Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
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: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 65 of 230
Found at i:18059221 original size:38 final size:38
Alignment explanation
Indices: 18059141--18059222 Score: 119
Period size: 38 Copynumber: 2.2 Consensus size: 38
18059131 GGTTACAAAC
* * * *
18059141 TTTATATGTTTTTTATATGTTTATCTCACAAATTTTCT
1 TTTATCTGTTTTTTACATGTTTATCTCACAAAGTTTCG
*
18059179 TTTATCTGTTTTTTACATGTTTATCTCACAAAGTTTGG
1 TTTATCTGTTTTTTACATGTTTATCTCACAAAGTTTCG
18059217 TTTATC
1 TTTATC
18059223 AATTGTTTTA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.22, C:0.12, G:0.09, T:0.57
Consensus pattern (38 bp):
TTTATCTGTTTTTTACATGTTTATCTCACAAAGTTTCG
Found at i:18059334 original size:3 final size:3
Alignment explanation
Indices: 18059326--18059351 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
18059316 AGGGATTCAT
18059326 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
18059352 TGATTCATTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:18062520 original size:43 final size:42
Alignment explanation
Indices: 18062471--18062692 Score: 230
Period size: 43 Copynumber: 5.2 Consensus size: 42
18062461 CGTTTTTTGT
* * *
18062471 GGCGTTTTTGCGAGAAGCGTCACTAAAGGTCATGTTCTTTAGC
1 GGCGTTTGTGC-AAAAGCGTCGCTAAAGGTCATGTTCTTTAGC
* * * *
18062514 GGCGTTTATGAGAAAAGCATTGCTAAAGGTCATGTTCTTTAGC
1 GGCGTTTGTG-CAAAAGCGTCGCTAAAGGTCATGTTCTTTAGC
* * * *
18062557 GGCATTTGTGACAAAAGCGCCGCTAAAAGTCATGTTCTTTAGT
1 GGCGTTTGTG-CAAAAGCGTCGCTAAAGGTCATGTTCTTTAGC
18062600 GGCGTTTGTGACAAAAGC-TCCGCTAAAGGTCATGTTCTTTAGC
1 GGCGTTTGTG-CAAAAGCGT-CGCTAAAGGTCATGTTCTTTAGC
* * * * **
18062643 AGCGTTTGTGATAAAAGCGCCACTAAAGGTCATGGCCTTTAGC
1 GGCGTTTGTG-CAAAAGCGTCGCTAAAGGTCATGTTCTTTAGC
18062686 GGCGTTT
1 GGCGTTT
18062693 TTTCACATAA
Statistics
Matches: 151, Mismatches: 25, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
43 151 1.00
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (42 bp):
GGCGTTTGTGCAAAAGCGTCGCTAAAGGTCATGTTCTTTAGC
Found at i:18062630 original size:86 final size:86
Alignment explanation
Indices: 18062485--18062692 Score: 292
Period size: 86 Copynumber: 2.4 Consensus size: 86
18062475 TTTTTGCGAG
* * *
18062485 AAGCGTCACTAAAGGTCATGTTCTTTAGCGGCGTTTATGAGAAAAGCATTGCTAAAGGTCATGTT
1 AAGCGCCACTAAAGGTCATGTTCTTTAGCGGCGTTTATGACAAAAGCATCGCTAAAGGTCATGTT
*
18062550 CTTTAGCGGCATTTGTGACAA
66 CTTTAGCAGCATTTGTGACAA
* * * *
18062571 AAGCGCCGCTAAAAGTCATGTTCTTTAGTGGCGTTTGTGACAAAAGC-TCCGCTAAAGGTCATGT
1 AAGCGCCACTAAAGGTCATGTTCTTTAGCGGCGTTTATGACAAAAGCAT-CGCTAAAGGTCATGT
* *
18062635 TCTTTAGCAGCGTTTGTGATAA
65 TCTTTAGCAGCATTTGTGACAA
**
18062657 AAGCGCCACTAAAGGTCATGGCCTTTAGCGGCGTTT
1 AAGCGCCACTAAAGGTCATGTTCTTTAGCGGCGTTT
18062693 TTTCACATAA
Statistics
Matches: 106, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
85 1 0.01
86 105 0.99
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (86 bp):
AAGCGCCACTAAAGGTCATGTTCTTTAGCGGCGTTTATGACAAAAGCATCGCTAAAGGTCATGTT
CTTTAGCAGCATTTGTGACAA
Found at i:18066918 original size:25 final size:26
Alignment explanation
Indices: 18066883--18066933 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
18066873 TTTTTGGTTA
* *
18066883 ATAACATTATA-AAAATAGTATATTT
1 ATAACAGTATACAAAACAGTATATTT
18066908 ATAACAGTATACTAAAACAGTATATT
1 ATAACAGTATAC-AAAACAGTATATT
18066934 AAAACAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 10 0.45
27 12 0.55
ACGTcount: A:0.51, C:0.08, G:0.06, T:0.35
Consensus pattern (26 bp):
ATAACAGTATACAAAACAGTATATTT
Found at i:18066931 original size:27 final size:27
Alignment explanation
Indices: 18066894--18067008 Score: 91
Period size: 27 Copynumber: 4.5 Consensus size: 27
18066884 TAACATTATA
* * *
18066894 AAAATAGTATATTTATAACAGTATACT
1 AAAACAGTATATTTAAAACAGTATATT
*
18066921 AAAACAGTATA-TTAAAACAATATATTT
1 AAAACAGTATATTTAAAACAGTATA-TT
* * *
18066948 ATAACAGTACA-TTAAAATAGTATATT
1 AAAACAGTATATTTAAAACAGTATATT
* *
18066974 ---ACA-AAT-TTTATAACAGTATATT
1 AAAACAGTATATTTAAAACAGTATATT
18066996 AAAACAGTATATT
1 AAAACAGTATATT
18067009 ACATTAAAAA
Statistics
Matches: 68, Mismatches: 13, Indels: 14
0.72 0.14 0.15
Matches are distributed among these distances:
22 14 0.21
23 3 0.04
25 3 0.04
26 15 0.22
27 33 0.49
ACGTcount: A:0.50, C:0.08, G:0.06, T:0.36
Consensus pattern (27 bp):
AAAACAGTATATTTAAAACAGTATATT
Found at i:18066945 original size:13 final size:13
Alignment explanation
Indices: 18066894--18067009 Score: 105
Period size: 13 Copynumber: 9.1 Consensus size: 13
18066884 TAACATTATA
*
18066894 AAAATAGTATATTT
1 AAAACAGTATA-TT
* *
18066908 ATAACAGTATACT
1 AAAACAGTATATT
18066921 AAAACAGTATATT
1 AAAACAGTATATT
*
18066934 AAAACAATATATTT
1 AAAACAGTATA-TT
* *
18066948 ATAACAGTACATT
1 AAAACAGTATATT
*
18066961 AAAATAGTATATT
1 AAAACAGTATATT
*
18066974 ACAA-A-T-T-TT
1 AAAACAGTATATT
*
18066983 ATAACAGTATATT
1 AAAACAGTATATT
18066996 AAAACAGTATATT
1 AAAACAGTATATT
18067009 A
1 A
18067010 CATTAAAAAT
Statistics
Matches: 82, Mismatches: 15, Indels: 11
0.76 0.14 0.10
Matches are distributed among these distances:
9 5 0.06
10 2 0.02
11 2 0.02
12 2 0.02
13 52 0.63
14 19 0.23
ACGTcount: A:0.51, C:0.08, G:0.06, T:0.35
Consensus pattern (13 bp):
AAAACAGTATATT
Found at i:18066948 original size:40 final size:38
Alignment explanation
Indices: 18066901--18067009 Score: 152
Period size: 40 Copynumber: 2.9 Consensus size: 38
18066891 ATAAAAATAG
*
18066901 TATATTTATAACAGTATACTAAAACAGTATATTAAAACAA
1 TATATTTATAACAGTATATTAAAACAGTATATT--AACAA
* *
18066941 TATATTTATAACAGTACATTAAAATAGTATATT-ACAA
1 TATATTTATAACAGTATATTAAAACAGTATATTAACAA
18066978 -AT-TTTATAACAGTATATTAAAACAGTATATTA
1 TATATTTATAACAGTATATTAAAACAGTATATTA
18067010 CATTAAAAAT
Statistics
Matches: 63, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
35 27 0.43
36 2 0.03
37 4 0.06
40 30 0.48
ACGTcount: A:0.50, C:0.08, G:0.06, T:0.37
Consensus pattern (38 bp):
TATATTTATAACAGTATATTAAAACAGTATATTAACAA
Found at i:18066991 original size:35 final size:37
Alignment explanation
Indices: 18066901--18067011 Score: 154
Period size: 35 Copynumber: 3.0 Consensus size: 37
18066891 ATAAAAATAG
*
18066901 TATATTTATAACAGTATACTAAAACAGTATATTAAAACAA
1 TATATTTATAACAGTATATTAAAACAGTATATT---ACAA
* *
18066941 TATATTTATAACAGTACATTAAAATAGTATATTACAA
1 TATATTTATAACAGTATATTAAAACAGTATATTACAA
18066978 -AT-TTTATAACAGTATATTAAAACAGTATATTACA
1 TATATTTATAACAGTATATTAAAACAGTATATTACA
18067012 TTAAAAATTA
Statistics
Matches: 66, Mismatches: 5, Indels: 5
0.87 0.07 0.07
Matches are distributed among these distances:
35 30 0.45
36 2 0.03
37 4 0.06
40 30 0.45
ACGTcount: A:0.50, C:0.09, G:0.05, T:0.36
Consensus pattern (37 bp):
TATATTTATAACAGTATATTAAAACAGTATATTACAA
Found at i:18068002 original size:18 final size:18
Alignment explanation
Indices: 18067979--18068018 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
18067969 TTTTTAAGTA
18067979 AATAAAAATGTTGCAAAG
1 AATAAAAATGTTGCAAAG
18067997 AATAAAAATGTTGCAAAG
1 AATAAAAATGTTGCAAAG
18068015 AATA
1 AATA
18068019 CTATACTAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.57, C:0.05, G:0.15, T:0.23
Consensus pattern (18 bp):
AATAAAAATGTTGCAAAG
Found at i:18078952 original size:21 final size:22
Alignment explanation
Indices: 18078912--18078954 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
18078902 AACATTAGTT
18078912 GAAAAAAATAAATATGTACATAA
1 GAAAAAAATAAATA-GTACATAA
18078935 GAAAAAAATAAATA-TACATA
1 GAAAAAAATAAATAGTACATA
18078955 TATATATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 6 0.30
23 14 0.70
ACGTcount: A:0.67, C:0.05, G:0.07, T:0.21
Consensus pattern (22 bp):
GAAAAAAATAAATAGTACATAA
Found at i:18081594 original size:42 final size:42
Alignment explanation
Indices: 18081535--18081867 Score: 322
Period size: 42 Copynumber: 7.9 Consensus size: 42
18081525 CAGCGTTTAC
*
18081535 AGAAAAAAACGCCGCTAAA-AGTCATGTTCTTTAGCGGCGCAT
1 AGAAAAAAACGCCGCTAAAGA-TCATGTTCTTTAGCGGCGCTT
*
18081577 AGAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGTGCTATT
1 AGAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGC--TT
** * *
18081621 A-TCACAAACGCCGCTAAA-AGTAATGTTCTTTAGCGGCGCTT
1 AGAAAAAAACGCCGCTAAAGA-TCATGTTCTTTAGCGGCGCTT
* *
18081662 A-AAAAAAGACGCCGTTAAAGATCATGTTCTTTAGTGGCGCTT
1 AGAAAAAA-ACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
* * *
18081704 A-ACGAAAAACGCCGCTAAAGATAATGTTTTTTAGCGGCGCTT
1 AGA-AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
* * *
18081746 TGTAAAAAATGCCGCTAAAGATCATGTAT-TTTAGCGGCGCTT
1 AGAAAAAAACGCCGCTAAAGATCATGT-TCTTTAGCGGCGCTT
** * * * * *
18081788 TTATCACAAACGCCGCGAAA-AGTAATGTTCTTTAGCGGCACTT
1 AGA-AAAAAACGCCGCTAAAGA-TCATGTTCTTTAGCGGCGCTT
* *
18081831 AG-AAAAGACGCCACTAAAGATCATGTTCTTTAGCGGC
1 AGAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGC
18081868 ACTTTTTATC
Statistics
Matches: 239, Mismatches: 39, Indels: 27
0.78 0.13 0.09
Matches are distributed among these distances:
41 33 0.14
42 137 0.57
43 67 0.28
44 2 0.01
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.26
Consensus pattern (42 bp):
AGAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
Found at i:18081639 original size:85 final size:85
Alignment explanation
Indices: 18081541--18081915 Score: 483
Period size: 85 Copynumber: 4.4 Consensus size: 85
18081531 TTACAGAAAA
* *
18081541 AAACGCCGCTAAAAGTCATGTTCTTTAGCGGCGCATAGAAAAAAACGCCGCTAAAGATCATGTTC
1 AAACGCCGCTAAAAGTAATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTTC
* *
18081606 TTTAGCGGTGCTATTATCAC
66 TTTAGCGGCGCTTTTATCAC
*
18081626 AAACGCCGCTAAAAGTAATGTTCTTTAGCGGCGCTTA-AAAAAAGACGCCGTTAAAGATCATGTT
1 AAACGCCGCTAAAAGTAATGTTCTTTAGCGGCGCTTAGAAAAAA-ACGCCGCTAAAGATCATGTT
* * *
18081690 CTTTAGTGGCGC--TTAACGAA
65 CTTTAGCGGCGCTTTTATC-AC
* * * *
18081710 AAACGCCGCT-AAAGATAATGTTTTTTAGCGGCGCTTTGTAAAAAATGCCGCTAAAGATCATGTA
1 AAACGCCGCTAAAAG-TAATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGT-
18081774 T-TTTAGCGGCGCTTTTATCAC
64 TCTTTAGCGGCGCTTTTATCAC
* * * *
18081795 AAACGCCGCGAAAAGTAATGTTCTTTAGCGGCACTTAG-AAAAGACGCCACTAAAGATCATGTTC
1 AAACGCCGCTAAAAGTAATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTTC
* *
18081859 TTTAGCGGCACTTTTTATCTC
66 TTTAGCGGCGC-TTTTATCAC
* *
18081880 AAACGCCGCGAAAAGTAATGTTCTTTGGCGGCGCTT
1 AAACGCCGCTAAAAGTAATGTTCTTTAGCGGCGCTT
18081916 TCTTGACAAA
Statistics
Matches: 254, Mismatches: 26, Indels: 20
0.85 0.09 0.07
Matches are distributed among these distances:
83 9 0.04
84 95 0.37
85 142 0.56
86 8 0.03
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.28
Consensus pattern (85 bp):
AAACGCCGCTAAAAGTAATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTTC
TTTAGCGGCGCTTTTATCAC
Found at i:18081818 original size:169 final size:168
Alignment explanation
Indices: 18081539--18081913 Score: 495
Period size: 169 Copynumber: 2.2 Consensus size: 168
18081529 GTTTACAGAA
*
18081539 AAAAACGCCGCTAAAAGTCATGTTCTTTAGCGGCGCATAGAAAAAAACGCCGCTAAAGATCATGT
1 AAAAACGCCGCTAAAAGTAATGTTCTTTAGCGGCGCATAGAAAAAAACGCCGCTAAAGATCATGT
* * *
18081604 TCTTTAGCGGTGCTATTATCACAAACGCCGCTAAAAGTAATGTTCTTTAGCGGCGCTTAAAAAAA
66 TCTTTAGCGGCGCTATTATCACAAACGCCGCGAAAAGTAATGTTCTTTAGCGGCACTT-AAAAAA
**
18081669 GACGCCGTTAAAGATCATGTTCTTTAGTGGCGCTTAACG
130 GACGCCACTAAAGATCATGTTCTTTAGTGGCGCTTAACG
* * * * *
18081708 AAAAACGCCGCT-AAAGATAATGTTTTTTAGCGGCGCTTTGTAAAAAATGCCGCTAAAGATCATG
1 AAAAACGCCGCTAAAAG-TAATGTTCTTTAGCGGCGCATAGAAAAAAACGCCGCTAAAGATCATG
