Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032255.1 Gossypioides kirkii chromosome KI_13
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: 42971368
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 61 of 143
Found at i:19630812 original size:17 final size:17
Alignment explanation
Indices: 19630782--19630839 Score: 68
Period size: 17 Copynumber: 3.5 Consensus size: 17
19630772 AATTTATTCC
19630782 AAATTT-AC-CAAATTT
1 AAATTTAACACAAATTT
19630797 AAATTTAACACAAATTT
1 AAATTTAACACAAATTT
*
19630814 AAATTTAA-AAATTAATTT
1 AAATTTAACACA--AATTT
19630832 AAATTTAA
1 AAATTTAA
19630840 ATTTTAAGAT
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
15 6 0.16
16 4 0.11
17 15 0.39
18 13 0.34
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (17 bp):
AAATTTAACACAAATTT
Found at i:19630846 original size:18 final size:18
Alignment explanation
Indices: 19630792--19630840 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
19630782 AAATTTACCA
*
19630792 AATTTAAATTTAACACA--
1 AATTTAAATTTAA-AAATT
19630809 AATTTAAATTTAAAAATT
1 AATTTAAATTTAAAAATT
19630827 AATTTAAATTTAAA
1 AATTTAAATTTAAA
19630841 TTTTAAGATA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
16 2 0.07
17 13 0.45
18 14 0.48
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (18 bp):
AATTTAAATTTAAAAATT
Found at i:19630859 original size:24 final size:24
Alignment explanation
Indices: 19630807--19630861 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
19630797 AAATTTAACA
* *
19630807 CAAATTTAAATTTAAAAATTAATT
1 CAAATTTAAATTTAAAAATAAATC
* * *
19630831 TAAATTTAAATTTTAAGATAAATC
1 CAAATTTAAATTTAAAAATAAATC
19630855 CAAATTT
1 CAAATTT
19630862 GTGAATAAAT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.42
Consensus pattern (24 bp):
CAAATTTAAATTTAAAAATAAATC
Found at i:19631912 original size:152 final size:152
Alignment explanation
Indices: 19631709--19632641 Score: 1224
Period size: 152 Copynumber: 5.9 Consensus size: 152
19631699 TCTCCACTAG
** *
19631709 CTCTTACTTCAATTTCAGAGGGACGAAGGCTTGATATCCAACTTTACTTCAATTTCAAGAGGATA
1 CTCTTACTTCAATTTCAGA--GATAAAGACTTGATATCCAACTTTACTTCAATTTCAAGAGGATA
19631774 GAAAATGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTCTACTTCAATT
64 GAAAATGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTCTACTTCAATT
* *
19631839 TCAAGAGTATAGAAAATGATCTTA
129 TCAAGAGGATAGGAAATGATCTTA
* * * *
19631863 CTCTTACTTCAATTTCAGAGATAGAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGACA-A
1 CTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTTTACTTCAATTTCAAGAGGATAGA
* * * *
19631927 GAAATGATTTTGCTCTTACTTCAATTTCAGAGATGAAGACTTGTTATCCAACTCTACTTCAATTT
66 -AAATGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTCTACTTCAATTT
* *
19631992 CAAGAGGATAGGAAAAGATCTTG
130 CAAGAGGATAGGAAATGATCTTA
** *
19632015 CTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGTTTTACTTCAATTTCAAGAGGATAGG
1 CTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTTTACTTCAATTTCAAGAGGATAGA
* *
19632080 AAATGATCTTACTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTC
66 AAATGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTCTACTTCAATTTC
19632145 AAGAGGATAGGAAATGATCTTA
131 AAGAGGATAGGAAATGATCTTA
*
19632167 CTCTTACTTCAATTTCGGAGATAAAGACTTGATATCCAAC-TTACTTCAATTTCAAGAGGATAGG
1 CTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTTTACTTCAATTTCAAGAGGATA-G
*
19632231 AAAA-GATCTTGCTCTTACTTCAATTTCAGAGATAAAGGCTTGATATCCAGCTCTACTTCAATTT
65 AAAATGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTCTACTTCAATTT
19632295 CAAGAGGATAGGAAATGATCTTA
130 CAAGAGGATAGGAAATGATCTTA
* **
19632318 CTCTTACTTCAATTTTAGAGATAAAGACTTGATATCCAGTTTTACTTCAATTTCAAGAGGATAGG
1 CTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTTTACTTCAATTTCAAGAGGATA-G
* * * * *
19632383 AAATGATCTTAGTGCTTCATCTTACTCTTACTTCAATTTTAGATAGACAAAGGCTTGATATCCAA
65 -AA--A----A-TG----ATCTTGCTCTTACTTCAATTTCAG--AGATAAAGACTTGATATCCAG
*
19632448 CTCTACTTCAATTTCAAGAGGATAGGAAATAATCTTA
116 CTCTACTTCAATTTCAAGAGGATAGGAAATGATCTTA
*
19632485 CTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGG
1 CTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTTTACTTCAATTTCAAGAGGATA-G
* * *
19632550 AAATGATCTTTGTGCTTCATCTTACTCTTACTTCAATTTCAGATAGACAAAGGCTTGATATCCAG
65 AAA--A------TG----ATCTTGCTCTTACTTCAATTTCAG--AGATAAAGACTTGATATCCAG
19632615 CTCTACTTCAATTTCAAGAGGATAGGA
116 CTCTACTTCAATTTCAAGAGGATAGGA
19632642 CTTATCATTT
Statistics
Matches: 704, Mismatches: 51, Indels: 35
0.89 0.06 0.04
Matches are distributed among these distances:
151 139 0.20
152 317 0.45
153 2 0.00
154 19 0.03
155 1 0.00
159 1 0.00
161 1 0.00
162 2 0.00
164 1 0.00
165 22 0.03
166 2 0.00
167 197 0.28
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.34
Consensus pattern (152 bp):
CTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTTTACTTCAATTTCAAGAGGATAGA
AAATGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTCTACTTCAATTTC
AAGAGGATAGGAAATGATCTTA
Found at i:19632140 original size:228 final size:228
Alignment explanation
Indices: 19631708--19632641 Score: 1271
Period size: 228 Copynumber: 4.0 Consensus size: 228
19631698 GTCTCCACTA
* * *
19631708 GCTCTTACTTCAATTTCAGAGGGACGAAGGCTTGATATCCAACTTTACTTCAATTTCAAGAGGAT
1 GCTCTTACTTCAATTTCAGA--GACAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGAT
19631773 A-GAAAATGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTCTACTTCAA
64 AGGAAAA-GATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTCTACTTCAA
* * * * *
19631837 TTTCAAGAGTATAGAAAATGATCTTACTCTTACTTCAATTTCAGAGATAGAGACTTGTTATCCAA
128 TTTCAAGAGGATAGGAAATGATCTTACTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAG
* * *
19631902 CTCTACTTCAATTTCAAGAGGACAAGAAATGATTTT
193 CTTTACTTCAATTTCAAGAGGATAGGAAATGATTTT
** *
19631938 GCTCTTACTTCAATTTCAGAGATGAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAG
1 GCTCTTACTTCAATTTCAGAGACAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATAG
* *
19632003 GAAAAGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGTTTTACTTCAATTT
66 GAAAAGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTCTACTTCAATTT
19632068 CAAGAGGATAGGAAATGATCTTACTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTT
131 CAAGAGGATAGGAAATGATCTTACTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTT
*
19632133 TACTTCAATTTCAAGAGGATAGGAAATGATCTT
196 TACTTCAATTTCAAGAGGATAGGAAATGATTTT
* * *
19632166 ACTCTTACTTCAATTTCGGAGATAAAGACTTGATATCCAACT-TACTTCAATTTCAAGAGGATAG
1 GCTCTTACTTCAATTTCAGAGACAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATAG
*
19632230 GAAAAGATCTTGCTCTTACTTCAATTTCAGAGATAAAGGCTTGATATCCAGCTCTACTTCAATTT
66 GAAAAGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTCTACTTCAATTT
* *
19632295 CAAGAGGATAGGAAATGATCTTACTCTTACTTCAATTTTAGAGATAAAGACTTGATATCCAGTTT
131 CAAGAGGATAGGAAATGATCTTACTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTT
19632360 TACTTCAATTTCAAGAGGATAGGAAATGATCTTAGT
196 TACTTCAATTTCAAGAGGATAGGAAATGAT-TT--T
* *
19632396 GCTTCATCTTACTCTTACTTCAATTTTAGATAGACAAAGGCTTGATATCCAACTCTACTTCAATT
1 G----------CTCTTACTTCAATTTCAG--AGACAAAGACTTGATATCCAACTCTACTTCAATT
*
19632461 TCAAGAGGATAGGAAATA-ATCTTACTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGC
54 TCAAGAGGATAGGAAA-AGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGC
*
19632525 TTTACTTCAATTTCAAGAGGATAGGAAATGATCTTTGTGCTTCATCTTACTCTTACTTCAATTTC
118 TCTACTTCAATTTCAAGAGGATAGG-AA--A------TG----ATCTTACTCTTACTTCAATTTC
* * *
19632590 AGATAGACAAAGGCTTGATATCCAGCTCTACTTCAATTTCAAGAGGATAGGA
170 AG--AGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGGA
19632642 CTTATCATTT
Statistics
Matches: 633, Mismatches: 38, Indels: 38
0.89 0.05 0.05
Matches are distributed among these distances:
227 177 0.28
228 226 0.36
229 5 0.01
230 21 0.03
240 16 0.03
242 21 0.03
243 94 0.15
244 3 0.00
246 1 0.00
252 2 0.00
256 23 0.04
258 44 0.07
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.34
Consensus pattern (228 bp):
GCTCTTACTTCAATTTCAGAGACAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATAG
GAAAAGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTCTACTTCAATTT
CAAGAGGATAGGAAATGATCTTACTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTT
TACTTCAATTTCAAGAGGATAGGAAATGATTTT
Found at i:19632393 original size:76 final size:76
Alignment explanation
Indices: 19631709--19632559 Score: 1059
Period size: 76 Copynumber: 11.0 Consensus size: 76
19631699 TCTCCACTAG
** * *
19631709 CTCTTACTTCAATTTCAGAGGGACGAAGGCTTGATATCCAACTTTACTTCAATTTCAAGAGGATA
1 CTCTTACTTCAATTTCAGA--GATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATA
* *
19631774 GAAAATGATCTTG
64 GGAAATGATCTTA
* * *
19631787 CTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTCTACTTCAATTTCAAGAGTATAGA
1 CTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGG
19631852 AAATGATCTTA
66 AAATGATCTTA
* * * * * *
19631863 CTCTTACTTCAATTTCAGAGATAGAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGACAAG
1 CTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGG
* *
19631928 AAATGATTTTG
66 AAATGATCTTA
* * * *
19631939 CTCTTACTTCAATTTCAGAGATGAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGG
1 CTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGG
* *
19632004 AAAAGATCTTG
66 AAATGATCTTA
*
19632015 CTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGTTTTACTTCAATTTCAAGAGGATAGG
1 CTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGG
19632080 AAATGATCTTA
66 AAATGATCTTA
19632091 CTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGG
1 CTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGG
19632156 AAATGATCTTA
66 AAATGATCTTA
* *
19632167 CTCTTACTTCAATTTCGGAGATAAAGACTTGATATCCAAC-TTACTTCAATTTCAAGAGGATAGG
1 CTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGG
* *
19632231 AAAAGATCTTG
66 AAATGATCTTA
* *
19632242 CTCTTACTTCAATTTCAGAGATAAAGGCTTGATATCCAGCTCTACTTCAATTTCAAGAGGATAGG
1 CTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGG
19632307 AAATGATCTTA
66 AAATGATCTTA
* *
19632318 CTCTTACTTCAATTTTAGAGATAAAGACTTGATATCCAGTTTTACTTCAATTTCAAGAGGATAGG
1 CTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGG
19632383 AAATGATCTTA
66 AAATGATCTTA
* * ** * ** * * *
19632394 GTGCTTCATCTT-ACTCTT---ACTTCAA-TTTTAGATAGACAAAGGCTTGATA-TCCAACTCTA
1 CT-CTT-A-CTTCAAT-TTCAGAGATAAAGACTT-GATA-TC-CA-GCTT--TACTTCAA---T-
*
19632453 CTTCAATTTCAAGAGGATAGGAAATAATCTTA
52 -TT------CAAGAGGATAGGAAATGATCTTA
19632485 CTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGG
1 CTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGG
19632550 AAATGATCTT
66 AAATGATCTT
19632560 TGTGCTTCAT
Statistics
Matches: 678, Mismatches: 67, Indels: 58
0.84 0.08 0.07
Matches are distributed among these distances:
75 72 0.11
76 503 0.74
77 4 0.01
78 23 0.03
79 8 0.01
80 4 0.01
81 2 0.00
82 2 0.00
83 1 0.00
84 1 0.00
85 2 0.00
86 2 0.00
87 4 0.01
88 9 0.01
89 4 0.01
90 4 0.01
91 31 0.05
92 2 0.00
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.34
Consensus pattern (76 bp):
CTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGG
AAATGATCTTA
Found at i:19632465 original size:91 final size:89
Alignment explanation
Indices: 19632312--19632484 Score: 274
Period size: 91 Copynumber: 1.9 Consensus size: 89
19632302 ATAGGAAATG
* ** *
19632312 ATCTTACTCTTACTTCAATTTTAGAGATAAAGACTTGATATCCAGTTTTACTTCAATTTCAAGAG
1 ATCTTACTCTTACTTCAATTTTAGAGACAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAG
*
19632377 GATAGGAAATGATCTTAGTGCTTC
66 GATAGGAAATAATCTTAGTGCTTC
*
19632401 ATCTTACTCTTACTTCAATTTTAGATAGACAAAGGCTTGATATCCAACTCTACTTCAATTTCAAG
