Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr9
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: 48574783
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2023350 characters in sequence are not A, C, G, or T
File 61 of 135
Found at i:24662376 original size:17 final size:17
Alignment explanation
Indices: 24662351--24662385 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
24662341 ATGTATATAT
*
24662351 TAATATTAACATTATTA
1 TAATATTAACAATATTA
*
24662368 TAATTTTAACAATATTA
1 TAATATTAACAATATTA
24662385 T
1 T
24662386 TTATTTCTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.49
Consensus pattern (17 bp):
TAATATTAACAATATTA
Found at i:24666907 original size:34 final size:34
Alignment explanation
Indices: 24666864--24666928 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 34
24666854 AGAAATAGAT
*
24666864 ACAGAACATATCATATACAGTTACAGATTCAAAA
1 ACAGAACATATCAGATACAGTTACAGATTCAAAA
* *
24666898 ACAGAACATATTAGATACAGTTTCAGATTCA
1 ACAGAACATATCAGATACAGTTACAGATTCA
24666929 GATACAAATG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.46, C:0.17, G:0.11, T:0.26
Consensus pattern (34 bp):
ACAGAACATATCAGATACAGTTACAGATTCAAAA
Found at i:24667713 original size:63 final size:62
Alignment explanation
Indices: 24667645--24667844 Score: 215
Period size: 63 Copynumber: 3.2 Consensus size: 62
24667635 TCCAAAACAA
* *
24667645 TGAGTTACACGGCTTGGACACACGTCTGTGTCTCTAGCCCGTGTGACTCTAAAGGCAAAATAG
1 TGAGTTACACGGCTTAGACACACGACTGTGTC-CTAGCCCGTGTGACTCTAAAGGCAAAATAG
* * * * *
24667708 TGAGTTACATGGCCTAGACACA-GACTTGTGTCCTTAGCCCGTTTGACTCTAAA-GCTAAAACAA
1 TGAGTTACACGGCTTAGACACACGAC-TGTGTCC-TAGCCCGTGTGACTCTAAAGGC-AAAATAG
* * * * * * *
24667771 TAAGTTACAAGGCTTAGACACACGCCTGTGTCCCTGGCCTGTGTGACCCTAAAGCCAAAATAG
1 TGAGTTACACGGCTTAGACACACGACTGTGT-CCTAGCCCGTGTGACTCTAAAGGCAAAATAG
24667834 TGAGTTACACG
1 TGAGTTACACG
24667845 ACCTCACATA
Statistics
Matches: 111, Mismatches: 20, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
62 5 0.05
63 101 0.91
64 5 0.05
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.25
Consensus pattern (62 bp):
TGAGTTACACGGCTTAGACACACGACTGTGTCCTAGCCCGTGTGACTCTAAAGGCAAAATAG
Found at i:24667739 original size:126 final size:126
Alignment explanation
Indices: 24667609--24667842 Score: 310
Period size: 126 Copynumber: 1.9 Consensus size: 126
24667599 ACATACACCC
* * * * * *
24667609 GTGTCCTTGGCCTATGCGACTC-AAA-CTCCAAAACAATGAGTTACACGGCTTGGACACACGTCT
1 GTGTCCTTAGCCCATGCGACTCTAAAGCT--AAAACAATAAGTTACAAGGCTTAGACACACGCCT
* * *
24667672 GTGTCTCTAGCCCGTGTGACTCTAAAGGCAAAATAGTGAGTTACATGGCCTAGACACAGACTT
64 GTGTCCCTAGCCCGTGTGACCCTAAAGCCAAAATAGTGAGTTACATGGCCTAGACACAGACTT
* **
24667735 GTGTCCTTAGCCCGTTTGACTCTAAAGCTAAAACAATAAGTTACAAGGCTTAGACACACGCCTGT
1 GTGTCCTTAGCCCATGCGACTCTAAAGCTAAAACAATAAGTTACAAGGCTTAGACACACGCCTGT
* *
24667800 GTCCCTGGCCTGTGTGACCCTAAAGCCAAAATAGTGAGTTACA
66 GTCCCTAGCCCGTGTGACCCTAAAGCCAAAATAGTGAGTTACA
24667843 CGACCTCACA
Statistics
Matches: 92, Mismatches: 14, Indels: 4
0.84 0.13 0.04
Matches are distributed among these distances:
126 87 0.95
127 3 0.03
128 2 0.02
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.25
Consensus pattern (126 bp):
GTGTCCTTAGCCCATGCGACTCTAAAGCTAAAACAATAAGTTACAAGGCTTAGACACACGCCTGT
GTCCCTAGCCCGTGTGACCCTAAAGCCAAAATAGTGAGTTACATGGCCTAGACACAGACTT
Found at i:24672035 original size:16 final size:16
Alignment explanation
Indices: 24672014--24672082 Score: 129
Period size: 16 Copynumber: 4.2 Consensus size: 16
24672004 TTTGGTTCGC
24672014 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
24672030 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
24672046 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
24672063 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
24672079 TGTA
1 TGTA
24672083 ATAGCTAATC
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
16 36 0.69
17 16 0.31
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:24672060 original size:33 final size:32
Alignment explanation
Indices: 24672014--24672082 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 32
24672004 TTTGGTTCGC
24672014 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
24672046 TGTATTGGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATT-GGATTAGAGGTGTATTGGATTAGAGG
24672079 TGTA
1 TGTA
24672083 ATAGCTAATC
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 6 0.17
33 30 0.83
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (32 bp):
TGTATTGGATTAGAGGTGTATTGGATTAGAGG
Found at i:24672147 original size:44 final size:45
Alignment explanation
Indices: 24672063--24672153 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
24672053 GGATTAGAGG
* * *
24672063 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
24672108 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
24672152 TG
1 TG
24672154 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:24676834 original size:91 final size:91
Alignment explanation
Indices: 24676679--24677527 Score: 1698
Period size: 91 Copynumber: 9.3 Consensus size: 91
24676669 NNNNNNNNNN
24676679 AAATTGAAACTTGATTGTTTATACATAATTTACAGCATTTACAGCATTTCATTTCATTTTAAATT
1 AAATTGAAACTTGATTGTTTATACATAATTTACAGCATTTACAGCATTTCATTTCATTTTAAATT
24676744 TGGACATTATATAACCATCGAAATCG
66 TGGACATTATATAACCATCGAAATCG
24676770 AAATTGAAACTTGATTGTTTATACATAATTTACAGCATTTACAGCATTTCATTTCATTTTAAATT
1 AAATTGAAACTTGATTGTTTATACATAATTTACAGCATTTACAGCATTTCATTTCATTTTAAATT
24676835 TGGACATTATATAACCATCGAAATCG
66 TGGACATTATATAACCATCGAAATCG
24676861 AAATTGAAACTTGATTGTTTATACATAATTTACAGCATTTACAGCATTTCATTTCATTTTAAATT
1 AAATTGAAACTTGATTGTTTATACATAATTTACAGCATTTACAGCATTTCATTTCATTTTAAATT
24676926 TGGACATTATATAACCATCGAAATCG
66 TGGACATTATATAACCATCGAAATCG
24676952 AAATTGAAACTTGATTGTTTATACATAATTTACAGCATTTACAGCATTTCATTTCATTTTAAATT
1 AAATTGAAACTTGATTGTTTATACATAATTTACAGCATTTACAGCATTTCATTTCATTTTAAATT
24677017 TGGACATTATATAACCATCGAAATCG
66 TGGACATTATATAACCATCGAAATCG
24677043 AAATTGAAACTTGATTGTTTATACATAATTTACAGCATTTACAGCATTTCATTTCATTTTAAATT
1 AAATTGAAACTTGATTGTTTATACATAATTTACAGCATTTACAGCATTTCATTTCATTTTAAATT
24677108 TGGACATTATATAACCATCGAAATCG
66 TGGACATTATATAACCATCGAAATCG
24677134 AAATTGAAACTTGATTGTTTATACATAATTTACAGCATTTACAGCATTTCATTTCATTTTAAATT
1 AAATTGAAACTTGATTGTTTATACATAATTTACAGCATTTACAGCATTTCATTTCATTTTAAATT
24677199 TGGACATTATATAACCATCGAAATCG
66 TGGACATTATATAACCATCGAAATCG
24677225 AAATTGAAACTTGATTGTTTATACATAATTTACAGCATTTACAGCATTTCATTTCATTTTAAATT
1 AAATTGAAACTTGATTGTTTATACATAATTTACAGCATTTACAGCATTTCATTTCATTTTAAATT
24677290 TGGACATTATATAACCATCGAAATCG
66 TGGACATTATATAACCATCGAAATCG
24677316 AAATTGAAACTTGATTGTTTATACATAATTTACAGCATTTACAGCATTTCATTTCATTTTAAATT
1 AAATTGAAACTTGATTGTTTATACATAATTTACAGCATTTACAGCATTTCATTTCATTTTAAATT
24677381 TGGACATTATATAACCATCGAAATCG
66 TGGACATTATATAACCATCGAAATCG
24677407 AAATTGAAACTTGATTGTTTATACATAATTTACAGCATTTACAGCATTTCATTTCATTTTAAATT
1 AAATTGAAACTTGATTGTTTATACATAATTTACAGCATTTACAGCATTTCATTTCATTTTAAATT
24677472 TGGACATTATATAACCATCGAAATCG
66 TGGACATTATATAACCATCGAAATCG
24677498 AAATTGAAACTTGATTGTTTATACATAATT
1 AAATTGAAACTTGATTGTTTATACATAATT
24677528 AACCCTTAAT
Statistics
Matches: 758, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
91 758 1.00
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.40
Consensus pattern (91 bp):
AAATTGAAACTTGATTGTTTATACATAATTTACAGCATTTACAGCATTTCATTTCATTTTAAATT
TGGACATTATATAACCATCGAAATCG
Found at i:24681103 original size:24 final size:24
Alignment explanation
Indices: 24681088--24681138 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
24681078 AATCAAAGTC
24681088 AAATATATTATGCTAATAAATGCT
1 AAATATATTATGCTAATAAATGCT
* * *
24681112 AAATATATTATACTCATAAATACT
1 AAATATATTATGCTAATAAATGCT
24681136 AAA
1 AAA
24681139 CCTTCTAGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.51, C:0.10, G:0.04, T:0.35
Consensus pattern (24 bp):
AAATATATTATGCTAATAAATGCT
Found at i:24685532 original size:24 final size:24
Alignment explanation
Indices: 24685505--24685556 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
24685495 AATCAAAGTC
*
24685505 AAATATATTATGCTAATAAATGCT
1 AAATATATTATACTAATAAATGCT
*
24685529 AAATATATTATACTCATAAATGCT
1 AAATATATTATACTAATAAATGCT
24685553 AAAT
1 AAAT
24685557 CTTCTAGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.48, C:0.10, G:0.06, T:0.37
Consensus pattern (24 bp):
AAATATATTATACTAATAAATGCT
Found at i:24687302 original size:5 final size:5
Alignment explanation
Indices: 24687292--24687321 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
24687282 GAGGTGTTAA
24687292 GGGTT GGGTT GGGTT GGGTT GGGTT GGGTT
1 GGGTT GGGTT GGGTT GGGTT GGGTT GGGTT
24687322 AAATTTAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.60, T:0.40
Consensus pattern (5 bp):
GGGTT
Found at i:24706012 original size:26 final size:27
Alignment explanation
Indices: 24705948--24706012 Score: 89
Period size: 26 Copynumber: 2.5 Consensus size: 27
24705938 AATACTCAAA
* *
24705948 TTTTTCAAAAGAACTTCTCAAAAGCAC
1 TTTTTCAAAAGCACTTCTCAAAAACAC
*
24705975 TTTTTC-ACAGCACTTCTCAAAAACAC
1 TTTTTCAAAAGCACTTCTCAAAAACAC
24706001 -TTTTCAAAAGCA
1 TTTTTCAAAAGCA
24706013 ATGTAATAGG
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
25 5 0.15
26 22 0.67
27 6 0.18
ACGTcount: A:0.38, C:0.25, G:0.06, T:0.31
Consensus pattern (27 bp):
TTTTTCAAAAGCACTTCTCAAAAACAC
Found at i:24710064 original size:25 final size:25
Alignment explanation
Indices: 24710036--24710120 Score: 80
Period size: 25 Copynumber: 3.2 Consensus size: 25
24710026 CTTGCTGAAG
24710036 TAAAATGGAAAAAACCTGATTGATA
1 TAAAATGGAAAAAACCTGATTGATA
** *
24710061 TAAAATGGAAAAAACTACTTTTTTGAGA
1 TAAAATGGAAAAAAC--C-TGATTGATA
* * *
24710089 CATACATGGAAAAGACCTGATTGATA
1 TA-AAATGGAAAAAACCTGATTGATA
24710115 TAAAAT
1 TAAAAT
24710121 AAGCCTTTTT
Statistics
Matches: 45, Mismatches: 11, Indels: 8
0.70 0.17 0.12
Matches are distributed among these distances:
25 18 0.40
26 7 0.16
27 2 0.04
28 7 0.16
29 11 0.24
ACGTcount: A:0.48, C:0.09, G:0.15, T:0.27
Consensus pattern (25 bp):