* *
18081772 TAT-TTTAGCGGCGCTTTTATCACAAACGCCGCGAAAAGTAATGTTCTTTAGCGGCACTTAGAAA
65 T-TCTTTAGCGGCGCTATTATCACAAACGCCGCGAAAAGTAATGTTCTTTAGCGGCACTTAAAAA
* * *
18081836 AGACGCCACTAAAGATCATGTTCTTTAGCGGCACTTTTTATC-
129 AGACGCCACTAAAGATCATGTTCTTTAGTGGCGC---TTAACG
** * *
18081878 TCAAACGCCGCGAAAAGTAATGTTCTTTGGCGGCGC
1 AAAAACGCCGCTAAAAGTAATGTTCTTTAGCGGCGC
18081914 TTTCTTGACA
Statistics
Matches: 179, Mismatches: 21, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
168 38 0.21
169 106 0.59
170 27 0.15
171 8 0.04
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (168 bp):
AAAAACGCCGCTAAAAGTAATGTTCTTTAGCGGCGCATAGAAAAAAACGCCGCTAAAGATCATGT
TCTTTAGCGGCGCTATTATCACAAACGCCGCGAAAAGTAATGTTCTTTAGCGGCACTTAAAAAAG
ACGCCACTAAAGATCATGTTCTTTAGTGGCGCTTAACG
Found at i:18081903 original size:44 final size:43
Alignment explanation
Indices: 18081541--18081931 Score: 177
Period size: 42 Copynumber: 9.2 Consensus size: 43
18081531 TTACAGAAAA
* * * * ** * *
18081541 AAACGCCGCTAAAAGTCATGTTCTTTAGCGGCGCATAGA-AAA
1 AAACGCCGCGAAAAGTAATGTTCTTTAGCGGCACTTTTATCAC
* * ** *
18081583 AAACGCCGC-TAAAGATCATGTTCTTTAGCGGTGCTATTATCAC
1 AAACGCCGCGAAAAG-TAATGTTCTTTAGCGGCACTTTTATCAC
* * ** *
18081626 AAACGCCGCTAAAAGTAATGTTCTTTAGCGGCGC--TTAAAAA
1 AAACGCCGCGAAAAGTAATGTTCTTTAGCGGCACTTTTATCAC
** * * * * *
18081667 AAGACGCCG-TTAAAGATCATGTTCTTTAGTGGCGC--TTAACGAA
1 AA-ACGCCGCGAAAAG-TAATGTTCTTTAGCGGCACTTTTATC-AC
* * * *
18081710 AAACGCCGC-TAAAGATAATGTTTTTTAGCGGCGCTTTGTA--AA
1 AAACGCCGCGAAAAG-TAATGTTCTTTAGCGGCACTTT-TATCAC
* * * *
18081752 AAATGCCGC-TAAAGATCATGTAT-TTTAGCGGCGCTTTTATCAC
1 AAACGCCGCGAAAAG-TAATGT-TCTTTAGCGGCACTTTTATCAC
* *
18081795 AAACGCCGCGAAAAGTAATGTTCTTTAGCGGCAC--TTA-GAA
1 AAACGCCGCGAAAAGTAATGTTCTTTAGCGGCACTTTTATCAC
* * * *
18081835 AAGACGCCAC-TAAAGATCATGTTCTTTAGCGGCACTTTTTATCTC
1 AA-ACGCCGCGAAAAG-TAATGTTCTTTAGCGGCAC-TTTTATCAC
* * *
18081880 AAACGCCGCGAAAAGTAATGTTCTTTGGCGGCGCTTTCT-TGAC
1 AAACGCCGCGAAAAGTAATGTTCTTTAGCGGCACTTT-TATCAC
18081923 AAACGCCGC
1 AAACGCCGC
18081932 TATAGAACAC
Statistics
Matches: 283, Mismatches: 43, Indels: 45
0.76 0.12 0.12
Matches are distributed among these distances:
40 7 0.02
41 44 0.16
42 119 0.42
43 70 0.25
44 35 0.12
45 8 0.03
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.27
Consensus pattern (43 bp):
AAACGCCGCGAAAAGTAATGTTCTTTAGCGGCACTTTTATCAC
Found at i:18082388 original size:21 final size:21
Alignment explanation
Indices: 18082364--18082431 Score: 109
Period size: 21 Copynumber: 3.2 Consensus size: 21
18082354 CTTCTCTCGA
18082364 TGCTTCTCTCGCTGCAGCCTC
1 TGCTTCTCTCGCTGCAGCCTC
18082385 TGCTTCTCTCGCTGCAGCCTC
1 TGCTTCTCTCGCTGCAGCCTC
* * *
18082406 TACTTCCCTCGCTGCCGCCTC
1 TGCTTCTCTCGCTGCAGCCTC
18082427 TGCTT
1 TGCTT
18082432 TAAGTTGCAG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.04, C:0.44, G:0.18, T:0.34
Consensus pattern (21 bp):
TGCTTCTCTCGCTGCAGCCTC
Found at i:18088014 original size:16 final size:16
Alignment explanation
Indices: 18087993--18088032 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
18087983 ATGTAAGCTA
*
18087993 TATGTAAGTTGTATT-T
1 TATGTAAGTTAT-TTAT
18088009 TATGTAAGTTATTTAT
1 TATGTAAGTTATTTAT
18088025 TATGTAAG
1 TATGTAAG
18088033 CTAAGTAAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 2 0.09
16 20 0.91
ACGTcount: A:0.30, C:0.00, G:0.17, T:0.53
Consensus pattern (16 bp):
TATGTAAGTTATTTAT
Found at i:18088040 original size:25 final size:25
Alignment explanation
Indices: 18088012--18088082 Score: 76
Period size: 25 Copynumber: 2.8 Consensus size: 25
18088002 TGTATTTTAT
18088012 GTAAGTTATTTATTATGTAAGCTAA
1 GTAAGTTATTTATTATGTAAGCTAA
* *
18088037 GTAAGTTGA-GTATTATGTAAGCTAT
1 GTAAGTT-ATTTATTATGTAAGCTAA
18088062 GT-A-TTATGTTAGTTATGTAAG
1 GTAAGTTAT-TTA-TTATGTAAG
18088083 TTATGTATTA
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
22 1 0.03
23 2 0.05
24 3 0.08
25 32 0.82
26 1 0.03
ACGTcount: A:0.32, C:0.03, G:0.21, T:0.44
Consensus pattern (25 bp):
GTAAGTTATTTATTATGTAAGCTAA
Found at i:18088053 original size:41 final size:41
Alignment explanation
Indices: 18087983--18088105 Score: 133
Period size: 41 Copynumber: 3.0 Consensus size: 41
18087973 ATTGTGTAGA
* *
18087983 ATGTAAGCTATATGTAAGTTGTA-TTTTATGTAAGTTATTTATT
1 ATGTAAGCTA-A-GTAAGTTG-AGTATTATGTAAGTTATGTATT
*
18088026 ATGTAAGCTAAGTAAGTTGAGTATTATGTAAGCTATGTATT
1 ATGTAAGCTAAGTAAGTTGAGTATTATGTAAGTTATGTATT
* * * *
18088067 ATGTTAGTTATGTAAGTT-ATGTATTATGTATGTTATGTA
1 ATGTAAGCTAAGTAAGTTGA-GTATTATGTAAGTTATGTA
18088106 AGTTCTGTAG
Statistics
Matches: 70, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
40 2 0.03
41 57 0.81
42 1 0.01
43 10 0.14
ACGTcount: A:0.31, C:0.02, G:0.20, T:0.47
Consensus pattern (41 bp):
ATGTAAGCTAAGTAAGTTGAGTATTATGTAAGTTATGTATT
Found at i:18088087 original size:25 final size:25
Alignment explanation
Indices: 18088049--18088114 Score: 98
Period size: 25 Copynumber: 2.6 Consensus size: 25
18088039 AAGTTGAGTA
*
18088049 TTATGTAAGCTATGTATTATGT-TAG
1 TTATGTAAGTTATGTATTATGTAT-G
18088074 TTATGTAAGTTATGTATTATGTATG
1 TTATGTAAGTTATGTATTATGTATG
*
18088099 TTATGTAAGTTCTGTA
1 TTATGTAAGTTATGTA
18088115 GAATGTAAGT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
25 37 0.97
26 1 0.03
ACGTcount: A:0.27, C:0.03, G:0.20, T:0.50
Consensus pattern (25 bp):
TTATGTAAGTTATGTATTATGTATG
Found at i:18088093 original size:16 final size:16
Alignment explanation
Indices: 18088037--18088127 Score: 71
Period size: 16 Copynumber: 5.6 Consensus size: 16
18088027 TGTAAGCTAA
18088037 GTAAGTTGA-GTATTAT
1 GTAAGTT-ATGTATTAT
*
18088053 GTAAGCTATGTATTAT
1 GTAAGTTATGTATTAT
*
18088069 GTTAGTTATGTAAGTTAT
1 GTAAGTTATGT-A-TTAT
18088087 GT-A-TTATGTATGTTAT
1 GTAAGTTATGTA--TTAT
* **
18088103 GTAAGTTCTGTAGAAT
1 GTAAGTTATGTATTAT
18088119 GTAAGTTAT
1 GTAAGTTAT
18088128 CTTAATATTA
Statistics
Matches: 62, Mismatches: 7, Indels: 12
0.77 0.09 0.15
Matches are distributed among these distances:
15 2 0.03
16 45 0.73
17 3 0.05
18 12 0.19
ACGTcount: A:0.30, C:0.02, G:0.22, T:0.46
Consensus pattern (16 bp):
GTAAGTTATGTATTAT
Found at i:18088120 original size:25 final size:25
Alignment explanation
Indices: 18088049--18088127 Score: 86
Period size: 25 Copynumber: 3.2 Consensus size: 25
18088039 AAGTTGAGTA
* ** *
18088049 TTATGTAAGCTATGTATTATGTTAG
1 TTATGTAAGTTATGTAGAATGTAAG
** *
18088074 TTATGTAAGTTATGTATTATGTATG
1 TTATGTAAGTTATGTAGAATGTAAG
*
18088099 TTATGTAAGTTCTGTAGAATGTAAG
1 TTATGTAAGTTATGTAGAATGTAAG
18088124 TTAT
1 TTAT
18088128 CTTAATATTA
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 47 1.00
ACGTcount: A:0.29, C:0.03, G:0.20, T:0.48
Consensus pattern (25 bp):
TTATGTAAGTTATGTAGAATGTAAG
Found at i:18088166 original size:20 final size:20
Alignment explanation
Indices: 18088117--18088167 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
18088107 GTTCTGTAGA
18088117 ATGTAAGTTATCTTAATATT
1 ATGTAAGTTATCTTAATATT
* *
18088137 ATATAAGTTATCTTAATTTT
1 ATGTAAGTTATCTTAATATT
*
18088157 ATGTAGGTTAT
1 ATGTAAGTTAT
18088168 GCAAGTTATG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.33, C:0.04, G:0.12, T:0.51
Consensus pattern (20 bp):
ATGTAAGTTATCTTAATATT
Found at i:18088200 original size:40 final size:40
Alignment explanation
Indices: 18088156--18088232 Score: 145
Period size: 40 Copynumber: 1.9 Consensus size: 40
18088146 ATCTTAATTT
18088156 TATGTAGGTTATGCAAGTTATGTAATGTATCAATTTTATG
1 TATGTAGGTTATGCAAGTTATGTAATGTATCAATTTTATG
*
18088196 TATGTAGGTTATGCAAGTTATGTATTGTATCAATTTT
1 TATGTAGGTTATGCAAGTTATGTAATGTATCAATTTT
18088233 TAAAAATATA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.29, C:0.05, G:0.19, T:0.47
Consensus pattern (40 bp):
TATGTAGGTTATGCAAGTTATGTAATGTATCAATTTTATG
Found at i:18088420 original size:33 final size:34
Alignment explanation
Indices: 18088381--18088466 Score: 97
Period size: 33 Copynumber: 2.6 Consensus size: 34
18088371 ATGTAAGTTA
* *
18088381 TAAATTTCAAAAATATATATTAATAA-GT-TAAAT
1 TAAATTTTAAAAATATATATTAA-AATATATAAAT
*
18088414 TAAATTTTTAAAATATAT-TTAAAATATATAAAT
1 TAAATTTTAAAAATATATATTAAAATATATAAAT
* *
18088447 CATATTTTAAAAATATATAT
1 TAAATTTTAAAAATATATAT
18088467 ATTTTTAAAT
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
31 2 0.05
32 5 0.11
33 36 0.82
34 1 0.02
ACGTcount: A:0.53, C:0.02, G:0.01, T:0.43
Consensus pattern (34 bp):
TAAATTTTAAAAATATATATTAAAATATATAAAT
Found at i:18088445 original size:20 final size:23
Alignment explanation
Indices: 18088422--18088465 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
18088412 ATTAAATTTT
18088422 TAAAAT-ATA-TTT-AAAATATA
1 TAAAATCATATTTTAAAAATATA
18088442 T-AAATCATATTTTAAAAATATA
1 TAAAATCATATTTTAAAAATATA
18088464 TA
1 TA
18088466 TATTTTTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
19 4 0.20
20 4 0.20
21 3 0.15
22 9 0.45
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (23 bp):
TAAAATCATATTTTAAAAATATA
Found at i:18089430 original size:27 final size:29
Alignment explanation
Indices: 18089376--18089430 Score: 69
Period size: 30 Copynumber: 1.9 Consensus size: 29
18089366 TAATTATCAC
*
18089376 AACAATAAACTTAATAATAATTGATAAAGT
1 AACAATAAACTTAATAATAAAT-ATAAAGT
*
18089406 AACAATCAACTTAAT-ATAAAT-TAAA
1 AACAATAAACTTAATAATAAATATAAA
18089431 TCAGAAACTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 4 0.17
29 5 0.22
30 14 0.61
ACGTcount: A:0.58, C:0.09, G:0.04, T:0.29
Consensus pattern (29 bp):
AACAATAAACTTAATAATAAATATAAAGT
Found at i:18091262 original size:15 final size:15
Alignment explanation
Indices: 18091226--18091287 Score: 58
Period size: 15 Copynumber: 4.3 Consensus size: 15
18091216 AACATTAACT
*
18091226 ATAAACCCCTAAACC
1 ATAAACCCTTAAACC
*
18091241 -TATAACCCTTAACCC
1 ATA-AACCCTTAAACC
18091256 ATAAACCCTT-AACC
1 ATAAACCCTTAAACC
**
18091270 -CCAACCCTTAAACC
1 ATAAACCCTTAAACC
18091284 ATAA
1 ATAA
18091288 TCCATAAGCC
Statistics
Matches: 36, Mismatches: 7, Indels: 8
0.71 0.14 0.16
Matches are distributed among these distances:
13 7 0.19
14 9 0.25
15 18 0.50
16 2 0.06
ACGTcount: A:0.42, C:0.39, G:0.00, T:0.19
Consensus pattern (15 bp):
ATAAACCCTTAAACC
Found at i:18091489 original size:8 final size:7
Alignment explanation
Indices: 18091451--18091502 Score: 70
Period size: 7 Copynumber: 7.4 Consensus size: 7
18091441 AACTATAAAC
*
18091451 CCCTAAA
1 CCCTTAA
18091458 CCCTTAA
1 CCCTTAA
*
18091465 CCC-TAG
1 CCCTTAA
18091471 CCCTTAA
1 CCCTTAA
18091478 CCCTTAAA
1 CCCTT-AA
18091486 CCCTTAA
1 CCCTTAA
18091493 CCCTTAA
1 CCCTTAA
18091500 CCC
1 CCC
18091503 CAATCCTTAA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
6 5 0.12
7 28 0.70
8 7 0.17
ACGTcount: A:0.29, C:0.46, G:0.02, T:0.23
Consensus pattern (7 bp):
CCCTTAA
Found at i:18091491 original size:15 final size:15
Alignment explanation
Indices: 18091448--18091499 Score: 72
Period size: 15 Copynumber: 3.6 Consensus size: 15
18091438 ATTAACTATA
*
18091448 AACCCCTAAACCCTT
1 AACCCTTAAACCCTT
*
18091463 AACCC-T-AGCCCTT
1 AACCCTTAAACCCTT
18091476 AACCCTTAAACCCTT
1 AACCCTTAAACCCTT
18091491 AACCCTTAA
1 AACCCTTAA
18091500 CCCCAATCCT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
13 11 0.33
14 2 0.06
15 20 0.61
ACGTcount: A:0.33, C:0.42, G:0.02, T:0.23
Consensus pattern (15 bp):
AACCCTTAAACCCTT
Found at i:18091510 original size:28 final size:28
Alignment explanation
Indices: 18091448--18091515 Score: 84
Period size: 28 Copynumber: 2.4 Consensus size: 28
18091438 ATTAACTATA
