Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 55 of 290
Found at i:18328576 original size:127 final size:127
Alignment explanation
Indices: 18328408--18328760 Score: 410
Period size: 127 Copynumber: 2.8 Consensus size: 127
18328398 ACGTCGCAAA
* * *
18328408 CTTTTGCGGCGCTTACAGAAAAAAAGCCCCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAAAAA
1 CTTTAGCGGCGCTTA-AGAAAAAAAGCCACTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAA
*
18328473 ATGCCGCTAAAGATCATGTTCTTTAGCGGCGCTAAAAAAATAAACGCCACTAAAGACCATGTT
65 ACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTAAAAAAATAAACGCCACTAAAGACCATGTT
* * *
18328536 CTTTAGCGGCGCTT-AGAAATAAACGCCACTAAAGACCATGTTCTTTAGCGGCGGTTAGAAATAA
1 CTTTAGCGGCGCTTAAGAAA-AAAAGCCACTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAA
* ** * *
18328600 ACGCCGCTAAAGATCATGTTCTTTAGCGGTGCTAAGGAAATAAACGCCGCTAAAGATCATGTT
65 ACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTAAAAAAATAAACGCCACTAAAGACCATGTT
** * * ** * **
18328663 CTTTAGCGGCGCTTTGGAAGAAAATGCCTCTAAA-AGTGATGTTCTATAGCGGCGCTT-GTTCAA
1 CTTTAGCGGCGCTTAAGAA-AAAAAGCCACTAAAGA-CCATGTTCTTTAGCGGCGCTTAG-AAAA
*
18328726 AAACGCCACTAAA-AGT-AGTGTTCTTTAGCGGCGCT
63 AAACGCCGCTAAAGA-TCA-TGTTCTTTAGCGGCGCT
18328761 TATTTCACAA
Statistics
Matches: 194, Mismatches: 24, Indels: 14
0.84 0.10 0.06
Matches are distributed among these distances:
126 5 0.03
127 114 0.59
128 74 0.38
129 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.26
Consensus pattern (127 bp):
CTTTAGCGGCGCTTAAGAAAAAAAGCCACTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAA
CGCCGCTAAAGATCATGTTCTTTAGCGGCGCTAAAAAAATAAACGCCACTAAAGACCATGTT
Found at i:18328730 original size:85 final size:85
Alignment explanation
Indices: 18328408--18328761 Score: 373
Period size: 85 Copynumber: 4.2 Consensus size: 85
18328398 ACGTCGCAAA
* * * * *
18328408 CTTTTGCGGCGCTTACAGAAA-AAAAGCCCCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAAAA
1 CTTTAGCGGCGCTT-TAGAAATAAACGCCACTAAAGATCATGTTCTTTAGCGGCGCTTAGAAATA
* *
18328472 AATGCCGCTAAAGATCATGTT
65 AACGCCACTAAAGATCATGTT
** * *
18328493 CTTTAGCGGCGCTAAAAAAATAAACGCCACTAAAGACCATGTTCTTTAGCGGCGCTTAGAAATAA
1 CTTTAGCGGCGCTTTAGAAATAAACGCCACTAAAGATCATGTTCTTTAGCGGCGCTTAGAAATAA
*
18328558 ACGCCACTAAAGACCATGTT
66 ACGCCACTAAAGATCATGTT
* * * *
18328578 CTTTAGCGGCG-GTTAGAAATAAACGCCGCTAAAGATCATGTTCTTTAGCGGTGCTAAGGAAATA
1 CTTTAGCGGCGCTTTAGAAATAAACGCCACTAAAGATCATGTTCTTTAGCGGCGCTTA-GAAATA
*
18328642 AACGCCGCTAAAGATCATGTT
65 AACGCCACTAAAGATCATGTT
* * * * * *
18328663 CTTTAGCGGCGCTTTGGAAGA-AAATGCCTCTAAA-AGTGATGTTCTATAGCGGCGCTT-GTTCA
1 CTTTAGCGGCGCTTTAGAA-ATAAACGCCACTAAAGA-TCATGTTCTTTAGCGGCGCTTAG--AA
18328725 A-AAACGCCACTAAA-AGT-AGTGTT
62 ATAAACGCCACTAAAGA-TCA-TGTT
18328748 CTTTAGCGGCGCTT
1 CTTTAGCGGCGCTT
18328762 ATTTCACAAA
Statistics
Matches: 229, Mismatches: 31, Indels: 18
0.82 0.11 0.06
Matches are distributed among these distances:
84 45 0.20
85 148 0.65
86 35 0.15
87 1 0.00
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (85 bp):
CTTTAGCGGCGCTTTAGAAATAAACGCCACTAAAGATCATGTTCTTTAGCGGCGCTTAGAAATAA
ACGCCACTAAAGATCATGTT
Found at i:18329206 original size:78 final size:78
Alignment explanation
Indices: 18329117--18329261 Score: 211
Period size: 78 Copynumber: 1.9 Consensus size: 78
18329107 TTGTTTTGCT
* * *
18329117 CTGCTTCTCTCGATGCCGCATCT-TTTTGAAGTCGTAGCTGTAGTTCTTCATATTTCTTTTGAAC
1 CTGCTTCTCTCGATGCCGCATCTGCTTT-AAGTCGTAGCTGAAGTTCTTCATATTTCCTTTGAAC
18329181 CTCTGTTTCTATCG
65 CTCTGTTTCTATCG
* * * *
18329195 CTGCTTCTCTCGCTGCCGCATCTGCTTTAAGTTGTTGGTGAAGTTCTTCATATTTCCTTTGAACC
1 CTGCTTCTCTCGATGCCGCATCTGCTTTAAGTCGTAGCTGAAGTTCTTCATATTTCCTTTGAACC
18329260 TC
66 TC
18329262 AAATGTGGTC
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
78 56 0.95
79 3 0.05
ACGTcount: A:0.14, C:0.26, G:0.17, T:0.43
Consensus pattern (78 bp):
CTGCTTCTCTCGATGCCGCATCTGCTTTAAGTCGTAGCTGAAGTTCTTCATATTTCCTTTGAACC
TCTGTTTCTATCG
Found at i:18337610 original size:18 final size:18
Alignment explanation
Indices: 18337573--18337610 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
18337563 ACCAGTACCA
18337573 AAAATGGACGGTGAAGATG
1 AAAATGGAC-GTGAAGATG
18337592 AAAATGGA-GTGACAGATG
1 AAAATGGACGTGA-AGATG
18337610 A
1 A
18337611 GCCAAAAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 4 0.22
18 6 0.33
19 8 0.44
ACGTcount: A:0.45, C:0.05, G:0.34, T:0.16
Consensus pattern (18 bp):
AAAATGGACGTGAAGATG
Found at i:18338529 original size:24 final size:24
Alignment explanation
Indices: 18338502--18338560 Score: 70
Period size: 21 Copynumber: 2.6 Consensus size: 24
18338492 AGAAGATGCT
*
18338502 CCAAAAGCAGGAGTGCTTGAACCC
1 CCAAAAGCAGGAGTACTTGAACCC
* *
18338526 CCAAAAGCA-GA--ACTTGAAGCT
1 CCAAAAGCAGGAGTACTTGAACCC
18338547 CCAAAAGCAGGAGT
1 CCAAAAGCAGGAGT
18338561 TGCGGAAGTG
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
21 16 0.55
22 2 0.07
23 2 0.07
24 9 0.31
ACGTcount: A:0.39, C:0.25, G:0.24, T:0.12
Consensus pattern (24 bp):
CCAAAAGCAGGAGTACTTGAACCC
Found at i:18338710 original size:24 final size:24
Alignment explanation
Indices: 18338681--18338806 Score: 119
Period size: 24 Copynumber: 5.2 Consensus size: 24
18338671 TTCCAGTTGA
*
18338681 ACCAAATGCAGGGGTGCTCGTGGC
1 ACCAAATGCAGGGGTGCTTGTGGC
* * * *
18338705 ATCAAATGCGGGGGTACTTGAGGC
1 ACCAAATGCAGGGGTGCTTGTGGC
*
18338729 ACCAAACGCAGGGGTGCTTGTGGC
1 ACCAAATGCAGGGGTGCTTGTGGC
* * * *
18338753 ACCGAAA-CCTGGAGTGCTTGAGGC
1 ACC-AAATGCAGGGGTGCTTGTGGC
* * *
18338777 GCCAAACGCAGGGGTGCTTGTCGC
1 ACCAAATGCAGGGGTGCTTGTGGC
18338801 ACCAAA
1 ACCAAA
18338807 AGCCGGGCTA
Statistics
Matches: 79, Mismatches: 21, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
23 3 0.04
24 73 0.92
25 3 0.04
ACGTcount: A:0.24, C:0.25, G:0.35, T:0.17
Consensus pattern (24 bp):
ACCAAATGCAGGGGTGCTTGTGGC
Found at i:18338830 original size:48 final size:47
Alignment explanation
Indices: 18338679--18338836 Score: 147
Period size: 48 Copynumber: 3.3 Consensus size: 47
18338669 ACTTCCAGTT
* * * * *
18338679 GAACCAAATGCAGGGGTGCTCGTGGCATCAAATGCGGGGGTACTTGAG
1 GAACCAAACGCAGGGGTGCTTGTGGCACCAAAAGC-CGGGTACTTGAG
* * *
18338727 GCACCAAACGCAGGGGTGCTTGTGGCACCGAAA-CCTGGAGTGCTTGAG
1 GAACCAAACGCAGGGGTGCTTGTGGCACCAAAAGCC-GG-GTACTTGAG
** * * *
18338775 GCGCCAAACGCAGGGGTGCTTGTCGCACCAAAAGCCGGGCTACTAGTG
1 GAACCAAACGCAGGGGTGCTTGTGGCACCAAAAGCCGGG-TACTTGAG
*
18338823 GAACCAAAGGCAGG
1 GAACCAAACGCAGG
18338837 ACTAGAACCA
Statistics
Matches: 89, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
47 4 0.04
48 83 0.93
49 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.35, T:0.15
Consensus pattern (47 bp):
GAACCAAACGCAGGGGTGCTTGTGGCACCAAAAGCCGGGTACTTGAG
Found at i:18342882 original size:3 final size:3
Alignment explanation
Indices: 18342869--18342910 Score: 75
Period size: 3 Copynumber: 13.7 Consensus size: 3
18342859 AAATAAATAC
18342869 AAT AGAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
18342911 CCGAATAGAT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 35 0.92
4 3 0.08
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:18344667 original size:44 final size:43
Alignment explanation
Indices: 18344592--18344846 Score: 243
Period size: 44 Copynumber: 5.8 Consensus size: 43
18344582 TCGTAGATTT
* ** * *
18344592 AATCTGTTCCACCACAACTTCAGGGAAATAAGATTTGCATCTTC
1 AATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTG-ATCTTC
* * *
18344636 AATATGCTCCACTGTAACTTCAGGGAGATAAGATTT-ATGGGC-TC
1 AATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGAT---CTTC
* *
18344680 AATCTGTTCCACTGCAACTTCAGGGAGATAAGATTTG-TGGC-TC
1 AATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGAT--CTTC
* *
18344723 TAATCTGCTCCACTGCAACTTTAGAGAAATAAGATTT-ATGGCTTC
1 -AATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGAT--CTTC
* *
18344768 AATCTGCTCCACTGCAACTTTAGAGAGATAAGGTTTG-TGGCTTC
1 AATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGAT--CTTC
18344812 AATCTGCTCCACTGCAACTTCAGAGAGATAAGATT
1 AATCTGCTCCACTGCAACTTCAGAGAGATAAGATT
18344847 CGCCACGATG
Statistics
Matches: 186, Mismatches: 17, Indels: 16
0.85 0.08 0.07
Matches are distributed among these distances:
42 2 0.01
43 5 0.03
44 176 0.95
45 3 0.02
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.30
Consensus pattern (43 bp):
AATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGATCTTC
Found at i:18344743 original size:88 final size:88
Alignment explanation
Indices: 18344592--18344846 Score: 343
Period size: 88 Copynumber: 2.9 Consensus size: 88
18344582 TCGTAGATTT
** * *** * *
18344592 AATCTGTTCCACCACAACTTCAGGGAAATAAGATTTGCATCTTCAATATGCTCCACTGTAACTTC
1 AATCTGTTCCACTGCAACTTCAGGGAGATAAGATTTGTGGCTTCAATCTGCTCCACTGCAACTTC
*
18344657 AGGGAGATAAGATTTATGGGC-TC
66 AGAGAGATAAGATTTAT-GGCTTC
18344680 AATCTGTTCCACTGCAACTTCAGGGAGATAAGATTTGTGGC-TCTAATCTGCTCCACTGCAACTT
1 AATCTGTTCCACTGCAACTTCAGGGAGATAAGATTTGTGGCTTC-AATCTGCTCCACTGCAACTT
* *
18344744 TAGAGAAATAAGATTTATGGCTTC
65 CAGAGAGATAAGATTTATGGCTTC
* * * *
18344768 AATCTGCTCCACTGCAACTTTAGAGAGATAAGGTTTGTGGCTTCAATCTGCTCCACTGCAACTTC
1 AATCTGTTCCACTGCAACTTCAGGGAGATAAGATTTGTGGCTTCAATCTGCTCCACTGCAACTTC
18344833 AGAGAGATAAGATT
66 AGAGAGATAAGATT
18344847 CGCCACGATG
Statistics
Matches: 147, Mismatches: 17, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
87 5 0.03
88 140 0.95
89 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.30
Consensus pattern (88 bp):
AATCTGTTCCACTGCAACTTCAGGGAGATAAGATTTGTGGCTTCAATCTGCTCCACTGCAACTTC
AGAGAGATAAGATTTATGGCTTC
Found at i:18344787 original size:132 final size:134
Alignment explanation
Indices: 18344540--18344846 Score: 363
Period size: 132 Copynumber: 2.3 Consensus size: 134
18344530 CTCACATCTA
* * *
18344540 CAATCTGCTCCACTGTAACTTCAGGGAGATAAGATTTGTAACTCGTAGATTTAATCTGTTCCACC
1 CAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG--A-TCG-AGATCTAATCTGCTCCACC
* * *
18344605 ACAACTTCAGGGAAATAAGATTTGCATCTTCAATATGCTCCACTGTAACTTCAGGGAGATAAGAT
62 ACAACTTCAGAGAAATAAGATTT-CATCTTCAATATGCTCCACTGCAACTTCAGAGAGATAAGAT
18344670 TTATGGGC-T
126 TTAT-GGCTT
* * **
18344679 CAATCTGTTCCACTGCAACTTCAGGGAGATAAGATTTG-T-G-GCTCTAATCTGCTCCACTGCAA
1 CAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGATCGAGATCTAATCTGCTCCACCACAA
* * * * *
18344741 CTTTAGAGAAATAAGATTT-ATGGCTTCAATCTGCTCCACTGCAACTTTAGAGAGATAAGGTTTG
66 CTTCAGAGAAATAAGATTTCAT--CTTCAATATGCTCCACTGCAACTTCAGAGAGATAAGATTTA
18344805 TGGCTT
129 TGGCTT
*
18344811 CAATCTGCTCCACTGCAACTTCAGAGAGATAAGATT
1 CAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
18344847 CGCCACGATG
Statistics
Matches: 148, Mismatches: 17, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
130 2 0.01
131 3 0.02
132 105 0.71
134 1 0.01
135 1 0.01
139 36 0.24
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (134 bp):
CAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGATCGAGATCTAATCTGCTCCACCACAA
CTTCAGAGAAATAAGATTTCATCTTCAATATGCTCCACTGCAACTTCAGAGAGATAAGATTTATG
GCTT
Found at i:18352967 original size:19 final size:19
Alignment explanation
Indices: 18352951--18352995 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
18352941 TTATGAAACT
*
18352951 TAATGCATATGATGAAATG
1 TAATGCAGATGATGAAATG
*
18352970 TAATGCAGATGAATGCAATG
1 TAATGCAGATG-ATGAAATG
18352990 -AATGCA
1 TAATGCA
18352996 AAAAGAGGCG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.42, C:0.09, G:0.22, T:0.27
Consensus pattern (19 bp):
TAATGCAGATGATGAAATG
Found at i:18356797 original size:3 final size:3
Alignment explanation
Indices: 18356789--18356843 Score: 94
Period size: 3 Copynumber: 18.7 Consensus size: 3
18356779 ATAAATACAC
*
18356789 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AT ACT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
18356836 AAT AAT AA
1 AAT AAT AA
18356844 CGGAATAGAT