TAAAATGGAAAAAACCTGATTGATA
Found at i:24715029 original size:27 final size:27
Alignment explanation
Indices: 24714993--24715061 Score: 77
Period size: 29 Copynumber: 2.5 Consensus size: 27
24714983 ATAATTTTTT
*
24714993 TTAAAAAAAAACT-AATAATTCAGTGAC
1 TTAAATAAAAACTAAATAA-TCAGTGAC
*
24715020 TTAAATAAAAACTTCAAATAATCGGTGAC
1 TTAAATAAAAAC-T-AAATAATCAGTGAC
*
24715049 TTAAATGAAAACT
1 TTAAATAAAAACT
24715062 TTCGTATAGT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
27 11 0.31
28 2 0.06
29 18 0.50
30 5 0.14
ACGTcount: A:0.52, C:0.12, G:0.09, T:0.28
Consensus pattern (27 bp):
TTAAATAAAAACTAAATAATCAGTGAC
Found at i:24715047 original size:29 final size:30
Alignment explanation
Indices: 24715006--24715062 Score: 89
Period size: 29 Copynumber: 1.9 Consensus size: 30
24714996 AAAAAAAACT
24715006 AATAATTCAGTGACTTAAATAAAAACTTCA
1 AATAATTCAGTGACTTAAATAAAAACTTCA
* *
24715036 AATAA-TCGGTGACTTAAATGAAAACTT
1 AATAATTCAGTGACTTAAATAAAAACTT
24715063 TCGTATAGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 20 0.80
30 5 0.20
ACGTcount: A:0.47, C:0.12, G:0.11, T:0.30
Consensus pattern (30 bp):
AATAATTCAGTGACTTAAATAAAAACTTCA
Found at i:24730484 original size:338 final size:338
Alignment explanation
Indices: 24729863--24730543 Score: 1353
Period size: 338 Copynumber: 2.0 Consensus size: 338
24729853 ATTTTATTAA
*
24729863 ATTTTCATTTTATAGAATTTATTATTTATTAATTAAAATAATTTGTTTCTCTCAATAAAATTAGT
1 ATTTACATTTTATAGAATTTATTATTTATTAATTAAAATAATTTGTTTCTCTCAATAAAATTAGT
24729928 AATAGATGCCATTTAAAAAAAAATAGAAATATAGGTTGTTTTTAAGGGAAATAGGTCGATTTTAA
66 AATAGATGCCATTTAAAAAAAAATAGAAATATAGGTTGTTTTTAAGGGAAATAGGTCGATTTTAA
24729993 TATGACGGAACAGCGTCATGTTAGAGACTTATTTCAAATTTTTTTTAAAAAAATTAATTAATAAA
131 TATGACGGAACAGCGTCATGTTAGAGACTTATTTCAAATTTTTTTTAAAAAAATTAATTAATAAA
24730058 TATGTCATTTTCGAGTTTTTAATTAACAAATATATTTTTCATATTTTTATTTTATTTTATTTCAT
196 TATGTCATTTTCGAGTTTTTAATTAACAAATATATTTTTCATATTTTTATTTTATTTTATTTCAT
24730123 ATTTCTAATGAATAACATGTTTTTTATATGGATAAAATAATAAATATGTAATTATATAATAAAAA
261 ATTTCTAATGAATAACATGTTTTTTATATGGATAAAATAATAAATATGTAATTATATAATAAAAA
24730188 GGCATAAATACTT
326 GGCATAAATACTT
24730201 ATTTACATTTTATAGAATTTATTATTTATTAATTAAAATAATTTGTTTCTCTCAATAAAATTAGT
1 ATTTACATTTTATAGAATTTATTATTTATTAATTAAAATAATTTGTTTCTCTCAATAAAATTAGT
24730266 AATAGATGCCATTTAAAAAAAAATAGAAATATAGGTTGTTTTTAAGGGAAATAGGTCGATTTTAA
66 AATAGATGCCATTTAAAAAAAAATAGAAATATAGGTTGTTTTTAAGGGAAATAGGTCGATTTTAA
24730331 TATGACGGAACAGCGTCATGTTAGAGACTTATTTCAAATTTTTTTTAAAAAAATTAATTAATAAA
131 TATGACGGAACAGCGTCATGTTAGAGACTTATTTCAAATTTTTTTTAAAAAAATTAATTAATAAA
24730396 TATGTCATTTTCGAGTTTTTAATTAACAAATATATTTTTCATATTTTTATTTTATTTTATTTCAT
196 TATGTCATTTTCGAGTTTTTAATTAACAAATATATTTTTCATATTTTTATTTTATTTTATTTCAT
24730461 ATTTCTAATGAATAACATGTTTTTTATATGGATAAAATAATAAATATGTAATTATATAATAAAAA
261 ATTTCTAATGAATAACATGTTTTTTATATGGATAAAATAATAAATATGTAATTATATAATAAAAA
24730526 GGCATAAATACTT
326 GGCATAAATACTT
24730539 ATTTA
1 ATTTA
24730544 ACCTGTAACA
Statistics
Matches: 342, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
338 342 1.00
ACGTcount: A:0.40, C:0.06, G:0.10, T:0.44
Consensus pattern (338 bp):
ATTTACATTTTATAGAATTTATTATTTATTAATTAAAATAATTTGTTTCTCTCAATAAAATTAGT
AATAGATGCCATTTAAAAAAAAATAGAAATATAGGTTGTTTTTAAGGGAAATAGGTCGATTTTAA
TATGACGGAACAGCGTCATGTTAGAGACTTATTTCAAATTTTTTTTAAAAAAATTAATTAATAAA
TATGTCATTTTCGAGTTTTTAATTAACAAATATATTTTTCATATTTTTATTTTATTTTATTTCAT
ATTTCTAATGAATAACATGTTTTTTATATGGATAAAATAATAAATATGTAATTATATAATAAAAA
GGCATAAATACTT
Found at i:24738771 original size:87 final size:87
Alignment explanation
Indices: 24738673--24739780 Score: 1752
Period size: 87 Copynumber: 12.7 Consensus size: 87
24738663 GCTAGTACTT
* *
24738673 AGGAAGACAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTATTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
24738738 CGATCTGCTTCGCTGTTAACGC
66 CGATCTGCTTCGCTGTTAACGC
24738760 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
* *
24738825 CGATTTGCTTTGCTGTTAACGC
66 CGATCTGCTTCGCTGTTAACGC
* *
24738847 AGGAATGCAAGATCTGTTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
* *
24738912 CGATCTGCTTTGTTGTTAACGC
66 CGATCTGCTTCGCTGTTAACGC
24738934 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
*
24738999 CGATCTGCTTTGCTGTTAACGC
66 CGATCTGCTTCGCTGTTAACGC
* * * * *
24739021 AGGAAGGCAAGATTTGTTATCTTTAACCAGCTCTACTGCAACCAATGGAGGCAATGCTTTGTTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
* **
24739086 CGATTTGCTTTACTGTTAACGC
66 CGATCTGCTTCGCTGTTAACGC
* * *
24739108 ATGAAGGCAAGATCAT--TATCTTTAACCATCTCCACTGCAACCGATGGAGGCAATGCTTTGTTT
1 AGGAAGGCAAGATC-TGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTT
**
24739171 TCGATCTGCTTCGCTGTTAAAAC
65 TCGATCTGCTTCGCTGTTAACGC
* *
24739194 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAATGCTTTATTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
*
24739259 CGATCTGCTTCGCTGTTAACGT
66 CGATCTGCTTCGCTGTTAACGC
*
24739281 AGGAAGGCAAGATCTGTTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
* * * *
24739346 TGGTCTACTTCGCTGTTAACGT
66 CGATCTGCTTCGCTGTTAACGC
* * *
24739368 AGGAAGGCAAGATCTGTTATCTTTAACCAGCTCCACTGCAACCGATGAATGCAAGGCTTTGTTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
* *
24739433 CGATCTGCTTTGCTGTTAATGC
66 CGATCTGCTTCGCTGTTAACGC
**
24739455 AGGAAGGCAAGATCTATTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
* * * *
24739520 TGGTCTACTTCGCTGTTAACGT
66 CGATCTGCTTCGCTGTTAACGC
* *
24739542 AGGAAGGCAAGATCTGTTATCTTTAACCAGCTCCACTGTAACCGATGGAGGCAAGGCTTTGTTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
24739607 CGATCTGCTTCGCTGTTAACGC
66 CGATCTGCTTCGCTGTTAACGC
*
24739629 AGGAAGGCAAGATCTGCTATCTTTAACTAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
*
24739694 CGATCTGCTTCACTGTTAACGC
66 CGATCTGCTTCGCTGTTAACGC
* * * *
24739716 AGGAAGGTAAGATTTGCTATATTTAACCAGCTCCACTGCAACCGATGGAGGCAATGCTTTGTTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
24739781 TTATCTTCAC
Statistics
Matches: 946, Mismatches: 72, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
85 1 0.00
86 75 0.08
87 869 0.92
88 1 0.00
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.31
Consensus pattern (87 bp):
AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
CGATCTGCTTCGCTGTTAACGC
Found at i:24739117 original size:43 final size:42
Alignment explanation
Indices: 24738982--24739118 Score: 102
Period size: 43 Copynumber: 3.2 Consensus size: 42
24738972 CAACCGATGG
* * *
24738982 AGGCAAGGCTTTGTTTTCGATCTGCTTTGCTGTTAACGCAGGA
1 AGGCAA-GCTTTGTTTTCGATTTGCTTTACTGTTAACGCATGA
* * * * *
24739025 AGGCAAGATTTGTTATC--TTTAACCAGCTCTACTG-CAAC-CAATGG
1 AGGCAAGCTTTGTTTTCGATTT-----GCTTTACTGTTAACGC-ATGA
24739069 AGGCAATGCTTTGTTTTCGATTTGCTTTACTGTTAACGCATGA
1 AGGCAA-GCTTTGTTTTCGATTTGCTTTACTGTTAACGCATGA
24739112 AGGCAAG
1 AGGCAAG
24739119 ATCATTATCT
Statistics
Matches: 70, Mismatches: 13, Indels: 23
0.66 0.12 0.22
Matches are distributed among these distances:
40 2 0.03
42 18 0.26
43 19 0.27
44 12 0.17
45 16 0.23
47 3 0.04
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.34
Consensus pattern (42 bp):
AGGCAAGCTTTGTTTTCGATTTGCTTTACTGTTAACGCATGA
Found at i:24741467 original size:29 final size:27
Alignment explanation
Indices: 24741435--24741488 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 27
24741425 TTTATTTTGA
24741435 CTTTGATTGATTTCTCTTTTTGCTTTTAC
1 CTTTGATT--TTTCTCTTTTTGCTTTTAC
* *
24741464 CTTTGATTTTTTTCTTTTTGTTTTT
1 CTTTGATTTTTCTCTTTTTGCTTTT
24741489 TATTTTGATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 15 0.65
29 8 0.35
ACGTcount: A:0.07, C:0.13, G:0.09, T:0.70
Consensus pattern (27 bp):
CTTTGATTTTTCTCTTTTTGCTTTTAC
Found at i:24741474 original size:62 final size:60
Alignment explanation
Indices: 24741408--24741527 Score: 152
Period size: 62 Copynumber: 2.0 Consensus size: 60
24741398 TTTTCTTTTC
24741408 TTTTTTGCTTTTCATATTTTATTTTGACTTTGATTGATTTCTCT-TTTTGCTTTTACCTTTGA
1 TTTTTTGCTTTTCATATTTTATTTTGACTTTGATT-ATTTCTCTCTTTT-CTTTT-CCTTTGA
* ** * * *
24741470 TTTTTTTCTTTTTGTTTTTTATTTTGATTTTGATTTTTTCTCTCTTTTCTTTTCCTTT
1 TTTTTTGCTTTTCATATTTTATTTTGACTTTGATTATTTCTCTCTTTTCTTTTCCTTT
24741528 TTTCGAATCG
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
60 5 0.10
61 12 0.24
62 34 0.67
ACGTcount: A:0.09, C:0.12, G:0.07, T:0.71
Consensus pattern (60 bp):
TTTTTTGCTTTTCATATTTTATTTTGACTTTGATTATTTCTCTCTTTTCTTTTCCTTTGA
Found at i:24746256 original size:3 final size:3
Alignment explanation
Indices: 24746248--24746319 Score: 78
Period size: 3 Copynumber: 24.0 Consensus size: 3
24746238 AGCTATTATG
* *
24746248 TAA TAA TAA TAA T-A TGA TAA GTAA CAA TAA T-A TAA TAAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA T-AA TAA TAA
24746293 TAA TAGA -AA TAA TAA TAA TAA TAA TAA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA
24746320 AATTACTGAA
Statistics
Matches: 60, Mismatches: 3, Indels: 12
0.80 0.04 0.16
Matches are distributed among these distances:
2 5 0.08
3 48 0.80
4 7 0.12
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:24757197 original size:29 final size:28
Alignment explanation
Indices: 24757155--24757209 Score: 83
Period size: 29 Copynumber: 1.9 Consensus size: 28
24757145 AGACAGATCA
*
24757155 TCAAAATAAAACCAACAGCAAAACCAGAC
1 TCAAAACAAAACCAACAG-AAAACCAGAC
*
24757184 TCAAAACAAAACCAACAGAATACCAG
1 TCAAAACAAAACCAACAGAAAACCAG
24757210 CAAACTTCCG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 7 0.29
29 17 0.71
ACGTcount: A:0.58, C:0.27, G:0.07, T:0.07
Consensus pattern (28 bp):
TCAAAACAAAACCAACAGAAAACCAGAC
Found at i:24766325 original size:20 final size:20
Alignment explanation
Indices: 24766300--24766339 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
24766290 CGTAAAATGA
*
24766300 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
24766320 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
24766340 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:24766329 original size:34 final size:35
Alignment explanation
Indices: 24766285--24766351 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
