Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007823.1 Hibiscus syriacus cultivar Beakdansim tig00110160_pilon, whole genome shotgun sequence
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: 6287495
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 25 of 33
Found at i:4568851 original size:3 final size:3
Alignment explanation
Indices: 4568843--4568887 Score: 65
Period size: 3 Copynumber: 15.0 Consensus size: 3
4568833 ATGATATTAG
*
4568843 TAA TAA TAA TAA TAA TAA TAA TAA TAA T-A TAG TATA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA
4568888 ATATAATATA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
2 2 0.05
3 34 0.89
4 2 0.05
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:4568899 original size:21 final size:20
Alignment explanation
Indices: 4568843--4568900 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 20
4568833 ATGATATTAG
4568843 TAATAATAATAATA-ATAATAA
1 TAATAAT-ATAATATAT-ATAA
*
4568864 TAATAATAT-A-GTATATAA
1 TAATAATATAATATATATAA
4568882 TAATAAATATAATATATAT
1 TAAT-AATATAATATATAT
4568901 TTTAATCCCA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
18 8 0.26
19 8 0.26
20 3 0.10
21 12 0.39
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (20 bp):
TAATAATATAATATATATAA
Found at i:4572279 original size:15 final size:16
Alignment explanation
Indices: 4572249--4572282 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
4572239 TCTATATGTA
*
4572249 TATATGATATGTGAGT
1 TATATGACATGTGAGT
4572265 TATATGACA-GTGAGT
1 TATATGACATGTGAGT
4572280 TAT
1 TAT
4572283 GTGAAAGAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.32, C:0.03, G:0.24, T:0.41
Consensus pattern (16 bp):
TATATGACATGTGAGT
Found at i:4572835 original size:19 final size:19
Alignment explanation
Indices: 4572811--4572851 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
4572801 CCTAGTGAGT
4572811 AAAAGGTATATGATTAAAG
1 AAAAGGTATATGATTAAAG
4572830 AAAAGGTATATGATTAAAG
1 AAAAGGTATATGATTAAAG
4572849 AAA
1 AAA
4572852 TCAATGATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.56, C:0.00, G:0.20, T:0.24
Consensus pattern (19 bp):
AAAAGGTATATGATTAAAG
Found at i:4576305 original size:20 final size:20
Alignment explanation
Indices: 4576280--4576319 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
4576270 GAAAGAAAGG
4576280 CCAAGTTGATTTCAGAGTTT
1 CCAAGTTGATTTCAGAGTTT
4576300 CCAAGTTGATTTCAGAGTTT
1 CCAAGTTGATTTCAGAGTTT
4576320 TCTTCTTCTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.40
Consensus pattern (20 bp):
CCAAGTTGATTTCAGAGTTT
Found at i:4577695 original size:20 final size:20
Alignment explanation
Indices: 4577670--4577713 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
4577660 GTCCTTCGGG
4577670 ACATATATATATTCTTTGGA
1 ACATATATATATTCTTTGGA
*
4577690 ACATATATGTATTCTTTGGA
1 ACATATATATATTCTTTGGA
4577710 ACAT
1 ACAT
4577714 GTGCGAGGTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.43
Consensus pattern (20 bp):
ACATATATATATTCTTTGGA
Found at i:4581255 original size:165 final size:164
Alignment explanation
Indices: 4580896--4582674 Score: 1612
Period size: 165 Copynumber: 10.7 Consensus size: 164
4580886 TAAAGAAACT
* *
4580896 ATTTACAGCATAA-TTCAAGTCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTAC
1 ATTTGCAGCATAACTT-AAGTCGAGAAGGGTTATCTG-C--CAAAAGACCTTCGAGTTCGACTAC
* * * * * * *
4580960 GCTCAACTCTAAGGCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAG
62 ACTCAGCTCCAAGGCACATCATTTACAGCATAACTCAAGTCGAGAAGGGTTATCTGCCACCAAAG
* * *
4581025 ACCTTCAAGTTCAACTACGCTCAGCTCCAAGGCACATT
127 ACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
* * *
4581063 GTTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTGCC-AAAGATCC-TCGAGTTCGATTACACT
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAAAAGA-CCTTCGAGTTCGACTACACT
* * * * * * *
4581126 CAACTTCGAGGGCACATCATTTATAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGA
65 CAGC-TCCAAGGCACATCATTTACAGCATAACTCAAGTCGAGAAGGGTTATCTGCCACC-AAAGA
* * *
4581191 CCTTTGAGTTCGACTACGCTCAGCTCTAAGGCATATC
128 CCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
* * * * * *
4581228 ATTTGTAGCATAACTTAAGTCGAGAAGGGTTATTTACCAACCAAAAACCTTCGAGTTCGAATACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCC-A--AAAGACCTTCGAGTTCGACTACA
* * * * * * * *
4581293 CTAAGCTCTAAGGCATATCATTTGCAGCATAAATTAAGTCGATAAGGGTTATCTGACAACCAAAG
63 CTCAGCTCCAAGGCACATCATTTACAGCATAACTCAAGTCGAGAAGGGTTATCTG-CCACCAAAG
* * *
4581358 ACCTTCGCGTTCGACTACGCTCACCTCAAAGGCACATC
127 ACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
* * * *
4581396 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAACAAAAGACCTTCGAGTTCAACAACA
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTG-C--CAAAAGACCTTCGAGTTCGACTACA
* * * * *
4581461 CTCAGCTCTAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACTAAAG
63 CTCAGCTCCAAGGCACATCATTTACAGCATAACTCAAGTCGAGAAGGGTTATCTGCC-ACCAAAG
* * *
4581526 ACCTTTGAGTTCGACTACGCTCAGCTTCGAAGGCAAATC
127 ACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATC
* * * * *
4581565 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCC-AAAGACCCTCAAGTTAGACTACACTC
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAAAAGACCTTCGAGTTCGACTACACTC
* * * *
4581629 AGCTCCAAGGCATATCATTTGCAACATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACC
66 AGCTCCAAGGCACATCATTTACAGCATAACTCAAGTCGAGAAGGGTTATCTGCC-ACCAAAGACC
* *
4581694 TTCGAGTTCGACTACTCTCAACTCCAAGGCACATC
130 TTCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
* * * * * *
4581729 ATTTGCAACATAGCTTAAGTCGAGAAGGGCTT-TCTGCC-AATGACCCTCTAGTTCGATTACACT
1 ATTTGCAGCATAACTTAAGTCGAGAAGGG-TTATCTGCCAAAAGACCTTCGAGTTCGACTACACT
* * * * * * **
4581792 CAACTTCGAGGGCACATCATTTACAACATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGA
65 CAGC-TCCAAGGCACATCATTTACAGCATAACTCAAGTCGAGAAGGGTTATCTGCCACC-AAAGA
*
4581857 CCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATC
128 CCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
* * * * *
4581894 ATTTACAACATAACTTAAGTCGAGAAGGGTTATCTTCCAACCAAAGACCTTTGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCC-A--AAAGACCTTCGAGTTCGACTACA
* ** * *
4581959 CTCAGCTCCAAGGCACATCATTTGCTTCATAGC-CTAAGTCGAGAAGGGCTATCTG---CCAAAG
63 CTCAGCTCCAAGGCACATCATTTACAGCATAACTC-AAGTCGAGAAGGGTTATCTGCCACCAAAG
* * * * * *
4582020 ACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATT
127 ACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATC
* * * * * *
4582059 ATTTACATCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATC--TG-CCAAAAGACCTTCGAGTTCGACTACA
* *** * * *
4582124 CTCAGCTTCAAGGCACATCATTTGTGGTATAGCTTAAGTCGAGAAGGGTTATCTG---CCAAAGA
63 CTCAGCTCCAAGGCACATCATTTACAGCATAACTCAAGTCGAGAAGGGTTATCTGCCACCAAAGA
* * * * ** * * * *
4582186 CCCTCGATTTTGATTATACTCAGCTTCGAGGGAACATT
128 CCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATC
* * * * * * *
4582224 ATTTACAGAATAACTCAAGGCTAGAAAGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATC--TG-CCAAAAGACCTTCGAGTTCGACTACA
* * * *
4582289 CTCAGCTCCAAGGCATATCATTTATAGCATAACTTAAGTCAAGAAGGGTTATCTGCCAACCAAAG
63 CTCAGCTCCAAGGCACATCATTTACAGCATAACTCAAGTCGAGAAGGGTTATCTGCC-ACCAAAG
* * *
4582354 ACCTTTGAGTTTGACTACGCTCAGCACCAAGGCACATC
127 ACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
* ** * *
4582392 ATTTGCAGCATAGCTTAAGTCGAGAAGGACTATCTGCC-AAAGACCCTT-GAGTTCAATTACACT
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAAAAGA-CCTTCGAGTTCGACTACACT
* * * * * * * *
4582455 CAACTCAAAGGCACATCATTTACAGCATAACTCAAGGCTATAAGGGTTATTTGTCAACAAAGACC
65 CAGCTCCAAGGCACATCATTTACAGCATAACTCAAGTCGAGAAGGGTTATCTGCCACCAAAGACC
* * * * * *
4582520 TTTGAGTTCGATTACACTAAGCT-CAATAGCTCATC
130 TTCGAGTTCGACTACGCTCAGCTCCAA-GGCACATC
* * * * *
4582555 ATTTGCAGCATGACTCAAGGCAAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGATTACA
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTG-C--CAAAAGACCTTCGAGTTCGACTACA
* * * * * * *
4582620 CTCAGCTCAAAGTCACATTATTTATAACATAACTCAA-TGCAAGAAGGGCTATCTG
63 CTCAGCTCCAAGGCACATCATTTACAGCATAACTCAAGT-CGAGAAGGGTTATCTG
4582675 TCAATAAAAT
Statistics
Matches: 1362, Mismatches: 209, Indels: 82
0.82 0.13 0.05
Matches are distributed among these distances:
162 3 0.00
163 86 0.06
164 214 0.16
165 552 0.41
166 9 0.01
167 94 0.07
168 283 0.21
169 119 0.09
170 1 0.00
171 1 0.00
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.25
Consensus pattern (164 bp):
ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAAAAGACCTTCGAGTTCGACTACACTC
AGCTCCAAGGCACATCATTTACAGCATAACTCAAGTCGAGAAGGGTTATCTGCCACCAAAGACCT
TCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
Found at i:4581699 original size:249 final size:248
Alignment explanation
Indices: 4580896--4582642 Score: 1639
Period size: 249 Copynumber: 7.0 Consensus size: 248
4580886 TAAAGAAACT
* * *
4580896 ATTTACAGCATAA-TTCAAGTCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTAC
1 ATTTGCAGCATAACTT-AAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTAC
* * * * * * *
4580960 GCTCAACTCTAAGGCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAG
65 ACTCAGCTCTAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAG
* * * ** * *