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
2 2 0.04
3 47 0.96
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:18356928 original size:22 final size:23
Alignment explanation
Indices: 18356900--18356945 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 23
18356890 AATAAAGAAC
*
18356900 AAATAAA-AAGGTAAA-TAAAATA
1 AAATAAATAA-GTAAACGAAAATA
18356922 AAATAAATAAGTAAACGAAAATA
1 AAATAAATAAGTAAACGAAAATA
18356945 A
1 A
18356946 TAATGGGTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 12 0.57
23 9 0.43
ACGTcount: A:0.72, C:0.02, G:0.09, T:0.17
Consensus pattern (23 bp):
AAATAAATAAGTAAACGAAAATA
Found at i:18360011 original size:2 final size:2
Alignment explanation
Indices: 18360006--18360035 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
18359996 TTTAAGTGGA
18360006 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
18360036 TAAAGAAGAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
GT
Found at i:18364780 original size:102 final size:102
Alignment explanation
Indices: 18364654--18364852 Score: 310
Period size: 102 Copynumber: 2.0 Consensus size: 102
18364644 TTAAAAGAAC
* *
18364654 GAGTTTATGTTTTAAAGCTATTTTGAACCCT-AGAAATGAAAATAAACCATTCAGTCACAGTGAA
1 GAGTTTATGTTTTAAAGCTATTTTGAACCCTGA-AAATAAAAATAAACCATTCAGTCACAGTAAA
* *
18364718 TATGTTGAGTTGTGAAGTACTAAATATTGTTTGGAAAT
65 CATGTTGAGTTGTGAAATACTAAATATTGTTTGGAAAT
* *
18364756 GAGTTTATGTTTTTAAGCTGTTTTGAACCCTGAAAATAAAAATAAACCATTCAGTCACAGTAAAC
1 GAGTTTATGTTTTAAAGCTATTTTGAACCCTGAAAATAAAAATAAACCATTCAGTCACAGTAAAC
* *
18364821 ATGTTGAGTTGTGAAATATTAAATATTTTTTG
66 ATGTTGAGTTGTGAAATACTAAATATTGTTTG
18364853 AAAAAATGGA
Statistics
Matches: 88, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
102 87 0.99
103 1 0.01
ACGTcount: A:0.36, C:0.10, G:0.17, T:0.37
Consensus pattern (102 bp):
GAGTTTATGTTTTAAAGCTATTTTGAACCCTGAAAATAAAAATAAACCATTCAGTCACAGTAAAC
ATGTTGAGTTGTGAAATACTAAATATTGTTTGGAAAT
Found at i:18364908 original size:12 final size:12
Alignment explanation
Indices: 18364890--18364919 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
18364880 GTAGGTTTCC
18364890 AAAATGGAAATG
1 AAAATGGAAATG
*
18364902 GAAATGGAAATG
1 AAAATGGAAATG
18364914 AAAATG
1 AAAATG
18364920 ATTCATTTTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.57, C:0.00, G:0.27, T:0.17
Consensus pattern (12 bp):
AAAATGGAAATG
Found at i:18368766 original size:45 final size:45
Alignment explanation
Indices: 18368715--18368800 Score: 147
Period size: 45 Copynumber: 1.9 Consensus size: 45
18368705 ATGTAATCTG
18368715 AACTCATTGAGTTGTGGTCTGAGTTCA-TGATATATGTGACATCCA
1 AACTCATTGAGTTGTGGTCTGAGTT-AGTGATATATGTGACATCCA
*
18368760 AACTCATTGAGTTGTGGTCTGAGTTAGTTATATATGTGACA
1 AACTCATTGAGTTGTGGTCTGAGTTAGTGATATATGTGACA
18368801 CTTGTTTTGG
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
44 1 0.03
45 38 0.97
ACGTcount: A:0.27, C:0.13, G:0.23, T:0.37
Consensus pattern (45 bp):
AACTCATTGAGTTGTGGTCTGAGTTAGTGATATATGTGACATCCA
Found at i:18379236 original size:13 final size:13
Alignment explanation
Indices: 18379218--18379248 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
18379208 GCCCATGGGT
18379218 GTGTGATCTAGCC
1 GTGTGATCTAGCC
*
18379231 GTGTGATCTGGCC
1 GTGTGATCTAGCC
18379244 GTGTG
1 GTGTG
18379249 TCCTCTACAC
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:0.10, C:0.19, G:0.39, T:0.32
Consensus pattern (13 bp):
GTGTGATCTAGCC
Found at i:18383537 original size:25 final size:25
Alignment explanation
Indices: 18383509--18383557 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
18383499 TCCTAAAATG
18383509 ATAATTTTTAGTCTACGAAATCCAT
1 ATAATTTTTAGTCTACGAAATCCAT
18383534 ATAATTTTTAGTCTACGAAATCCA
1 ATAATTTTTAGTCTACGAAATCCA
18383558 AGAATGTAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.37, C:0.16, G:0.08, T:0.39
Consensus pattern (25 bp):
ATAATTTTTAGTCTACGAAATCCAT
Found at i:18386154 original size:44 final size:44
Alignment explanation
Indices: 18386064--18386198 Score: 107
Period size: 44 Copynumber: 3.1 Consensus size: 44
18386054 TCTTTTCCAA
* * * *
18386064 GTAGCTTC-ATTCTAAC-CCACTGCAACTTCA-GGGGTATAGGAATT
1 GTAGCTTCAATT-T-ACTCCACTACAACTTCATGGAG-ATAAGACTT
* * ** *
18386108 GTAGTTTTAATTTACTCCGTTGCAACTTC-TGGAAGATAAGACTT
1 GTAGCTTCAATTTACTCCACTACAACTTCATGG-AGATAAGACTT
* *
18386152 GTAGCTTCAATTTGCTCCACTACAACTTCATGGAGATAAGATTT
1 GTAGCTTCAATTTACTCCACTACAACTTCATGGAGATAAGACTT
18386196 GTA
1 GTA
18386199 ACTTGTAGCT
Statistics
Matches: 72, Mismatches: 14, Indels: 10
0.75 0.15 0.10
Matches are distributed among these distances:
43 2 0.03
44 63 0.88
45 7 0.10
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (44 bp):
GTAGCTTCAATTTACTCCACTACAACTTCATGGAGATAAGACTT
Found at i:18386415 original size:45 final size:44
Alignment explanation
Indices: 18386292--18386520 Score: 244
Period size: 44 Copynumber: 5.2 Consensus size: 44
18386282 GAAGGTATAG
* * * * **
18386292 GATTTGTCGCGTCAGTCTGCTCTACTGTAACTTCAACAAGATAA
1 GATTTGTAGCTTCAATCTGCTCTACTGCAACTTCAAGGAGATAA
* *
18386336 GATTTGTAGCTTCAATCTGCTCCACTACAACTTCAAGGAGATAA
1 GATTTGTAGCTTCAATCTGCTCTACTGCAACTTCAAGGAGATAA
* * * * * *
18386380 GATTTGCTATCTTTAGTCTGTTCCACTGCAACTTCAGGGAGATAA
1 GATTTG-TAGCTTCAATCTGCTCTACTGCAACTTCAAGGAGATAA
*
18386425 GATTTGTAGCTTCAATCTGTTCTACTGCAACTTCATA-GAGATAA
1 GATTTGTAGCTTCAATCTGCTCTACTGCAACTTCA-AGGAGATAA
* ** * *
18386469 GATTCGCTATTTTCAATCTGCTCTTCTGCAACTTAAAGGAGATAA
1 GATTTG-TAGCTTCAATCTGCTCTACTGCAACTTCAAGGAGATAA
18386514 GATTTGT
1 GATTTGT
18386521 TACGGTGACT
Statistics
Matches: 155, Mismatches: 26, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
44 81 0.52
45 74 0.48
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.34
Consensus pattern (44 bp):
GATTTGTAGCTTCAATCTGCTCTACTGCAACTTCAAGGAGATAA
Found at i:18386423 original size:89 final size:89
Alignment explanation
Indices: 18386307--18386520 Score: 261
Period size: 89 Copynumber: 2.4 Consensus size: 89
18386297 GTCGCGTCAG
* * * **
18386307 TCTGCTCTACTGTAACTTCAACAAGATAAGATTTGTAGCTTCAATCTGCTCCACTACAACTTCA-
1 TCTGCTCCACTGCAACTTAAAGGAGATAAGATTTGTAGCTTCAATCTGCTCCACTACAACTTCAT
* *
18386371 AGGAGATAAGATTTGCTATCTTT-AG
66 A-GAGATAAGATTCGCTAT-TTTCAA
* * * * * *
18386396 TCTGTTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGTTCTACTGCAACTTCAT
1 TCTGCTCCACTGCAACTTAAAGGAGATAAGATTTGTAGCTTCAATCTGCTCCACTACAACTTCAT
18386461 AGAGATAAGATTCGCTATTTTCAA
66 AGAGATAAGATTCGCTATTTTCAA
**
18386485 TCTGCTCTTCTGCAACTTAAAGGAGATAAGATTTGT
1 TCTGCTCCACTGCAACTTAAAGGAGATAAGATTTGT
18386521 TACGGTGACT
Statistics
Matches: 107, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
88 3 0.03
89 103 0.96
90 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.16, T:0.35
Consensus pattern (89 bp):
TCTGCTCCACTGCAACTTAAAGGAGATAAGATTTGTAGCTTCAATCTGCTCCACTACAACTTCAT
AGAGATAAGATTCGCTATTTTCAA
Found at i:18387609 original size:29 final size:31
Alignment explanation
Indices: 18387573--18387635 Score: 87
Period size: 29 Copynumber: 2.1 Consensus size: 31
18387563 AAATGTGTAT
*
18387573 TTATTTATT-TGATAGATGAAAT-T-GAGATA
1 TTATTTATTATAATAGAT-AAATGTGGAGATA
18387602 TTATTTATTATAATAGATAAATGTGGAGATA
1 TTATTTATTATAATAGATAAATGTGGAGATA
18387633 TTA
1 TTA
18387636 AATTTAATGT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
29 13 0.43
30 8 0.27
31 9 0.30
ACGTcount: A:0.40, C:0.00, G:0.16, T:0.44
Consensus pattern (31 bp):
TTATTTATTATAATAGATAAATGTGGAGATA
Found at i:18391031 original size:25 final size:26
Alignment explanation
Indices: 18390994--18391045 Score: 61
Period size: 25 Copynumber: 2.0 Consensus size: 26
18390984 TGAAATGGGT
*
18390994 AACATTAAATGGATAAATGGA-ATGA
1 AACATTAAATGGAGAAATGGATATGA
* * *
18391019 AACATTGAGTGGAGAAATTGATATGA
1 AACATTAAATGGAGAAATGGATATGA
18391045 A
1 A
18391046 TTATTAGAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.48, C:0.04, G:0.23, T:0.25
Consensus pattern (26 bp):
AACATTAAATGGAGAAATGGATATGA
Found at i:18391117 original size:13 final size:13
Alignment explanation
Indices: 18391099--18391124 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
18391089 TGTATAATAC
18391099 GAAATGGTTATAT
1 GAAATGGTTATAT
18391112 GAAATGGTTATAT
1 GAAATGGTTATAT
18391125 AAAGTAGATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.23, T:0.38
Consensus pattern (13 bp):
GAAATGGTTATAT
Found at i:18391243 original size:13 final size:13
Alignment explanation
Indices: 18391225--18391249 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18391215 GTAAAAAGGG
18391225 ACATTTGAAATGA
1 ACATTTGAAATGA
18391238 ACATTTGAAATG
1 ACATTTGAAATG
18391250 CTAAATGAAT
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:0.44, C:0.08, G:0.16, T:0.32
Consensus pattern (13 bp):
ACATTTGAAATGA
Found at i:18396391 original size:27 final size:27
Alignment explanation
Indices: 18396350--18396489 Score: 183
Period size: 27 Copynumber: 5.2 Consensus size: 27
18396340 GAGGAAGCGT
*
18396350 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
18396377 TCTGGTGGCTCTGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
18396404 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
18396431 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
18396459 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
18396485 TCTGG
1 TCTGG
18396490 CAGCCATGCT
Statistics
Matches: 102, Mismatches: 10, Indels: 3
0.89 0.09 0.03
Matches are distributed among these distances:
26 5 0.05
27 82 0.80
28 15 0.15
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:18396435 original size:54 final size:55
Alignment explanation
Indices: 18396350--18396489 Score: 203
Period size: 54 Copynumber: 2.6 Consensus size: 55
18396340 GAGGAAGCGT
* * *
18396350 TCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACAAATATCTG-A
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
* *
18396404 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
* *
18396459 TCTGGTGACTCTGTCACAT-TATCTGTTCTGG
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGG
18396490 CAGCCATGCT
Statistics
Matches: 78, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
54 60 0.77
55 18 0.23
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (55 bp):
TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
Found at i:18396575 original size:19 final size:22
Alignment explanation
Indices: 18396551--18396590 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 22
18396541 CTCTTCACAC
18396551 GGTGTA-A-GGTTGG-TATGGG
1 GGTGTATACGGTTGGATATGGG
18396570 GGTGTATACGGTTGGATATGG
1 GGTGTATACGGTTGGATATGG
18396591 TTGGGTTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 1 0.06
21 6 0.33
22 5 0.28
ACGTcount: A:0.17, C:0.03, G:0.47, T:0.33
Consensus pattern (22 bp):
GGTGTATACGGTTGGATATGGG
Found at i:18398062 original size:21 final size:22
Alignment explanation
Indices: 18398029--18398071 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
18398019 ATGCCTCTTT
* *
18398029 TATGACAAGTCTA-TGATATGG
1 TATGAAAACTCTAGTGATATGG
*
18398050 TATGAAAACTCTAGTGTTATGG
1 TATGAAAACTCTAGTGATATGG
18398072 CAGTTTCATC
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.33, C:0.09, G:0.23, T:0.35
Consensus pattern (22 bp):
TATGAAAACTCTAGTGATATGG
Found at i:18398680 original size:21 final size:21
Alignment explanation
Indices: 18398650--18398689 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
18398640 ACCTTTTCTA
* *
18398650 AAGTTCAAAGTCAAAACCATT
1 AAGTTAAAAGGCAAAACCATT
18398671 AAGTTAAAAGGCAAAACCA
1 AAGTTAAAAGGCAAAACCA
18398690 CTTCATTTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.53, C:0.17, G:0.12, T:0.17
Consensus pattern (21 bp):
AAGTTAAAAGGCAAAACCATT
Found at i:18402974 original size:21 final size:21
Alignment explanation
Indices: 18402950--18403005 Score: 52
Period size: 18 Copynumber: 3.0 Consensus size: 21
18402940 TTTTTATGAA