24766275 CAGTAAAATA
*
24766285 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
24766319 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
24766352 CCGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:24770713 original size:141 final size:141
Alignment explanation
Indices: 24770459--24770723 Score: 476
Period size: 141 Copynumber: 1.9 Consensus size: 141
24770449 CTAAAATTTG
*
24770459 TTAACGTGCCACGTCAGCTTACTGTTACACTGTTAACGACAATTAACGACTCAGTGACTAAAATG
1 TTAACGTGCCACGTCAACTTACTGTTACACTGTTAACGACAATTAACGACTCAGTGACTAAAATG
*
24770524 TTACAACATGATAACGCAAGTGACTAAAACATAACATTTCAAACATAAGTGACTAAAATTTGTTT
66 TTACAACACGATAACGCAAGTGACTAAAACATAACATTTCAAACATAAGTGACTAAAATTTGTTT
24770589 GAAATGATGAT
131 GAAATGATGAT
*
24770600 TTAACGTGCCACGTCAACTTACTGTTACACTGTTAACGGCAATTAACGACTCAGTGACTAAAATG
1 TTAACGTGCCACGTCAACTTACTGTTACACTGTTAACGACAATTAACGACTCAGTGACTAAAATG
* * *
24770665 TTACAACACGATAACGCAAGTGACTAAAACTTAATATTTTAAACATAAGTGACTAAAAT
66 TTACAACACGATAACGCAAGTGACTAAAACATAACATTTCAAACATAAGTGACTAAAAT
24770724 GTAACCTGAA
Statistics
Matches: 118, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
141 118 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.28
Consensus pattern (141 bp):
TTAACGTGCCACGTCAACTTACTGTTACACTGTTAACGACAATTAACGACTCAGTGACTAAAATG
TTACAACACGATAACGCAAGTGACTAAAACATAACATTTCAAACATAAGTGACTAAAATTTGTTT
GAAATGATGAT
Found at i:24771970 original size:82 final size:82
Alignment explanation
Indices: 24771833--24772001 Score: 302
Period size: 82 Copynumber: 2.1 Consensus size: 82
24771823 TCTAGTGCGG
* *
24771833 GTTAGTAAATTTTATATACTAAACCCAGAAATTGTAACAAGAAAATCGGGTTGCCCGTTTCCGAA
1 GTTAGTAAATTTTATATACTAAACCCAGAAATTGTAACAAGAAAATCGGGTTGCCCCTTTCCAAA
24771898 TTAAAGAAGAAAAAGAA
66 TTAAAGAAGAAAAAGAA
*
24771915 GTTAGTAAATTTTATATACTAAACCCAGAAATTGTAACAGGAAAATCGGGTTGCCCCTTTCCAAA
1 GTTAGTAAATTTTATATACTAAACCCAGAAATTGTAACAAGAAAATCGGGTTGCCCCTTTCCAAA
*
24771980 TTAAAGAGGAAAAAGAA
66 TTAAAGAAGAAAAAGAA
24771997 GTTAG
1 GTTAG
24772002 CAAACGAACG
Statistics
Matches: 83, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
82 83 1.00
ACGTcount: A:0.43, C:0.14, G:0.18, T:0.26
Consensus pattern (82 bp):
GTTAGTAAATTTTATATACTAAACCCAGAAATTGTAACAAGAAAATCGGGTTGCCCCTTTCCAAA
TTAAAGAAGAAAAAGAA
Found at i:24777073 original size:25 final size:23
Alignment explanation
Indices: 24777014--24777069 Score: 94
Period size: 23 Copynumber: 2.4 Consensus size: 23
24777004 GGCCCATTTT
24777014 AAATATATATTTGATTAAAAATA
1 AAATATATATTTGATTAAAAATA
*
24777037 AAATATATATTTTATTAAAAATA
1 AAATATATATTTGATTAAAAATA
*
24777060 AAAAATATAT
1 AAATATATAT
24777070 ATTTAATATA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (23 bp):
AAATATATATTTGATTAAAAATA
Found at i:24783702 original size:34 final size:32
Alignment explanation
Indices: 24783646--24783720 Score: 89
Period size: 34 Copynumber: 2.2 Consensus size: 32
24783636 AAACTAATCC
*
24783646 TCTCTCAAATTTCTTCTCAATTCCCTCTAAATT
1 TCTCTC-AATTTCTTCTCAATTCCCTCCAAATT
*
24783679 TCCTCTCAATTTGC-TCTCAAATTCCTTCCAAATT
1 T-CTCTCAATTT-CTTCTC-AATTCCCTCCAAATT
24783713 TCTCTCAA
1 TCTCTCAA
24783721 ATCCATATTT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
33 17 0.46
34 20 0.54
ACGTcount: A:0.24, C:0.32, G:0.01, T:0.43
Consensus pattern (32 bp):
TCTCTCAATTTCTTCTCAATTCCCTCCAAATT
Found at i:24783703 original size:22 final size:22
Alignment explanation
Indices: 24783646--24783722 Score: 79
Period size: 22 Copynumber: 3.5 Consensus size: 22
24783636 AAACTAATCC
*
24783646 TCTCTCAAATTTCTTCTCAA-T
1 TCTCTCAAATTTCCTCTCAATT
*
24783667 TCCCTCTAAATTTCCTCTCAATT
1 TCTCTC-AAATTTCCTCTCAATT
24783690 TGCTCTCAAA-TTCCT-TCCAAATT
1 T-CTCTCAAATTTCCTCT-C-AATT
24783713 TCTCTCAAAT
1 TCTCTCAAAT
24783723 CCATATTTAA
Statistics
Matches: 47, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
21 6 0.13
22 27 0.57
23 10 0.21
24 4 0.09
ACGTcount: A:0.25, C:0.31, G:0.01, T:0.43
Consensus pattern (22 bp):
TCTCTCAAATTTCCTCTCAATT
Found at i:24783721 original size:11 final size:11
Alignment explanation
Indices: 24783646--24783722 Score: 63
Period size: 11 Copynumber: 6.9 Consensus size: 11
24783636 AAACTAATCC
24783646 TCTCTCAAATT
1 TCTCTCAAATT
24783657 TCTTCTC-AA-T
1 TC-TCTCAAATT
*
24783667 TCCCTCTAAATT
1 TCTCTC-AAATT
24783679 TCCTCTC-AATT
1 T-CTCTCAAATT
24783690 TGCTCTCAAATT
1 T-CTCTCAAATT
*
24783702 CCT-TCCAAATT
1 TCTCT-CAAATT
24783713 TCTCTCAAAT
1 TCTCTCAAAT
24783723 CCATATTTAA
Statistics
Matches: 53, Mismatches: 5, Indels: 16
0.72 0.07 0.22
Matches are distributed among these distances:
9 3 0.06
10 4 0.08
11 31 0.58
12 11 0.21
13 4 0.08
ACGTcount: A:0.25, C:0.31, G:0.01, T:0.43
Consensus pattern (11 bp):
TCTCTCAAATT
Found at i:24787221 original size:125 final size:125
Alignment explanation
Indices: 24786966--24787342 Score: 470
Period size: 125 Copynumber: 3.0 Consensus size: 125
24786956 CCAAACATGT
* * * * * * *
24786966 TACTATAGCAAAAGTGCGTCCACGTGGGCGAGATTTCACAAATTCTTCTCATAAAGCATCCTGGT
1 TACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCAGAAAGCATACAGCT
* * *
24787031 AGAAGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGTACC
66 AGAAGCGATTTTATACTATTTGCTCAGAAACGTCAACTCAAAATAATTTCTTCCAGGACC
* * * * *
24787091 AACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCAGAAATTCTTCTTAGATAGCATACAGCT
1 TACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCAGAAAGCATACAGCT
* *
24787156 TGAAGC-ATTTTTTATACTATTTGCTCAGAAACGTCAACTCAAAATAATTT-TTTCAGGACC
66 AGAAGCGA--TTTTATACTATTTGCTCAGAAACGTCAACTCAAAATAATTTCTTCCAGGACC
* * * * *
24787216 TACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTAACAAATTCTTCTCATAAAGCATCCTGGT
1 TACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCAGAAAGCATACAGCT
* * * * * *
24787281 AAAAGCGATGTTATACTATTTACACAGAAACGTCAACTCTAAATTATTTCTTCCAGGACC
66 AGAAGCGATTTTATACTATTTGCTCAGAAACGTCAACTCAAAATAATTTCTTCCAGGACC
24787341 TA
1 TA
24787343 GAAACCCTAA
Statistics
Matches: 213, Mismatches: 35, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
124 37 0.17
125 136 0.64
126 40 0.19
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (125 bp):
TACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCAGAAAGCATACAGCT
AGAAGCGATTTTATACTATTTGCTCAGAAACGTCAACTCAAAATAATTTCTTCCAGGACC
Found at i:24788222 original size:16 final size:16
Alignment explanation
Indices: 24788198--24788228 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
24788188 TTTAAATTTT
*
24788198 TTATTAAATTTATATA
1 TTATAAAATTTATATA
24788214 TTATAAAATTTATAT
1 TTATAAAATTTATAT
24788229 TATTTTATAC
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:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TTATAAAATTTATATA
Found at i:24789415 original size:26 final size:25
Alignment explanation
Indices: 24789372--24789421 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
24789362 ACCACAACTC
24789372 TTTATGAGCATCCCGATATAGGCTCT
1 TTTATGAGCATCCCGATAT-GGCTCT
** *
24789398 TTTATGAGTTTCCTGATATGGCTC
1 TTTATGAGCATCCCGATATGGCTC
24789422 ACTTGAACTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 5 0.24
26 16 0.76
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.40
Consensus pattern (25 bp):
TTTATGAGCATCCCGATATGGCTCT
Found at i:24790156 original size:20 final size:20
Alignment explanation
Indices: 24790131--24790174 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
24790121 TGGTATAATG
24790131 GCATGTATAAGCTAAGTTAA
1 GCATGTATAAGCTAAGTTAA
24790151 GCATGTATAAGCTAAGTTAA
1 GCATGTATAAGCTAAGTTAA
24790171 GCAT
1 GCAT
24790175 AAAGAAGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.39, C:0.11, G:0.20, T:0.30
Consensus pattern (20 bp):
GCATGTATAAGCTAAGTTAA
Found at i:24801207 original size:12 final size:12
Alignment explanation
Indices: 24801186--24801215 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
24801176 GCAGCAAGTA
*
24801186 CATGCGCATGCG
1 CATGCACATGCG
24801198 CATGCACATGCG
1 CATGCACATGCG
24801210 CATGCA
1 CATGCA
24801216 TTTCCTTTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.23, C:0.33, G:0.27, T:0.17
Consensus pattern (12 bp):
CATGCACATGCG
Found at i:24812123 original size:21 final size:21
Alignment explanation
Indices: 24812101--24812152 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
24812091 TAATTAAAAA
24812101 TTTAAAGTTTTAAAAAATAAAT
1 TTTAAA-TTTTAAAAAATAAAT
* *
24812123 TTTTAATTTT-AAAAACAAAT
1 TTTAAATTTTAAAAAATAAAT
*
24812143 TTTATATTTT
1 TTTAAATTTT
24812153 TTTTGAATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
20 17 0.65
21 4 0.15
22 5 0.19
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (21 bp):
TTTAAATTTTAAAAAATAAAT
Found at i:24813666 original size:25 final size:24
Alignment explanation
Indices: 24813632--24813680 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 24
24813622 TTCGGCAATA
24813632 TTGTATTTATTAAGTTTTAAATTTT
1 TTGTATTTATTAA-TTTTAAATTTT
* *
24813657 TTGTATTTATTTATTTTGAATTTT
1 TTGTATTTATTAATTTTAAATTTT
24813681 ACAATATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 10 0.45
25 12 0.55
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.67
Consensus pattern (24 bp):
TTGTATTTATTAATTTTAAATTTT
Found at i:24818662 original size:18 final size:18
Alignment explanation
Indices: 24818639--24818674 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
24818629 GGGACAGTTA
24818639 ATAGGGTAACCTACTTAC
1 ATAGGGTAACCTACTTAC
24818657 ATAGGGTAACCTACTTAC
1 ATAGGGTAACCTACTTAC
24818675 TTATTTACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (18 bp):
ATAGGGTAACCTACTTAC
Found at i:24821546 original size:15 final size:15
Alignment explanation
Indices: 24821523--24821563 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
24821513 TTAATACTCA
24821523 AATCAAATTACCATT
1 AATCAAATTACCATT
* *
24821538 AATCGAATTATCATT
1 AATCAAATTACCATT
*
24821553 AACCAAATTAC
1 AATCAAATTAC
24821564 TCGAAATATA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.46, C:0.20, G:0.02, T:0.32
Consensus pattern (15 bp):
AATCAAATTACCATT
