTTTAACCATGACATATAACATGCTTTTATACATTGCAC--ATAAC-ACTAT-TTTTTTTTT
1 -TTTTTTAACCATGACGTGTAACAT-ATTTTATACA-TG-ACGTGTAACAACAATATTTTTTTTT
* *
14699832 GTCAAACATGGCGTATAACAAC
62 -TC-AACATAGCATATAACAAC
* ** * * * *
14699854 CTTTTTAACCATGATATGTAACATAATTTTGA-ACATGATGTGTAATAATAATA--TTTTGTTTC
1 TTTTTTAACCATGACGTGTAACAT-ATTTT-ATACATGACGTGTAACAACAATATTTTTTTTTTC
* *
14699916 AATATAGCATGTAACAAC
64 AACATAGCATATAACAAC
* *
14699934 CTTTTTAACCATGACGTGTAACATATTTCTGA-ACATGACGTGTAATAACAATA--TTTTTTTTC
1 TTTTTTAACCATGACGTGTAACATATTT-T-ATACATGACGTGTAACAACAATATTTTTTTTTTC
* *
14699996 AACATAGCAAACAACAACC
64 AACATAGCATATAACAA-C
* * * *
14700015 TTTTTTAACCAT-ATCGTATAATATATTTTTATACATGATGTGTAACAATAATATTTTTT
1 TTTTTTAACCATGA-CGTGTAACATA-TTTTATACATGACGTGTAACAACAATATTTTTT
14700074 CAACATGGCA
Statistics
Matches: 244, Mismatches: 40, Indels: 35
0.76 0.13 0.11
Matches are distributed among these distances:
79 4 0.02
80 82 0.34
81 53 0.22
82 66 0.27
83 34 0.14
84 3 0.01
85 2 0.01
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.40
Consensus pattern (81 bp):
TTTTTTAACCATGACGTGTAACATATTTTATACATGACGTGTAACAACAATATTTTTTTTTTCAA
CATAGCATATAACAAC
Found at i:14700798 original size:28 final size:29
Alignment explanation
Indices: 14700758--14700822 Score: 96
Period size: 29 Copynumber: 2.3 Consensus size: 29
14700748 CATCTTAAAC
* *
14700758 ATAACGTGTAATAA-TTTTTTTTTTCAAT
1 ATAATGTGTAATAACTTTTTCTTTTCAAT
14700786 ATAATGTGTAATAACTTTTTCTTTTCAAT
1 ATAATGTGTAATAACTTTTTCTTTTCAAT
*
14700815 ATGATGTG
1 ATAATGTG
14700823 CAACTTAATC
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
28 13 0.39
29 20 0.61
ACGTcount: A:0.31, C:0.08, G:0.11, T:0.51
Consensus pattern (29 bp):
ATAATGTGTAATAACTTTTTCTTTTCAAT
Found at i:14700971 original size:26 final size:26
Alignment explanation
Indices: 14700880--14700962 Score: 157
Period size: 26 Copynumber: 3.2 Consensus size: 26
14700870 GTTAAACACA
*
14700880 AACATGACGTGTAATAATTTTTTTTT
1 AACATGATGTGTAATAATTTTTTTTT
14700906 AACATGATGTGTAATAATTTTTTTTT
1 AACATGATGTGTAATAATTTTTTTTT
14700932 AACATGATGTGTAATAATTTTTTTTT
1 AACATGATGTGTAATAATTTTTTTTT
14700958 AACAT
1 AACAT
14700963 CACTTGTAAC
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.06, G:0.11, T:0.51
Consensus pattern (26 bp):
AACATGATGTGTAATAATTTTTTTTT
Found at i:14701173 original size:26 final size:26
Alignment explanation
Indices: 14701136--14701187 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
14701126 AACATAGCAT
* *
14701136 GTAACAACATA-TTTTTGAACATGAC
1 GTAACAAAATATTTTTTAAACATGAC
14701161 GTAACAATAATATTTTTTAAACATGAC
1 GTAACAA-AATATTTTTTAAACATGAC
14701188 CTATAACTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 7 0.30
26 3 0.13
27 13 0.57
ACGTcount: A:0.42, C:0.13, G:0.10, T:0.35
Consensus pattern (26 bp):
GTAACAAAATATTTTTTAAACATGAC
Found at i:14705530 original size:20 final size:20
Alignment explanation
Indices: 14705505--14705603 Score: 92
Period size: 20 Copynumber: 5.0 Consensus size: 20
14705495 AAGGGCTTGA
* *
14705505 GGCTTGGGAGTGAGCGAGCC
1 GGCTCGGGAGTGGGCGAGCC
* * *
14705525 GGCTTGAGAGTGGGTGAGCC
1 GGCTCGGGAGTGGGCGAGCC
* *
14705545 GACTCGGGAGTGGGCGAGCT
1 GGCTCGGGAGTGGGCGAGCC
*
14705565 GGCTCAGGAGTGGGCGAGCC
1 GGCTCGGGAGTGGGCGAGCC
* *
14705585 AGCTC-GAAGATGGGCGAGC
1 GGCTCGGGAG-TGGGCGAGC
14705604 AACGAGGGCT
Statistics
Matches: 65, Mismatches: 13, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
19 3 0.05
20 62 0.95
ACGTcount: A:0.17, C:0.20, G:0.48, T:0.14
Consensus pattern (20 bp):
GGCTCGGGAGTGGGCGAGCC
Found at i:14711978 original size:147 final size:150
Alignment explanation
Indices: 14711662--14711958 Score: 350
Period size: 153 Copynumber: 2.0 Consensus size: 150
14711652 ACACAACGAT
* * * *
14711662 CTTTCCTGCACCAATTTTGGTAGGCTTCAAGATCATGATAGTGTTGAGCTAGCTGTATTTCTAGC
1 CTTTCGTGCACCAATTTTGATAAGCTTCAAGATCACGATAGTGTTGAGCTA---GTATTTCTAGC
* * ** * * **
14711727 TTCTAGCTCTTGAATGATCTATTGAGATTTTCCAAAATCCTTTTGCTCATCTAGGAGATATTGGA
63 TTCTAGCTCTTGAAGGATATATCAAGAATTTCCAAAATCCTCTTGCTCATCTAAAAGATATTGGA
*
14711792 TTTTACCACACCAAATGTCAATA
128 TTTTACAACACCAAATGTCAATA
* * *
14711815 CTTTCTTGCACCAATTTTGATAAGCTTCAAGATCACGATGGTGTTGAGCTA-TATTTCCT-GGTT
1 CTTTCGTGCACCAATTTTGATAAGCTTCAAGATCACGATAGTGTTGAGCTAGTATTT-CTAGCTT
* *
14711878 CTAGTTTTTGAAGGATATATCAAGAATTTCCAAAA-CC-CTTGCTCATCTAAAAGATATTGGATT
65 CTAGCTCTTGAAGGATATATCAAGAATTTCCAAAATCCTCTTGCTCATCTAAAAGATATTGGATT
* *
14711941 TTACAAGATCAAATGTCA
130 TTACAACACCAAATGTCA
14711959 TAATTTTCGT
Statistics
Matches: 124, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
147 38 0.31
148 2 0.02
149 36 0.29
150 2 0.02
153 46 0.37
ACGTcount: A:0.28, C:0.19, G:0.16, T:0.37
Consensus pattern (150 bp):
CTTTCGTGCACCAATTTTGATAAGCTTCAAGATCACGATAGTGTTGAGCTAGTATTTCTAGCTTC
TAGCTCTTGAAGGATATATCAAGAATTTCCAAAATCCTCTTGCTCATCTAAAAGATATTGGATTT
TACAACACCAAATGTCAATA
Found at i:14713040 original size:34 final size:34
Alignment explanation
Indices: 14713001--14713067 Score: 116
Period size: 34 Copynumber: 2.0 Consensus size: 34
14712991 TTTATACTTA
*
14713001 GAAAAAGTTTGGAGCTGTTCGGGATGATTTGGTG
1 GAAAAAGTTTGGAGCTGTTCGAGATGATTTGGTG
*
14713035 GAAAAAGTTTGGAGTTGTTCGAGATGATTTGGT
1 GAAAAAGTTTGGAGCTGTTCGAGATGATTTGGT
14713068 AGAGGAACTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.25, C:0.04, G:0.36, T:0.34
Consensus pattern (34 bp):
GAAAAAGTTTGGAGCTGTTCGAGATGATTTGGTG
Found at i:14733734 original size:18 final size:19
Alignment explanation
Indices: 14733711--14733753 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 19
14733701 GGTGTTTATT
14733711 GAAGAAAGA-CTTTTAATG
1 GAAGAAAGACCTTTTAATG
14733729 GAAG-AAGACCTTTTAATG
1 GAAGAAAGACCTTTTAATG
*
14733747 TAAGAAA
1 GAAGAAA
14733754 AAGAGAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 4 0.18
18 16 0.73
19 2 0.09
ACGTcount: A:0.47, C:0.07, G:0.21, T:0.26
Consensus pattern (19 bp):
GAAGAAAGACCTTTTAATG
Found at i:14734949 original size:24 final size:24
Alignment explanation
Indices: 14734895--14734949 Score: 58
Period size: 26 Copynumber: 2.2 Consensus size: 24
14734885 GTTTCAATTT
* *
14734895 ATTAGTTTTAATTTTTTTATAATA
1 ATTAATTTTAATTTTTTCATAATA
14734919 ATTTTAATTTTAATTTTTTGCATAA-A
1 A--TTAATTTTAATTTTTT-CATAATA
14734945 ATTAA
1 ATTAA
14734950 GGTGTGTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
24 5 0.19
26 17 0.65
27 4 0.15
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (24 bp):
ATTAATTTTAATTTTTTCATAATA
Found at i:14736470 original size:24 final size:24
Alignment explanation
Indices: 14736439--14736487 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
14736429 CAAAGACACA
14736439 AATAAAACAATAACAACTTATCTT
1 AATAAAACAATAACAACTTATCTT
14736463 AATAAAACAATAACAACTTATCTT
1 AATAAAACAATAACAACTTATCTT
14736487 A
1 A
14736488 GGTATATAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.55, C:0.16, G:0.00, T:0.29
Consensus pattern (24 bp):
AATAAAACAATAACAACTTATCTT
Found at i:14739108 original size:36 final size:35
Alignment explanation
Indices: 14739062--14739136 Score: 123
Period size: 36 Copynumber: 2.1 Consensus size: 35
14739052 AAAATAGCAG
14739062 CAAATAAACTCAAGAACAGATTTAACATCAACAAA
1 CAAATAAACTCAAGAACAGATTTAACATCAACAAA
* *
14739097 CAAATCAAACTCAAGAATAGATTTAACATCAGCAAA
1 CAAAT-AAACTCAAGAACAGATTTAACATCAACAAA
14739133 CAAA
1 CAAA
14739137 ATACTATAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
35 5 0.14
36 32 0.86
ACGTcount: A:0.56, C:0.20, G:0.07, T:0.17
Consensus pattern (35 bp):
CAAATAAACTCAAGAACAGATTTAACATCAACAAA
Found at i:14751061 original size:17 final size:17
Alignment explanation
Indices: 14751011--14751061 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
14751001 CCAACAGTCG
*
14751011 AAAACC-ACAATA-AAA
1 AAAACCAACAAAAGAAA
*
14751026 AAAACCAA-AAATAGCAA
1 AAAACCAACAAA-AGAAA
14751043 AAAACCAACAAAAGAAA
1 AAAACCAACAAAAGAAA
14751060 AA
1 AA
14751062 TACATAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
15 8 0.28
16 2 0.07
17 16 0.55
18 3 0.10
ACGTcount: A:0.75, C:0.18, G:0.04, T:0.04
Consensus pattern (17 bp):
AAAACCAACAAAAGAAA
Found at i:14751613 original size:20 final size:21
Alignment explanation
Indices: 14751577--14751615 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
14751567 ATTATTTAAA
14751577 TAATTTTAAAATTTATTATTT
1 TAATTTTAAAATTTATTATTT
*
14751598 TAATTTT-AATTTTATTAT
1 TAATTTTAAAATTTATTAT
14751616 ATTTTTATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (21 bp):
TAATTTTAAAATTTATTATTT
Found at i:14751833 original size:29 final size:26
Alignment explanation
Indices: 14751776--14751833 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 26
14751766 AAATTAATAA
* **
14751776 AAATAAAAATAATAAAATTTAAATTT
1 AAATAAAAAAAATAAAATTTAAACAT
14751802 AAATAATAAAAAATAAAGATCTTAAACAT
1 AAATAA-AAAAAATAAA-AT-TTAAACAT
14751831 AAA
1 AAA
14751834 CTTAAATAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
26 6 0.23
27 9 0.35
28 2 0.08
29 9 0.35
ACGTcount: A:0.67, C:0.03, G:0.02, T:0.28
Consensus pattern (26 bp):
AAATAAAAAAAATAAAATTTAAACAT
Found at i:14751913 original size:40 final size:40
Alignment explanation
Indices: 14751826--14751922 Score: 113
Period size: 40 Copynumber: 2.4 Consensus size: 40
14751816 AAAGATCTTA
* *
14751826 AACATAAACTTAAATAACTAAAAATAAATATCCATACAAT
1 AACATAAACTTAAATAACTAAAAATAAATATCCAAACAAC