1 ATCTTACTCTTACTTCAATTTTAG--AGACAAAGACTTGATATCCAACTCTACTTCAATTTCAAG
19632466 AGGATAGGAAATAATCTTA
64 AGGATAGGAAATAATCTTA
19632485 CTCTTACTTC
Statistics
Matches: 76, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
89 24 0.32
91 52 0.68
ACGTcount: A:0.34, C:0.17, G:0.13, T:0.36
Consensus pattern (89 bp):
ATCTTACTCTTACTTCAATTTTAGAGACAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAG
GATAGGAAATAATCTTAGTGCTTC
Found at i:19632499 original size:38 final size:38
Alignment explanation
Indices: 19632447--19632559 Score: 110
Period size: 38 Copynumber: 3.0 Consensus size: 38
19632437 TTGATATCCA
19632447 ACTC-TACTTCAATTTCAAGAGGATAGGAAATAATCTT
1 ACTCTTACTTCAATTTCAAGAGGATAGGAAATAATCTT
* ** *
19632484 ACTCTTACTTCAATTTC-AGA-GATAAAGACTTGATATC-C
1 ACTCTTACTTCAATTTCAAGAGGAT-AGGAAAT-A-ATCTT
*
19632522 AGCT-TTACTTCAATTTCAAGAGGATAGGAAATGATCTT
1 A-CTCTTACTTCAATTTCAAGAGGATAGGAAATAATCTT
19632560 TGTGCTTCAT
Statistics
Matches: 59, Mismatches: 9, Indels: 15
0.71 0.11 0.18
Matches are distributed among these distances:
36 3 0.05
37 14 0.24
38 27 0.46
39 12 0.20
40 3 0.05
ACGTcount: A:0.35, C:0.17, G:0.14, T:0.34
Consensus pattern (38 bp):
ACTCTTACTTCAATTTCAAGAGGATAGGAAATAATCTT
Found at i:19632516 original size:167 final size:167
Alignment explanation
Indices: 19632236--19632641 Score: 726
Period size: 167 Copynumber: 2.4 Consensus size: 167
19632226 ATAGGAAAAG
* *
19632236 ATCTTGCTCTTACTTCAATTTCAG--AGATAAAGGCTTGATATCCAGCTCTACTTCAATTTCAAG
1 ATCTTACTCTTACTTCAATTTCAGATAGACAAAGGCTTGATATCCAGCTCTACTTCAATTTCAAG
* * *
19632299 AGGATAGGAAATGATCTTACTCTTACTTCAATTTTAGAGATAAAGACTTGATATCCAGTTTTACT
66 AGGATAGGAAATAATCTTACTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACT
19632364 TCAATTTCAAGAGGATAGGAAATGATCTTAGTGCTTC
131 TCAATTTCAAGAGGATAGGAAATGATCTTAGTGCTTC
* *
19632401 ATCTTACTCTTACTTCAATTTTAGATAGACAAAGGCTTGATATCCAACTCTACTTCAATTTCAAG
1 ATCTTACTCTTACTTCAATTTCAGATAGACAAAGGCTTGATATCCAGCTCTACTTCAATTTCAAG
19632466 AGGATAGGAAATAATCTTACTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACT
66 AGGATAGGAAATAATCTTACTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACT
*
19632531 TCAATTTCAAGAGGATAGGAAATGATCTTTGTGCTTC
131 TCAATTTCAAGAGGATAGGAAATGATCTTAGTGCTTC
19632568 ATCTTACTCTTACTTCAATTTCAGATAGACAAAGGCTTGATATCCAGCTCTACTTCAATTTCAAG
1 ATCTTACTCTTACTTCAATTTCAGATAGACAAAGGCTTGATATCCAGCTCTACTTCAATTTCAAG
19632633 AGGATAGGA
66 AGGATAGGA
19632642 CTTATCATTT
Statistics
Matches: 229, Mismatches: 10, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
165 22 0.10
167 207 0.90
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.35
Consensus pattern (167 bp):
ATCTTACTCTTACTTCAATTTCAGATAGACAAAGGCTTGATATCCAGCTCTACTTCAATTTCAAG
AGGATAGGAAATAATCTTACTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACT
TCAATTTCAAGAGGATAGGAAATGATCTTAGTGCTTC
Found at i:19632889 original size:22 final size:20
Alignment explanation
Indices: 19632847--19632889 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
19632837 TTCGTGGTAC
* *
19632847 TAGATTTTCCGTTGTGATCT
1 TAGATTTTCCCTTCTGATCT
19632867 TAGATCTTTCCCTTCTGTATCT
1 TAGAT-TTTCCCTTCTG-ATCT
19632889 T
1 T
19632890 TGTGGTACTG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 5 0.26
21 9 0.47
22 5 0.26
ACGTcount: A:0.14, C:0.21, G:0.14, T:0.51
Consensus pattern (20 bp):
TAGATTTTCCCTTCTGATCT
Found at i:19632910 original size:51 final size:50
Alignment explanation
Indices: 19632807--19632926 Score: 125
Period size: 51 Copynumber: 2.4 Consensus size: 50
19632797 CATGTATCGT
* * ***
19632807 CGTTGCGA-CTTAGATCTTTCTCGTCGTGTCTTCGTGGTACTAGATTTTC
1 CGTTGCGATCTTAGATCTTTCCCGTCGTATCTTCGTGGTACTAGATCCAC
* * * *
19632856 CGTTGTGATCTTAGATCTTTCCCTTCTGTATCTTTGTGGTACTGGATCCAC
1 CGTTGCGATCTTAGATCTTTCCCGTC-GTATCTTCGTGGTACTAGATCCAC
* *
19632907 CGTTGCGGTCTTAAATCTTT
1 CGTTGCGATCTTAGATCTTT
19632927 TCGGTCCATG
Statistics
Matches: 57, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
49 7 0.12
50 15 0.26
51 35 0.61
ACGTcount: A:0.13, C:0.23, G:0.21, T:0.43
Consensus pattern (50 bp):
CGTTGCGATCTTAGATCTTTCCCGTCGTATCTTCGTGGTACTAGATCCAC
Found at i:19633022 original size:50 final size:50
Alignment explanation
Indices: 19632960--19633226 Score: 183
Period size: 50 Copynumber: 5.3 Consensus size: 50
19632950 CGGTCCGCAG
19632960 TTGCGACTTAGACCTTTCCCTTTTCTGTTTTTGAAGTACTGGATCTGCCA
1 TTGCGACTTAGACCTTTCCCTTTTCTGTTTTTGAAGTACTGGATCTGCCA
* * * * ** *
19633010 TTGTGACTTAGACCTTT-TCTTGTTGTGTTTTGTG--GTGCTGGATCCACCG
1 TTGCGACTTAGACCTTTCCCTT-TTCTGTTTT-TGAAGTACTGGATCTGCCA
* ** * * * * *
19633059 TTGCGATCTTAGATCTTT-CCGGTCCATGCTTTTGAGGTACACGGTTC-G-CA
1 TTGCGA-CTTAGACCTTTCCCTTTTC-TGTTTTTGAAGTAC-TGGATCTGCCA
*
19633109 GTTGCGACTTAGACCTTTCCCTTTTCTGTTTTTAAAGTACTGGATCTGCCA
1 -TTGCGACTTAGACCTTTCCCTTTTCTGTTTTTGAAGTACTGGATCTGCCA
* * * * * *
19633160 TTGCGGTCTTAGATCTTTCCC--GTCATGCTTCTGAGGTACATGG-TCTGCCA
1 TTGC-GACTTAGACCTTTCCCTTTTC-TGTTTTTGAAGTAC-TGGATCTGCCA
*
19633210 TTGTGACTTAGACCTTT
1 TTGCGACTTAGACCTTT
19633227 TCTTGTTGTG
Statistics
Matches: 164, Mismatches: 39, Indels: 29
0.71 0.17 0.12
Matches are distributed among these distances:
49 39 0.24
50 87 0.53
51 34 0.21
52 4 0.02
ACGTcount: A:0.15, C:0.23, G:0.22, T:0.40
Consensus pattern (50 bp):
TTGCGACTTAGACCTTTCCCTTTTCTGTTTTTGAAGTACTGGATCTGCCA
Found at i:19633082 original size:150 final size:150
Alignment explanation
Indices: 19632888--19633162 Score: 496
Period size: 150 Copynumber: 1.8 Consensus size: 150
19632878 CTTCTGTATC
* *
19632888 TTTGTGGTACTGGATCCACCGTTGCGGTCTTAAATCTTTTCGGTCCATGCTTTTGAGGTACACGG
1 TTTGTGGTACTGGATCCACCGTTGCGATCTTAAATCTTTCCGGTCCATGCTTTTGAGGTACACGG
*
19632953 TCCGCAGTTGCGACTTAGACCTTTCCCTTTTCTGTTTTTGAAGTACTGGATCTGCCATTGTGACT
66 TCCGCAGTTGCGACTTAGACCTTTCCCTTTTCTGTTTTTAAAGTACTGGATCTGCCATTGTGACT
19633018 TAGACCTTTTCTTGTTGTGT
131 TAGACCTTTTCTTGTTGTGT
* *
19633038 TTTGTGGTGCTGGATCCACCGTTGCGATCTTAGATCTTTCCGGTCCATGCTTTTGAGGTACACGG
1 TTTGTGGTACTGGATCCACCGTTGCGATCTTAAATCTTTCCGGTCCATGCTTTTGAGGTACACGG
*
19633103 TTCGCAGTTGCGACTTAGACCTTTCCCTTTTCTGTTTTTAAAGTACTGGATCTGCCATTG
66 TCCGCAGTTGCGACTTAGACCTTTCCCTTTTCTGTTTTTAAAGTACTGGATCTGCCATTG
19633163 CGGTCTTAGA
Statistics
Matches: 119, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
150 119 1.00
ACGTcount: A:0.15, C:0.23, G:0.23, T:0.40
Consensus pattern (150 bp):
TTTGTGGTACTGGATCCACCGTTGCGATCTTAAATCTTTCCGGTCCATGCTTTTGAGGTACACGG
TCCGCAGTTGCGACTTAGACCTTTCCCTTTTCTGTTTTTAAAGTACTGGATCTGCCATTGTGACT
TAGACCTTTTCTTGTTGTGT
Found at i:19633092 original size:100 final size:99
Alignment explanation
Indices: 19632988--19633249 Score: 309
Period size: 100 Copynumber: 2.6 Consensus size: 99
19632978 CCTTTTCTGT
*
19632988 TTTTGAAGTAC-TGGATCTGCCATTGTGACTTAGACCTTTTCTTGTTGTGTTTTGTGGTGCTGGA
1 TTTTGAGGTACATGG-TCTGCCATTGTGACTTAGACCTTTTCTTGTTGTGTTTTGTGGTGCTGGA
* *
19633052 TCCACCGTTGCGATCTTAGATCTTTCCGGTCCATGC
65 TCCACCATTGCGATCTTAGATCTTTCCCGT-CATGC
* * * * * *
19633088 TTTTGAGGTACACGGT-T-CGCAGTTGCGACTTAGACCTTTCCCTT-TTCTGTTTT-TAAAGTAC
1 TTTTGAGGTACATGGTCTGC-CA-TTGTGACTTAGACCTTT-TCTTGTTGTGTTTTGT--GGTGC
** *
19633149 TGGATCTGCCATTGCGGTCTTAGATCTTTCCCGTCATGC
61 TGGATCCACCATTGCGATCTTAGATCTTTCCCGTCATGC
*
19633188 TTCTGAGGTACATGGTCTGCCATTGTGACTTAGACCTTTTCTTGTTGTGTTTTGTGGTGCTG
1 TTTTGAGGTACATGGTCTGCCATTGTGACTTAGACCTTTTCTTGTTGTGTTTTGTGGTGCTG
19633250 AGACCTATAA
Statistics
Matches: 133, Mismatches: 19, Indels: 21
0.77 0.11 0.12
Matches are distributed among these distances:
98 1 0.01
99 12 0.09
100 78 0.59
101 41 0.31
102 1 0.01
ACGTcount: A:0.14, C:0.21, G:0.24, T:0.41
Consensus pattern (99 bp):
TTTTGAGGTACATGGTCTGCCATTGTGACTTAGACCTTTTCTTGTTGTGTTTTGTGGTGCTGGAT
CCACCATTGCGATCTTAGATCTTTCCCGTCATGC
Found at i:19633221 original size:150 final size:150
Alignment explanation
Indices: 19632893--19633198 Score: 434
Period size: 150 Copynumber: 2.0 Consensus size: 150
19632883 GTATCTTTGT
* * * *
19632893 GGTACTGGATCCACCGTTGCGGTCTTAAATCTTTTCGGTCCATGCTTTTGAGGTACACGGTCCGC
1 GGTACTGGATCCACCATTGCGATCTTAGATCTTTCCGGTCCATGCTTTTGAGGTACACGGTCCGC
* *
19632958 AGTTGCGACTTAGACCTTTCCCTTTTCTGTTTTTGAAGTACTGGATCTGCCATTGTGACTTAGAC
66 AGTTGCGACTTAGACCTTTCCCTTTTCTGTTTTTAAAGTACTGGATCTGCCATTGGGACTTAGAC
** ** * *
19633023 CTTTTCTTGTTGTGTTTTGT
131 CTTTTCCCGTCATGTTCTGA
* * *
19633043 GGTGCTGGATCCACCGTTGCGATCTTAGATCTTTCCGGTCCATGCTTTTGAGGTACACGGTTCGC
1 GGTACTGGATCCACCATTGCGATCTTAGATCTTTCCGGTCCATGCTTTTGAGGTACACGGTCCGC
*
19633108 AGTTGCGACTTAGACCTTTCCCTTTTCTGTTTTTAAAGTACTGGATCTGCCATTGCGGTCTTAGA
66 AGTTGCGACTTAGACCTTTCCCTTTTCTGTTTTTAAAGTACTGGATCTGCCATTG-GGACTTAGA
*
19633173 TC-TTTCCCGTCATGCTTCTGA
130 CCTTTTCCCGTCATG-TTCTGA
19633194 GGTAC
1 GGTAC
19633199 ATGGTCTGCC
Statistics
Matches: 138, Mismatches: 16, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
150 122 0.88
151 16 0.12
ACGTcount: A:0.15, C:0.24, G:0.23, T:0.39
Consensus pattern (150 bp):
GGTACTGGATCCACCATTGCGATCTTAGATCTTTCCGGTCCATGCTTTTGAGGTACACGGTCCGC
AGTTGCGACTTAGACCTTTCCCTTTTCTGTTTTTAAAGTACTGGATCTGCCATTGGGACTTAGAC
CTTTTCCCGTCATGTTCTGA
Found at i:19639903 original size:28 final size:27
Alignment explanation
Indices: 19639872--19639960 Score: 67
Period size: 29 Copynumber: 3.1 Consensus size: 27
19639862 AAACGGGACC
*
19639872 TTTGGATACTCGGGGGCAAAATGGTAAT
1 TTTGGATAATCGGGGG-AAAATGGTAAT
19639900 TTTGG-TGAAATCGGGGTTGAAAATGG-AAT
1 TTTGGAT--AATCGGGG--GAAAATGGTAAT
*
19639929 TTTGGA-AGGTTCGGGGGTAAAATGGTAAT
1 TTTGGATA--ATCGGGGG-AAAATGGTAAT
19639958 TTT
1 TTT
19639961 TGGTGAAACT
Statistics
Matches: 50, Mismatches: 2, Indels: 17
0.72 0.03 0.25
Matches are distributed among these distances:
27 3 0.06
28 12 0.24
29 27 0.54
30 7 0.14
31 1 0.02
ACGTcount: A:0.28, C:0.06, G:0.34, T:0.33
Consensus pattern (27 bp):
TTTGGATAATCGGGGGAAAATGGTAAT
Found at i:19639913 original size:29 final size:28
Alignment explanation
Indices: 19639881--19639968 Score: 83
Period size: 29 Copynumber: 3.0 Consensus size: 28
19639871 CTTTGGATAC
19639881 TCGGGGGCAAAATGGTAATTTTGGTGAAA
1 TCGGGGG-AAAATGGTAATTTTGGTGAAA
*
19639910 TCGGGGTTGAAAATGG-AATTTT-G-GAAGGT
1 TCGGGG--GAAAATGGTAATTTTGGTGAA--A
19639939 TCGGGGGTAAAATGGTAATTTTTGGTGAAA
1 TCGGGGG-AAAATGGTAA-TTTTGGTGAAA
19639969 CTGAGGTTAA
Statistics
Matches: 48, Mismatches: 2, Indels: 17
0.72 0.03 0.25
Matches are distributed among these distances:
27 4 0.08
28 8 0.17
29 20 0.42
30 11 0.23
31 2 0.04
32 3 0.06
ACGTcount: A:0.30, C:0.05, G:0.35, T:0.31
Consensus pattern (28 bp):
TCGGGGGAAAATGGTAATTTTGGTGAAA
Found at i:19639943 original size:58 final size:58
Alignment explanation
Indices: 19639881--19640021 Score: 203
Period size: 59 Copynumber: 2.4 Consensus size: 58
19639871 CTTTGGATAC
* * * *
19639881 TCGGGGGCAAAATGGTAATTTTGGTGAAA-TCGGGGTTGAAAATGGAATTTTGGAAGGT
1 TCGGGGGTAAAATGGTAATTTTGGTGAAACT-GAGGTTAAAAATGGAATTTTAGAAGGT
19639939 TCGGGGGTAAAATGGTAATTTTTGGTGAAACTGAGGTTAAAAATGGAATTTTAGAAGGT
1 TCGGGGGTAAAATGGTAA-TTTTGGTGAAACTGAGGTTAAAAATGGAATTTTAGAAGGT
* *
19639998 TTGGGGGTAAAATGGAAATTTTGG
1 TCGGGGGTAAAATGGTAATTTTGG
19640022 GAAGTTTCGG
Statistics
Matches: 75, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
58 23 0.31
59 51 0.68
60 1 0.01
ACGTcount: A:0.31, C:0.04, G:0.34, T:0.31
Consensus pattern (58 bp):
TCGGGGGTAAAATGGTAATTTTGGTGAAACTGAGGTTAAAAATGGAATTTTAGAAGGT
Found at i:19640009 original size:29 final size:29
Alignment explanation
Indices: 19639978--19640193 Score: 111
Period size: 29 Copynumber: 7.4 Consensus size: 29
19639968 ACTGAGGTTA
19639978 AAAATGG-AATTTTAGAAGGTTTGGGGGT
1 AAAATGGTAATTTTAGAAGGTTTGGGGGT
* * *
19640006 AAAATGGAAATTTTGGGAA-GTTTCGGGGT
1 AAAATGGTAATTTT-AGAAGGTTTGGGGGT