4581025 ACCTTCAAGTTCAACTACGCTCAGCTCCAAGGCACATTGTTTGCAGCATAGCTTAAGTCGAGAAG
130 ACCTTCGAGTTCGACTACGCTCAGCTCGAAGGCACATCATTTACAGCATAACTTAAGTCGAGAAG
* * * * *
4581090 GGTTATCTG-CCAAAGATCC-TCGAGTTCGATTACACTCAACTTCGAGGGCACATC
195 GGTTATCTGACCAAAGA-CCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATC
** * * * * *
4581144 ATTTATAGCATAACTCAAGGCTAGAAGGGTTATCTGTC-ACCAAAAGACCTTTGAGTTCGACTAC
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACC-AAAGACCTTCGAGTTCGACTAC
* * * * *
4581208 GCTCAGCTCTAAGGCATATCATTTGTAGCATAACTTAAGTCGAGAAGGGTTATTTACCAACCAAA
65 ACTCAGCTCTAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAA-CAAA
* * * * * * * *
4581273 AACCTTCGAGTTCGAATACGCTAAGCTCTAAGGCATATCATTTGCAGCATAAATTAAGTCGATAA
129 GACCTTCGAGTTCGACTACGCTCAGCTCGAAGGCACATCATTTACAGCATAACTTAAGTCGAGAA
* * *
4581338 GGGTTATCTGACAACCAAAGACCTTCGCGTTCGACTACGCTCACCTCAAAGGCACATC
194 GGGTTATCTG---ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
* * * * *
4581396 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAACAAAAGACCTTCGAGTTCAACAACA
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACA
*
4581461 CTCAGCTCTAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACTAAAG
66 CTCAGCTCTAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAAC-AAAG
* * * *
4581526 ACCTTTGAGTTCGACTACGCTCAGCTTCGAAGGCAAATCATTTGCAGCATAGCTTAAGTCGAGAA
130 ACCTTCGAGTTCGACTACGCTCAGC-TCGAAGGCACATCATTTACAGCATAACTTAAGTCGAGAA
* * * * * *
4581591 GGGCTATCTG-CCAAAGACCCTCAAGTTAGACTACACTCAGCTCCAAGGCATATC
194 GGGTTATCTGACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
* *
4581645 ATTTGCAACATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACT
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACA
* * * * *
4581710 CTCAACTCCAAGGCACATCATTTGCAACATAGCTTAAGTCGAGAAGGGCTT-TCTG-C--CAATG
66 CTCAGCTCTAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGG-TTATCTGCCAACAAAG
* * * * * * * * * *
4581771 ACCCTCTAGTTCGATTACACTCAACTTCGAGGGCACATCATTTACAACATAACTCAAGGCTAGAA
130 ACCTTCGAGTTCGACTACGCTCAGC-TCGAAGGCACATCATTTACAGCATAACTTAAGTCGAGAA
*
4581836 GGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATC
194 GGGTTATC--TGACC-AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
* * * * *
4581894 ATTTACAACATAACTTAAGTCGAGAAGGGTTATCTTCCAACCAAAGACCTTTGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACA
* ** * * *
4581959 CTCAGCTCCAAGGCACATCATTTGCTTCATAGCCTAAGTCGAGAAGGGCTATCTG-C--CAAAGA
66 CTCAGCTCTAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAGA
* * * * * * * * *
4582021 CCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATTATTTACATCATAACTCAAGGCTAGAAG
131 CCTTCGAGTTCGACTACGCTCAGC-TCGAAGGCACATCATTTACAGCATAACTTAAGTCGAGAAG
*
4582086 GGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTTCAAGGCACATC
195 GGTTATC--TGACC-AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
** * * * * * * *
4582143 ATTTGTGGTATAGCTTAAGTCGAGAAGGGTTATCTG----CCAAAGACCCTCGATTTTGATTATA
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACA
* * * * * * * * * * ** *
4582204 CTCAGCTTCGAGGGAACATTATTTACAGAATAACTCAAGGCTAGAAAGGTTATCTGTGACCAAAA
66 CTCAGC-TCTAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAAC-AAA
* * * *
4582269 GACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTATAGCATAACTTAAGTCAAGAA
129 GACCTTCGAGTTCGACTACGCTCAGCTCGAAGGCACATCATTTACAGCATAACTTAAGTCGAGAA
* * *
4582334 GGGTTATCTGCCAACCAAAGACCTTTGAGTTTGACTACGCTCAGCACCAAGGCACATC
194 GGGTTATCTG---ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
* ** * *
4582392 ATTTGCAGCATAGCTTAAGTCGAGAAGGACTATCTG----CCAAAGACCCTT-GAGTTCAATTAC
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGA-CCTTCGAGTTCGACTAC
* * * * * * * * *
4582452 ACTCAACTCAAAGGCACATCATTTACAGCATAACTCAAGGCTATAAGGGTTATTTGTCAACAAAG
65 ACTCAGCTCTAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAG
* * * * * * * * * * *
4582517 ACCTTTGAGTTCGATTACACTAAGCTC-AATAGCTCATCATTTGCAGCATGACTCAAGGCAAGAA
130 ACCTTCGAGTTCGACTACGCTCAGCTCGAA-GGCACATCATTTACAGCATAACTTAAGTCGAGAA
* * * * * *
4582581 GGGTTATCTGCCAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGTCACATT
194 GGGTTATCTG---ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
4582639 ATTT
1 ATTT
4582643 ATAACATAAC
Statistics
Matches: 1270, Mismatches: 202, Indels: 55
0.83 0.13 0.04
Matches are distributed among these distances:
245 85 0.07
246 37 0.03
247 112 0.09
248 153 0.12
249 636 0.50
250 34 0.03
251 1 0.00
252 143 0.11
253 69 0.05
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.26
Consensus pattern (248 bp):
ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACA
CTCAGCTCTAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAGA
CCTTCGAGTTCGACTACGCTCAGCTCGAAGGCACATCATTTACAGCATAACTTAAGTCGAGAAGG
GTTATCTGACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
Found at i:4582674 original size:84 final size:84
Alignment explanation
Indices: 4580896--4582642 Score: 1641
Period size: 84 Copynumber: 21.0 Consensus size: 84
4580886 TAAAGAAACT
* *
4580896 ATTTACAGCATAA-TTCAAGTCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTAC
1 ATTTGCAGCATAACTT-AAGTCGAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTAC
* * *
4580960 GCTCAACTCTAAGGCATATC
65 GCTCAGCTCCAAGGCACATC
* * * * * *
4580980 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAAC-AAAGACCTTCAAGTTCAACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACG
*
4581044 CTCAGCTCCAAGGCACATT
66 CTCAGCTCCAAGGCACATC
* * *
4581063 GTTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTG-C--C-AAAGATCC-TCGAGTTCGATTAC
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAAGA-CCTTCGAGTTCGACTAC
* * * *
4581123 ACTCAACTTCGAGGGCACATC
65 GCTCAGC-TCCAAGGCACATC
** * * * * * *
4581144 ATTTATAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGACCTTTGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACG
* *
4581209 CTCAGCTCTAAGGCATATC
66 CTCAGCTCCAAGGCACATC
* * * *
4581228 ATTTGTAGCATAACTTAAGTCGAGAAGGGTTATTTACCAACCAAAA-ACCTTCGAGTTCGAATAC
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAA-CAAAAGACCTTCGAGTTCGACTAC
* * *
4581292 GCTAAGCTCTAAGGCATATC
65 GCTCAGCTCCAAGGCACATC
* * * * *
4581312 ATTTGCAGCATAAATTAAGTCGATAAGGGTTATCTGACAACCAAAGACCTTCGCGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACG
* *
4581377 CTCACCTCAAAGGCACATC
66 CTCAGCTCCAAGGCACATC
* * * * *
4581396 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAACAAAAGACCTTCGAGTTCAACAACA
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACG
* *
4581461 CTCAGCTCTAAGGCATATC
66 CTCAGCTCCAAGGCACATC
* *
4581480 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACTAAAGACCTTTGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACG
* *
4581545 CTCAGCTTCGAAGGCAAATC
66 CTCAGC-TCCAAGGCACATC
* * * * * *
4581565 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG-C--C-AAAGACCCTCAAGTTAGACTACA
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACG
*
4581626 CTCAGCTCCAAGGCATATC
66 CTCAGCTCCAAGGCACATC
* * *
4581645 ATTTGCAACATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACT
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACG
*
4581710 CTCAACTCCAAGGCACATC
66 CTCAGCTCCAAGGCACATC
* * * * * *
4581729 ATTTGCAACATAGCTTAAGTCGAGAAGGGCTT-TCTG-C--C-AATGACCCTCTAGTTCGATTAC
1 ATTTGCAGCATAACTTAAGTCGAGAAGGG-TTATCTGCCAACAAAAGACCTTCGAGTTCGACTAC
* * * *
4581789 ACTCAACTTCGAGGGCACATC
65 GCTCAGC-TCCAAGGCACATC
* * * * * ** *
4581810 ATTTACAACATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACG
*
4581875 CTCAGCTCCAAGGCATATC
66 CTCAGCTCCAAGGCACATC
* * * * *
4581894 ATTTACAACATAACTTAAGTCGAGAAGGGTTATCTTCCAACCAAAGACCTTTGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACG
4581959 CTCAGCTCCAAGGCACATC
66 CTCAGCTCCAAGGCACATC
** * * * * * *
4581978 ATTTGCTTCATAGCCTAAGTCGAGAAGGGCTATCTG-C--C-AAAGACCCTCGAGTTCGATTACA
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACG
* * *
4582039 CTCAGCTTCGAGGGCACATT
66 CTCAGC-TCCAAGGCACATC
* * * * * ** *
4582059 ATTTACATCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACG
*
4582124 CTCAGCTTCAAGGCACATC
66 CTCAGCTCCAAGGCACATC
** * * * * * * **
4582143 ATTTGTGGTATAGCTTAAGTCGAGAAGGGTTATCTG-C--C-AAAGACCCTCGATTTTGATTATA
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACG
* * * *
4582204 CTCAGCTTCGAGGGAACATT
66 CTCAGC-TCCAAGGCACATC
* * * * * * ** *
4582224 ATTTACAGAATAACTCAAGGCTAGAAAGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACG
*
4582289 CTCAGCTCCAAGGCATATC
66 CTCAGCTCCAAGGCACATC
** * * * *
4582308 ATTTATAGCATAACTTAAGTCAAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTTGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACG
*
4582373 CTCAGCACCAAGGCACATC
66 CTCAGCTCCAAGGCACATC
* ** * *
4582392 ATTTGCAGCATAGCTTAAGTCGAGAAGGACTATCTG-C--C-AAAGACCCTT-GAGTTCAATTAC
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAAGA-CCTTCGAGTTCGACTAC
* * *
4582452 ACTCAACTCAAAGGCACATC
65 GCTCAGCTCCAAGGCACATC
* * * * * * * * * *
4582472 ATTTACAGCATAACTCAAGGCTATAAGGGTTATTTGTCAAC-AAAGACCTTTGAGTTCGATTACA
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACG
* * *
4582536 CTAAGCT-CAATAGCTCATC
66 CTCAGCTCCAA-GGCACATC
* * * * * *
4582555 ATTTGCAGCATGACTCAAGGCAAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGATTACA
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACG
* * *
4582620 CTCAGCTCAAAGTCACATT
66 CTCAGCTCCAAGGCACATC
4582639 ATTT
1 ATTT
4582643 ATAACATAAC
Statistics
Matches: 1363, Mismatches: 260, Indels: 80
0.80 0.15 0.05
Matches are distributed among these distances:
80 197 0.14
81 187 0.14
82 9 0.01
83 138 0.10
84 683 0.50
85 149 0.11
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.26
Consensus pattern (84 bp):
ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACG
CTCAGCTCCAAGGCACATC
Found at i:4584058 original size:25 final size:25
Alignment explanation
Indices: 4584028--4584110 Score: 148
Period size: 25 Copynumber: 3.3 Consensus size: 25
4584018 AGTTTATATC
4584028 TAAAATAATGTATATATTATCCCAT
1 TAAAATAATGTATATATTATCCCAT
*
4584053 TAAAATAATGCATATATTATCCCAT
1 TAAAATAATGTATATATTATCCCAT
*
4584078 TAAAATAATGTATATATTAGCCCAT
1 TAAAATAATGTATATATTATCCCAT
4584103 TAAAATAA
1 TAAAATAA
4584111 GGTACATCTC
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 55 1.00
ACGTcount: A:0.47, C:0.12, G:0.05, T:0.36
Consensus pattern (25 bp):
TAAAATAATGTATATATTATCCCAT
Found at i:4591585 original size:25 final size:26
Alignment explanation
Indices: 4591531--4591585 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 26
4591521 TTCGATTGGC
**
4591531 CCCTCTCCCCCTAAAGGATTGTCTTC
1 CCCTCTCCCCCTAAAGGATTGTCTAA
*
4591557 CCCTCTCCCCCTATAGGATTGT-TAA
1 CCCTCTCCCCCTAAAGGATTGTCTAA
4591582 CCCT
1 CCCT
4591586 GTCTTCTCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
25 5 0.19
26 21 0.81
ACGTcount: A:0.16, C:0.42, G:0.11, T:0.31
Consensus pattern (26 bp):
CCCTCTCCCCCTAAAGGATTGTCTAA
Found at i:4595407 original size:215 final size:215
Alignment explanation
Indices: 4595026--4595723 Score: 1188
Period size: 215 Copynumber: 3.2 Consensus size: 215
4595016 ATTTAAGAAT
*
4595026 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAGATTAAACAACACACATTGATGAG
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATTGATGAG
* *
4595091 GGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAATACTAAATTGTAC
66 GGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATAC
4595156 CCATTTAAAAAGTTATGGGCCAATT-AAAAATAGAAATAAGTAATAAGTATGTATCAATTTCAGA
131 CCATTTAAAAAGTTATGGGCCAATTAAAAAATAGAAATAAGTAATAAGTATG-ATCAATTTCAGA
4595220 TGCAAATAAAATTTGGAGGAC
195 TGCAAATAAAATTTGGAGGAC
*
4595241 TAAATTGAACAAATATGAAATTAAAAATAAAAATTTAAATAAATTAAACAACA-ACATTGATGAG
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATTGATGAG
4595305 GGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATAC
66 GGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATAC
4595370 CCATTTAAAAAGTTATGGGCCAATTAAAAAATAGAAATAAGTAATAAGTATGAGTCAATTTCAGA
131 CCATTTAAAAAGTTATGGGCCAATTAAAAAATAGAAATAAGTAATAAGTATGA-TCAATTTCAGA
*
4595435 TGCAAATAAAATTTGGAGCAC
195 TGCAAATAAAATTTGGAGGAC
*
4595456 TAAATTGAACAAATATGAAATTACAAATAAAAGTTTAAATAAATTAAACAACACACATTGATGAG
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATTGATGAG
* *
4595521 GGATCAAATCGAAATAATTTTAAATTTTGAGGTTGAAATTAATATAAAAAAAGTACTAAATTATA
66 GGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATA-CAAAAAAGTACTAAATTATA
* * * * *
4595586 CTCATTT-AAAAGTTATGGGCCAA-TAAAAAAAATAAATAAGTAATAAGTATGGGTCAATTTCAT
130 CCCATTTAAAAAGTTATGGGCCAATTAAAAAATAGAAATAAGTAATAAGTAT-GATCAATTTCAG
*
4595649 ATGCAAATAAAATTTGGAGGAT
194 ATGCAAATAAAATTTGGAGGAC
* *
4595671 TGAATTGAACAAATATGAAATTATAAATAAAAATTTAAATAAATTAAACAACA
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACA
4595724 AAAATGGATC
Statistics
Matches: 459, Mismatches: 19, Indels: 10
0.94 0.04 0.02
Matches are distributed among these distances:
214 100 0.22
215 263 0.57
216 71 0.15
217 25 0.05
ACGTcount: A:0.51, C:0.08, G:0.13, T:0.29
Consensus pattern (215 bp):
TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATTGATGAG
GGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATAC
CCATTTAAAAAGTTATGGGCCAATTAAAAAATAGAAATAAGTAATAAGTATGATCAATTTCAGAT
GCAAATAAAATTTGGAGGAC
Found at i:4595845 original size:20 final size:20
Alignment explanation
Indices: 4595822--4596127 Score: 111
Period size: 20 Copynumber: 15.2 Consensus size: 20
4595812 TATATATACA
4595822 ATATAAACTATATAGTTTAT
1 ATATAAACTATATAGTTTAT
* * *
4595842 ATATAAAGTACATGTATTATATAT
1 ATATAAACT--ATATAGT-T-TAT
4595866 ATATAAACTATATAGTTTAT
1 ATATAAACTATATAGTTTAT
* * *
4595886 ATATATA-T-TAT-GTATAA
1 ATATAAACTATATAGTTTAT
* * * *
4595903 ACTATATA-TACCAT-GTATAA
1 A-TATAAACTA-TATAGTTTAT
4595923 ACTATAATACTATATAGTTTAT
1 A-TATAA-ACTATATAGTTTAT
* **
4595945 ATATGAACTAT-T-GAACTAT
1 ATATAAACTATATAG-TTTAT
* * *
4595964 ACAGAAACTACATAGTTTAT
1 ATATAAACTATATAGTTTAT
* *
4595984 ATATAAATTATATATGAATTAT
1 ATATAAACTATATA-G-TTTAT
* *
4596006 ATATAAACTATACAATTTAT
1 ATATAAACTATATAGTTTAT
* * *
4596026 ATTTATA-TAT-TA-TGTAT
1 ATATAAACTATATAGTTTAT
*
4596043 AATTATAAA-TA-ATA-TATATT
1 -A-TATAAACTATATAGTTTA-T
* *
4596063 GTATAAATTATATAGTTTATT
1 ATATAAACTATATAGTTTA-T
4596084 AATATAAACTATATAGTTTAT
1 -ATATAAACTATATAGTTTAT
* *
4596105 ATATATA-TATATA-TATAT
1 ATATAAACTATATAGTTTAT
4596123 ATATA
1 ATATA
4596128 TTATATGATT
Statistics
Matches: 218, Mismatches: 45, Indels: 48
0.70 0.14 0.15
Matches are distributed among these distances:
17 9 0.04
18 28 0.13
19 34 0.16
20 69 0.32
21 16 0.07
22 50 0.23
23 1 0.00
24 11 0.05
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.44
Consensus pattern (20 bp):
ATATAAACTATATAGTTTAT
Found at i:4595871 original size:24 final size:24
Alignment explanation
Indices: 4595839--4595893 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
4595829 CTATATAGTT
*
4595839 TATATATAAAGTACAT-GTATTATA
1 TATATATAAACTACATAGT-TTATA
*
4595863 TATATATAAACTATATAGTTTATA
1 TATATATAAACTACATAGTTTATA
4595887 TATATAT
1 TATATAT
4595894 TATGTATAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 26 0.93
25 2 0.07
ACGTcount: A:0.45, C:0.04, G:0.05, T:0.45
Consensus pattern (24 bp):
TATATATAAACTACATAGTTTATA
Found at i:4595901 original size:24 final size:22
Alignment explanation
Indices: 4595830--4595893 Score: 62
Period size: 24 Copynumber: 2.9 Consensus size: 22
4595820 CAATATAAAC
4595830 TATATAGTTTATATATA-A-AG
1 TATATAGTTTATATATATATAG
* *
4595850 TACAT-GTATTATATATATATAAAC
1 TATATAGT-TTATATATATAT--AG
4595874 TATATAGTTTATATATATAT
1 TATATAGTTTATATATATAT
4595894 TATGTATAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
19 2 0.06
20 13 0.37
21 1 0.03
24 17 0.49
25 2 0.06
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (22 bp):
TATATAGTTTATATATATATAG
Found at i:4595988 original size:2 final size:2
Alignment explanation
Indices: 4595981--4596133 Score: 62
Period size: 2 Copynumber: 80.5 Consensus size: 2
4595971 CTACATAGTT
* * *
4595981 TA TA TA TA AA T- TA TA TA TGA -A T- TA TA TA TA AA CTA TA CA -A
1 TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA -TA TA TA TA
* * * *
4596021 TT TA TA TT TA TA TA T- TA TG TA TA -A T- TA TA AA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
4596059 TA T- TG TA TA AA T- TA TA TA GTT TA T- TA -A TA TA AA CTA TA TA
1 TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA -TA TA TA
*
4596099 GTT TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA T
1 -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4596134 GATTTAGGGT
Statistics
Matches: 111, Mismatches: 22, Indels: 36
0.66 0.13 0.21
Matches are distributed among these distances:
1 13 0.12
2 93 0.84
3 5 0.05
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.48
Consensus pattern (2 bp):
TA
Found at i:4596043 original size:17 final size:17
Alignment explanation
Indices: 4596023--4596076 Score: 63
Period size: 17 Copynumber: 3.1 Consensus size: 17
4596013 CTATACAATT
* *
4596023 TATATTTATATATTATG
1 TATATTTATAAATTATA
* *
4596040 TATAATTATAAATAATA
1 TATATTTATAAATTATA
4596057 TATATTGTATAAATTATA
1 TATATT-TATAAATTATA
4596075 TA
1 TA
4596077 GTTTATTAAT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
17 18 0.60
18 12 0.40
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (17 bp):
TATATTTATAAATTATA
Found at i:4596096 original size:22 final size:23
Alignment explanation
Indices: 4596055--4596133 Score: 76
Period size: 22 Copynumber: 3.5 Consensus size: 23
4596045 TTATAAATAA
*
4596055 TATATATTGTATAAATTATATAGTT
1 TATATA-TATATAAA-TATATAGTT
4596080 TAT-TA-ATATAAACTATATAGTT
1 TATATATATATAAA-TATATAGTT
* *
4596102 TATATATATATATATATATA-TA
1 TATATATATATAAATATATAGTT
4596124 TATAT-TATAT
1 TATATATATAT
4596134 GATTTAGGGT
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
21 5 0.10
22 24 0.50
23 8 0.17
24 8 0.17
25 3 0.06
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (23 bp):
TATATATATATAAATATATAGTT
Found at i:4596291 original size:22 final size:22
Alignment explanation
Indices: 4596261--4596318 Score: 80
Period size: 22 Copynumber: 2.6 Consensus size: 22
4596251 TATAGTTTAC
* **
4596261 ATATGAACTATATGTATAAACT
1 ATATAAACTATATAAATAAACT
4596283 ATATAAACTATATAAATAAACT
1 ATATAAACTATATAAATAAACT
*
4596305 ATGTAAACTATATA
1 ATATAAACTATATA
4596319 GTTTACTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.52, C:0.09, G:0.05, T:0.34
Consensus pattern (22 bp):
ATATAAACTATATAAATAAACT