* * * * * * *
14751866 GATATAAACTTAAATAATTATACATAAATATCTAAATAAC
1 AACATAAACTTAAATAACTAAAAATAAATATCCAAACAAC
14751906 AACATAAACTTAAATAA
1 AACATAAACTTAAATAA
14751923 AAAAAATTAT
Statistics
Matches: 46, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
40 46 1.00
ACGTcount: A:0.59, C:0.12, G:0.01, T:0.28
Consensus pattern (40 bp):
AACATAAACTTAAATAACTAAAAATAAATATCCAAACAAC
Found at i:14752408 original size:15 final size:17
Alignment explanation
Indices: 14752388--14752420 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
14752378 ATTACAATTA
14752388 ATAA-TTTTATAA-GTT
1 ATAATTTTTATAATGTT
14752403 ATAATTTTTATAATGTT
1 ATAATTTTTATAATGTT
14752420 A
1 A
14752421 ACATAAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 8 0.50
17 4 0.25
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (17 bp):
ATAATTTTTATAATGTT
Found at i:14752472 original size:17 final size:18
Alignment explanation
Indices: 14752433--14752475 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
14752423 ATAAAATAAA
* *
14752433 AAAAATATATATTATATT
1 AAAAGTATATATTATACT
*
14752451 TAAAGTATATA-TATACT
1 AAAAGTATATATTATACT
14752468 AAAAGTAT
1 AAAAGTAT
14752476 TAGTATATAT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 12 0.57
18 9 0.43
ACGTcount: A:0.53, C:0.02, G:0.05, T:0.40
Consensus pattern (18 bp):
AAAAGTATATATTATACT
Found at i:14756190 original size:19 final size:19
Alignment explanation
Indices: 14756166--14756203 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
14756156 CCATTTAACT
*
14756166 TATTGGAGTATGATTTGAG
1 TATTGGAGTATAATTTGAG
14756185 TATTGGAGTATAATTTGAG
1 TATTGGAGTATAATTTGAG
14756204 AGTTTCGCAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.42
Consensus pattern (19 bp):
TATTGGAGTATAATTTGAG
Found at i:14756571 original size:7 final size:8
Alignment explanation
Indices: 14756555--14756579 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
14756545 AGGAATTAAT
14756555 AAAATAAA
1 AAAATAAA
14756563 AAAATAAA
1 AAAATAAA
14756571 AAAATAAA
1 AAAATAAA
14756579 A
1 A
14756580 TTATATTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (8 bp):
AAAATAAA
Found at i:14759308 original size:13 final size:13
Alignment explanation
Indices: 14759290--14759347 Score: 53
Period size: 13 Copynumber: 4.3 Consensus size: 13
14759280 TTAATATATG
14759290 TTTTTTATTTTTA
1 TTTTTTATTTTTA
**
14759303 TTTTTTATTTGCA
1 TTTTTTATTTTTA
**
14759316 TTTTTCGTTTTTAA
1 TTTTTTATTTTT-A
*
14759330 TTTTTTAATTTCTA
1 TTTTTT-ATTTTTA
14759344 TTTT
1 TTTT
14759348 CATTATTAAA
Statistics
Matches: 34, Mismatches: 9, Indels: 3
0.74 0.20 0.07
Matches are distributed among these distances:
13 19 0.56
14 11 0.32
15 4 0.12
ACGTcount: A:0.16, C:0.05, G:0.03, T:0.76
Consensus pattern (13 bp):
TTTTTTATTTTTA
Found at i:14759443 original size:137 final size:136
Alignment explanation
Indices: 14759286--14759559 Score: 514
Period size: 137 Copynumber: 2.0 Consensus size: 136
14759276 AATATTAATA
*
14759286 TATGTTTTTTATTTTTATTTTTTATTTGCATTTTTCGTTTTTAATTTTTTAATTTCTATTTTCAT
1 TATGTTTTTTATTTTTATTTTTTATTTACATTTTTCGTTTTTAATTTTTTAATTTCTATTTTCAT
14759351 TATTAAAATATTAATATTTTATATATAATTTAAACATTATTATGATTAAAATATTAATAATTTTT
66 TATTAAAATATTAATATTTTATATATAATTTAAACATTATTATGATTAAAATATTAAT-ATTTTT
14759416 -AAATTT
130 AAAATTT
14759422 TATGTTTTTTTATTTTTATTTTTTATTTACATTTTTCGTTTTTAATTTTTTAATTTCTATTTTCA
1 TATG-TTTTTTATTTTTATTTTTTATTTACATTTTTCGTTTTTAATTTTTTAATTTCTATTTTCA
14759487 TTATTAAAATATTAATATTTTATATATAATTTAAACATTATTATGATTAAAATATTAATATTTTT
65 TTATTAAAATATTAATATTTTATATATAATTTAAACATTATTATGATTAAAATATTAATATTTTT
14759552 AAAATTT
130 AAAATTT
14759559 T
1 T
14759560 TAAATTTAAA
Statistics
Matches: 135, Mismatches: 1, Indels: 3
0.97 0.01 0.02
Matches are distributed among these distances:
136 10 0.07
137 125 0.93
ACGTcount: A:0.32, C:0.04, G:0.03, T:0.61
Consensus pattern (136 bp):
TATGTTTTTTATTTTTATTTTTTATTTACATTTTTCGTTTTTAATTTTTTAATTTCTATTTTCAT
TATTAAAATATTAATATTTTATATATAATTTAAACATTATTATGATTAAAATATTAATATTTTTA
AAATTT
Found at i:14759445 original size:13 final size:13
Alignment explanation
Indices: 14759427--14759484 Score: 53
Period size: 13 Copynumber: 4.3 Consensus size: 13
14759417 AATTTTATGT
14759427 TTTTTTATTTTTA
1 TTTTTTATTTTTA
**
14759440 TTTTTTATTTACA
1 TTTTTTATTTTTA
**
14759453 TTTTTCGTTTTTAA
1 TTTTTTATTTTT-A
*
14759467 TTTTTTAATTTCTA
1 TTTTTT-ATTTTTA
14759481 TTTT
1 TTTT
14759485 CATTATTAAA
Statistics
Matches: 34, Mismatches: 9, Indels: 3
0.74 0.20 0.07
Matches are distributed among these distances:
13 19 0.56
14 11 0.32
15 4 0.12
ACGTcount: A:0.17, C:0.05, G:0.02, T:0.76
Consensus pattern (13 bp):
TTTTTTATTTTTA
Found at i:14759588 original size:29 final size:29
Alignment explanation
Indices: 14759532--14759621 Score: 78
Period size: 29 Copynumber: 3.1 Consensus size: 29
14759522 CATTATTATG
* *
14759532 ATTAAAATATTAATATTTTTAAAATTTTTAA
1 ATTAAAATATTAA-CTTTTT-ATATTTTTAA
*
14759563 ATTTAAATATTAACTTTTTATA-TTTTATA
1 ATTAAAATATTAACTTTTTATATTTTTA-A
* *
14759592 ATTAAAATTTTAAC-CTTTAT-TATTTTAA
1 ATTAAAATATTAACTTTTTATAT-TTTTAA
14759620 AT
1 AT
14759622 ATATATTTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
28 13 0.26
29 20 0.40
30 5 0.10
31 12 0.24
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.54
Consensus pattern (29 bp):
ATTAAAATATTAACTTTTTATATTTTTAA
Found at i:14760436 original size:28 final size:28
Alignment explanation
Indices: 14760396--14760450 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
14760386 ATGTTAGAAA
*
14760396 CAAATAATTTACACCAAACATAAATAAG
1 CAAATAATTTACACCAAACAAAAATAAG
* *
14760424 CAAATACA-TTACATCAAATAAAAATAA
1 CAAATA-ATTTACACCAAACAAAAATAA
14760451 AATTTCAATG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 22 0.96
29 1 0.04
ACGTcount: A:0.60, C:0.16, G:0.02, T:0.22
Consensus pattern (28 bp):
CAAATAATTTACACCAAACAAAAATAAG
Found at i:14763493 original size:84 final size:84
Alignment explanation
Indices: 14763347--14763519 Score: 310
Period size: 84 Copynumber: 2.1 Consensus size: 84
14763337 GTGGATGCTG
*
14763347 AAACATGTTAAAAGACTAAAAGAGGTAACAACAAATCATGTCTAGTCTAAAAGAGGCTGTTATTC
1 AAACGTGTTAAAAGACTAAAAGAGGTAACAACAAATCATGTCTAGTCTAAAAGAGGCTGTTATTC
*
14763412 TAAAATAATAGCCTAGCTA
66 TAAAATAATAGCCCAGCTA
*
14763431 AAACGTGTTAAAAGACTGAAAGAGGTAACAACAAATCATGTCTAGTCTAAAAGAGGCTGTTATTC
1 AAACGTGTTAAAAGACTAAAAGAGGTAACAACAAATCATGTCTAGTCTAAAAGAGGCTGTTATTC
*
14763496 TAAAATAATAGCCCAGCTG
66 TAAAATAATAGCCCAGCTA
14763515 AAACG
1 AAACG
14763520 AGCTTCAAGC
Statistics
Matches: 85, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
84 85 1.00
ACGTcount: A:0.44, C:0.15, G:0.17, T:0.24
Consensus pattern (84 bp):
AAACGTGTTAAAAGACTAAAAGAGGTAACAACAAATCATGTCTAGTCTAAAAGAGGCTGTTATTC
TAAAATAATAGCCCAGCTA
Found at i:14764535 original size:18 final size:18
Alignment explanation
Indices: 14764512--14764547 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
14764502 GAGAAATGGC
*
14764512 GGATGCCTGATGGAAGGA
1 GGATGCCGGATGGAAGGA
*
14764530 GGATGCCGGATGGGAGGA
1 GGATGCCGGATGGAAGGA
14764548 TGGGACACCG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.25, C:0.11, G:0.50, T:0.14
Consensus pattern (18 bp):
GGATGCCGGATGGAAGGA
Found at i:14766864 original size:16 final size:16
Alignment explanation
Indices: 14766831--14766864 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
14766821 ATATATATAA
*
14766831 ATGCATACATTCACAC
1 ATGCATACATACACAC
*
14766847 ATGCATACATACATAC
1 ATGCATACATACACAC
14766863 AT
1 AT
14766865 ATATATATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.41, C:0.26, G:0.06, T:0.26
Consensus pattern (16 bp):
ATGCATACATACACAC
Found at i:14766897 original size:38 final size:38
Alignment explanation
Indices: 14766855--14766933 Score: 113
Period size: 38 Copynumber: 2.1 Consensus size: 38
14766845 ACATGCATAC
* *
14766855 ATACATACATATATATATATATATATATTATAAATTTT
1 ATACATACATACACATATATATATATATTATAAATTTT
* * *
14766893 ATACATTCATACACATGTATGTATATATTATAAATTTT
1 ATACATACATACACATATATATATATATTATAAATTTT
14766931 ATA
1 ATA
14766934 TCAATATATA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.44, C:0.08, G:0.03, T:0.46
Consensus pattern (38 bp):
ATACATACATACACATATATATATATATTATAAATTTT
Found at i:14771091 original size:37 final size:37
Alignment explanation
Indices: 14771050--14771138 Score: 142
Period size: 37 Copynumber: 2.4 Consensus size: 37
14771040 TGATTCTGAC
*
14771050 TCTAACTCATGCCACTGCGATTAATTGTGGTTTCATT
1 TCTAACTTATGCCACTGCGATTAATTGTGGTTTCATT
* * *
14771087 TCTAACTTATGCTATTGGGATTAATTGTGGTTTCATT
1 TCTAACTTATGCCACTGCGATTAATTGTGGTTTCATT
14771124 TCTAACTTATGCCAC
1 TCTAACTTATGCCAC
14771139 AAGAATTAAG
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.22, C:0.19, G:0.16, T:0.43
Consensus pattern (37 bp):
TCTAACTTATGCCACTGCGATTAATTGTGGTTTCATT
Found at i:14771147 original size:37 final size:37
Alignment explanation
Indices: 14771069--14771147 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
14771059 TGCCACTGCG
* *** *
14771069 ATTAATTGTGGTTTCATTTCTAACTTATGCTATTGGG
1 ATTAATTGTGGTTTCATTTCTAACTTATGCCACAAGA
14771106 ATTAATTGTGGTTTCATTTCTAACTTATGCCACAAGA
1 ATTAATTGTGGTTTCATTTCTAACTTATGCCACAAGA
14771143 ATTAA
1 ATTAA
14771148 GTGTAGTTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.28, C:0.13, G:0.15, T:0.44
Consensus pattern (37 bp):