* ** **** *
19640035 AAAATGGTAATTTTTGGTGAAACCGGGGTT
1 AAAATGGTAATTTTAGAAG-GTTTGGGGGT
*
19640065 AAAATGG-AATTTTAGAAGGTTTGAGGGT
1 AAAATGGTAATTTTAGAAGGTTTGGGGGT
** * ** ** * *
19640093 AAGGTGGTAATTTTTGGTGAAATCGGGGTT
1 AAAATGGTAATTTTAGAAG-GTTTGGGGGT
* *
19640123 AAAAATGG-AATTTTAGAATGTTCGGGGGT
1 -AAAATGGTAATTTTAGAAGGTTTGGGGGT
*
19640152 AAAATGGTAATTTTTAGAA-GTTTCGGGGTT
1 AAAATGGTAA-TTTTAGAAGGTTT-GGGGGT
*
19640182 AGAAT-GTAATTT
1 AAAATGGTAATTT
19640194 CCTAAAATTT
Statistics
Matches: 135, Mismatches: 43, Indels: 20
0.68 0.22 0.10
Matches are distributed among these distances:
28 27 0.20
29 60 0.44
30 43 0.32
31 5 0.04
ACGTcount: A:0.31, C:0.03, G:0.31, T:0.34
Consensus pattern (29 bp):
AAAATGGTAATTTTAGAAGGTTTGGGGGT
Found at i:19640068 original size:59 final size:57
Alignment explanation
Indices: 19640000--19640166 Score: 212
Period size: 59 Copynumber: 2.8 Consensus size: 57
19639990 TAGAAGGTTT
* *
19640000 GGGGGTAAAATGGAAATTTTGGGAAGTTTCGGGGTAAAATGGTAATTTTTGGTGAAACC
1 GGGGTTAAAATGG-AATTTT-AGAAGTTTCGGGGTAAAATGGTAATTTTTGGTGAAACC
** *
19640059 GGGGTTAAAATGGAATTTTAGAAGGTTT-GAGGGTAAGGTGGTAATTTTTGGTGAAATC
1 GGGGTTAAAATGGAATTTTAGAA-GTTTCG-GGGTAAAATGGTAATTTTTGGTGAAACC
19640117 GGGGTTAAAAATGGAATTTTAGAA-TGTTCGGGGGTAAAATGGTAATTTTT
1 GGGGTT-AAAATGGAATTTTAGAAGT-TTC-GGGGTAAAATGGTAATTTTT
19640167 AGAAGTTTCG
Statistics
Matches: 95, Mismatches: 7, Indels: 12
0.83 0.06 0.11
Matches are distributed among these distances:
57 5 0.05
58 43 0.45
59 46 0.48
60 1 0.01
ACGTcount: A:0.31, C:0.03, G:0.33, T:0.34
Consensus pattern (57 bp):
GGGGTTAAAATGGAATTTTAGAAGTTTCGGGGTAAAATGGTAATTTTTGGTGAAACC
Found at i:19640109 original size:88 final size:89
Alignment explanation
Indices: 19639919--19640094 Score: 288
Period size: 88 Copynumber: 2.0 Consensus size: 89
19639909 ATCGGGGTTG
*
19639919 AAAATGG-AATTTT-GGAAGGTTCGGGGGTAAAATGGTAATTTTTGGTGAAACTGAGGTTAAAAA
1 AAAATGGAAATTTTGGGAAGGTTCGGGGGTAAAATGGTAATTTTTGGTGAAACCGAGGTTAAAAA
*
19639982 TGGAATTTTAGAAGGTTTGGGGGT
66 TGGAATTTTAGAAGGTTTGAGGGT
* *
19640006 AAAATGGAAATTTTGGGAAGTTTC-GGGGTAAAATGGTAATTTTTGGTGAAACCGGGGTT-AAAA
1 AAAATGGAAATTTTGGGAAGGTTCGGGGGTAAAATGGTAATTTTTGGTGAAACCGAGGTTAAAAA
19640069 TGGAATTTTAGAAGGTTTGAGGGT
66 TGGAATTTTAGAAGGTTTGAGGGT
19640093 AA
1 AA
19640095 GGTGGTAATT
Statistics
Matches: 83, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
87 36 0.43
88 39 0.47
89 8 0.10
ACGTcount: A:0.33, C:0.03, G:0.32, T:0.32
Consensus pattern (89 bp):
AAAATGGAAATTTTGGGAAGGTTCGGGGGTAAAATGGTAATTTTTGGTGAAACCGAGGTTAAAAA
TGGAATTTTAGAAGGTTTGAGGGT
Found at i:19640149 original size:87 final size:85
Alignment explanation
Indices: 19639919--19640171 Score: 219
Period size: 87 Copynumber: 2.9 Consensus size: 85
19639909 ATCGGGGTTG
* * * * *
19639919 AAAATGG-AATTTT-GGAAGGTTCGGGGGTAAAATGGTAATTTTTGGTGAAACTGAGGTTAAAAA
1 AAAATGGAAATTTTGGGAA-GATC-GGGGTAAAATGGTAATTTTAGATG-AACCGGGGTT-AAAA
*
19639982 TGGAATTTTAGAAGGTTTGGGGGT
62 TGGAATTTTAGAAGGTTTGAGGGT
* * *
19640006 AAAATGGAAATTTTGGGAAGTTTCGGGGTAAAATGGTAATTTTTGGTGAAACCGGGGTTAAAATG
1 AAAATGGAAATTTTGGGAAG-ATCGGGGTAAAATGGTAATTTTAGATG-AACCGGGGTTAAAATG
19640071 GAATTTTAGAAGGTTTGAGGGT
64 GAATTTTAGAAGGTTTGAGGGT
** * ** *
19640093 AAGGTGGTAATTTTTGGTGAA-ATCGGGGTTAAAAATGG-AATTTTAGAATG-TTCGGGGGTAAA
1 AAAATGG-AAATTTTGG-GAAGATCGGGG-T-AAAATGGTAATTTTAG-ATGAACCGGGGTTAAA
19640155 ATGGTAATTTTTAGAAG
61 ATGG-AA-TTTTAGAAG
19640172 TTTCGGGGTT
Statistics
Matches: 144, Mismatches: 12, Indels: 18
0.83 0.07 0.10
Matches are distributed among these distances:
87 58 0.40
88 58 0.40
89 28 0.19
ACGTcount: A:0.32, C:0.03, G:0.32, T:0.33
Consensus pattern (85 bp):
AAAATGGAAATTTTGGGAAGATCGGGGTAAAATGGTAATTTTAGATGAACCGGGGTTAAAATGGA
ATTTTAGAAGGTTTGAGGGT
Found at i:19640150 original size:146 final size:147
Alignment explanation
Indices: 19639884--19640193 Score: 448
Period size: 146 Copynumber: 2.1 Consensus size: 147
19639874 TGGATACTCG
* * * *
19639884 GGGGCAAAATGGTAA-TTTTGGTGAAATCGGGGTTGAAAATGGAATTTTGGAAGGTTCGGGGGTA
1 GGGGTAAAATGGTAATTTTTGGTGAAACCGGGGTTGAAAATGGAATTTTAGAAGGTTCGAGGGTA
*
19639948 AAATGGTAATTTTTGGTGAAACTGAGGTTAAAAATGGAATTTTAGAAGGTTTGGGGGTAAAATGG
66 AAATGGTAATTTTTGGTGAAACTGAGGTTAAAAATGGAATTTTAGAAGGTTCGGGGGTAAAATGG
*
19640013 AAATTTTGGGAAGTTTC
131 AAATTTTGAGAAGTTTC
*
19640030 GGGGTAAAATGGTAATTTTTGGTGAAACCGGGGTT-AAAATGGAATTTTAGAAGGTTTGAGGGTA
1 GGGGTAAAATGGTAATTTTTGGTGAAACCGGGGTTGAAAATGGAATTTTAGAAGGTTCGAGGGTA
** * *
19640094 AGGTGGTAATTTTTGGTGAAA-TCGGGGTTAAAAATGGAATTTTAGAATGTTCGGGGGTAAAATG
66 AAATGGTAATTTTTGGTGAAACT-GAGGTTAAAAATGGAATTTTAGAAGGTTCGGGGGTAAAATG
* *
19640158 GTAATTTTTAGAAGTTTC
130 GAAATTTTGAGAAGTTTC
*
19640176 GGGGTTAGAAT-GTAATTT
1 GGGG-TAAAATGGTAATTT
19640194 CCTAAAATTT
Statistics
Matches: 147, Mismatches: 14, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
145 1 0.01
146 123 0.84
147 23 0.16
ACGTcount: A:0.31, C:0.03, G:0.33, T:0.33
Consensus pattern (147 bp):
GGGGTAAAATGGTAATTTTTGGTGAAACCGGGGTTGAAAATGGAATTTTAGAAGGTTCGAGGGTA
AAATGGTAATTTTTGGTGAAACTGAGGTTAAAAATGGAATTTTAGAAGGTTCGGGGGTAAAATGG
AAATTTTGAGAAGTTTC
Found at i:19640151 original size:30 final size:30
Alignment explanation
Indices: 19640115--19640193 Score: 85
Period size: 30 Copynumber: 2.7 Consensus size: 30
19640105 TTTGGTGAAA
*
19640115 TCGGGGTTAAAAATGG-AA-TTTTAGAA-TGT
1 TCGGGGGT-AAAATGGTAATTTTTAGAAGT-T
19640144 TCGGGGGTAAAATGGTAATTTTTAGAAGTT
1 TCGGGGGTAAAATGGTAATTTTTAGAAGTT
* *
19640174 TCGGGGTTAGAAT-GTAATTT
1 TCGGGGGTAAAATGGTAATTT
19640194 CCTAAAATTT
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
28 7 0.16
29 16 0.36
30 20 0.45
31 1 0.02
ACGTcount: A:0.30, C:0.04, G:0.29, T:0.37
Consensus pattern (30 bp):
TCGGGGGTAAAATGGTAATTTTTAGAAGTT
Found at i:19640178 original size:59 final size:56
Alignment explanation
Indices: 19640000--19640193 Score: 176
Period size: 59 Copynumber: 3.3 Consensus size: 56
19639990 TAGAAGGTTT
* * * *
19640000 GGGGGTAAAATGGAAATTTTGGGAAGTTTC-GGGGTAAAATGGTAATTTTTGGTGAAACC
1 GGGGTTAAAATGG-AATTTT-AGAAG-TTCGGGGGTAAAATGGTAATTTTT-GAGAAATC
* * ** *
19640059 GGGGTTAAAATGGAATTTTAGAAGGTTTGAGGGTAAGGTGGTAATTTTTGGTGAAATC
1 GGGGTTAAAATGGAATTTTAGAA-GTTCGGGGGTAAAATGGTAATTTTT-GAGAAATC
*
19640117 GGGGTTAAAAATGGAATTTTAGAATGTTCGGGGGTAAAATGGTAATTTTT-AGAAGTTTC
1 GGGGTT-AAAATGGAATTTTAGAA-GTTCGGGGGTAAAATGGTAATTTTTGAGAA--ATC
* *
19640176 GGGGTTAGAATGTAATTT
1 GGGGTTAAAATGGAATTT
19640194 CCTAAAATTT
Statistics
Matches: 114, Mismatches: 16, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
57 8 0.07
58 48 0.42
59 58 0.51
ACGTcount: A:0.30, C:0.03, G:0.32, T:0.34
Consensus pattern (56 bp):
GGGGTTAAAATGGAATTTTAGAAGTTCGGGGGTAAAATGGTAATTTTTGAGAAATC
Found at i:19641001 original size:15 final size:16
Alignment explanation
Indices: 19640981--19641011 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
19640971 ATTTGATTTC
19640981 GAAA-CCCAGATCTGG
1 GAAACCCCAGATCTGG
19640996 GAAACCCCAGATCTGG
1 GAAACCCCAGATCTGG
19641012 AAATATTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.32, C:0.29, G:0.26, T:0.13
Consensus pattern (16 bp):
GAAACCCCAGATCTGG
Found at i:19642126 original size:17 final size:17
Alignment explanation
Indices: 19642096--19642153 Score: 68
Period size: 17 Copynumber: 3.5 Consensus size: 17
19642086 AATTTATTCC
19642096 AAATTT-AC-CAAATTT
1 AAATTTAACACAAATTT
19642111 AAATTTAACACAAATTT
1 AAATTTAACACAAATTT
*
19642128 AAATTTAA-AAATTAATTT
1 AAATTTAACACA--AATTT
19642146 AAATTTAA
1 AAATTTAA
19642154 ATTTTAAGAT
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
15 6 0.16
16 4 0.11
17 15 0.39
18 13 0.34
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (17 bp):
AAATTTAACACAAATTT
Found at i:19642160 original size:18 final size:18
Alignment explanation
Indices: 19642106--19642154 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
19642096 AAATTTACCA
*
19642106 AATTTAAATTTAACACA--
1 AATTTAAATTTAA-AAATT
19642123 AATTTAAATTTAAAAATT
1 AATTTAAATTTAAAAATT
19642141 AATTTAAATTTAAA
1 AATTTAAATTTAAA
19642155 TTTTAAGATA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
16 2 0.07
17 13 0.45
18 14 0.48
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (18 bp):
AATTTAAATTTAAAAATT
Found at i:19642173 original size:24 final size:24
Alignment explanation
Indices: 19642121--19642175 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
19642111 AAATTTAACA
* *
19642121 CAAATTTAAATTTAAAAATTAATT
1 CAAATTTAAATTTAAAAATAAATC
* * *
19642145 TAAATTTAAATTTTAAGATAAATC
1 CAAATTTAAATTTAAAAATAAATC
19642169 CAAATTT
1 CAAATTT
19642176 GTGAATAAAT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.42
Consensus pattern (24 bp):
CAAATTTAAATTTAAAAATAAATC
Found at i:19642422 original size:19 final size:18
Alignment explanation
Indices: 19642391--19642438 Score: 69
Period size: 19 Copynumber: 2.6 Consensus size: 18
19642381 GTTAATTTGT
*
19642391 TAATTAATTAATTAATCC
1 TAATTAATTAATTAATCA
19642409 TAATTAACTTAATTAATCA
1 TAATTAA-TTAATTAATCA
*
19642428 TAATTTATTAA
1 TAATTAATTAA
19642439 CATTAAACTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
18 11 0.41
19 16 0.59
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (18 bp):
TAATTAATTAATTAATCA
Found at i:19644953 original size:43 final size:44
Alignment explanation
Indices: 19644865--19645030 Score: 221
Period size: 43 Copynumber: 3.8 Consensus size: 44
19644855 CTGAATTAAC
* * * *
19644865 CTTATGCTCTATCCAAGTCATAAGTTCTTCCATTTACAAATAAT
1 CTTATGCTCTAGCCGAGACATAAGTTCTTCCATTTACAAAAAAT
* * *
19644909 CTTATGCTCTAGCCGAGACATAA-ATCTTCCATTTATAAACAAT
1 CTTATGCTCTAGCCGAGACATAAGTTCTTCCATTTACAAAAAAT
* *
19644952 CTTATGCTCTAACTGAGACATAAGTTCTTCCATTTACAAATAAAT
1 CTTATGCTCTAGCCGAGACATAAGTTCTTCCATTTACAAA-AAAT
19644997 CTTATGCTCTAGCCGAGACATAAG-TCTTCC-TTTA
1 CTTATGCTCTAGCCGAGACATAAGTTCTTCCATTTA
19645031 AACATAATCT
Statistics
Matches: 107, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
43 42 0.39
44 40 0.37
45 25 0.23
ACGTcount: A:0.32, C:0.23, G:0.10, T:0.36
Consensus pattern (44 bp):
CTTATGCTCTAGCCGAGACATAAGTTCTTCCATTTACAAAAAAT
Found at i:19645040 original size:87 final size:86
Alignment explanation
Indices: 19644865--19645131 Score: 305
Period size: 87 Copynumber: 3.1 Consensus size: 86
19644855 CTGAATTAAC
* *
19644865 CTTATGCTCTATCCAAGTCATAAGTTCTTCCATTTACAAATAATCTTATGCTCTAGCCGAGACAT
1 CTTATGCTCTAACCGAGTCATAAGTTCTTCCATTTACAAATAATCTTATGCTCTAGCCGAGACAT
* *
19644930 AAATCTTCCATTTATAA-ACAAT
66 AAGTCTTCC-TTTA-AACATAAT
* *
19644952 CTTATGCTCTAACTGAGACATAAGTTCTTCCATTTACAAATAAATCTTATGCTCTAGCCGAGACA
1 CTTATGCTCTAACCGAGTCATAAGTTCTTCCATTTACAAAT-AATCTTATGCTCTAGCCGAGACA
19645017 TAAGTCTTCCTTTAAACATAAT
65 TAAGTCTTCCTTTAAACATAAT
* ** * * *
19645039 CTCT-TGCT-TATCCCGAGTCACGAG-TCTTCC-TTTA-AACATAATCTCATGCTC-ATCCCAAG
1 CT-TATGCTCTA-ACCGAGTCATAAGTTCTTCCATTTACAA-ATAATCTTATGCTCTA-GCCGAG
19645098 ACATAAGTCTTCCTTTAAACATAAT
62 ACATAAGTCTTCCTTTAAACATAAT
*
19645123 CTCATGCTC
1 CTTATGCTC
19645132 ATCCCGACAC
Statistics
Matches: 157, Mismatches: 15, Indels: 18
0.83 0.08 0.09
Matches are distributed among these distances:
83 1 0.01
84 48 0.31
85 6 0.04
86 10 0.06
87 59 0.38
88 33 0.21
ACGTcount: A:0.31, C:0.25, G:0.09, T:0.34
Consensus pattern (86 bp):
CTTATGCTCTAACCGAGTCATAAGTTCTTCCATTTACAAATAATCTTATGCTCTAGCCGAGACAT
AAGTCTTCCTTTAAACATAAT
Found at i:19645065 original size:42 final size:42
Alignment explanation
Indices: 19644966--19645162 Score: 218
Period size: 42 Copynumber: 4.6 Consensus size: 42
19644956 TGCTCTAACT
* * *
19644966 GAGACATAAGTTCTTCCATTTACAA-ATAAATCTTATGCTC-TAGCC
1 GAGACATGAG-TCTTCC-TTTA-AACAT-AATCTCATGCTCAT-CCC
* * *