Found at i:24823781 original size:7 final size:7
Alignment explanation
Indices: 24823769--24823796 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
24823759 TATACGTTTC
24823769 ATTATTT
1 ATTATTT
24823776 ATTATTT
1 ATTATTT
24823783 ATTATTT
1 ATTATTT
24823790 ATTATTT
1 ATTATTT
24823797 TTAAACACAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (7 bp):
ATTATTT
Found at i:24831769 original size:23 final size:23
Alignment explanation
Indices: 24831743--24831793 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
24831733 TATATTTTCT
24831743 TCTTCTTCTTCTTCTTTT-TTTTA
1 TCTT-TTCTTCTTCTTTTGTTTTA
* *
24831766 TCTTTTCTTTTTTTTTTGTTTTA
1 TCTTTTCTTCTTCTTTTGTTTTA
24831789 T-TTTT
1 TCTTTT
24831794 GGTCTCCCTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 15 0.60
23 10 0.40
ACGTcount: A:0.04, C:0.14, G:0.02, T:0.80
Consensus pattern (23 bp):
TCTTTTCTTCTTCTTTTGTTTTA
Found at i:24831775 original size:16 final size:17
Alignment explanation
Indices: 24831749--24831780 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
24831739 TTCTTCTTCT
24831749 TCTTCTTCTTTTTTTTA
1 TCTTCTTCTTTTTTTTA
24831766 TCTT-TTCTTTTTTTT
1 TCTTCTTCTTTTTTTT
24831781 TTGTTTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.81
Consensus pattern (17 bp):
TCTTCTTCTTTTTTTTA
Found at i:24837075 original size:12 final size:12
Alignment explanation
Indices: 24837058--24837103 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
24837048 CATTTTAACA
24837058 AGACATGGACAT
1 AGACATGGACAT
*
24837070 AGACATAGACAAT
1 AGACATGGAC-AT
*
24837083 AAACATGGACAT
1 AGACATGGACAT
*
24837095 GGACATGGA
1 AGACATGGA
24837104 TTTTTAATGG
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
12 18 0.64
13 10 0.36
ACGTcount: A:0.46, C:0.15, G:0.24, T:0.15
Consensus pattern (12 bp):
AGACATGGACAT
Found at i:24843759 original size:10 final size:10
Alignment explanation
Indices: 24843726--24843760 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
24843716 ATTTTGAATG
24843726 TATGTATATA
1 TATGTATATA
*
24843736 TATATATATA
1 TATGTATATA
*
24843746 TATGTATGTA
1 TATGTATATA
24843756 TATGT
1 TATGT
24843761 GTGTATATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.51
Consensus pattern (10 bp):
TATGTATATA
Found at i:24843765 original size:10 final size:10
Alignment explanation
Indices: 24843726--24843768 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
24843716 ATTTTGAATG
*
24843726 TATGTATATA
1 TATGTATGTA
* *
24843736 TATATATATA
1 TATGTATGTA
24843746 TATGTATGTA
1 TATGTATGTA
*
24843756 TATGTGTGTA
1 TATGTATGTA
24843766 TAT
1 TAT
24843769 ATTTGTGTGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 29 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (10 bp):
TATGTATGTA
Found at i:24843765 original size:14 final size:14
Alignment explanation
Indices: 24843736--24843778 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
24843726 TATGTATATA
* *
24843736 TATATATATATATG
1 TATATATATGTGTG
*
24843750 TATGTATATGTGTG
1 TATATATATGTGTG
*
24843764 TATATATTTGTGTG
1 TATATATATGTGTG
24843778 T
1 T
24843779 GCGTTTTAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.28, C:0.00, G:0.19, T:0.53
Consensus pattern (14 bp):
TATATATATGTGTG
Found at i:24848100 original size:130 final size:131
Alignment explanation
Indices: 24847867--24848124 Score: 509
Period size: 130 Copynumber: 2.0 Consensus size: 131
24847857 TATAATTGAT
24847867 GTTAATTTATTTGGTCTTCCAACTTAATAAAAAATAATTTTAATCCTGCATTTAATTTTTTTTCT
1 GTTAATTTATTTGGTCTTCCAACTTAATAAAAAATAATTTTAATCCTGCATTTAATTTTTTTTCT
24847932 CTTTTTCTCAAAAATGGATTAAAAAATTAACATCTATTCACTTTGCTGACATGGC-TACACGTGG
66 CTTTTTCTCAAAAATGGATTAAAAAATTAACATCTATTCACTTTGCTGACATGGCATACACGTGG
24847996 A
131 A
24847997 GTTAATTTATTTGGTCTTCCAACTTAATAAAAAATAATTTTAATCCTGCATTTAATTTTTTTTCT
1 GTTAATTTATTTGGTCTTCCAACTTAATAAAAAATAATTTTAATCCTGCATTTAATTTTTTTTCT
24848062 CTTTTTCTCAAAAATGGATTAAAAAATTAACATCTATTCACTTTGCTGACATGGCATACACGT
66 CTTTTTCTCAAAAATGGATTAAAAAATTAACATCTATTCACTTTGCTGACATGGCATACACGT
24848125 AGATGTCAAC
Statistics
Matches: 127, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
130 120 0.94
131 7 0.06
ACGTcount: A:0.33, C:0.16, G:0.09, T:0.43
Consensus pattern (131 bp):
GTTAATTTATTTGGTCTTCCAACTTAATAAAAAATAATTTTAATCCTGCATTTAATTTTTTTTCT
CTTTTTCTCAAAAATGGATTAAAAAATTAACATCTATTCACTTTGCTGACATGGCATACACGTGG
A
Found at i:24848179 original size:19 final size:19
Alignment explanation
Indices: 24848157--24848222 Score: 73
Period size: 19 Copynumber: 3.6 Consensus size: 19
24848147 TATTTTAAAA
*
24848157 ATTAAAATTTATTAAATTT
1 ATTAAAAATTATTAAATTT
* * *
24848176 ATTAAAAAGTATAAAAATT
1 ATTAAAAATTATTAAATTT
*
24848195 ATAAAAAATTA-TAAATTT
1 ATTAAAAATTATTAAATTT
24848213 -TTAAAAATTA
1 ATTAAAAATTA
24848223 ATTAGCAATA
Statistics
Matches: 38, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
17 9 0.24
18 5 0.13
19 24 0.63
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.41
Consensus pattern (19 bp):
ATTAAAAATTATTAAATTT
Found at i:24848190 original size:28 final size:27
Alignment explanation
Indices: 24848142--24848196 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 27
24848132 AACTGAGTAG
* *
24848142 TAAATTATTTTAAAAATTAAAATTTAT
1 TAAATTATATTAAAAATTAAAAATTAT
24848169 TAAATT-TATTAAAAAGTATAAAAATTAT
1 TAAATTATATTAAAAA-T-TAAAAATTAT
24848197 AAAAAATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 8 0.33
27 7 0.29
28 9 0.38
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.44
Consensus pattern (27 bp):
TAAATTATATTAAAAATTAAAAATTAT
Found at i:24848902 original size:18 final size:18
Alignment explanation
Indices: 24848879--24848928 Score: 82
Period size: 18 Copynumber: 2.8 Consensus size: 18
24848869 TAGTAAAAGT
* *
24848879 GTGACGATATTGATGCTA
1 GTGACGCTATTGATGATA
24848897 GTGACGCTATTGATGATA
1 GTGACGCTATTGATGATA
24848915 GTGACGCTATTGAT
1 GTGACGCTATTGAT
24848929 CGTGACCTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.34
Consensus pattern (18 bp):
GTGACGCTATTGATGATA
Found at i:24849011 original size:163 final size:163
Alignment explanation
Indices: 24848741--24849040 Score: 555
Period size: 163 Copynumber: 1.8 Consensus size: 163
24848731 GCCATGTTCA
* *
24848741 TATTGATGCTAGTGACGCTATTGATCGTGACCTTGATACGGAGTTGGAGCTTCTAACTATGATGA
1 TATTGATGATAGTGACGCTATTGATCGTGACCTTGATACGGAGCTGGAGCTTCTAACTATGATGA
*
24848806 ATGCGTTAACTATGGATATGATGTCGGAAATAGACTGATTTTATATCACCCTTCAATTCGAACTA
66 ATGCGTTAACTATGGATATGATGTCGGAAATAGACCGATTTTATATCACCCTTCAATTCGAACTA
*
24848871 GTAAAAGTGTGACGATATTGATGCTAGTGACGC
131 GCAAAAGTGTGACGATATTGATGCTAGTGACGC
*
24848904 TATTGATGATAGTGACGCTATTGATCGTGACCTTGATACGGAGCTGGAGCTTTTAACTATGATGA
1 TATTGATGATAGTGACGCTATTGATCGTGACCTTGATACGGAGCTGGAGCTTCTAACTATGATGA
24848969 ATGCGTTAACTATGGATATGATGTCGGAAATAGACCGATTTTATATCACCCTTCAATTCGAACTA
66 ATGCGTTAACTATGGATATGATGTCGGAAATAGACCGATTTTATATCACCCTTCAATTCGAACTA
24849034 GCAAAAG
131 GCAAAAG
24849041 CAATGTCTCC
Statistics
Matches: 132, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
163 132 1.00
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.32
Consensus pattern (163 bp):
TATTGATGATAGTGACGCTATTGATCGTGACCTTGATACGGAGCTGGAGCTTCTAACTATGATGA
ATGCGTTAACTATGGATATGATGTCGGAAATAGACCGATTTTATATCACCCTTCAATTCGAACTA
GCAAAAGTGTGACGATATTGATGCTAGTGACGC
Found at i:24851518 original size:41 final size:42
Alignment explanation
Indices: 24851448--24851529 Score: 98
Period size: 41 Copynumber: 2.0 Consensus size: 42
24851438 AATATTTAAT
24851448 TAATTTTTTAAAATGTTAAAAAACATTTAA-AATTTTTTTTA
1 TAATTTTTTAAAATGTTAAAAAACATTTAATAATTTTTTTTA
* * *
24851489 TAATTTTTT-AATTTTTAAAAATA-ATTTTAATAGTTTTTTTT
1 TAATTTTTTAAAATGTTAAAAA-ACA-TTTAATAATTTTTTTT
24851530 TTGAAAATTT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
40 11 0.31
41 15 0.43
42 9 0.26
ACGTcount: A:0.39, C:0.01, G:0.02, T:0.57
Consensus pattern (42 bp):
TAATTTTTTAAAATGTTAAAAAACATTTAATAATTTTTTTTA
Found at i:24853048 original size:25 final size:25
Alignment explanation
Indices: 24853017--24853076 Score: 84
Period size: 25 Copynumber: 2.4 Consensus size: 25
24853007 GCTGTAAACA
*
24853017 GGAAGCTCCTCCAAGCTGAATAACG
1 GGAAGCTCATCCAAGCTGAATAACG
* * *
24853042 GGAAGCTCATGCGAGCTGTATAACG
1 GGAAGCTCATCCAAGCTGAATAACG
24853067 GGAAGCTCAT
1 GGAAGCTCAT
24853077 ACGAACTGTG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.30, C:0.23, G:0.28, T:0.18
Consensus pattern (25 bp):
GGAAGCTCATCCAAGCTGAATAACG
Found at i:24853085 original size:25 final size:25
Alignment explanation
Indices: 24852997--24853085 Score: 83
Period size: 25 Copynumber: 3.6 Consensus size: 25
24852987 ATTCATGTAT
* * *
24852997 GCTCATATGAGCTGTA-AACAGGAA
1 GCTCATACGAACTGTATAACGGGAA
* * *
24853021 GCTCCT-CCAAGCTGAATAACGGGAA
1 GCTCATACGAA-CTGTATAACGGGAA
* *
24853046 GCTCATGCGAGCTGTATAACGGGAA
1 GCTCATACGAACTGTATAACGGGAA
24853071 GCTCATACGAACTGT
1 GCTCATACGAACTGT
24853086 GGTGTGTCCG
Statistics
Matches: 50, Mismatches: 12, Indels: 5
0.75 0.18 0.07
Matches are distributed among these distances:
23 1 0.02
24 9 0.18
25 38 0.76
26 2 0.04
ACGTcount: A:0.31, C:0.22, G:0.26, T:0.20
Consensus pattern (25 bp):
GCTCATACGAACTGTATAACGGGAA
Found at i:24866936 original size:27 final size:27
Alignment explanation
Indices: 24866906--24866965 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
24866896 GCCTGATTAG
*
24866906 GCCAATCACATTGGAGGCACCAAAGGT
1 GCCAAACACATTGGAGGCACCAAAGGT
* * * *
24866933 GCCAAAGAGATTGGCGGCACCAATGGT
1 GCCAAACACATTGGAGGCACCAAAGGT
24866960 GCCAAA
1 GCCAAA
24866966 GGATTAAAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.33, C:0.25, G:0.28, T:0.13
Consensus pattern (27 bp):
GCCAAACACATTGGAGGCACCAAAGGT
Found at i:24866966 original size:27 final size:26
Alignment explanation
Indices: 24866915--24866970 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 26
24866905 GGCCAATCAC
24866915 ATTGGAGGCACCAAAGGTGCCAAAGAG
1 ATTGGAGGCACCAAAGGTGCCAAAG-G
* *
24866942 ATTGGCGGCACCAATGGTGCCAAAGG
1 ATTGGAGGCACCAAAGGTGCCAAAGG
24866968 ATT
1 ATT
24866971 AAAATGTGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