18402950 ATTAATAAATAATTATTATTT
1 ATTAATAAATAATTATTATTT
*
18402971 ATT-A-AAATTA-TATTATTT
1 ATTAATAAATAATTATTATTT
*
18402989 -TAAAT-AATAATT-TTATT
1 ATTAATAAATAATTATTATT
18403006 AATGAAAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 9
0.71 0.07 0.22
Matches are distributed among these distances:
17 1 0.03
18 18 0.62
19 6 0.21
20 1 0.03
21 3 0.10
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
ATTAATAAATAATTATTATTT
Found at i:18404585 original size:21 final size:21
Alignment explanation
Indices: 18404561--18404610 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
18404551 GAGCAACTAC
*
18404561 AAACATTTAACATTCAAATCA-
1 AAACATTTAACATGCAAA-CAT
* *
18404582 AAACATATCACATGCAAACAT
1 AAACATTTAACATGCAAACAT
18404603 AAACATTT
1 AAACATTT
18404611 CAAACCATAG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
20 2 0.08
21 22 0.92
ACGTcount: A:0.52, C:0.20, G:0.02, T:0.26
Consensus pattern (21 bp):
AAACATTTAACATGCAAACAT
Found at i:18412439 original size:94 final size:94
Alignment explanation
Indices: 18412302--18412474 Score: 251
Period size: 94 Copynumber: 1.8 Consensus size: 94
18412292 TATGTCTGCT
* * *
18412302 AGTGTAAGACATGTTTGGGACATGCATCAGCCACAGCATGAGAGCCAGTGTAAGATATGTCTGGG
1 AGTGTAAGACATGTTTGGGACATACATCAGCCACAGCACGAGAGCCAGTGTAAGACATGTCTGGG
*
18412367 ACATGTATCGGCCTCGAGATATTTAAGCC
66 ACATGCATCGGCCTCGAGATATTTAAGCC
* * *
18412396 AGTGTAAGACATGTTTGGGACATACATC-GGCATTGAG-ACGAGAGCTAGTGTAAGACATGTCTG
1 AGTGTAAGACATGTTTGGGACATACATCAGCCA--CAGCACGAGAGCCAGTGTAAGACATGTCTG
18412459 GGACATGCATCGGCCT
64 GGACATGCATCGGCCT
18412475 TGCGATATAC
Statistics
Matches: 70, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
93 3 0.04
94 65 0.93
95 2 0.03
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.24
Consensus pattern (94 bp):
AGTGTAAGACATGTTTGGGACATACATCAGCCACAGCACGAGAGCCAGTGTAAGACATGTCTGGG
ACATGCATCGGCCTCGAGATATTTAAGCC
Found at i:18412482 original size:94 final size:94
Alignment explanation
Indices: 18412302--18412496 Score: 250
Period size: 94 Copynumber: 2.1 Consensus size: 94
18412292 TATGTCTGCT
* * *
18412302 AGTGTAAGACATGTTTGGGACATGCATCAGCCACAGCATGAGAGCCAGTGTAAGATATGTCTGGG
1 AGTGTAAGACATGTTTGGGACATACATCAGCCACAGCACGAGAGCCAGTGTAAGACATGTCTGGG
* **
18412367 ACATGTATCGGCCTCGAGATATTTAAGCC
66 ACATGCATCGGCCTCGAGATATACAAGCC
* * *
18412396 AGTGTAAGACATGTTTGGGACATACATC-GGCATTGAG-ACGAGAGCTAGTGTAAGACATGTCTG
1 AGTGTAAGACATGTTTGGGACATACATCAGCCA--CAGCACGAGAGCCAGTGTAAGACATGTCTG
* * *
18412459 GGACATGCATCGGCCTTGCGATATACAAGCT
64 GGACATGCATCGGCCTCGAGATATACAAGCC
18412490 AGTGTAA
1 AGTGTAA
18412497 AACCTGTCTG
Statistics
Matches: 87, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
93 3 0.03
94 82 0.94
95 2 0.02
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.25
Consensus pattern (94 bp):
AGTGTAAGACATGTTTGGGACATACATCAGCCACAGCACGAGAGCCAGTGTAAGACATGTCTGGG
ACATGCATCGGCCTCGAGATATACAAGCC
Found at i:18412588 original size:49 final size:49
Alignment explanation
Indices: 18412302--18412655 Score: 197
Period size: 46 Copynumber: 7.5 Consensus size: 49
18412292 TATGTCTGCT
* * * *
18412302 AGTGTAAGACATGTTTGGGACAT-GCATC-AGC-C-ACAGCATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCGACCTCGATAG-ATGAAAGCC
* * * * * **
18412348 AGTGTAAGATATGTCTGGGACAT-GTATCGGCCTCGAGATATTTAAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCGACCTCGATAGATGAAAGCC
* * * * * * * *
18412396 AGTGTAAGACATGTTTGGGACAT-ACATCGGCATTG--AGACGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGGCATCGACCTCGATAGATGAAAGCC
* *
18412442 AGTGTAAGACATGTCTGGGACAT-GCATCGGCCTTGCGAT--AT-ACAAGCT
1 AGTGTAAGACATGTCTGGGACATGGCATCGACC-T-CGATAGATGA-AAGCC
* * ** * * * * *
18412490 AGTGTAAAACCTGTCT-GGACATGGTGTC-AGCTTG-T-GGTG--TGTC
1 AGTGTAAGACATGTCTGGGACATGGCATCGACCTCGATAGATGAAAGCC
* *
18412533 AGTGTAAGACTTGTCTGGGACATGGCATCGACAC-CGATAGATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCGAC-CTCGATAGATGAAAGCC
* * * *
18412582 AGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGCTATATGAAAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCGACCTCGATAGATGAAAGCC
18412631 AGTGTAAGAACATGTCTGGGACATG
1 AGTGTAAG-ACATGTCTGGGACATG
18412656 ATGTCGGTAT
Statistics
Matches: 234, Mismatches: 54, Indels: 36
0.72 0.17 0.11
Matches are distributed among these distances:
43 15 0.06
44 11 0.05
45 4 0.02
46 62 0.26
47 13 0.06
48 60 0.26
49 54 0.23
50 15 0.06
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (49 bp):
AGTGTAAGACATGTCTGGGACATGGCATCGACCTCGATAGATGAAAGCC
Found at i:18424009 original size:16 final size:18
Alignment explanation
Indices: 18423988--18424024 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
18423978 AGTCTCTAGT
*
18423988 AGTTT-ACTATAGT-TTC
1 AGTTTAACTACAGTCTTC
18424004 AGTTTAACTACAGTCTTC
1 AGTTTAACTACAGTCTTC
18424022 AGT
1 AGT
18424025 ATATACTAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 5 0.28
17 7 0.39
18 6 0.33
ACGTcount: A:0.27, C:0.16, G:0.14, T:0.43
Consensus pattern (18 bp):
AGTTTAACTACAGTCTTC
Found at i:18449555 original size:46 final size:46
Alignment explanation
Indices: 18449505--18449680 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
18449495 TGGTTGAGCA
18449505 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
18449551 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
18449596 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
18449644 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
18449681 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:18449661 original size:93 final size:93
Alignment explanation
Indices: 18449502--18449673 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
18449492 GGATGGTTGA
* *
18449502 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
18449567 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
18449595 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
18449660 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
18449674 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:18457131 original size:46 final size:46
Alignment explanation
Indices: 18457081--18457256 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
18457071 TGGTTGAGCA
18457081 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
18457127 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
18457172 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
18457220 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
18457257 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:18457237 original size:93 final size:93
Alignment explanation
Indices: 18457078--18457249 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
18457068 GGATGGTTGA
* *
18457078 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
18457143 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
18457171 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
18457236 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
18457250 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:18464050 original size:133 final size:132
Alignment explanation
Indices: 18463810--18464530 Score: 605
Period size: 133 Copynumber: 5.4 Consensus size: 132
18463800 CATCATGGCG
* * *
18463810 AATCTTATCT-CCTCGAAGTTGCAATGGAGCAAATTGAAGATAGCAAATCTTATCTCTTTGAAGT
1 AATCTTATCTCCCT-GAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATCTCTCTGAAGT
* * * * *
18463874 TGCAGTAGAGCAAATTAAAGCAATAAA-CATTATCTCCCTGAAGTTGCAGTGGAGTATGTTGAAG
65 TGCAGTAGAGCAGATTGAAGCTATAAATC-TTATCTCTCTGAAGTTGCAGTGGAGCA-GTTGAAG
18463938 TTACA
128 TTACA
* *
18463943 AATCTCATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATTTTATCTCTCTGAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATCTCTCTGAAGTT
* * * * **
18464008 GCAGTAGAGTAGATTAAAGCTATAAACCTTATCTCTCAGAAGTTGCAGTGGAAAAGGTTGAAGTT
66 GCAGTAGAGCAGATTGAAGCTATAAATCTTATCTCTCTGAAGTTGCAGTGGAGCA-GTTGAAGTT
18464073 ACA
130 ACA
** * * * * * **
18464076 GGTCTTACCTCCATAAAGATGCAGTGGAGTAGATTGAAGA-ACGTGAATCTTATCT-TCTTGAAG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA-GCAAATCTTATCTCTC-TGAAG
* * * * * ** * * * * * *
18464139 CTGCAGTGGAGAAAATTGAAGATAGCGAATCTTATTTATTTGAAGTTGCAGTGGAACAAATTAAA
64 TTGCAGTAGAGCAGATTGAAGCTA-TAAATCTTATCTCTCTGAAGTTGCAGTGGAGC-AGTTGAA
*
18464204 GATACA
127 GTTACA
* * * * ** * *
18464210 AGTCTAATCTCCCTGAAGTTACAGTGGAGTAGATTGAAGCCA-CAAATCCTATAC-CCCTGAAGT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTAT-CTCTCTGAAGT
* * * * * * * * *
18464273 TACAGTGGAACAGATTGAAGCCACT-GATTTTATCT-TGCTAAAATTGCAGTGGAGTAGATT-AA
65 TGCAGTAGAGCAGATTGAAGCTA-TAAATCTTATCTCT-CTGAAGTTGCAGTGGAGCAG-TTGAA
* * *
18464335 ATCCACT
127 GT-TACA
* * * * *
18464342 AATCTTATCTCCCTGAAATTGCAGTAGAGAAGATTGAAGATAGCAAATCGTATCTCTCTGTAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATCTCTCTGAAGTT
* * * * *
18464407 GCAGTAGAGTAGATTGAAGATATCAAATCTTATCTCTCTGATGTTGTAGTAGAGCAGATTGAAGT
66 GCAGTAGAGCAGATTGAAGCTAT-AAATCTTATCTCTCTGAAGTTGCAGTGGAGCAG-TTGAAGT
18464472 TACA
129 TACA
* *
18464476 AATCTTATCTCCGTGAAGTTGCAGTGAAGCAGATTGAAGATAGCAAATCTTATCT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATCT
18464531 GTAACAGTTT
Statistics
Matches: 461, Mismatches: 109, Indels: 35
0.76 0.18 0.06
Matches are distributed among these distances:
131 4 0.01
132 63 0.14
133 241 0.52
134 147 0.32
135 6 0.01
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.30
Consensus pattern (132 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATCTCTCTGAAGTT
GCAGTAGAGCAGATTGAAGCTATAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGTTGAAGTTA
CA
Found at i:18464419 original size:311 final size:310
Alignment explanation
Indices: 18463809--18464426 Score: 705
Period size: 311 Copynumber: 2.0 Consensus size: 310
18463799 ACATCATGGC
* * *
18463809 GAATCTTATCTCCTCGAAGTTGCAATGGAGCAAATTGAAGATAGCAAATCTTATCTCTTTGAAGT
1 GAATCTTATCTCCTCGAAGCTGCAATGGAGAAAATTGAAGATAGCAAATCTTATCTATTTGAAGT
* * * *
18463874 TGCAGTAGAGCAAATTAAAGCAATAAACATTATCTCCCTGAAGTTGCAGTGGAGTATGTTGAAGT
66 TGCAGTAGAACAAATTAAAG-AATAAACATAATCTCCCTGAAGTTACAGTGGAGTATGTTGAAGC
* * * * *
18463939 TACAAATCTCATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATTTTATCTCTCTGA
130 CACAAATCTCATCTCCCTGAAGTTACAGTGGAACAGATTGAAGACAGCAAATTTTATCTCTCTAA
* * * * * *
18464004 AGTTGCAGTAGAGTAGATTAAAGCTATAAACCTTATCTCTCAGAAGTTGCAGTGGAAAAGGTTGA
195 AATTGCAGTAGAGTAGATTAAAGCCATAAACCTTATCTCCCAGAAATTGCAGTAGAAAAGATTGA
* ** * *
18464069 AGTTACAGGTCTTACCTCCATAAAGATGCAGTGGAGTAGATTGAAGAACGT
260 AGATACAAATCGTACCTCCATAAAGATGCAGTAGAGTAGATTGAAGAACGT
* * * * *
18464120 GAATCTTATCTTCTTGAAGCTGCAGTGGAGAAAATTGAAGATAGCGAATCTTATTTATTTGAAGT
1 GAATCTTATCTCCTCGAAGCTGCAATGGAGAAAATTGAAGATAGCAAATCTTATCTATTTGAAGT
*
18464185 TGCAGTGGAACAAATTAAAG-ATACAAGTC-TAATCTCCCTGAAGTTACAGTGGAGTA-GATTGA
66 TGCAGTAGAACAAATTAAAGAATA-AA--CATAATCTCCCTGAAGTTACAGTGGAGTATG-TTGA
* **
18464247 AGCCACAAATC-CTATAC-CCCTGAAGTTACAGTGGAACAGATTGAAGCCA-CTGATTTTATCT-
127 AGCCACAAATCTC-AT-CTCCCTGAAGTTACAGTGGAACAGATTGAAGACAGCAAATTTTATCTC
* * * * *
18464308 TGCTAAAATTGCAGTGGAGTAGATTAAATCCACT-AATCTTATCTCCCTGAAATTGCAGTAGAGA
190 T-CTAAAATTGCAGTAGAGTAGATTAAAGCCA-TAAACCTTATCTCCCAGAAATTGCAGTAGAAA
* ** *
18464372 AGATTGAAGATAGCAAATCGTATCTCTC-TGTAGTTGCAGTAGAGTAGATTGAAGA
253 AGATTGAAGATA-CAAATCGTACCTC-CATAAAGATGCAGTAGAGTAGATTGAAGA
18464427 TATCAAATCT
Statistics
Matches: 256, Mismatches: 41, Indels: 20
0.81 0.13 0.06
Matches are distributed among these distances:
309 4 0.02
310 73 0.29
311 176 0.69
312 3 0.01
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (310 bp):
GAATCTTATCTCCTCGAAGCTGCAATGGAGAAAATTGAAGATAGCAAATCTTATCTATTTGAAGT
TGCAGTAGAACAAATTAAAGAATAAACATAATCTCCCTGAAGTTACAGTGGAGTATGTTGAAGCC
ACAAATCTCATCTCCCTGAAGTTACAGTGGAACAGATTGAAGACAGCAAATTTTATCTCTCTAAA
ATTGCAGTAGAGTAGATTAAAGCCATAAACCTTATCTCCCAGAAATTGCAGTAGAAAAGATTGAA