* * *
18091448 AACCCCTAAACCCTTAACCCTAGCCCTT
1 AACCCTTAAACCCTTAACCCTAACCCTC
18091476 AACCCTTAAACCCTTAACCCTTAACCC-C
1 AACCCTTAAACCCTTAACCC-TAACCCTC
*
18091504 AATCCTTAAACC
1 AACCCTTAAACC
18091516 ATATCCATAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 30 0.86
29 5 0.14
ACGTcount: A:0.32, C:0.44, G:0.01, T:0.22
Consensus pattern (28 bp):
AACCCTTAAACCCTTAACCCTAACCCTC
Found at i:18091515 original size:14 final size:15
Alignment explanation
Indices: 18091448--18091515 Score: 54
Period size: 15 Copynumber: 4.8 Consensus size: 15
18091438 ATTAACTATA
* *
18091448 AACCCCTAAACCCTT
1 AACCCTTAAACCCTC
* *
18091463 AACCC-T-AGCCCTT
1 AACCCTTAAACCCTC
*
18091476 AACCCTTAAACCCTT
1 AACCCTTAAACCCTC
18091491 AACCCTT-AACCC-C
1 AACCCTTAAACCCTC
*
18091504 AATCCTTAAACC
1 AACCCTTAAACC
18091516 ATATCCATAA
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
13 17 0.37
14 11 0.24
15 18 0.39
ACGTcount: A:0.32, C:0.44, G:0.01, T:0.22
Consensus pattern (15 bp):
AACCCTTAAACCCTC
Found at i:18092308 original size:114 final size:113
Alignment explanation
Indices: 18092187--18092473 Score: 310
Period size: 114 Copynumber: 2.5 Consensus size: 113
18092177 GTTTTTAGAC
* * * *
18092187 AAGCGCCACTAACGTCTCTAAAACCTAAACTAAAAACGACATAGTTTTCTTAACAGTTTTGTGTC
1 AAGCGCCACTAACGTCTCCAAAACCTAAACTAAAAACGGCA-AGTTTTCTTAACAGTTTTGCGGC
*
18092252 GCTTCTAATAAAGCGCCACTAAAGCTTCG-CTACT-GCGGCGTTTTCCAAA
65 GCTTATAATAAAGCGCCACTAAAGCTT-GACTA-TAGCGGCGTTTTCCAAA
* * ** *
18092301 AATCGCCACTAACGTCTCGAAAAGATAAA-TGAAAAACGGCAACGTTTTCTTAATAGTTTTGCGG
1 AAGCGCCACTAACGTCTCCAAAACCTAAACT-AAAAACGGCAA-GTTTTCTTAACAGTTTTGCGG
* * ** **
18092365 CGCTTATGATAAAGCGCCGCTAATTCTTGACTATAGCGGCGTTTTCCAGT
64 CGCTTATAATAAAGCGCCACTAAAGCTTGACTATAGCGGCGTTTTCCAAA
* * * * *
18092415 AAGCGCCACTAAAGTCCCCAAAACCTAAACTGAAAACGGTAGCGTTTTCTTAACAGTTT
1 AAGCGCCACTAACGTCTCCAAAACCTAAACTAAAAACGGCA-AGTTTTCTTAACAGTTT
18092474 CTTGCATATT
Statistics
Matches: 142, Mismatches: 25, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
113 4 0.03
114 137 0.96
115 1 0.01
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.28
Consensus pattern (113 bp):
AAGCGCCACTAACGTCTCCAAAACCTAAACTAAAAACGGCAAGTTTTCTTAACAGTTTTGCGGCG
CTTATAATAAAGCGCCACTAAAGCTTGACTATAGCGGCGTTTTCCAAA
Found at i:18092984 original size:30 final size:30
Alignment explanation
Indices: 18092916--18092987 Score: 85
Period size: 29 Copynumber: 2.4 Consensus size: 30
18092906 TTTAAATTAG
* **
18092916 AAATGAT-AAAATTGTATTTTAATTTTTTA
1 AAATGATAAAAATTGTAATTTAATCATTTA
18092945 AAATGATAAAAATT-TAATTTAATCATTTA
1 AAATGATAAAAATTGTAATTTAATCATTTA
*
18092974 AATATTATAAAAAT
1 AA-ATGATAAAAAT
18092988 ATAAACTATT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
29 21 0.57
30 16 0.43
ACGTcount: A:0.50, C:0.01, G:0.04, T:0.44
Consensus pattern (30 bp):
AAATGATAAAAATTGTAATTTAATCATTTA
Found at i:18096336 original size:40 final size:40
Alignment explanation
Indices: 18096292--18096367 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
18096282 ACAAAAAATC
* *
18096292 GAGCATTAGCGGTGATTTAGCC-AAAGCGCCGCTAAAGGTA
1 GAGCATCAGCGGCGA-TTAGCCGAAAGCGCCGCTAAAGGTA
* *
18096332 GAGCATCAGCGGCGATTATCCGGAAGCGCCGCTAAA
1 GAGCATCAGCGGCGATTAGCCGAAAGCGCCGCTAAA
18096368 AATAGGAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
39 5 0.16
40 26 0.84
ACGTcount: A:0.29, C:0.24, G:0.30, T:0.17
Consensus pattern (40 bp):
GAGCATCAGCGGCGATTAGCCGAAAGCGCCGCTAAAGGTA
Found at i:18096516 original size:41 final size:41
Alignment explanation
Indices: 18096447--18096807 Score: 318
Period size: 41 Copynumber: 8.8 Consensus size: 41
18096437 TTTTTTAAAC
* * *
18096447 CTTTAGCGGCGTTTTTGTGTAAGTGCCGCTAATGCTCCGAT
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCAGAT
* ** * *
18096488 CTTTCGCGGCGTTTTTGTGAAAGCGCCGCTAATGCCCCGAT
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCAGAT
* * *
18096529 CTTTAGCGGTGATTTCGTCTAAGCGCCGCTAATGCTCAGAT
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCAGAT
* * * * *
18096570 CTTTAGCGGCATTTTTTTCTATGCGCCGCTAATGCTCGGGT
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCAGAT
* * *
18096611 CTTTAGCGGCGTTTTTGTCTATGCGCCGCTAATGCTCGGGT
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCAGAT
* *
18096652 CTTTAGCGGCGTTTTTATAC-AAGCGCCGCTAATTCTCAGAT
1 CTTTAGCGGCGTTTTTGT-CTAAGCGCCGCTAATGCTCAGAT
* ** * * *
18096693 CTTTAGCGGCGTTTCTAACTGAGCGCCACTAATTCGCT-TG-T
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAA-T-GCTCAGAT
* * * * * *
18096734 CTTCAGCGGCATTTGTATCTAAGCGCCGCTAATG-T-ATTTAC
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCA--GAT
* * *
18096775 CTTTAGCGGCGTTTTTGCCGAAGCACCGCTAAT
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAAT
18096808 AGTAACAAAA
Statistics
Matches: 264, Mismatches: 49, Indels: 14
0.81 0.15 0.04
Matches are distributed among these distances:
38 1 0.00
39 1 0.00
40 2 0.01
41 255 0.97
42 3 0.01
43 2 0.01
ACGTcount: A:0.17, C:0.25, G:0.24, T:0.34
Consensus pattern (41 bp):
CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCAGAT
Found at i:18097168 original size:24 final size:23
Alignment explanation
Indices: 18097141--18097204 Score: 67
Period size: 24 Copynumber: 2.7 Consensus size: 23
18097131 AATTTATAGA
*
18097141 AATTAAATATATATATATTTTAAC
1 AATTAATTATATATATATTTT-AC
*
18097165 AATTAATTAT-TGACTATATTTTAT
1 AATTAATTATAT-A-TATATTTTAC
*
18097189 GATTAATTATATATAT
1 AATTAATTATATATAT
18097205 TAAACATTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
23 4 0.12
24 21 0.62
25 9 0.26
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (23 bp):
AATTAATTATATATATATTTTAC
Found at i:18097307 original size:15 final size:15
Alignment explanation
Indices: 18097286--18097323 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
18097276 TTTAAGGTTA
18097286 ATTTAGGGGTTAGAG
1 ATTTAGGGGTTAGAG
* *
18097301 GTTTAGGGGTTTGAG
1 ATTTAGGGGTTAGAG
18097316 ATTTAGGG
1 ATTTAGGG
18097324 TTAATTTCAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.21, C:0.00, G:0.42, T:0.37
Consensus pattern (15 bp):
ATTTAGGGGTTAGAG
Found at i:18097608 original size:14 final size:14
Alignment explanation
Indices: 18097589--18097615 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
18097579 TTTTTTGATA
18097589 TATATATATATGGC
1 TATATATATATGGC
18097603 TATATATATATGG
1 TATATATATATGG
18097616 TTAATTAGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.04, G:0.15, T:0.44
Consensus pattern (14 bp):
TATATATATATGGC
Found at i:18098680 original size:14 final size:14
Alignment explanation
Indices: 18098656--18098725 Score: 52
Period size: 14 Copynumber: 4.9 Consensus size: 14
18098646 GAGGATTTAG
*
18098656 GATTTAAGGGTTAT
1 GATTTAGGGGTTAT
* *
18098670 GCTTTAGGGGTTAGAG
1 GATTTAGGGGTT--AT
*
18098686 GATTTAGGGGTAAT
1 GATTTAGGGGTTAT
**
18098700 GGGTTAGGGGTTAT
1 GATTTAGGGGTTAT
18098714 GGATTT-GGGGTT
1 -GATTTAGGGGTT
18098726 TAGGTTTTCA
Statistics
Matches: 42, Mismatches: 11, Indels: 6
0.71 0.19 0.10
Matches are distributed among these distances:
14 28 0.67
15 3 0.07
16 11 0.26
ACGTcount: A:0.20, C:0.01, G:0.41, T:0.37
Consensus pattern (14 bp):
GATTTAGGGGTTAT
Found at i:18098688 original size:30 final size:30
Alignment explanation
Indices: 18098654--18098712 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
18098644 AAGAGGATTT
* *
18098654 AGGATTTAAGGGTTATGCTTTAGGGGTTAG
1 AGGATTTAAGGGTAATGCGTTAGGGGTTAG
* *
18098684 AGGATTTAGGGGTAATGGGTTAGGGGTTA
1 AGGATTTAAGGGTAATGCGTTAGGGGTTA
18098713 TGGATTTGGG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.24, C:0.02, G:0.41, T:0.34
Consensus pattern (30 bp):
AGGATTTAAGGGTAATGCGTTAGGGGTTAG
Found at i:18098704 original size:37 final size:38
Alignment explanation
Indices: 18098634--18098705 Score: 103
Period size: 37 Copynumber: 1.9 Consensus size: 38
18098624 AAATTTGATG
**
18098634 TTTAGGGGTTAAGAGGATTTAGGATTTAAGGGTTATGC
1 TTTAGGGGTTAAGAGGATTTAGGAGGTAAGGGTTATGC
18098672 TTTAGGGGTT-AGAGGATTTAGG-GGTAATGGGTTA
1 TTTAGGGGTTAAGAGGATTTAGGAGGTAA-GGGTTA
18098706 GGGGTTATGG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
36 3 0.10
37 18 0.58
38 10 0.32
ACGTcount: A:0.25, C:0.01, G:0.38, T:0.36
Consensus pattern (38 bp):
TTTAGGGGTTAAGAGGATTTAGGAGGTAAGGGTTATGC
Found at i:18098914 original size:35 final size:36
Alignment explanation
Indices: 18098875--18098944 Score: 99
Period size: 35 Copynumber: 2.0 Consensus size: 36
18098865 AATTTATTTA
* *
18098875 TTTAT-CAATAAAATTAAATATTATAA-ATTTCAAAC
1 TTTATACAA-AAAAATAAATATTATAATATTACAAAC
18098910 TTTATACAAAAAAATAAATATTATAATATTACAAA
1 TTTATACAAAAAAATAAATATTATAATATTACAAA
18098945 TTAAAAGTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
35 21 0.68
36 10 0.32
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (36 bp):
TTTATACAAAAAAATAAATATTATAATATTACAAAC
Found at i:18101813 original size:31 final size:31
Alignment explanation
Indices: 18101778--18102307 Score: 574
Period size: 31 Copynumber: 17.4 Consensus size: 31
18101768 AATATAAGAT
18101778 ATTACATAACTTACATTA-ATATTATACATAA
1 ATTACATAACTTA-ATTAGATATTATACATAA
* *
18101809 ATTACATAACTTAATTAGTTAATATACATAA
1 ATTACATAACTTAATTAGATATTATACATAA
* *
18101840 ATTACATAACATACATTA-ATATTATACAGAA
1 ATTACATAACTTA-ATTAGATATTATACATAA
* * *
18101871 ATTACATAACTTAGTT--A-ATTA-ATAT-T
1 ATTACATAACTTAATTAGATATTATACATAA
18101897 A-TACATAACTTACATTA-ATATTATACATAA
1 ATTACATAACTTA-ATTAGATATTATACATAA
* *
18101927 ATTACATAACTTAATTAGTTAATATACATAA
1 ATTACATAACTTAATTAGATATTATACATAA
* * *
18101958 ATTACATAACATAATTAGTTAATATACATAA
1 ATTACATAACTTAATTAGATATTATACATAA
* *
18101989 ATTACATAACTTAATTAGTTAATATACATAA
1 ATTACATAACTTAATTAGATATTATACATAA
*
18102020 ATTACATAACTTAATTAGTTAATTATACATAA
1 ATTACATAACTTAATTAGAT-ATTATACATAA
* *
18102052 ATTACATAACATACATTA-ATATTATACAGAA
1 ATTACATAACTTA-ATTAGATATTATACATAA
* * *
18102083 ATTACATAACTTAGTT--AT-TTA-ATAT-T
1 ATTACATAACTTAATTAGATATTATACATAA
18102109 A-TACATAACTTACATTA-ATATTATACATAA
1 ATTACATAACTTA-ATTAGATATTATACATAA
* *
18102139 ATTACATAACTTAATTAGTTAATATACATAA
1 ATTACATAACTTAATTAGATATTATACATAA
* * *
18102170 ATTACATAACATAATTAGTTAATATACATAA
1 ATTACATAACTTAATTAGATATTATACATAA
* ** *
18102201 ATTACATAACTTAGTTATTTAATATACATAA
1 ATTACATAACTTAATTAGATATTATACATAA
*
18102232 ATTACATAACTTAATTAGTTAATTATACATAA
1 ATTACATAACTTAATTAGAT-ATTATACATAA
* *
18102264 ATTACATAACATACATTA-ATATTATACAGAA
1 ATTACATAACTTA-ATTAGATATTATACATAA
18102295 ATTACATAACTTA
1 ATTACATAACTTA
18102308 GTTAATTAAT
Statistics
Matches: 436, Mismatches: 43, Indels: 40
0.84 0.08 0.08
Matches are distributed among these distances:
25 22 0.05
26 6 0.01
27 7 0.02
28 14 0.03
29 9 0.02
30 18 0.04
31 302 0.69
32 50 0.11
33 8 0.02
ACGTcount: A:0.48, C:0.11, G:0.03, T:0.38
Consensus pattern (31 bp):
ATTACATAACTTAATTAGATATTATACATAA
Found at i:18101847 original size:62 final size:61
Alignment explanation
Indices: 18101778--18102415 Score: 651
Period size: 62 Copynumber: 10.6 Consensus size: 61
18101768 AATATAAGAT
18101778 ATTACATAACTTACATTAATATTATACATAAATTACATAACTTAATTAGTTAATATACATAA
1 ATTACATAACTTA-ATTAATATTATACATAAATTACATAACTTAATTAGTTAATATACATAA
* * * *
18101840 ATTACATAACATACATTAATATTATACAGAAATTACATAACTTAGTTAATTAATAT---T--
1 ATTACATAACTTA-ATTAATATTATACATAAATTACATAACTTAATTAGTTAATATACATAA
18101897 A-TACATAACTTACATTAATATTATACATAAATTACATAACTTAATTAGTTAATATACATAA
1 ATTACATAACTTA-ATTAATATTATACATAAATTACATAACTTAATTAGTTAATATACATAA
* * *