19645011 GAGACATAAGTCTTCCTTTAAACATAATCTCTTGCTTATCCC
1 GAGACATGAGTCTTCCTTTAAACATAATCTCATGCTCATCCC
* *
19645053 GAGTCACGAGTCTTCCTTTAAACATAATCTCATGCTCATCCC
1 GAGACATGAGTCTTCCTTTAAACATAATCTCATGCTCATCCC
* *
19645095 AAGACATAAGTCTTCCTTTAAACATAATCTCATGCTCATCCC
1 GAGACATGAGTCTTCCTTTAAACATAATCTCATGCTCATCCC
* *
19645137 GACACATGAGTCTTCCGTTTATACAT
1 GAGACATGAGTCTTCC-TTTAAACAT
19645163 CAAGTGATTC
Statistics
Matches: 132, Mismatches: 17, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
42 101 0.77
43 15 0.11
44 6 0.05
45 10 0.08
ACGTcount: A:0.30, C:0.26, G:0.11, T:0.33
Consensus pattern (42 bp):
GAGACATGAGTCTTCCTTTAAACATAATCTCATGCTCATCCC
Found at i:19650701 original size:20 final size:19
Alignment explanation
Indices: 19650663--19650701 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
19650653 CTCAAGAAAT
*
19650663 ATAAAAAGAAAAAATAATA
1 ATAAAAAGAAAAAAGAATA
*
19650682 ATAATAAAGAAAAAGGAATA
1 ATAA-AAAGAAAAAAGAATA
19650702 TATATATATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.74, C:0.00, G:0.10, T:0.15
Consensus pattern (19 bp):
ATAAAAAGAAAAAAGAATA
Found at i:19650752 original size:130 final size:130
Alignment explanation
Indices: 19650587--19650840 Score: 508
Period size: 130 Copynumber: 2.0 Consensus size: 130
19650577 AGACTTTTCA
19650587 AATTGAGTAATCGGGTTGAGGTGCTTGGCTTGTCATCTCAATTCACATTAAAAGATTTGATTATG
1 AATTGAGTAATCGGGTTGAGGTGCTTGGCTTGTCATCTCAATTCACATTAAAAGATTTGATTATG
19650652 TCTCAAGAAATATAAAAAGAAAAAATAATAATAATAAAGAAAAAGGAATATATATATATATATAT
66 TCTCAAGAAATATAAAAAGAAAAAATAATAATAATAAAGAAAAAGGAATATATATATATATATAT
19650717 AATTGAGTAATCGGGTTGAGGTGCTTGGCTTGTCATCTCAATTCACATTAAAAGATTTGATTATG
1 AATTGAGTAATCGGGTTGAGGTGCTTGGCTTGTCATCTCAATTCACATTAAAAGATTTGATTATG
19650782 TCTCAAGAAATATAAAAAGAAAAAATAATAATAATAAAGAAAAAGGAATATATATATAT
66 TCTCAAGAAATATAAAAAGAAAAAATAATAATAATAAAGAAAAAGGAATATATATATAT
19650841 GTTGAGTACG
Statistics
Matches: 124, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
130 124 1.00
ACGTcount: A:0.45, C:0.08, G:0.16, T:0.31
Consensus pattern (130 bp):
AATTGAGTAATCGGGTTGAGGTGCTTGGCTTGTCATCTCAATTCACATTAAAAGATTTGATTATG
TCTCAAGAAATATAAAAAGAAAAAATAATAATAATAAAGAAAAAGGAATATATATATATATATAT
Found at i:19650831 original size:20 final size:19
Alignment explanation
Indices: 19650793--19650831 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
19650783 CTCAAGAAAT
*
19650793 ATAAAAAGAAAAAATAATA
1 ATAAAAAGAAAAAAGAATA
*
19650812 ATAATAAAGAAAAAGGAATA
1 ATAA-AAAGAAAAAAGAATA
19650832 TATATATATG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.74, C:0.00, G:0.10, T:0.15
Consensus pattern (19 bp):
ATAAAAAGAAAAAAGAATA
Found at i:19652797 original size:7 final size:7
Alignment explanation
Indices: 19652787--19652812 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
19652777 CCTTAAACCT
19652787 CAAACTC
1 CAAACTC
19652794 CAAACTC
1 CAAACTC
19652801 CAAACTC
1 CAAACTC
19652808 CAAAC
1 CAAAC
19652813 CTGAACCTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.46, C:0.42, G:0.00, T:0.12
Consensus pattern (7 bp):
CAAACTC
Found at i:19652798 original size:14 final size:15
Alignment explanation
Indices: 19652781--19652814 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
19652771 CTCGAACCTT
19652781 AAACCT-CAAACTCC
1 AAACCTCCAAACTCC
19652795 AAA-CTCCAAACTCC
1 AAACCTCCAAACTCC
19652809 AAACCT
1 AAACCT
19652815 GAACCTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 2 0.11
14 14 0.78
15 2 0.11
ACGTcount: A:0.44, C:0.41, G:0.00, T:0.15
Consensus pattern (15 bp):
AAACCTCCAAACTCC
Found at i:19653166 original size:17 final size:18
Alignment explanation
Indices: 19653140--19653182 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
19653130 ATATTATTTT
19653140 TTATTATATATATTTG-AA
1 TTATT-TATATATTTGTAA
*
19653158 TTATTTATATGTTTGTAA
1 TTATTTATATATTTGTAA
19653176 TT-TTTAT
1 TTATTTAT
19653183 TTTTATATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 14 0.61
18 9 0.39
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (18 bp):
TTATTTATATATTTGTAA
Found at i:19653231 original size:42 final size:42
Alignment explanation
Indices: 19653140--19653232 Score: 98
Period size: 42 Copynumber: 2.2 Consensus size: 42
19653130 ATATTATTTT
* *** * *
19653140 TTATTATATATATTTGAATTATTTATATGTTTGTAATTTTTA
1 TTATTATATAAATTTGAATTATTTATAAAATTATAATTATTA
* *
19653182 TTTTTATATAAATTTGAATTATTTATAAAATTATACTATATTA
1 TTATTATATAAATTTGAATTATTTATAAAATTATAAT-TATTA
19653225 -TATTATAT
1 TTATTATAT
19653233 TACTTATATA
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
42 37 0.90
43 4 0.10
ACGTcount: A:0.37, C:0.01, G:0.04, T:0.58
Consensus pattern (42 bp):
TTATTATATAAATTTGAATTATTTATAAAATTATAATTATTA
Found at i:19653366 original size:17 final size:17
Alignment explanation
Indices: 19653331--19653411 Score: 62
Period size: 17 Copynumber: 4.7 Consensus size: 17
19653321 TTTTATATTA
*
19653331 TATATATTT-GAATTATT
1 TATATATTTATAATT-TT
19653348 TATATATTTATAATTTT
1 TATATATTTATAATTTT
*
19653365 TATGT-TTATATAATTTT
1 TATATATT-TATAATTTT
*
19653382 TGA-ATTATTTATAAATTT
1 T-ATA-TATTTATAATTTT
19653400 TAT-TAATTTATA
1 TATAT-ATTTATA
19653412 GTATATAACT
Statistics
Matches: 53, Mismatches: 4, Indels: 14
0.75 0.06 0.20
Matches are distributed among these distances:
16 3 0.06
17 33 0.62
18 15 0.28
19 2 0.04
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (17 bp):
TATATATTTATAATTTT
Found at i:19653394 original size:43 final size:43
Alignment explanation
Indices: 19653313--19653408 Score: 124
Period size: 43 Copynumber: 2.2 Consensus size: 43
19653303 ATCAATAAAA
*
19653313 TATTAATTTTTTATATTATATATATTTGAATTATTTATATA-TT
1 TATTAA-TTTTTATATTATATATATTTGAATTATTTATAAATTT
* *
19653356 TA-TAATTTTTATGTTTATATAATTTTTGAATTATTTATAAATTT
1 TATTAATTTTTAT-ATTATAT-ATATTTGAATTATTTATAAATTT
19653400 TATTAATTT
1 TATTAATTT
19653409 ATAGTATATA
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
41 7 0.15
42 9 0.20
43 20 0.43
44 4 0.09
45 6 0.13
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (43 bp):
TATTAATTTTTATATTATATATATTTGAATTATTTATAAATTT
Found at i:19661086 original size:163 final size:161
Alignment explanation
Indices: 19660889--19661231 Score: 420
Period size: 161 Copynumber: 2.1 Consensus size: 161
19660879 CAATTTACTT
* * ** * *
19660889 GAAAGAAAGATTTTAATGCTTACCGTGGTTTGTTGGATTCATCCTTCCTTGTAGAAAATAAAGAA
1 GAAAGAAAGATTTTGATGTTTACAATGATTTGTTGGATTCAT--TTCCTTATAGAAAATAAAGAA
* * * ** * *
19660954 TATGAATAAAA-TGAATCATTTTAGGGTTTAATGTTTTCTTGGTTTGATTTTGAATTGAATGTAG
64 TATGAATAAAAGGGAA-CATTCTAGGGTTTAATATTCGCTTGGTTTGATTTTGAATTGAACGCAG
* *
19661018 ATAT-CTCTAGGTAAAGAATAAACATTATTGAGAA
128 AT-TCCTCAAGGTAAAGAATAAACATCATTGAGAA
* * * ** * *
19661052 GAAATAAAGATTTTGATGTTTACAATGATTTGTTGGATTTATTTCTTTATATCAAATAAAGAGTC
1 GAAAGAAAGATTTTGATGTTTACAATGATTTGTTGGATTCATTTCCTTATAGAAAATAAAGAATA
**
19661117 TGTTTAAAAGGGAACATTCTAGGGTTTAATATTCGCTTGGTTTGATTTTGAATTGAACGCAGATT
66 TGAATAAAAGGGAACATTCTAGGGTTTAATATTCGCTTGGTTTGATTTTGAATTGAACGCAGATT
19661182 CCTCAAGGTAAAGAATAAACATCATTGAGAA
131 CCTCAAGGTAAAGAATAAACATCATTGAGAA
19661213 GAAAGAAAGATTTTGATGT
1 GAAAGAAAGATTTTGATGT
19661232 CCTAGTGATT
Statistics
Matches: 153, Mismatches: 25, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
160 1 0.01
161 114 0.75
162 3 0.02
163 35 0.23
ACGTcount: A:0.35, C:0.08, G:0.19, T:0.37
Consensus pattern (161 bp):
GAAAGAAAGATTTTGATGTTTACAATGATTTGTTGGATTCATTTCCTTATAGAAAATAAAGAATA
TGAATAAAAGGGAACATTCTAGGGTTTAATATTCGCTTGGTTTGATTTTGAATTGAACGCAGATT
CCTCAAGGTAAAGAATAAACATCATTGAGAA
Found at i:19663265 original size:22 final size:22
Alignment explanation
Indices: 19663237--19663281 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
19663227 TGGGGCAAAA
19663237 CCTTAAAAACCCTAAGTCATAT
1 CCTTAAAAACCCTAAGTCATAT
19663259 CCTTAAAAACCCTAAGTCATAT
1 CCTTAAAAACCCTAAGTCATAT
19663281 C
1 C
19663282 TCCCCCCTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.40, C:0.29, G:0.04, T:0.27
Consensus pattern (22 bp):
CCTTAAAAACCCTAAGTCATAT
Found at i:19663432 original size:22 final size:22
Alignment explanation
Indices: 19663407--19663462 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 22
19663397 CAAAATAATT
19663407 TTTTAATTTGAA-TTCTTATGTA
1 TTTTAATTTGAATTTCTTAT-TA
* *
19663429 TTTT-ATTGGCAATTTTTTATTA
1 TTTTAATTTG-AATTTCTTATTA
19663451 TTTTAATTTGAA
1 TTTTAATTTGAA
19663463 AAATGCACAT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
21 4 0.14
22 14 0.50
23 10 0.36
ACGTcount: A:0.27, C:0.04, G:0.09, T:0.61
Consensus pattern (22 bp):
TTTTAATTTGAATTTCTTATTA
Found at i:19674112 original size:21 final size:21
Alignment explanation
Indices: 19674064--19674115 Score: 65
Period size: 20 Copynumber: 2.5 Consensus size: 21
19674054 GTAGAACTTC
19674064 ACTTCTATCGATACACCTTTAG
1 ACTTCTATCGATA-ACCTTTAG
19674086 --TTCTATCGAT-ACCTTGTAG
1 ACTTCTATCGATAACCTT-TAG
19674105 ACTTCTATCGA
1 ACTTCTATCGA
19674116 AACAAGTCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
18 5 0.19
19 3 0.11
20 10 0.37
21 9 0.33
ACGTcount: A:0.25, C:0.25, G:0.12, T:0.38
Consensus pattern (21 bp):
ACTTCTATCGATAACCTTTAG
Found at i:19674308 original size:20 final size:20
Alignment explanation
Indices: 19674283--19674338 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
19674273 CTACCCTGGG
* *
19674283 ACTTCTACCGGTAGAACTTC
1 ACTTCTACCGATACAACTTC
19674303 ACTTCTACCGATACAACTTC
1 ACTTCTACCGATACAACTTC
* *
19674323 AGTTCTACTGATACAA
1 ACTTCTACCGATACAA
19674339 GTATGCTTCT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.30, C:0.29, G:0.11, T:0.30
Consensus pattern (20 bp):
ACTTCTACCGATACAACTTC
Found at i:19690240 original size:17 final size:17
Alignment explanation
Indices: 19690179--19690251 Score: 74
Period size: 17 Copynumber: 4.3 Consensus size: 17
19690169 ATTACTATAC
*
19690179 CAATGGAAATGCAATGA
1 CAATGGAAATGTAATGA
* *
19690196 GAATGGAAATGTAGTGA
1 CAATGGAAATGTAATGA
* **
19690213 TAATTAAAATGTAATGA
1 CAATGGAAATGTAATGA
* *
19690230 CAATGGGAATGTGATGA
1 CAATGGAAATGTAATGA
19690247 CAATG
1 CAATG
19690252 CTTAGTAATA
Statistics
Matches: 44, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
17 44 1.00
ACGTcount: A:0.44, C:0.05, G:0.26, T:0.25
Consensus pattern (17 bp):
CAATGGAAATGTAATGA
Found at i:19698970 original size:193 final size:195
Alignment explanation
Indices: 19698630--19699073 Score: 576
Period size: 193 Copynumber: 2.3 Consensus size: 195
19698620 ACCAGTACCT
* * * * ** * *
19698630 GATGCTGCTCACACGAGCTGTCGAGGACTCGCAACATATGCGATACCCCAGCCATCGGTCCGATG
1 GATGCTGCTCACACGAGCTATCGAGGACTCGCAACACATGCGGTACCTCAGCCATCAATACGATA
* ** * *
19698695 TTTGTCTATATAACTGTCTCCTAACGATGCTACTCACACGAGCTATCGGGTGTATGTAGTTATGC
66 TTTGTCTATATAACTGTCTCCTAACGATGCTACTCACACGAGCTATCGAGAATATGCACTTATGC
* * *
19698760 ATAAGTCCTAGCCATCGTAGGGCTTGTAATCCATTCTAGGATTC-ATATCTC-TTT-TCGACTCA
131 ATAAATCCTAACCATCGTAGGGCCTGTAATCCATTCTAGGATTCTATA-CTCATTTCTCGACTCA
19698822 C
195 C
* *
19698823 GATGCTGCTCACACGAACTATCGAGAACTCGCAACACATGCGGTACCTCAGCCATCAATACGATA
1 GATGCTGCTCACACGAGCTATCGAGGACTCGCAACACATGCGGTACCTCAGCCATCAATACGATA
* * *
19698888 TTTGTGC-ATATAATTGTAC-CCTAACGATGCTGCTCACACGAGTTATCGAGAATATGCACTTAT
66 TTTGT-CTATATAACTGT-CTCCTAACGATGCTACTCACACGAGCTATCGAGAATATGCACTTAT
* * *
19698951 GCATAAAT-CTCAACCATCGTAGGGCCTGTAATCCATTCTTGGATTCTTTACTCATTTCTTGACT
129 GCATAAATCCT-AACCATCGTAGGGCCTGTAATCCATTCTAGGATTCTATACTCATTTCTCGACT
19699015 CAC
193 CAC
* *
19699018 GATGCTGCTCACACGAGCTACCGAGGACTCGCAACACATGCGGTACCTCAACCATC
1 GATGCTGCTCACACGAGCTATCGAGGACTCGCAACACATGCGGTACCTCAGCCATC
19699074 GCGTCGGTTT
Statistics
Matches: 217, Mismatches: 28, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