GATACAAATCGTACCTCCATAAAGATGCAGTAGAGTAGATTGAAGAACGT
Found at i:18464458 original size:40 final size:42
Alignment explanation
Indices: 18464372--18464530 Score: 126
Period size: 45 Copynumber: 3.6 Consensus size: 42
18464362 GCAGTAGAGA
18464372 AGATTGAAGATAGCAAATCGTATCTCTCTGTAGTTGCAGTAGAGT
1 AGATTGAAGATAGCAAATCGTATCTCTCTGTAGTT--AGTA-AGT
* * *
18464417 AGATTGAAGATATCAAATCTTATCTCTCTG-ATGTTGTAGTAGAGC
1 AGATTGAAGATAGCAAATCGTATCTCTCTGTA-G-T-TAGTA-AGT
* * * *
18464462 AGATTGAAGTTA-CAAATCTTATCTC-CGTGAAGTTGCAGTGAAGC
1 AGATTGAAGATAGCAAATCGTATCTCTC-TGTAGTT--AGT-AAGT
*
18464506 AGATTGAAGATAGCAAATCTTATCT
1 AGATTGAAGATAGCAAATCGTATCT
18464531 GTAACAGTTT
Statistics
Matches: 100, Mismatches: 5, Indels: 18
0.81 0.04 0.15
Matches are distributed among these distances:
42 1 0.01
43 2 0.02
44 34 0.34
45 61 0.61
46 1 0.01
47 1 0.01
ACGTcount: A:0.33, C:0.14, G:0.21, T:0.32
Consensus pattern (42 bp):
AGATTGAAGATAGCAAATCGTATCTCTCTGTAGTTAGTAAGT
Found at i:18464511 original size:44 final size:43
Alignment explanation
Indices: 18463810--18464530 Score: 381
Period size: 44 Copynumber: 16.2 Consensus size: 43
18463800 CATCATGGCG
* * *
18463810 AATCTTATCTCCTCGAAGTTGCAATGGAGCAAATTGAAGATAGCA
1 AATCTTATCTCCT-GAAGTTGCAGTGAAGCAGATTGAAGATA-CA
* * * *
18463855 AATCTTATCTCTTTGAAGTTGCAGT-AGAGCAAATTAAAGCA-ATA
1 AATCTTATCTC-CTGAAGTTGCAGTGA-AGCAGATTGAAG-ATACA
* * *
18463899 AA-CATTATCTCCCTGAAGTTGCAGTGGAGTATG-TTGAAGTTACA
1 AATC-TTATCT-CCTGAAGTTGCAGTGAAGCA-GATTGAAGATACA
* *
18463943 AATCTCATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCA
1 AATCTTATCT-CCTGAAGTTGCAGTGAAGCAGATTGAAGATA-CA
* * * * *
18463988 AATTTTATCTCTCTGAAGTTGCAGT-AGAGTAGATTAAAGCTATA
1 AATCTTATCTC-CTGAAGTTGCAGTGA-AGCAGATTGAAGATACA
* * * * *
18464032 AACCTTATCTCTCAGAAGTTGCAGTGGAA-AAGGTTGAAGTTACA
1 AATCTTATCTC-CTGAAGTTGCAGT-GAAGCAGATTGAAGATACA
** * * * * * *
18464076 GGTCTTACCTCCATAAAGATGCAGTGGAGTAGATTGAAGA-ACGTG
1 AATCTTATCTCC-TGAAGTTGCAGTGAAGCAGATTGAAGATAC--A
* * * * * *
18464121 AATCTTATCTTCTTGAAGCTGCAGTGGAGAAAATTGAAGATAGCG
1 AATCTTATC-TCCTGAAGTTGCAGTGAAGCAGATTGAAGATA-CA
* ** * *
18464166 AATCTTATTTATTTGAAGTTGCAGTGGAA-CAAATTAAAGATACA
1 AATCTTATCT-CCTGAAGTTGCAGT-GAAGCAGATTGAAGATACA
* * * * * **
18464210 AGTCTAATCTCCCTGAAGTTACAGTGGAGTAGATTGAAGCCACA
1 AATCTTATCT-CCTGAAGTTGCAGTGAAGCAGATTGAAGATACA
* * * ** *
18464254 AATCCTATACCCCTGAAGTTACAGTGGAA-CAGATTGAAGCCACT
1 AATCTTAT-CTCCTGAAGTTGCAGT-GAAGCAGATTGAAGATACA
* * * * * * * *
18464298 GATTTTATCTTGCTAAAATTGCAGTGGAGTAGATT-AA-ATCCACT
1 AATCTTATC-TCCTGAAGTTGCAGTGAAGCAGATTGAAGAT--ACA
* *
18464342 AATCTTATCTCCCTGAAATTGCAGT-AGAGAAGATTGAAGATAGCA
1 AATCTTATCT-CCTGAAGTTGCAGTGA-AGCAGATTGAAGATA-CA
* * *
18464387 AATCGTATCTCTCTGTAGTTGCAGT-AGAGTAGATTGAAGATATCA
1 AATCTTATCTC-CTGAAGTTGCAGTGA-AGCAGATTGAAGATA-CA
* * *
18464432 AATCTTATCTCTCTGATGTTGTAGT-AGAGCAGATTGAAGTTACA
1 AATCTTATCTC-CTGAAGTTGCAGTGA-AGCAGATTGAAGATACA
18464476 AATCTTATCTCCGTGAAGTTGCAGTGAAGCAGATTGAAGATAGCA
1 AATCTTATCTCC-TGAAGTTGCAGTGAAGCAGATTGAAGATA-CA
18464521 AATCTTATCT
1 AATCTTATCT
18464531 GTAACAGTTT
Statistics
Matches: 526, Mismatches: 110, Indels: 80
0.73 0.15 0.11
Matches are distributed among these distances:
43 16 0.03
44 274 0.52
45 225 0.43
46 10 0.02
47 1 0.00
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.30
Consensus pattern (43 bp):
AATCTTATCTCCTGAAGTTGCAGTGAAGCAGATTGAAGATACA
Found at i:18465828 original size:46 final size:46
Alignment explanation
Indices: 18465746--18465856 Score: 118
Period size: 46 Copynumber: 2.4 Consensus size: 46
18465736 GAGCCAATGC
* * *
18465746 AAGACATGTCTGGCACATGCATCGGCCACATCACGAGTGCCAGTGT
1 AAGACATGTCTGGGACATGCATCGGCCACATCACGAGAGCCAGTAT
* * *
18465792 AAGACATGTCTGGGACATGCATCGG-CA-TTGAGACGAGAGCTAGTAT
1 AAGACATGTCTGGGACATGCATCGGCCACAT--CACGAGAGCCAGTAT
* *
18465838 AAGCCATGTTTGGGACATG
1 AAGACATGTCTGGGACATG
18465857 AATCAGCCTC
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
44 1 0.02
45 2 0.04
46 52 0.95
ACGTcount: A:0.28, C:0.22, G:0.29, T:0.22
Consensus pattern (46 bp):
AAGACATGTCTGGGACATGCATCGGCCACATCACGAGAGCCAGTAT
Found at i:18467579 original size:30 final size:30
Alignment explanation
Indices: 18467543--18467600 Score: 116
Period size: 30 Copynumber: 1.9 Consensus size: 30
18467533 TTAGTAATGC
18467543 TTTGTAATCCATCTCGGTGTAGGGCACGGG
1 TTTGTAATCCATCTCGGTGTAGGGCACGGG
18467573 TTTGTAATCCATCTCGGTGTAGGGCACG
1 TTTGTAATCCATCTCGGTGTAGGGCACG
18467601 AGTGTGGGGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.17, C:0.21, G:0.31, T:0.31
Consensus pattern (30 bp):
TTTGTAATCCATCTCGGTGTAGGGCACGGG
Found at i:18485182 original size:10 final size:10
Alignment explanation
Indices: 18485167--18485192 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
18485157 GAACACGAGT
18485167 AGATCATGAG
1 AGATCATGAG
18485177 AGATCATGAG
1 AGATCATGAG
18485187 AGATCA
1 AGATCA
18485193 ATACTCGAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.42, C:0.12, G:0.27, T:0.19
Consensus pattern (10 bp):
AGATCATGAG
Found at i:18486672 original size:49 final size:46
Alignment explanation
Indices: 18486471--18486733 Score: 137
Period size: 48 Copynumber: 5.6 Consensus size: 46
18486461 TGAGCCAGTT
* * * *
18486471 TAAGACATGTTTGGGACAT-GCATTGGCC-ATATCATG-AGTGGCAGTG
1 TAAGACCTGTCTGGGACATGGCATCGGCCTATAT-ATGAAGT--TAGTG
* *
18486517 TAAGACATGTCTGGGACAT-GCATCGGCCTTGGGATATAT-AAGCTAGTG
1 TAAGACCTGTCTGGGACATGGCATCGGCC-T---ATATATGAAGTTAGTG
* ** * * * * *
18486565 TAAGACCTGTCTGGGACATGGCGTTAGCTTGT-TGTG-TGTCAGTG
1 TAAGACCTGTCTGGGACATGGCATCGGCCTATATATGAAGTTAGTG
* *
18486609 TAATACCTTTCTGGGACATGGCATCGGCCTCAATATATGAAAGTTAGTG
1 TAAGACCTGTCTGGGACATGGCATCGGCCT--ATATATG-AAGTTAGTG
* ** * * * *
18486658 TAAGACCTGTCTGGGACACGGCATC-AACTTTAATGTGCTAGCTAGTG
1 TAAGACCTGTCTGGGACATGGCATCGGCCTAT-ATATG-AAGTTAGTG
*
18486705 TAAGACCATGTCTGGGACATGGCGTCGGC
1 TAAGACC-TGTCTGGGACATGGCATCGGC
18486734 ATTTTATCCC
Statistics
Matches: 163, Mismatches: 38, Indels: 29
0.71 0.17 0.13
Matches are distributed among these distances:
44 31 0.19
45 1 0.01
46 28 0.17
47 21 0.13
48 41 0.25
49 33 0.20
50 4 0.02
51 4 0.02
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (46 bp):
TAAGACCTGTCTGGGACATGGCATCGGCCTATATATGAAGTTAGTG
Found at i:18488488 original size:4 final size:4
Alignment explanation
Indices: 18488479--18488521 Score: 61
Period size: 4 Copynumber: 11.0 Consensus size: 4
18488469 AATTGAGTCC
* *
18488479 TTTA TTTA TTTA TTTA TTTA TTTA CTTA TTTA TTAA TTT- TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
18488522 CTATTTTTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
3 3 0.09
4 31 0.91
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (4 bp):
TTTA
Found at i:18488594 original size:15 final size:15
Alignment explanation
Indices: 18488574--18488610 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
18488564 TTATTGTGCC
18488574 TTTTTTACTTTTATT
1 TTTTTTACTTTTATT
*
18488589 TTTTTTATTTTTATT
1 TTTTTTACTTTTATT
18488604 TTCTTTT
1 TT-TTTT
18488611 TATGCCTTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 16 0.80
16 4 0.20
ACGTcount: A:0.11, C:0.05, G:0.00, T:0.84
Consensus pattern (15 bp):
TTTTTTACTTTTATT
Found at i:18490313 original size:38 final size:38
Alignment explanation
Indices: 18490254--18490330 Score: 95
Period size: 38 Copynumber: 2.0 Consensus size: 38
18490244 TGCAAGAATA
*
18490254 TAAAAAAATTTAAATTATTAAA-AATATAGTAAAATTTG
1 TAAAAAAATTTAAATTATTAAATAAT-TAGTAAAAATTG
* *
18490292 TAAAAAAA-TTAAATATTTTAAATAATTATTAAAAATTG
1 TAAAAAAATTTAAAT-TATTAAATAATTAGTAAAAATTG
18490330 T
1 T
18490331 TTAAAATATT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
37 6 0.18
38 25 0.74
39 3 0.09
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (38 bp):
TAAAAAAATTTAAATTATTAAATAATTAGTAAAAATTG
Found at i:18490324 original size:20 final size:18
Alignment explanation
Indices: 18490265--18490443 Score: 105
Period size: 20 Copynumber: 9.2 Consensus size: 18
18490255 AAAAAAATTT
*
18490265 AAATTATTAAAAATATAGTA
1 AAATT-TTAAAAAT-TATTA
*
18490285 AAATTTGTAAAAA-AATTA
1 AAATTT-TAAAAATTATTA
18490303 AATATTTTAAATAATTATTAA
1 AA-ATTTTAAA-AATTATT-A
18490324 AAATTGTTTAAAATATT-TTA
1 AAA-T-TTTAAAA-ATTATTA
**
18490344 AAATCGTAGAAAA-TATTA
1 AAATTTTA-AAAATTATTA
18490362 AAATTTATAAAAAATTATTAA
1 AAATTT-T-AAAAATTATT-A
*
18490383 AAATATGTAAAAATTATTAA
1 AAAT-TTTAAAAATTATT-A
* *
18490403 AAATTTCAAGTAATTATTA
1 AAATTTTAA-AAATTATTA
18490422 AAATTTGT-AAAATTATTTA
1 AAATTT-TAAAAATTA-TTA
18490441 AAA
1 AAA
18490444 ATTGTGAACC
Statistics
Matches: 128, Mismatches: 13, Indels: 37
0.72 0.07 0.21
Matches are distributed among these distances:
17 1 0.01
18 24 0.19
19 33 0.26
20 47 0.37
21 13 0.10
22 10 0.08
ACGTcount: A:0.55, C:0.01, G:0.04, T:0.39
Consensus pattern (18 bp):
AAATTTTAAAAATTATTA
Found at i:18490337 original size:59 final size:59
Alignment explanation
Indices: 18490265--18490404 Score: 153
Period size: 59 Copynumber: 2.4 Consensus size: 59
18490255 AAAAAAATTT
* *
18490265 AAATTATTAAAAATATAGTAAAATTTGTA-AAAAAATTAAATATTT-TAAATAATTATTAA
1 AAATTATTAAAAATATAGTAAAA-TCGTAGAAAAAATTAAA-ATTTATAAAAAATTATTAA
* * ** *
18490324 AAATTGTTTAAAATATTTTAAAATCGTAGAAAATATTAAAATTTATAAAAAATTATTAA
1 AAATTATTAAAAATATAGTAAAATCGTAGAAAAAATTAAAATTTATAAAAAATTATTAA
*
18490383 AAA-TATGTAAAAAT-TATTAAAA
1 AAATTAT-TAAAAATATAGTAAAA
18490405 ATTTCAAGTA
Statistics
Matches: 68, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
58 17 0.25
59 51 0.75
ACGTcount: A:0.57, C:0.01, G:0.04, T:0.38
Consensus pattern (59 bp):
AAATTATTAAAAATATAGTAAAATCGTAGAAAAAATTAAAATTTATAAAAAATTATTAA
Found at i:18490446 original size:11 final size:10
Alignment explanation
Indices: 18490265--18490446 Score: 93
Period size: 10 Copynumber: 18.5 Consensus size: 10
18490255 AAAAAAATTT
18490265 AAATTATTAA
1 AAATTATTAA
*
18490275 AAATATAGT-A
1 AAAT-TATTAA
18490285 AAATT-TGTAA
1 AAATTAT-TAA
*
18490295 AAA-AATTAA
1 AAATTATTAA
*
18490304 ATATT-TTAA
1 AAATTATTAA
18490313 ATAATTATTAA
1 A-AATTATTAA
*
18490324 AAATTGTTTAA
1 AAATT-ATTAA
18490335 AATATT-TT-A
1 AA-ATTATTAA
**
18490344 AAA-TCGTAGA
1 AAATTATTA-A
18490354 AAA-TATTAA
1 AAATTATTAA
* *
18490363 AATTTATAAA
1 AAATTATTAA
18490373 AAATTATTAA
1 AAATTATTAA
18490383 AAA-TATGTAA
1 AAATTAT-TAA
18490393 AAATTATTAA
1 AAATTATTAA
*
18490403 AAATT-TCAA
1 AAATTATTAA
*
18490412 GTAATTATT-A
1 -AAATTATTAA
18490422 AAATT-TGT-A
1 AAATTAT-TAA
18490431 AAATTATTTAA
1 AAATTA-TTAA
18490442 AAATT
1 AAATT
18490447 GTGAACCGGT
Statistics
Matches: 133, Mismatches: 18, Indels: 41
0.69 0.09 0.21
Matches are distributed among these distances:
7 1 0.01
8 3 0.02
9 35 0.26
10 66 0.50
11 25 0.19
12 3 0.02
ACGTcount: A:0.55, C:0.01, G:0.04, T:0.40
Consensus pattern (10 bp):
AAATTATTAA
Found at i:18490680 original size:18 final size:18
Alignment explanation
Indices: 18490659--18490757 Score: 74
Period size: 20 Copynumber: 5.2 Consensus size: 18
18490649 TTGTTAGTTA
18490659 TTTACAATTTTTAAAATT
1 TTTACAATTTTTAAAATT
*
18490677 TTTAAAATTTTTGAATAATGT
1 TTTACAATTTTT-AA-AAT-T
** *
18490698 TTTATTATTTTTATTAATTT
1 TTTACAATTTTTA--AAATT
*
18490718 TTTACAA-TATTAAAATT
1 TTTACAATTTTTAAAATT
*
18490735 TTTAACAATATTTAATAATT
1 TTT-ACAATTTTTAA-AATT
18490755 TTT
1 TTT
18490758 TAAATATTTT
Statistics
Matches: 63, Mismatches: 10, Indels: 14
0.72 0.11 0.16
Matches are distributed among these distances:
17 7 0.11
18 15 0.24
19 10 0.16
20 17 0.27
21 13 0.21
22 1 0.02
ACGTcount: A:0.37, C:0.03, G:0.02, T:0.58
Consensus pattern (18 bp):
TTTACAATTTTTAAAATT
Found at i:18490688 original size:10 final size:9
Alignment explanation
Indices: 18490659--18490768 Score: 69
Period size: 9 Copynumber: 11.3 Consensus size: 9
18490649 TTGTTAGTTA
*
18490659 TTTACAATT
1 TTTAAAATT
18490668 TTTAAAATT
1 TTTAAAATT
18490677 TTTAAAATT
1 TTTAAAATT
18490686 TTTGAATAATGT