ATTAATTGTGGTTTCATTTCTAACTTATGCCACAAGA
Found at i:14774712 original size:29 final size:29
Alignment explanation
Indices: 14774670--14774729 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
14774660 ACAGACCAAG
14774670 TCATCCCACCACAATCTGAATTGAATCAT
1 TCATCCCACCACAATCTGAATTGAATCAT
*
14774699 TCATCCCTCCACAATCTGAATTGAATCAT
1 TCATCCCACCACAATCTGAATTGAATCAT
14774728 TC
1 TC
14774730 CTGTACAGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.32, C:0.32, G:0.07, T:0.30
Consensus pattern (29 bp):
TCATCCCACCACAATCTGAATTGAATCAT
Found at i:14783093 original size:21 final size:20
Alignment explanation
Indices: 14783045--14783098 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 20
14783035 CTAGTTTTTA
* *
14783045 GGCATTGCGTGACTGATTTT
1 GGCATTACGTGACTGAATTT
*
14783065 GGATATTACGTGACTGAATTT
1 GG-CATTACGTGACTGAATTT
*
14783086 GAGCATTATGTGA
1 G-GCATTACGTGA
14783099 TTGATTTTTG
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
20 2 0.07
21 24 0.89
22 1 0.04
ACGTcount: A:0.24, C:0.11, G:0.28, T:0.37
Consensus pattern (20 bp):
GGCATTACGTGACTGAATTT
Found at i:14789395 original size:49 final size:50
Alignment explanation
Indices: 14789335--14789435 Score: 168
Period size: 49 Copynumber: 2.0 Consensus size: 50
14789325 GCTTGGTTTT
*
14789335 GATTTATGTTACATGTTTAAATATCATAATATATTTTTATTATCCAT-AA
1 GATTTATGTTACATGTTTAAATATCATAATACATTTTTATTATCCATGAA
* *
14789384 GATTTGTGTTACATGTTTAAATATTATAATACATTTTTATTATCCATGAA
1 GATTTATGTTACATGTTTAAATATCATAATACATTTTTATTATCCATGAA
14789434 GA
1 GA
14789436 GACAATTAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
49 44 0.92
50 4 0.08
ACGTcount: A:0.36, C:0.08, G:0.09, T:0.48
Consensus pattern (50 bp):
GATTTATGTTACATGTTTAAATATCATAATACATTTTTATTATCCATGAA
Found at i:14793529 original size:28 final size:28
Alignment explanation
Indices: 14793468--14793579 Score: 143
Period size: 28 Copynumber: 3.9 Consensus size: 28
14793458 CTACAATAAC
*
14793468 TTTTAACGGGTTCAACCAAAAACCCATGG
1 TTTTAACGGGTTC-ACCACAAACCCATGG
*
14793497 TTTTAACGGGTTCACCACAAACCCAAGG
1 TTTTAACGGGTTCACCACAAACCCATGG
* **
14793525 GTTTAACGGGTTCACCACAAAGTCATGG
1 TTTTAACGGGTTCACCACAAACCCATGG
* *
14793553 ATTTTAACGGGATCACCACAAAGCCAT
1 -TTTTAACGGGTTCACCACAAACCCAT
14793580 ACTAACTTTT
Statistics
Matches: 73, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
28 37 0.51
29 36 0.49
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.23
Consensus pattern (28 bp):
TTTTAACGGGTTCACCACAAACCCATGG
Found at i:14796121 original size:21 final size:20
Alignment explanation
Indices: 14796090--14796129 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
14796080 TTTTTATATC
*
14796090 TTTTATCTTTTTCTTTTTCT
1 TTTTATCTTTTTATTTTTCT
14796110 TTTTATTCTTTTTATTTTTC
1 TTTTA-TCTTTTTATTTTTC
14796130 CTTAATATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.07, C:0.12, G:0.00, T:0.80
Consensus pattern (20 bp):
TTTTATCTTTTTATTTTTCT
Found at i:14796138 original size:22 final size:21
Alignment explanation
Indices: 14796095--14796138 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
14796085 ATATCTTTTA
* **
14796095 TCTTTTTCTTTTTCTTTTTAT
1 TCTTTTTATTTTTCTTAATAT
14796116 TCTTTTTATTTTTCCTTAATAT
1 TCTTTTTATTTTT-CTTAATAT
14796138 T
1 T
14796139 AAATGAAAAC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.11, C:0.14, G:0.00, T:0.75
Consensus pattern (21 bp):
TCTTTTTATTTTTCTTAATAT
Found at i:14796769 original size:128 final size:128
Alignment explanation
Indices: 14796541--14796790 Score: 428
Period size: 128 Copynumber: 2.0 Consensus size: 128
14796531 ATAACTACTT
*
14796541 GCTGTGAAGGAAGCTTTTACCTTTTATGCAACATCTCGATGGGTAAATACACATAAAATGATTGT
1 GCTGTGAAGGAAGCTTTTACCTTTTATGCAACATCTCGATGGGCAAATACACATAAAATGATTGT
* *
14796606 TGAAAGTGACTCATGTAATGTAATTAAATGGGTGCATGATTCTAGTAATGTTCCTTACTAGTG
66 TGAAAGTGACTCATGTAATGTAATTAAATGGGTGCACGATTCCAGTAATGTTCCTTACTAGTG
* *
14796669 GCTGTGAAGGAAGCTTTTATCTTTTATGCAACATCTCGATGGGCAAATACACATAAATTGATTGT
1 GCTGTGAAGGAAGCTTTTACCTTTTATGCAACATCTCGATGGGCAAATACACATAAAATGATTGT
* **
14796734 TGAAAGTTACTCATGTAATGTTGTTAAATGGGTGCACGATTCCAGTAATGTTCCTTA
66 TGAAAGTGACTCATGTAATGTAATTAAATGGGTGCACGATTCCAGTAATGTTCCTTA
14796791 GAGAATGAGG
Statistics
Matches: 114, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
128 114 1.00
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (128 bp):
GCTGTGAAGGAAGCTTTTACCTTTTATGCAACATCTCGATGGGCAAATACACATAAAATGATTGT
TGAAAGTGACTCATGTAATGTAATTAAATGGGTGCACGATTCCAGTAATGTTCCTTACTAGTG
Found at i:14809123 original size:15 final size:15
Alignment explanation
Indices: 14809100--14809150 Score: 59
Period size: 15 Copynumber: 3.4 Consensus size: 15
14809090 AATTTTATCC
14809100 AAATAATTAAAATTA
1 AAATAATTAAAATTA
*
14809115 AAATTATTAAAATTA
1 AAATAATTAAAATTA
* *
14809130 AAACTAA-TAAACTAA
1 AAA-TAATTAAAATTA
14809145 AAATAA
1 AAATAA
14809151 AACTAATCTG
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
14 3 0.10
15 26 0.84
16 2 0.06
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (15 bp):
AAATAATTAAAATTA
Found at i:14810386 original size:12 final size:13
Alignment explanation
Indices: 14810357--14810387 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
14810347 TTTTCCAATA
14810357 AAAAATTCCATCG
1 AAAAATTCCATCG
*
14810370 AAAAATTCCATTG
1 AAAAATTCCATCG
14810383 AAAAA
1 AAAAA
14810388 GTGCATAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.55, C:0.16, G:0.06, T:0.23
Consensus pattern (13 bp):
AAAAATTCCATCG
Found at i:14810530 original size:54 final size:54
Alignment explanation
Indices: 14810446--14810627 Score: 154
Period size: 54 Copynumber: 3.4 Consensus size: 54
14810436 TTGAACGGAA
* ** * * * *
14810446 TTCTGTTGCAAAAGCATTTCTTACGAAATTCTATCAAAAATTGCC-ACTAGAATT
1 TTCTGTTGAAAAAGCATTTCCCATGGAATTCCATCAAAAATTGCCAACGA-AATT
* * * * *
14810500 TT-TCGTTGCAAAAGTATTTCCCATGGAATTCCGTCAAAAATTTCTAACGAAATT
1 TTCT-GTTGAAAAAGCATTTCCCATGGAATTCCATCAAAAATTGCCAACGAAATT
* ** * * * *
14810554 TTCTGTTGAAAAAGCATTTCCCATGGAATTCCGTCTGAAATTTCTAATGAATTT
1 TTCTGTTGAAAAAGCATTTCCCATGGAATTCCATCAAAAATTGCCAACGAAATT
14810608 TTC-GTTGAAAAAGCATTTCC
1 TTCTGTTGAAAAAGCATTTCC
14810628 AACCGAATTC
Statistics
Matches: 109, Mismatches: 16, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
53 18 0.17
54 87 0.80
55 4 0.04
ACGTcount: A:0.32, C:0.18, G:0.13, T:0.36
Consensus pattern (54 bp):
TTCTGTTGAAAAAGCATTTCCCATGGAATTCCATCAAAAATTGCCAACGAAATT
Found at i:14810636 original size:53 final size:53
Alignment explanation
Indices: 14810495--14810649 Score: 204
Period size: 54 Copynumber: 2.9 Consensus size: 53
14810485 ATTGCCACTA
* *
14810495 GAATTTTTCGTTGCAAAAGTATTTCCCATGGAATTCCGTCAAAAATTTCTAAC
1 GAATTTTTCGTTGAAAAAGCATTTCCCATGGAATTCCGTCAAAAATTTCTAAC
* ** *
14810548 GAAATTTTCTGTTGAAAAAGCATTTCCCATGGAATTCCGTCTGAAATTTCTAAT
1 GAATTTTTC-GTTGAAAAAGCATTTCCCATGGAATTCCGTCAAAAATTTCTAAC
* **
14810602 GAATTTTTCGTTGAAAAAGCATTTCCAACCGAATTCCG-CAAGAAATTT
1 GAATTTTTCGTTGAAAAAGCATTTCCCATGGAATTCCGTCAA-AAATTT
14810650 TCAACAAAAT
Statistics
Matches: 88, Mismatches: 12, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
52 1 0.01
53 40 0.45
54 47 0.53
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (53 bp):
GAATTTTTCGTTGAAAAAGCATTTCCCATGGAATTCCGTCAAAAATTTCTAAC
Found at i:14810663 original size:53 final size:54
Alignment explanation
Indices: 14810499--14810663 Score: 203
Period size: 53 Copynumber: 3.1 Consensus size: 54
14810489 CCACTAGAAT
* *
14810499 TTTTCGTTGCAAAAGTATTTCCCATGGAATTCCGTCAA-AAATTTCTAACGAAA
1 TTTTCGTTGAAAAAGCATTTCCCATGGAATTCCGTCAAGAAATTTCTAACGAAA
* * *
14810552 TTTTCTGTTGAAAAAGCATTTCCCATGGAATTCCGTC-TGAAATTTCTAATGAAT
1 TTTTC-GTTGAAAAAGCATTTCCCATGGAATTCCGTCAAGAAATTTCTAACGAAA
* ** *
14810606 TTTTCGTTGAAAAAGCATTTCCAACCGAATTCCG-CAAGAAATTT-TCAACAAAA
1 TTTTCGTTGAAAAAGCATTTCCCATGGAATTCCGTCAAGAAATTTCT-AACGAAA
14810659 TTTTC
1 TTTTC
14810664 CATTAGAAAA
Statistics
Matches: 96, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
52 2 0.02
53 47 0.49
54 47 0.49
ACGTcount: A:0.33, C:0.19, G:0.13, T:0.35
Consensus pattern (54 bp):
TTTTCGTTGAAAAAGCATTTCCCATGGAATTCCGTCAAGAAATTTCTAACGAAA
Found at i:14814888 original size:28 final size:26
Alignment explanation
Indices: 14814788--14814888 Score: 66
Period size: 24 Copynumber: 3.8 Consensus size: 26
14814778 TAAATAACAT
* * *
14814788 ATTAATACATGTTTATATATA-ATTAC
1 ATTAATAAAT-TTTATATATATAATAA
14814814 A-TATATATAATTTGTATATATATAATAA
1 ATTA-ATA-AATTT-TATATATATAATAA
* * *
14814842 ATTAATATATTTTA-A-ATATATTAT
1 ATTAATAAATTTTATATATATAATAA
14814866 ATTAATAAATTTACTATATATAT
1 ATTAATAAATTT--TATATATAT
14814889 CAATTTTCTT
Statistics
Matches: 59, Mismatches: 7, Indels: 16
0.72 0.09 0.20
Matches are distributed among these distances:
24 18 0.31
25 3 0.05
26 10 0.17
27 15 0.25
28 11 0.19
29 2 0.03
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.49
Consensus pattern (26 bp):
ATTAATAAATTTTATATATATAATAA
Found at i:14830815 original size:46 final size:46
Alignment explanation
Indices: 14830748--14830888 Score: 264
Period size: 46 Copynumber: 3.1 Consensus size: 46
14830738 TGGGAGGATG
* *
14830748 AACTCTTGTCTTGCATGAACATGTGATTGGGAATGAATGAGTTTTA
1 AACTCTTATCTTGTATGAACATGTGATTGGGAATGAATGAGTTTTA
14830794 AACTCTTATCTTGTATGAACATGTGATTGGGAATGAATGAGTTTTA
1 AACTCTTATCTTGTATGAACATGTGATTGGGAATGAATGAGTTTTA