18101958 ATTACATAACATAATTAGTTAATATACATAAATTACATAACTTAATTAGTTAATATACATAA
1 ATTACATAACTTAATTA-ATATTATACATAAATTACATAACTTAATTAGTTAATATACATAA
* * * * *
18102020 ATTACATAACTTAATTAGTTAATTATACATAAATTACATAACATACATTA-ATATTATACAGAA
1 ATTACATAACTTAATTA-AT-ATTATACATAAATTACATAACTTA-ATTAGTTAATATACATAA
* * * * *
18102083 ATTACATAACTTAGTT-AT-TTA-ATAT-TA-TACATAACTTACATTA-ATATTATACATAA
1 ATTACATAACTTAATTAATATTATACATAAATTACATAACTTA-ATTAGTTAATATACATAA
* * *
18102139 ATTACATAACTTAATTAGTTAATATACATAAATTACATAACATAATTAGTTAATATACATAA
1 ATTACATAACTTAATTA-ATATTATACATAAATTACATAACTTAATTAGTTAATATACATAA
* * *
18102201 ATTACATAACTTAGTTATTTAATATACATAAATTACATAACTTAATTAGTTAATTATACATAA
1 ATTACATAACTTAATTA-ATATTATACATAAATTACATAACTTAATTAGTTAA-TATACATAA
* * * *
18102264 ATTACATAACATACATTAATATTATACAGAAATTACATAACTTAGTTAATTAATAT---T--
1 ATTACATAACTTA-ATTAATATTATACATAAATTACATAACTTAATTAGTTAATATACATAA
* * * * *
18102321 A-TACATAACTTAGTT-AT-TTA-ATAT-TA-TACATAACTTACATTA-ATATTATACATAA
1 ATTACATAACTTAATTAATATTATACATAAATTACATAACTTA-ATTAGTTAATATACATAA
*
18102376 ATTACATAACTTAGTTATTTAATATTATACATAACTTACA
1 ATTACATAACTTA---A-TTAATATTATACATAAATTACA
18102416 ACTTACATAA
Statistics
Matches: 489, Mismatches: 53, Indels: 65
0.81 0.09 0.11
Matches are distributed among these distances:
50 16 0.03
51 4 0.01
52 2 0.00
53 4 0.01
54 2 0.00
55 3 0.01
56 113 0.23
57 3 0.01
58 4 0.01
59 8 0.02
60 5 0.01
61 13 0.03
62 200 0.41
63 101 0.21
64 7 0.01
65 4 0.01
ACGTcount: A:0.47, C:0.11, G:0.03, T:0.39
Consensus pattern (61 bp):
ATTACATAACTTAATTAATATTATACATAAATTACATAACTTAATTAGTTAATATACATAA
Found at i:18101901 original size:25 final size:22
Alignment explanation
Indices: 18101873--18101926 Score: 72
Period size: 22 Copynumber: 2.3 Consensus size: 22
18101863 ATACAGAAAT
18101873 TACATAACTTAGTTAATTAATATTA
1 TACATAACTTA---AATTAATATTA
*
18101898 TACATAACTTACATTAATATTA
1 TACATAACTTAAATTAATATTA
18101920 TACATAA
1 TACATAA
18101927 ATTACATAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
22 17 0.61
25 11 0.39
ACGTcount: A:0.46, C:0.11, G:0.02, T:0.41
Consensus pattern (22 bp):
TACATAACTTAAATTAATATTA
Found at i:18101916 original size:22 final size:22
Alignment explanation
Indices: 18101888--18101933 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
18101878 AACTTAGTTA
*
18101888 ATTAATATTATACATAACTTAC
1 ATTAATATTATACATAAATTAC
18101910 ATTAATATTATACATAAATTAC
1 ATTAATATTATACATAAATTAC
18101932 AT
1 AT
18101934 AACTTAATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.48, C:0.11, G:0.00, T:0.41
Consensus pattern (22 bp):
ATTAATATTATACATAAATTAC
Found at i:18102129 original size:22 final size:22
Alignment explanation
Indices: 18102101--18102145 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
18102091 ACTTAGTTAT
*
18102101 TTAATATTATACATAACTTACA
1 TTAATATTATACATAAATTACA
18102123 TTAATATTATACATAAATTACA
1 TTAATATTATACATAAATTACA
18102145 T
1 T
18102146 AACTTAATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.47, C:0.11, G:0.00, T:0.42
Consensus pattern (22 bp):
TTAATATTATACATAAATTACA
Found at i:18102144 original size:212 final size:211
Alignment explanation
Indices: 18101778--18102360 Score: 1051
Period size: 212 Copynumber: 2.7 Consensus size: 211
18101768 AATATAAGAT
* *
18101778 ATTACATAACTTACATTAATATTATACATAAATTACATAACTTAATTAGTTAA-TATACATAAAT
1 ATTACATAACTTA-ATTATTAATATACATAAATTACATAACTTAATTAGTTAATTATACATAAAT
18101842 TACATAACATACATTAATATTATACAGAAATTACATAACTTAGTTAATTAATATTATACATAACT
65 TACATAACATACATTAATATTATACAGAAATTACATAACTTAGTTAATTAATATTATACATAACT
18101907 TACATTAATATTATACATAAATTACATAACTTAATTAGTTAATATACATAAATTACATAACATAA
130 TACATTAATATTATACATAAATTACATAACTTAATTAGTTAATATACATAAATTACATAACATAA
18101972 TTAGTTAATATACATAA
195 TTAGTTAATATACATAA
18101989 ATTACATAACTTAATTAGTTAATATACATAAATTACATAACTTAATTAGTTAATTATACATAAAT
1 ATTACATAACTTAATTA-TTAATATACATAAATTACATAACTTAATTAGTTAATTATACATAAAT
*
18102054 TACATAACATACATTAATATTATACAGAAATTACATAACTTAGTTATTTAATATTATACATAACT
65 TACATAACATACATTAATATTATACAGAAATTACATAACTTAGTTAATTAATATTATACATAACT
18102119 TACATTAATATTATACATAAATTACATAACTTAATTAGTTAATATACATAAATTACATAACATAA
130 TACATTAATATTATACATAAATTACATAACTTAATTAGTTAATATACATAAATTACATAACATAA
18102184 TTAGTTAATATACATAA
195 TTAGTTAATATACATAA
*
18102201 ATTACATAACTTAGTTATTTAATATACATAAATTACATAACTTAATTAGTTAATTATACATAAAT
1 ATTACATAACTTAATTA-TTAATATACATAAATTACATAACTTAATTAGTTAATTATACATAAAT
18102266 TACATAACATACATTAATATTATACAGAAATTACATAACTTAGTTAATTAATATTATACATAACT
65 TACATAACATACATTAATATTATACAGAAATTACATAACTTAGTTAATTAATATTATACATAACT
* *
18102331 TAGTTATTTAATATTATACATAACTTACAT
130 TA--CA-TTAATATTATACATAAATTACAT
18102361 TAATATTATA
Statistics
Matches: 359, Mismatches: 8, Indels: 6
0.96 0.02 0.02
Matches are distributed among these distances:
210 4 0.01
211 46 0.13
212 286 0.80
214 1 0.00
215 22 0.06
ACGTcount: A:0.48, C:0.11, G:0.03, T:0.39
Consensus pattern (211 bp):
ATTACATAACTTAATTATTAATATACATAAATTACATAACTTAATTAGTTAATTATACATAAATT
ACATAACATACATTAATATTATACAGAAATTACATAACTTAGTTAATTAATATTATACATAACTT
ACATTAATATTATACATAAATTACATAACTTAATTAGTTAATATACATAAATTACATAACATAAT
TAGTTAATATACATAA
Found at i:18102325 original size:25 final size:25
Alignment explanation
Indices: 18102297--18102375 Score: 119
Period size: 25 Copynumber: 3.3 Consensus size: 25
18102287 ATACAGAAAT
18102297 TACATAACTTAGTTAATTAATATTA
1 TACATAACTTAGTTAATTAATATTA
*
18102322 TACATAACTTAGTTATTTAATATTA
1 TACATAACTTAGTTAATTAATATTA
*
18102347 TACATAACTTA---CATTAATATTA
1 TACATAACTTAGTTAATTAATATTA
18102369 TACATAA
1 TACATAA
18102376 ATTACATAAC
Statistics
Matches: 51, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
22 16 0.31
25 35 0.69
ACGTcount: A:0.44, C:0.10, G:0.03, T:0.43
Consensus pattern (25 bp):
TACATAACTTAGTTAATTAATATTA
Found at i:18102366 original size:22 final size:22
Alignment explanation
Indices: 18102312--18102382 Score: 97
Period size: 22 Copynumber: 3.1 Consensus size: 22
18102302 AACTTAGTTA
*
18102312 ATTAATATTATACATAACTTAGTT
1 ATTAATATTATACATAACTTA--C
18102336 ATTTAATATTATACATAACTTAC
1 A-TTAATATTATACATAACTTAC
*
18102359 ATTAATATTATACATAAATTAC
1 ATTAATATTATACATAACTTAC
18102381 AT
1 AT
18102383 AACTTAGTTA
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
22 22 0.50
23 1 0.02
24 1 0.02
25 20 0.45
ACGTcount: A:0.45, C:0.10, G:0.01, T:0.44
Consensus pattern (22 bp):
ATTAATATTATACATAACTTAC
Found at i:18102382 original size:31 final size:31
Alignment explanation
Indices: 18102347--18102415 Score: 70
Period size: 34 Copynumber: 2.1 Consensus size: 31
18102337 TTTAATATTA
18102347 TACATAACTTACATTA-ATATTATACATAAAT
1 TACATAACTTA-ATTAGATATTATACATAAAT
*
18102378 TACATAACTTAGTTATTTA-ATATTATACATAACT
1 TACATAACTTA---A-TTAGATATTATACATAAAT
18102412 TACA
1 TACA
18102416 ACTTACATAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
31 11 0.33
33 1 0.03
34 21 0.64
ACGTcount: A:0.45, C:0.13, G:0.01, T:0.41
Consensus pattern (31 bp):
TACATAACTTAATTAGATATTATACATAAAT
Found at i:18102427 original size:9 final size:9
Alignment explanation
Indices: 18102403--18102505 Score: 62
Period size: 9 Copynumber: 12.3 Consensus size: 9
18102393 TTTAATATTA
18102403 TACATAACT
1 TACATAACT
18102412 TAC--AACT
1 TACATAACT
18102419 TACATAACT
1 TACATAACT
**
18102428 TACATATTTT
1 TACATA-ACT
*
18102438 TA-ATTA-T
1 TACATAACT
* *
18102445 T-CGTAAAT
1 TACATAACT
18102453 TACATAACT
1 TACATAACT
*
18102462 TACATAATT
1 TACATAACT
*
18102471 TTCATAA--
1 TACATAACT
*
18102478 TAAATAACT
1 TACATAACT
18102487 TACATAA--
1 TACATAACT
18102494 TACATAACT
1 TACATAACT
18102503 TAC
1 TAC
18102506 GTAGCTTAAT
Statistics
Matches: 71, Mismatches: 13, Indels: 20
0.68 0.12 0.19
Matches are distributed among these distances:
7 23 0.32
8 2 0.03
9 43 0.61
10 3 0.04
ACGTcount: A:0.44, C:0.17, G:0.01, T:0.39
Consensus pattern (9 bp):
TACATAACT
Found at i:18102432 original size:81 final size:82
Alignment explanation
Indices: 18102257--18102433 Score: 252
Period size: 81 Copynumber: 2.2 Consensus size: 82
18102247 TAGTTAATTA
18102257 TACATAAATTACATAACATACATTAATATTATACAGAAATTACATAACTTAGTTAATTAATATTA
1 TACATAAATTACATAACATACATTAATATTATACAGAAATTACATAACTTAGTTAATTAATATTA
** *
18102322 TACATAACTTAGTTATT
66 TACATAACTTAGCAACT
* * * *
18102339 TA-AT-ATTATACATAACTTACATTAATATTATACATAAATTACATAACTTAGTTATTTAATATT
1 TACATAAAT-TACATAACATACATTAATATTATACAGAAATTACATAACTTAGTTAATTAATATT
18102402 ATACATAACTTA-CAACT
65 ATACATAACTTAGCAACT
*
18102419 TACATAACTTACATA
1 TACATAAATTACATA
18102434 TTTTTAATTA
Statistics
Matches: 84, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
80 6 0.07
81 74 0.88
82 4 0.05
ACGTcount: A:0.46, C:0.12, G:0.02, T:0.40
Consensus pattern (82 bp):
TACATAAATTACATAACATACATTAATATTATACAGAAATTACATAACTTAGTTAATTAATATTA
TACATAACTTAGCAACT
Found at i:18102435 original size:34 final size:33
Alignment explanation
Indices: 18102360--18102435 Score: 82
Period size: 34 Copynumber: 2.2 Consensus size: 33
18102350 ATAACTTACA
* * *
18102360 TTAATATTATACATAAATTACATAACTTAGTTAT
1 TTAATATTATACATAAATTACA-AACTTAATAAC
*
18102394 TTAATATTATACATAACTTAC-AACTTACATAAC
1 TTAATATTATACATAAATTACAAACTTA-ATAAC
18102427 TTACATATT
1 TTA-ATATT
18102436 TTTAATTATT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
32 6 0.17
33 5 0.14
34 25 0.69
ACGTcount: A:0.43, C:0.13, G:0.01, T:0.42
Consensus pattern (33 bp):
TTAATATTATACATAAATTACAAACTTAATAAC
Found at i:18102490 original size:34 final size:34
Alignment explanation
Indices: 18102415--18102500 Score: 95
Period size: 34 Copynumber: 2.6 Consensus size: 34
18102405 CATAACTTAC
* * ***
18102415 AACTTACATAACTTACATATTTTTAATTATTCGT
1 AACTTACATAACTTACATAATTTTAATAATAAAT
* *
18102449 AAATTACATAACTTACATAATTTTCATAATAAAT
1 AACTTACATAACTTACATAATTTTAATAATAAAT
18102483 AACTTACATAA--TACATAA
1 AACTTACATAACTTACATAA
18102501 CTTACGTAGC
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
32 7 0.16
34 37 0.84
ACGTcount: A:0.45, C:0.14, G:0.01, T:0.40
Consensus pattern (34 bp):
AACTTACATAACTTACATAATTTTAATAATAAAT
Found at i:18102492 original size:16 final size:16
Alignment explanation
Indices: 18102473--18102505 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
18102463 ACATAATTTT
18102473 CATAATAAATAACTTA
1 CATAATAAATAACTTA
*
18102489 CATAATACATAACTTA
1 CATAATAAATAACTTA
18102505 C
1 C
18102506 GTAGCTTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.52, C:0.18, G:0.00, T:0.30
Consensus pattern (16 bp):
CATAATAAATAACTTA
Found at i:18108040 original size:66 final size:65
Alignment explanation
Indices: 18107932--18108098 Score: 219
Period size: 66 Copynumber: 2.5 Consensus size: 65
18107922 TGAGCAAATT
* * *
18107932 ACACAACTTAAAGCGGATGCAACATCGAGAGAAGCTGAGGTTCAA-AAAAGATATGAAGAACTCC
1 ACACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAG-TATGAAGAACTCC
18107996 A
65 A
* * *
18107997 ACTACAACTGAAAGCAGATACAGCAGCGAGAGAAGCTGAGGTTCAACGAAAGTATGAAGAACTCC
1 AC-ACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCC
18108062 A
65 A
* * *
18108063 ACAGCAGCTTAAAGCAGATGCGGCAGCAAGAGAAGC
1 ACA-CAACTTAAAGCAGATGCAGCAGCGAGAGAAGC
18108099 AAAGGCGGCA
Statistics
Matches: 88, Mismatches: 11, Indels: 5
0.85 0.11 0.05
Matches are distributed among these distances:
65 3 0.03
66 81 0.92
67 4 0.05
ACGTcount: A:0.43, C:0.20, G:0.25, T:0.13
Consensus pattern (65 bp):
ACACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCA
Found at i:18108147 original size:21 final size:21
Alignment explanation