Found at i:4601301 original size:24 final size:24
Alignment explanation
Indices: 4601255--4601304 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
4601245 TCTCTACAAC
*
4601255 TATATAGTTTACATATGACCTATA
1 TATATAGTTTACATATGAACTATA
*
4601279 TATATAGTTTA-TTAGTGAACTATA
1 TATATAGTTTACATA-TGAACTATA
4601303 TA
1 TA
4601305 CTACATACTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 2 0.09
24 21 0.91
ACGTcount: A:0.38, C:0.08, G:0.10, T:0.44
Consensus pattern (24 bp):
TATATAGTTTACATATGAACTATA
Found at i:4601329 original size:27 final size:27
Alignment explanation
Indices: 4601299--4601358 Score: 111
Period size: 27 Copynumber: 2.2 Consensus size: 27
4601289 ATTAGTGAAC
*
4601299 TATATACTACATACTATAGTTTATATT
1 TATATACTACATACTATAGTTTACATT
4601326 TATATACTACATACTATAGTTTACATT
1 TATATACTACATACTATAGTTTACATT
4601353 TATATA
1 TATATA
4601359 ATGTATTTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.38, C:0.12, G:0.03, T:0.47
Consensus pattern (27 bp):
TATATACTACATACTATAGTTTACATT
Found at i:4601334 original size:20 final size:20
Alignment explanation
Indices: 4601309--4601441 Score: 55
Period size: 20 Copynumber: 6.4 Consensus size: 20
4601299 TATATACTAC
4601309 ATACTATAGTTTATATTTATAT
1 ATACTATAGTTTATA-TT-TAT
*
4601331 ACTACATACTATAGTTTACATTTAT
1 A-TAC-T---ATAGTTTATATTTAT
* * *
4601356 ATAATGTATTTTATACTATTTAT
1 ATACTATAGTTTAT---ATTTAT
*
4601379 ATAAACTATAATTTATATTTAT
1 AT--ACTATAGTTTATATTTAT
*
4601401 ATACTATA---TATA--T-G
1 ATACTATAGTTTATATTTAT
4601415 A-ACTATAGTTTATATTTAT
1 ATACTATAGTTTATATTTAT
4601434 ATACTATA
1 ATACTATA
4601442 TATATGAACT
Statistics
Matches: 84, Mismatches: 10, Indels: 36
0.65 0.08 0.28
Matches are distributed among these distances:
13 6 0.07
14 1 0.01
15 1 0.01
16 4 0.05
17 4 0.05
18 1 0.01
19 1 0.01
20 18 0.21
22 9 0.11
23 12 0.14
24 3 0.04
25 13 0.15
26 2 0.02
27 9 0.11
ACGTcount: A:0.39, C:0.08, G:0.04, T:0.50
Consensus pattern (20 bp):
ATACTATAGTTTATATTTAT
Found at i:4601406 original size:33 final size:33
Alignment explanation
Indices: 4601362--4601531 Score: 169
Period size: 33 Copynumber: 5.3 Consensus size: 33
4601352 TTATATAATG
* *
4601362 TATTT-TATACTATTTATATAAACTATAATTTA
1 TATTTATATACTATATATATAAACTATAGTTTA
*
4601394 TATTTATATACTATATATATGAACTATAGTTTA
1 TATTTATATACTATATATATAAACTATAGTTTA
*
4601427 TATTTATATACTATATATATGAACTATAGTTTA
1 TATTTATATACTATATATATAAACTATAGTTTA
*
4601460 CA--TATGA-ACTATATATATAAACTATATTGTTTA
1 TATTTAT-ATACTATATATATAAACTATA--GTTTA
* * *
4601493 CA--TATGA-AGTATATATAT--ACTATAGTTGA
1 TATTTAT-ATACTATATATATAAACTATAGTTTA
4601522 TATTTATATA
1 TATTTATATA
4601532 TGAACTATAG
Statistics
Matches: 123, Mismatches: 8, Indels: 15
0.84 0.05 0.10
Matches are distributed among these distances:
29 5 0.04
30 1 0.01
31 31 0.25
32 6 0.05
33 80 0.65
ACGTcount: A:0.41, C:0.06, G:0.06, T:0.47
Consensus pattern (33 bp):
TATTTATATACTATATATATAAACTATAGTTTA
Found at i:4601428 original size:18 final size:18
Alignment explanation
Indices: 4601407--4601604 Score: 123
Period size: 18 Copynumber: 11.3 Consensus size: 18
4601397 TTATATACTA
4601407 TATATATGAACTATAGTT
1 TATATATGAACTATAGTT
* * *
4601425 TATAT-T-TA-TATACTA
1 TATATATGAACTATAGTT
4601440 TATATATGAACTATAGTT
1 TATATATGAACTATAGTT
*
4601458 TACATATGAACTATA---
1 TATATATGAACTATAGTT
4601473 TATATA--AACTATATTGTT
1 TATATATGAACTATA--GTT
* * *
4601491 TACATATGAAGTATA-TA
1 TATATATGAACTATAGTT
**
4601508 TATACTAT-AGTTGATA-TT
1 TATA-TATGAACT-ATAGTT
4601526 TATATATGAACTATAGTT
1 TATATATGAACTATAGTT
* *
4601544 TACATATAAACTATATAGTT
1 TATATATGAAC--TATAGTT
4601564 TATATACT-AACTATAGTT
1 TATATA-TGAACTATAGTT
* *
4601582 TACATATAAACTATAGTT
1 TATATATGAACTATAGTT
*
4601600 GATAT
1 TATAT
4601605 TTACATATGA
Statistics
Matches: 139, Mismatches: 23, Indels: 36
0.70 0.12 0.18
Matches are distributed among these distances:
13 7 0.05
15 15 0.11
16 2 0.01
17 15 0.11
18 78 0.56
20 21 0.15
21 1 0.01
ACGTcount: A:0.41, C:0.08, G:0.08, T:0.43
Consensus pattern (18 bp):
TATATATGAACTATAGTT
Found at i:4601471 original size:31 final size:30
Alignment explanation
Indices: 4601370--4601560 Score: 155
Period size: 33 Copynumber: 6.3 Consensus size: 30
4601360 TGTATTTTAT
* * * *
4601370 ACTATTTATATAAACTATAATTTATATTTATA
1 ACTATATATATGAACTATAGTTTACA--TATA
*
4601402 TACTATATATATGAACTATAGTTTATATTTATA
1 -ACTATATATATGAACTATAGTTTACA--TATA
4601435 TACTATATATATGAACTATAGTTTACATATGA
1 -ACTATATATATGAACTATAGTTTACATAT-A
*
4601467 ACTATATATATAAACTATATTGTTTACATATGA
1 ACTATATATATGAACTATA--GTTTACATAT-A
* *
4601500 AGTATATATAT--ACTATAG-TT-GATAT-
1 ACTATATATATGAACTATAGTTTACATATA
4601525 --T-TATATATGAACTATAGTTTACATATAA
1 ACTATATATATGAACTATAGTTTACATAT-A
4601553 ACTATATA
1 ACTATATA
4601561 GTTTATATAC
Statistics
Matches: 138, Mismatches: 8, Indels: 26
0.80 0.05 0.15
Matches are distributed among these distances:
22 7 0.05
23 1 0.01
24 7 0.05
25 2 0.01
26 4 0.03
27 4 0.03
28 2 0.01
29 1 0.01
30 1 0.01
31 31 0.22
32 1 0.01
33 77 0.56
ACGTcount: A:0.42, C:0.07, G:0.06, T:0.45
Consensus pattern (30 bp):
ACTATATATATGAACTATAGTTTACATATA
Found at i:4601576 original size:38 final size:38
Alignment explanation
Indices: 4601524--4601640 Score: 137
Period size: 38 Copynumber: 3.0 Consensus size: 38
4601514 ATAGTTGATA
4601524 TTTATATATGAACTATAGTTTACATATAAACTATATAG
1 TTTATATATGAACTATAGTTTACATATAAACTATATAG
*
4601562 TTTATATACT-AACTATAGTTTACATATAAACTATAGTTGATA
1 TTTATATA-TGAACTATAGTTTACATATAAACTATA--T-A-G
* * * *
4601604 TTTACATATGAATTATAGTTTACATATGACCTATATA
1 TTTATATATGAACTATAGTTTACATATAAACTATATA
4601641 TATAGTTTAT
Statistics
Matches: 68, Mismatches: 5, Indels: 11
0.81 0.06 0.13
Matches are distributed among these distances:
38 33 0.49
39 2 0.03
40 2 0.03
41 2 0.03
42 29 0.43
ACGTcount: A:0.40, C:0.09, G:0.08, T:0.43
Consensus pattern (38 bp):
TTTATATATGAACTATAGTTTACATATAAACTATATAG
Found at i:4601638 original size:18 final size:18
Alignment explanation
Indices: 4601443--4601638 Score: 106
Period size: 18 Copynumber: 10.7 Consensus size: 18
4601433 TATACTATAT
4601443 ATATGAACTATAGTTTAC
1 ATATGAACTATAGTTTAC
4601461 ATATGAACTATA---T--
1 ATATGAACTATAGTTTAC
*
4601474 ATATAAACTATATTGTTTAC
1 ATATGAACTATA--GTTTAC
*
4601494 ATATGAAGTATA-TATATAC
1 ATATGAACTATAGT-T-TAC
** *
4601513 -TAT-AGTTGATA-TTTAT
1 ATATGAACT-ATAGTTTAC
4601529 ATATGAACTATAGTTTAC
1 ATATGAACTATAGTTTAC
* *
4601547 ATATAAACTATATAGTTTAT
1 ATATGAAC--TATAGTTTAC
4601567 ATACT-AACTATAGTTTAC
1 ATA-TGAACTATAGTTTAC
*
4601585 ATATAAACTATAGTTGATATTTAC
1 ATATGAACTATA---G---TTTAC
*
4601609 ATATGAATTATAGTTTAC
1 ATATGAACTATAGTTTAC
*
4601627 ATATGACCTATA
1 ATATGAACTATA
4601639 TATATAGTTT
Statistics
Matches: 139, Mismatches: 16, Indels: 46
0.69 0.08 0.23
Matches are distributed among these distances:
13 11 0.08
15 1 0.01
16 2 0.01
17 11 0.08
18 68 0.49
19 3 0.02
20 25 0.18
21 3 0.02
24 15 0.11
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.42
Consensus pattern (18 bp):
ATATGAACTATAGTTTAC
Found at i:4601661 original size:24 final size:24
Alignment explanation
Indices: 4601617--4601664 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
4601607 ACATATGAAT
*
4601617 TATAGTTTACATATGACCTATATA
1 TATAGTTTACATATGAACTATATA
*
4601641 TATAGTTTA-TTAGTGAACTATATA
1 TATAGTTTACATA-TGAACTATATA
4601665 AACTATTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 2 0.10
24 19 0.90
ACGTcount: A:0.38, C:0.08, G:0.10, T:0.44
Consensus pattern (24 bp):
TATAGTTTACATATGAACTATATA
Found at i:4601700 original size:40 final size:40
Alignment explanation
Indices: 4601656--4601797 Score: 133
Period size: 40 Copynumber: 3.4 Consensus size: 40
4601646 TTTATTAGTG
4601656 AACTATATAAACTATTTATATAATATATATTATATATAAA
1 AACTATATAAACTATTTATATAATATATATTATATATAAA
** * *
4601696 AACTATAGTTTA-TATTTATATACTACATATTATATATAAA
1 AACTATA-TAAACTATTTATATAATATATATTATATATAAA
* * *
4601736 AACTATATATACTATATAGTATAATTTACATATGAACTATATATAAA
1 AACTATATAAACTATTTA-TATAA--T--ATAT--ATTATATATAAA
*
4601783 AACCATATAAACTAT
1 AACTATATAAACTAT
4601798 ATACTATAGT
Statistics
Matches: 82, Mismatches: 11, Indels: 11
0.79 0.11 0.11
Matches are distributed among these distances:
39 3 0.04
40 45 0.55
41 6 0.07
43 1 0.01
45 3 0.04
47 24 0.29
ACGTcount: A:0.49, C:0.08, G:0.02, T:0.40
Consensus pattern (40 bp):
AACTATATAAACTATTTATATAATATATATTATATATAAA
Found at i:4601702 original size:20 final size:20
Alignment explanation
Indices: 4601679--4601745 Score: 82
Period size: 20 Copynumber: 3.4 Consensus size: 20
4601669 ATTTATATAA
4601679 TATATATTATATATAAAAAC
1 TATATATTATATATAAAAAC
* * *
4601699 TATAGT-TTATATTTATATAC
1 TATA-TATTATATATAAAAAC
*
4601719 TACATATTATATATAAAAAC
1 TATATATTATATATAAAAAC
4601739 TATATAT
1 TATATAT
4601746 ACTATATAGT
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
19 1 0.03
20 35 0.95
21 1 0.03
ACGTcount: A:0.48, C:0.06, G:0.01, T:0.45
Consensus pattern (20 bp):
TATATATTATATATAAAAAC
Found at i:4601751 original size:20 final size:19
Alignment explanation
Indices: 4601679--4601753 Score: 69
Period size: 20 Copynumber: 3.7 Consensus size: 19
4601669 ATTTATATAA
4601679 TATATATTATATATAAAAAC
1 TATATA-TATATATAAAAAC
* * * *
4601699 TATAGTTTATATTTATATAC
1 TATA-TATATATATAAAAAC
*
4601719 TACATATTATATATAAAAAC