14830840 AACTCTTATCTTGTATGAACATGTGATTGGGAATGAATGAGTTTTA
1 AACTCTTATCTTGTATGAACATGTGATTGGGAATGAATGAGTTTTA
14830886 AAC
1 AAC
14830889 ATCATAGCAT
Statistics
Matches: 93, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 93 1.00
ACGTcount: A:0.30, C:0.10, G:0.22, T:0.38
Consensus pattern (46 bp):
AACTCTTATCTTGTATGAACATGTGATTGGGAATGAATGAGTTTTA
Found at i:14834165 original size:45 final size:45
Alignment explanation
Indices: 14834114--14834207 Score: 152
Period size: 45 Copynumber: 2.1 Consensus size: 45
14834104 CATCAAGATG
* *
14834114 AATTAAGCCCAGTTAAGTTGGCACAAGAGATTTTAAGCCCAATCT
1 AATTAAGCCCAGTTAAGTTGACACAAGAGAATTTAAGCCCAATCT
* *
14834159 AATTAAGCCTAGTTAAGTTGACACAAGAGAATTTAAGCCTAATCT
1 AATTAAGCCCAGTTAAGTTGACACAAGAGAATTTAAGCCCAATCT
14834204 AATT
1 AATT
14834208 GGCATAAAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.29
Consensus pattern (45 bp):
AATTAAGCCCAGTTAAGTTGACACAAGAGAATTTAAGCCCAATCT
Found at i:14834234 original size:61 final size:61
Alignment explanation
Indices: 14834159--14834421 Score: 173
Period size: 61 Copynumber: 4.3 Consensus size: 61
14834149 AGCCCAATCT
* *
14834159 AATTAAGCCTAGTTAAGTTGACACAAGAGAATT-TAAGCCTAATCTAATTGGCATAAAAAAG
1 AATTAAGCCTAGTTAAGTTGACACAAGAGAATTCCAAGCCTAATCTAACTGGCA-AAAAAAG
* * * ** * *
14834220 AATTAAGCCTAGTTAAGTTGGCACGAGAG-ATTCCAAGCCTAATCTAGCAAGTAGAAAGATA-
1 AATTAAGCCTAGTTAAGTTGACACAAGAGAATTCCAAGCCTAATCTAACTGGCA-AAA-AAAG
* * * * * * *
14834281 AATTAAGCCCAATTAAGTT-AC-CACGAGAGATTCCAAG-CTCAATCTAGCTGGCACCAAGATG
1 AATTAAGCCTAGTTAAGTTGACACAAGAGA-ATTCCAAGCCT-AATCTAACTGGCA-AAAAAAG
* * * * * * * *
14834342 ATTTAAGCCTAGTTAAGTTGGCACAAGAGAGTT-TAAGCCCAATC-AAGTTGGCACAAAATG
1 AATTAAGCCTAGTTAAGTTGACACAAGAGAATTCCAAGCCTAATCTAA-CTGGCAAAAAAAG
* *
14834402 ATTTTAGCCTAGTTAAGTTG
1 AATTAAGCCTAGTTAAGTTG
14834422 GCATGATAGA
Statistics
Matches: 157, Mismatches: 35, Indels: 21
0.74 0.16 0.10
Matches are distributed among these distances:
59 4 0.03
60 32 0.20
61 109 0.69
62 6 0.04
63 6 0.04
ACGTcount: A:0.38, C:0.17, G:0.19, T:0.25
Consensus pattern (61 bp):
AATTAAGCCTAGTTAAGTTGACACAAGAGAATTCCAAGCCTAATCTAACTGGCAAAAAAAG
Found at i:14834241 original size:31 final size:31
Alignment explanation
Indices: 14834159--14834243 Score: 95
Period size: 31 Copynumber: 2.8 Consensus size: 31
14834149 AGCCCAATCT
* *
14834159 AATTAAGCCTAGTTAAGTT-G-ACACAAGAG
1 AATTAAGCCTAGTTAAGTTGGCACAAAAAAG
* *
14834188 AATTTAAGCCTAATCTAA-TTGGCATAAAAAAG
1 AA-TTAAGCCTAGT-TAAGTTGGCACAAAAAAG
14834220 AATTAAGCCTAGTTAAGTTGGCAC
1 AATTAAGCCTAGTTAAGTTGGCAC
14834244 GAGAGATTCC
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
29 2 0.04
30 15 0.33
31 20 0.44
32 8 0.18
ACGTcount: A:0.41, C:0.14, G:0.18, T:0.27
Consensus pattern (31 bp):
AATTAAGCCTAGTTAAGTTGGCACAAAAAAG
Found at i:14834377 original size:30 final size:30
Alignment explanation
Indices: 14834329--14834424 Score: 122
Period size: 30 Copynumber: 3.2 Consensus size: 30
14834319 TCAATCTAGC
14834329 TGGCACCAAGATGATTTAAGCCTAGTTAAGT
1 TGGCA-CAAGATGATTTAAGCCTAGTTAAGT
* * *
14834360 TGGCACAAGA-GAGTTTAAGCCCAATCAAGT
1 TGGCACAAGATGA-TTTAAGCCTAGTTAAGT
* *
14834390 TGGCACAAAATGATTTTAGCCTAGTTAAGT
1 TGGCACAAGATGATTTAAGCCTAGTTAAGT
14834420 TGGCA
1 TGGCA
14834425 TGATAGAATT
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
29 2 0.04
30 46 0.84
31 7 0.13
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (30 bp):
TGGCACAAGATGATTTAAGCCTAGTTAAGT
Found at i:14841888 original size:162 final size:162
Alignment explanation
Indices: 14841596--14841940 Score: 438
Period size: 162 Copynumber: 2.1 Consensus size: 162
14841586 CATCAACTGC
* * ** * *
14841596 CGGCCTACCATGCCACGCTTGTCAGCTGCCGACCTACCACGCCAAGCTCGGGTTCTTTATCGATT
1 CGGCCTACCACGCCACGCTCGTCAGCTGCCGACCTACCACAACAAGCTCGGGTCCTTCATCGATT
** * * *
14841661 CATCTGCCTTTTCTCTCCAACCGGGCAGCCACGGCCACGCCCTACTGGCTGCATGGGTGTCGCCC
66 CATCTGCCTTTTCTCTCCAACCGCCCAGCCACAGCCACGACCTACTGGCTGCATGGGTATCGCCC
* * * *
14841726 CAAGCCCGATGCCGTTGTAATTCCCTAGCTGT
131 CAAGCCCCACGCCCTTATAATTCCCTAGCTGT
* * * *
14841758 CTGCCTACCACGCCATGCTCGTCAGCTGCCGACCTACCACAACAAGCTTGGGTCCTTCATCGGTT
1 CGGCCTACCACGCCACGCTCGTCAGCTGCCGACCTACCACAACAAGCTCGGGTCCTTCATCGATT
** * * * * *
14841823 CATCTTTCTTTTCTCTCCAACCGCCCAGCCACAGCCACGATCTGCTGGTTTCGTGGGTATCGCCC
66 CATCTGCCTTTTCTCTCCAACCGCCCAGCCACAGCCACGACCTACTGGCTGCATGGGTATCGCCC
**
14841888 CAAGCCCCACGCCCTTATTCTTCCCTAGCTGT
131 CAAGCCCCACGCCCTTATAATTCCCTAGCTGT
14841920 CGGCCTACCACGCCACGCTCG
1 CGGCCTACCACGCCACGCTCG
14841941 GCTCCTTCAT
Statistics
Matches: 153, Mismatches: 30, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
162 153 1.00
ACGTcount: A:0.16, C:0.39, G:0.21, T:0.24
Consensus pattern (162 bp):
CGGCCTACCACGCCACGCTCGTCAGCTGCCGACCTACCACAACAAGCTCGGGTCCTTCATCGATT
CATCTGCCTTTTCTCTCCAACCGCCCAGCCACAGCCACGACCTACTGGCTGCATGGGTATCGCCC
CAAGCCCCACGCCCTTATAATTCCCTAGCTGT
Found at i:14847089 original size:6 final size:6
Alignment explanation
Indices: 14847080--14847117 Score: 58
Period size: 6 Copynumber: 6.3 Consensus size: 6
14847070 GGAGAAGATA
* *
14847080 ATGAAG ATGATG ATGAAG ATGAAT ATGAAG ATGAAG AT
1 ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG AT
14847118 CATGTGGAGC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.29, T:0.24
Consensus pattern (6 bp):
ATGAAG
Found at i:14849700 original size:25 final size:25
Alignment explanation
Indices: 14849653--14849706 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
14849643 TCAATGGAAA
*
14849653 AAATTTCAACAGATTTTTCCGTTGG
1 AAATTTCAACAGAATTTTCCGTTGG
*
14849678 AAATTTCCAACGGAATTTT-CGTTGG
1 AAATTT-CAACAGAATTTTCCGTTGG
14849703 AAAT
1 AAAT
14849707 CCGTTGGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 16 0.62
26 10 0.38
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.37
Consensus pattern (25 bp):
AAATTTCAACAGAATTTTCCGTTGG
Found at i:14849814 original size:47 final size:48
Alignment explanation
Indices: 14849757--14849848 Score: 123
Period size: 48 Copynumber: 1.9 Consensus size: 48
14849747 AAAATTTCAA
* ** *
14849757 ATTTCGAACGGATTTCCAAC-GAAATTTTTGTTGGAAATTTCCAATGG
1 ATTTCCAACGGATTTCCAACAGAAATTTCCGTTGAAAATTTCCAATGG
**
14849804 ATTTCCAACGGATTTTTAACAGAAATTTCCGTTGAAAATTTCCAA
1 ATTTCCAACGGATTTCCAACAGAAATTTCCGTTGAAAATTTCCAA
14849849 CGGAAAGTAT
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
47 17 0.45
48 21 0.55
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.36
Consensus pattern (48 bp):
ATTTCCAACGGATTTCCAACAGAAATTTCCGTTGAAAATTTCCAATGG
Found at i:14855716 original size:16 final size:16
Alignment explanation
Indices: 14855695--14855725 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
14855685 TAAAAAATTA
*
14855695 AGTTATTTTGAATTTG
1 AGTTATTTTAAATTTG
14855711 AGTTATTTTAAATTT
1 AGTTATTTTAAATTT
14855726 AAAACTTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.00, G:0.13, T:0.58
Consensus pattern (16 bp):
AGTTATTTTAAATTTG
Found at i:14855833 original size:16 final size:16
Alignment explanation
Indices: 14855808--14855838 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
14855798 GATATTTGAT
*
14855808 TTTAAGTTATTTTATA
1 TTTAAATTATTTTATA
14855824 TTTAAATTATTTTAT
1 TTTAAATTATTTTAT
14855839 GTTCGAATTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (16 bp):
TTTAAATTATTTTATA
Found at i:14859546 original size:80 final size:81
Alignment explanation
Indices: 14859397--14859554 Score: 232
Period size: 80 Copynumber: 2.0 Consensus size: 81
14859387 ATTCTGTTCA
* *
14859397 GCTGGAATTTCAATTTTGCTGCAAACTTTTTCAATGAAATATAGATAATAAGATGGTTGTTATTA
1 GCTGGAATTTCAATTTTGCTGCAAACTTTTTCAATGAAACATAGATAATAAGATAGTTGTTATTA
14859462 TCATGTTATACATTTG
66 TCATGTTATACATTTG
** *
14859478 GCTGGAATTTCAATTTTGCTGCAATGTTTTT-GATGAAACAT-GAATAATAAG-TCAGTTGTTAT
1 GCTGGAATTTCAATTTTGCTGCAAACTTTTTCAATGAAACATAG-ATAATAAGAT-AGTTGTTAT
14859540 TATCATGTTATACAT
64 TATCATGTTATACAT
14859555 GTGTGTGTTG
Statistics
Matches: 70, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
79 2 0.03
80 39 0.56
81 29 0.41
ACGTcount: A:0.32, C:0.10, G:0.16, T:0.42
Consensus pattern (81 bp):
GCTGGAATTTCAATTTTGCTGCAAACTTTTTCAATGAAACATAGATAATAAGATAGTTGTTATTA
TCATGTTATACATTTG
Found at i:14863550 original size:73 final size:73
Alignment explanation
Indices: 14863427--14863580 Score: 299
Period size: 73 Copynumber: 2.1 Consensus size: 73
14863417 ATTGTGAGTA
14863427 CTTTGGTTTATTTAGGCATGTGTGCTTAGGAAGATAGTTTATGCTTTTTTTCTTTCTTCTTCATC
1 CTTT-GTTTATTTAGGCATGTGTGCTTAGGAAGATAGTTTATGCTTTTTTTCTTTCTTCTTCATC
14863492 TTCTTCTCT
65 TTCTTCTCT
14863501 CTTTGTTTATTTAGGCATGTGTGCTTAGGAAGATAGTTTATGCTTTTTTTCTTTCTTCTTCATCT
1 CTTTGTTTATTTAGGCATGTGTGCTTAGGAAGATAGTTTATGCTTTTTTTCTTTCTTCTTCATCT
14863566 TCTTCTCT
66 TCTTCTCT
14863574 CTTTGTT
1 CTTTGTT
14863581 GCTACGGCAT
Statistics
Matches: 80, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
73 76 0.95
74 4 0.05
ACGTcount: A:0.13, C:0.16, G:0.16, T:0.55
Consensus pattern (73 bp):
CTTTGTTTATTTAGGCATGTGTGCTTAGGAAGATAGTTTATGCTTTTTTTCTTTCTTCTTCATCT
TCTTCTCT
Found at i:14869884 original size:2 final size:2
Alignment explanation
Indices: 14869877--14869952 Score: 82
Period size: 2 Copynumber: 37.5 Consensus size: 2
14869867 TATTGACAAC
* * * *
14869877 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AA AT GAC AA AG AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT
*
14869920 NA- AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
14869953 AATGACAAAG
Statistics
Matches: 64, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
1 1 0.02
2 61 0.95
3 2 0.03
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.41
Consensus pattern (2 bp):
AT
Found at i:14869978 original size:45 final size:45
Alignment explanation
Indices: 14869879--14869964 Score: 163
Period size: 45 Copynumber: 1.9 Consensus size: 45
14869869 TTGACAACAT
*
14869879 ATATATATATATATATATATATATATATAAATGACAAAGATNAAC
1 ATATATATATATATATATATATATATATAAATGACAAAGATAAAC
14869924 ATATATATATATATATATATATATATATAAATGACAAAGAT
1 ATATATATATATATATATATATATATATAAATGACAAAGAT
14869965 TGCTTTATTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.53, C:0.03, G:0.05, T:0.37
Consensus pattern (45 bp):
ATATATATATATATATATATATATATATAAATGACAAAGATAAAC
Found at i:14874056 original size:2 final size:2
Alignment explanation
Indices: 14874049--14874077 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
14874039 TTTTATAATG
14874049 AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14874078 CTAANNNNNN
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:14886240 original size:14 final size:14
Alignment explanation
Indices: 14886221--14886249 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
14886211 TAGAGAACAA
14886221 TATGTGTGTGTGTG
1 TATGTGTGTGTGTG
14886235 TATGTGTGTGTGTG
1 TATGTGTGTGTGTG
14886249 T
1 T
14886250 GATCATATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.07, C:0.00, G:0.41, T:0.52
Consensus pattern (14 bp):
TATGTGTGTGTGTG
Found at i:14888470 original size:35 final size:35
Alignment explanation
Indices: 14888411--14888529 Score: 150
Period size: 35 Copynumber: 3.3 Consensus size: 35
14888401 ATATACATAT
* *
14888411 ATCATCATCATGCGTGCACTCCCTACTCGTACACTCC
1 ATCATCATCAT--GTGCACTCCCTACTCGCACACTCA
* *
14888448 ATCATCGTCATGTGCAGTCCCTACTCGCACACTCA
1 ATCATCATCATGTGCACTCCCTACTCGCACACTCA
14888483 ATCATCATCATGTGTACACTCCCTACTCGCACACCTCA
1 ATCATCATCATGTG--CACTCCCTACTCGCACA-CTCA
14888521 A-CATCATCA
1 ATCATCATCA
14888530 CCCAACATCA
Statistics
Matches: 73, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
35 34 0.47
37 34 0.47
38 5 0.07
ACGTcount: A:0.25, C:0.39, G:0.10, T:0.26
Consensus pattern (35 bp):
ATCATCATCATGTGCACTCCCTACTCGCACACTCA
Found at i:14888515 original size:37 final size:36
Alignment explanation
Indices: 14888411--14888529 Score: 152
Period size: 37 Copynumber: 3.3 Consensus size: 36
14888401 ATATACATAT
* * *
14888411 ATCATCATCATGCGTGCACTCCCTACTCGTACACTCC
1 ATCATCATCATGTGT-CACTCCCTACTCGCACACTCA
* *
14888448 ATCATCGTCATGTG-CAGTCCCTACTCGCACACTCA
1 ATCATCATCATGTGTCACTCCCTACTCGCACACTCA
14888483 ATCATCATCATGTGTACACTCCCTACTCGCACACCTCA
1 ATCATCATCATGTGT-CACTCCCTACTCGCACA-CTCA
14888521 A-CATCATCA
1 ATCATCATCA
14888530 CCCAACATCA
Statistics
Matches: 72, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
35 31 0.43
37 36 0.50
38 5 0.07
ACGTcount: A:0.25, C:0.39, G:0.10, T:0.26
Consensus pattern (36 bp):
ATCATCATCATGTGTCACTCCCTACTCGCACACTCA
Found at i:14894265 original size:6 final size:6
Alignment explanation
Indices: 14894254--14894279 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
14894244 CCTTTTTTAT
14894254 AATATA AATATA AATATA AATATA AA
1 AATATA AATATA AATATA AATATA AA
14894280 CATGAAGATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (6 bp):
AATATA
Found at i:14902271 original size:14 final size:14
Alignment explanation
Indices: 14902249--14902301 Score: 61
Period size: 14 Copynumber: 3.6 Consensus size: 14
14902239 ATAGTTTTAT
14902249 AGAAAGAAAAAAAA
1 AGAAAGAAAAAAAA
* *
14902263 AGTAAGAAAGAAAA
1 AGAAAGAAAAAAAA
*
14902277 AGAAAGAAGAAAAGA
1 AGAAAGAA-AAAAAA
14902292 AGAAAAGAAA
1 AG-AAAGAAA
14902302 TTCAAGCAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
14 19 0.59
15 7 0.22
16 6 0.19
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.02
Consensus pattern (14 bp):
AGAAAGAAAAAAAA
Found at i:14902292 original size:18 final size:18
Alignment explanation
Indices: 14902249--14902288 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
14902239 ATAGTTTTAT
14902249 AGAAAGAAAAAAAAAGTA
1 AGAAAGAAAAAAAAAGTA
*
14902267 AGAAAGAAAAAGAAAG-A
1 AGAAAGAAAAAAAAAGTA
14902284 AGAAA
1 AGAAA
14902289 AGAAGAAAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.03
Consensus pattern (18 bp):
AGAAAGAAAAAAAAAGTA
Found at i:14917287 original size:23 final size:27
Alignment explanation
Indices: 14917261--14917316 Score: 75
Period size: 28 Copynumber: 2.2 Consensus size: 27
14917251 ATATGAATGC
14917261 AAGCTCAA-CACAC-ACACA-A-CAAT
1 AAGCTCAAGCACACAACACACAGCAAT
14917284 AAGCTCAAGGCACACAACACACAGCAAT
1 AAGCTCAA-GCACACAACACACAGCAAT
14917312 AAGCT
1 AAGCT
14917317 TTAGGCGCAC
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
23 8 0.29
25 5 0.18
26 5 0.18
27 1 0.04
28 9 0.32
ACGTcount: A:0.48, C:0.32, G:0.11, T:0.09
Consensus pattern (27 bp):
AAGCTCAAGCACACAACACACAGCAAT
Found at i:14917305 original size:28 final size:28
Alignment explanation
Indices: 14917268--14917335 Score: 84
Period size: 28 Copynumber: 2.4 Consensus size: 28
14917258 TGCAAGCTCA
14917268 ACAC-ACACACAACAATAAGCTCAAGGC
1 ACACAACACACAACAATAAGCTCAAGGC
* **
14917295 ACACAACACACAGCAATAAGCTTTAGGC
1 ACACAACACACAACAATAAGCTCAAGGC
*
14917323 GCACAAGCACACA
1 ACACAA-CACACA
14917336 CAGTAGCAGA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 4 0.11
28 25 0.71
29 6 0.17
ACGTcount: A:0.46, C:0.32, G:0.13, T:0.09
Consensus pattern (28 bp):
ACACAACACACAACAATAAGCTCAAGGC
Found at i:14920811 original size:29 final size:29
Alignment explanation
Indices: 14920760--14920825 Score: 87
Period size: 29 Copynumber: 2.2 Consensus size: 29
14920750 AAATATTAGT
14920760 TATAAAGACTTATTTAACTCAAAATAAAAA
1 TATAAA-ACTTATTTAACTCAAAATAAAAA
* * * *
14920790 TATAAAATTTATTTGATTCAAAATAAAAT
1 TATAAAACTTATTTAACTCAAAATAAAAA
14920819 TATAAAA
1 TATAAAA
14920826 GCTTCATTGA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 26 0.81
30 6 0.19
ACGTcount: A:0.56, C:0.06, G:0.03, T:0.35
Consensus pattern (29 bp):
TATAAAACTTATTTAACTCAAAATAAAAA
Found at i:14925204 original size:81 final size:81
Alignment explanation
Indices: 14925072--14925296 Score: 303
Period size: 81 Copynumber: 2.8 Consensus size: 81
14925062 CCCTATTGGT
*
14925072 AGATAATATT--TATTTTTTAGACCAATCAAAAAATTAGTTATTGGTCATCCAATTTATCTCTAA
1 AGATAATATTCATATTTTTT--ACCAATC-AAAAATTAGTTATTAGTCATCCAATTTATCTCTAA
14925135 ATAAATCAAGATAA-TTACG
63 ATAAATCAAGATAATTTA-G
* *
14925154 AGATAATATTCATATTTTTTACCAATCAAAAATTAGTTGTTAGTTATCCAATTTATCTCTAAATA
1 AGATAATATTCATATTTTTTACCAATCAAAAATTAGTTATTAGTCATCCAATTTATCTCTAAATA
14925219 AATCAAGATAATTTAG
66 AATCAAGATAATTTAG
* * * * * **
14925235 AGATAATATTCATATTTTTGATCAATCAAAATTTAATTATTGGTCATTTAATTTATCTCTAA
1 AGATAATATTCATATTTTTTACCAATCAAAAATTAGTTATTAGTCATCCAATTTATCTCTAA
14925297 TAATTGTATT
Statistics
Matches: 128, Mismatches: 12, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
81 100 0.78
82 20 0.16
84 8 0.06
ACGTcount: A:0.40, C:0.11, G:0.08, T:0.41
Consensus pattern (81 bp):
AGATAATATTCATATTTTTTACCAATCAAAAATTAGTTATTAGTCATCCAATTTATCTCTAAATA
AATCAAGATAATTTAG
Found at i:14925587 original size:18 final size:18
Alignment explanation
Indices: 14925564--14925646 Score: 98
Period size: 18 Copynumber: 4.7 Consensus size: 18
14925554 ATTTTCATTC
*
14925564 ATTCAGAGGCATTTGAAG
1 ATTCAGAGGCATTCGAAG
*
14925582 ATTCAGAGGCATTCAAAG
1 ATTCAGAGGCATTCGAAG
* *
14925600 ATTCGGAGGCATACGAAG
1 ATTCAGAGGCATTCGAAG
*
14925618 ATTCGGA-GCATTCGAAG
1 ATTCAGAGGCATTCGAAG
*
14925635 ATTGAGA-GCATT
1 ATTCAGAGGCATT
14925647 TCAGAGATCA
Statistics
Matches: 57, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
17 19 0.33
18 38 0.67
ACGTcount: A:0.34, C:0.14, G:0.28, T:0.24
Consensus pattern (18 bp):
ATTCAGAGGCATTCGAAG
Found at i:14925836 original size:100 final size:100
Alignment explanation
Indices: 14925723--14925970 Score: 415
Period size: 100 Copynumber: 2.5 Consensus size: 100
14925713 AAGATATTGT
* *
14925723 GTTCGTGATCAAGATTAAGTCGTGAAGACCCTTGAAGCGAAGATCAAGTGTTCGTGATCAAGACT
1 GTTCGTGATCAAGACTAAGTCGTGAAGACCCTTGAAGCGAAGATCAAGTATTCGTGATCAAGACT
*
14925788 AAGTCGTAAAGACCCTTGATGCGAAGATCAAGCAA
66 AAGTCGTAAAGACCCTTGATGCAAAGATCAAGCAA
* *
14925823 GTTCGTGATCAAGACTAAGTCGTGAAGATCCTTGAAGCTAAGATCAAGTATTCGTGATCAAGACT
1 GTTCGTGATCAAGACTAAGTCGTGAAGACCCTTGAAGCGAAGATCAAGTATTCGTGATCAAGACT
* * *
14925888 AAGTCGTGAAGACCCTTGATGTAAAGATCAAGCAC
66 AAGTCGTAAAGACCCTTGATGCAAAGATCAAGCAA
*
14925923 GTTCGTGATCAAGACTAAGTCGTGAAGACCCTTGACGCGAAGATCAAG
1 GTTCGTGATCAAGACTAAGTCGTGAAGACCCTTGAAGCGAAGATCAAG
14925971 ACTAAGTCGT
Statistics
Matches: 137, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
100 137 1.00
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.23
Consensus pattern (100 bp):
GTTCGTGATCAAGACTAAGTCGTGAAGACCCTTGAAGCGAAGATCAAGTATTCGTGATCAAGACT
AAGTCGTAAAGACCCTTGATGCAAAGATCAAGCAA
Found at i:14925845 original size:51 final size:50
Alignment explanation
Indices: 14925723--14925971 Score: 358
Period size: 49 Copynumber: 5.0 Consensus size: 50
14925713 AAGATATTGT
* *
14925723 GTTCGTGATCAAGATTAAGTCGTGAAGACCCTTGAAGCGAAGATCAAG-T
1 GTTCGTGATCAAGACTAAGTCGTGAAGACCCTTGAAGCGAAGATCAAGAA
* *