1 TTT-AA-AAT-T
**
18490698 TTTATTATT
1 TTTAAAATT
*
18490707 TTTATTAATTT
1 TTTA--AAATT
*
18490718 TTTACAA-T
1 TTTAAAATT
*
18490726 ATTAAAATT
1 TTTAAAATT
*
18490735 TTTAACAATA
1 TTTAA-AATT
18490745 TTTAATAATTT
1 TTTAA-AA-TT
18490756 TTTAAATATT
1 TTTAAA-ATT
18490766 TTT
1 TTT
18490769 TACAGTTTTT
Statistics
Matches: 78, Mismatches: 14, Indels: 17
0.72 0.13 0.16
Matches are distributed among these distances:
8 6 0.08
9 31 0.40
10 20 0.26
11 17 0.22
12 4 0.05
ACGTcount: A:0.37, C:0.03, G:0.02, T:0.58
Consensus pattern (9 bp):
TTTAAAATT
Found at i:18490758 original size:49 final size:49
Alignment explanation
Indices: 18490678--18490772 Score: 113
Period size: 49 Copynumber: 1.9 Consensus size: 49
18490668 TTTAAAATTT
* * * * *
18490678 TTAAAATTTTTGAATAATGTTTTATTATTTTT-ATTAATTTTTTACAATA
1 TTAAAATTTTTGAACAATATTTAATAATTTTTAAAT-ATTTTTTACAATA
18490727 TTAAAATTTTT-AACAATATTTAATAATTTTTTAAATATTTTTTACA
1 TTAAAATTTTTGAACAATATTTAATAA-TTTTTAAATATTTTTTACA
18490773 GTTTTTATAT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
48 11 0.28
49 26 0.67
50 2 0.05
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.57
Consensus pattern (49 bp):
TTAAAATTTTTGAACAATATTTAATAATTTTTAAATATTTTTTACAATA
Found at i:18490779 original size:58 final size:59
Alignment explanation
Indices: 18490654--18490768 Score: 144
Period size: 58 Copynumber: 1.9 Consensus size: 59
18490644 TTGATTTGTT
* * *
18490654 AGTTATTTACAATTTTTAAAATTTTTAAAATTTTTGAATAATGTTTTATTATTTTTATTA
1 AGTT-TTTACAATTATTAAAATTTTTAAAATATTTGAATAATGTTTTAATATTTTTATTA
* *
18490714 ATTTTTTACAA-TATTAAAATTTTTAACAATATTT-AATAATTTTTTAAATATTTTT
1 AGTTTTTACAATTATTAAAATTTTTAA-AATATTTGAATAATGTTTT-AATATTTTT
18490769 TACAGTTTTT
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
58 24 0.50
59 21 0.44
60 3 0.06
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.57
Consensus pattern (59 bp):
AGTTTTTACAATTATTAAAATTTTTAAAATATTTGAATAATGTTTTAATATTTTTATTA
Found at i:18490853 original size:9 final size:9
Alignment explanation
Indices: 18490665--18490853 Score: 60
Period size: 9 Copynumber: 19.4 Consensus size: 9
18490655 GTTATTTACA
*
18490665 ATTTTTAAA
1 ATTTTTAAT
*
18490674 ATTTTTAAA
1 ATTTTTAAT
18490683 ATTTTTGAAT
1 ATTTTT-AAT
*
18490693 AATGTTTTATT
1 -AT-TTTTAAT
*
18490704 ATTTTTATT
1 ATTTTTAAT
* *
18490713 AATTTTTTAC
1 -ATTTTTAAT
* * *
18490723 AATATTAAA
1 ATTTTTAAT
*
18490732 ATTTTTAACA
1 ATTTTTAA-T
*
18490742 ATATTTAAT
1 ATTTTTAAT
18490751 AATTTTTTAAAT
1 -A-TTTTT-AAT
* *
18490763 ATTTTTTAC
1 ATTTTTAAT
18490772 AGTTTTT-AT
1 A-TTTTTAAT
18490781 ATTTTTAAT
1 ATTTTTAAT
*
18490790 CA-TTTAAAT
1 -ATTTTTAAT
*
18490799 ATTTTT-TT
1 ATTTTTAAT
18490807 ACTATTTTAAT
1 A-T-TTTTAAT
18490818 AATTTTCTAAAT
1 -ATTTT-T-AAT
*
18490830 ATATTTTTAT
1 AT-TTTTAAT
18490840 GATTTTTAAT
1 -ATTTTTAAT
18490850 ATTT
1 ATTT
18490854 ATTTATAATT
Statistics
Matches: 137, Mismatches: 23, Indels: 40
0.69 0.12 0.20
Matches are distributed among these distances:
8 8 0.06
9 53 0.39
10 45 0.33
11 17 0.12
12 14 0.10
ACGTcount: A:0.35, C:0.03, G:0.02, T:0.60
Consensus pattern (9 bp):
ATTTTTAAT
Found at i:18490856 original size:22 final size:22
Alignment explanation
Indices: 18490809--18490862 Score: 56
Period size: 22 Copynumber: 2.4 Consensus size: 22
18490799 ATTTTTTTAC
18490809 TATTTTAATAATTTTCTAAATA
1 TATTTTAATAATTTTCTAAATA
* * *
18490831 TATTTTTATGATTTT-TAATATT
1 TATTTTAATAATTTTCTAA-ATA
18490853 TATTTATAAT
1 TATTT-TAAT
18490863 TTATTGGTCT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 3 0.12
22 20 0.77
23 3 0.12
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (22 bp):
TATTTTAATAATTTTCTAAATA
Found at i:18491454 original size:28 final size:28
Alignment explanation
Indices: 18491405--18491478 Score: 123
Period size: 28 Copynumber: 2.6 Consensus size: 28
18491395 GTTTTAAACT
18491405 TTACATTCTAATGT-AGCTTTTTTTATTAA
1 TTACATTCTAAT-TAAG-TTTTTTTATTAA
18491434 TTACATTCTAATTAAGTTTTTTTATTAA
1 TTACATTCTAATTAAGTTTTTTTATTAA
18491462 TTACATTCTAATTAAGT
1 TTACATTCTAATTAAGT
18491479 CTTTAACATA
Statistics
Matches: 44, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
28 30 0.68
29 14 0.32
ACGTcount: A:0.31, C:0.09, G:0.05, T:0.54
Consensus pattern (28 bp):
TTACATTCTAATTAAGTTTTTTTATTAA
Found at i:18491647 original size:29 final size:29
Alignment explanation
Indices: 18491613--18491671 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
18491603 AAATTGTGCA
18491613 TACCGACCAATACCACTGAAATCAACCAT
1 TACCGACCAATACCACTGAAATCAACCAT
*
18491642 TACCGACTAATACCACTGAAATCAACCAT
1 TACCGACCAATACCACTGAAATCAACCAT
18491671 T
1 T
18491672 GTCGTGTTTC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.41, C:0.32, G:0.07, T:0.20
Consensus pattern (29 bp):
TACCGACCAATACCACTGAAATCAACCAT
Found at i:18505538 original size:39 final size:39
Alignment explanation
Indices: 18505482--18505659 Score: 266
Period size: 39 Copynumber: 4.5 Consensus size: 39
18505472 ACAAAGCATG
*
18505482 CGGGACTTTAAGCCCGGATATAATACCAGCACGAATGCCTT
1 CGGGAC-TT-AGCCCGGATATAACACCAGCACGAATGCCTT
*
18505523 CGGGACTTAGCCCGGATATAACACCAGCACGAATTCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
18505562 TGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
* ** *
18505601 CGGGACTTAGCCCGGATATAACACCAACAAAAACGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
18505640 CGGGAATTAGCCCGGATATA
1 CGGGACTTAGCCCGGATATA
18505660 TATCTCACAC
Statistics
Matches: 127, Mismatches: 10, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
39 119 0.94
40 2 0.02
41 6 0.05
ACGTcount: A:0.30, C:0.28, G:0.22, T:0.20
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
Found at i:18512115 original size:39 final size:39
Alignment explanation
Indices: 18512026--18512195 Score: 261
Period size: 39 Copynumber: 4.3 Consensus size: 39
18512016 ACAAAGCATG
* *
18512026 CGGGACTTTAAGCCCGGATATAATACCAGCAC-AAAGCCTT
1 CGGGAC-TT-AGCCCGGATATAACACCAGCACGAATGCCTT
18512066 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
18512105 CGAGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
* *
18512144 CGGGACTTAGCCCGGATATAACACCAGCACAAACGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
18512183 CGGGAATTAGCCC
1 CGGGACTTAGCCC
18512196 AGTTATATAT
Statistics
Matches: 122, Mismatches: 7, Indels: 3
0.92 0.05 0.02
Matches are distributed among these distances:
38 21 0.17
39 95 0.78
40 6 0.05
ACGTcount: A:0.30, C:0.31, G:0.22, T:0.18
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
Found at i:18515104 original size:22 final size:20
Alignment explanation
Indices: 18515065--18515105 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
18515055 TATTTTAATT
18515065 ATTAAATATAATTAAAATAC
1 ATTAAATATAATTAAAATAC
*
18515085 ATTAAATTATCAATTCAAATA
1 ATTAAA-TAT-AATTAAAATA
18515106 TTATAATAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 3 0.17
22 9 0.50
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (20 bp):
ATTAAATATAATTAAAATAC
Found at i:18515529 original size:44 final size:44
Alignment explanation
Indices: 18515475--18515562 Score: 140
Period size: 44 Copynumber: 2.0 Consensus size: 44
18515465 TTTTGAAAGG
* *
18515475 AAATTTTAATTATTTTTAAATGTGTAATTATCACAACTTCTATT
1 AAATTATAATTATTTTTAAATGTATAATTATCACAACTTCTATT
* *
18515519 AAATTATAATTATTTTTAAATTTATAATTATCACAGCTTCTATT
1 AAATTATAATTATTTTTAAATGTATAATTATCACAACTTCTATT
18515563 TTAAATGAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.38, C:0.09, G:0.03, T:0.50
Consensus pattern (44 bp):
AAATTATAATTATTTTTAAATGTATAATTATCACAACTTCTATT
Found at i:18515910 original size:44 final size:44
Alignment explanation
Indices: 18515856--18515943 Score: 140
Period size: 44 Copynumber: 2.0 Consensus size: 44
18515846 TTTTGAAAGG
* *
18515856 AAATTTTAATTATTTTTAAATGTGTAATTATCACAACTTCTATT
1 AAATTATAATTATTTTTAAATGTATAATTATCACAACTTCTATT
* *
18515900 AAATTATAATTATTTTTAAATTTATAATTATCACAGCTTCTATT
1 AAATTATAATTATTTTTAAATGTATAATTATCACAACTTCTATT
18515944 TTTAAAATTT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.38, C:0.09, G:0.03, T:0.50
Consensus pattern (44 bp):
AAATTATAATTATTTTTAAATGTATAATTATCACAACTTCTATT
Found at i:18516839 original size:36 final size:36
Alignment explanation
Indices: 18516772--18516840 Score: 93
Period size: 36 Copynumber: 1.9 Consensus size: 36
18516762 CTTGTAGGAA
* * *
18516772 GCGTTTTCCGCTGACATGTTGGAAAATACTTTCAGC
1 GCGTTTTCAGCTGACATGTTAGAAAACACTTTCAGC
* *
18516808 GCGTTTTCAGCTGATATGTTAGATAACACTTTC
1 GCGTTTTCAGCTGACATGTTAGAAAACACTTTC
18516841 TACAAAACGC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 28 1.00
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.36
Consensus pattern (36 bp):
GCGTTTTCAGCTGACATGTTAGAAAACACTTTCAGC
Found at i:18517116 original size:32 final size:32
Alignment explanation
Indices: 18517080--18517144 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
18517070 ATAATACAGA
18517080 AATAATTATTAATCAATTCAAAAATTTTCCCT
1 AATAATTATTAATCAATTCAAAAATTTTCCCT
18517112 AATAATTATTAATCAATTCAAAAATTTTCCCT
1 AATAATTATTAATCAATTCAAAAATTTTCCCT
18517144 A
1 A
18517145 CTGTCTCTGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.45, C:0.15, G:0.00, T:0.40
Consensus pattern (32 bp):
AATAATTATTAATCAATTCAAAAATTTTCCCT
Found at i:18518266 original size:36 final size:35
Alignment explanation
Indices: 18518211--18518341 Score: 113
Period size: 36 Copynumber: 3.7 Consensus size: 35
18518201 CAGTCAGTCA
* * *
18518211 TCAGTAATAATCAGTTATTCAGTAACAGTCGTTTAT
1 TCAGTAACAGTCAATTATTCAGTAACAGTCG-TTAT
* * **
18518247 TCAATATCAGTCAATTATTCAGTAGTAGTCAGTTAT
1 TCAGTAACAGTCAATTATTCAGTAACAGTC-GTTAT
* *
18518283 TTAGTAACAGTC-ATTGATTTAGTAACAGTCGATTAT
1 TCAGTAACAGTCAATT-ATTCAGTAACAGTCG-TTAT
* *
18518319 TCAGTAGCAGTTAATT-TTCAGTA
1 TCAGTAACAGTCAATTATTCAGTA
18518342 CCTTTATTTA
Statistics
Matches: 74, Mismatches: 17, Indels: 9
0.74 0.17 0.09
Matches are distributed among these distances:
35 10 0.14
36 60 0.81
37 4 0.05
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.39
Consensus pattern (35 bp):
TCAGTAACAGTCAATTATTCAGTAACAGTCGTTAT
Found at i:18518280 original size:54 final size:54
Alignment explanation
Indices: 18518198--18518325 Score: 150
Period size: 54 Copynumber: 2.4 Consensus size: 54
18518188 TATTGTTTAG
* * * * *
18518198 TATCAGTCAGTCA-TCAGTAATAATCAGTTATTCAGTAACAGTCGTTTATTCAA
1 TATCAGTCAATTATTCAGTAGTAATCAGTTATTCAGTAACAGTCATTGATTCAA
* * * *
18518251 TATCAGTCAATTATTCAGTAGTAGTCAGTTATTTAGTAACAGTCATTGATTTAG
1 TATCAGTCAATTATTCAGTAGTAATCAGTTATTCAGTAACAGTCATTGATTCAA
* *
18518305 TAACAGTCGATTATTCAGTAG
1 TATCAGTCAATTATTCAGTAG
18518326 CAGTTAATTT
Statistics
Matches: 63, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
53 11 0.17
54 52 0.83
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.38
Consensus pattern (54 bp):
TATCAGTCAATTATTCAGTAGTAATCAGTTATTCAGTAACAGTCATTGATTCAA
Found at i:18518329 original size:18 final size:17
Alignment explanation
Indices: 18518211--18518329 Score: 94
Period size: 18 Copynumber: 6.6 Consensus size: 17
18518201 CAGTCAGTCA
* *
18518211 TCAGTAATAATCAGTTAT
1 TCAGTAACAGTCA-TTAT
*
18518229 TCAGTAACAGTCGTTTAT
1 TCAGTAACAGTC-ATTAT
* *
18518247 TCAATATCAGTCAATTAT
1 TCAGTAACAGTC-ATTAT
**
18518265 TCAGTAGTAGTCAGTTAT
1 TCAGTAACAGTCA-TTAT
*
18518283 TTAGTAACAGTCATTGAT
1 TCAGTAACAGTCATT-AT
*
18518301 TTAGTAACAGTCGATTAT
1 TCAGTAACAGTC-ATTAT
*
18518319 TCAGTAGCAGT
1 TCAGTAACAGT
18518330 TAATTTTCAG
Statistics
Matches: 82, Mismatches: 15, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
17 3 0.04
18 76 0.93
19 3 0.04
ACGTcount: A:0.33, C:0.13, G:0.16, T:0.38
Consensus pattern (17 bp):
TCAGTAACAGTCATTAT
Found at i:18518533 original size:6 final size:6
Alignment explanation
Indices: 18518522--18518546 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
18518512 ACGAATCTGG
18518522 AACAGT AACAGT AACAGT AACAGT A