192 2 0.01
193 148 0.68
194 7 0.03
195 60 0.28
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (195 bp):
GATGCTGCTCACACGAGCTATCGAGGACTCGCAACACATGCGGTACCTCAGCCATCAATACGATA
TTTGTCTATATAACTGTCTCCTAACGATGCTACTCACACGAGCTATCGAGAATATGCACTTATGC
ATAAATCCTAACCATCGTAGGGCCTGTAATCCATTCTAGGATTCTATACTCATTTCTCGACTCAC
Found at i:19699567 original size:16 final size:16
Alignment explanation
Indices: 19699548--19699579 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
19699538 TCTTTACAAA
*
19699548 TTTATTCCTTTAACAT
1 TTTAGTCCTTTAACAT
19699564 TTTAGTCCTTTAACAT
1 TTTAGTCCTTTAACAT
19699580 AAAAAATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.19, G:0.03, T:0.53
Consensus pattern (16 bp):
TTTAGTCCTTTAACAT
Found at i:19702863 original size:19 final size:20
Alignment explanation
Indices: 19702827--19702879 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
19702817 CTTCAATGAG
*
19702827 ACTTCTACCTG-TAGAAC-TT
1 ACTTCTACC-GATACAACTTT
19702846 ACTTCTACCGATACAACTTT
1 ACTTCTACCGATACAACTTT
*
19702866 AGTTCTACCGATAC
1 ACTTCTACCGATAC
19702880 CTTGAAGACT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
18 1 0.03
19 14 0.47
20 15 0.50
ACGTcount: A:0.28, C:0.28, G:0.09, T:0.34
Consensus pattern (20 bp):
ACTTCTACCGATACAACTTT
Found at i:19703110 original size:20 final size:21
Alignment explanation
Indices: 19703065--19703113 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
19703055 CTACCCTGGG
* *
19703065 GCTTCTACCGGTACAACTTTA
1 GCTTCTACCGATACAACTATA
*
19703086 G-TTCTACCGATACAAGTAT-
1 GCTTCTACCGATACAACTATA
19703105 GCTTCTACC
1 GCTTCTACC
19703114 AGAACAAGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
19 1 0.04
20 22 0.92
21 1 0.04
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.33
Consensus pattern (21 bp):
GCTTCTACCGATACAACTATA
Found at i:19711571 original size:5 final size:5
Alignment explanation
Indices: 19711563--19711587 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
19711553 AACAAAAACA
19711563 AAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT
19711588 TGCATAATAA
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:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:19713293 original size:16 final size:16
Alignment explanation
Indices: 19713272--19713302 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
19713262 TTGTGGATCC
19713272 CATTTTACCTTTATTA
1 CATTTTACCTTTATTA
*
19713288 CATTTTATCTTTATT
1 CATTTTACCTTTATT
19713303 TTCACATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.16, G:0.00, T:0.61
Consensus pattern (16 bp):
CATTTTACCTTTATTA
Found at i:19716829 original size:38 final size:38
Alignment explanation
Indices: 19716691--19716840 Score: 108
Period size: 37 Copynumber: 4.0 Consensus size: 38
19716681 GCACTTCTAG
* ** ** *
19716691 ATTGCACCCAAAACTATCGCCCCATAAGCAGT-TTCAA
1 ATTGCACCCAAAACTATCACTACATAAATATTCTTCAA
* * * ** * *
19716728 ATTGCACCCAAAATTGTCGCCGCAAAAATATT-TTCGGA
1 ATTGCACCCAAAACTATCACTACATAAATATTCTTC-AA
* * *
19716766 A-TGCACCCAAGACTGTCACTGCATAAATATTCTTCAA
1 ATTGCACCCAAAACTATCACTACATAAATATTCTTCAA
* *
19716803 ATTGCATCCAAAACTATCACTACATAAGTATTCTTCAA
1 ATTGCACCCAAAACTATCACTACATAAATATTCTTCAA
19716841 CTGTACCCAG
Statistics
Matches: 91, Mismatches: 19, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
37 55 0.60
38 36 0.40
ACGTcount: A:0.36, C:0.27, G:0.11, T:0.27
Consensus pattern (38 bp):
ATTGCACCCAAAACTATCACTACATAAATATTCTTCAA
Found at i:19717724 original size:16 final size:16
Alignment explanation
Indices: 19717703--19717733 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
19717693 TTGTGGATCT
19717703 CATTTTACCTTTATTA
1 CATTTTACCTTTATTA
*
19717719 CATTTTATCTTTATT
1 CATTTTACCTTTATT
19717734 TTCACATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.16, G:0.00, T:0.61
Consensus pattern (16 bp):
CATTTTACCTTTATTA
Found at i:19748827 original size:16 final size:16
Alignment explanation
Indices: 19748806--19748856 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
19748796 GAACTACCAT
*
19748806 ATAAATATA-ATTATAA
1 ATAAATACATATT-TAA
19748822 ATAAATACATATTTAA
1 ATAAATACATATTTAA
* *
19748838 ATAATTACAAATATTAA
1 ATAAATACATAT-TTAA
19748855 AT
1 AT
19748857 TATTATAACA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
16 21 0.70
17 9 0.30
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (16 bp):
ATAAATACATATTTAA
Found at i:19748856 original size:17 final size:16
Alignment explanation
Indices: 19748814--19748861 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
19748804 ATATAAATAT
*
19748814 AATTATAAATAAATACA
1 AATT-TAAATAATTACA
*
19748831 TATTTAAATAATTACA
1 AATTTAAATAATTACA
*
19748847 AATATTAAATTATTA
1 AAT-TTAAATAATTA
19748862 TAACACAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
16 13 0.50
17 13 0.50
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (16 bp):
AATTTAAATAATTACA
Found at i:19749045 original size:20 final size:20
Alignment explanation
Indices: 19749009--19749046 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
19748999 CAAAAGCAAA
*
19749009 CTTTTAAAGAATTTTTTTGG
1 CTTTTAAAGAATATTTTTGG
19749029 CTTTTCAAA-AATATTTTT
1 CTTTT-AAAGAATATTTTT
19749047 TCTCAGATGT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.81
21 3 0.19
ACGTcount: A:0.29, C:0.08, G:0.08, T:0.55
Consensus pattern (20 bp):
CTTTTAAAGAATATTTTTGG
Found at i:19763018 original size:28 final size:28
Alignment explanation
Indices: 19762978--19763033 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
19762968 CATAGGTTAA
19762978 TCCGTGACATGTACAACTAGACTTTTCC
1 TCCGTGACATGTACAACTAGACTTTTCC
19763006 TCCGTGACATGTACAACTAGACTTTTCC
1 TCCGTGACATGTACAACTAGACTTTTCC
19763034 CGAGTTATAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.25, C:0.29, G:0.14, T:0.32
Consensus pattern (28 bp):
TCCGTGACATGTACAACTAGACTTTTCC
Found at i:19765946 original size:20 final size:20
Alignment explanation
Indices: 19765933--19765971 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
19765923 TTAAATAGGT
*
19765933 TTAATTAAAGTTAAAAATGG
1 TTAATTAAACTTAAAAATGG
*
19765953 TTAATTAAACTTAATAATG
1 TTAATTAAACTTAAAAATG
19765972 AAATTCATGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.49, C:0.03, G:0.10, T:0.38
Consensus pattern (20 bp):
TTAATTAAACTTAAAAATGG
Found at i:19768406 original size:21 final size:22
Alignment explanation
Indices: 19768359--19768424 Score: 107
Period size: 22 Copynumber: 3.0 Consensus size: 22
19768349 TCAAACAATG
*
19768359 ACAAAAAGTATCTATACCTTTT
1 ACAAAAAGTATCAATACCTTTT
*
19768381 ACAAAAAGTATCGATACCTTTT
1 ACAAAAAGTATCAATACCTTTT
19768403 -CAAAAAGTATCAATACCTTTT
1 ACAAAAAGTATCAATACCTTTT
19768424 A
1 A
19768425 TAAGGTATCA
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
21 20 0.49
22 21 0.51
ACGTcount: A:0.42, C:0.18, G:0.06, T:0.33
Consensus pattern (22 bp):
ACAAAAAGTATCAATACCTTTT
Found at i:19768434 original size:20 final size:21
Alignment explanation
Indices: 19768360--19768437 Score: 104
Period size: 21 Copynumber: 3.7 Consensus size: 21
19768350 CAAACAATGA
*
19768360 CAAAAAGTATCTATACCTTTT
1 CAAAAAGTATCAATACCTTTT
*
19768381 ACAAAAAGTATCGATACCTTTT
1 -CAAAAAGTATCAATACCTTTT
19768403 CAAAAAGTATCAATACCTTTT
1 CAAAAAGTATCAATACCTTTT
* *
19768424 -ATAAGGTATCAATA
1 CAAAAAGTATCAATA
19768438 TCTCTGCTCC
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
20 12 0.23
21 20 0.38
22 20 0.38
ACGTcount: A:0.42, C:0.17, G:0.08, T:0.33
Consensus pattern (21 bp):
CAAAAAGTATCAATACCTTTT
Found at i:19769922 original size:14 final size:14
Alignment explanation
Indices: 19769903--19769930 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
19769893 GACGAAAAAA
19769903 GAATTATGAAGAAG
1 GAATTATGAAGAAG
19769917 GAATTATGAAGAAG
1 GAATTATGAAGAAG
19769931 AATGTTGGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.29, T:0.21
Consensus pattern (14 bp):
GAATTATGAAGAAG
Found at i:19771581 original size:22 final size:22
Alignment explanation
Indices: 19771536--19771620 Score: 102
Period size: 21 Copynumber: 4.0 Consensus size: 22
19771526 AGACAATGAA
* *
19771536 AAAAAGTATAGATACCTTTT-C
1 AAAAAGTATCGATACATTTTAC
*
19771557 AAAAAGTATCTATACATTTTAC
1 AAAAAGTATCGATACATTTTAC
* * *
19771579 AAAAAGTATCAATAC-CTTTCC
1 AAAAAGTATCGATACATTTTAC
19771600 AAAAAGTATCGATACATTTTA
1 AAAAAGTATCGATACATTTTA
19771621 TCAGGTATCA
Statistics
Matches: 53, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
21 35 0.66
22 18 0.34
ACGTcount: A:0.45, C:0.15, G:0.07, T:0.33
Consensus pattern (22 bp):
AAAAAGTATCGATACATTTTAC
Found at i:19771584 original size:43 final size:43
Alignment explanation
Indices: 19771536--19771620 Score: 136
Period size: 43 Copynumber: 2.0 Consensus size: 43
19771526 AGACAATGAA
* *
19771536 AAAAAGTAT-AGATACCTTTTCAAAAAGTATCTATACATTTTAC
1 AAAAAGTATCA-ATACCTTTCCAAAAAGTATCGATACATTTTAC
19771579 AAAAAGTATCAATACCTTTCCAAAAAGTATCGATACATTTTA
1 AAAAAGTATCAATACCTTTCCAAAAAGTATCGATACATTTTA
19771621 TCAGGTATCA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
43 38 0.97
44 1 0.03
ACGTcount: A:0.45, C:0.15, G:0.07, T:0.33
Consensus pattern (43 bp):
AAAAAGTATCAATACCTTTCCAAAAAGTATCGATACATTTTAC
Found at i:19773651 original size:23 final size:21
Alignment explanation
Indices: 19773599--19773651 Score: 52
Period size: 23 Copynumber: 2.4 Consensus size: 21
19773589 CATTTATCTT
*
19773599 TAAATAATTATAAATTATAATA
1 TAAAT-ATTATAAAATATAATA
**
19773621 TATTTATTATTAAAATATTAATA
1 TAAATATTA-TAAAATA-TAATA
19773644 TAAATATT
1 TAAATATT
19773652 TTTCAATAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
21 4 0.17
22 9 0.38
23 11 0.46
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
TAAATATTATAAAATATAATA
Found at i:19777978 original size:30 final size:30
Alignment explanation
Indices: 19777937--19778028 Score: 123
Period size: 30 Copynumber: 3.1 Consensus size: 30
19777927 TAGAAAACCA
* *
19777937 TCCTATAACCACTTGGAAATGTGGGGTGTG
1 TCCTACAACCACTTGAAAATGTGGGGTGTG
* * *
19777967 TCGTACAACCACGTGAAAATGTGAGGTGTG
1 TCCTACAACCACTTGAAAATGTGGGGTGTG
19777997 TCCTACAACCACTTGAAAATGTGAGGG-GTG
1 TCCTACAACCACTTGAAAATGTG-GGGTGTG
19778027 TC
1 TC
19778029 TTGCTAAATG
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
30 51 0.96
31 2 0.04
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.26
Consensus pattern (30 bp):
TCCTACAACCACTTGAAAATGTGGGGTGTG
Found at i:19778918 original size:14 final size:14
Alignment explanation
Indices: 19778899--19778927 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
19778889 TATGCTCAAA
19778899 ACAGATGAGTGATG
1 ACAGATGAGTGATG
19778913 ACAGATGAGTGATG
1 ACAGATGAGTGATG
19778927 A
1 A
19778928 ATGAGAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.38, C:0.07, G:0.34, T:0.21
Consensus pattern (14 bp):
ACAGATGAGTGATG
Found at i:19780032 original size:28 final size:28
Alignment explanation
Indices: 19779970--19780026 Score: 73
Period size: 29 Copynumber: 2.1 Consensus size: 28
19779960 GAAGGATTTA
* *
19779970 ATATT-CATATCACATATTATGACATAT
1 ATATTCCATATCACATAATATCACATAT
19779997 ATATTCCATATCAACATAATATCACA-AT
1 ATATTCCATATC-ACATAATATCACATAT
19780025 AT
1 AT
19780027 CATCCAAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
27 5 0.19
28 10 0.38
29 11 0.42
ACGTcount: A:0.44, C:0.18, G:0.02, T:0.37
Consensus pattern (28 bp):
ATATTCCATATCACATAATATCACATAT
Found at i:19781231 original size:419 final size:419
Alignment explanation
Indices: 19780453--19781299 Score: 1579
Period size: 419 Copynumber: 2.0 Consensus size: 419
19780443 TCTACCGATA
* *
19780453 CAAGTACATAAACTACCAATACTTCTATGGGCAAAACTACTGATACTTATTATGCAACTACAGAT