Indices: 18108074--18108186 Score: 100
Period size: 21 Copynumber: 5.4 Consensus size: 21
18108064 CAGCAGCTTA
* * * *
18108074 AAGCAGATGCGGCAGCAAGAG
1 AAGCAGAGGCTGCAGCGAGGG
* * *
18108095 AAGCAAAGGCGGCAGCGAGAG
1 AAGCAGAGGCTGCAGCGAGGG
* *
18108116 AAGTACAGGCTGCAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
**
18108137 AAGCAGAGGCTAAAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
** *
18108158 AAGCAGAGGCTAAAGTGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
18108179 AAGCAGAG
1 AAGCAGAG
18108187 TAGCGTCAAA
Statistics
Matches: 80, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 80 1.00
ACGTcount: A:0.37, C:0.16, G:0.42, T:0.05
Consensus pattern (21 bp):
AAGCAGAGGCTGCAGCGAGGG
Found at i:18108589 original size:43 final size:42
Alignment explanation
Indices: 18108542--18108728 Score: 175
Period size: 43 Copynumber: 4.4 Consensus size: 42
18108532 GTTTTTGGTC
* *
18108542 AAAGCACCGCTAAAGATAAGGGTCTTTAGCGGCGTTTGTGGAA
1 AAAGCGCCGCTAAAGATCAGGGTCTTT-GCGGCGTTTGTGGAA
* * * *
18108585 AAAGCGCCACTAAAGATCATGGTTTTTGGCGGCGTTTGT-GAG
1 AAAGCGCCGCTAAAGATCAGGGTCTTT-GCGGCGTTTGTGGAA
* * * *
18108627 AAAGCGCCGCTATAGATCAGAGTCTATTGCGGCGTTTGAGGTAT
1 AAAGCGCCGCTAAAGATCAGGGTCT-TTGCGGCGTTTGTGG-AA
*
18108671 AAA-CGCCGCTATAA-ATCAGGGTCTATTGCGGCGTTT-TAGATA
1 AAAGCGCCGCTA-AAGATCAGGGTCT-TTGCGGCGTTTGTGGA-A
*
18108713 AAAACGCCGCTAAAGA
1 AAAGCGCCGCTAAAGA
18108729 CCCTGATCTT
Statistics
Matches: 118, Mismatches: 19, Indels: 14
0.78 0.13 0.09
Matches are distributed among these distances:
41 1 0.01
42 38 0.32
43 74 0.63
44 5 0.04
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.25
Consensus pattern (42 bp):
AAAGCGCCGCTAAAGATCAGGGTCTTTGCGGCGTTTGTGGAA
Found at i:18108644 original size:42 final size:43
Alignment explanation
Indices: 18108523--18108746 Score: 172
Period size: 43 Copynumber: 5.2 Consensus size: 43
18108513 TGTTGGCCTT
* * ** * *
18108523 TTTAGTGGCGTTTTTGGTCAAAGCACCGCTAAAGATAAGGGTC
1 TTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGATCAGGGTC
* * *
18108566 TTTAGCGGCGTTTGTGGAAAAAGCGCCACTAAAGATCATGGTT
1 TTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGATCAGGGTC
* * * *
18108609 TTTGGCGGCGTTTGT-GAGAAAGCGCCGCTATAGATCAGAGTC
1 TTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGATCAGGGTC
* *
18108651 TATT-GCGGCGTTTGAGGTATAAA-CGCCGCTATAA-ATCAGGGTC
1 T-TTAGCGGCGTTTGTGG-AAAAAGCGCCGCTA-AAGATCAGGGTC
* * * ** *
18108694 TATT-GCGGCGTTT-TAGATAAAAACGCCGCTAAAGACCCTGATC
1 T-TTAGCGGCGTTTGTGGA-AAAAGCGCCGCTAAAGATCAGGGTC
18108737 TTTAGCGGCG
1 TTTAGCGGCG
18108747 CTTCCACTAA
Statistics
Matches: 146, Mismatches: 27, Indels: 16
0.77 0.14 0.08
Matches are distributed among these distances:
41 1 0.01
42 40 0.27
43 100 0.68
44 5 0.03
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGATCAGGGTC
Found at i:18109753 original size:17 final size:17
Alignment explanation
Indices: 18109731--18109764 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
18109721 TTCCTAATAA
18109731 ATATTATAATTAT-TTAT
1 ATATTAT-ATTATATTAT
18109748 ATATTATATTATATTAT
1 ATATTATATTATATTAT
18109765 TGATTTTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
ATATTATATTATATTAT
Found at i:18109984 original size:19 final size:20
Alignment explanation
Indices: 18109942--18109984 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
18109932 TTTAATACTT
*
18109942 AATTTAATTATAAAATATAG
1 AATTTAATTATAAAATATAA
18109962 AATTT-ATTAT-AAATATGAA
1 AATTTAATTATAAAATAT-AA
18109981 AATT
1 AATT
18109985 ATAGATAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 6 0.29
19 10 0.48
20 5 0.24
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (20 bp):
AATTTAATTATAAAATATAA
Found at i:18114551 original size:22 final size:23
Alignment explanation
Indices: 18114520--18114574 Score: 76
Period size: 22 Copynumber: 2.4 Consensus size: 23
18114510 AAAAAAAACT
18114520 AAACTAAAATTACAACTAAAAA-A
1 AAACT-AAATTACAACTAAAAATA
* *
18114543 AACCTAAATTACAAGTAAAAATA
1 AAACTAAATTACAACTAAAAATA
18114566 AAACTAAAT
1 AAACTAAAT
18114575 AGGAGACGGG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
22 15 0.54
23 13 0.46
ACGTcount: A:0.65, C:0.13, G:0.02, T:0.20
Consensus pattern (23 bp):
AAACTAAATTACAACTAAAAATA
Found at i:18114567 original size:28 final size:28
Alignment explanation
Indices: 18114509--18114568 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
18114499 TACGAGGAAC
* * *
18114509 AAAAAAAAACTAAACTAAAATTACAACT
1 AAAAAAAAACTAAACTAAAAGTAAAAAT
* * *
18114537 AAAAAAAACCTAAATTACAAGTAAAAAT
1 AAAAAAAAACTAAACTAAAAGTAAAAAT
18114565 AAAA
1 AAAA
18114569 CTAAATAGGA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.70, C:0.12, G:0.02, T:0.17
Consensus pattern (28 bp):
AAAAAAAAACTAAACTAAAAGTAAAAAT
Found at i:18116333 original size:22 final size:23
Alignment explanation
Indices: 18116302--18116356 Score: 76
Period size: 22 Copynumber: 2.4 Consensus size: 23
18116292 AAAAAAAACT
18116302 AAACTAAAATTACAACTAAAAA-A
1 AAACT-AAATTACAACTAAAAATA
* *
18116325 AACCTAAATTACAAGTAAAAATA
1 AAACTAAATTACAACTAAAAATA
18116348 AAACTAAAT
1 AAACTAAAT
18116357 AGGAGACGGA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
22 15 0.54
23 13 0.46
ACGTcount: A:0.65, C:0.13, G:0.02, T:0.20
Consensus pattern (23 bp):
AAACTAAATTACAACTAAAAATA
Found at i:18116349 original size:28 final size:28
Alignment explanation
Indices: 18116291--18116350 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
18116281 ACGAGGAACA
* * *
18116291 AAAAAAAAACTAAACTAAAATTACAACT
1 AAAAAAAAACTAAACTAAAAGTAAAAAT
* * *
18116319 AAAAAAAACCTAAATTACAAGTAAAAAT
1 AAAAAAAAACTAAACTAAAAGTAAAAAT
18116347 AAAA
1 AAAA
18116351 CTAAATAGGA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.70, C:0.12, G:0.02, T:0.17
Consensus pattern (28 bp):
AAAAAAAAACTAAACTAAAAGTAAAAAT
Found at i:18121064 original size:5 final size:5
Alignment explanation
Indices: 18121056--18121082 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
18121046 ATGGGCCGGG
18121056 CGGCC CGGCC CGGCC CGGCC CGGCC CG
1 CGGCC CGGCC CGGCC CGGCC CGGCC CG
18121083 ACGGCCTGCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.00, C:0.59, G:0.41, T:0.00
Consensus pattern (5 bp):
CGGCC
Found at i:18121297 original size:19 final size:19
Alignment explanation
Indices: 18121275--18121311 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
18121265 TTTAAAATAC
*
18121275 TTTTAAAATATTTTTTTAT
1 TTTTAAAATAATTTTTTAT
18121294 TTTTAAAATAATTTTTTA
1 TTTTAAAATAATTTTTTA
18121312 ATGTTTATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (19 bp):
TTTTAAAATAATTTTTTAT
Found at i:18121318 original size:20 final size:19
Alignment explanation
Indices: 18121276--18121318 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
18121266 TTAAAATACT
* *
18121276 TTTAAAATATTTTTTTATT
1 TTTAAAATATTTTTTAATG
18121295 TTTAAAATAATTTTTTAATG
1 TTTAAAAT-ATTTTTTAATG
18121315 TTTA
1 TTTA
18121319 TTAAAAAATG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (19 bp):
TTTAAAATATTTTTTAATG
Found at i:18130289 original size:2 final size:2
Alignment explanation
Indices: 18130282--18130314 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
18130272 AGTGAGTCAA
18130282 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
18130315 TCCCTTTGTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:18133698 original size:6 final size:6
Alignment explanation
Indices: 18133687--18133760 Score: 52
Period size: 6 Copynumber: 12.8 Consensus size: 6
18133677 TTCAGTTATT
* *
18133687 TAATTA TAATTAA TTAATTA TATTTA -AATAA TAATTCA -AATT- TAATTA
1 TAATTA TAATT-A -TAATTA TAATTA TAATTA TAATT-A TAATTA TAATTA
*
18133735 TAA-T- TAATTA TAATTA -AATAA TAATT
1 TAATTA TAATTA TAATTA TAATTA TAATT
18133761 CAAAGAACCT
Statistics
Matches: 53, Mismatches: 6, Indels: 18
0.69 0.08 0.23
Matches are distributed among these distances:
4 3 0.06
5 13 0.25
6 29 0.55
7 3 0.06
8 5 0.09
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.47
Consensus pattern (6 bp):
TAATTA
Found at i:18133701 original size:10 final size:10
Alignment explanation
Indices: 18133697--18133751 Score: 55
Period size: 10 Copynumber: 5.7 Consensus size: 10
18133687 TAATTATAAT
18133697 TAATTAATTA
1 TAATTAATTA
*
18133707 TATTTAA--A
1 TAATTAATTA
18133715 TAA-TAATTCA
1 TAATTAATT-A
18133725 -AATTTAATTA
1 TAA-TTAATTA
18133735 TAATTAATTA
1 TAATTAATTA
18133745 TAATTAA
1 TAATTAA
18133752 ATAATAATTC
Statistics
Matches: 37, Mismatches: 2, Indels: 12
0.73 0.04 0.24
Matches are distributed among these distances:
7 3 0.08
8 3 0.08
9 2 0.05
10 22 0.59
11 7 0.19
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (10 bp):
TAATTAATTA
Found at i:18133705 original size:14 final size:14
Alignment explanation
Indices: 18133686--18133744 Score: 52
Period size: 14 Copynumber: 4.2 Consensus size: 14
18133676 CTTCAGTTAT
18133686 TTAATTATAATTAA
1 TTAATTATAATTAA
18133700 TTAATTAT-ATT--
1 TTAATTATAATTAA
* *
18133711 TAAATAATAATTCAAA
1 TTAATTATAATT--AA
18133727 TTTAATTATAATTAA
1 -TTAATTATAATTAA
18133742 TTA
1 TTA
18133745 TAATTAAATA
Statistics
Matches: 35, Mismatches: 4, Indels: 12
0.69 0.08 0.24
Matches are distributed among these distances:
11 6 0.17
12 3 0.09
13 3 0.09
14 11 0.31
15 2 0.06
17 10 0.29
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (14 bp):
TTAATTATAATTAA
Found at i:18145069 original size:17 final size:17
Alignment explanation
Indices: 18145039--18145071 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
18145029 TCCTTTGTTG
18145039 CTTTTATTTCTCTTTTT
1 CTTTTATTTCTCTTTTT
18145056 CTTTT-TTTCTTCTTTT
1 CTTTTATTTC-TCTTTT
18145072 AGGAAACGGT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (17 bp):
CTTTTATTTCTCTTTTT
Found at i:18148911 original size:124 final size:123
Alignment explanation
Indices: 18148690--18148934 Score: 391
Period size: 124 Copynumber: 2.0 Consensus size: 123
18148680 AAATAGTGGG
** * * *
18148690 AAATCGCTTCTACCAGGATGCTATTTAAGAAGAAATTGTGAAATAGTGGCCTCGTGGACGCGATT
1 AAATCGCTGATACCAGGATGCTATATAAGAAGAAATTGTGAAATAGCGCCCTCGTGGACGCGATT
18148755 TCGCTACAGTAGTCATGTAAGAAATAATTTTTTTTGACGTTTTCTGAGCAAATAGTATA
66 TCGCTACAGTAGTCATGTAAGAAATAATTTTTTTTGACG-TTTCTGAGCAAATAGTATA
* *
18148814 AAATCGCTGATACCAGGATGCTATATGAGAAGAAATTGTGAAATCGCGCCCTCGTGGACGCGATT
1 AAATCGCTGATACCAGGATGCTATATAAGAAGAAATTGTGAAATAGCGCCCTCGTGGACGCGATT
* *
18148879 TCGCTACAGTTGGTCATGTAGGAAATAATTTTTTTTGACGTTTCTGAGCAAATAGT
66 TCGCTACAG-TAGTCATGTAAGAAATAATTTTTTTTGACGTTTCTGAGCAAATAGT
18148935 GTTTTTAATT
Statistics
Matches: 111, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
124 83 0.75
125 28 0.25
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.32
Consensus pattern (123 bp):
AAATCGCTGATACCAGGATGCTATATAAGAAGAAATTGTGAAATAGCGCCCTCGTGGACGCGATT
TCGCTACAGTAGTCATGTAAGAAATAATTTTTTTTGACGTTTCTGAGCAAATAGTATA
Found at i:18148962 original size:23 final size:23
Alignment explanation
Indices: 18148935--18150002 Score: 1144
Period size: 23 Copynumber: 44.1 Consensus size: 23
18148925 AGCAAATAGT
18148935 GTTTTTAATTAAATTAGGTTAGG
1 GTTTTTAATTAAATTAGGTTAGG
*
18148958 GTTTTTAATTAAATTAGGTTAGT
1 GTTTTTAATTAAATTAGGTTAGG
*
18148981 GTTTTTAATTAAATTATGTTAGG
1 GTTTTTAATTAAATTAGGTTAGG
18149004 GTTTTTAATTTAATTAAGTTAGGTTAGG
1 GTTTTTAA-TT-A--AA-TTAGGTTAGG
* * *
18149032 TTTTTTAATTAAGTTATGTTAGG
1 GTTTTTAATTAAATTAGGTTAGG
* *
18149055 GTTTTTAATCAAATTAGGTTAGA
1 GTTTTTAATTAAATTAGGTTAGG
18149078 GTTTTTAATTAAATTAGGTTAGGGTTAGG