1 AACAGT AACAGT AACAGT AACAGT A
18518547 TAGTACGGAG
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:0.52, C:0.16, G:0.16, T:0.16
Consensus pattern (6 bp):
AACAGT
Found at i:18518581 original size:57 final size:58
Alignment explanation
Indices: 18518463--18518592 Score: 172
Period size: 57 Copynumber: 2.2 Consensus size: 58
18518453 CAGTAACGGT
* * * * *
18518463 AACAGTAATAGTAATAGTAGCAGTATGGTACACAGAGTACCTCATCGGAACGAATCTGG
1 AACAGTAATAGTAACAGTAACAGTATAGTA-ACAGAGTACCTCATCGGAACAAATCCGG
* * *
18518522 AACAGTAACAGTAACAGTAACAGTATAGT-ACGGAGTACCTCTTCGGAACAAATCCGG
1 AACAGTAATAGTAACAGTAACAGTATAGTAACAGAGTACCTCATCGGAACAAATCCGG
18518579 AACAGTAATAGTAA
1 AACAGTAATAGTAA
18518593 AACGATACTT
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
57 37 0.60
59 25 0.40
ACGTcount: A:0.40, C:0.18, G:0.22, T:0.21
Consensus pattern (58 bp):
AACAGTAATAGTAACAGTAACAGTATAGTAACAGAGTACCTCATCGGAACAAATCCGG
Found at i:18519186 original size:13 final size:12
Alignment explanation
Indices: 18519154--18519187 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
18519144 ATTTACTATA
18519154 TATATAATAACT
1 TATATAATAACT
18519166 TA-ATAATATACT
1 TATATAATA-ACT
18519178 TATATAATAA
1 TATATAATAA
18519188 GTAAACATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
11 6 0.30
12 8 0.40
13 6 0.30
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (12 bp):
TATATAATAACT
Found at i:18519477 original size:13 final size:13
Alignment explanation
Indices: 18519459--18519483 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18519449 TATAAATTTA
18519459 ATAATAATAAATC
1 ATAATAATAAATC
18519472 ATAATAATAAAT
1 ATAATAATAAAT
18519484 TAATCAATTA
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:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (13 bp):
ATAATAATAAATC
Found at i:18519478 original size:16 final size:16
Alignment explanation
Indices: 18519440--18519481 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
18519430 TAATTTATTC
18519440 ATCAT-ATAAT-ATAA
1 ATCATAATAATAATAA
*
18519454 AT-TTAATAATAATAA
1 ATCATAATAATAATAA
18519469 ATCATAATAATAA
1 ATCATAATAATAA
18519482 ATTAATCAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 1 0.04
14 7 0.30
15 6 0.26
16 9 0.39
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.36
Consensus pattern (16 bp):
ATCATAATAATAATAA
Found at i:18522365 original size:48 final size:48
Alignment explanation
Indices: 18522249--18522381 Score: 167
Period size: 48 Copynumber: 2.8 Consensus size: 48
18522239 GCCCATATCG
* ** * * *
18522249 ATGCCATGTCCCAGACATGGTCTTACACGAAATCATATATTGATGTCA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGCCA
** * *
18522297 ATGCCATACCCCATATATGGTCTTACATGGGATCACATATCGATGCCA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGCCA
*
18522345 ATGCCATGTCCCAGACATGGTTTTACATGGGATCACA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACA
18522382 CATAAACCTA
Statistics
Matches: 70, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
48 70 1.00
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGCCA
Found at i:18530995 original size:93 final size:93
Alignment explanation
Indices: 18530883--18531053 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
18530873 GCCCATAAGT
* *
18530883 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
18530948 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* *
18530976 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
* *
18531041 CGAGTTTGGATGC
66 CGAGCTCGGATGC
18531054 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:18531046 original size:46 final size:45
Alignment explanation
Indices: 18530875--18531044 Score: 200
Period size: 46 Copynumber: 3.7 Consensus size: 45
18530865 TGTAACCCGC
*
18530875 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GGCATTCGCAT
* *
18530921 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGG-ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCATTCGC-A--T
* *** *
18530967 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGG-CATTCGCAT
18531014 CCATAAGTGAACTCGGACTCAACTCAACGAG
1 CCATAAGTGAACTCGGACTCAACTCAACGAG
18531045 TTTGGATGCT
Statistics
Matches: 103, Mismatches: 14, Indels: 14
0.79 0.11 0.11
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 2 0.02
46 61 0.59
47 31 0.30
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCATTCGCAT
Found at i:18542378 original size:729 final size:729
Alignment explanation
Indices: 18540981--18542418 Score: 2655
Period size: 729 Copynumber: 2.0 Consensus size: 729
18540971 TAATCTCGCC
18540981 GTATAATGTGAGGGTCGCGGAAGTGCATACATAAGATGATCGCTCTTATGACTTGACGGTAAATG
1 GTATAATGTGAGGGTCGCGGAAGTGCATACATAAGATGATCGCTCTTATGACTTGACGGTAAATG
* *
18541046 GATAATCCATCGAGATTTTTTGAGTAACTCAACGGGATTAATATGTGATACAAAAATGAAAACGT
66 GATAATCCATCGAGATTTTTTGAGTAACTCAAAGGGATTAATATGTGATACAAAAATGAAAACCT
*
18541111 TGAATGATGAGCTCATCTTAGATAAGTTACATGGTGTGATGTTATGTGACTAACGTGTTGATGGA
131 TGAATGATGAGCTCATCTTAGATAAGTTACATGGTGTGATGTTATGTGACTAACGTGTTGATAGA
18541176 GTGCATGTGATAGGGAAACCATTCCATACTTGTTGGTTTATTTACCTAATATGGTTGCATGCTAA
196 GTGCATGTGATAGGGAAACCATTCCATACTTGTTGGTTTATTTACCTAATATGGTTGCATGCTAA
18541241 ACAAATTGGTAAGTTTATTTTCCAGTTATTCGGGCTTACTAAGCATGTAAATGCTTACCCCTCTC
261 ACAAATTGGTAAGTTTATTTTCCAGTTATTCGGGCTTACTAAGCATGTAAATGCTTACCCCTCTC
* * * *
18541306 TTTTTCCTGCCTCATAGAGCTCGTGGAGTCACGAAGATTGGAAGACGATTGGAGAATCAACACAC
326 TTTTCCCTGCCTCACAGAGCTCGTGGACTCACGAAAATTGGAAGACGATTGGAGAATCAACACAC
18541371 TATCATCTTGTCTAGCTTTGGTATATAGATACTCTTATTTTGTTTAATGGCATGTATAGGGCTTT
391 TATCATCTTGTCTAGCTTTGGTATATAGATACTCTTATTTTGTTTAATGGCATGTATAGGGCTTT
18541436 TGTTAATTTTGTAATATGTGTCATTTGATTAGCCAATATGAAGGCTTGTAAGGTGTAGATGTCCA
456 TGTTAATTTTGTAATATGTGTCATTTGATTAGCCAATATGAAGGCTTGTAAGGTGTAGATGTCCA
18541501 CATGCATATGGCCATAGGATTTGGCTCATTTTGTTATAAGGTATGACCTACATAATTGTGCATAT
521 CATGCATATGGCCATAGGATTTGGCTCATTTTGTTATAAGGTATGACCTACATAATTGTGCATAT
*
18541566 TTGTGTTCTAATGTTATTGAGATGAATGAACATGGCGTATCACAAGTAGATACACATGTAACATG
586 TTGTGTTCTAATGTTATTGAGATGAATAAACATGGCGTATCACAAGTAGATACACATGTAACATG
*
18541631 ACCGAATCACATGAGATGGCTAGACCATAATTGGCAATGAGTTCTAATAATGAGCCAATCCTGAA
651 ACCGAATCACATGAGATGGCTAGACCATAATTGGCAATGAGTTATAATAATGAGCCAATCCTGAA
18541696 CTGGTAATCCTGCT
716 CTGGTAATCCTGCT
* * *
18541710 GTATAATGTGAGGTTCGCGGGAGTGCATACATGAGATGATCGCTCTTATGACTTGACGGTAAATG
1 GTATAATGTGAGGGTCGCGGAAGTGCATACATAAGATGATCGCTCTTATGACTTGACGGTAAATG
18541775 GATAATCCATCGAGATTTTTTGAGTAACTCAATAGGG-TTAATATGTGATACAAAAATGAAAACC
66 GATAATCCATCGAGATTTTTTGAGTAACTCAA-AGGGATTAATATGTGATACAAAAATGAAAACC
*
18541839 TTGAATGATGAGCTCATCTTAGATAAGTTACATGGTGTGATGTTATGTGACTAACTTGTTGATAG
130 TTGAATGATGAGCTCATCTTAGATAAGTTACATGGTGTGATGTTATGTGACTAACGTGTTGATAG
*
18541904 AGTGCATGTGATAGGGAAACCATTCCATACTTGTTGGTTTATTTGCCTAATATGGTTGCATGCTA
195 AGTGCATGTGATAGGGAAACCATTCCATACTTGTTGGTTTATTTACCTAATATGGTTGCATGCTA
*
18541969 AACAAATTGGTAAGTTTATTTTCCAGTTATTCGGGCTTACTCAGCATGTAAATGCTTACCCCTCT
260 AACAAATTGGTAAGTTTATTTTCCAGTTATTCGGGCTTACTAAGCATGTAAATGCTTACCCCTCT
* * *
18542034 CTTTTCCCTGTCTTACAGAGCTCGTGGACTCACGAAAATTGGAAGAC-AGTTGGAGAGTCAACAC
325 CTTTTCCCTGCCTCACAGAGCTCGTGGACTCACGAAAATTGGAAGACGA-TTGGAGAATCAACAC
18542098 ACTATCATCTTGTCTAGCTTTGGTATATAGATACTCTTATTTTGTTTAATGGCATGTATAGGGCT
389 ACTATCATCTTGTCTAGCTTTGGTATATAGATACTCTTATTTTGTTTAATGGCATGTATAGGGCT
18542163 TTTGTTAATTTTGTAATATGTGTCATTTGATTAGCCAATATGAAGGCTTGTAAGGTGTAGATGTC
454 TTTGTTAATTTTGTAATATGTGTCATTTGATTAGCCAATATGAAGGCTTGTAAGGTGTAGATGTC
*
18542228 CACATGCATATGGCCATAGGATTTGGCTCATTTTGTTATAAGGTATGACCTACATAGTTGTGCAT
519 CACATGCATATGGCCATAGGATTTGGCTCATTTTGTTATAAGGTATGACCTACATAATTGTGCAT
* *
18542293 ATTTGTGTTCTAATGTTATTGAGATGAATAAACATGGTGTATCACAAGTAGATACACGTGTAACA
584 ATTTGTGTTCTAATGTTATTGAGATGAATAAACATGGCGTATCACAAGTAGATACACATGTAACA
18542358 TGACCGAATCACATGAGATGGCTAGACCATAATTGGCAATGAGTTATAATAATGAGCCAAT
649 TGACCGAATCACATGAGATGGCTAGACCATAATTGGCAATGAGTTATAATAATGAGCCAAT
18542419 ATTGAATGTG
Statistics
Matches: 686, Mismatches: 21, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
728 1 0.00
729 682 0.99
730 3 0.00
ACGTcount: A:0.29, C:0.15, G:0.22, T:0.34
Consensus pattern (729 bp):
GTATAATGTGAGGGTCGCGGAAGTGCATACATAAGATGATCGCTCTTATGACTTGACGGTAAATG
GATAATCCATCGAGATTTTTTGAGTAACTCAAAGGGATTAATATGTGATACAAAAATGAAAACCT
TGAATGATGAGCTCATCTTAGATAAGTTACATGGTGTGATGTTATGTGACTAACGTGTTGATAGA
GTGCATGTGATAGGGAAACCATTCCATACTTGTTGGTTTATTTACCTAATATGGTTGCATGCTAA
ACAAATTGGTAAGTTTATTTTCCAGTTATTCGGGCTTACTAAGCATGTAAATGCTTACCCCTCTC
TTTTCCCTGCCTCACAGAGCTCGTGGACTCACGAAAATTGGAAGACGATTGGAGAATCAACACAC
TATCATCTTGTCTAGCTTTGGTATATAGATACTCTTATTTTGTTTAATGGCATGTATAGGGCTTT
TGTTAATTTTGTAATATGTGTCATTTGATTAGCCAATATGAAGGCTTGTAAGGTGTAGATGTCCA
CATGCATATGGCCATAGGATTTGGCTCATTTTGTTATAAGGTATGACCTACATAATTGTGCATAT
TTGTGTTCTAATGTTATTGAGATGAATAAACATGGCGTATCACAAGTAGATACACATGTAACATG
ACCGAATCACATGAGATGGCTAGACCATAATTGGCAATGAGTTATAATAATGAGCCAATCCTGAA
CTGGTAATCCTGCT
Found at i:18543030 original size:20 final size:20
Alignment explanation
Indices: 18543005--18543096 Score: 139
Period size: 20 Copynumber: 4.6 Consensus size: 20
18542995 CAGGTAGGGG
*
18543005 ACACGGGTGTGTCCCAAAGT
1 ACACGGGCGTGTCCCAAAGT
18543025 ACACGGGCGTGTCCCAAAGT
1 ACACGGGCGTGTCCCAAAGT
* *
18543045 ACACGGGCGTATCCCAAAGC
1 ACACGGGCGTGTCCCAAAGT
*
18543065 ACACGGGCGTGTCCCAAAGC
1 ACACGGGCGTGTCCCAAAGT
*
18543085 ACAGGGGCGTGT
1 ACACGGGCGTGT
18543097 GCAATGTCTC
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 67 1.00
ACGTcount: A:0.25, C:0.29, G:0.32, T:0.14
Consensus pattern (20 bp):
ACACGGGCGTGTCCCAAAGT
Found at i:18545459 original size:48 final size:48
Alignment explanation
Indices: 18545340--18545526 Score: 223
Period size: 48 Copynumber: 3.9 Consensus size: 48
18545330 ACCTCGATTA
* * * * *
18545340 ATGAGATCCCATGTAAAACCATGTCT-GGAACATGGCATCGACATTCGAG
1 ATGAGAGCCAATGTAAGACCATGTCTAGG-ACATGGCATCGACGTT-GAC
*
18545389 ATGAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGACGTTGAC
1 ATGAGAGCCAATGTAAGACCATGTCTAGGACATGGCATCGACGTTGAC
* *
18545437 ATGAGAGCCAATGTAAGACCATGTCTAGGACATGGCATCGGCGTTGAT
1 ATGAGAGCCAATGTAAGACCATGTCTAGGACATGGCATCGACGTTGAC
* * * * * *
18545485 ATGTGTGCCAGTGTAAGACCATATCTGGGATATGGCATCGAC
1 ATGAGAGCCAATGTAAGACCATGTCTAGGACATGGCATCGAC
18545527 ATCGGTATGT
Statistics
Matches: 121, Mismatches: 16, Indels: 3
0.86 0.11 0.02
Matches are distributed among these distances:
48 82 0.68
49 37 0.31
50 2 0.02
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.23
Consensus pattern (48 bp):
ATGAGAGCCAATGTAAGACCATGTCTAGGACATGGCATCGACGTTGAC
Found at i:18545476 original size:97 final size:96
Alignment explanation
Indices: 18545340--18545526 Score: 250
Period size: 96 Copynumber: 1.9 Consensus size: 96
18545330 ACCTCGATTA
* *
18545340 ATGAGATCCCATGTAAAACCATGTCTGGAACATGGCATCGACATTCGAGATGAGAGCCAGTGTAA
1 ATGAGAGCCAATGTAAAACCATGTCTGGAACATGGCATCGACATT-GAGATGAGAGCCAGTGTAA
*
18545405 GACCATGTCTAGGACATGGCATCGACGTTGAC
65 GACCATATCTAGGACATGGCATCGACGTTGAC
* * * * * *
18545437 ATGAGAGCCAATGTAAGACCATGTCTAGG-ACATGGCATCGGCGTTGATATGTGTGCCAGTGTAA
1 ATGAGAGCCAATGTAAAACCATGTCT-GGAACATGGCATCGACATTGAGATGAGAGCCAGTGTAA
* *
18545501 GACCATATCTGGGATATGGCATCGAC
65 GACCATATCTAGGACATGGCATCGAC
18545527 ATCGGTATGT
Statistics
Matches: 78, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
96 39 0.50
97 37 0.47
98 2 0.03
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.23
Consensus pattern (96 bp):
ATGAGAGCCAATGTAAAACCATGTCTGGAACATGGCATCGACATTGAGATGAGAGCCAGTGTAAG
ACCATATCTAGGACATGGCATCGACGTTGAC
Found at i:18545536 original size:48 final size:48
Alignment explanation
Indices: 18545351--18545705 Score: 213
Period size: 48 Copynumber: 7.6 Consensus size: 48
18545341 TGAGATCCCA
* * *
18545351 TGTAAAACCATGTCTGGAACATGGCATCGACATTCGAGATGAGAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGACA-TCGATATGAGAGCCAG