14925772 GTTCGTGATCAAGACTAAGTCGTAAAGACCCTTGATGCGAAGATCAAGCAA
1 GTTCGTGATCAAGACTAAGTCGTGAAGACCCTTGAAGCGAAGATCAAG-AA
* * *
14925823 GTTCGTGATCAAGACTAAGTCGTGAAGATCCTTGAAGCTAAGATCAAGTA
1 GTTCGTGATCAAGACTAAGTCGTGAAGACCCTTGAAGCGAAGATCAAGAA
* ** *
14925873 -TTCGTGATCAAGACTAAGTCGTGAAGACCCTTGATGTAAAGATCAAGCAC
1 GTTCGTGATCAAGACTAAGTCGTGAAGACCCTTGAAGCGAAGATCAAG-AA
*
14925923 GTTCGTGATCAAGACTAAGTCGTGAAGACCCTTGACGCGAAGATCAAGA
1 GTTCGTGATCAAGACTAAGTCGTGAAGACCCTTGAAGCGAAGATCAAGA
14925972 CTAAGTCGTG
Statistics
Matches: 178, Mismatches: 18, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
49 88 0.49
50 2 0.01
51 88 0.49
ACGTcount: A:0.34, C:0.18, G:0.24, T:0.23
Consensus pattern (50 bp):
GTTCGTGATCAAGACTAAGTCGTGAAGACCCTTGAAGCGAAGATCAAGAA
Found at i:14925968 original size:35 final size:35
Alignment explanation
Indices: 14925929--14926005 Score: 136
Period size: 35 Copynumber: 2.2 Consensus size: 35
14925919 GCACGTTCGT
*
14925929 GATCAAGACTAAGTCGTGAAGACCCTTGACGCGAA
1 GATCAAGACTAAGTCGTGAAGACCCTTGACGCAAA
*
14925964 GATCAAGACTAAGTCGTGAAGACCCTTGACGTAAA
1 GATCAAGACTAAGTCGTGAAGACCCTTGACGCAAA
14925999 GATCAAG
1 GATCAAG
14926006 CACATTCATG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 40 1.00
ACGTcount: A:0.36, C:0.21, G:0.25, T:0.18
Consensus pattern (35 bp):
GATCAAGACTAAGTCGTGAAGACCCTTGACGCAAA
Found at i:14933775 original size:63 final size:63
Alignment explanation
Indices: 14933671--14933799 Score: 222
Period size: 63 Copynumber: 2.0 Consensus size: 63
14933661 TGTTATTATA
*
14933671 AAGAACACCCTCCAAAGATAATAAATTGTGTGCTAGTATAAAGAGCACCTCCCAAGGATCAAC
1 AAGAACACCCTCCAAAGATAATAAATTATGTGCTAGTATAAAGAGCACCTCCCAAGGATCAAC
* * *
14933734 AAGAGCACCCTCCAAGGATAATAAATTATGTGCTAGTATAAAGAGCACCTTCCAAGGATCAAC
1 AAGAACACCCTCCAAAGATAATAAATTATGTGCTAGTATAAAGAGCACCTCCCAAGGATCAAC
14933797 AAG
1 AAG
14933800 TGCTATTATA
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
63 62 1.00
ACGTcount: A:0.41, C:0.22, G:0.17, T:0.19
Consensus pattern (63 bp):
AAGAACACCCTCCAAAGATAATAAATTATGTGCTAGTATAAAGAGCACCTCCCAAGGATCAAC
Found at i:14933810 original size:36 final size:36
Alignment explanation
Indices: 14933734--14934056 Score: 204
Period size: 36 Copynumber: 8.5 Consensus size: 36
14933724 AAGGATCAAC
* * *
14933734 AAGAGCACCCTCCAAGGATAATAAATTATGTGCTAGTATA
1 AAGAGCACCTTCCAAGGATCA-AAA--A-GTGCTATTATA
*
14933774 AAGAGCACCTTCCAAGGATCAACAAGTGCTATTATA
1 AAGAGCACCTTCCAAGGATCAAAAAGTGCTATTATA
* * *
14933810 AATAGCACCTTCCAAGGATAATAAATTATGTGCTAGTATA
1 AAGAGCACCTTCCAAGGATCA-AAA--A-GTGCTATTATA
* * * *
14933850 AAGAGCACCTCCCAAAGATCAACAAGTGTTATTATA
1 AAGAGCACCTTCCAAGGATCAAAAAGTGCTATTATA
* *
14933886 AAGAGCACCCTT-CAAGGATAATAAATTATGTGCTAGTATA
1 AAGAGCA-CCTTCCAAGGATCA-AAA--A-GTGCTATTATA
* * * * *
14933926 AAGAACACCTCCCAAGGATCAACAGGTGCTATGATA
1 AAGAGCACCTTCCAAGGATCAAAAAGTGCTATTATA
* * *
14933962 AAGAGCACCCTCCGAA-GAT-AATAAATTGTGTTCCATTATG
1 AAGAGCACCTTCC-AAGGATCAA-AAA--GTG--CTATTATA
** *
14934002 AAGAGCACCCCCCACA-GATCAATAAGTGCTATTATA
1 AAGAGCACCTTCCA-AGGATCAAAAAGTGCTATTATA
* *
14934038 AAGAGCACCCTCCGAGGAT
1 AAGAGCACCTTCCAAGGAT
14934057 AATAAATTAT
Statistics
Matches: 222, Mismatches: 42, Indels: 42
0.73 0.14 0.14
Matches are distributed among these distances:
35 3 0.01
36 96 0.43
37 11 0.05
38 6 0.03
39 12 0.05
40 92 0.41
41 2 0.01
ACGTcount: A:0.39, C:0.21, G:0.17, T:0.23
Consensus pattern (36 bp):
AAGAGCACCTTCCAAGGATCAAAAAGTGCTATTATA
Found at i:14934076 original size:76 final size:76
Alignment explanation
Indices: 14933734--14934068 Score: 485
Period size: 76 Copynumber: 4.4 Consensus size: 76
14933724 AAGGATCAAC
*
14933734 AAGAGCACCCTCCAAGGATAATAAATTATGTGCTAGTATAAAGAGCACCTTCCAAGGATCAACAA
1 AAGAGCACCCTCCAAGGATAATAAATTATGTGCTAGTATAAAGAGCACCTCCCAAGGATCAACAA
14933799 GTGCTATTATA
66 GTGCTATTATA
* * *
14933810 AATAGCACCTTCCAAGGATAATAAATTATGTGCTAGTATAAAGAGCACCTCCCAAAGATCAACAA
1 AAGAGCACCCTCCAAGGATAATAAATTATGTGCTAGTATAAAGAGCACCTCCCAAGGATCAACAA
*
14933875 GTGTTATTATA
66 GTGCTATTATA
* * *
14933886 AAGAGCACCCTTCAAGGATAATAAATTATGTGCTAGTATAAAGAACACCTCCCAAGGATCAACAG
1 AAGAGCACCCTCCAAGGATAATAAATTATGTGCTAGTATAAAGAGCACCTCCCAAGGATCAACAA
*
14933951 GTGCTATGATA
66 GTGCTATTATA
* * * * * * *
14933962 AAGAGCACCCTCCGAA-GATAATAAATTGTGTTCCATTATGAAGAGCACCCCCCACA-GATCAAT
1 AAGAGCACCCTCC-AAGGATAATAAATTATGTGCTAGTATAAAGAGCACCTCCCA-AGGATCAAC
14934025 AAGTGCTATTATA
64 AAGTGCTATTATA
*
14934038 AAGAGCACCCTCCGAGGATAATAAATTATGT
1 AAGAGCACCCTCCAAGGATAATAAATTATGT
14934069 ATTATTATAA
Statistics
Matches: 230, Mismatches: 26, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
75 1 0.00
76 226 0.98
77 3 0.01
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.24
Consensus pattern (76 bp):
AAGAGCACCCTCCAAGGATAATAAATTATGTGCTAGTATAAAGAGCACCTCCCAAGGATCAACAA
GTGCTATTATA
Found at i:14934960 original size:61 final size:61
Alignment explanation
Indices: 14934865--14934981 Score: 189
Period size: 61 Copynumber: 1.9 Consensus size: 61
14934855 TGTAATCCTA
* * * *
14934865 ATTGCAATATACTTCTTTAAGTAGTTTTATTGCAATATACTTCTTTCAAAATTATAGCCTT
1 ATTGCAATATACTTCTTCAAATAGTTTTATTGCAATATACATCTTCCAAAATTATAGCCTT
*
14934926 ATTGCAATATACTTCTTCAAATAGTTTTATTGCAATATACATCTTCCAAGATTATA
1 ATTGCAATATACTTCTTCAAATAGTTTTATTGCAATATACATCTTCCAAAATTATA
14934982 ATTCTCTTAC
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
61 51 1.00
ACGTcount: A:0.33, C:0.15, G:0.08, T:0.44
Consensus pattern (61 bp):
ATTGCAATATACTTCTTCAAATAGTTTTATTGCAATATACATCTTCCAAAATTATAGCCTT
Found at i:14934971 original size:28 final size:28
Alignment explanation
Indices: 14934865--14934971 Score: 124
Period size: 28 Copynumber: 3.6 Consensus size: 28
14934855 TGTAATCCTA
* *
14934865 ATTGCAATATACTTCTTTAAGTAGTTTT
1 ATTGCAATATACTTCTTCAAATAGTTTT
**
14934893 ATTGCAATATACTTCTTTCAAAATTATAGCCTT
1 ATTGCAATATACTTC-TTC--AA--ATAGTTTT
14934926 ATTGCAATATACTTCTTCAAATAGTTTT
1 ATTGCAATATACTTCTTCAAATAGTTTT
*
14934954 ATTGCAATATACATCTTC
1 ATTGCAATATACTTCTTC
14934972 CAAGATTATA
Statistics
Matches: 67, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
28 38 0.57
29 2 0.03
30 2 0.03
31 2 0.03
32 3 0.04
33 20 0.30
ACGTcount: A:0.32, C:0.16, G:0.07, T:0.45
Consensus pattern (28 bp):
ATTGCAATATACTTCTTCAAATAGTTTT
Found at i:14935395 original size:81 final size:81
Alignment explanation
Indices: 14935268--14935492 Score: 371
Period size: 81 Copynumber: 2.8 Consensus size: 81
14935258 ACCTATTGGT
*
14935268 AGATAATATTTAT-TTTTTGGACCAATCAAAAAATTAGTTATTGGTCATCCAATTTATCTCTAAA
1 AGATAATATTCATATTTTT-GACCAATC-AAAAATTAGTTATTGGTCATCCAATTTATCTCTAAA
14935332 TAAATCAAGATAATTTAG
64 TAAATCAAGATAATTTAG
*
14935350 AGATAATATTCATATTTTTGACCAATCAAAAATTAGTTGTTGGTCATCCAATTTATCTCTAAATA
1 AGATAATATTCATATTTTTGACCAATCAAAAATTAGTTATTGGTCATCCAATTTATCTCTAAATA
14935415 AATCAAGATAATTTAG
66 AATCAAGATAATTTAG
* * **
14935431 AGATAATATTCATATTTTTGACCAATCAAAATTTAATTATTGGTCATTTAATTTATCTCTAA
1 AGATAATATTCATATTTTTGACCAATCAAAAATTAGTTATTGGTCATCCAATTTATCTCTAA
14935493 TAATTATATT
Statistics
Matches: 135, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
81 110 0.81
82 20 0.15
83 5 0.04
ACGTcount: A:0.39, C:0.12, G:0.09, T:0.40
Consensus pattern (81 bp):
AGATAATATTCATATTTTTGACCAATCAAAAATTAGTTATTGGTCATCCAATTTATCTCTAAATA
AATCAAGATAATTTAG
Found at i:14935800 original size:18 final size:18
Alignment explanation
Indices: 14935761--14935818 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 18
14935751 ATTTTCATTC
* * *
14935761 ATTCAAAGGCATTTGAAA
1 ATTCAGAGGCATTCGAAG
14935779 ATTCAGAGGCATTCGAAG
1 ATTCAGAGGCATTCGAAG
* **
14935797 ATTCGGACACATTCGAAG
1 ATTCAGAGGCATTCGAAG
14935815 ATTC
1 ATTC
14935819 GGAACATTTA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.26
Consensus pattern (18 bp):
ATTCAGAGGCATTCGAAG
Found at i:14935819 original size:18 final size:17
Alignment explanation
Indices: 14935788--14935826 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 17
14935778 AATTCAGAGG
14935788 CATTCGAAGATTCGGACA
1 CATTCGAAGATTCGGA-A
14935806 CATTCGAAGATTCGGAA
1 CATTCGAAGATTCGGAA
14935823 CATT
1 CATT
14935827 TAAAGATTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.26
Consensus pattern (17 bp):
CATTCGAAGATTCGGAA
Found at i:14935832 original size:17 final size:18
Alignment explanation
Indices: 14935788--14935834 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
14935778 AATTCAGAGG
*
14935788 CATTCGAAGATTCGGACA
1 CATTCAAAGATTCGGACA
*
14935806 CATTCGAAGATTCGGA-A
1 CATTCAAAGATTCGGACA
*
14935823 CATTTAAAGATT
1 CATTCAAAGATT
14935835 GAGAGCATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
17 11 0.41
18 16 0.59
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.28
Consensus pattern (18 bp):
CATTCAAAGATTCGGACA
Found at i:14935955 original size:49 final size:50
Alignment explanation
Indices: 14935901--14936149 Score: 324
Period size: 49 Copynumber: 5.0 Consensus size: 50
14935891 ATTAAGCGAA
* *
14935901 GTTCGTGATCAAGATTAAGTCGTGAAGACCCTTGAAGCGAAGTTCAAG-T
1 GTTCGTGATCAAGACTAAGTCGTGAAGACCCTTGAAGCGAAGATCAAGAT
* * * * *
14935950 GTTCGTGATCAAAACTAAGTCGTAAAGACCCTTGATGCAAAGATCAAGCAA
1 GTTCGTGATCAAGACTAAGTCGTGAAGACCCTTGAAGCGAAGATCAAG-AT
*
14936001 GTTCGTGATCAAGACTAAGTCGTGAAGACCCTTGAAGTGAAGATCAAG-T
1 GTTCGTGATCAAGACTAAGTCGTGAAGACCCTTGAAGCGAAGATCAAGAT
* ** *
14936050 GTTCATGATCAAGACTAAGTCGTGAAGACCCTTGACA-TAAAGATCAAGCAC