1 CAAGTACATAAACTACCAATACTCCTATGGGCAAAACTACTAATACTTATTATGCAACTACAGAT
*
19780518 ACAACTCAAGTCAGTGAATAACCTCTCTCCTGCCTTATACTTCTACTGATACATGCAGGGGTTCT
66 ACAACTCAAGTCAGTGAATAACCTCTCTCCTACCTTATACTTCTACTGATACATGCAGGGGTTCT
*
19780583 ACCGATGCAAGTATGCAGAATTCATTTAATCACACAAGTCCTCAAGTTTATCAATCATCATTCAA
131 ACCGATACAAGTATGCAGAATTCATTTAATCACACAAGTCCTCAAGTTTATCAATCATCATTCAA
*
19780648 TACAAGACTCTAATTCAAATTCTTATCTTACAAAATCTATACATGACAATACTTGTTTCATCATA
196 TACAAGACTCCAATTCAAATTCTTATCTTACAAAATCTATACATGACAATACTTGTTTCATCATA
*
19780713 TAACACAAAATACAACCAATCAACACAAGGATTCTTAAATTCACATGTCAACTCATTACTAAACA
261 TAACACAAAATACAACCAATCAACACAAGAATTCTTAAATTCACATGTCAACTCATTACTAAACA
19780778 CATTTGCTTAATTAGAACATCAAGCAAGCATTCAAGTTTAGTTCAACAAAGAAACCAATAATCTA
326 CATTTGCTTAATTAGAACATCAAGCAAGCATTCAAGTTTAGTTCAACAAAGAAACCAATAATCTA
19780843 AAATTAGGCATTTCAAGGGTAACATCATC
391 AAATTAGGCATTTCAAGGGTAACATCATC
19780872 CAAGTACATAAACTACCAATACTCCTATGGGCAAAACTACTAATACTTATTATGCAACTACAGAT
1 CAAGTACATAAACTACCAATACTCCTATGGGCAAAACTACTAATACTTATTATGCAACTACAGAT
*
19780937 ACAACTCAAGTCAGTGAATAACCTCTCTCCTACCTTATACTTCTACTGATACATGTAGGGGTTCT
66 ACAACTCAAGTCAGTGAATAACCTCTCTCCTACCTTATACTTCTACTGATACATGCAGGGGTTCT
19781002 ACCGATACAAGTATGCAGAATTCATTTAATCACACAAGTCCTCAAGTTTATCAATCATCATTCAA
131 ACCGATACAAGTATGCAGAATTCATTTAATCACACAAGTCCTCAAGTTTATCAATCATCATTCAA
* *
19781067 TACAAGACTCCAATTCAAATTCTTATCTTGCAGAATCTATACATGACAATACTTGTTTCATCATA
196 TACAAGACTCCAATTCAAATTCTTATCTTACAAAATCTATACATGACAATACTTGTTTCATCATA
* *
19781132 TAACACAAAATACAACCAATCAACACAAGAATTCTTAAATTTACATGTCAGCTCATTACTAATA-
261 TAACACAAAATACAACCAATCAACACAAGAATTCTTAAATTCACATGTCAACTCATTACTAA-AC
19781196 ACATTTGCTTAATTAGAACATCAAGCAAGCATTCAAGTTTAGTTCAACAAAGAAACCAATAATCT
325 ACATTTGCTTAATTAGAACATCAAGCAAGCATTCAAGTTTAGTTCAACAAAGAAACCAATAATCT
19781261 AAAATTAGGCATTTCAAGGGTAACATCATC
390 AAAATTAGGCATTTCAAGGGTAACATCATC
19781291 CAAGTACAT
1 CAAGTACAT
19781300 GCCATATAAC
Statistics
Matches: 416, Mismatches: 11, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
419 415 1.00
420 1 0.00
ACGTcount: A:0.39, C:0.22, G:0.10, T:0.29
Consensus pattern (419 bp):
CAAGTACATAAACTACCAATACTCCTATGGGCAAAACTACTAATACTTATTATGCAACTACAGAT
ACAACTCAAGTCAGTGAATAACCTCTCTCCTACCTTATACTTCTACTGATACATGCAGGGGTTCT
ACCGATACAAGTATGCAGAATTCATTTAATCACACAAGTCCTCAAGTTTATCAATCATCATTCAA
TACAAGACTCCAATTCAAATTCTTATCTTACAAAATCTATACATGACAATACTTGTTTCATCATA
TAACACAAAATACAACCAATCAACACAAGAATTCTTAAATTCACATGTCAACTCATTACTAAACA
CATTTGCTTAATTAGAACATCAAGCAAGCATTCAAGTTTAGTTCAACAAAGAAACCAATAATCTA
AAATTAGGCATTTCAAGGGTAACATCATC
Found at i:19786947 original size:31 final size:30
Alignment explanation
Indices: 19786841--19786975 Score: 93
Period size: 30 Copynumber: 4.6 Consensus size: 30
19786831 TTAATATAAC
19786841 ATTTGGTACCTAAACTTGACACTTTTTCCTA
1 ATTTGGTACCTAAACTTGACAC-TTTTCCTA
* * ** *
19786872 ATTTGG-AACTCAA-TT---TTTTTTGTCTA
1 ATTTGGTACCTAAACTTGACACTTTT-CCTA
*
19786898 ATTTGGTA-CTCAAGCTTGACACATTTTCCTA
1 ATTTGGTACCT-AAACTTGACAC-TTTTCCTA
* * **
19786929 ATTTAGTACCTAAACTTGATACTTTTTTTA
1 ATTTGGTACCTAAACTTGACACTTTTCCTA
*
19786959 ATTTGGTACTTAAACTT
1 ATTTGGTACCTAAACTT
19786976 TTTGGGGTCT
Statistics
Matches: 78, Mismatches: 17, Indels: 19
0.68 0.15 0.17
Matches are distributed among these distances:
25 4 0.05
26 11 0.14
27 2 0.03
28 2 0.03
29 2 0.03
30 26 0.33
31 25 0.32
32 6 0.08
ACGTcount: A:0.27, C:0.17, G:0.10, T:0.46
Consensus pattern (30 bp):
ATTTGGTACCTAAACTTGACACTTTTCCTA
Found at i:19787003 original size:58 final size:58
Alignment explanation
Indices: 19786926--19787037 Score: 138
Period size: 59 Copynumber: 1.9 Consensus size: 58
19786916 ACACATTTTC
* *
19786926 CTAATTTAGTACCTAAACTTGATACT-TTTTT-TAATTTGGTACTTAAACTTTTTGGGGT
1 CTAATTTAGCACCTAAACTT--TACTCTTTTTCTAATTTGGTACCTAAACTTTTTGGGGT
* * *
19786984 CTAATTTGGCACCTGAACTTTACTCTTTTTCCTAATTTGGTACCTAATCTTTTT
1 CTAATTTAGCACCTAAACTTTACTCTTTTT-CTAATTTGGTACCTAAACTTTTT
19787038 TAATATTATT
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
56 4 0.09
57 5 0.11
58 17 0.37
59 20 0.43
ACGTcount: A:0.23, C:0.17, G:0.12, T:0.48
Consensus pattern (58 bp):
CTAATTTAGCACCTAAACTTTACTCTTTTTCTAATTTGGTACCTAAACTTTTTGGGGT
Found at i:19787014 original size:89 final size:88
Alignment explanation
Indices: 19786841--19787030 Score: 222
Period size: 89 Copynumber: 2.1 Consensus size: 88
19786831 TTAATATAAC
* *** *
19786841 ATTTGGTACCTAAACTTGACACTTTTTCCTAATTTGGAACTCAATTTTTTTTGTCTAATTTGGTA
1 ATTTGGTACCTAAACTTGACACTTTTTCCTAATTTGGAACTAAATTTTTGGGGTCTAATTTGGCA
19786906 CTCAAGCTTGACACATTTTCCTA
66 CTCAAGCTTGACACATTTTCCTA
* * * *
19786929 ATTTAGTACCTAAACTTGATACTTTTT-TTAATTTGGTACTTAAACTTTTTGGGGTCTAATTTGG
1 ATTTGGTACCTAAACTTGACACTTTTTCCTAATTTGGAAC-TAAA-TTTTTGGGGTCTAATTTGG
* * * *
19786993 CACCTGAA-CTTTACTCTTTTTCCTA
64 CA-CTCAAGCTTGACACATTTTCCTA
19787018 ATTTGGTACCTAA
1 ATTTGGTACCTAA
19787031 TCTTTTTTAA
Statistics
Matches: 85, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
87 10 0.12
88 28 0.33
89 43 0.51
90 4 0.05
ACGTcount: A:0.25, C:0.18, G:0.12, T:0.45
Consensus pattern (88 bp):
ATTTGGTACCTAAACTTGACACTTTTTCCTAATTTGGAACTAAATTTTTGGGGTCTAATTTGGCA
CTCAAGCTTGACACATTTTCCTA
Found at i:19787278 original size:59 final size:58
Alignment explanation
Indices: 19787196--19787364 Score: 223
Period size: 59 Copynumber: 2.9 Consensus size: 58
19787186 AGTTGAATCT
* * * *
19787196 AAAAAAAGCTTAGGTACCAAATTAGGAAAAAATGCCAAGTTTAGGTACCAAATTGGGTC
1 AAAAAAAGTTTAGGTACCAAATTA-GAAAAAATGTCAAGTTCAAGTACCAAATTGGGTC
* * * *
19787255 AAAAAAAGTTTAGATACCAAATTAAGAAAAATTATCAAGTTCAAGTGCCAAATTGGGTC
1 AAAAAAAGTTTAGGTACCAAATT-AGAAAAAATGTCAAGTTCAAGTACCAAATTGGGTC
* *
19787314 AAAAAAATTTTAGGTATCAAATTA-AAAAAATGTCAAGTTCAAGTACCAAAT
1 AAAAAAAGTTTAGGTACCAAATTAGAAAAAATGTCAAGTTCAAGTACCAAAT
19787365 GTTATATTAA
Statistics
Matches: 95, Mismatches: 14, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
57 24 0.25
58 1 0.01
59 69 0.73
60 1 0.01
ACGTcount: A:0.48, C:0.12, G:0.15, T:0.25
Consensus pattern (58 bp):
AAAAAAAGTTTAGGTACCAAATTAGAAAAAATGTCAAGTTCAAGTACCAAATTGGGTC
Found at i:19788622 original size:24 final size:24
Alignment explanation
Indices: 19788594--19788641 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
19788584 TACCAGAGAG
19788594 ATAGCGAATACCGTGTTGAAAGAT
1 ATAGCGAATACCGTGTTGAAAGAT
19788618 ATAGCGAATACCGTGTTGAAAGAT
1 ATAGCGAATACCGTGTTGAAAGAT
19788642 TGTTTAGTGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.12, G:0.25, T:0.25
Consensus pattern (24 bp):
ATAGCGAATACCGTGTTGAAAGAT
Found at i:19791812 original size:22 final size:22
Alignment explanation
Indices: 19791782--19791832 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
19791772 TTATAGCAAA
*
19791782 CATTTTCTTCTTCTTTTTTTTCT
1 CATTTTCTTCTTC-TTTCTTTCT
*
19791805 C-TTTTCTTTTTCTTTCTTTCT
1 CATTTTCTTCTTCTTTCTTTCT
19791826 CATTTTC
1 CATTTTC
19791833 CCTTTTTCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 9 0.36
22 15 0.60
23 1 0.04
ACGTcount: A:0.04, C:0.24, G:0.00, T:0.73
Consensus pattern (22 bp):
CATTTTCTTCTTCTTTCTTTCT
Found at i:19791823 original size:15 final size:15
Alignment explanation
Indices: 19791785--19791823 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
19791775 TAGCAAACAT
*
19791785 TTTCTTCTTCTTTTTT
1 TTTCTT-TTCTTTTTC
19791801 TTCTCTTTTCTTTTTC
1 TT-TCTTTTCTTTTTC
19791817 TTTCTTT
1 TTTCTTT
19791824 CTCATTTTCC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 5 0.24
16 12 0.57
17 4 0.19
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTCTTTTCTTTTTC
Found at i:19802254 original size:17 final size:18
Alignment explanation
Indices: 19802228--19802272 Score: 65
Period size: 19 Copynumber: 2.5 Consensus size: 18
19802218 ATTAAATCTA
*
19802228 TATAAGATATTA-TTTAT
1 TATAAAATATTACTTTAT
19802245 TATAAAATATTATCTTTAT
1 TATAAAATATTA-CTTTAT
19802264 TATAAAATA
1 TATAAAATA
19802273 ACTTTCAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 11 0.44
19 14 0.56
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (18 bp):
TATAAAATATTACTTTAT
Found at i:19806795 original size:27 final size:27
Alignment explanation
Indices: 19806674--19806791 Score: 123
Period size: 27 Copynumber: 4.4 Consensus size: 27
19806664 CCTTAAAGCA
19806674 TGCCACAAAGGCTTCCTTTTCATAGAT
1 TGCCACAAAGGCTTCCTTTTCATAGAT
** *
19806701 TATCACAAAGGCTTCCATTT--TAGAT
1 TGCCACAAAGGCTTCCTTTTCATAGAT
* *
19806726 ATCGTCACAAAGGTTTCCTTTTCATAGAT
1 -T-GCCACAAAGGCTTCCTTTTCATAGAT
* * * *
19806755 CGCCATAAAGACTTCCTTTTCATAAAT
1 TGCCACAAAGGCTTCCTTTTCATAGAT
19806782 TGCCACAAAG
1 TGCCACAAAG
19806792 ACTTTCATTT
Statistics
Matches: 73, Mismatches: 14, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
25 5 0.07
26 1 0.01
27 62 0.85
29 5 0.07
ACGTcount: A:0.31, C:0.24, G:0.13, T:0.33
Consensus pattern (27 bp):
TGCCACAAAGGCTTCCTTTTCATAGAT
Found at i:19810873 original size:37 final size:37
Alignment explanation
Indices: 19810832--19810906 Score: 123
Period size: 37 Copynumber: 2.0 Consensus size: 37
19810822 AGAAGTTAGG
19810832 GGGTAATCCGAATAGCCTAGAGATAGTATATTCTGAT
1 GGGTAATCCGAATAGCCTAGAGATAGTATATTCTGAT
* **
19810869 GGGTAATTCGAATATTCTAGAGATAGTATATTCTGAT
1 GGGTAATCCGAATAGCCTAGAGATAGTATATTCTGAT
19810906 G
1 G
19810907 TATTCGTTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.33
Consensus pattern (37 bp):
GGGTAATCCGAATAGCCTAGAGATAGTATATTCTGAT
Found at i:19811456 original size:13 final size:14
Alignment explanation
Indices: 19811427--19811456 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
19811417 TCTAGTACAT
19811427 TGACATTTAACCTC
1 TGACATTTAACCTC
19811441 TGACATTTAA-CTC
1 TGACATTTAACCTC
19811454 TGA
1 TGA
19811457 TTGCGTTGGC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.30, C:0.23, G:0.10, T:0.37
Consensus pattern (14 bp):
TGACATTTAACCTC
Found at i:19816519 original size:20 final size:21
Alignment explanation
Indices: 19816482--19816520 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
19816472 CATTTATTCA
19816482 TTTACTTTTATCTGTTTCACT
1 TTTACTTTTATCTGTTTCACT
*
19816503 TTTACTTTTGT-TGTTTCA
1 TTTACTTTTATCTGTTTCA
19816521 AATTCCTTGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.13, C:0.15, G:0.08, T:0.64
Consensus pattern (21 bp):
TTTACTTTTATCTGTTTCACT
Found at i:19818365 original size:12 final size:13
Alignment explanation
Indices: 19818340--19818370 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
19818330 ATGACTTACT
19818340 GAAGAAAAAGGAG
1 GAAGAAAAAGGAG
19818353 GAAGAAAAA-GAG
1 GAAGAAAAAGGAG
19818365 GAAGAA
1 GAAGAA
19818371 GAGAATGAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 9 0.50
13 9 0.50
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (13 bp):
GAAGAAAAAGGAG
Found at i:19819452 original size:17 final size:18
Alignment explanation
Indices: 19819421--19819465 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 18
19819411 TCAGTCATTT
**
19819421 GAAAAAGAAACAAAATGA
1 GAAAAAGAAACAAAAAAA
*
19819439 GAAAAAGGAA-AAAAAAA
1 GAAAAAGAAACAAAAAAA
19819456 GAAAAAGAAA
1 GAAAAAGAAA
19819466 GAAATTTTTG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
17 14 0.61
18 9 0.39
ACGTcount: A:0.78, C:0.02, G:0.18, T:0.02
Consensus pattern (18 bp):
GAAAAAGAAACAAAAAAA
Found at i:19821023 original size:13 final size:14
Alignment explanation
Indices: 19820994--19821023 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
19820984 TCTAGTACAT
19820994 TGACATTTAACCTC
1 TGACATTTAACCTC
19821008 TGACATTTAA-CTC
1 TGACATTTAACCTC
19821021 TGA
1 TGA
19821024 TTACATTGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.30, C:0.23, G:0.10, T:0.37
Consensus pattern (14 bp):
TGACATTTAACCTC