* * * * *
18545400 TGTAAGACCATGTCTAGGACATGGCATCGACGTTGACATGAGAGCCAA
1 TGTAAGACCATGTCTGGGACATGGCATCGACATCGATATGAGAGCCAG
* * * * * *
18545448 TGTAAGACCATGTCTAGGACATGGCATCGGCGTTGATATGTGTGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGACATCGATATGAGAGCCAG
* * * * ***
18545496 TGTAAGACCATATCTGGGATATGGCATCGACATCGGTATGTGA-TTTG
1 TGTAAGACCATGTCTGGGACATGGCATCGACATCGATATGAGAGCCAG
* * * **
18545543 ATGTAAGACCATATCTGGGATATGG---CG---TTGATATGAGATTTC-G
1 -TGTAAGACCATGTCTGGGACATGGCATCGACATCGATATGAGA-GCCAG
* **
18545586 TGTAAGACTATGTCTGGGACATGGCATCG--AT-G---TGAG-GTCTTG
1 TGTAAGACCATGTCTGGGACATGGCATCGACATCGATATGAGAG-CCAG
* * * *
18545628 TGTAAGACTATGTCTGGGACATGGCATCGACACCAACATGAGA-CTTC-G
1 TGTAAGACCATGTCTGGGACATGGCATCGACATCGATATGAGAGC--CAG
* * *
18545676 TATAAGACCATATCTGGGATATGGCATCGA
1 TGTAAGACCATGTCTGGGACATGGCATCGA
18545706 TATGTAGACC
Statistics
Matches: 248, Mismatches: 40, Indels: 37
0.76 0.12 0.11
Matches are distributed among these distances:
42 63 0.25
43 1 0.00
44 2 0.01
45 5 0.02
46 1 0.00
47 2 0.01
48 146 0.59
49 28 0.11
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (48 bp):
TGTAAGACCATGTCTGGGACATGGCATCGACATCGATATGAGAGCCAG
Found at i:18545602 original size:42 final size:42
Alignment explanation
Indices: 18545526--18545657 Score: 151
Period size: 42 Copynumber: 3.1 Consensus size: 42
18545516 ATGGCATCGA
* * * * *
18545526 CATCGGTATGTGAT-TTGATGTAAGACCATATCTGGGATATGG
1 CATCGATATGAGATCTTG-TGTAAGACTATGTCTGGGACATGG
* *
18545568 CGTTGATATGAGAT-TTCGTGTAAGACTATGTCTGGGACATGG
1 CATCGATATGAGATCTT-GTGTAAGACTATGTCTGGGACATGG
* *
18545610 CATCGATGTGAGGTCTTGTGTAAGACTATGTCTGGGACATGG
1 CATCGATATGAGATCTTGTGTAAGACTATGTCTGGGACATGG
18545652 CATCGA
1 CATCGA
18545658 CACCAACATG
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
42 74 0.96
43 3 0.04
ACGTcount: A:0.24, C:0.14, G:0.30, T:0.32
Consensus pattern (42 bp):
CATCGATATGAGATCTTGTGTAAGACTATGTCTGGGACATGG
Found at i:18545742 original size:90 final size:90
Alignment explanation
Indices: 18545575--18545742 Score: 194
Period size: 90 Copynumber: 1.9 Consensus size: 90
18545565 TGGCGTTGAT
* * * * * * *** *
18545575 ATGAGATTTCGTGTAAGACTATGTCTGGGACATGGCATCGATGTGAGGTCTTGTGTAAGACTATG
1 ATGAGACTTCGTATAAGACCATATCTGGGACATGGCATCGATATGAGGACCCATGTAAGACCATG
* *
18545640 TCTGGGACATGGCATCGACACCAAC
66 TCGGGGAAATGGCATCGACACCAAC
*
18545665 ATGAGACTTCGTATAAGACCATATCTGGGATATGGCATCGATATGTA-GACCCATGTAAGACCAT
1 ATGAGACTTCGTATAAGACCATATCTGGGACATGGCATCGATATG-AGGACCCATGTAAGACCAT
*
18545729 TTCGGGGAAATGGC
65 GTCGGGGAAATGGC
18545743 TTTGGCATTC
Statistics
Matches: 63, Mismatches: 14, Indels: 2
0.80 0.18 0.03
Matches are distributed among these distances:
90 62 0.98
91 1 0.02
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.27
Consensus pattern (90 bp):
ATGAGACTTCGTATAAGACCATATCTGGGACATGGCATCGATATGAGGACCCATGTAAGACCATG
TCGGGGAAATGGCATCGACACCAAC
Found at i:18547602 original size:46 final size:45
Alignment explanation
Indices: 18547516--18547693 Score: 157
Period size: 46 Copynumber: 3.8 Consensus size: 45
18547506 ATGAGAGTTG
*
18547516 GTGTAAGACTATGTCTGGGACATTGCATCGGCATCTAGACG-AGTGCTA
1 GTGTAAGAC-ATGTCTGGGACA-TGCATCGGCATCGAGACGAAG-G-TA
* *
18547564 GTGTAAGACATGTCTGAGACATGCATCGGCCTCGAGACGTAAGGTA
1 GTGTAAGACATGTCTGGGACATGCATCGGCATCGAGACG-AAGGTA
* * * *
18547610 GTATAAGACATGTTTGGGACATGCATCGG-TTACGAGATGATA-GTCA
1 GTGTAAGACATGTCTGGGACATGCATCGGCAT-CGAGACGA-AGGT-A
* *
18547656 GTGTAAGACAATGTCTGGGGCATGGCATCGACAT-GAGA
1 GTGTAAGAC-ATGTCTGGGACAT-GCATCGGCATCGAGA
18547694 TATGAGCCAG
Statistics
Matches: 109, Mismatches: 13, Indels: 17
0.78 0.09 0.12
Matches are distributed among these distances:
45 4 0.04
46 60 0.55
47 27 0.25
48 17 0.16
49 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.25
Consensus pattern (45 bp):
GTGTAAGACATGTCTGGGACATGCATCGGCATCGAGACGAAGGTA
Found at i:18556375 original size:48 final size:48
Alignment explanation
Indices: 18556190--18556373 Score: 215
Period size: 48 Copynumber: 3.8 Consensus size: 48
18556180 GAGATCCTGG
*
18556190 GTAAGACCATGTCTGGGACATGGCATCGGCATCCGATATGAGAGCCAGT
1 GTAAGACCATGTCTAGGACATGGCATCGGCAT-CGATATGAGAGCCAGT
* ** * * *
18556239 GTAAGACTATGTCTAATACATGGCATCGGCTTTGACATGAGAGCCAGT
1 GTAAGACCATGTCTAGGACATGGCATCGGCATCGATATGAGAGCCAGT
* * * * *
18556287 GTAAGACCCTGTCTAGGACATGGCATCGGCGTTGATATGTGTGCCAGT
1 GTAAGACCATGTCTAGGACATGGCATCGGCATCGATATGAGAGCCAGT
* * * *
18556335 GTAAGACCATATCTAGGATATGGCATCAGCATCGGTATG
1 GTAAGACCATGTCTAGGACATGGCATCGGCATCGATATG
18556374 TGATTTCAAG
Statistics
Matches: 113, Mismatches: 22, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
48 86 0.76
49 27 0.24
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (48 bp):
GTAAGACCATGTCTAGGACATGGCATCGGCATCGATATGAGAGCCAGT
Found at i:18556442 original size:42 final size:42
Alignment explanation
Indices: 18556383--18556580 Score: 130
Period size: 42 Copynumber: 4.6 Consensus size: 42
18556373 GTGATTTCAA
* * * * * *
18556383 GTAAGACCATATTTGGGATATGGCGTTGATATGAGATTTCGT
1 GTAAGACCATGTCTGGGACATGGCATCGATATGAGATCTCGT
* * * *
18556425 GTAAGACTATGTCTGGGACATGGCATCGGTGTGAGGTCTCGT
1 GTAAGACCATGTCTGGGACATGGCATCGATATGAGATCTCGT
* * *
18556467 GTAAGACCATGTTTGGGACATGGCATCGACACCAACATGAGA-CTTCAT
1 GTAAGACCATGTCTGGGACATGGCATCG------ATATGAGATC-TCGT
* * * * * *
18556515 ATAAGACCATATCTGGGAAATGACATCGATATGTAGA-CCCAT
1 GTAAGACCATGTCTGGGACATGGCATCGATATG-AGATCTCGT
*
18556557 GTAAGACCATGTCGGGGACATGGC
1 GTAAGACCATGTCTGGGACATGGC
18556581 TTTGGCATTC
Statistics
Matches: 119, Mismatches: 29, Indels: 16
0.73 0.18 0.10
Matches are distributed among these distances:
42 84 0.71
43 4 0.03
47 1 0.01
48 30 0.25
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (42 bp):
GTAAGACCATGTCTGGGACATGGCATCGATATGAGATCTCGT
Found at i:18557879 original size:17 final size:19
Alignment explanation
Indices: 18557854--18557891 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
18557844 GTTACACAGC
18557854 CTGGAG-ACACGGGCGTGT
1 CTGGAGAACACGGGCGTGT
18557872 CTGG-GACACACGGGCGTGT
1 CTGGAGA-ACACGGGCGTGT
18557891 C
1 C
18557892 CCTGTGCCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 1 0.06
18 4 0.22
19 13 0.72
ACGTcount: A:0.16, C:0.26, G:0.42, T:0.16
Consensus pattern (19 bp):
CTGGAGAACACGGGCGTGT
Found at i:18563586 original size:11 final size:11
Alignment explanation
Indices: 18563570--18563633 Score: 51
Period size: 12 Copynumber: 5.8 Consensus size: 11
18563560 TGACCAGACC
18563570 AAAAAAATTAT
1 AAAAAAATTAT
18563581 AAAAAAAATTAT
1 -AAAAAAATTAT
* *
18563593 -TAAAAATCAT
1 AAAAAAATTAT
18563603 -AAAAAATATAT
1 AAAAAAAT-TAT
**
18563614 TTAAAAATTAT
1 AAAAAAATTAT
*
18563625 AGAAAAATT
1 AAAAAAATT
18563634 GCAAATTATT
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
10 14 0.33
11 12 0.28
12 17 0.40
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (11 bp):
AAAAAAATTAT
Found at i:18563597 original size:22 final size:22
Alignment explanation
Indices: 18563572--18563631 Score: 77
Period size: 22 Copynumber: 2.7 Consensus size: 22
18563562 ACCAGACCAA
18563572 AAAAATTATAAAAAAAAT-TATT
1 AAAAATTATAAAAAAAATAT-TT
* *
18563594 AAAAATCATAAAAAATATATTT
1 AAAAATTATAAAAAAAATATTT
*
18563616 AAAAATTATAGAAAAA
1 AAAAATTATAAAAAAA
18563632 TTGCAAATTA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
22 31 0.97
23 1 0.03
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (22 bp):
AAAAATTATAAAAAAAATATTT
Found at i:18563608 original size:20 final size:20
Alignment explanation
Indices: 18563572--18563798 Score: 134
Period size: 20 Copynumber: 11.3 Consensus size: 20
18563562 ACCAGACCAA
18563572 AAAAATTATAAAAAAAATTATT
1 AAAAATTAT--AAAAAATTATT
*
18563594 AAAAATCATAAAAAATATATTT
1 AAAAATTATAAAAAAT-TA-TT
*
18563616 AAAAATTATAGAAAA--ATT
1 AAAAATTATAAAAAATTATT
** *
18563634 GCAAATTAT-TAAAA-TATT
1 AAAAATTATAAAAAATTATT
** * *
18563652 AAATTTTTTTAAAAA-TATT
1 AAAAATTATAAAAAATTATT
* *
18563671 AAATA-TAGTAAATAATTATT
1 AAAAATTA-TAAAAAATTATT
*
18563691 AAATATAGTT-TAAAATATT-TT
1 AAA-A-A-TTATAAAAAATTATT
*
18563712 -AAAATTATAAAAATTTATT
1 AAAAATTATAAAAAATTATT
* **
18563731 AAAAAATATAAACCATTATTT
1 AAAAATTATAAAAAATTA-TT
18563752 AAAAATT-TCAAAAAATTATT
1 AAAAATTAT-AAAAAATTATT
18563772 AAAAATTAT-AAAAATTATTT
1 AAAAATTATAAAAAATTA-TT
18563792 AAAAATT
1 AAAAATT
18563799 GTGAATTTAG
Statistics
Matches: 160, Mismatches: 28, Indels: 36
0.71 0.12 0.16
Matches are distributed among these distances:
17 6 0.04
18 25 0.16
19 29 0.18
20 48 0.30
21 20 0.12
22 31 0.19
24 1 0.01
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (20 bp):
AAAAATTATAAAAAATTATT
Found at i:18563751 original size:41 final size:40
Alignment explanation
Indices: 18563702--18563798 Score: 126
Period size: 41 Copynumber: 2.4 Consensus size: 40
18563692 AATATAGTTT
* *
18563702 AAAA-TATTTTAAAATTAT-AAAAATTTATTAAAAAATATA
1 AAAATTATTTAAAAATT-TCAAAAAATTATTAAAAAATATA
* *
18563741 AACCATTATTTAAAAATTTCAAAAAATTATTAAAAATTATA
1 AA-AATTATTTAAAAATTTCAAAAAATTATTAAAAAATATA
18563782 AAAATTATTTAAAAATT
1 AAAATTATTTAAAAATT
18563799 GTGAATTTAG
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
39 2 0.04
40 16 0.32
41 32 0.64
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (40 bp):
AAAATTATTTAAAAATTTCAAAAAATTATTAAAAAATATA
Found at i:18564041 original size:10 final size:10
Alignment explanation
Indices: 18564026--18564063 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
18564016 ATTATTTACA
18564026 AATTTTTAAT
1 AATTTTTAAT
*
18564036 -ATTTTTTAT
1 AATTTTTAAT
*
18564045 AGTTTTTAAT
1 AATTTTTAAT
18564055 AATTTTTAA
1 AATTTTTAA
18564064 AAAATTAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
9 8 0.35
10 15 0.65
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (10 bp):
AATTTTTAAT
Found at i:18570418 original size:10 final size:10
Alignment explanation
Indices: 18570403--18570521 Score: 65
Period size: 9 Copynumber: 12.2 Consensus size: 10
18570393 TATTTTTCAT
18570403 AAAATTATAA
1 AAAATTATAA
*
18570413 AAAATTTATCTA
1 AAAA-TTAT-AA
*
18570425 GAAA-TAT-A
1 AAAATTATAA
*
18570433 AAAATTATTA
1 AAAATTATAA
*
18570443 AATATTA-AA
1 AAAATTATAA
18570452 AAAA-TAT-A
1 AAAATTATAA
*
18570460 AAAATTGATAT
1 AAAATT-ATAA
* *
18570471 TAATTTAT-A
1 AAAATTATAA
18570480 AAAATTAT-A
1 AAAATTATAA
18570489 AAAATATATAA
1 AAAAT-TATAA
*
18570500 ATAAATTA-CA
1 A-AAATTATAA
18570510 AAAATTATAA
1 AAAATTATAA
18570520 AA
1 AA
18570522 TTGATAAAAC
Statistics
Matches: 83, Mismatches: 14, Indels: 24
0.69 0.12 0.20
Matches are distributed among these distances:
8 11 0.13
9 26 0.31
10 26 0.31
11 12 0.14
12 8 0.10
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.34
Consensus pattern (10 bp):
AAAATTATAA
Found at i:18570460 original size:27 final size:29
Alignment explanation
Indices: 18570426--18570521 Score: 101
Period size: 27 Copynumber: 3.3 Consensus size: 29
18570416 ATTTATCTAG
18570426 AAATATAAAAATTAT-TAAATATTA-AAA
1 AAATATAAAAATTATATAAATATTACAAA
* *
18570453 AAATATAAAAATTGATATTAAT-TTATAAA
1 AAATATAAAAATT-ATATAAATATTACAAA
*
18570482 AATTATAAAAA-TATATAAATAAATTACAAA
1 AAATATAAAAATTATATAAAT--ATTACAAA
*
18570512 AATTATAAAA
1 AAATATAAAA
18570522 TTGATAAAAC
Statistics
Matches: 59, Mismatches: 4, Indels: 9
0.82 0.06 0.12
Matches are distributed among these distances:
27 20 0.34
28 6 0.10
29 17 0.29
30 16 0.27
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.33
Consensus pattern (29 bp):
AAATATAAAAATTATATAAATATTACAAA
Found at i:18570522 original size:21 final size:21
Alignment explanation
Indices: 18570481--18570520 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
18570471 TAATTTATAA
*
18570481 AAATTATAAAAATATATAAAT
1 AAATTACAAAAATATATAAAT
18570502 AAATTACAAAAAT-TATAAA
1 AAATTACAAAAATATATAAA
18570521 ATTGATAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (21 bp):