26 4 0.15
27 23 0.85
ACGTcount: A:0.32, C:0.20, G:0.32, T:0.16
Consensus pattern (26 bp):
ATTGGAGGCACCAAAGGTGCCAAAGG
Found at i:24867067 original size:19 final size:19
Alignment explanation
Indices: 24867040--24867109 Score: 88
Period size: 19 Copynumber: 3.7 Consensus size: 19
24867030 TCAACTCATT
*
24867040 TTTTTATTTAATAACTCTA
1 TTTTAATTTAATAACTCTA
* *
24867059 TTTTAATTTTATAA-ACTA
1 TTTTAATTTAATAACTCTA
* *
24867077 TTCTCATTTAATAACTCTA
1 TTTTAATTTAATAACTCTA
24867096 TTTTAATTTAATAA
1 TTTTAATTTAATAA
24867110 ACTATTAAGT
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
18 14 0.34
19 27 0.66
ACGTcount: A:0.36, C:0.10, G:0.00, T:0.54
Consensus pattern (19 bp):
TTTTAATTTAATAACTCTA
Found at i:24867090 original size:37 final size:37
Alignment explanation
Indices: 24867045--24867115 Score: 133
Period size: 37 Copynumber: 1.9 Consensus size: 37
24867035 TCATTTTTTT
*
24867045 ATTTAATAACTCTATTTTAATTTTATAAACTATTCTC
1 ATTTAATAACTCTATTTTAATTTAATAAACTATTCTC
24867082 ATTTAATAACTCTATTTTAATTTAATAAACTATT
1 ATTTAATAACTCTATTTTAATTTAATAAACTATT
24867116 AAGTAATACT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.38, C:0.11, G:0.00, T:0.51
Consensus pattern (37 bp):
ATTTAATAACTCTATTTTAATTTAATAAACTATTCTC
Found at i:24867199 original size:19 final size:19
Alignment explanation
Indices: 24867130--24867198 Score: 79
Period size: 19 Copynumber: 3.7 Consensus size: 19
24867120 AATACTTAAT
*
24867130 TTATTAAATTAAAATAGAG
1 TTATTAAATTAAAATAGAA
* * *
24867149 TTATTAAATGAGAATAG-T
1 TTATTAAATTAAAATAGAA
*
24867167 TTATAAAATTAAAATAGAA
1 TTATTAAATTAAAATAGAA
24867186 TTATTAAA-TAAAA
1 TTATTAAATTAAAA
24867199 AAATGAGTTC
Statistics
Matches: 41, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
18 19 0.46
19 22 0.54
ACGTcount: A:0.55, C:0.00, G:0.09, T:0.36
Consensus pattern (19 bp):
TTATTAAATTAAAATAGAA
Found at i:24867322 original size:32 final size:32
Alignment explanation
Indices: 24867281--24867341 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
24867271 TCCTTTGGCA
** *
24867281 CCATTGGTGCTGCGAATCACTTTGGCACCAAT
1 CCATTGGTGCCACCAATCACTTTGGCACCAAT
*
24867313 CCATTGGTGCCACCAATCTCTTTGGCACC
1 CCATTGGTGCCACCAATCACTTTGGCACC
24867342 TTTGGTGCCG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.20, C:0.33, G:0.20, T:0.28
Consensus pattern (32 bp):
CCATTGGTGCCACCAATCACTTTGGCACCAAT
Found at i:24867355 original size:27 final size:27
Alignment explanation
Indices: 24867273--24867356 Score: 78
Period size: 27 Copynumber: 2.9 Consensus size: 27
24867263 CATTTTAGTC
* * *
24867273 CTTTGGCACCATTGGTGCTGCGAATCA
1 CTTTGGCACCTTTGGTGCCGCCAATCA
* *
24867300 CTTTGGCACCAATCCATTGGTGCCACCAATCT
1 CTTTGGCACC--T---TTGGTGCCGCCAATCA
24867332 CTTTGGCACCTTTGGTGCCGCCAAT
1 CTTTGGCACCTTTGGTGCCGCCAAT
24867357 GTGATTGGCC
Statistics
Matches: 46, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
27 23 0.50
30 1 0.02
32 22 0.48
ACGTcount: A:0.18, C:0.31, G:0.21, T:0.30
Consensus pattern (27 bp):
CTTTGGCACCTTTGGTGCCGCCAATCA
Found at i:24867456 original size:27 final size:26
Alignment explanation
Indices: 24867417--24867478 Score: 65
Period size: 27 Copynumber: 2.3 Consensus size: 26
24867407 TTTTTTTTGT
*
24867417 ATATTTTCGTAAATAATAATAAAA-T-TA
1 ATATTTT-GTAAACAA-AA-AAAAGTATA
24867444 ATATTTTGATAAACAAAAAAAAGTATA
1 ATATTTTG-TAAACAAAAAAAAGTATA
24867471 ATATTTTG
1 ATATTTTG
24867479 GTTAATTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
25 4 0.13
26 4 0.13
27 23 0.74
ACGTcount: A:0.52, C:0.03, G:0.06, T:0.39
Consensus pattern (26 bp):
ATATTTTGTAAACAAAAAAAAGTATA
Found at i:24872865 original size:4 final size:4
Alignment explanation
Indices: 24872856--24872880 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
24872846 ATGCATATCA
24872856 TATT TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT T
24872881 TTATTTTCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:24873039 original size:8 final size:8
Alignment explanation
Indices: 24873026--24873053 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
24873016 TCCCATGTTA
24873026 TATATATC
1 TATATATC
24873034 TATATATC
1 TATATATC
24873042 TATATATC
1 TATATATC
24873050 TATA
1 TATA
24873054 CCATATAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.39, C:0.11, G:0.00, T:0.50
Consensus pattern (8 bp):
TATATATC
Found at i:24874612 original size:16 final size:17
Alignment explanation
Indices: 24874581--24874613 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
24874571 ATTGAGCAAC
24874581 AATCACAAAAATATAAA
1 AATCACAAAAATATAAA
*
24874598 AATCATAAAAA-ATAAA
1 AATCACAAAAATATAAA
24874614 TCAAAACACA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.73, C:0.09, G:0.00, T:0.18
Consensus pattern (17 bp):
AATCACAAAAATATAAA
Found at i:24878126 original size:120 final size:120
Alignment explanation
Indices: 24877962--24878192 Score: 365
Period size: 120 Copynumber: 1.9 Consensus size: 120
24877952 TTCGTGATAA
* **
24877962 AGAACTTGTCCATTGAGAATTCGTGTCAAGGAGGGGATTGTTAGAATTGTATGACCCAAATTCCT
1 AGAACTTGTCCATTGAGAATTCGTGCCAAGGAGAAGATTGTTAGAATTGTATGACCCAAATTCCT
* *
24878027 ATTAAAGAAATAAAATACAGTGGCAAAAT-AGGGAGATCTGTGGGGGAAGAGGTGG
66 ATTAAAGAAATAAAATACAGTGACAAAATAAGGG-GATCTATGGGGGAAGAGGTGG
* * *
24878082 AGAACTTGTTCGTTGAGAATTCGTGCCAAGGAGAAGATTGTTAGAGTTGTATGACCCAAATTCCT
1 AGAACTTGTCCATTGAGAATTCGTGCCAAGGAGAAGATTGTTAGAATTGTATGACCCAAATTCCT
*
24878147 GTTAAAGAAATAAAATACAGTGACAAAATAAGGGGATCTATGGGGG
66 ATTAAAGAAATAAAATACAGTGACAAAATAAGGGGATCTATGGGGG
24878193 TGAAGGCTAA
Statistics
Matches: 101, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
120 97 0.96
121 4 0.04
ACGTcount: A:0.35, C:0.11, G:0.28, T:0.26
Consensus pattern (120 bp):
AGAACTTGTCCATTGAGAATTCGTGCCAAGGAGAAGATTGTTAGAATTGTATGACCCAAATTCCT
ATTAAAGAAATAAAATACAGTGACAAAATAAGGGGATCTATGGGGGAAGAGGTGG
Found at i:24879550 original size:22 final size:21
Alignment explanation
Indices: 24879525--24879566 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
24879515 CGGCTGGAAA
24879525 AAGAACACAAAAAAACAGTTTC
1 AAGAA-ACAAAAAAACAGTTTC
*
24879547 AAGAAATAAAAAAACAGTTT
1 AAGAAACAAAAAAACAGTTT
24879567 AAAAGGTGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.62, C:0.12, G:0.10, T:0.17
Consensus pattern (21 bp):
AAGAAACAAAAAAACAGTTTC
Found at i:24908786 original size:5 final size:5
Alignment explanation
Indices: 24908765--24908818 Score: 63
Period size: 5 Copynumber: 10.2 Consensus size: 5
24908755 TTTTTTTAAG
* *
24908765 TATAT TATTAT TTTAT TATATT GTAAAT TATAT TATAT TATAT TATAT
1 TATAT TA-TAT TATAT TATA-T -TATAT TATAT TATAT TATAT TATAT
24908813 TATAT T
1 TATAT T
24908819 TTATATTGAT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
5 33 0.79
6 6 0.14
7 3 0.07
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (5 bp):
TATAT
Found at i:24908822 original size:22 final size:24
Alignment explanation
Indices: 24908764--24908825 Score: 64
Period size: 22 Copynumber: 2.8 Consensus size: 24
24908754 TTTTTTTTAA
24908764 GTATATTAT-TATTT-TATTATATT
1 GTATATTATAT-TTTATATTATATT
*
24908787 GTAAATTATA--TTATATTATA-T
1 GTATATTATATTTTATATTATATT
24908808 -TATATTATATTTTATATT
1 GTATATTATATTTTATATT
24908826 GATAATTAGT
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
20 8 0.24
21 3 0.09
22 14 0.42
23 8 0.24
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.61
Consensus pattern (24 bp):
GTATATTATATTTTATATTATATT
Found at i:24908915 original size:21 final size:20
Alignment explanation
Indices: 24908881--24908935 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 20
24908871 ACATTTTGTT
*
24908881 GCTATATATTTTTTAATAGGA
1 GCTA-ATATTTTTTAATAGAA
24908902 GCTAATATTGTTTTAATAGAA
1 GCTAATATT-TTTTAATAGAA
24908923 GCTAATATTTTTT
1 GCTAATATTTTTT
24908936 TATTTTTAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
20 9 0.28
21 23 0.72
ACGTcount: A:0.33, C:0.05, G:0.13, T:0.49
Consensus pattern (20 bp):
GCTAATATTTTTTAATAGAA
Found at i:24910311 original size:54 final size:54
Alignment explanation
Indices: 24910284--24910394 Score: 168
Period size: 54 Copynumber: 2.0 Consensus size: 54
24910274 TATTTATTTC
* *
24910284 GGGTGTGTTTTGGTTGGATATTCTGGTGTGTTTGGGTGGAATCTGTATCTGTCA
1 GGGTGTGTTTTGGTTGGATATTCTGGTGTGTTTGGGAGGAATATGTATCTGTCA
* *
24910338 GGGTGTGTTTTGGTTGGATATTCTGGTGTGTTTGGGTGGAATCTGCGTATCTGTCA
1 GGGTGTGTTTTGGTTGGATATTCTGGTGTGTTTGGGAGGAATAT--GTATCTGTCA
24910394 G
1 G
24910395 AGCCCGAGTC
Statistics
Matches: 55, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
54 44 0.80
56 11 0.20
ACGTcount: A:0.11, C:0.08, G:0.38, T:0.43
Consensus pattern (54 bp):
GGGTGTGTTTTGGTTGGATATTCTGGTGTGTTTGGGAGGAATATGTATCTGTCA
Found at i:24913472 original size:23 final size:22
Alignment explanation
Indices: 24913446--24913498 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
24913436 AAGTATGATC
24913446 TATGTATAAGTAAATTATGAAAA
1 TATGTATAAGTAAA-TATGAAAA
* * *
24913469 TATGTATATGTATATATTAAAA
1 TATGTATAAGTAAATATGAAAA
*
24913491 TACGTATA
1 TATGTATA
24913499 TATATAAGTA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
22 14 0.54
23 12 0.46
ACGTcount: A:0.47, C:0.02, G:0.11, T:0.40
Consensus pattern (22 bp):
TATGTATAAGTAAATATGAAAA
Found at i:24913638 original size:18 final size:19
Alignment explanation
Indices: 24913617--24913654 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
24913607 TAAAATATGG
24913617 AAAATATATATGTAT-TAT
1 AAAATATATATGTATATAT
*
24913635 AAAATGTATATGTATATAT
1 AAAATATATATGTATATAT
24913654 A
1 A
24913655 TAGAATAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (19 bp):
AAAATATATATGTATATAT
Found at i:24913718 original size:3 final size:3
Alignment explanation
Indices: 24913710--24913783 Score: 112
Period size: 3 Copynumber: 24.0 Consensus size: 3
24913700 ATACATTGTT
* *
24913710 ATA ATA ATA ATA ATA ATA CCATA GTA GTA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA --ATA ATA ATA ATA ATA ATA ATA ATA ATA
24913757 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
24913784 GTACAAAAAG
Statistics