1 TATATA-TATATATAAAAAC
4601739 TATATATACTATATA
1 TATATATA-TATATA
4601754 GTATAATTTA
Statistics
Matches: 42, Mismatches: 10, Indels: 6
0.72 0.17 0.10
Matches are distributed among these distances:
19 3 0.07
20 38 0.90
21 1 0.02
ACGTcount: A:0.48, C:0.07, G:0.01, T:0.44
Consensus pattern (19 bp):
TATATATATATATAAAAAC
Found at i:4601818 original size:20 final size:21
Alignment explanation
Indices: 4601795--4601847 Score: 58
Period size: 20 Copynumber: 2.7 Consensus size: 21
4601785 CCATATAAAC
* *
4601795 TATATACTATAGT-TAATATT
1 TATATACTATAGTAAAATAAT
*
4601815 TATATATTATA-TAAAATAAT
1 TATATACTATAGTAAAATAAT
4601835 T-TATACTATAGTA
1 TATATACTATAGTA
4601848 TATATAAACT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
19 9 0.33
20 18 0.67
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (21 bp):
TATATACTATAGTAAAATAAT
Found at i:4601938 original size:26 final size:25
Alignment explanation
Indices: 4601864--4601947 Score: 64
Period size: 26 Copynumber: 3.2 Consensus size: 25
4601854 AACTATATAT
*
4601864 TATATAGTTCATTAGTATATATAAGC
1 TATATAGTTTATTAGTATATATAA-C
* * * *
4601890 TATATGGTATA-TA-TAAAACTATACAT
1 TATATAGTTTATTAGT-ATA-TATA-AC
4601916 TATATAGTTTATTAGTATATATAAAC
1 TATATAGTTTATTAGTATATAT-AAC
4601942 TATATA
1 TATATA
4601948 ATATATATAA
Statistics
Matches: 43, Mismatches: 9, Indels: 12
0.67 0.14 0.19
Matches are distributed among these distances:
24 1 0.02
25 4 0.09
26 31 0.72
27 6 0.14
28 1 0.02
ACGTcount: A:0.43, C:0.06, G:0.08, T:0.43
Consensus pattern (25 bp):
TATATAGTTTATTAGTATATATAAC
Found at i:4602072 original size:58 final size:58
Alignment explanation
Indices: 4602001--4602167 Score: 264
Period size: 58 Copynumber: 2.9 Consensus size: 58
4601991 TATTTCATTA
*
4602001 GTATATATAAACTATATATTATATAGTTCATTAGTATATATAACCTATATAGTATATG
1 GTATATACAAACTATATATTATATAGTTCATTAGTATATATAACCTATATAGTATATG
* *
4602059 GTATATACAAACTATATATTATATAATGCATTCA-TATATATAACCTATATAGTATATG
1 GTATATACAAACTATATATTATATAGTTCATT-AGTATATATAACCTATATAGTATATG
* * *
4602117 CTATATACAAATTATATATTATATAGTTCATTAGTATATATAAACTATATA
1 GTATATACAAACTATATATTATATAGTTCATTAGTATATATAACCTATATA
4602168 TTGAAAAGTT
Statistics
Matches: 99, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
57 1 0.01
58 97 0.98
59 1 0.01
ACGTcount: A:0.43, C:0.08, G:0.07, T:0.42
Consensus pattern (58 bp):
GTATATACAAACTATATATTATATAGTTCATTAGTATATATAACCTATATAGTATATG
Found at i:4602073 original size:25 final size:25
Alignment explanation
Indices: 4602034--4602082 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
4602024 TAGTTCATTA
* *
4602034 GTATATATAACCTATATAGTATATG
1 GTATATACAAACTATATAGTATATG
*
4602059 GTATATACAAACTATATATTATAT
1 GTATATACAAACTATATAGTATAT
4602083 AATGCATTCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.43, C:0.08, G:0.08, T:0.41
Consensus pattern (25 bp):
GTATATACAAACTATATAGTATATG
Found at i:4602166 original size:33 final size:32
Alignment explanation
Indices: 4602118--4602205 Score: 113
Period size: 33 Copynumber: 2.7 Consensus size: 32
4602108 TAGTATATGC
* * *
4602118 TATATACAAATTATATATTATATAGTTCATTAG
1 TATATATAAACTATATATTA-AAAGTTCATTAG
4602151 TATATATAAACTATATATTGAAAAGTTCATTAG
1 TATATATAAACTATATATT-AAAAGTTCATTAG
*
4602184 TATATTATAACCTATATATTAA
1 TATA-TATAAACTATATATTAA
4602206 TTTATTAATA
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
33 34 0.69
34 15 0.31
ACGTcount: A:0.44, C:0.07, G:0.06, T:0.43
Consensus pattern (32 bp):
TATATATAAACTATATATTAAAAGTTCATTAG
Found at i:4602342 original size:61 final size:61
Alignment explanation
Indices: 4602261--4602390 Score: 172
Period size: 61 Copynumber: 2.1 Consensus size: 61
4602251 TATAAGGATC
* * * * *
4602261 AAATTGAACAAATTTTAAATATGAAGCTTAAATTAATAAATTGTAAT-ATTAAATTTAGAGT
1 AAATTGAAAAAAGTTGAAATATAAAGCTTAAATTAATAAATTG-AATCATTAAATTTAGACT
* * *
4602322 AAATTGAAAAAAGTTGAAATATAAAGCTTAAATTAATATATTGCATCATTAAATTTGGACT
1 AAATTGAAAAAAGTTGAAATATAAAGCTTAAATTAATAAATTGAATCATTAAATTTAGACT
4602383 AAATTGAA
1 AAATTGAA
4602391 CAAATTTAAA
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
60 2 0.03
61 58 0.97
ACGTcount: A:0.49, C:0.05, G:0.11, T:0.35
Consensus pattern (61 bp):
AAATTGAAAAAAGTTGAAATATAAAGCTTAAATTAATAAATTGAATCATTAAATTTAGACT
Found at i:4602804 original size:113 final size:113
Alignment explanation
Indices: 4602606--4602950 Score: 414
Period size: 113 Copynumber: 3.0 Consensus size: 113
4602596 AAATCAATCA
* * *
4602606 TGTTCTTCATTTGTTCATCCCAGTTCTT-CCCAAAACCCTCCTTTTATCTTCAAAAACACCAAAA
1 TGTTCTTCATTTGTTCATCCCAGTTCTTCCCCAAAACCCTCATTTGATCTTCAAAAACACCTAAA
* * * * *
4602670 CCAAAACATTTTCGTATTTTTTTCAAACAAACACCCAAATATTCATCTG
66 CCAAACCA-TTTCATTTTTTTTTCGATCAAACACCCAAATATTCATCTG
*
4602719 TGTTCTTCATTTGTTTAT-CCAGTTCTTCCCCAAAACCCTCATTTGATCTTCAAAAACACCTAAA
1 TGTTCTTCATTTGTTCATCCCAGTTCTTCCCCAAAACCCTCATTTGATCTTCAAAAACACCTAAA
*
4602783 CACAAACCATTTCATTTTTTTTT-GATCAAACACCCAAATTTTCATCGGTGTTCATATG
66 C-CAAACCATTTCATTTTTTTTTCGATCAAACACCCAAA---T-A------TTCATCTG
4602841 TGTTCTTCATTTGTTCATCCCAGTTCTTCCCCAAAACCCTCATTTGATCTTCAAAAACA-CTGAA
1 TGTTCTTCATTTGTTCATCCCAGTTCTTCCCCAAAACCCTCATTTGATCTTCAAAAACACCT-AA
* *
4602905 CCCAAACCATTTCA-TATTTTTTCGATCAAACACCCACAAT-TTCATC
65 ACCAAACCATTTCATTTTTTTTTCGATCAAACACCCA-AATATTCATC
4602951 CATTATTCAT
Statistics
Matches: 202, Mismatches: 14, Indels: 33
0.81 0.06 0.13
Matches are distributed among these distances:
112 27 0.13
113 63 0.31
114 6 0.03
115 1 0.00
116 1 0.00
120 1 0.00
121 7 0.03
122 51 0.25
123 45 0.22
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (113 bp):
TGTTCTTCATTTGTTCATCCCAGTTCTTCCCCAAAACCCTCATTTGATCTTCAAAAACACCTAAA
CCAAACCATTTCATTTTTTTTTCGATCAAACACCCAAATATTCATCTG
Found at i:4602960 original size:123 final size:122
Alignment explanation
Indices: 4602709--4602971 Score: 395
Period size: 122 Copynumber: 2.1 Consensus size: 122
4602699 AACACCCAAA
*
4602709 TATTCATCTGTGTTCTTCATTTGTTTATCCAGTTCTTCCCCAAAACCCTCATTTGATCTTCAAAA
1 TATTCATCTGTGTTCTTCATTTGTTCATCCAGTTCTTCCCCAAAACCCTCATTTGATCTTCAAAA
* * *
4602774 ACACCTAAACACAAACCATTTCATTTTTTTTTGATCAAACACCCAAATTTTCATCGG
66 ACACCTAAACACAAACCATTTCATATTTTTTCGATCAAACACCCAAATTTTCATCAG
* *
4602831 TGTTCATATGTGTTCTTCATTTGTTCATCCCAGTTCTTCCCCAAAACCCTCATTTGATCTTCAAA
1 TATTCATCTGTGTTCTTCATTTGTTCAT-CCAGTTCTTCCCCAAAACCCTCATTTGATCTTCAAA
* * *
4602896 AACA-CTGAACCCAAACCATTTCATATTTTTTCGATCAAACACCCACAA-TTTCATCCAT
65 AACACCTAAACACAAACCATTTCATATTTTTTCGATCAAACACCCA-AATTTTCAT-CAG
*
4602954 TATTCATCCGTGTTCTTC
1 TATTCATCTGTGTTCTTC
4602972 TCCAAATCCT
Statistics
Matches: 126, Mismatches: 12, Indels: 5
0.88 0.08 0.03
Matches are distributed among these distances:
122 68 0.54
123 58 0.46
ACGTcount: A:0.27, C:0.28, G:0.07, T:0.38
Consensus pattern (122 bp):
TATTCATCTGTGTTCTTCATTTGTTCATCCAGTTCTTCCCCAAAACCCTCATTTGATCTTCAAAA
ACACCTAAACACAAACCATTTCATATTTTTTCGATCAAACACCCAAATTTTCATCAG
Found at i:4603158 original size:6 final size:6
Alignment explanation
Indices: 4603149--4603310 Score: 66
Period size: 6 Copynumber: 27.5 Consensus size: 6
4603139 ATCAAACCCT
* * * *
4603149 AACCTA AACCCA AA-CTA AACCCA AACCGA AA-CTAA AACCCA AA-CTCA
1 AACCTA AACCTA AACCTA AACCTA AACCTA AACCT-A AACCTA AACCT-A
* * * * * * * * * *
4603196 AA-TTG AACCTA AACCCA AATCTA ATCCTG ATCC-G AACCCA AACCCA
1 AACCTA AACCTA AACCTA AACCTA AACCTA AACCTA AACCTA AACCTA
* * ** *
4603242 AACCGA AATCTA AACCTA AACCCT- AATTTA AACCTA AACCTA AACCCA
1 AACCTA AACCTA AACCTA AA-CCTA AACCTA AACCTA AACCTA AACCTA
* *
4603290 AACCTA AACCTG AACCCA AAC
1 AACCTA AACCTA AACCTA AAC
4603311 TATTCGAAAC
Statistics
Matches: 116, Mismatches: 32, Indels: 16
0.71 0.20 0.10
Matches are distributed among these distances:
5 13 0.11
6 99 0.85
7 4 0.03
ACGTcount: A:0.48, C:0.35, G:0.04, T:0.14
Consensus pattern (6 bp):
AACCTA
Found at i:4603174 original size:17 final size:17
Alignment explanation
Indices: 4603149--4603219 Score: 70
Period size: 17 Copynumber: 4.1 Consensus size: 17
4603139 ATCAAACCCT
*
4603149 AACCTAAACCCAAACTA
1 AACCCAAACCCAAACTA
*
4603166 AACCCAAACCGAAACTAA
1 AACCCAAACCCAAACT-A
* * *
4603184 AACCCAAACTCAAATTG
1 AACCCAAACCCAAACTA
*
4603201 AACCTAAACCCAAATCTA
1 AACCCAAACCCAAA-CTA
4603219 A
1 A
4603220 TCCTGATCCG
Statistics
Matches: 42, Mismatches: 10, Indels: 3
0.76 0.18 0.05
Matches are distributed among these distances:
17 26 0.62
18 16 0.38
ACGTcount: A:0.52, C:0.32, G:0.03, T:0.13
Consensus pattern (17 bp):
AACCCAAACCCAAACTA
Found at i:4603197 original size:24 final size:23
Alignment explanation
Indices: 4603165--4603310 Score: 78
Period size: 24 Copynumber: 6.2 Consensus size: 23
4603155 AACCCAAACT
4603165 AAACCCAAACCGAAACTAAAACCC
1 AAACCCAAACCGAAACT-AAACCC
* ** *
4603189 AAACTCAAATTGAACCTAAACCC
1 AAACCCAAACCGAAACTAAACCC
* * * * **
4603212 AAATCTAATCCTG-ATCCGAACCC
1 AAACCCAAACC-GAAACTAAACCC
*
4603235 AAACCCAAACCGAAATCTAAACCT
1 AAACCCAAACCGAAA-CTAAACCC
* *** *
4603259 AAACCCTAATTTAAACCTAAACCT
1 AAACCCAAACCGAAA-CTAAACCC
* *
4603283 AAACCCAAACCTAAACCTGAACCC
1 AAACCCAAACCGAAA-CTAAACCC
4603307 AAAC
1 AAAC
4603311 TATTCGAAAC
Statistics
Matches: 89, Mismatches: 30, Indels: 6
0.71 0.24 0.05
Matches are distributed among these distances:
22 1 0.01
23 27 0.30