1 GTTCGTGATCAAGACTAAGTCGTGAAGACCCTTGA-AGCGAAGATCAAG-AT
* *
14936101 GTTTGTGATCAAGACTAAGTCGTGAAGACCCTTGACGCGAAGATCAAGA
1 GTTCGTGATCAAGACTAAGTCGTGAAGACCCTTGAAGCGAAGATCAAGA
14936150 CTAAGTCGTG
Statistics
Matches: 173, Mismatches: 21, Indels: 11
0.84 0.10 0.05
Matches are distributed among these distances:
49 86 0.50
50 2 0.01
51 85 0.49
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.23
Consensus pattern (50 bp):
GTTCGTGATCAAGACTAAGTCGTGAAGACCCTTGAAGCGAAGATCAAGAT
Found at i:14936072 original size:100 final size:100
Alignment explanation
Indices: 14935894--14936148 Score: 393
Period size: 100 Copynumber: 2.5 Consensus size: 100
14935884 CAAGATAATT
* * *
14935894 AAGCGAAGTTCGTGATCAAGATTAAGTCGTGAAGACCCTTGAAGCGAAGTTCAAGTGTTCGTGAT
1 AAGC-AAGTTCGTGATCAAGACTAAGTCGTGAAGACCCTTGAAGCGAAGATCAAGTGTTCATGAT
**
14935959 CAAAACTAAGTCGTAAAGACCCTTGATGCAAAGATC
65 CAAAACTAAGTCGTAAAGACCCTTGACACAAAGATC
*
14935995 AAGCAAGTTCGTGATCAAGACTAAGTCGTGAAGACCCTTGAAGTGAAGATCAAGTGTTCATGATC
1 AAGCAAGTTCGTGATCAAGACTAAGTCGTGAAGACCCTTGAAGCGAAGATCAAGTGTTCATGATC
* * *
14936060 AAGACTAAGTCGTGAAGACCCTTGACATAAAGATC
66 AAAACTAAGTCGTAAAGACCCTTGACACAAAGATC
* * *
14936095 AAGCACGTTTGTGATCAAGACTAAGTCGTGAAGACCCTTGACGCGAAGATCAAG
1 AAGCAAGTTCGTGATCAAGACTAAGTCGTGAAGACCCTTGAAGCGAAGATCAAG
14936149 ACTAAGTCGT
Statistics
Matches: 141, Mismatches: 13, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
100 137 0.97
101 4 0.03
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.23
Consensus pattern (100 bp):
AAGCAAGTTCGTGATCAAGACTAAGTCGTGAAGACCCTTGAAGCGAAGATCAAGTGTTCATGATC
AAAACTAAGTCGTAAAGACCCTTGACACAAAGATC
Found at i:14936146 original size:35 final size:35
Alignment explanation
Indices: 14936107--14936183 Score: 127
Period size: 35 Copynumber: 2.2 Consensus size: 35
14936097 GCACGTTTGT
*
14936107 GATCAAGACTAAGTCGTGAAGACCCTTGACGCGAA
1 GATCAAGACTAAGTCGTGAAGACCCTTGACGCAAA
* *
14936142 GATCAAGACTAAGTCGTGAAGACCTTTGACGTAAA
1 GATCAAGACTAAGTCGTGAAGACCCTTGACGCAAA
14936177 GATCAAG
1 GATCAAG
14936184 CACGTTCGTG
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 39 1.00
ACGTcount: A:0.36, C:0.19, G:0.25, T:0.19
Consensus pattern (35 bp):
GATCAAGACTAAGTCGTGAAGACCCTTGACGCAAA
Found at i:14940480 original size:23 final size:24
Alignment explanation
Indices: 14940434--14940482 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 24
14940424 TTTTTAACTT
*
14940434 TTTTTTTTAATTTTCTTTGGTAAA
1 TTTTTTTTAATTTTCTTTGCTAAA
* *
14940458 TTTTTTTT-ATTTTGTTTTCTAAA
1 TTTTTTTTAATTTTCTTTGCTAAA
14940481 TT
1 TT
14940483 CTTTATTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 14 0.64
24 8 0.36
ACGTcount: A:0.18, C:0.04, G:0.06, T:0.71
Consensus pattern (24 bp):
TTTTTTTTAATTTTCTTTGCTAAA
Found at i:14941017 original size:19 final size:19
Alignment explanation
Indices: 14940990--14941032 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
14940980 TGCATAATGA
*
14940990 TTGTTAAATATCTATATAC
1 TTGTAAAATATCTATATAC
14941009 TTGTAAAATATCTATATAC
1 TTGTAAAATATCTATATAC
14941028 TTGTA
1 TTGTA
14941033 TAATGACCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.37, C:0.09, G:0.07, T:0.47
Consensus pattern (19 bp):
TTGTAAAATATCTATATAC
Found at i:14945563 original size:6 final size:6
Alignment explanation
Indices: 14945529--14945561 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
14945519 CAAGTGTAGA
*
14945529 CAATGC CAATGC CAATGC CAATGC CAACGC CAA
1 CAATGC CAATGC CAATGC CAATGC CAATGC CAA
14945562 CGGGCAACAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.36, C:0.36, G:0.15, T:0.12
Consensus pattern (6 bp):
CAATGC
Found at i:14948163 original size:4 final size:4
Alignment explanation
Indices: 14948142--14948213 Score: 81
Period size: 4 Copynumber: 18.0 Consensus size: 4
14948132 CTTTTAGTGA
* * * * * * *
14948142 ATAT ATGT ATAA ATAT ATAT ATAT ATAT GTAT AAAT AAAT GTAT AAAT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
14948190 ATAT ATAT ATAT ATAT ATAT ATAT
1 ATAT ATAT ATAT ATAT ATAT ATAT
14948214 GAATGATAAA
Statistics
Matches: 56, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
4 56 1.00
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.44
Consensus pattern (4 bp):
ATAT
Found at i:14950696 original size:3 final size:3
Alignment explanation
Indices: 14950688--14950722 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
14950678 CCATCAAGAG
* *
14950688 AAT AAT AAT AAT AAT AAT AAT AAA AAT AAA AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
14950723 AAACCCTAAC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:14950723 original size:12 final size:12
Alignment explanation
Indices: 14950688--14950725 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
14950678 CCATCAAGAG
*
14950688 AATAATAATAAT
1 AATAATAATAAA
14950700 AATAATAATAAA
1 AATAATAATAAA
*
14950712 AATAAAAATAAA
1 AATAATAATAAA
14950724 AA
1 AA
14950726 CCCTAACAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (12 bp):
AATAATAATAAA
Found at i:14954825 original size:12 final size:12
Alignment explanation
Indices: 14954808--14954838 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
14954798 GGCTGTTGCA
*
14954808 AAAGGCTAGTGT
1 AAAGGCTAGGGT
14954820 AAAGGCTAGGGT
1 AAAGGCTAGGGT
14954832 AAAGGCT
1 AAAGGCT
14954839 TGACAAATCC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.35, C:0.10, G:0.35, T:0.19
Consensus pattern (12 bp):
AAAGGCTAGGGT
Found at i:14957518 original size:6 final size:7
Alignment explanation
Indices: 14957499--14957523 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
14957489 TATTTAAAAA
14957499 TATTTTT
1 TATTTTT
14957506 TATTTTT
1 TATTTTT
14957513 TATTTTT
1 TATTTTT
14957520 TATT
1 TATT
14957524 CAGTTAAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (7 bp):
TATTTTT
Found at i:14969738 original size:18 final size:19
Alignment explanation
Indices: 14969700--14969738 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
14969690 GTGTTTAGGT
*
14969700 TTGCTTGTATTTTAAGATTG
1 TTGCTAGTATTTT-AGATTG
14969720 TTGCTAGTATTTT-GATTG
1 TTGCTAGTATTTTAGATTG
14969738 T
1 T
14969739 CAAAAGTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 6 0.33
20 12 0.67
ACGTcount: A:0.18, C:0.05, G:0.21, T:0.56
Consensus pattern (19 bp):
TTGCTAGTATTTTAGATTG
Found at i:14970737 original size:17 final size:16
Alignment explanation
Indices: 14970715--14970757 Score: 59
Period size: 17 Copynumber: 2.6 Consensus size: 16
14970705 AATTAATATG
14970715 TTAATTAATGAGTTAA
1 TTAATTAATGAGTTAA
* *
14970731 TTAAATTAATTATTTAA
1 TT-AATTAATGAGTTAA
14970748 TTAATTAATG
1 TTAATTAATG
14970758 CAATGTGTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 9 0.39
17 14 0.61
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (16 bp):
TTAATTAATGAGTTAA
Found at i:14975007 original size:15 final size:15
Alignment explanation
Indices: 14974989--14975044 Score: 53
Period size: 15 Copynumber: 3.9 Consensus size: 15
14974979 ATTATATTGC
*
14974989 TATTTATTTTTAAAA
1 TATTTATATTTAAAA
* *
14975004 TATTAAAATTTAAAA
1 TATTTATATTTAAAA
* *
14975019 AATTTATAATTAAAA
1 TATTTATATTTAAAA
14975034 T-TTTA-ATTTAA
1 TATTTATATTTAA
14975045 TTTTTAAGCT
Statistics
Matches: 32, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
13 5 0.16
14 4 0.12
15 23 0.72
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TATTTATATTTAAAA
Found at i:14976470 original size:21 final size:21
Alignment explanation
Indices: 14976407--14976506 Score: 92
Period size: 21 Copynumber: 4.8 Consensus size: 21
14976397 CAAAGAAAAC
*
14976407 CGAGAATGTGGTAGAGAGAGA
1 CGAGAATGTGGTAGAAAGAGA
* ** * * *
14976428 TGAGGGTCTGGCAGAAATAGA
1 CGAGAATGTGGTAGAAAGAGA
14976449 CGAGAATGTGGTAGAAAGAGA
1 CGAGAATGTGGTAGAAAGAGA
** * **
14976470 CGAGGGTGTGGCAGAAACCGA
1 CGAGAATGTGGTAGAAAGAGA
14976491 CGAGAATGTGGTAGAA
1 CGAGAATGTGGTAGAA
14976507 TTGGACGAGA
Statistics
Matches: 58, Mismatches: 21, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
21 58 1.00
ACGTcount: A:0.36, C:0.09, G:0.40, T:0.15
Consensus pattern (21 bp):
CGAGAATGTGGTAGAAAGAGA
Found at i:14976513 original size:21 final size:20
Alignment explanation
Indices: 14976447--14976518 Score: 72
Period size: 21 Copynumber: 3.5 Consensus size: 20
14976437 GGCAGAAATA
14976447 GACGAGAATGTGGTAGAAAG
1 GACGAGAATGTGGTAGAAAG
** * *
14976467 AGACGAGGGTGTGGCAGAAACC
1 -GACGAGAATGTGGTAGAAA-G
*
14976489 GACGAGAATGTGGTAGAATTG
1 GACGAGAATGTGGTAGAA-AG
14976510 GACGAGAAT
1 GACGAGAAT
14976519 CCAGCAGCTC
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.36, C:0.10, G:0.39, T:0.15
Consensus pattern (20 bp):
GACGAGAATGTGGTAGAAAG
Found at i:14976515 original size:42 final size:41
Alignment explanation
Indices: 14976407--14976506 Score: 146
Period size: 42 Copynumber: 2.4 Consensus size: 41
14976397 CAAAGAAAAC
* *
14976407 CGAGAATGTGGTAGAGAGAGATGAGGGTCTGGCAGAAATAGA
1 CGAGAATGTGGTAGA-AGAGACGAGGGTCTGGCAGAAACAGA
* *
14976449 CGAGAATGTGGTAGAAAGAGACGAGGGTGTGGCAGAAACCGA
1 CGAGAATGTGGTAG-AAGAGACGAGGGTCTGGCAGAAACAGA
14976491 CGAGAATGTGGTAGAA
1 CGAGAATGTGGTAGAA
14976507 TTGGACGAGA
Statistics
Matches: 53, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
41 2 0.04
42 50 0.94
43 1 0.02
ACGTcount: A:0.36, C:0.09, G:0.40, T:0.15
Consensus pattern (41 bp):
CGAGAATGTGGTAGAAGAGACGAGGGTCTGGCAGAAACAGA