Matches: 67, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
3 64 0.96
5 3 0.04
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:24913827 original size:16 final size:16
Alignment explanation
Indices: 24913806--24913839 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
24913796 CAAAAGGACT
24913806 AGTTTGAAATCCAAGC
1 AGTTTGAAATCCAAGC
24913822 AGTTTGAAATCCAAGC
1 AGTTTGAAATCCAAGC
24913838 AG
1 AG
24913840 AAATTTAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.38, C:0.18, G:0.21, T:0.24
Consensus pattern (16 bp):
AGTTTGAAATCCAAGC
Found at i:24918278 original size:20 final size:20
Alignment explanation
Indices: 24918255--24918293 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
24918245 CAATCAATGA
*
24918255 TGATCAATGCCGATCAACAG
1 TGATCAATGCCAATCAACAG
* *
24918275 TGATTAATGTCAATCAACA
1 TGATCAATGCCAATCAACA
24918294 TCAAGTCAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (20 bp):
TGATCAATGCCAATCAACAG
Found at i:24920146 original size:18 final size:19
Alignment explanation
Indices: 24920123--24920168 Score: 55
Period size: 17 Copynumber: 2.6 Consensus size: 19
24920113 GGGTTTATGA
24920123 TTTTAAATATAAT-TT-CT
1 TTTTAAATATAATCTTACT
24920140 TTATTAAAT-T-ATCTTACT
1 TT-TTAAATATAATCTTACT
24920158 TTTTAAATATA
1 TTTTAAATATA
24920169 TTTGTTATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
16 2 0.08
17 11 0.46
18 11 0.46
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.57
Consensus pattern (19 bp):
TTTTAAATATAATCTTACT
Found at i:24921189 original size:13 final size:13
Alignment explanation
Indices: 24921171--24921195 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24921161 CAAATTCCCT
24921171 TTTCCAATATTAA
1 TTTCCAATATTAA
24921184 TTTCCAATATTA
1 TTTCCAATATTA
24921196 TCTATCTATG
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:0.36, C:0.16, G:0.00, T:0.48
Consensus pattern (13 bp):
TTTCCAATATTAA
Found at i:24948233 original size:38 final size:38
Alignment explanation
Indices: 24948179--24948253 Score: 98
Period size: 38 Copynumber: 2.0 Consensus size: 38
24948169 CTCAAAGTCC
** *
24948179 TCATAAGGGATGTTTCCCTGCA-GAGCACCAAAACTATG
1 TCATAAGGGACCTTTCCCTGCAGGA-CACAAAAACTATG
*
24948217 TCATAAGGGACCTTTCCCTGTAGGACACAAAAACTAT
1 TCATAAGGGACCTTTCCCTGCAGGACACAAAAACTAT
24948254 CTAACAACCT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
38 30 0.94
39 2 0.06
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.24
Consensus pattern (38 bp):
TCATAAGGGACCTTTCCCTGCAGGACACAAAAACTATG
Found at i:24957657 original size:90 final size:90
Alignment explanation
Indices: 24957553--24957865 Score: 617
Period size: 90 Copynumber: 3.5 Consensus size: 90
24957543 TTAAACACTA
*
24957553 ACAATTAATATAACCTAATCATAAATTACTAACAAAATAACTAACAATTTTTAAAAAAGAATTTA
1 ACAATTTATATAACCTAATCATAAATTACTAACAAAATAACTAACAATTTTTAAAAAAGAATTTA
24957618 CATTACTAATAAGTCAAAAAATACT
66 CATTACTAATAAGTCAAAAAATACT
24957643 ACAATTTATATAACCTAATCATAAATTACTAACAAAATAACTAACAATTTTTAAAAAAGAATTTA
1 ACAATTTATATAACCTAATCATAAATTACTAACAAAATAACTAACAATTTTTAAAAAAGAATTTA
24957708 CATTACTAATAAGTCAAAAAATACT
66 CATTACTAATAAGTCAAAAAATACT
24957733 ACAATTTATATAACCTAATCATAAATTACTAACAAAATAACTAACAATTTTTAAAAAAGAATTTA
1 ACAATTTATATAACCTAATCATAAATTACTAACAAAATAACTAACAATTTTTAAAAAAGAATTTA
24957798 CATTACTAATAAGTCAAAAAATACT
66 CATTACTAATAAGTCAAAAAATACT
24957823 ACAATTTATATAACCTAATCATAAATTACTAACAAAATAACTA
1 ACAATTTATATAACCTAATCATAAATTACTAACAAAATAACTA
24957866 TAAAAATATT
Statistics
Matches: 222, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
90 222 1.00
ACGTcount: A:0.54, C:0.14, G:0.02, T:0.31
Consensus pattern (90 bp):
ACAATTTATATAACCTAATCATAAATTACTAACAAAATAACTAACAATTTTTAAAAAAGAATTTA
CATTACTAATAAGTCAAAAAATACT
Found at i:24957714 original size:42 final size:42
Alignment explanation
Indices: 24957667--24957806 Score: 138
Period size: 43 Copynumber: 3.2 Consensus size: 42
24957657 CTAATCATAA
24957667 ATTACTAACAAAATAACTAACAATTTTTAAAAAAGAATTTAC
1 ATTACTAACAAAATAACTAACAATTTTTAAAAAAGAATTTAC
* * * *** * *
24957709 ATTACTAATAAGTCAAAAAATACT-ACAATTTATATAACCTAATCATAA
1 ATTAC---TAA--CAAAATA-ACTAACAATTTTTAAAAAAGAAT-TTAC
24957757 ATTACTAACAAAATAACTAACAATTTTTAAAAAAGAATTTAC
1 ATTACTAACAAAATAACTAACAATTTTTAAAAAAGAATTTAC
24957799 ATTACTAA
1 ATTACTAA
24957807 TAAGTCAAAA
Statistics
Matches: 74, Mismatches: 16, Indels: 16
0.70 0.15 0.15
Matches are distributed among these distances:
42 18 0.24
43 20 0.27
45 6 0.08
47 20 0.27
48 10 0.14
ACGTcount: A:0.54, C:0.13, G:0.02, T:0.31
Consensus pattern (42 bp):
ATTACTAACAAAATAACTAACAATTTTTAAAAAAGAATTTAC
Found at i:24958011 original size:71 final size:70
Alignment explanation
Indices: 24957850--24958011 Score: 218
Period size: 72 Copynumber: 2.3 Consensus size: 70
24957840 ATCATAAATT
* ** * * *
24957850 ACTAACAAAATAACTATA-AAAATATTTTTTTAAATATTTTATATTACTAAAAAATCACAAAACA
1 ACTAACAAAATAACTA-ACAAAATAATTAATAAAATATTTTACATTAATAAAAAATCACAAAACA
24957914 CAAAAC
65 CAAAAC
* *
24957920 ACTTACATAAATTACTAACAAAATAATTAATAAAATAATTTTACATTAATAAAAAATCACAAAAC
1 ACTAACA-AAATAACTAACAAAATAATTAATAAAAT-ATTTTACATTAATAAAAAATCACAAAAC
24957985 ACAAAAC
64 ACAAAAC
24957992 ACTAACAAAATAACTAACAA
1 ACTAACAAAATAACTAACAA
24958012 TTTATAACAA
Statistics
Matches: 79, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
70 7 0.09
71 33 0.42
72 39 0.49
ACGTcount: A:0.59, C:0.14, G:0.00, T:0.27
Consensus pattern (70 bp):
ACTAACAAAATAACTAACAAAATAATTAATAAAATATTTTACATTAATAAAAAATCACAAAACAC
AAAAC
Found at i:24961988 original size:71 final size:70
Alignment explanation
Indices: 24961827--24961988 Score: 218
Period size: 72 Copynumber: 2.3 Consensus size: 70
24961817 ATCATAAATT
* ** * * *
24961827 ACTAACAAAATAACTATA-AAAATATTTTTTTAAATATTTTATATTACTAAAAAATCACAAAACA
1 ACTAACAAAATAACTA-ACAAAATAATTAATAAAATATTTTACATTAATAAAAAATCACAAAACA
24961891 CAAAAC
65 CAAAAC
* *
24961897 ACTTACATAAATTACTAACAAAATAATTAATAAAATAATTTTACATTAATAAAAAATCACAAAAC
1 ACTAACA-AAATAACTAACAAAATAATTAATAAAAT-ATTTTACATTAATAAAAAATCACAAAAC
24961962 ACAAAAC
64 ACAAAAC
24961969 ACTAACAAAATAACTAACAA
1 ACTAACAAAATAACTAACAA
24961989 TTTATAACAA
Statistics
Matches: 79, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
70 7 0.09
71 33 0.42
72 39 0.49
ACGTcount: A:0.59, C:0.14, G:0.00, T:0.27
Consensus pattern (70 bp):
ACTAACAAAATAACTAACAAAATAATTAATAAAATATTTTACATTAATAAAAAATCACAAAACAC
AAAAC
Found at i:24967602 original size:24 final size:24
Alignment explanation
Indices: 24967557--24967602 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
24967547 TATATGAAAT
* **
24967557 ATAAATTTTAAATATTTTTAAACA
1 ATAAATATTAAATATTGGTAAACA
*
24967581 ATAAATATTAATTATTGGTAAA
1 ATAAATATTAAATATTGGTAAA
24967603 ATTAAAGTAG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.43
Consensus pattern (24 bp):
ATAAATATTAAATATTGGTAAACA
Found at i:24969035 original size:2 final size:2
Alignment explanation
Indices: 24969028--24969052 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
24969018 GTTTGAGTTA
24969028 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 A
24969053 CAAATTTTAA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:24972220 original size:24 final size:25
Alignment explanation
Indices: 24972174--24972220 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
24972164 CTTTTTTTTG
* *
24972174 TCTTTTTCATTTTCTTCTATTCTAT
1 TCTTTTTCATCTTCTCCTATTCTAT
*
24972199 TCTTTTTC-TCTTCTCCTTTTCT
1 TCTTTTTCATCTTCTCCTATTCT
24972221 TGGAAGGCTA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 11 0.58
25 8 0.42
ACGTcount: A:0.06, C:0.26, G:0.00, T:0.68
Consensus pattern (25 bp):
TCTTTTTCATCTTCTCCTATTCTAT
Found at i:24978415 original size:7 final size:7
Alignment explanation
Indices: 24978403--24978433 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
24978393 GATCTACGTT
24978403 CACTCTC
1 CACTCTC
24978410 CACTCTC
1 CACTCTC
24978417 CACTCTC
1 CACTCTC
24978424 CACTCTC
1 CACTCTC
24978431 CAC
1 CAC
24978434 CAGTCTTGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.16, C:0.58, G:0.00, T:0.26
Consensus pattern (7 bp):
CACTCTC
Found at i:24982403 original size:46 final size:46
Alignment explanation
Indices: 24982332--24982425 Score: 152
Period size: 46 Copynumber: 2.0 Consensus size: 46
24982322 ATAAGTCAAA
* * *
24982332 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
1 TTGTGAAAAGTAGGTATGATATTTCAATGAAGAAAACCATACTGAG
*
24982378 TTGTGAAAAGTAGGTATGATATTTCAATGAAGGAAACCATACTGAG
1 TTGTGAAAAGTAGGTATGATATTTCAATGAAGAAAACCATACTGAG
24982424 TT
1 TT
24982426 ATAGCATTGT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.36, C:0.09, G:0.26, T:0.30
Consensus pattern (46 bp):
TTGTGAAAAGTAGGTATGATATTTCAATGAAGAAAACCATACTGAG
Found at i:24986203 original size:125 final size:126
Alignment explanation
Indices: 24985885--24986237 Score: 564
Period size: 126 Copynumber: 2.8 Consensus size: 126
24985875 TAATTTCAAG
* ** *
24985885 TTGATGTTTCTGATAAAATAGTATAAAATCGCTTCTAGCAGAATGCTATTTGAGAAGAATTTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
* *
24985950 AAATCACGCCCTCGTGGACGTGCTTTTGCTACAGTAGGTCATGGAAGAAATAATTATTTTT
66 AAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCATGGAAGAAATAATTATTTTT
* *
24986011 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGTTATTTGAGAAGAATTTATG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
* * *
24986076 AAATCGCGGCCTCGTAGACGCGCTTTTGCTACAGTAGGTCATGTAAGAAATAATTA-TTTT
66 AAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCATGGAAGAAATAATTATTTTT
* *
24986136 TTGACGTTTCTGAGCAAATAATATAAAATCGCTTCTAGTAGGATGCTATTTGAGAAGAATTTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
* *
24986201 AAATTGCGCCCTTGTGGACGCGCTTTTGCTACAGTAG
66 AAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAG
24986238 CATGTTTGGG
Statistics
Matches: 208, Mismatches: 19, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
125 98 0.47
126 110 0.53
ACGTcount: A:0.30, C:0.14, G:0.22, T:0.34
Consensus pattern (126 bp):
TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
AAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCATGGAAGAAATAATTATTTTT
Found at i:24992245 original size:21 final size:22
Alignment explanation
Indices: 24992196--24992250 Score: 94
Period size: 22 Copynumber: 2.5 Consensus size: 22
24992186 AAATATGGAT
24992196 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
24992218 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
24992240 -TGAGAGTAATT
1 TTGAGAG-AATT
24992251 ATCGTACAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 6 0.19
22 26 0.81
ACGTcount: A:0.40, C:0.00, G:0.31, T:0.29
Consensus pattern (22 bp):
TTGAGAGAATTTTGGAAGGAAA
Found at i:24992370 original size:22 final size:22
Alignment explanation
Indices: 24992345--24992400 Score: 103
Period size: 22 Copynumber: 2.5 Consensus size: 22
24992335 AAATATGGAT
24992345 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
24992367 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
24992389 TTGAGAGTAATT
1 TTGAGAG-AATT
24992401 GAGAGGAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 29 0.88
23 4 0.12
ACGTcount: A:0.39, C:0.00, G:0.30, T:0.30
Consensus pattern (22 bp):
TTGAGAGAATTTTGGAAGGAAA
Found at i:24992436 original size:149 final size:146
Alignment explanation
Indices: 24992152--24992424 Score: 404
Period size: 149 Copynumber: 1.8 Consensus size: 146
24992142 AATAACAAAT
24992152 TTTTTAAAAAGGAAATTGAGAGGAAATTGAAATTAAATATGGATTTGAGAGAATTTTGGAAGGAA
1 TTTTTAAAAAGGAAATTGAGAGGAAATTGAAATTAAATATGGATTTGAGAGAATTTTGGAAGGAA
** * ****
24992217 ATTGAGAGAATTTTGGAAGGAAATGAGAGTAATTATCGTACAAATTTTTACGATTTATAAAAATA
66 ATTGAGAGAATTTTGGAAGGAAATGAGAGTAATTAGAGGACAAATAGAGACGATTTAT---AATA
24992282 TAAAAAATTTTTAAAATTA
128 TAAAAAATTTTTAAAATTA
24992301 TTTTTAAAAAGGAAATTGAGAGGAAATTGAAATTAAATATGGATTTGAGAGAATTTTGGAAGGAA
1 TTTTTAAAAAGGAAATTGAGAGGAAATTGAAATTAAATATGGATTTGAGAGAATTTTGGAAGGAA
*
24992366 ATTGAGAGAATTTTGGAAGGAAATTGAGAGTAATTGAGAGGA-AATATGAGAGAGGATTT
66 ATTGAGAGAATTTTGGAAGGAAA-TGAGAGTAATT-AGAGGACAA-AT-AGAGACGATTT
24992425 GTTTGTGAAA
Statistics
Matches: 112, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
149 88 0.79
150 13 0.12
151 5 0.04
152 6 0.05
ACGTcount: A:0.44, C:0.01, G:0.23, T:0.32
Consensus pattern (146 bp):
TTTTTAAAAAGGAAATTGAGAGGAAATTGAAATTAAATATGGATTTGAGAGAATTTTGGAAGGAA
ATTGAGAGAATTTTGGAAGGAAATGAGAGTAATTAGAGGACAAATAGAGACGATTTATAATATAA
AAAATTTTTAAAATTA
Found at i:24997664 original size:96 final size:96
Alignment explanation
Indices: 24997500--24997691 Score: 384
Period size: 96 Copynumber: 2.0 Consensus size: 96
24997490 AATAATAAGA
24997500 GAAAGACTTGGAAAAGTCTCCTCCACTTTTTGGGTCTTCCATTGTCAAGTTGGACAAATTTTATA
1 GAAAGACTTGGAAAAGTCTCCTCCACTTTTTGGGTCTTCCATTGTCAAGTTGGACAAATTTTATA
24997565 AGTTAGAAATTTTCTTGCCTAACACTAACGT
66 AGTTAGAAATTTTCTTGCCTAACACTAACGT
24997596 GAAAGACTTGGAAAAGTCTCCTCCACTTTTTGGGTCTTCCATTGTCAAGTTGGACAAATTTTATA
1 GAAAGACTTGGAAAAGTCTCCTCCACTTTTTGGGTCTTCCATTGTCAAGTTGGACAAATTTTATA
24997661 AGTTAGAAATTTTCTTGCCTAACACTAACGT
66 AGTTAGAAATTTTCTTGCCTAACACTAACGT
24997692 TATACTATCT
Statistics
Matches: 96, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
96 96 1.00
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (96 bp):
GAAAGACTTGGAAAAGTCTCCTCCACTTTTTGGGTCTTCCATTGTCAAGTTGGACAAATTTTATA
AGTTAGAAATTTTCTTGCCTAACACTAACGT
Found at i:25001118 original size:16 final size:16
Alignment explanation
Indices: 25001097--25001137 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 16
25001087 TAAAATTTGA
*
25001097 ACTTTTGCTCCAAAGT
1 ACTTTTGATCCAAAGT
25001113 ACTTTTTGATCCAAAGT
1 AC-TTTTGATCCAAAGT
*
25001130 ACCTTTGA
1 ACTTTTGA
25001138 GAAACAGTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 7 0.32
17 15 0.68
ACGTcount: A:0.27, C:0.22, G:0.12, T:0.39
Consensus pattern (16 bp):
ACTTTTGATCCAAAGT
Found at i:25001125 original size:17 final size:17
Alignment explanation
Indices: 25001099--25001131 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
25001089 AAATTTGAAC
*
25001099 TTTTGCTCCAAAGTACT
1 TTTTGATCCAAAGTACT
25001116 TTTTGATCCAAAGTAC
1 TTTTGATCCAAAGTAC
25001132 CTTTGAGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.27, C:0.21, G:0.12, T:0.39
Consensus pattern (17 bp):
TTTTGATCCAAAGTACT
Found at i:25002597 original size:17 final size:18
Alignment explanation
Indices: 25002575--25002613 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
25002565 CTGTACATTG
*
25002575 CTGGTT-TAGCTGCCTCA
1 CTGGTTCTAGCCGCCTCA
25002592 CTGGTTGCTAGCCGCCTCA
1 CTGGTT-CTAGCCGCCTCA
25002611 CTG
1 CTG
25002614 CGGCAATTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 6 0.32
19 13 0.68
ACGTcount: A:0.10, C:0.33, G:0.26, T:0.31
Consensus pattern (18 bp):
CTGGTTCTAGCCGCCTCA
Found at i:25010597 original size:41 final size:39
Alignment explanation
Indices: 25010552--25010635 Score: 118
Period size: 37 Copynumber: 2.2 Consensus size: 39
25010542 CAAATATCTC
25010552 AAAATATATAACTCTTTTGCTTGCTCTGTTTCTTTTATGTG
1 AAAATATA-AA-TCTTTTGCTTGCTCTGTTTCTTTTATGTG
* *
25010593 -AAA-ATAGATCTTTTGTTTGCTCTGTTTCTTTTATGTG
1 AAAATATAAATCTTTTGCTTGCTCTGTTTCTTTTATGTG
25010630 AAAATA
1 AAAATA
25010636 GACTCATTTA
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
37 28 0.72
38 4 0.10
39 4 0.10
40 3 0.08
ACGTcount: A:0.25, C:0.12, G:0.13, T:0.50
Consensus pattern (39 bp):
AAAATATAAATCTTTTGCTTGCTCTGTTTCTTTTATGTG
Found at i:25010606 original size:37 final size:37
Alignment explanation
Indices: 25010564--25010637 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
25010554 AATATATAAC
25010564 TCTTTTGCTTGCTCTGTTTCTTTTATGTGAAAATAGA
1 TCTTTTGCTTGCTCTGTTTCTTTTATGTGAAAATAGA
*
25010601 TCTTTTGTTTGCTCTGTTTCTTTTATGTGAAAATAGA
1 TCTTTTGCTTGCTCTGTTTCTTTTATGTGAAAATAGA
25010638 CTCATTTAGC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.19, C:0.12, G:0.16, T:0.53
Consensus pattern (37 bp):
TCTTTTGCTTGCTCTGTTTCTTTTATGTGAAAATAGA
Found at i:25010869 original size:23 final size:22
Alignment explanation
Indices: 25010826--25010869 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
25010816 TTCTAAATCG
25010826 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
25010849 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
25010870 TTAGTTAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:25017632 original size:63 final size:63
Alignment explanation
Indices: 25017558--25017748 Score: 382
Period size: 63 Copynumber: 3.0 Consensus size: 63
25017548 TAATATATTG
25017558 AATTTCATATAAGTAATTTAGCCGAAAAAGTGGTTAATTAAAGATAAGAGACTAAATTGAATA
1 AATTTCATATAAGTAATTTAGCCGAAAAAGTGGTTAATTAAAGATAAGAGACTAAATTGAATA
25017621 AATTTCATATAAGTAATTTAGCCGAAAAAGTGGTTAATTAAAGATAAGAGACTAAATTGAATA
1 AATTTCATATAAGTAATTTAGCCGAAAAAGTGGTTAATTAAAGATAAGAGACTAAATTGAATA
25017684 AATTTCATATAAGTAATTTAGCCGAAAAAGTGGTTAATTAAAGATAAGAGACTAAATTGAATA
1 AATTTCATATAAGTAATTTAGCCGAAAAAGTGGTTAATTAAAGATAAGAGACTAAATTGAATA
25017747 AA
1 AA
25017749 ATGTAAAGCA
Statistics
Matches: 128, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 128 1.00
ACGTcount: A:0.48, C:0.06, G:0.16, T:0.30
Consensus pattern (63 bp):
AATTTCATATAAGTAATTTAGCCGAAAAAGTGGTTAATTAAAGATAAGAGACTAAATTGAATA
Found at i:25018469 original size:39 final size:38
Alignment explanation
Indices: 25018426--25018592 Score: 181
Period size: 39 Copynumber: 4.3 Consensus size: 38
25018416 TATTAAAGAT
* ** *
25018426 TATAACGAGATCTAGAATCTATTATAGATTCTAAGGTAA
1 TATAACGAGATCTAGCAT-TATTGCAGATTCTAGGGTAA
* * * *
25018465 TATAATGAGATCTAGCATTTATTGCCGATTCTCGAGTAA
1 TATAACGAGATCTAGCA-TTATTGCAGATTCTAGGGTAA
* * * *
25018504 TATAACAAGATCTAGCCTTGTTGCAAATTCTAGGGGTAA
1 TATAACGAGATCTAGCATTATTGCAGATTCTA-GGGTAA
*
25018543 TATAACGAGATCTAGCCTTATTGCAGATTCTAGGGTAA
1 TATAACGAGATCTAGCATTATTGCAGATTCTAGGGTAA
*
25018581 TATGACGAGATC
1 TATAACGAGATC
25018593 CAGCCCTTGT
Statistics
Matches: 106, Mismatches: 20, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
38 28 0.26
39 77 0.73
40 1 0.01
ACGTcount: A:0.34, C:0.14, G:0.19, T:0.32
Consensus pattern (38 bp):
TATAACGAGATCTAGCATTATTGCAGATTCTAGGGTAA
Found at i:25018620 original size:77 final size:77
Alignment explanation
Indices: 25018453--25018623 Score: 170
Period size: 77 Copynumber: 2.2 Consensus size: 77
25018443 TCTATTATAG
* * * * * *
25018453 ATTCTAAG-GTAATATAATGAGATCTAGCATTTATTGCCGATTCTCGAGTAATATAACAAGATCT
1 ATTCTACGAGTAATATAACGAGATCTAGCACTTATTGCAGATTCTAGAGTAATATAACAAGATCC
25018517 AGCCTTGTTGCAA
66 AGCCTTGTTG-AA
* * * * *
25018530 ATTCTAGGGGTAATATAACGAGATCTAGC-CTTATTGCAGATTCTAGGGTAATATGACGAGATCC
1 ATTCTACGAGTAATATAACGAGATCTAGCACTTATTGCAGATTCTAGAGTAATATAACAAGATCC
*
25018594 AGCCCTTGTCATG-G
66 AG-CCTTGT--TGAA
25018608 ATTCT-CGAGTAATATA
1 ATTCTACGAGTAATATA
25018624 TGACATAGGT
Statistics
Matches: 78, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
77 46 0.59
78 30 0.38
80 2 0.03
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (77 bp):
ATTCTACGAGTAATATAACGAGATCTAGCACTTATTGCAGATTCTAGAGTAATATAACAAGATCC
AGCCTTGTTGAA
Found at i:25019828 original size:10 final size:10
Alignment explanation
Indices: 25019768--25019831 Score: 51
Period size: 10 Copynumber: 6.2 Consensus size: 10
25019758 AATTTAAAAC
25019768 ATCCCATAAA
1 ATCCCATAAA
25019778 AT-CC-TAATCA
1 ATCCCATAA--A
*
25019788 ATCCCTTAAA
1 ATCCCATAAA
*
25019798 ATCTCATAAAA
1 ATCCCAT-AAA
25019809 TATCCCATAAA
1 -ATCCCATAAA
*
25019820 ATCCTATAAA
1 ATCCCATAAA
25019830 AT
1 AT
25019832 ATCCTAATCA
Statistics
Matches: 44, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
8 3 0.07
9 2 0.05
10 22 0.50
11 8 0.18
12 9 0.20
ACGTcount: A:0.47, C:0.25, G:0.00, T:0.28
Consensus pattern (10 bp):
ATCCCATAAA
Found at i:25019846 original size:22 final size:22
Alignment explanation
Indices: 25019762--25019835 Score: 82
Period size: 22 Copynumber: 3.5 Consensus size: 22
25019752 AAATTTAATT
*
25019762 TAAAACATCCCATAAAATCCTA
1 TAAAATATCCCATAAAATCCTA
** *
25019784 -ATCA-ATCCCTTAAAAT-CTCA
1 TAAAATATCCCATAAAATCCT-A
25019804 TAAAATATCCCATAAAATCCTA
1 TAAAATATCCCATAAAATCCTA
25019826 TAAAATATCC
1 TAAAATATCC
25019836 TAATCAATCC