24 61 0.69
ACGTcount: A:0.47, C:0.34, G:0.04, T:0.14
Consensus pattern (23 bp):
AAACCCAAACCGAAACTAAACCC
Found at i:4603300 original size:18 final size:18
Alignment explanation
Indices: 4603149--4603310 Score: 89
Period size: 18 Copynumber: 8.8 Consensus size: 18
4603139 ATCAAACCCT
4603149 AACCTAAACCCAAA-CTA
1 AACCTAAACCCAAACCTA
* *
4603166 AACCCAAACCGAAA-CTAA
1 AACCTAAACCCAAACCT-A
* * * *
4603184 AACCCAAACTCAAA-TTG
1 AACCTAAACCCAAACCTA
*
4603201 AACCTAAACCCAAATCTA
1 AACCTAAACCCAAACCTA
* *
4603219 ATCCTGATCCGAACCCAAACCCA
1 AACCT-A----AACCCAAACCTA
* * *
4603242 AACCGAAATCTAAACCTA
1 AACCTAAACCCAAACCTA
***
4603260 AACCCT-AATTTAAACCTA
1 AA-CCTAAACCCAAACCTA
4603278 AACCTAAACCCAAACCTA
1 AACCTAAACCCAAACCTA
*
4603296 AACCTGAACCCAAAC
1 AACCTAAACCCAAAC
4603311 TATTCGAAAC
Statistics
Matches: 112, Mismatches: 24, Indels: 17
0.73 0.16 0.11
Matches are distributed among these distances:
17 29 0.26
18 66 0.59
19 3 0.03
22 1 0.01
23 13 0.12
ACGTcount: A:0.48, C:0.35, G:0.04, T:0.14
Consensus pattern (18 bp):
AACCTAAACCCAAACCTA
Found at i:4603527 original size:2 final size:2
Alignment explanation
Indices: 4603520--4603544 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4603510 TGCCCATTAT
4603520 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
4603545 TGGTTTATTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4603574 original size:31 final size:31
Alignment explanation
Indices: 4603545--4604196 Score: 908
Period size: 31 Copynumber: 21.3 Consensus size: 31
4603535 ATATATATAT
* *
4603545 TGGTTTATTGTTGTTGATGTAAATGATATAT
1 TGGTTTATTGTTGTTGATGTAAATGATGTAC
4603576 TGGTTTATTGTTGTTGATGTAAATGATGTAC
1 TGGTTTATTGTTGTTGATGTAAATGATGTAC
*
4603607 TAGTTTATTGTTGTTGATGTAAATGATGTAC
1 TGGTTTATTGTTGTTGATGTAAATGATGTAC
* * *
4603638 TGGTTTATTGCTGTTAATGTAAATGATCTAC
1 TGGTTTATTGTTGTTGATGTAAATGATGTAC
*
4603669 TGGTTTATTGTTGTTGATGTAAATGATGTAT
1 TGGTTTATTGTTGTTGATGTAAATGATGTAC
** *
4603700 TGGTTTATTACTGTTGATGTAAATGATGTAT
1 TGGTTTATTGTTGTTGATGTAAATGATGTAC
*
4603731 TGGTTTATTTTTGTTGATGTAAATGATGTAC
1 TGGTTTATTGTTGTTGATGTAAATGATGTAC
*
4603762 TAGTTTATTGTTGTTGATG----T-A--T--
1 TGGTTTATTGTTGTTGATGTAAATGATGTAC
* * *
4603784 TGGTTTATTTTTGTTGATGTAAATAATGTAT
1 TGGTTTATTGTTGTTGATGTAAATGATGTAC
4603815 TGGTTTATTGTTGTTGATGTAAATGATGTAC
1 TGGTTTATTGTTGTTGATGTAAATGATGTAC
* *
4603846 TAGTTTATTGTTGTTGATGTATATGATGTAC
1 TGGTTTATTGTTGTTGATGTAAATGATGTAC
*
4603877 TAGTTTATTGTTGTTGATGTAAATGATGTAC
1 TGGTTTATTGTTGTTGATGTAAATGATGTAC
*
4603908 TGGTTTATTGTTGTTGATGTAAATGATGTAT
1 TGGTTTATTGTTGTTGATGTAAATGATGTAC
* * *
4603939 TGGTTTATTGTTTTTTATATAAATGATGTAC
1 TGGTTTATTGTTGTTGATGTAAATGATGTAC
4603970 TGGTTTATTGTTGTTGATGTAAATGATGTAC
1 TGGTTTATTGTTGTTGATGTAAATGATGTAC
* * *
4604001 TGGTTTATTGCTATTGATGTAAATGATATAC
1 TGGTTTATTGTTGTTGATGTAAATGATGTAC
* *
4604032 TGGTTTATTGATGTTGATGTAAATGATATAC
1 TGGTTTATTGTTGTTGATGTAAATGATGTAC
*
4604063 TGGTTTATTGCTGTTGATGTAAATGATGTAC
1 TGGTTTATTGTTGTTGATGTAAATGATGTAC
* *
4604094 TGCTTTATTGATGTTGATGTAAATGATGTAC
1 TGGTTTATTGTTGTTGATGTAAATGATGTAC
* *
4604125 TGGTTTATTGTTGTTGATGTAAATGATATAT
1 TGGTTTATTGTTGTTGATGTAAATGATGTAC
* * * * *
4604156 TAGTTTATTGTTGTTGATGTCAATAATATAT
1 TGGTTTATTGTTGTTGATGTAAATGATGTAC
4604187 TGGTTTATTG
1 TGGTTTATTG
4604197 ATGTAATGTA
Statistics
Matches: 560, Mismatches: 52, Indels: 18
0.89 0.08 0.03
Matches are distributed among these distances:
22 17 0.03
24 1 0.00
26 2 0.00
27 2 0.00
29 1 0.00
31 537 0.96
ACGTcount: A:0.25, C:0.03, G:0.23, T:0.50
Consensus pattern (31 bp):
TGGTTTATTGTTGTTGATGTAAATGATGTAC
Found at i:4603748 original size:22 final size:22
Alignment explanation
Indices: 4603723--4603804 Score: 65
Period size: 22 Copynumber: 3.3 Consensus size: 22
4603713 TTGATGTAAA
4603723 TGATGTATTGGTTTATTTTTGT
1 TGATGTATTGGTTTATTTTTGT
* *
4603745 TGATGTAAATGATGTACTAGTTTATTGTTGT
1 TGATGT-ATTG--GT-TTA-TTT-TTG---T
4603776 TGATGTATTGGTTTATTTTTGT
1 TGATGTATTGGTTTATTTTTGT
4603798 TGATGTA
1 TGATGTA
4603805 AATAATGTAT
Statistics
Matches: 47, Mismatches: 4, Indels: 18
0.68 0.06 0.26
Matches are distributed among these distances:
22 14 0.30
23 3 0.06
25 5 0.11
26 5 0.11
27 5 0.11
28 5 0.11
30 3 0.06
31 7 0.15
ACGTcount: A:0.20, C:0.01, G:0.23, T:0.56
Consensus pattern (22 bp):
TGATGTATTGGTTTATTTTTGT
Found at i:4606394 original size:20 final size:20
Alignment explanation
Indices: 4606362--4606422 Score: 77
Period size: 20 Copynumber: 3.0 Consensus size: 20
4606352 TACTTAATTC
* *
4606362 TGCTTTATTCTGTTTTATAT
1 TGCTTTCTTCTGTTTGATAT
*
4606382 TGTTTTCTTCTGTTTGATAT
1 TGCTTTCTTCTGTTTGATAT
**
4606402 TGCTTTCTTCTACTTGATAT
1 TGCTTTCTTCTGTTTGATAT
4606422 T
1 T
4606423 TGTAAGGGTT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.13, C:0.13, G:0.11, T:0.62
Consensus pattern (20 bp):
TGCTTTCTTCTGTTTGATAT
Found at i:4606545 original size:23 final size:23
Alignment explanation
Indices: 4606515--4606597 Score: 114
Period size: 23 Copynumber: 3.6 Consensus size: 23
4606505 CTTAATGCAT
*
4606515 GATGCTTGTTGAATCGATGCAAC
1 GATGCTTGCTGAATCGATGCAAC
* * *
4606538 GATGCTTGCTGAATTGGTAC-AC
1 GATGCTTGCTGAATCGATGCAAC
4606560 TGATGCTTGCTGAATCGATGCAAC
1 -GATGCTTGCTGAATCGATGCAAC
4606584 GATGCTTGCTGAAT
1 GATGCTTGCTGAAT
4606598 TGGTACACTG
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
22 2 0.04
23 47 0.92
24 2 0.04
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (23 bp):
GATGCTTGCTGAATCGATGCAAC
Found at i:4606581 original size:46 final size:46
Alignment explanation
Indices: 4606514--4606615 Score: 195
Period size: 46 Copynumber: 2.2 Consensus size: 46
4606504 TCTTAATGCA
*
4606514 TGATGCTTGTTGAATCGATGCAACGATGCTTGCTGAATTGGTACAC
1 TGATGCTTGCTGAATCGATGCAACGATGCTTGCTGAATTGGTACAC
4606560 TGATGCTTGCTGAATCGATGCAACGATGCTTGCTGAATTGGTACAC
1 TGATGCTTGCTGAATCGATGCAACGATGCTTGCTGAATTGGTACAC
4606606 TGATGCTTGC
1 TGATGCTTGC
4606616 CGGTTGCTGC
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 55 1.00
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.32
Consensus pattern (46 bp):
TGATGCTTGCTGAATCGATGCAACGATGCTTGCTGAATTGGTACAC
Found at i:4606610 original size:23 final size:23
Alignment explanation
Indices: 4606538--4606615 Score: 113
Period size: 23 Copynumber: 3.4 Consensus size: 23
4606528 TCGATGCAAC
4606538 GATGCTTGCTGAATTGGTACACT
1 GATGCTTGCTGAATTGGTACACT
* * *
4606561 GATGCTTGCTGAATCGATGCAAC-
1 GATGCTTGCTGAATTGGTAC-ACT
4606584 GATGCTTGCTGAATTGGTACACT
1 GATGCTTGCTGAATTGGTACACT
4606607 GATGCTTGC
1 GATGCTTGC
4606616 CGGTTGCTGC
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
22 2 0.04
23 43 0.91
24 2 0.04
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.32
Consensus pattern (23 bp):
GATGCTTGCTGAATTGGTACACT
Found at i:4607347 original size:51 final size:51
Alignment explanation
Indices: 4607292--4607388 Score: 185
Period size: 51 Copynumber: 1.9 Consensus size: 51
4607282 ATATAAAAGT
4607292 AAATTTCAAAAAGTAATCATATTAATTTAATTATCATAATAATTTATGATA
1 AAATTTCAAAAAGTAATCATATTAATTTAATTATCATAATAATTTATGATA
*
4607343 AAATTTCAAAAAGTAATTATATTAATTTAATTATCATAATAATTTA
1 AAATTTCAAAAAGTAATCATATTAATTTAATTATCATAATAATTTA
4607389 ATTATCATAA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 45 1.00
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.42
Consensus pattern (51 bp):
AAATTTCAAAAAGTAATCATATTAATTTAATTATCATAATAATTTATGATA
Found at i:4607387 original size:17 final size:17
Alignment explanation
Indices: 4607365--4607398 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
4607355 GTAATTATAT
4607365 TAATTTAATTATCATAA
1 TAATTTAATTATCATAA
4607382 TAATTTAATTATCATAA
1 TAATTTAATTATCATAA
4607399 GTTTATTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (17 bp):
TAATTTAATTATCATAA
Found at i:4607531 original size:16 final size:16
Alignment explanation
Indices: 4607510--4607548 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
4607500 TGAGTTAATT
*
4607510 ACAGGTCAGGTTCATA
1 ACAGGTCAGGTTCAAA
* *
4607526 ACAGGTTAGGTTGAAA
1 ACAGGTCAGGTTCAAA
4607542 ACAGGTC
1 ACAGGTC
4607549 GGGTAATAGC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.33, C:0.15, G:0.28, T:0.23
Consensus pattern (16 bp):
ACAGGTCAGGTTCAAA
Found at i:4611666 original size:30 final size:30
Alignment explanation
Indices: 4611609--4611716 Score: 103
Period size: 31 Copynumber: 3.5 Consensus size: 30
4611599 TTGTAGCTAG
* *
4611609 ATTTAAATATCAAATTGAAATTTTATCTAAA
1 ATTTAAA-GTCAAATTGATATTTTATCTAAA
4611640 ATTTATAAGTCAAATTGATA-TTTATCTAAA
1 ATTTA-AAGTCAAATTGATATTTTATCTAAA
* * *
4611670 GTTTAAAATTTAAATT-ATTATTTTATCTAAA
1 ATTT-AAAGTCAAATTGA-TATTTTATCTAAA
*
4611701 ATGTAAAGATCAAATT
1 ATTTAAAG-TCAAATT
4611717 AAAATTTGAT
Statistics
Matches: 63, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
29 1 0.02
30 26 0.41
31 34 0.54
32 2 0.03
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.44
Consensus pattern (30 bp):
ATTTAAAGTCAAATTGATATTTTATCTAAA
Found at i:4612648 original size:48 final size:48
Alignment explanation
Indices: 4612592--4612688 Score: 149
Period size: 48 Copynumber: 2.0 Consensus size: 48
4612582 TTCTCAATAA
* * *
4612592 TTAGTGGGTATTGCTGTAAATAGTTTATCTCGCCATCTCCATATCTCC
1 TTAGTGGGTATTGCTGTAAATAGTTCATCTCACCACCTCCATATCTCC
* *