1 GTTTTTAATT-AA--A--TTA-GGTTAGG
*
18149107 GTTTTTAATT-AAGTAGGGTTAGG
1 GTTTTTAATTAAATTA-GGTTAGG
* *
18149130 GTTTTTAATTAAGTTATGTTAGG
1 GTTTTTAATTAAATTAGGTTAGG
18149153 GTTTTTAATTTAATTAAGTTAGGTTAGG
1 GTTTTTAA-TT-A--AA-TTAGGTTAGG
* * * *
18149181 TTTTTTAATTAAGTTATGTTAGA
1 GTTTTTAATTAAATTAGGTTAGG
18149204 GTTTTTAATTAAATTAGGTTAGG
1 GTTTTTAATTAAATTAGGTTAGG
18149227 GTTTTTAATTAAATTAGGTTAGGATTAGG
1 GTTTTTAATT-AA--A--TTAGG-TTAGG
*
18149256 GTTTTTAATT-AAGTAGGGTTAGG
1 GTTTTTAATTAAATTA-GGTTAGG
18149279 GTTTTTAATTAAATTAGGTTAGG
1 GTTTTTAATTAAATTAGGTTAGG
18149302 GTTTTTAATTAAATTAGGTTAGG
1 GTTTTTAATTAAATTAGGTTAGG
*
18149325 GTTTTTAATT-AAGTAGGGTTAGG
1 GTTTTTAATTAAATTA-GGTTAGG
* *
18149348 GTTTTTAATTAAGTTATGTTAGG
1 GTTTTTAATTAAATTAGGTTAGG
18149371 GTTTTTAATTTAATTAAGTTAGGTTAGG
1 GTTTTTAA-TT-A--AA-TTAGGTTAGG
* * *
18149399 TTTTTTAATTAAGTTATGTTAGG
1 GTTTTTAATTAAATTAGGTTAGG
18149422 GTTTTTAATTAAATTAGGTTAGG
1 GTTTTTAATTAAATTAGGTTAGG
*
18149445 GTTTTTAATTAAATTAGGTTAGT
1 GTTTTTAATTAAATTAGGTTAGG
*
18149468 GTTTTTAATTAAATTATGTTAGG
1 GTTTTTAATTAAATTAGGTTAGG
18149491 GTTTTTAATTTAATTAAGTTAGGTTAGG
1 GTTTTTAA-TT-A--AA-TTAGGTTAGG
* * *
18149519 TTTTTTAATTAAGTTATGTTAGG
1 GTTTTTAATTAAATTAGGTTAGG
* *
18149542 GTTTTTAATCAAATTAGGTTAGA
1 GTTTTTAATTAAATTAGGTTAGG
18149565 GTTTTTAATTAAATTAGGTTAGGGTTAGG
1 GTTTTTAATT-AA--A--TTA-GGTTAGG
*
18149594 GTTTTTAATT-AAGTAGGGTTAGG
1 GTTTTTAATTAAATTA-GGTTAGG
* *
18149617 GTTTTTAATTAAGTTATGTTAGG
1 GTTTTTAATTAAATTAGGTTAGG
18149640 GTTTTTAATTTAATTAAGTTAGGTTAGG
1 GTTTTTAA-TT-A--AA-TTAGGTTAGG
* * * *
18149668 TTTTTTAATTAAGTTATGTTAGA
1 GTTTTTAATTAAATTAGGTTAGG
18149691 GTTTTTAATTAAATTAGGTTAGG
1 GTTTTTAATTAAATTAGGTTAGG
18149714 GTTTTTAATTAAATTAGGTTAGGATTAGG
1 GTTTTTAATT-AA--A--TTAGG-TTAGG
*
18149743 GTTTTTAATT-AAGTAGGGTTAGG
1 GTTTTTAATTAAATTA-GGTTAGG
18149766 GTTTTTAATTAAATTAGGTTAGG
1 GTTTTTAATTAAATTAGGTTAGG
18149789 GTTTTTAATTAAATTAGGTTAGG
1 GTTTTTAATTAAATTAGGTTAGG
*
18149812 G-TTTTAATT-AAGTAGGGTTAGG
1 GTTTTTAATTAAATTA-GGTTAGG
* *
18149834 GTTTTTAATTAAGTTATGTTAGG
1 GTTTTTAATTAAATTAGGTTAGG
18149857 GTTTTTAATTTAATTAAGTTAGGTTAGG
1 GTTTTTAA-TT-A--AA-TTAGGTTAGG
* * *
18149885 TTTTTTAATTAAGTTATGTTAGG
1 GTTTTTAATTAAATTAGGTTAGG
18149908 GTTTTTAATTAAATTAGGTTAGG
1 GTTTTTAATTAAATTAGGTTAGG
18149931 GTTTTTAATTAAATTAGGTTAGG
1 GTTTTTAATTAAATTAGGTTAGG
*
18149954 GTTTTTAATT-AAGTAGGGTTAGG
1 GTTTTTAATTAAATTA-GGTTAGG
18149977 GTTTTTAATTAAATTAGGTTAGG
1 GTTTTTAATTAAATTAGGTTAGG
18150000 GTT
1 GTT
18150003 AGGGTTTTTA
Statistics
Matches: 892, Mismatches: 86, Indels: 134
0.80 0.08 0.12
Matches are distributed among these distances:
21 4 0.00
22 24 0.03
23 592 0.66
24 54 0.06
25 10 0.01
26 10 0.01
27 24 0.03
28 112 0.13
29 62 0.07
ACGTcount: A:0.29, C:0.00, G:0.22, T:0.49
Consensus pattern (23 bp):
GTTTTTAATTAAATTAGGTTAGG
Found at i:18149177 original size:149 final size:147
Alignment explanation
Indices: 18148938--18150002 Score: 1173
Period size: 149 Copynumber: 7.3 Consensus size: 147
18148928 AAATAGTGTT
* * * *
18148938 TTTAATTAAATTA-GGTTAGGGTTTTTAATTAAATTAGGTTAGTGTTTTTAATTAAATTATGTTA
1 TTTAATTAAGTTAGGGTTAGGGTTTTTAATT-AAGTAGGTTAGGGTTTTTAATTAAATTAGGTTA
* *
18149002 GGGTTTTTAATTTAATTAAGTTAGGTTAGGTTTTTTAATTAAGTTATGTTAGGGTTTTTAATCAA
65 GGGTTTTTAATTTAATTAAGTTAGGTTAGGGTTTTTAATTAAGTTATGTTAGGGTTTTTAATTAA
18149067 ATTAGGTTAGAGTTTTTAA
130 ATTAGGTTAG-GTTTTTAA
* * * *
18149086 TTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTAGGGTTAGGGTTTTTAATTAAGTTATGTTA
1 TTTAATTAAGTTAGGGTTAGGGTTTTTAATTAAGTA-GGTTAGGGTTTTTAATTAAATTAGGTTA
* *
18149151 GGGTTTTTAATTTAATTAAGTTAGGTTAGGTTTTTTAATTAAGTTATGTTAGAGTTTTTAATTAA
65 GGGTTTTTAATTTAATTAAGTTAGGTTAGGGTTTTTAATTAAGTTATGTTAGGGTTTTTAATTAA
18149216 ATTAGGTTAGGGTTTTTAA
130 ATTAGGTTA-GGTTTTTAA
* * *
18149235 TTAAATTAGGTTAGGATTAGGGTTTTTAATTAAGTAGGGTTAGGGTTTTTAATTAAATTAGGTTA
1 TTTAATTAAGTTAGGGTTAGGGTTTTTAATTAAGTA-GGTTAGGGTTTTTAATTAAATTAGGTTA
*
18149300 GGGTTTTTAA-TT-A--AA-TTAGGTTAGGGTTTTTAATTAAG-TAGGGTTAGGGTTTTTAATTA
65 GGGTTTTTAATTTAATTAAGTTAGGTTAGGGTTTTTAATTAAGTTA-TGTTAGGGTTTTTAATTA
* *
18149359 AGTTATGTTAGGGTTTTTAA
129 AATTAGGTTA-GGTTTTTAA
* *
18149379 TTTAATTAAGTTA-GGTTAGGTTTTTTAATTAAGTTATGTTAGGGTTTTTAATTAAATTAGGTTA
1 TTTAATTAAGTTAGGGTTAGGGTTTTTAATTAAG-TAGGTTAGGGTTTTTAATTAAATTAGGTTA
* * *
18149443 GGGTTTTTAA-TT-A--AA-TTAGGTTAGTGTTTTTAATTAAATTATGTTAGGGTTTTTAATTTA
65 GGGTTTTTAATTTAATTAAGTTAGGTTAGGGTTTTTAATTAAGTTATGTTAGGGTTTTTAATTAA
*
18149503 ATTAAGTTAGGTTAGGTTT--
130 ATTAGGTTAGGTT---TTTAA
* * * *
18149522 TTTAATTAAGTTA-TGTTAGGGTTTTTAATCAAATTAGGTTAGAGTTTTTAATTAAATTAGGTTA
1 TTTAATTAAGTTAGGGTTAGGGTTTTTAAT-TAAGTAGGTTAGGGTTTTTAATTAAATTAGGTTA
*
18149586 GGGTTAGGGTT--TTTAATTAAG-TAGGGTTAGGGTTTTTAATTAAGTTATGTTAGGGTTTTTAA
65 GGGTT---TTTAATTTAATTAAGTTA-GGTTAGGGTTTTTAATTAAGTTATGTTAGGGTTTTTAA
* *
18149648 TTTAATTAAGTTAGGTTAGGTTT--
126 TTAAATTAGGTTAGGTT---TTTAA
* * *
18149671 TTTAATTAAGTTA-TGTTAGAGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAGGTTA
1 TTTAATTAAGTTAGGGTTAGGGTTTTTAATT-AAGTAGGTTAGGGTTTTTAATTAAATTAGGTTA
* * * *
18149735 GGATTAGGGTT--TTTAATTAAG-TAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAA
65 GGGTT---TTTAATTTAATTAAGTTA-GGTTAGGGTTTTTAATTAAGTTATGTTAGGGTTTTTAA
*
18149797 TTAAATTAGGTTAGG---GT--
126 TTAAATTAGGTTAGGTTTTTAA
* * *
18149814 TTTAATTAAG-TAGGGTTAGGGTTTTTAATTAAGTTATGTTAGGGTTTTTAATTTAATTAAGTTA
1 TTTAATTAAGTTAGGGTTAGGGTTTTTAATTAAG-TAGGTTAGGGTTTTTAATTAAATTAGGTTA
* * *
18149878 -GGTTAGGTTT--TTTAATTAAGTTATGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAT
65 GGGTT---TTTAATTTAATTAAGTTAGGTTAGGGTTTTTAATTAAGTTATGTTAGGGTTTTTAAT
*
18149940 TAAATTAGGTTAGG--GTT--
127 TAAATTAGGTTAGGTTTTTAA
*
18149957 TTTAATTAAG-TAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTT
1 TTTAATTAAGTTAGGGTTAGGGTTTTTAATT-AAGTAGGTTAGGGTT
18150003 AGGGTTTTTA
Statistics
Matches: 835, Mismatches: 57, Indels: 55
0.88 0.06 0.06
Matches are distributed among these distances:
142 78 0.09
143 264 0.32
144 75 0.09
145 7 0.01
146 3 0.00
147 1 0.00
148 20 0.02
149 386 0.46
150 1 0.00
ACGTcount: A:0.29, C:0.00, G:0.22, T:0.49
Consensus pattern (147 bp):
TTTAATTAAGTTAGGGTTAGGGTTTTTAATTAAGTAGGTTAGGGTTTTTAATTAAATTAGGTTAG
GGTTTTTAATTTAATTAAGTTAGGTTAGGGTTTTTAATTAAGTTATGTTAGGGTTTTTAATTAAA
TTAGGTTAGGTTTTTAA
Found at i:18151861 original size:14 final size:15
Alignment explanation
Indices: 18151844--18151877 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
18151834 AATAAATATC
18151844 TAAAAATA-CATAAA
1 TAAAAATATCATAAA
*
18151858 TAAAAATATCTTAAA
1 TAAAAATATCATAAA
18151873 TAAAA
1 TAAAA
18151878 TTTAAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (15 bp):
TAAAAATATCATAAA
Found at i:18152103 original size:22 final size:22
Alignment explanation
Indices: 18152073--18152114 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
18152063 ATTTGAAGAT
*
18152073 TTTTTGAAGGAAATTGAGAGGA
1 TTTTGGAAGGAAATTGAGAGGA
*
18152095 TTTTGGAAGGAATTTGAGAG
1 TTTTGGAAGGAAATTGAGAG
18152115 TTTGAGAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (22 bp):
TTTTGGAAGGAAATTGAGAGGA
Found at i:18152121 original size:30 final size:30
Alignment explanation
Indices: 18152086--18152144 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
18152076 TTGAAGGAAA
*
18152086 TTGAGAGGATTTTGGAAGGAATTTGAGAGT
1 TTGAGAGAATTTTGGAAGGAATTTGAGAGT
18152116 TTGAGAGAATTTTGGAAGGAATTTGAGAG
1 TTGAGAGAATTTTGGAAGGAATTTGAGAG
18152145 AAATTTTGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.36, T:0.32
Consensus pattern (30 bp):
TTGAGAGAATTTTGGAAGGAATTTGAGAGT
Found at i:18152140 original size:22 final size:21
Alignment explanation
Indices: 18152116--18152193 Score: 104
Period size: 22 Copynumber: 3.6 Consensus size: 21
18152106 ATTTGAGAGT
18152116 TTGAGAGAATTTTGGAAGGAA
1 TTGAGAGAATTTTGGAAGGAA
18152137 TTTGAGAGAAATTTT-GAAGGGAA
1 -TTGAGAG-AATTTTGGAA-GGAA
*
18152160 TTGAGAGAATTTTTGAAAGGAA
1 TTGAGAGAA-TTTTGGAAGGAA
18152182 TTGAGAGAATTT
1 TTGAGAGAATTT
18152194 GTGACAGCCC
Statistics
Matches: 51, Mismatches: 1, Indels: 9
0.84 0.02 0.15
Matches are distributed among these distances:
21 5 0.10
22 34 0.67
23 12 0.24
ACGTcount: A:0.38, C:0.00, G:0.29, T:0.32
Consensus pattern (21 bp):
TTGAGAGAATTTTGGAAGGAA
Found at i:18152142 original size:52 final size:51
Alignment explanation
Indices: 18152064--18152166 Score: 129
Period size: 52 Copynumber: 2.0 Consensus size: 51
18152054 TTAATATGGA
* * *
18152064 TTTGAAGATTTTTTGAAGGAAATTGAGAG-GATTTTGGAA-GGAATTTGAGAG
1 TTTGAAGAATTTTGGAAGGAAATTGAGAGAAATTTT-GAAGGGAA-TTGAGAG
*
18152115 TTTGAGAGAATTTTGGAAGGAATTTGAGAGAAATTTTGAAGGGAATTGAGAG
1 TTTGA-AGAATTTTGGAAGGAAATTGAGAGAAATTTTGAAGGGAATTGAGAG
18152167 AATTTTTGAA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
51 5 0.11
52 31 0.69
53 9 0.20
ACGTcount: A:0.35, C:0.00, G:0.32, T:0.33
Consensus pattern (51 bp):
TTTGAAGAATTTTGGAAGGAAATTGAGAGAAATTTTGAAGGGAATTGAGAG
Found at i:18154601 original size:47 final size:47
Alignment explanation
Indices: 18154535--18154971 Score: 599
Period size: 47 Copynumber: 9.1 Consensus size: 47
18154525 GAAATGATAG
*
18154535 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
18154582 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
18154629 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
18154676 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
18154723 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
** **
18154770 -AGGCATGGATGTGATATAGAGTAATGCATGTGATGAATGTGAAAGTGTATATATGTGA
1 TA---A-GG-CCT-A-AT-G-G--CCG-ATGTGATGAATGTGAAAGTGTATATATGTGA
18154828 T-AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
18154874 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * *
18154921 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
18154968 TAAG
1 TAAG
18154972 TCCCGAAGGG
Statistics
Matches: 353, Mismatches: 23, Indels: 28
0.87 0.06 0.07
Matches are distributed among these distances:
46 33 0.09
47 271 0.77
49 2 0.01
50 3 0.01
51 3 0.01
52 2 0.01
53 3 0.01
54 3 0.01
55 2 0.01
57 1 0.00
58 30 0.08
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:18154875 original size:198 final size:199
Alignment explanation
Indices: 18154598--18154960 Score: 629
Period size: 198 Copynumber: 1.8 Consensus size: 199
18154588 CTAATGGCCG
18154598 ATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
* *
18154663 TGTATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGG
66 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGACAAGG
* * *
18154728 CCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGAAGGCATGGATGTGATATAGAGTA
131 CCGAATGGCCAACGTGATGAATGTGAAAGTGTATATACGTGAAGGCATGGATGTGATATAGAGTA
18154793 ATGC
196 ATGC
*
18154797 ATGTGATGAATGTGAAAGTGTATATATGTGAT-AGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
* *
18154861 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGG
66 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGACAAGG
* *
18154926 CCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA
131 CCGAATGGCCAACGTGATGAATGTGAAAGTGTATA
18154961 AATGTGATAA
Statistics
Matches: 154, Mismatches: 10, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
198 123 0.80
199 31 0.20
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.29
Consensus pattern (199 bp):
ATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGACAAGG
CCGAATGGCCAACGTGATGAATGTGAAAGTGTATATACGTGAAGGCATGGATGTGATATAGAGTA
ATGC