Found at i:19829712 original size:6 final size:6
Alignment explanation
Indices: 19829701--19829733 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
19829691 ACATAAAAAG
19829701 AAAGAA AAAG-A AAAGAA AAAGAGA AAAGAA AAA
1 AAAGAA AAAGAA AAAGAA AAAGA-A AAAGAA AAA
19829734 AAATATTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
5 5 0.20
6 14 0.56
7 6 0.24
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (6 bp):
AAAGAA
Found at i:19829715 original size:11 final size:11
Alignment explanation
Indices: 19829695--19829733 Score: 53
Period size: 12 Copynumber: 3.5 Consensus size: 11
19829685 TCAATCACAT
19829695 AAAAAG-AAAG
1 AAAAAGAAAAG
19829705 AAAAAGAAAAG
1 AAAAAGAAAAG
19829716 AAAAAGAGAAAAG
1 -AAAA-AGAAAAG
19829729 AAAAA
1 AAAAA
19829734 AAATATTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
10 6 0.23
11 5 0.19
12 8 0.31
13 7 0.27
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (11 bp):
AAAAAGAAAAG
Found at i:19829727 original size:13 final size:12
Alignment explanation
Indices: 19829695--19829734 Score: 57
Period size: 13 Copynumber: 3.4 Consensus size: 12
19829685 TCAATCACAT
19829695 AAAAAG-AAAG-
1 AAAAAGAAAAGA
19829705 AAAAAGAAAAGA
1 AAAAAGAAAAGA
19829717 AAAAGAGAAAAGA
1 AAAA-AGAAAAGA
19829730 AAAAA
1 AAAAA
19829735 AATATTTATA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 6 0.22
11 4 0.15
12 5 0.19
13 12 0.44
ACGTcount: A:0.82, C:0.00, G:0.17, T:0.00
Consensus pattern (12 bp):
AAAAAGAAAAGA
Found at i:19831980 original size:20 final size:20
Alignment explanation
Indices: 19831955--19831997 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
19831945 CAATCACACT
19831955 TCCGTGGTCAAACAATTAAA
1 TCCGTGGTCAAACAATTAAA
19831975 TCCGTGGTCAAACAATTAAA
1 TCCGTGGTCAAACAATTAAA
19831995 TCC
1 TCC
19831998 AAAGATAAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.26
Consensus pattern (20 bp):
TCCGTGGTCAAACAATTAAA
Found at i:19833674 original size:17 final size:16
Alignment explanation
Indices: 19833619--19833675 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 16
19833609 AATATATATG
*
19833619 GAAATGCAATGACAAT
1 GAAATGCAATGACAAA
* *
19833635 GAAGATGCAGTGATAAGA
1 GAA-ATGCAATGACAA-A
*
19833653 AAAATGCAATGACAAA
1 GAAATGCAATGACAAA
19833669 CGAAATG
1 -GAAATG
19833676 TGATGACAGC
Statistics
Matches: 31, Mismatches: 7, Indels: 5
0.72 0.16 0.12
Matches are distributed among these distances:
16 4 0.13
17 25 0.81
18 2 0.06
ACGTcount: A:0.51, C:0.11, G:0.23, T:0.16
Consensus pattern (16 bp):
GAAATGCAATGACAAA
Found at i:19838328 original size:23 final size:23
Alignment explanation
Indices: 19838301--19838347 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
19838291 ATTCGTCCAG
*
19838301 CACATCAATGTGGTGACATTCTT
1 CACATCAATATGGTGACATTCTT
19838324 CACATCAATATGGTGACATTCTT
1 CACATCAATATGGTGACATTCTT
19838347 C
1 C
19838348 TTTGTTTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.34
Consensus pattern (23 bp):
CACATCAATATGGTGACATTCTT
Found at i:19847990 original size:19 final size:20
Alignment explanation
Indices: 19847952--19847993 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 20
19847942 ATGTTCTAAA
19847952 TTTTATTTGTTACTAATTTG
1 TTTTATTTGTTACTAATTTG
19847972 TTTTATTT-TT-CTCAATTTG
1 TTTTATTTGTTACT-AATTTG
19847991 TTT
1 TTT
19847994 AGGTGTTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 2 0.10
19 11 0.52
20 8 0.38
ACGTcount: A:0.17, C:0.07, G:0.07, T:0.69
Consensus pattern (20 bp):
TTTTATTTGTTACTAATTTG
Found at i:19851515 original size:20 final size:21
Alignment explanation
Indices: 19851475--19851516 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
19851465 ATTTATGGTC
*
19851475 ACAATTTTGATAAATGTGTTG
1 ACAATTTAGATAAATGTGTTG
*
19851496 ACAATTTAGGTAAA-GTGTTG
1 ACAATTTAGATAAATGTGTTG
19851516 A
1 A
19851517 AACGATGTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.36, C:0.05, G:0.21, T:0.38
Consensus pattern (21 bp):
ACAATTTAGATAAATGTGTTG
Found at i:19854010 original size:13 final size:14
Alignment explanation
Indices: 19853992--19854025 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
19853982 ATTTCAGCAA
19853992 TTTATTCTTT-TTC
1 TTTATTCTTTCTTC
19854005 TTTATTCTTTCTTC
1 TTTATTCTTTCTTC
19854019 TTT-TTCT
1 TTTATTCT
19854026 CATTTTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 14 0.70
14 6 0.30
ACGTcount: A:0.06, C:0.18, G:0.00, T:0.76
Consensus pattern (14 bp):
TTTATTCTTTCTTC
Found at i:19865388 original size:37 final size:38
Alignment explanation
Indices: 19865344--19865449 Score: 106
Period size: 37 Copynumber: 2.7 Consensus size: 38
19865334 AGTTCGAAGC
*
19865344 AATAAAGTGACACCCAGTGTCTCATCG-GCCTAGCCGA
1 AATAAAGTGACACCCAGTGTCTCATCGAACCTAGCCGA
* ** * *
19865381 AATAAAGTGATACCCAGTACCTCATCGAATCTATCCGA
1 AATAAAGTGACACCCAGTGTCTCATCGAACCTAGCCGA
* *
19865419 AGTAAAATAATGACACCCAGTGTCTCATCGA
1 A--ATAA-AGTGACACCCAGTGTCTCATCGA
19865450 TTCAAGGTCG
Statistics
Matches: 54, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
37 24 0.44
38 8 0.15
40 3 0.06
41 19 0.35
ACGTcount: A:0.35, C:0.26, G:0.17, T:0.22
Consensus pattern (38 bp):
AATAAAGTGACACCCAGTGTCTCATCGAACCTAGCCGA
Found at i:19870518 original size:4 final size:4
Alignment explanation
Indices: 19870509--19870539 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
19870499 TTACAAATAA
19870509 TAAT TAAT TAAT TAAT TAA- TAAT TAAT TAAT
1 TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT
19870540 GAACATACTA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 23 0.88
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
TAAT
Found at i:19890995 original size:26 final size:26
Alignment explanation
Indices: 19890943--19891094 Score: 189
Period size: 26 Copynumber: 5.8 Consensus size: 26
19890933 TAGTAGTTTA
* * *
19890943 GCTCATACGAGCCTAG-TCAGGAGATC
1 GCTCTTACGAGCC-AGTTCAGTATATC
* * *
19890969 GCTTTTACAAGCCAGTTTAGTATATC
1 GCTCTTACGAGCCAGTTCAGTATATC
*
19890995 GCTCTTAGGAGCCAGTTCAGTATATC
1 GCTCTTACGAGCCAGTTCAGTATATC
*
19891021 GCTCTTACAAGCCAGTTCAGTATATC
1 GCTCTTACGAGCCAGTTCAGTATATC
* *
19891047 GCTCTTACGAGCTAGTTTAGTATATC
1 GCTCTTACGAGCCAGTTCAGTATATC
*
19891073 ACTCTTACGAGCCAGTTCAGTA
1 GCTCTTACGAGCCAGTTCAGTA
19891095 ATTTCTTCAA
Statistics
Matches: 107, Mismatches: 18, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
25 2 0.02
26 105 0.98
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.31
Consensus pattern (26 bp):
GCTCTTACGAGCCAGTTCAGTATATC
Found at i:19894521 original size:217 final size:217
Alignment explanation
Indices: 19894142--19894539 Score: 697
Period size: 217 Copynumber: 1.8 Consensus size: 217
19894132 TTGAGTAGAT
* *
19894142 AATTATATATATAATGTTTTACAATCATTTTAAATTAGTTCCTGTACAAAGGCATCTGAAATAAC
1 AATTATATATATAATGTTTTACAATCATTTCAAATCAGTTCCTGTACAAAGGCATCTGAAATAAC
* * *
19894207 TTTGATTATACTATTTGTTTTATTAGACTCAACCCTAATCAGTACATCAGTCTGACATTTTAGTC
66 TTTGACTATACTATTTGTTTTATCAGACTCAACCCTAATCAGTACATCAGTCTGACATTTCAGTC
* *
19894272 TACAATTCACTACAGTACCATATAACTTTAGTCATTTTATTCCTAGAATAAAGTTATTTCAAATG
131 TACAATTCACTACAGTACCATATAAATTTAGTCAATTTATTCCTAGAATAAAGTTATTTCAAATG
19894337 CCTTTGCACAAGAAATGATCTA
196 CCTTTGCACAAGAAATGATCTA
* *
19894359 AATTATATATATAATGTTTTACAATCATTTCAGATCATTTCCTGTACAAAGGCATCTGAAATAAC
1 AATTATATATATAATGTTTTACAATCATTTCAAATCAGTTCCTGTACAAAGGCATCTGAAATAAC
19894424 TTTGACTATACTATTTGTTTTATCAGACTCAACCCTAATCAGTACATCAGTCTGACATTTCAGTC
66 TTTGACTATACTATTTGTTTTATCAGACTCAACCCTAATCAGTACATCAGTCTGACATTTCAGTC
* *
19894489 TACAATTCACTACGGTATCATATAAATTTAGTCAATTTATTCCTAGAATAA
131 TACAATTCACTACAGTACCATATAAATTTAGTCAATTTATTCCTAGAATAA
19894540 TACCAAATTC
Statistics
Matches: 170, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
217 170 1.00
ACGTcount: A:0.35, C:0.17, G:0.10, T:0.38
Consensus pattern (217 bp):
AATTATATATATAATGTTTTACAATCATTTCAAATCAGTTCCTGTACAAAGGCATCTGAAATAAC
TTTGACTATACTATTTGTTTTATCAGACTCAACCCTAATCAGTACATCAGTCTGACATTTCAGTC
TACAATTCACTACAGTACCATATAAATTTAGTCAATTTATTCCTAGAATAAAGTTATTTCAAATG
CCTTTGCACAAGAAATGATCTA
Found at i:19899595 original size:20 final size:21
Alignment explanation
Indices: 19899570--19899617 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
19899560 GCAGGAATAA
*
19899570 CGATACC-TTACAAAATATAT
1 CGATACCTTTACAAAAGATAT
*
19899590 CGATACCTTTACAAAAGGTAT
1 CGATACCTTTACAAAAGATAT
19899611 CGATACC
1 CGATACC
19899618 ATATCGATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 7 0.28
21 18 0.72
ACGTcount: A:0.40, C:0.23, G:0.10, T:0.27
Consensus pattern (21 bp):
CGATACCTTTACAAAAGATAT
Found at i:19905734 original size:15 final size:15
Alignment explanation
Indices: 19905714--19905744 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
19905704 ATGGCCATAT
*
19905714 CGCCCACACTTAAAA
1 CGCCCACACTCAAAA
19905729 CGCCCACACTCAAAA
1 CGCCCACACTCAAAA
19905744 C
1 C
19905745 AAATCAAGGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.39, C:0.45, G:0.06, T:0.10
Consensus pattern (15 bp):
CGCCCACACTCAAAA
Found at i:19907772 original size:60 final size:60
Alignment explanation
Indices: 19907650--19907773 Score: 162
Period size: 59 Copynumber: 2.1 Consensus size: 60
19907640 TAAATTTTTT
* **
19907650 TATGAAGTTATGTATATTTGTACAAATAATTTGTTAAATTTTGTACACATAAATTTTTTA
1 TATGAAGTTATGTATATTTATACAAATAATTTGTTAAATTTTGTACACATAAATTTAATA
* * *
19907710 TATGAAGTTATGTAT-TTTATAGAAATAATTTGTTAAATTTTTTATA-ATAATATATTAATA
1 TATGAAGTTATGTATATTTATACAAATAATTTGTTAAATTTTGTACACATAA-AT-TTAATA
19907770 TATG
1 TATG
19907774 GATTAGTTTG
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
58 4 0.07
59 29 0.52
60 23 0.41
ACGTcount: A:0.39, C:0.02, G:0.10, T:0.49
Consensus pattern (60 bp):
TATGAAGTTATGTATATTTATACAAATAATTTGTTAAATTTTGTACACATAAATTTAATA
Found at i:19915257 original size:72 final size:72
Alignment explanation
Indices: 19915140--19915281 Score: 275
Period size: 72 Copynumber: 2.0 Consensus size: 72
19915130 ATGCAAAGGT
*
19915140 CATATTAAAAGTTGATCAAGAAATCTTGACATTTGGTTAGTCGAGTCAATGAAAAGGATTAAATT
1 CATATTAAAAGTTGACCAAGAAATCTTGACATTTGGTTAGTCGAGTCAATGAAAAGGATTAAATT
19915205 ATAAAGA
66 ATAAAGA
19915212 CATATTAAAAGTTGACCAAGAAATCTTGACATTTGGTTAGTCGAGTCAATGAAAAGGATTAAATT
1 CATATTAAAAGTTGACCAAGAAATCTTGACATTTGGTTAGTCGAGTCAATGAAAAGGATTAAATT
19915277 ATAAA
66 ATAAA
19915282 AACTTGAAAA
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 69 1.00
ACGTcount: A:0.43, C:0.09, G:0.18, T:0.30
Consensus pattern (72 bp):
CATATTAAAAGTTGACCAAGAAATCTTGACATTTGGTTAGTCGAGTCAATGAAAAGGATTAAATT
ATAAAGA
Found at i:19916593 original size:42 final size:43
Alignment explanation
Indices: 19916525--19916811 Score: 357
Period size: 43 Copynumber: 6.7 Consensus size: 43
19916515 TTATGTGGGA
* *
19916525 AAACACCGCTATAGAACATGATCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTATAGAACATGGTCTTTAGCGGCGCTTTTCCCAC
* * *
19916568 AAACGCCG-TATAGAACATGGTCTTTAACGGCGTTTTTTCCAC
1 AAACGCCGCTATAGAACATGGTCTTTAGCGGCGCTTTTCCCAC
* * * * *
19916610 AAATGCTGCTATAGAACATGGCCTTTAGCAAG-GCTTTACCCAC
1 AAACGCCGCTATAGAACATGGTCTTTAGC-GGCGCTTTTCCCAC
* *
19916653 AAACGCTGCTATAGAACATGGTCTTTAGTGGCGCTTTTCCCAC
1 AAACGCCGCTATAGAACATGGTCTTTAGCGGCGCTTTTCCCAC
**
19916696 AAAACGCCGCTATAGAACATAATCTTTAGCGGCGCTTTTCCCAC
1 -AAACGCCGCTATAGAACATGGTCTTTAGCGGCGCTTTTCCCAC
* *
19916740 AAATGCCGCTATAGAACAT-GTCTTTAGCGGC-ATTTTCCCCAC
1 AAACGCCGCTATAGAACATGGTCTTTAGCGGCGCTTTT-CCCAC
* *
19916782 AAATGTCGCTATAGAACATGGTCTTTAGCG
1 AAACGCCGCTATAGAACATGGTCTTTAGCG
19916812 ACGTATTTTT
Statistics
Matches: 212, Mismatches: 26, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
41 4 0.02
42 71 0.33
43 97 0.46
44 40 0.19
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (43 bp):