4612640 TTAGTGGGTATTGTTGTAATTAGTTCATCTCACCACCTCCATATCTCC
1 TTAGTGGGTATTGCTGTAAATAGTTCATCTCACCACCTCCATATCTCC
4612688 T
1 T
4612689 CATTGCCCAC
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.40
Consensus pattern (48 bp):
TTAGTGGGTATTGCTGTAAATAGTTCATCTCACCACCTCCATATCTCC
Found at i:4617734 original size:61 final size:61
Alignment explanation
Indices: 4617663--4617786 Score: 221
Period size: 61 Copynumber: 2.0 Consensus size: 61
4617653 ATCGATACTC
*
4617663 ATATAGGAGTATCGATACCAGGACCTTGGGTATCAATACTCCCTAGAGTATCGATACCAAA
1 ATATAGGAGTATCGATACCAGGACCTTGGGTATCAATACTCCCTAGAGTACCGATACCAAA
* *
4617724 ATATAGGAGTATCGATACTAGGACCTTGGGTATCAATACTCCCTAGAGTACCGATACTAAA
1 ATATAGGAGTATCGATACCAGGACCTTGGGTATCAATACTCCCTAGAGTACCGATACCAAA
4617785 AT
1 AT
4617787 GGCATTTTAA
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
61 60 1.00
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (61 bp):
ATATAGGAGTATCGATACCAGGACCTTGGGTATCAATACTCCCTAGAGTACCGATACCAAA
Found at i:4620175 original size:2 final size:2
Alignment explanation
Indices: 4620168--4620199 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
4620158 AATGTATGTG
4620168 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4620200 GTGTTTTATG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4620257 original size:35 final size:34
Alignment explanation
Indices: 4620185--4620272 Score: 83
Period size: 35 Copynumber: 2.5 Consensus size: 34
4620175 TATATATATA
* *
4620185 TATAT-ATAT-ATATATGTGTTTTATGATATTAAT
1 TATATGATATGATATATGTGTGTTATGATATT-AG
4620218 TATATGATATGATATATGTGTGTTAGTGATTATT-G
1 TATATGATATGATATATGTGTGTTA-TGA-TATTAG
*
4620253 TATATGTTATAAGATATATG
1 TATATG--ATATGATATATG
4620273 ATATGAACAT
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
33 5 0.11
34 4 0.09
35 19 0.41
36 3 0.07
37 15 0.33
ACGTcount: A:0.34, C:0.00, G:0.16, T:0.50
Consensus pattern (34 bp):
TATATGATATGATATATGTGTGTTATGATATTAG
Found at i:4622470 original size:26 final size:26
Alignment explanation
Indices: 4622441--4622495 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
4622431 TCACAATTAA
4622441 AAAAGATTTAAAGTAGTGTTTTGGTC
1 AAAAGATTTAAAGTAGTGTTTTGGTC
4622467 AAAAGATTTAAAGTAGTGTTTTGGTC
1 AAAAGATTTAAAGTAGTGTTTTGGTC
4622493 AAA
1 AAA
4622496 TTATGATGGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.38, C:0.04, G:0.22, T:0.36
Consensus pattern (26 bp):
AAAAGATTTAAAGTAGTGTTTTGGTC
Found at i:4624496 original size:2 final size:2
Alignment explanation
Indices: 4624491--4624645 Score: 310
Period size: 2 Copynumber: 77.5 Consensus size: 2
4624481 TATATATATA
4624491 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
4624533 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
4624575 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
4624617 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
4624646 TTTGTGATAT
Statistics
Matches: 153, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 153 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:4627689 original size:18 final size:18
Alignment explanation
Indices: 4627657--4627691 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4627647 GATCAGTATT
**
4627657 TGTCCCGAATGACCACTA
1 TGTCCCGAAAAACCACTA
4627675 TGTCCCGAAAAACCACT
1 TGTCCCGAAAAACCACT
4627692 GGATACGTCC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.34, G:0.14, T:0.20
Consensus pattern (18 bp):
TGTCCCGAAAAACCACTA
Found at i:4627704 original size:22 final size:22
Alignment explanation
Indices: 4627676--4627727 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
4627666 TGACCACTAT
4627676 GTCCCGAAAAACCACTGGATAC
1 GTCCCGAAAAACCACTGGATAC
*
4627698 GTCCCGAAAGACCACTGGATAC
1 GTCCCGAAAAACCACTGGATAC
*
4627720 GTCTCGAA
1 GTCCCGAA
4627728 GGACTAATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.33, C:0.31, G:0.21, T:0.15
Consensus pattern (22 bp):
GTCCCGAAAAACCACTGGATAC
Found at i:4633968 original size:22 final size:22
Alignment explanation
Indices: 4633937--4633989 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
4633927 AGTATTTGTG
*
4633937 CCGAATGACCACAGGATACGTC
1 CCGAAGGACCACAGGATACGTC
* *
4633959 TCGAAGGACCACTGGATACGTC
1 CCGAAGGACCACAGGATACGTC
4633981 CCGAAGGAC
1 CCGAAGGAC
4633990 TAATATACCC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.30, C:0.30, G:0.26, T:0.13
Consensus pattern (22 bp):
CCGAAGGACCACAGGATACGTC
Found at i:4636983 original size:17 final size:18
Alignment explanation
Indices: 4636957--4636992 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
4636947 TTCTTTCAAA
4636957 TCTTTCTCTTTCT-TTTT
1 TCTTTCTCTTTCTCTTTT
*
4636974 TCTTTTTCTTTCTCTTTT
1 TCTTTCTCTTTCTCTTTT
4636992 T
1 T
4636993 TCTCTACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (18 bp):
TCTTTCTCTTTCTCTTTT
Found at i:4638625 original size:2 final size:2
Alignment explanation
Indices: 4638618--4638648 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
4638608 ATAGTTGTGA
4638618 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4638649 ATTAATTAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4639022 original size:5 final size:5
Alignment explanation
Indices: 4639012--4639161 Score: 282
Period size: 5 Copynumber: 30.0 Consensus size: 5
4639002 ATGCATGTAA
*
4639012 ACAAT ACAAT ATAAT ACAAT ACAAT ACAAT ACAAT ACAAT ACAAT ACAAT
1 ACAAT ACAAT ACAAT ACAAT ACAAT ACAAT ACAAT ACAAT ACAAT ACAAT
*
4639062 ACAAT ACAAT ACAAT ACAAT ACAAT ACAAT ACAAT ATAAT ACAAT ACAAT
1 ACAAT ACAAT ACAAT ACAAT ACAAT ACAAT ACAAT ACAAT ACAAT ACAAT
4639112 ACAAT ACAAT ACAAT ACAAT ACAAT ACAAT ACAAT ACAAT ACAAT ACAAT
1 ACAAT ACAAT ACAAT ACAAT ACAAT ACAAT ACAAT ACAAT ACAAT ACAAT
4639162 GATGTATGCC
Statistics
Matches: 141, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 141 1.00
ACGTcount: A:0.60, C:0.19, G:0.00, T:0.21
Consensus pattern (5 bp):
ACAAT
Found at i:4644787 original size:60 final size:60
Alignment explanation
Indices: 4644644--4644792 Score: 137
Period size: 60 Copynumber: 2.5 Consensus size: 60
4644634 TTACATCATA
* * *
4644644 CATCCTCAAATTATGAACCTT-ATTCTAAATTTATCTCTAAACTTTTAAATATTCTAATTT
1 CATCCCCAAACTATG-ACCTTCATTCTAAATTTATCTCTAAACTTTTAAACATTCTAATTT
* * * * *
4644704 CATCTCTAAACTAT-AGCTATCATTCTAAA-TTAGTCT-TCAAACTTTTGAACA-TCTCAGTTT
1 CATCCCCAAACTATGACCT-TCATTCTAAATTTA-TCTCT-AAACTTTTAAACATTCT-AATTT
*
4644764 CATCCCCAAACTATGACCTTCATTTTAAA
1 CATCCCCAAACTATGACCTTCATTCTAAA
4644793 CCAGTCCCCA
Statistics
Matches: 71, Mismatches: 12, Indels: 12
0.75 0.13 0.13
Matches are distributed among these distances:
58 3 0.04
59 8 0.11
60 57 0.80
61 3 0.04
ACGTcount: A:0.34, C:0.22, G:0.04, T:0.40
Consensus pattern (60 bp):
CATCCCCAAACTATGACCTTCATTCTAAATTTATCTCTAAACTTTTAAACATTCTAATTT
Found at i:4645061 original size:60 final size:60
Alignment explanation
Indices: 4644968--4645122 Score: 152
Period size: 60 Copynumber: 2.6 Consensus size: 60
4644958 TGTGGAGATG
* * ** * *
4644968 AAATTGGAAGATTCAAAAGTTTGGGGACCAATTTAGAAT-AGGGGTCAAAGTTTGAGGATGA
1 AAATTGAAATATTCAAAAGTTTAAGGACTAATTTAGAATGA-GAGTCAAAGTTTGAGGAT-A
* * * * * **
4645029 AAA-TGGAATGTTCAAATGTTTAAGGGCTAATTTAGAGTGAGAGTCATTGTTTGAGGATA
1 AAATTGAAATATTCAAAAGTTTAAGGACTAATTTAGAATGAGAGTCAAAGTTTGAGGATA
*
4645088 AAATTGAAATATTCAAAAGTTTAAGGATTAATTTA
1 AAATTGAAATATTCAAAAGTTTAAGGACTAATTTA
4645123 AAACAAAGGT
Statistics
Matches: 76, Mismatches: 16, Indels: 5
0.78 0.16 0.05
Matches are distributed among these distances:
59 4 0.05
60 68 0.89
61 4 0.05
ACGTcount: A:0.39, C:0.05, G:0.25, T:0.32
Consensus pattern (60 bp):
AAATTGAAATATTCAAAAGTTTAAGGACTAATTTAGAATGAGAGTCAAAGTTTGAGGATA
Found at i:4646599 original size:3 final size:3
Alignment explanation
Indices: 4646593--4646647 Score: 67
Period size: 3 Copynumber: 17.7 Consensus size: 3
4646583 GGTCTTCTTT
*
4646593 TTA TTA TTTA ATA TTA TTA TTA TTA TTTA TT- TTA TTA TTA TTA TTA
1 TTA TTA -TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA
4646639 TTAA TTA TT
1 TT-A TTA TT
4646648 TTGTTACATA
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
2 2 0.04
3 35 0.76
4 9 0.20
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:4646629 original size:18 final size:19
Alignment explanation
Indices: 4646593--4646637 Score: 74
Period size: 18 Copynumber: 2.4 Consensus size: 19
4646583 GGTCTTCTTT
4646593 TTATTATTTAATATTATTA
1 TTATTATTTAATATTATTA
*
4646612 TTATTATTT-ATTTTATTA
1 TTATTATTTAATATTATTA
4646630 TTATTATT
1 TTATTATT
4646638 ATTAATTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 16 0.64
19 9 0.36
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (19 bp):
TTATTATTTAATATTATTA
Found at i:4646631 original size:24 final size:24
Alignment explanation
Indices: 4646595--4646649 Score: 85
Period size: 24 Copynumber: 2.3 Consensus size: 24
4646585 TCTTCTTTTT
4646595 ATTA-TTTAATATTATTATTATTA
1 ATTATTTTAATATTATTATTATTA
* *
4646618 TTTATTTTATTATTATTATTATTA
1 ATTATTTTAATATTATTATTATTA
4646642 ATTATTTT
1 ATTATTTT
4646650 GTTACATATT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
23 3 0.11
24 25 0.89
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (24 bp):
ATTATTTTAATATTATTATTATTA
Found at i:4650516 original size:6 final size:6
Alignment explanation