Found at i:14992744 original size:200 final size:201
Alignment explanation
Indices: 14992346--14992750 Score: 699
Period size: 200 Copynumber: 2.0 Consensus size: 201
14992336 AGGACACAGC
*
14992346 AATACACATGGATTTAGAATTTCATAATATTAACATAAATATTTAATAATAACAATGTAGCATTC
1 AATACACATGGATTTAGAATTCCATAATATTAACATAAATATTTAATAATAACAATGTAGCATTC
*
14992411 ATCTGCTTCGAAATAAATCTCAGACAGCAAGTTATGAAAAAGAAAAGTTTCTTCACCAAAATACA
66 ATCTGCTTCGAAATAAATCTCAGACAGCAAGTTATGAAAAAGAAAAGTTGCTTCACCAAAATACA
*
14992476 AAGAGCCTTCTCATTTTACAAGTTATCTAAATATATTAAGTTTAATCCGATTCATGTCTATACAA
131 AAGAGCCTTCTCATTTTACAAGTTATCTAAATATATTAAGCTTAATCCGATTCATGTCTATACAA
14992541 GCATCA
196 GCATCA
*
14992547 AATACATATGGATTTAGAATTCCATAATATTAACATAAATATTTAATAATAAC-ATGGTAGCATT
1 AATACACATGGATTTAGAATTCCATAATATTAACATAAATATTTAATAATAACAAT-GTAGCATT
* *
14992611 CATCTGCTTTGAAATAAATCTCAGACAGCAAGTTATG-GAAAGAAAAGTTGCTTCACCAAAATAC
65 CATCTGCTTCGAAATAAATCTCAGACAGCAAGTTATGAAAAAGAAAAGTTGCTTCACCAAAATAC
* *
14992675 AAAGAGCCTTCTCATTTTACTAGTTATCTAATTATATTAAGCTTAATCC-AGTTCATGTCTATAC
130 AAAGAGCCTTCTCATTTTACAAGTTATCTAAATATATTAAGCTTAATCCGA-TTCATGTCTATAC
14992739 AAGCATCA
194 AAGCATCA
14992747 AATA
1 AATA
14992751 AGTATAGACA
Statistics
Matches: 194, Mismatches: 8, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
199 1 0.01
200 98 0.51
201 95 0.49
ACGTcount: A:0.41, C:0.16, G:0.11, T:0.33
Consensus pattern (201 bp):
AATACACATGGATTTAGAATTCCATAATATTAACATAAATATTTAATAATAACAATGTAGCATTC
ATCTGCTTCGAAATAAATCTCAGACAGCAAGTTATGAAAAAGAAAAGTTGCTTCACCAAAATACA
AAGAGCCTTCTCATTTTACAAGTTATCTAAATATATTAAGCTTAATCCGATTCATGTCTATACAA
GCATCA
Found at i:15003534 original size:16 final size:13
Alignment explanation
Indices: 15003502--15003526 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15003492 ATCAGAGTGA
15003502 ATGATGATGTGGC
1 ATGATGATGTGGC
15003515 ATGATGATGTGG
1 ATGATGATGTGG
15003527 TTGCATGACA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.04, G:0.40, T:0.32
Consensus pattern (13 bp):
ATGATGATGTGGC
Found at i:15005177 original size:21 final size:22
Alignment explanation
Indices: 15005151--15005192 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
15005141 TAGAAATCAG
15005151 TAAAATTCAA-AAGCACAATAA
1 TAAAATTCAATAAGCACAATAA
*
15005172 TAAAATTCAATAAGCATAATA
1 TAAAATTCAATAAGCACAATA
15005193 CTTAAAAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.60, C:0.12, G:0.05, T:0.24
Consensus pattern (22 bp):
TAAAATTCAATAAGCACAATAA
Found at i:15005666 original size:17 final size:19
Alignment explanation
Indices: 15005629--15005666 Score: 53
Period size: 17 Copynumber: 2.1 Consensus size: 19
15005619 AAAGTATTAA
15005629 ATTAATTTAATACTAATAT
1 ATTAATTTAATACTAATAT
*
15005648 ATTAA-TTAAT-CTCATAT
1 ATTAATTTAATACTAATAT
15005665 AT
1 AT
15005667 ATATATATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 8 0.44
18 5 0.28
19 5 0.28
ACGTcount: A:0.45, C:0.08, G:0.00, T:0.47
Consensus pattern (19 bp):
ATTAATTTAATACTAATAT
Found at i:15006803 original size:86 final size:79
Alignment explanation
Indices: 15006699--15006872 Score: 249
Period size: 86 Copynumber: 2.1 Consensus size: 79
15006689 TATTATTTTT
* *
15006699 AAATTTAAACTTTTAATATATTCCTTAATAATATATTTTTTTAAATATTATAAAATATATAATTT
1 AAATTTAAACTTTCAATATATTCCTTAATAATATA--TTTTTAAATA--A-AAAATACAT-ATTT
15006764 CATATTAATTTATTAATTAA
60 CATATTAATTTATTAATTAA
* *
15006784 ANAATTTAAACTTTCAATATATTCCTTAATAATATATTTTTAAATAAAATATACATTTTTCATAT
1 A-AATTTAAACTTTCAATATATTCCTTAATAATATATTTTTAAATAAAAAATACATATTTCATAT
15006849 TAATTTATTAATTAA
65 TAATTTATTAATTAA
15006864 AAATTTAAA
1 AAATTTAAA
15006873 AAATACTTAA
Statistics
Matches: 84, Mismatches: 4, Indels: 8
0.88 0.04 0.08
Matches are distributed among these distances:
79 8 0.10
80 24 0.29
81 7 0.08
82 1 0.01
84 10 0.12
85 1 0.01
86 33 0.39
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.48
Consensus pattern (79 bp):
AAATTTAAACTTTCAATATATTCCTTAATAATATATTTTTAAATAAAAAATACATATTTCATATT
AATTTATTAATTAA
Found at i:15015167 original size:3 final size:3
Alignment explanation
Indices: 15015155--15015186 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
15015145 ATACTTCATC
15015155 AGA A-A AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
15015187 GTTGTTGGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:15016801 original size:2 final size:2
Alignment explanation
Indices: 15016796--15016860 Score: 68
Period size: 2 Copynumber: 34.5 Consensus size: 2
15016786 ATTTTTATTC
*
15016796 TA TA TA TA TA TA TA TA TA TA TA T- TGA TA TA -A TA -A GA -A TA
1 TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA
*
15016835 -A CA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
15016861 CAATTACTCA
Statistics
Matches: 56, Mismatches: 1, Indels: 12
0.81 0.01 0.17
Matches are distributed among these distances:
1 5 0.09
2 50 0.89
3 1 0.02
ACGTcount: A:0.51, C:0.02, G:0.03, T:0.45
Consensus pattern (2 bp):
TA
Found at i:15018514 original size:5 final size:5
Alignment explanation
Indices: 15018497--15018542 Score: 76
Period size: 5 Copynumber: 9.4 Consensus size: 5
15018487 CAGACTGTAC
*
15018497 GGAA- GGAAT GGAAG GGAAG GGAAG GGAAG GGAAG GGAAG GGAAG GG
1 GGAAG GGAAG GGAAG GGAAG GGAAG GGAAG GGAAG GGAAG GGAAG GG
15018543 GGTCATCATC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
4 4 0.10
5 36 0.90
ACGTcount: A:0.39, C:0.00, G:0.59, T:0.02
Consensus pattern (5 bp):
GGAAG
Found at i:15018905 original size:2 final size:2
Alignment explanation
Indices: 15018894--15018947 Score: 101
Period size: 2 Copynumber: 27.5 Consensus size: 2
15018884 GACTGCTGTC
15018894 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
15018935 TA TA TA TA TA TA T
1 TA TA TA TA TA TA T
15018948 GTGTGTGTGT
Statistics
Matches: 51, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 50 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:15020314 original size:6 final size:6
Alignment explanation
Indices: 15020303--15020329 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
15020293 ATTTGGTTGG
15020303 CATCAC CATCAC CATCAC CATCAC CAT
1 CATCAC CATCAC CATCAC CATCAC CAT
15020330 TATACATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.33, C:0.48, G:0.00, T:0.19
Consensus pattern (6 bp):
CATCAC
Found at i:15024191 original size:24 final size:24
Alignment explanation
Indices: 15024163--15024226 Score: 110
Period size: 24 Copynumber: 2.7 Consensus size: 24
15024153 CTATAAAACC
15024163 AGAATTATCAACAATAGGACCAGG
1 AGAATTATCAACAATAGGACCAGG
*
15024187 AGAATTATCAACAATAGGATCAGG
1 AGAATTATCAACAATAGGACCAGG
*
15024211 AGAATTATTAACAATA
1 AGAATTATCAACAATA
15024227 AGACTAGCAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.48, C:0.12, G:0.17, T:0.22
Consensus pattern (24 bp):
AGAATTATCAACAATAGGACCAGG
Found at i:15031753 original size:22 final size:22
Alignment explanation
Indices: 15031725--15031768 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
15031715 TGAAACGATG
15031725 TCGTCCAGTATTTCTTCTTTAA
1 TCGTCCAGTATTTCTTCTTTAA
15031747 TCGTCCAGTATTTCTTCTTTAA
1 TCGTCCAGTATTTCTTCTTTAA
15031769 GCGTATGGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.18, C:0.23, G:0.09, T:0.50
Consensus pattern (22 bp):
TCGTCCAGTATTTCTTCTTTAA
Found at i:15048442 original size:3 final size:3
Alignment explanation
Indices: 15048436--15048460 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
15048426 TAACAATAGA
15048436 AGT AGT AGT AGT AGT AGT AGT AGT A
1 AGT AGT AGT AGT AGT AGT AGT AGT A
15048461 AGAAAAGAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.32, T:0.32
Consensus pattern (3 bp):
AGT
Found at i:15050859 original size:29 final size:31
Alignment explanation
Indices: 15050827--15050905 Score: 76
Period size: 28 Copynumber: 2.6 Consensus size: 31
15050817 TACTTAAGAG
15050827 TATTCAAATAAAATTTTAT-TATTTT-ATTA
1 TATTCAAATAAAATTTTATATATTTTCATTA
* * *
15050856 TATTC-GATCAAATTTT-TATATTTTCATTT
1 TATTCAAATAAAATTTTATATATTTTCATTA
* *
15050885 TGAGTCAAATAAAGTTTTATA
1 T-ATTCAAATAAAATTTTATA
15050906 ATTAATGAAT
Statistics
Matches: 38, Mismatches: 7, Indels: 7
0.73 0.13 0.13
Matches are distributed among these distances:
27 1 0.03
28 15 0.39
29 9 0.24
30 3 0.08
31 8 0.21
32 2 0.05
ACGTcount: A:0.37, C:0.06, G:0.05, T:0.52
Consensus pattern (31 bp):
TATTCAAATAAAATTTTATATATTTTCATTA
Found at i:15062090 original size:2 final size:2
Alignment explanation
Indices: 15062083--15062107 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
15062073 ACCACTTCTT
15062083 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
15062108 GTCACAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:15066802 original size:29 final size:29
Alignment explanation
Indices: 15066768--15066865 Score: 107
Period size: 26 Copynumber: 3.6 Consensus size: 29
15066758 GTATAACAAA
15066768 ATTTTTTAAACATGGTGTGTAACAATAAT
1 ATTTTTTAAACATGGTGTGTAACAATAAT
* * **
15066797 ATTTTTTCAATATGGCATGTAAC---AAT
1 ATTTTTTAAACATGGTGTGTAACAATAAT
*
15066823 ATTTTTTCAACATGGTGTGTAACAAT-AT
1 ATTTTTTAAACATGGTGTGTAACAATAAT
*
15066851 -TTTTTTAACCATGGT
1 ATTTTTTAAACATGGT
15066866 ATGCAACATG
Statistics
Matches: 57, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
26 23 0.40
27 13 0.23
28 2 0.04
29 19 0.33
ACGTcount: A:0.33, C:0.10, G:0.13, T:0.44
Consensus pattern (29 bp):
ATTTTTTAAACATGGTGTGTAACAATAAT
Done.