AAACGCCGCTATAGAACATGGTCTTTAGCGGCGCTTTTCCCAC
Found at i:19916831 original size:85 final size:84
Alignment explanation
Indices: 19916531--19916814 Score: 338
Period size: 85 Copynumber: 3.3 Consensus size: 84
19916521 GGGAAAACAC
* *
19916531 CGCTATAGAACATGATCTTTAGCGGCGCTTTTCCCACAAACGCCG-TATAGAACATGGTCTTTAA
1 CGCTATAGAACATGATCTTTAGCGACGCTTTTCCCACAAACGCCGCTATAGAACATGGTCTTTAG
* *
19916595 CGGCGTTTTTTCCACAAATG
66 CGGC-ATTTTCCCACAAATG
** * * * *
19916615 CTGCTATAGAACATGGCCTTTAGCAAGGCTTTACCCACAAACGCTGCTATAGAACATGGTCTTTA
1 C-GCTATAGAACATGATCTTTAGCGACGCTTTTCCCACAAACGCCGCTATAGAACATGGTCTTTA
* * *
19916680 GTGGCGCTTTTCCCACAAAACG
65 GCGGC-ATTTTCCCAC-AAATG
* * *
19916702 CCGCTATAGAACATAATCTTTAGCGGCGCTTTTCCCACAAATGCCGCTATAGAACAT-GTCTTTA
1 -CGCTATAGAACATGATCTTTAGCGACGCTTTTCCCACAAACGCCGCTATAGAACATGGTCTTTA
19916766 GCGGCATTTTCCCCACAAATG
65 GCGGCATTTT-CCCACAAATG
*
19916787 TCGCTATAGAACATGGTCTTTAGCGACG
1 -CGCTATAGAACATGATCTTTAGCGACG
19916815 TATTTTTCAC
Statistics
Matches: 167, Mismatches: 28, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
84 1 0.01
85 69 0.41
86 46 0.28
87 50 0.30
88 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.28
Consensus pattern (84 bp):
CGCTATAGAACATGATCTTTAGCGACGCTTTTCCCACAAACGCCGCTATAGAACATGGTCTTTAG
CGGCATTTTCCCACAAATG
Found at i:19917218 original size:66 final size:65
Alignment explanation
Indices: 19917104--19917236 Score: 185
Period size: 66 Copynumber: 2.0 Consensus size: 65
19917094 ATTTTTAAGC
* *
19917104 TGTAGCTGAGTTCGTCATACTTTCTTTGAGACTCTACTTCCCTCGCTGCTACCTTGGCTTCAAGT
1 TGTAGCTGAGTTCATCATACTTTCTTTGAGACTCTACTTCCCTCGCTGCTACCTTCGCTTCAAGT
* * * * * *
19917169 TGTAGTTGAAGTTCATCATATTTTCTTTGAGCCTCTGCTTCTCTCGCTGCTACCTTCGCTTTAAG
1 TGTAGCTG-AGTTCATCATACTTTCTTTGAGACTCTACTTCCCTCGCTGCTACCTTCGCTTCAAG
19917234 T
65 T
19917235 TG
1 TG
19917237 AGCAATTTGT
Statistics
Matches: 59, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
65 7 0.12
66 52 0.88
ACGTcount: A:0.15, C:0.26, G:0.18, T:0.41
Consensus pattern (65 bp):
TGTAGCTGAGTTCATCATACTTTCTTTGAGACTCTACTTCCCTCGCTGCTACCTTCGCTTCAAGT
Found at i:19923028 original size:26 final size:26
Alignment explanation
Indices: 19922998--19923080 Score: 84
Period size: 26 Copynumber: 3.3 Consensus size: 26
19922988 ATTCATTTTG
*
19922998 AATTAAATATTTGGGTTGTTTTTAAT
1 AATTAAATATTTGAGTTGTTTTTAAT
* ** * *
19923024 AATTAAATAATT-AAAT-ATTTT--G
1 AATTAAATATTTGAGTTGTTTTTAAT
19923046 AATTAAATATTTGAGTTGTTTTTAAT
1 AATTAAATATTTGAGTTGTTTTTAAT
19923072 AATTAAATA
1 AATTAAATA
19923081 ATTAAACTGA
Statistics
Matches: 42, Mismatches: 11, Indels: 8
0.69 0.18 0.13
Matches are distributed among these distances:
22 11 0.26
23 2 0.05
24 8 0.19
25 1 0.02
26 20 0.48
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (26 bp):
AATTAAATATTTGAGTTGTTTTTAAT
Found at i:19923044 original size:48 final size:48
Alignment explanation
Indices: 19922992--19923086 Score: 181
Period size: 48 Copynumber: 2.0 Consensus size: 48
19922982 GATTATATTC
*
19922992 ATTTTGAATTAAATATTTGGGTTGTTTTTAATAATTAAATAATTAAAT
1 ATTTTGAATTAAATATTTGAGTTGTTTTTAATAATTAAATAATTAAAT
19923040 ATTTTGAATTAAATATTTGAGTTGTTTTTAATAATTAAATAATTAAA
1 ATTTTGAATTAAATATTTGAGTTGTTTTTAATAATTAAATAATTAAA
19923087 CTGATTTGAT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.49
Consensus pattern (48 bp):
ATTTTGAATTAAATATTTGAGTTGTTTTTAATAATTAAATAATTAAAT
Found at i:19926817 original size:17 final size:17
Alignment explanation
Indices: 19926795--19926829 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
19926785 TGCTCTTTAC
*
19926795 CTTTTGCGGGGTTTTCA
1 CTTTTGCGGCGTTTTCA
*
19926812 CTTTTGTGGCGTTTTCA
1 CTTTTGCGGCGTTTTCA
19926829 C
1 C
19926830 ATAAATGTCG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.06, C:0.20, G:0.26, T:0.49
Consensus pattern (17 bp):
CTTTTGCGGCGTTTTCA
Found at i:19926918 original size:40 final size:41
Alignment explanation
Indices: 19926812--19926919 Score: 112
Period size: 40 Copynumber: 2.6 Consensus size: 41
19926802 GGGGTTTTCA
* * * *
19926812 CTTTTGTGGCGTTTTCACATAAATGTCGCTATAGCTCTTTAC
1 CTTTTGTGGCGTTTTCCCATAAACGCCACTATAGC-CTTTAC
* * *
19926854 CTTTTTTGGCG-TTTCTCCAAAAACGCCACTATTG-CTTTAC
1 CTTTTGTGGCGTTTTC-CCATAAACGCCACTATAGCCTTTAC
*
19926894 CTTTTGCGGCGTTTTCCCATAAACGC
1 CTTTTGTGGCGTTTTCCCATAAACGC
19926920 TTACCTTTTG
Statistics
Matches: 54, Mismatches: 10, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
40 24 0.44
41 8 0.15
42 22 0.41
ACGTcount: A:0.19, C:0.26, G:0.16, T:0.40
Consensus pattern (41 bp):
CTTTTGTGGCGTTTTCCCATAAACGCCACTATAGCCTTTAC
Found at i:19926926 original size:30 final size:30
Alignment explanation
Indices: 19926890--19926950 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
19926880 CACTATTGCT
*
19926890 TTACCTTTTGCGGCGTTTTCCCATAAACGC
1 TTACCTTTTGCAGCGTTTTCCCATAAACGC
*
19926920 TTACCTTTTGCAGCGTTTTCCCATAATCGC
1 TTACCTTTTGCAGCGTTTTCCCATAAACGC
19926950 T
1 T
19926951 GCTATTGCTC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.16, C:0.30, G:0.15, T:0.39
Consensus pattern (30 bp):
TTACCTTTTGCAGCGTTTTCCCATAAACGC
Found at i:19927532 original size:34 final size:35
Alignment explanation
Indices: 19927469--19927543 Score: 100
Period size: 34 Copynumber: 2.2 Consensus size: 35
19927459 CAATTAATCT
19927469 GACTAGTGCTGGGCACACAAATCGTTGGTTTAACC
1 GACTAGTGCTGGGCACACAAATCGTTGGTTTAACC
* *
19927504 GACTAGTG-TGGGGCACA-ACATCGTTGGTTTATCC
1 GACTAGTGCT-GGGCACACAAATCGTTGGTTTAACC
*
19927538 AACTAG
1 GACTAG
19927544 AGTTAGGCTC
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
34 21 0.58
35 15 0.42
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (35 bp):
GACTAGTGCTGGGCACACAAATCGTTGGTTTAACC
Found at i:19927688 original size:75 final size:75
Alignment explanation
Indices: 19927599--19927780 Score: 222
Period size: 75 Copynumber: 2.4 Consensus size: 75
19927589 GGCACACCAT
* * * * * *
19927599 TTGTCTGTTTAACCGATTAGTGCTAGGCACAATATTTGTTGGTATATCCAAGTAGAGT-TGGATT
1 TTGTCAGTTTAACCGACTAGCGCTAGGCACAATATATGTTGGTATATCCAAGTA-AATCTGGACT
19927663 CACCTTTTATA
65 CACCTTTTATA
* * *
19927674 TTGTCAGTTTAACCGACTAGCGCTGGGCACAATATATGTTGGTATATCCAATTAAATCTGGGCTC
1 TTGTCAGTTTAACCGACTAGCGCTAGGCACAATATATGTTGGTATATCCAAGTAAATCTGGACTC
19927739 ACCTTTTATA
66 ACCTTTTATA
* * * * *
19927749 TTGTCGGTTTAATCAACTAGCACTAAGCACAA
1 TTGTCAGTTTAACCGACTAGCGCTAGGCACAA
19927781 ATTCTTTCAC
Statistics
Matches: 91, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
74 2 0.02
75 89 0.98
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (75 bp):
TTGTCAGTTTAACCGACTAGCGCTAGGCACAATATATGTTGGTATATCCAAGTAAATCTGGACTC
ACCTTTTATA
Found at i:19927699 original size:110 final size:109
Alignment explanation
Indices: 19927469--19927704 Score: 271
Period size: 110 Copynumber: 2.2 Consensus size: 109
19927459 CAATTAATCT
* *
19927469 GACTAGTGCTGGGCACACAAATCGTTGGTTTAACCGACTAGTGTGGGGCACAACATCGTTGGTTT
1 GACTAGTGCTGGGCACACAAATCGTTGGTTTAACCGACTAGTGTGAGGCACAACATCGTTGGTAT
* *
19927534 ATCCAACTAGAGTTAGGCTCACCTTTTATATCGTCAGTATATCT
66 ATCCAACTAGAGTTAGGCTCACCTTTTATATCGTCAGTATAACC
* * * * * * *
19927578 GACGAGTGCTGGGCACACCATTTGTCT-GTTTAACCGATTAGTGCT-AGGCACAATATTTGTTGG
1 GACTAGTGCTGGGCACACAAATCGT-TGGTTTAACCGACTAGTG-TGAGGCACAACA-TCGTTGG
* * * *
19927641 TATATCCAAGTAGAGTT-GGATTCACCTTTTATATTGTCAGTTTAACC
63 TATATCCAACTAGAGTTAGG-CTCACCTTTTATATCGTCAGTATAACC
*
19927688 GACTAGCGCTGGGCACA
1 GACTAGTGCTGGGCACA
19927705 ATATATGTTG
Statistics
Matches: 106, Mismatches: 17, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
109 46 0.43
110 60 0.57
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.32
Consensus pattern (109 bp):
GACTAGTGCTGGGCACACAAATCGTTGGTTTAACCGACTAGTGTGAGGCACAACATCGTTGGTAT
ATCCAACTAGAGTTAGGCTCACCTTTTATATCGTCAGTATAACC
Found at i:19930288 original size:24 final size:24
Alignment explanation
Indices: 19930260--19930318 Score: 73
Period size: 24 Copynumber: 2.5 Consensus size: 24
19930250 AGAAATAATC
*
19930260 TTTCAGTTAAACTCTGTTTATTTG
1 TTTCAGTTAAACTCAGTTTATTTG
* * *
19930284 TTTCAATCAATCTCAGTTTATTTG
1 TTTCAGTTAAACTCAGTTTATTTG
*
19930308 TTTGAGTTAAA
1 TTTCAGTTAAA
19930319 ATCTTATTAA
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.25, C:0.12, G:0.12, T:0.51
Consensus pattern (24 bp):
TTTCAGTTAAACTCAGTTTATTTG
Found at i:19932251 original size:16 final size:16
Alignment explanation
Indices: 19932230--19932269 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
19932220 TATCCTTTAC
19932230 GTATGTGTGCATATAT
1 GTATGTGTGCATATAT
19932246 GTATGTGTGCATATAT
1 GTATGTGTGCATATAT
19932262 GTATGTGT
1 GTATGTGT
19932270 ACTTTTGATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.23, C:0.05, G:0.28, T:0.45
Consensus pattern (16 bp):
GTATGTGTGCATATAT
Found at i:19932921 original size:20 final size:20
Alignment explanation
Indices: 19932896--19932944 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
19932886 ATGAATATGT
* *
19932896 TTACTTAAAGTATTTGTATA
1 TTACTTAAAGTATCTATATA
19932916 TTACTTAAAGTATCTATATA
1 TTACTTAAAGTATCTATATA
*
19932936 TTGCTTAAA
1 TTACTTAAA
19932945 ATTTCGATAC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.37, C:0.08, G:0.08, T:0.47
Consensus pattern (20 bp):
TTACTTAAAGTATCTATATA
Found at i:19936309 original size:37 final size:37
Alignment explanation
Indices: 19936268--19936342 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
19936258 ATTTGTTCAG
19936268 AGGTTTTCATAATATAAGTTTAGGGATTTATTTGAAT
1 AGGTTTTCATAATATAAGTTTAGGGATTTATTTGAAT
19936305 AGGTTTTCATAATATAAGTTTAGGGATTTATTTGAAT
1 AGGTTTTCATAATATAAGTTTAGGGATTTATTTGAAT
19936342 A
1 A
19936343 AATTAAATTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.33, C:0.03, G:0.19, T:0.45
Consensus pattern (37 bp):
AGGTTTTCATAATATAAGTTTAGGGATTTATTTGAAT
Found at i:19937589 original size:81 final size:81
Alignment explanation
Indices: 19937475--19937663 Score: 297
Period size: 81 Copynumber: 2.3 Consensus size: 81
19937465 AATTGTGGTT
* *
19937475 TATCCGCTAGGCACTGGGTGCCAAGATTTGACGGATTATTTGTTGGTTAATCCAACCAGAGCTGG
1 TATCCGCTAGGCACTGGGTGCCAGGATTTGACGGATTATTTGTTAGTTAATCCAACCAGAGCTGG
*
19937540 GTTCACTTTTGCGGTA
66 GCTCACTTTTGCGGTA
* * *
19937556 TATCCGCTAGGCATTGGGTGCCAGGATTTGACGGATTATTTGTTAGTTAATCCAACTAGAGTTGG
1 TATCCGCTAGGCACTGGGTGCCAGGATTTGACGGATTATTTGTTAGTTAATCCAACCAGAGCTGG
*
19937621 GCTCACTTTTGCGGTT
66 GCTCACTTTTGCGGTA
* *
19937637 TATCCACTAGGCACTGGGTGCTAGGAT
1 TATCCGCTAGGCACTGGGTGCCAGGAT
19937664 CATCGGTTTA
Statistics
Matches: 98, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
81 98 1.00
ACGTcount: A:0.21, C:0.19, G:0.28, T:0.33
Consensus pattern (81 bp):
TATCCGCTAGGCACTGGGTGCCAGGATTTGACGGATTATTTGTTAGTTAATCCAACCAGAGCTGG
GCTCACTTTTGCGGTA
Found at i:19937854 original size:81 final size:82
Alignment explanation
Indices: 19937699--19937855 Score: 194
Period size: 81 Copynumber: 1.9 Consensus size: 82
19937689 GCTCAAAACC
* * * * *
19937699 GTTGGTTAATCCAACTAGAGTTGGGTTCATATATTGCGGTTTATTCGCTAGGCACTGGGTGTCAG
1 GTTGGTTAATCCAACTAGAGCTGGGCTCATATATTGCGATTTATCCGCTAGGCACTGGGTGCCAG
19937764 GAATTGACAGACTATTT
66 GAATTGACAGACTATTT
* * *
19937781 GTTGGTTAATCCAACTAGAGCTGGGCTCACT-T-TTGTGATTTATCCGTTAGGTA-TCGGGTGCC
1 GTTGGTTAATCCAACTAGAGCTGGGCTCA-TATATTGCGATTTATCCGCTAGGCACT-GGGTGCC
*
19937843 ATGAATTGACAGA
64 AGGAATTGACAGA
19937856 ACCATATTAC
Statistics
Matches: 64, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
80 1 0.02
81 34 0.53
82 28 0.44
83 1 0.02
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.34
Consensus pattern (82 bp):
GTTGGTTAATCCAACTAGAGCTGGGCTCATATATTGCGATTTATCCGCTAGGCACTGGGTGCCAG
GAATTGACAGACTATTT
Done.