Found at i:18155146 original size:37 final size:37
Alignment explanation
Indices: 18155090--18155168 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
18155080 CCGAGCTCTA
* * *
18155090 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
18155127 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
18155164 AAGAC
1 AAGAC
18155169 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:18157068 original size:43 final size:43
Alignment explanation
Indices: 18157020--18157122 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
18157010 TTGGTTTTCA
18157020 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
18157063 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
18157106 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
18157123 TTGAAATGCA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.22, C:0.16, G:0.36, T:0.26
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:18157139 original size:29 final size:29
Alignment explanation
Indices: 18157104--18157177 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
18157094 GTTGTGAGAT
* *
18157104 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
18157133 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
18157162 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
18157178 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:18157595 original size:40 final size:40
Alignment explanation
Indices: 18157551--18157707 Score: 199
Period size: 40 Copynumber: 3.9 Consensus size: 40
18157541 GAGTTACTAA
*
18157551 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT
* *
18157591 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT
* * * * *
18157631 ATCCGTGCTCAA-CCCCGAAGAGCATTCGTGCTGGTGTTAT
1 ATCCGGGCT-AAGTCCCGAAGAGCATTCATGCTAGTGATAT
* * *
18157671 ATCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGTGA
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
18157708 CGTGTATTCG
Statistics
Matches: 101, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
39 1 0.01
40 98 0.97
41 2 0.02
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT
Found at i:18161102 original size:47 final size:47
Alignment explanation
Indices: 18161036--18161507 Score: 749
Period size: 47 Copynumber: 10.1 Consensus size: 47
18161026 GAAATGATAG
*
18161036 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
18161083 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA-GTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
18161129 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
*
18161178 T-AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
18161224 TAAGGCCTAATGGCCGATGTGATG-ATGTG-AAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
18161269 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
18161316 TAAGGCCTAATGG-CGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
*
18161364 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
18161411 TAAGGCCTAATGGCCGATGTGATGAATGTG-AAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * *
18161457 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
18161504 TAAG
1 TAAG
18161508 TCCCGAAGGG
Statistics
Matches: 401, Mismatches: 14, Indels: 20
0.92 0.03 0.05
Matches are distributed among these distances:
45 40 0.10
46 122 0.30
47 150 0.37
48 62 0.15
49 27 0.07
ACGTcount: A:0.31, C:0.10, G:0.31, T:0.28
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:18161243 original size:95 final size:93
Alignment explanation
Indices: 18161036--18161507 Score: 738
Period size: 95 Copynumber: 5.0 Consensus size: 93
18161026 GAAATGATAG
*
18161036 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT-AGGCCTAATGGCCGAT
18161101 GTGATGAATGTGAAAGTGTATATA-GTGA
65 GTGATGAATGTGAAAGTGTATATACGTGA
18161129 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGCCTAATGGCCGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAGGCCTAATGGCCGA
18161194 TGTGATGAATGTGAAAGTGTATATACGTGA
64 TGTGATGAATGTGAAAGTGTATATACGTGA
*
18161224 TAAGGCCTAATGGCCGATGTGATG-ATGTG-AAGTGTATATACGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT-AGGCCTAATGGCCGAT
18161287 GTGATGAATGTGAAAGTGTATATACGTGA
65 GTGATGAATGTGAAAGTGTATATACGTGA
18161316 TAAGGCCTAATGG-CGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATA-GGCCTAATGGCCG
*
18161380 ATGTGATGAATGTGAAAGTGTATATATGTGA
63 ATGTGATGAATGTGAAAGTGTATATACGTGA
* * * * *
18161411 TAAGGCCTAATGGCCGATGTGATGAATGTG-AAGTGTATATATGTGACAGGGCCGAGTGGCCAAC
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATA-GGCCTAATGGCCGAT
* * *
18161475 GTGATGGATGTGAAAGTGTATAAATGTGA
65 GTGATGAATGTGAAAGTGTATATACGTGA
18161504 TAAG
1 TAAG
18161508 TCCCGAAGGG
Statistics
Matches: 358, Mismatches: 11, Indels: 20
0.92 0.03 0.05
Matches are distributed among these distances:
91 21 0.06
92 63 0.18
93 101 0.28
94 46 0.13
95 111 0.31
96 16 0.04
ACGTcount: A:0.31, C:0.10, G:0.31, T:0.28
Consensus pattern (93 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAGGCCTAATGGCCGATG
TGATGAATGTGAAAGTGTATATACGTGA
Found at i:18161680 original size:37 final size:37
Alignment explanation
Indices: 18161624--18161702 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
18161614 CCGAGCTCTA
* * *
18161624 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
18161661 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
18161698 AAGAC
1 AAGAC
18161703 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:18163599 original size:43 final size:43
Alignment explanation
Indices: 18163551--18163653 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
18163541 TTGGTTTTCA
18163551 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
18163594 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
18163637 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
18163654 TTGAAATGCA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.22, C:0.16, G:0.36, T:0.26
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:18163670 original size:29 final size:29
Alignment explanation
Indices: 18163635--18163708 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
18163625 GTTGTGAGAT
* *
18163635 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
18163664 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
18163693 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
18163709 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:18164129 original size:40 final size:40
Alignment explanation
Indices: 18164085--18164240 Score: 190
Period size: 40 Copynumber: 3.9 Consensus size: 40
18164075 GAGTTACTAA
*
18164085 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT
* *
18164125 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT
* * * * *
18164165 ATCCGTGCTCAA-CCCCGAAGAGCATTCGTGCTGGTGTTAT
1 ATCCGGGCT-AAGTCCCGAAGAGCATTCATGCTAGTGATAT
* * *
18164205 ATCCGGGCTAGGT-CCGAAGAGCAATCATGCTGGTGA
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
18164241 CGTGTATTCG
Statistics
Matches: 100, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
39 21 0.21
40 77 0.77
41 2 0.02
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT
Found at i:18167764 original size:47 final size:47
Alignment explanation
Indices: 18167698--18168177 Score: 762
Period size: 47 Copynumber: 10.1 Consensus size: 47
18167688 GAAATGATAG
18167698 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
18167745 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
*
18167792 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATACGTGA
*
18167841 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
18167888 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
18167935 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
*
18167982 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATACGTGA
* *
18168031 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATACGTGA
* *
18168080 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
* * * * * * * * *
18168127 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
18168174 TAAG
1 TAAG
18168178 TCCCGAAGGG
Statistics
Matches: 414, Mismatches: 15, Indels: 8
0.95 0.03 0.02
Matches are distributed among these distances:
47 275 0.66
49 139 0.34
ACGTcount: A:0.31, C:0.10, G:0.31, T:0.28
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
Found at i:18167959 original size:143 final size:141
Alignment explanation
Indices: 18167701--18168177 Score: 774
Period size: 143 Copynumber: 3.3 Consensus size: 141
18167691 ATGATAGTAA
18167701 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGATGTG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGATGTG
18167766 ATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
66 ATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--T
18167831 ATATATGTGATAG
129 ATATATGTGATAG
18167844 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGATGTG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGATGTG
18167909 ATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
66 ATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
* *
18167974 ATACGTGATAA
131 ATATGTGATAG
* *
18167985 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATACGTGATAAGGCCTAATGGCCGATG
* *
18168050 TGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGT
64 TGATGAATGTGAAAGTG--TATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
*
18168115 GTATATATGTGACAG
127 GTATATATGTGATAG
* * * * * * *
18168130 GGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAG
18168178 TCCCGAAGGG
Statistics
Matches: 314, Mismatches: 16, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
141 45 0.14
143 185 0.59
145 84 0.27
ACGTcount: A:0.31, C:0.10, G:0.31, T:0.28
Consensus pattern (141 bp):
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGATGTG
ATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
ATATGTGATAG
Found at i:18168021 original size:190 final size:191
Alignment explanation
Indices: 18167698--18168177 Score: 836
Period size: 190 Copynumber: 2.5 Consensus size: 191
18167688 GAAATGATAG
18167698 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGAT
18167763 GTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
66 GTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
18167828 TATATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-TATATACGTGA
131 TATATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATACGTGA
18167888 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGAT
18167953 GTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
66 GTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
18168018 TATATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
131 TATATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATATACGTGA
* * * * * * * *
18168080 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAAC
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGAT
* * *
18168145 GTGATGGATGTGAAAGTGTATAAATGTGATAAG
66 GTGATGAATGTGAAAGTGTATATACGTGATAAG
18168178 TCCCGAAGGG
Statistics
Matches: 276, Mismatches: 12, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
190 179 0.65
192 97 0.35
ACGTcount: A:0.31, C:0.10, G:0.31, T:0.28
Consensus pattern (191 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGAT
GTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
TATATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATACGTGA
Found at i:18168352 original size:37 final size:37
Alignment explanation