AAATTACAAAAATATATAAAT
Found at i:18570628 original size:22 final size:22
Alignment explanation
Indices: 18570599--18570643 Score: 74
Period size: 21 Copynumber: 2.1 Consensus size: 22
18570589 AAATTATTTT
*
18570599 TAAAAAAAAGTA-TAAATTTGA
1 TAAAAAAAAGTATTAAAATTGA
18570620 TAAAAAAAAGTATTAAAATTGA
1 TAAAAAAAAGTATTAAAATTGA
18570642 TA
1 TA
18570644 TAAAGTTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 12 0.55
22 10 0.45
ACGTcount: A:0.62, C:0.00, G:0.09, T:0.29
Consensus pattern (22 bp):
TAAAAAAAAGTATTAAAATTGA
Found at i:18571083 original size:9 final size:9
Alignment explanation
Indices: 18571066--18571273 Score: 50
Period size: 10 Copynumber: 21.4 Consensus size: 9
18571056 TTATGATTTT
18571066 TTTTATATAA
1 TTTT-TATAA
18571076 TTTTTATAA
1 TTTTTATAA
*
18571085 GTTTATATCAA
1 -TTTTTAT-AA
*
18571096 TTTTAAT-A
1 TTTTTATAA
*
18571104 TTTTTAATACT
1 TTTTT-ATA-A
18571115 TTTTTATAAA
1 TTTTTAT-AA
18571125 TTTTTTTATAA
1 --TTTTTATAA
*
18571136 TATTTTAAGAA
1 T-TTTT-ATAA
* *
18571147 TTCTAATAA
1 TTTTTATAA
*
18571156 GTTTTTTTAAA
1 -TTTTTAT-AA
* *
18571167 ATTTTAAAGA
1 TTTTTATA-A
*
18571177 TTTTAAATAA
1 TTTT-TATAA
*
18571187 GTTTTATTAA
1 TTTTTA-TAA
18571197 --TTTAT-A
1 TTTTTATAA
18571203 TTTTTATAA
1 TTTTTATAA
**
18571212 TTTATTGGAA
1 TTT-TTATAA
18571222 TTTATTAT-A
1 TTT-TTATAA
18571231 -TTTTATAA
1 TTTTTATAA
*
18571239 TATTTATAA
1 TTTTTATAA
18571248 GTTTTTTTTATAA
1 ----TTTTTATAA
*
18571261 TTTTAATAA
1 TTTTTATAA
18571270 TTTT
1 TTTT
18571274 ACATCAATTA
Statistics
Matches: 145, Mismatches: 28, Indels: 51
0.65 0.12 0.23
Matches are distributed among these distances:
6 1 0.01
7 5 0.03
8 17 0.12
9 37 0.26
10 52 0.36
11 18 0.12
12 7 0.05
13 8 0.06
ACGTcount: A:0.36, C:0.01, G:0.04, T:0.59
Consensus pattern (9 bp):
TTTTTATAA
Found at i:18571133 original size:12 final size:13
Alignment explanation
Indices: 18571104--18571141 Score: 53
Period size: 12 Copynumber: 3.1 Consensus size: 13
18571094 AATTTTAATA
*
18571104 TTTT-TAATACTT
1 TTTTATAATATTT
18571116 TTTTATAA-ATTT
1 TTTTATAATATTT
18571128 TTTTATAATATTT
1 TTTTATAATATTT
18571141 T
1 T
18571142 AAGAATTCTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
12 15 0.65
13 8 0.35
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (13 bp):
TTTTATAATATTT
Found at i:18571171 original size:30 final size:32
Alignment explanation
Indices: 18571120--18571196 Score: 88
Period size: 31 Copynumber: 2.4 Consensus size: 32
18571110 ATACTTTTTT
*
18571120 ATAAATTTTTTTATAATATTTT-AAGAATTCT-A
1 ATAAGTTTTTTTA-AATATTTTAAAG-ATTCTAA
*
18571152 ATAAGTTTTTTTAAA-ATTTTAAAGATTTTAA
1 ATAAGTTTTTTTAAATATTTTAAAGATTCTAA
*
18571183 ATAAGTTTTATTAA
1 ATAAGTTTTTTTAA
18571197 TTTATATTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
30 9 0.22
31 19 0.47
32 12 0.30
ACGTcount: A:0.42, C:0.01, G:0.05, T:0.52
Consensus pattern (32 bp):
ATAAGTTTTTTTAAATATTTTAAAGATTCTAA
Found at i:18571259 original size:22 final size:21
Alignment explanation
Indices: 18571231--18571273 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
18571221 ATTTATTATA
18571231 TTTTATAATATTT-ATAAGTTTT
1 TTTTATAAT-TTTAATAA-TTTT
18571253 TTTTATAATTTTAATAATTTT
1 TTTTATAATTTTAATAATTTT
18571274 ACATCAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (21 bp):
TTTTATAATTTTAATAATTTT
Found at i:18572147 original size:22 final size:22
Alignment explanation
Indices: 18572122--18572179 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
18572112 CAATAACAAT
* * *
18572122 AAAATAATAGCAATATAATAGC
1 AAAATAATAGCAAAACAATAAC
**
18572144 AAAATGGTAGCAAAACAATAAC
1 AAAATAATAGCAAAACAATAAC
*
18572166 AAAACAATAGCAAA
1 AAAATAATAGCAAA
18572180 CAACAAAACA
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.62, C:0.12, G:0.10, T:0.16
Consensus pattern (22 bp):
AAAATAATAGCAAAACAATAAC
Found at i:18572182 original size:10 final size:11
Alignment explanation
Indices: 18572122--18572179 Score: 53
Period size: 11 Copynumber: 5.3 Consensus size: 11
18572112 CAATAACAAT
*
18572122 AAAATAATAGC
1 AAAACAATAGC
* *
18572133 AATATAATAGC
1 AAAACAATAGC
***
18572144 AAAATGGTAGC
1 AAAACAATAGC
*
18572155 AAAACAATAAC
1 AAAACAATAGC
18572166 AAAACAATAGC
1 AAAACAATAGC
18572177 AAA
1 AAA
18572180 CAACAAAACA
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
11 38 1.00
ACGTcount: A:0.62, C:0.12, G:0.10, T:0.16
Consensus pattern (11 bp):
AAAACAATAGC
Found at i:18572186 original size:18 final size:18
Alignment explanation
Indices: 18572163--18572203 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
18572153 GCAAAACAAT
18572163 AACAAAACAATAGCAAAC
1 AACAAAACAATAGCAAAC
* *
18572181 AACAAAACAGTAGTAAAC
1 AACAAAACAATAGCAAAC
18572199 AACAA
1 AACAA
18572204 TGAAAAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.66, C:0.20, G:0.07, T:0.07
Consensus pattern (18 bp):
AACAAAACAATAGCAAAC
Found at i:18579835 original size:21 final size:20
Alignment explanation
Indices: 18579811--18579878 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 20
18579801 TAAGCTTTAG
18579811 TTAACTCGTATGAGTTTCAGT
1 TTAACTC-TATGAGTTTCAGT
* *
18579832 TTAACCCTATTGGGTTTTCA-T
1 TTAACTCTA-TGAG-TTTCAGT
* *
18579853 TTAGCTCTTTCGAGTTTCAGT
1 TTAACTCTAT-GAGTTTCAGT
18579874 TTAAC
1 TTAAC
18579879 CCTTATGGGT
Statistics
Matches: 36, Mismatches: 7, Indels: 8
0.71 0.14 0.16
Matches are distributed among these distances:
20 8 0.22
21 23 0.64
22 5 0.14
ACGTcount: A:0.21, C:0.18, G:0.16, T:0.46
Consensus pattern (20 bp):
TTAACTCTATGAGTTTCAGT
Found at i:18579890 original size:21 final size:21
Alignment explanation
Indices: 18579819--18579891 Score: 62
Period size: 21 Copynumber: 3.5 Consensus size: 21
18579809 AGTTAACTCG
18579819 TATGAGTTTCAGTTTAACCC-
1 TATGAGTTTCAGTTTAACCCT
* * *
18579839 TATTGGGTTTTCA-TTTAGCTCT
1 TA-TGAG-TTTCAGTTTAACCCT
18579861 T-TCGAGTTTCAGTTTAACCCT
1 TAT-GAGTTTCAGTTTAACCCT
*
18579882 TATGGGTTTC
1 TATGAGTTTC
18579892 CGTTCAGCTT
Statistics
Matches: 40, Mismatches: 7, Indels: 11
0.69 0.12 0.19
Matches are distributed among these distances:
20 8 0.20
21 25 0.62
22 7 0.17
ACGTcount: A:0.18, C:0.18, G:0.18, T:0.47
Consensus pattern (21 bp):
TATGAGTTTCAGTTTAACCCT
Found at i:18587495 original size:21 final size:21
Alignment explanation
Indices: 18587471--18587538 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 21
18587461 ACTCGTATGA
18587471 GTTTCAGTTTAACCTTATTGG
1 GTTTCAGTTTAACCTTATTGG
* * * *
18587492 GTTTCTGTTTAGCTCTT-TCGA
1 GTTTCAGTTTAAC-CTTATTGG
*
18587513 GTTCCAGTTTAACCCTTA-TGG
1 GTTTCAGTTTAA-CCTTATTGG
18587534 GTTTC
1 GTTTC
18587539 TGTTCAATGA
Statistics
Matches: 34, Mismatches: 10, Indels: 6
0.68 0.20 0.12
Matches are distributed among these distances:
21 30 0.88
22 4 0.12
ACGTcount: A:0.15, C:0.19, G:0.19, T:0.47
Consensus pattern (21 bp):
GTTTCAGTTTAACCTTATTGG
Found at i:18591387 original size:22 final size:21
Alignment explanation
Indices: 18591360--18591407 Score: 73
Period size: 20 Copynumber: 2.3 Consensus size: 21
18591350 GCTTTGAATA
18591360 AATTAATTTTAAATATATTTTT
1 AATTAA-TTTAAATATATTTTT
18591382 AATTAA-TTAAATATATTTTT
1 AATTAATTTAAATATATTTTT
18591402 -ATTAAT
1 AATTAAT
18591408 AGAAACCAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 5 0.20
20 14 0.56
22 6 0.24
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
AATTAATTTAAATATATTTTT
Found at i:18593536 original size:40 final size:40
Alignment explanation
Indices: 18593499--18593772 Score: 313
Period size: 40 Copynumber: 6.7 Consensus size: 40
18593489 GCTACTCGTT
* *
18593499 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
18593539 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
18593579 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCC-G-----G---ATTTAGTAACTCGCA
18593627 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
18593667 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * * *
18593707 CAAATGCCTTC-GGATCTTAGTCTGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
18593748 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
18593773 CATCATTCAA
Statistics
Matches: 207, Mismatches: 13, Indels: 28
0.83 0.05 0.11
Matches are distributed among these distances:
39 10 0.05
40 145 0.70
41 13 0.06
43 1 0.00
45 1 0.00
48 30 0.14
49 7 0.03
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:18593676 original size:88 final size:89
Alignment explanation
Indices: 18593527--18593699 Score: 321
Period size: 88 Copynumber: 2.0 Consensus size: 89
18593517 AGCCCGGTTA
18593527 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGG
1 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGG
*
18593592 G-CTTAGCCCGGAATTAGTATATT
66 GACTTAACCCGGAATTAGTATATT
18593615 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGG
1 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGG
*
18593680 GACTTAACCCGGATTTAGTA
66 GACTTAACCCGGAATTAGTA
18593700 ACTCGCACAA
Statistics
Matches: 82, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
88 66 0.80
89 16 0.20
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (89 bp):
TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGG
GACTTAACCCGGAATTAGTATATT
Found at i:18600600 original size:31 final size:30
Alignment explanation
Indices: 18600543--18600601 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
18600533 GTAAATACTC
* * * *
18600543 AAAATTTGAGGGATTAAAGTGTAAATATGA
1 AAAAGTTGAAGGACTAAAGTGCAAATATGA
18600573 AAAAGTTGAAGGACTAATAGTGCAAATAT
1 AAAAGTTGAAGGACTAA-AGTGCAAATAT
18600602 TTTAAGGGTG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 14 0.58
31 10 0.42
ACGTcount: A:0.47, C:0.03, G:0.22, T:0.27
Consensus pattern (30 bp):
AAAAGTTGAAGGACTAAAGTGCAAATATGA
Found at i:18600862 original size:29 final size:31
Alignment explanation
Indices: 18600814--18600877 Score: 80
Period size: 29 Copynumber: 2.1 Consensus size: 31
18600804 TTTATAGTTA
*
18600814 TTTAATTAGATAATTGTTATT-TATTTAATAT
1 TTTAATAAGATAATTGTTATTAT-TTTAATAT
*
18600845 TTTAATAAGAT-ATT-TTATTATTTTATTAT
1 TTTAATAAGATAATTGTTATTATTTTAATAT
18600874 TTTA
1 TTTA
18600878 TTTAGTCTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 16 0.53
30 4 0.13
31 10 0.33
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (31 bp):
TTTAATAAGATAATTGTTATTATTTTAATAT
Found at i:18600866 original size:8 final size:8
Alignment explanation
Indices: 18600855--18600879 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
18600845 TTTAATAAGA
18600855 TATTTTAT
1 TATTTTAT
18600863 TATTTTAT
1 TATTTTAT
18600871 TATTTTAT
1 TATTTTAT
18600879 T
1 T
18600880 TAGTCTATAT
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:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTTTAT
Found at i:18604337 original size:30 final size:29
Alignment explanation
Indices: 18604282--18604339 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
18604272 TAAAAATTTT
* *
18604282 AAAATTATAACAACTATTTAAAAAAATAA
1 AAAATTATAAAAACTATTAAAAAAAATAA
18604311 AAAATTAATAAAAACTA-TAAACAAAAATA
1 AAAATT-ATAAAAACTATTAAA-AAAAATA
18604340 TTTTTAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 9 0.36
30 16 0.64
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (29 bp):
AAAATTATAAAAACTATTAAAAAAAATAA
Found at i:18612361 original size:23 final size:23
Alignment explanation
Indices: 18612320--18612400 Score: 83
Period size: 23 Copynumber: 3.5 Consensus size: 23
18612310 CTAAAGTGCC
* * * *
18612320 AGTAATAGAAGCACCAAAGTGCT
1 AGTAACAGAAGTAACAAAGTACT
*
18612343 AGTAACAAAAGTATA-AAAGTACT
1 AGTAACAGAAGTA-ACAAAGTACT
* *
18612366 AATAACAGAAGTAACGAAGTACT
1 AGTAACAGAAGTAACAAAGTACT
18612389 AGTAACAGAAGT
1 AGTAACAGAAGT
18612401 CATCTATTGA
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
22 1 0.02
23 46 0.98
ACGTcount: A:0.51, C:0.12, G:0.19, T:0.19
Consensus pattern (23 bp):
AGTAACAGAAGTAACAAAGTACT
Done.