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
19 2 0.05
20 12 0.29
21 4 0.10
22 22 0.52
23 2 0.05
ACGTcount: A:0.47, C:0.26, G:0.00, T:0.27
Consensus pattern (22 bp):
TAAAATATCCCATAAAATCCTA
Found at i:25023073 original size:2 final size:2
Alignment explanation
Indices: 25023066--25023090 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
25023056 ATGTTAAAGG
25023066 TA 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 T
25023091 GTTTGTTTCA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:25028165 original size:2 final size:2
Alignment explanation
Indices: 25028158--25028194 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
25028148 ATCCATTTGA
25028158 TC TC TC TC TC TC 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 TC TC TC TC TC TC T
25028195 GAAAAGACAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:25028503 original size:4 final size:4
Alignment explanation
Indices: 25028494--25028524 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
25028484 ACATTCAGGT
25028494 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
25028525 ACTAGAAGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.52, C:0.23, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:25031971 original size:20 final size:20
Alignment explanation
Indices: 25031943--25031994 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
25031933 AAGATGAATA
*
25031943 GATTCAAACAATAAACAATC
1 GATTTAAACAATAAACAATC
*
25031963 GATTTAAACAAAAAACAATC
1 GATTTAAACAATAAACAATC
*
25031983 TA-TTAAA-AATAA
1 GATTTAAACAATAA
25031995 GGAAAACCAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
18 4 0.14
19 5 0.18
20 19 0.68
ACGTcount: A:0.60, C:0.13, G:0.04, T:0.23
Consensus pattern (20 bp):
GATTTAAACAATAAACAATC
Found at i:25036693 original size:163 final size:163
Alignment explanation
Indices: 25036423--25036748 Score: 625
Period size: 163 Copynumber: 2.0 Consensus size: 163
25036413 AAATAATACT
* *
25036423 TTCAATATTTGATTCCCTAAATCCATCATATTAATGAGATTTTCATAATTAAATCATATTCAAGC
1 TTCAATATTTGATTCCCTAAATCCATAATATTAATGACATTTTCATAATTAAATCATATTCAAGC
25036488 ATATAACCTCACTTTTCAAATACAGAAAATACGTTCGTACATAATTTCATTATCTAAATATCAAA
66 ATATAACCTCACTTTTCAAATACAGAAAATACGTTCGTACATAATTTCATTATCTAAATATCAAA
25036553 CATTTCATTTTATAACTTCTGTATATGTACATA
131 CATTTCATTTTATAACTTCTGTATATGTACATA
25036586 TTCAATATTTGATTCCCTAAATCCATAATATTAATGACATTTTCATAATTAAATCATATTCAAGC
1 TTCAATATTTGATTCCCTAAATCCATAATATTAATGACATTTTCATAATTAAATCATATTCAAGC
*
25036651 ATATAACCTCACTTTTCAAATACAGAAAATATGTTCGTACATAATTTCATTATCTAAATATCAAA
66 ATATAACCTCACTTTTCAAATACAGAAAATACGTTCGTACATAATTTCATTATCTAAATATCAAA
25036716 CATTTCATTTTATAACTTCTGTATATGTACATA
131 CATTTCATTTTATAACTTCTGTATATGTACATA
25036749 ATGAAACCAA
Statistics
Matches: 160, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
163 160 1.00
ACGTcount: A:0.38, C:0.17, G:0.05, T:0.40
Consensus pattern (163 bp):
TTCAATATTTGATTCCCTAAATCCATAATATTAATGACATTTTCATAATTAAATCATATTCAAGC
ATATAACCTCACTTTTCAAATACAGAAAATACGTTCGTACATAATTTCATTATCTAAATATCAAA
CATTTCATTTTATAACTTCTGTATATGTACATA
Found at i:25039656 original size:14 final size:15
Alignment explanation
Indices: 25039637--25039665 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
25039627 TCATGAAACT
25039637 TTCACACATG-TAAA
1 TTCACACATGATAAA
25039651 TTCACACATGATAAA
1 TTCACACATGATAAA
25039666 CACAAAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.45, C:0.21, G:0.07, T:0.28
Consensus pattern (15 bp):
TTCACACATGATAAA
Found at i:25040329 original size:6 final size:6
Alignment explanation
Indices: 25040320--25040344 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
25040310 ATTGTCTTTT
25040320 TCTTCA TCTTCA TCTTCA TCTTCA T
1 TCTTCA TCTTCA TCTTCA TCTTCA T
25040345 TATCGGTAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.32, G:0.00, T:0.52
Consensus pattern (6 bp):
TCTTCA
Found at i:25047421 original size:75 final size:75
Alignment explanation
Indices: 25047298--25047525 Score: 456
Period size: 75 Copynumber: 3.0 Consensus size: 75
25047288 AGTCAGTCCC
25047298 TTGTTCCTTGTTTTAGGTTACTCAGCCTACACTTGCATCCAATTACTATATCCAAAAGCAAACGA
1 TTGTTCCTTGTTTTAGGTTACTCAGCCTACACTTGCATCCAATTACTATATCCAAAAGCAAACGA
25047363 TGCTAAATAT
66 TGCTAAATAT
25047373 TTGTTCCTTGTTTTAGGTTACTCAGCCTACACTTGCATCCAATTACTATATCCAAAAGCAAACGA
1 TTGTTCCTTGTTTTAGGTTACTCAGCCTACACTTGCATCCAATTACTATATCCAAAAGCAAACGA
25047438 TGCTAAATAT
66 TGCTAAATAT
25047448 TTGTTCCTTGTTTTAGGTTACTCAGCCTACACTTGCATCCAATTACTATATCCAAAAGCAAACGA
1 TTGTTCCTTGTTTTAGGTTACTCAGCCTACACTTGCATCCAATTACTATATCCAAAAGCAAACGA
25047513 TGCTAAATAT
66 TGCTAAATAT
25047523 TTG
1 TTG
25047526 GAAAGCAAAC
Statistics
Matches: 153, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 153 1.00
ACGTcount: A:0.30, C:0.22, G:0.12, T:0.35
Consensus pattern (75 bp):
TTGTTCCTTGTTTTAGGTTACTCAGCCTACACTTGCATCCAATTACTATATCCAAAAGCAAACGA
TGCTAAATAT
Found at i:25049218 original size:2 final size:2
Alignment explanation
Indices: 25049211--25049244 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
25049201 TGCACAGGAT
25049211 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
25049245 ATGAACAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:25054717 original size:5 final size:5
Alignment explanation
Indices: 25054707--25054785 Score: 67
Period size: 5 Copynumber: 15.6 Consensus size: 5
25054697 AAAAAAATAT
* *
25054707 TATTA TATTA TAGTAA TGATTA TGTT- T-TTA TATTA TATTA TTATTA
1 TATTA TATTA TA-TTA T-ATTA TATTA TATTA TATTA TATTA -TATTA
25054753 -A-TA TATTA TATTA TATTA TATATA TATATA TAT
1 TATTA TATTA TATTA TATTA TAT-TA TAT-TA TAT
25054786 ATCTNNNNNN
Statistics
Matches: 63, Mismatches: 3, Indels: 15
0.78 0.04 0.19
Matches are distributed among these distances:
3 4 0.06
4 4 0.06
5 32 0.51
6 22 0.35
7 1 0.02
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (5 bp):
TATTA
Found at i:25054759 original size:19 final size:19
Alignment explanation
Indices: 25054735--25054787 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 19
25054725 ATTATGTTTT
25054735 TATATTATATTATTATTA-A
1 TATATTATATTA-TATTATA
25054754 TATATTATATTATATTATA
1 TATATTATATTATATTATA
25054773 TATA-TATATATATAT
1 TATATTATAT-TATAT
25054788 CTNNNNNNNN
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
18 10 0.31
19 22 0.69
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
TATATTATATTATATTATA
Found at i:25054774 original size:2 final size:2
Alignment explanation
Indices: 25054735--25054787 Score: 50
Period size: 2 Copynumber: 30.5 Consensus size: 2
25054725 ATTATGTTTT
25054735 TA TA T- TA TA T- TA T- TA T- TA -A TA TA T- TA TA T- TA TA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
25054769 TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA T
25054788 CTNNNNNNNN
Statistics
Matches: 43, Mismatches: 0, Indels: 16
0.73 0.00 0.27
Matches are distributed among these distances:
1 8 0.19
2 35 0.81
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (2 bp):
TA
Found at i:25064434 original size:16 final size:16
Alignment explanation
Indices: 25064413--25064464 Score: 54
Period size: 16 Copynumber: 3.4 Consensus size: 16
25064403 TCCTTGCAAG
*
25064413 GTTGTTCCCCAAGGTA
1 GTTGTTCTCCAAGGTA
**
25064429 GTTGTT-TCCAACAT-
1 GTTGTTCTCCAAGGTA
*
25064443 GTTGTTCTCAAAGGTA
1 GTTGTTCTCCAAGGTA
25064459 GTTGTT
1 GTTGTT
25064465 TTAAAAAATA
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
14 6 0.21
15 10 0.36
16 12 0.43
ACGTcount: A:0.19, C:0.17, G:0.23, T:0.40
Consensus pattern (16 bp):
GTTGTTCTCCAAGGTA
Found at i:25071926 original size:11 final size:11
Alignment explanation
Indices: 25071910--25071942 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
25071900 TATTCTATTC
*
25071910 TATTTATTTTT
1 TATTTATTTTA
25071921 TATTTATTTTA
1 TATTTATTTTA
25071932 T-TTTATTTTA
1 TATTTATTTTA
25071942 T
1 T
25071943 TTCTTTTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
10 10 0.48
11 11 0.52
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (11 bp):
TATTTATTTTA
Found at i:25071938 original size:25 final size:25
Alignment explanation
Indices: 25071900--25071952 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
25071890 TCTAGTGTTC
*
25071900 TATTCTATTCTA-TTTATTTTTTATT
1 TATTCTATTCTATTTTATTTCTT-TT
* *
25071925 TATTTTATTTTATTTTATTTCTTTT
1 TATTCTATTCTATTTTATTTCTTTT
25071950 TAT
1 TAT
25071953 CTACGAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 15 0.62
26 9 0.38
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.75
Consensus pattern (25 bp):
TATTCTATTCTATTTTATTTCTTTT
Found at i:25085108 original size:44 final size:43
Alignment explanation
Indices: 25085054--25085420 Score: 202
Period size: 44 Copynumber: 8.5 Consensus size: 43
25085044 TAATAATCCT
25085054 ATCTCCCTGAAGTTACAGTGGAGCGGATTAGAATAAAGCATCTC
1 ATCTCCCTGAAGTTACAGTGGAGCGGATTAGAATAAAG-ATCTC
* * * * * * * *
25085098 ATCTCTCTGAAGTTACAGTAGAGTGGA-TCGCAT-CAGGTCTT
1 ATCTCCCTGAAGTTACAGTGGAGCGGATTAGAATAAAGATCTC
* * * * *
25085139 ATCTCCCTGAGGTTATAGTGGAGCAGATTGGAGCTAATA-ATC-C
1 ATCTCCCTGAAGTTACAGTGGAGCGGATTAGA-ATAA-AGATCTC
*
25085182 TATCTCCCTGAAGGTACAGTGGAGCGGATTAGAATAAAGCATCTC
1 -ATCTCCCTGAAGTTACAGTGGAGCGGATTAGAATAAAG-ATCTC
* * * * * * * *
25085227 ATCTCTCTGAAGTTACAGTAGAGTGGA-TCGCAT-CAGGTCTT
1 ATCTCCCTGAAGTTACAGTGGAGCGGATTAGAATAAAGATCTC
* * * * *
25085268 ATCTCCCTGAGGTTATAGTGGAGCAGATTGGAGCTAATA-ATC-C
1 ATCTCCCTGAAGTTACAGTGGAGCGGATTAGA-ATAA-AGATCTC
* *
25085311 TATCTCCCTGAAGTTACAGTGGGGCAGG-TT-GAATATGCAAG-TCTT
1 -ATCTCCCTGAAGTTACAGTGGAGC-GGATTAGAATA---AAGATCTC
* * * * *
25085356 ATCTCCCTGAGGTTATAGTGGAGCAGATTGGAGCTAATA-ATC-C
1 ATCTCCCTGAAGTTACAGTGGAGCGGATTAGA-ATAA-AGATCTC
25085399 TATCTCCCTGAAGTTACAGTGG
1 -ATCTCCCTGAAGTTACAGTGG
25085421 GGCAGGTTGA
Statistics
Matches: 237, Mismatches: 61, Indels: 50
0.68 0.18 0.14
Matches are distributed among these distances:
41 48 0.20
42 11 0.05
43 17 0.07
44 152 0.64
45 7 0.03
46 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (43 bp):
ATCTCCCTGAAGTTACAGTGGAGCGGATTAGAATAAAGATCTC
Done.