Indices: 18168296--18168374 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
18168286 CCGAGCTCTA
* * *
18168296 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
18168333 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
18168370 AAGAC
1 AAGAC
18168375 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:18171290 original size:14 final size:15
Alignment explanation
Indices: 18171273--18171306 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
18171263 AATAAATATC
18171273 TAAAAATA-CATAAA
1 TAAAAATATCATAAA
*
18171287 TAAAAATATCTTAAA
1 TAAAAATATCATAAA
18171302 TAAAA
1 TAAAA
18171307 TTTAAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (15 bp):
TAAAAATATCATAAA
Found at i:18171435 original size:26 final size:27
Alignment explanation
Indices: 18171404--18171457 Score: 92
Period size: 26 Copynumber: 2.0 Consensus size: 27
18171394 TTGAAAATAT
18171404 TAAAAATTTTAAAATTAT-TTAAAAAA
1 TAAAAATTTTAAAATTATCTTAAAAAA
*
18171430 TAAAAATTTTAAAATTTTCTTAAAAAA
1 TAAAAATTTTAAAATTATCTTAAAAAA
18171457 T
1 T
18171458 GAAATTTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 17 0.65
27 9 0.35
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (27 bp):
TAAAAATTTTAAAATTATCTTAAAAAA
Found at i:18171529 original size:22 final size:22
Alignment explanation
Indices: 18171499--18171540 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
18171489 ATTTGAAGAT
*
18171499 TTTTTGAAGGAAATTGAGAGGA
1 TTTTGGAAGGAAATTGAGAGGA
*
18171521 TTTTGGAAGGAATTTGAGAG
1 TTTTGGAAGGAAATTGAGAG
18171541 TTTGAGAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (22 bp):
TTTTGGAAGGAAATTGAGAGGA
Found at i:18171547 original size:30 final size:30
Alignment explanation
Indices: 18171512--18171570 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
18171502 TTGAAGGAAA
* *
18171512 TTGAGAGGATTTTGGAAGGAATTTGAGAGT
1 TTGAGAGAATTTTGGAAGGAAATTGAGAGT
18171542 TTGAGAGAATTTTGGAAGGAAATTGAGAG
1 TTGAGAGAATTTTGGAAGGAAATTGAGAG
18171571 AAATTTTGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.34, C:0.00, G:0.36, T:0.31
Consensus pattern (30 bp):
TTGAGAGAATTTTGGAAGGAAATTGAGAGT
Found at i:18171565 original size:52 final size:51
Alignment explanation
Indices: 18171490--18171589 Score: 139
Period size: 52 Copynumber: 1.9 Consensus size: 51
18171480 TTAATATGGA
* * * *
18171490 TTTGAAGATTTTTTGAAGGAAATTGAGAG-GATTTTGGAAGGAATTTGAGAG
1 TTTGAAGAATTTTGGAAGGAAATTGAGAGAAATTTT-GAAGGAAATTGAGAG
18171541 TTTGAGAGAATTTTGGAAGGAAATTGAGAGAAATTTTGAAGGAAATTGA
1 TTTGA-AGAATTTTGGAAGGAAATTGAGAGAAATTTTGAAGGAAATTGA
18171590 TATTGAATTT
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
51 5 0.12
52 33 0.77
53 5 0.12
ACGTcount: A:0.37, C:0.00, G:0.30, T:0.33
Consensus pattern (51 bp):
TTTGAAGAATTTTGGAAGGAAATTGAGAGAAATTTTGAAGGAAATTGAGAG
Found at i:18171599 original size:23 final size:22
Alignment explanation
Indices: 18171542--18171589 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
18171532 ATTTGAGAGT
18171542 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
18171564 TTGAGAGAAATTTT-GAAGGAAA
1 TTGAGAG-AATTTTGGAAGGAAA
18171586 TTGA
1 TTGA
18171590 TATTGAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
22 19 0.76
23 6 0.24
ACGTcount: A:0.42, C:0.00, G:0.29, T:0.29
Consensus pattern (22 bp):
TTGAGAGAATTTTGGAAGGAAA
Found at i:18172879 original size:15 final size:14
Alignment explanation
Indices: 18172851--18172884 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
18172841 AATAAATATC
18172851 TAAAAATACATAAA
1 TAAAAATACATAAA
*
18172865 TAAAAATATCTTAAA
1 TAAAAATA-CATAAA
18172880 TAAAA
1 TAAAA
18172885 TTTAAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (14 bp):
TAAAAATACATAAA
Found at i:18173012 original size:26 final size:28
Alignment explanation
Indices: 18172983--18173034 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 28
18172973 TGAAAATATT
*
18172983 AAAAA-TTTTAAATTAT-TTAAAAAATA
1 AAAAAGTTTAAAATTATCTTAAAAAATA
*
18173009 AAAAAGTTTAAAATTTTCTTAAAAAA
1 AAAAAGTTTAAAATTATCTTAAAAAA
18173035 ATGAAATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 5 0.23
27 9 0.41
28 8 0.36
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.37
Consensus pattern (28 bp):
AAAAAGTTTAAAATTATCTTAAAAAATA
Found at i:18173108 original size:22 final size:22
Alignment explanation
Indices: 18173078--18173119 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
18173068 ATTTGGAGAT
*
18173078 TTTTTGAAGGAAATTGAGAGGA
1 TTTTGGAAGGAAATTGAGAGGA
*
18173100 TTTTGGAAGGAATTTGAGAG
1 TTTTGGAAGGAAATTGAGAG
18173120 TTTGAGAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (22 bp):
TTTTGGAAGGAAATTGAGAGGA
Found at i:18173127 original size:30 final size:30
Alignment explanation
Indices: 18173091--18173149 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
18173081 TTGAAGGAAA
* *
18173091 TTGAGAGGATTTTGGAAGGAATTTGAGAGT
1 TTGAGAGAATTTTGGAAGGAAATTGAGAGT
18173121 TTGAGAGAATTTTGGAAGGAAATTGAGAG
1 TTGAGAGAATTTTGGAAGGAAATTGAGAG
18173150 AAATTTTGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.34, C:0.00, G:0.36, T:0.31
Consensus pattern (30 bp):
TTGAGAGAATTTTGGAAGGAAATTGAGAGT
Found at i:18173140 original size:52 final size:51
Alignment explanation
Indices: 18173069--18173171 Score: 138
Period size: 52 Copynumber: 2.0 Consensus size: 51
18173059 TTAATATGGA
* * *
18173069 TTTGGAGATTTTTTGAAGGAAATTGAGAG-GATTTTGGAA-GGAATTTGAGAG
1 TTTGGAGAATTTTGGAAGGAAATTGAGAGAAATTTT-GAAGGGAA-TTGAGAG
18173120 TTTGAGAGAATTTTGGAAGGAAATTGAGAGAAATTTTGAAGGGAATTGAGAG
1 TTTG-GAGAATTTTGGAAGGAAATTGAGAGAAATTTTGAAGGGAATTGAGAG
18173172 AATTTTTGAA
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
51 4 0.09
52 33 0.72
53 9 0.20
ACGTcount: A:0.35, C:0.00, G:0.33, T:0.32
Consensus pattern (51 bp):
TTTGGAGAATTTTGGAAGGAAATTGAGAGAAATTTTGAAGGGAATTGAGAG
Found at i:18173146 original size:22 final size:22
Alignment explanation
Indices: 18173121--18173212 Score: 148
Period size: 22 Copynumber: 4.2 Consensus size: 22
18173111 ATTTGAGAGT
*
18173121 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTTGAAGGAAA
* *
18173143 TTGAGAGAAATTTTGAAGGGAA
1 TTGAGAGAATTTTTGAAGGAAA
*
18173165 TTGAGAGAATTTTTGAAAGAAA
1 TTGAGAGAATTTTTGAAGGAAA
18173187 TTGAGAGAATTTTTGAAGGAAA
1 TTGAGAGAATTTTTGAAGGAAA
18173209 TTGA
1 TTGA
18173213 TATTGAATTT
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 63 1.00
ACGTcount: A:0.41, C:0.00, G:0.28, T:0.30
Consensus pattern (22 bp):
TTGAGAGAATTTTTGAAGGAAA
Found at i:18174764 original size:14 final size:15
Alignment explanation
Indices: 18174747--18174780 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
18174737 AATAAATATC
18174747 TAAAAATA-CATAAA
1 TAAAAATATCATAAA
*
18174761 TAAAAATATCTTAAA
1 TAAAAATATCATAAA
18174776 TAAAA
1 TAAAA
18174781 TTTAAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (15 bp):
TAAAAATATCATAAA
Found at i:18175034 original size:30 final size:29
Alignment explanation
Indices: 18174998--18175077 Score: 142
Period size: 30 Copynumber: 2.7 Consensus size: 29
18174988 AATTGAAAGG
18174998 ATTTTGGAAGGAATTTGAGAGTTTGAGAGA
1 ATTTTGGAAGGAA-TTGAGAGTTTGAGAGA
18175028 ATTTTGGAAGGAAATTGAGAGTTTGAGAGA
1 ATTTTGGAAGG-AATTGAGAGTTTGAGAGA
18175058 ATTTTGGAAGGAATTGAGAG
1 ATTTTGGAAGGAATTGAGAG
18175078 AATTTTTGAA
Statistics
Matches: 49, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
29 9 0.18
30 38 0.78
31 2 0.04
ACGTcount: A:0.35, C:0.00, G:0.34, T:0.31
Consensus pattern (29 bp):
ATTTTGGAAGGAATTGAGAGTTTGAGAGA
Found at i:18175090 original size:22 final size:21
Alignment explanation
Indices: 18175050--18175118 Score: 111
Period size: 22 Copynumber: 3.2 Consensus size: 21
18175040 AATTGAGAGT
*
18175050 TTGAGAGAATTTTGGAAGGAA
1 TTGAGAGAATTTTTGAAGGAA
18175071 TTGAGAGAATTTTTGAAAGGAA
1 TTGAGAGAATTTTTG-AAGGAA
18175093 TTGAGAGAATTTTTGAAGGAAA
1 TTGAGAGAATTTTTGAAGG-AA
18175115 TTGA
1 TTGA
18175119 TATTGAATTT
Statistics
Matches: 45, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
21 18 0.40
22 27 0.60
ACGTcount: A:0.39, C:0.00, G:0.29, T:0.32
Consensus pattern (21 bp):
TTGAGAGAATTTTTGAAGGAA
Found at i:18185420 original size:25 final size:25
Alignment explanation
Indices: 18185380--18185467 Score: 68
Period size: 25 Copynumber: 3.4 Consensus size: 25
18185370 GAAACCCTAA
*
18185380 CTTTTCTCCTTCTTTCTTTCTCTTTTT
1 CTTTTCT--TTCTTTCTTTCTCTATTT
* * *
18185407 CTTTTCTTTCTTTCCTTCTATGTTT
1 CTTTTCTTTCTTTCTTTCTCTATTT
** * *
18185432 AGTTTCTTTCTCTCCTTTTTCTATTT
1 CTTTTCTTTCT-TTCTTTCTCTATTT
18185458 CTTTTTCTTT
1 C-TTTTCTTT
18185468 TACTTAATTA
Statistics
Matches: 47, Mismatches: 12, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
25 24 0.51
26 9 0.19
27 14 0.30
ACGTcount: A:0.03, C:0.25, G:0.02, T:0.69
Consensus pattern (25 bp):
CTTTTCTTTCTTTCTTTCTCTATTT
Found at i:18185458 original size:21 final size:21
Alignment explanation
Indices: 18185389--18185461 Score: 76
Period size: 21 Copynumber: 3.3 Consensus size: 21
18185379 ACTTTTCTCC
18185389 TTCTTTCTTTCTCTTTTTCT-T
1 TTCTTTCTTTC-CTTTTTCTAT
*
18185410 TTCTTTCTTTCCTTCTATGTTTAGT
1 TTCTTTCTTTCCTT-T-T-TCTA-T
*
18185435 TTCTTTCTCTCCTTTTTCTAT
1 TTCTTTCTTTCCTTTTTCTAT
18185456 TTCTTT
1 TTCTTT
18185462 TTCTTTTACT
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
20 3 0.07
21 19 0.43
22 4 0.09
23 3 0.07
24 1 0.02
25 14 0.32
ACGTcount: A:0.04, C:0.23, G:0.03, T:0.70
Consensus pattern (21 bp):
TTCTTTCTTTCCTTTTTCTAT
Found at i:18185492 original size:5 final size:5
Alignment explanation
Indices: 18185482--18185506 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
18185472 TAATTATTAT
18185482 ATATA ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA
18185507 TACTTAACAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:18185558 original size:38 final size:40
Alignment explanation
Indices: 18185488--18185570 Score: 116
Period size: 40 Copynumber: 2.1 Consensus size: 40
18185478 TTATATATAA
18185488 TATAATATAATATAATATATACTTAACATTTAAGTTTTAT
1 TATAATATAATATAATATATACTTAACATTTAAGTTTTAT
* * *
18185528 TATAATATTATATTATATAT-TTTAAC-TTTAAGTTTTAT
1 TATAATATAATATAATATATACTTAACATTTAAGTTTTAT
*
18185566 AATAA
1 TATAA
18185571 AATACACTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
38 16 0.41
39 5 0.13
40 18 0.46
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.51
Consensus pattern (40 bp):
TATAATATAATATAATATATACTTAACATTTAAGTTTTAT
Found at i:18187375 original size:21 final size:21
Alignment explanation
Indices: 18187347--18187414 Score: 100
Period size: 21 Copynumber: 3.2 Consensus size: 21
18187337 CACAGTTTGT
*
18187347 TCACACGGCCATTTGACCCAC
1 TCACACGGCCATGTGACCCAC
*
18187368 TTACACGGCCATGTGACCCAC
1 TCACACGGCCATGTGACCCAC
* *
18187389 TCACACAGCCATGTGAACCAC
1 TCACACGGCCATGTGACCCAC
18187410 TCACA
1 TCACA
18187415 TGAACATGTG
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.28, C:0.40, G:0.15, T:0.18
Consensus pattern (21 bp):
TCACACGGCCATGTGACCCAC
Found at i:18193561 original size:20 final size:20
Alignment explanation
Indices: 18193520--18193564 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
18193510 AAAAAAAATC
*
18193520 TTAAAAATAAATATAAATCA
1 TTAAAAATAAATATAAAACA
*
18193540 TTAAAAATATAT-TAAAAACA
1 TTAAAAATAAATAT-AAAACA
18193560 TTAAA
1 TTAAA
18193565 TCATCAATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 1 0.05
20 21 0.95
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.31
Consensus pattern (20 bp):
TTAAAAATAAATATAAAACA
Done.