Indices: 4650505--4650544 Score: 53
Period size: 6 Copynumber: 6.2 Consensus size: 6
4650495 GATCAACATT
4650505 TTTGCA TTTGCA TTTGCA TTTGCA TCATTGCA TTCTGCA T
1 TTTGCA TTTGCA TTTGCA TTTGCA T--TTGCA TT-TGCA T
4650545 AATATTCATT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
6 20 0.65
7 5 0.16
8 6 0.19
ACGTcount: A:0.17, C:0.20, G:0.15, T:0.47
Consensus pattern (6 bp):
TTTGCA
Found at i:4653994 original size:37 final size:37
Alignment explanation
Indices: 4653953--4654066 Score: 124
Period size: 37 Copynumber: 3.1 Consensus size: 37
4653943 TTTGAGGGTG
* *
4653953 TTTTTCTTGAAACAAAATTTTGTCTCGCTTGAGATAA
1 TTTTTCTTAAAACAAAATTTTGTCTCGCTTGAGACAA
* * *
4653990 TTTTTCTCAAAA-ACAATTTTTGTCTCGTTTGAGACAA
1 TTTTTCTTAAAACA-AAATTTTGTCTCGCTTGAGACAA
* * * *
4654027 TTTCTCTAAAAAC-AAATGTTGTCTCACTTGAGACAA
1 TTTTTCTTAAAACAAAATTTTGTCTCGCTTGAGACAA
4654063 TTTT
1 TTTT
4654067 CCAAATTATG
Statistics
Matches: 63, Mismatches: 12, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
36 23 0.37
37 40 0.63
ACGTcount: A:0.31, C:0.16, G:0.11, T:0.42
Consensus pattern (37 bp):
TTTTTCTTAAAACAAAATTTTGTCTCGCTTGAGACAA
Found at i:4654038 original size:36 final size:37
Alignment explanation
Indices: 4653962--4654065 Score: 138
Period size: 36 Copynumber: 2.8 Consensus size: 37
4653952 GTTTTTCTTG
* *
4653962 AAACAAAATTTTGTCTCGCTTGAGATAATTTTTCTCAA
1 AAAC-AAATTTTGTCTCGCTTGAGACAATTTCTCTCAA
* *
4654000 AAACAATTTTTGTCTCGTTTGAGACAATTTCTCT-AA
1 AAACAAATTTTGTCTCGCTTGAGACAATTTCTCTCAA
* *
4654036 AAACAAATGTTGTCTCACTTGAGACAATTT
1 AAACAAATTTTGTCTCGCTTGAGACAATTT
4654066 TCCAAATTAT
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
36 28 0.48
37 26 0.45
38 4 0.07
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.38
Consensus pattern (37 bp):
AAACAAATTTTGTCTCGCTTGAGACAATTTCTCTCAA
Found at i:4654137 original size:30 final size:31
Alignment explanation
Indices: 4654103--4654161 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
4654093 AATATACATC
*
4654103 ATCTTTGAGTC-GTTTCTTTTGAAACAAAGG
1 ATCTTTGAGTCTATTTCTTTTGAAACAAAGG
4654133 ATCTTTGAGTCTATTTCTTTTGAAACAAA
1 ATCTTTGAGTCTATTTCTTTTGAAACAAA
4654162 ACTTTGTCTC
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
30 11 0.41
31 16 0.59
ACGTcount: A:0.29, C:0.14, G:0.15, T:0.42
Consensus pattern (31 bp):
ATCTTTGAGTCTATTTCTTTTGAAACAAAGG
Found at i:4654268 original size:99 final size:100
Alignment explanation
Indices: 4654133--4654312 Score: 249
Period size: 99 Copynumber: 1.8 Consensus size: 100
4654123 GAAACAAAGG
* *
4654133 ATCTTTGAGTCTATTTCTTTTGAAACAAAACTTTGTCTCTCTTGAGACAGATTT-TATT-AAAAA
1 ATCTTTGAGTATATTTCTTTTGAAACAAAACTTTGTCTCTCTTGAGAAAG-TTTCTATTGAAAAA
*
4654196 ATCTTTGAGTCTGTTTCACCTAAAACAAAATGAAAA
65 ATCTTTGAGTATGTTTCACCTAAAACAAAATGAAAA
* * * * *
4654232 ATCTTTGAGTATGTTTC-TTTGATAACAAAATTTTGTCTCTTTTGAGAAAGTTTCTTTTGAAAGA
1 ATCTTTGAGTATATTTCTTTTGA-AACAAAACTTTGTCTCTCTTGAGAAAGTTTCTATTGAAAAA
4654296 ATCTTTGAGTATGTTTC
65 ATCTTTGAGTATGTTTC
4654313 TTTGGAAACA
Statistics
Matches: 70, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
98 8 0.11
99 42 0.60
100 20 0.29
ACGTcount: A:0.31, C:0.13, G:0.13, T:0.43
Consensus pattern (100 bp):
ATCTTTGAGTATATTTCTTTTGAAACAAAACTTTGTCTCTCTTGAGAAAGTTTCTATTGAAAAAA
TCTTTGAGTATGTTTCACCTAAAACAAAATGAAAA
Found at i:4654398 original size:66 final size:65
Alignment explanation
Indices: 4654227--4654410 Score: 230
Period size: 64 Copynumber: 2.8 Consensus size: 65
4654217 AAAACAAAAT
* * *
4654227 GAAAAATCTTTGAGTATGTTTCTTTGATAACAAAATTTTGTCTCTTTTGAGAAAGTTTCTTTTGA
1 GAAAAATCTTTGAGTATGTTTCTTTGAAAACAAAATTTTGTCTCTTTTGAGACAGTTCCTTTTGA
* * *
4654292 -AAGAATCTTTGAGTATGTTTCTTTGGAAACAAAATTTTGTCTATTTTGAGACAGTTCCTTTTGA
1 GAAAAATCTTTGAGTATGTTTCTTTGAAAACAAAATTTTGTCTCTTTTGAGACAGTTCCTTTTG-
4654356 A
65 A
* * * *
4654357 GAAAAATCTTTAAATATGTTT-TAATGAAAAC-AAATTCTTGTCTCTTTTAAGACA
1 GAAAAATCTTTGAGTATGTTTCT-TTGAAAACAAAATT-TTGTCTCTTTTGAGACA
4654411 ATTTCTCTTA
Statistics
Matches: 102, Mismatches: 13, Indels: 7
0.84 0.11 0.06
Matches are distributed among these distances:
64 57 0.56
65 7 0.07
66 38 0.37
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (65 bp):
GAAAAATCTTTGAGTATGTTTCTTTGAAAACAAAATTTTGTCTCTTTTGAGACAGTTCCTTTTGA
Found at i:4654468 original size:33 final size:33
Alignment explanation
Indices: 4654429--4654491 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
4654419 TAAAACAAAC
4654429 ATCTTTGAGATTGTTTCCCTTGAAACAAAACCT
1 ATCTTTGAGATTGTTTCCCTTGAAACAAAACCT
* *
4654462 ATCTTTGAGTTTGTTTCTCTTGAAACAAAA
1 ATCTTTGAGATTGTTTCCCTTGAAACAAAA
4654492 GTCTGTGAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (33 bp):
ATCTTTGAGATTGTTTCCCTTGAAACAAAACCT
Found at i:4654505 original size:29 final size:29
Alignment explanation
Indices: 4654412--4654694 Score: 197
Period size: 29 Copynumber: 9.6 Consensus size: 29
4654402 TTTAAGACAA
* * *
4654412 TTTCTCTTAAAACAAACATCTTTGAGATTG
1 TTTCTTTTGAAACAAAAATCTTTGAG-TTG
**
4654442 TTTCCCTTGAAACAAAACCTATCTTTGAGTTTG
1 TTTCTTTTGAAACAAAA---ATCTTTGAG-TTG
* * *
4654475 TTTCTCTTGAAACAAAAGTCTGTGAGTTG
1 TTTCTTTTGAAACAAAAATCTTTGAGTTG
* *
4654504 TTTCTTTTGAAATAAAAATCTGTGAGTTG
1 TTTCTTTTGAAACAAAAATCTTTGAGTTG
*
4654533 TTTCTTTTGAAATAAAAATCTTTGAGTTG
1 TTTCTTTTGAAACAAAAATCTTTGAGTTG
4654562 TTTCTTTTG-AA-AAAAA--TTTGAGTCTG
1 TTTCTTTTGAAACAAAAATCTTTGAGT-TG
* *
4654588 TTTCTTTTG-AACCAAAGT-TTT--GTT-
1 TTTCTTTTGAAACAAAAATCTTTGAGTTG
* ** **
4654612 TCTCTTAAGACAATTTCGTGAAAAAATCTTTGAGTCA
1 TTTCTTTTGA-AA---C----AAAAATCTTTGAGTTG
*
4654649 TTTCTTTTGAAACCAAAATCTTTGAGTTTG
1 TTTCTTTTGAAACAAAAATCTTTGAG-TTG
4654679 TTTCTTTTGAAACAAA
1 TTTCTTTTGAAACAAA
4654695 GTTTTGTCTC
Statistics
Matches: 207, Mismatches: 26, Indels: 40
0.76 0.10 0.15
Matches are distributed among these distances:
24 6 0.03
25 8 0.04
26 17 0.08
27 8 0.04
28 5 0.02
29 79 0.38
30 37 0.18
33 33 0.16
34 3 0.01
36 4 0.02
37 7 0.03
ACGTcount: A:0.30, C:0.13, G:0.14, T:0.43
Consensus pattern (29 bp):
TTTCTTTTGAAACAAAAATCTTTGAGTTG
Found at i:4654637 original size:87 final size:91
Alignment explanation
Indices: 4654546--4654744 Score: 262
Period size: 91 Copynumber: 2.2 Consensus size: 91
4654536 CTTTTGAAAT
*
4654546 AAAAATCTTTGAGTTGTTTCTTTTGAAA-AAAA-TTTGAGTCTGTTTCTTTTGAACCAAAGTTTT
1 AAAAATCTTTGAGTTGTTTCTTTTGAAACAAAACTTTGAGTCTGTTTCTTTTGAAACAAAGTTTT
*
4654609 GTTTCTCTTAAGACA-ATTTCGTGA-
66 GTCTCTCTTAAGACAGATTTCGTGAG
** *
4654633 AAAAATCTTTGAGTCATTTCTTTTGAAACCAAAATCTTTGAGTTTGTTTCTTTTGAAACAAAGTT
1 AAAAATCTTTGAGTTGTTTCTTTTGAAA-CAAAA-CTTTGAGTCTGTTTCTTTTGAAACAAAGTT
* * *
4654698 TTGTCTCTCTTGAGACAGTTTTTCTTGAG
64 TTGTCTCTCTTAAGACAG-ATTTCGTGAG
4654727 AAAAATCTTTGAGATTGT
1 AAAAATCTTTGAG-TTGT
4654745 GTCTCTTAAC
Statistics
Matches: 94, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
87 26 0.28
89 4 0.04
91 42 0.45
93 7 0.07
94 13 0.14
95 2 0.02
ACGTcount: A:0.29, C:0.12, G:0.15, T:0.44
Consensus pattern (91 bp):
AAAAATCTTTGAGTTGTTTCTTTTGAAACAAAACTTTGAGTCTGTTTCTTTTGAAACAAAGTTTT
GTCTCTCTTAAGACAGATTTCGTGAG
Found at i:4654685 original size:30 final size:29
Alignment explanation
Indices: 4654634--4654691 Score: 89
Period size: 30 Copynumber: 2.0 Consensus size: 29
4654624 ATTTCGTGAA
4654634 AAAATCTTTGAGTCATTTCTTTTGAAACC
1 AAAATCTTTGAGTCATTTCTTTTGAAACC
**
4654663 AAAATCTTTGAGTTTGTTTCTTTTGAAAC
1 AAAATCTTTGAG-TCATTTCTTTTGAAAC
4654692 AAAGTTTTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 12 0.46
30 14 0.54
ACGTcount: A:0.29, C:0.14, G:0.12, T:0.45
Consensus pattern (29 bp):
AAAATCTTTGAGTCATTTCTTTTGAAACC
Found at i:4655063 original size:43 final size:40
Alignment explanation
Indices: 4654973--4655173 Score: 111
Period size: 40 Copynumber: 4.7 Consensus size: 40
4654963 CTAGAACTCT
* *
4654973 TCATCACGTATGAGCCGTGTCATCTCCTGACCAGATCTCT
1 TCATCACGTATGAGCCGTGTCATCCCCTGACCAGATCTCC
*
4655013 TCATCACGTATGAGTCGTGTCA-CCCCTAGATAACCAGA-CGTCC
1 TCATCACGTATGAGCCGTGTCATCCCCT-G---ACCAGATC-TCC
* * * * * *
4655056 TCATCACGTAGGAACCATGTGATCGCCTTTCCTAAAGATGGCCAGAACTCT
1 TCATCACGTATGAGCCGTGTCAT--CC---CCT---GA---CCAGATCTCC
* *
4655107 TCATCACGTATGAGCCATGTCATCCCCCGACCAGATCTCC
1 TCATCACGTATGAGCCGTGTCATCCCCTGACCAGATCTCC
* * *
4655147 TCATCGCATAGGAGCCGTGTCA-CCCCT
1 TCATCACGTATGAGCCGTGTCATCCCCT
4655174 AGATAACCAG
Statistics
Matches: 124, Mismatches: 20, Indels: 35
0.69 0.11 0.20
Matches are distributed among these distances:
39 8 0.06
40 48 0.39
42 1 0.01
43 27 0.22
46 4 0.03
48 1 0.01
49 5 0.04
51 29 0.23
52 1 0.01
ACGTcount: A:0.23, C:0.33, G:0.18, T:0.25
Consensus pattern (40 bp):
TCATCACGTATGAGCCGTGTCATCCCCTGACCAGATCTCC
Found at i:4655192 original size:134 final size:134
Alignment explanation
Indices: 4654952--4655287 Score: 460
Period size: 134 Copynumber: 2.5 Consensus size: 134
4654942 AATCATTATC
* * * * *
4654952 CCTAAAGATGGCTAGAACTCTTCATCACGTATGAGCCGTGTCATCTCCTGACCAGATCTCTTCAT
1 CCTAAAGATGGCCAGAACTCTTCATCACGTATGAGCCATGTCATCCCCCGACCAGATCTCCTCAT
* * * *
4655017 CACGTATGAGTCGTGTCACCCCTAGATAACCAGACGTCCTCATCACGTAGGAACC-ATGTGATCG
66 CACATAGGAGCCGTGTCACCCCTAGATAACCAGACGTCCTCATCACGTAGGAACCGA-GTGATCA
*
4655081 CCTTT
130 CCCTT
4655086 CCTAAAGATGGCCAGAACTCTTCATCACGTATGAGCCATGTCATCCCCCGACCAGATCTCCTCAT
1 CCTAAAGATGGCCAGAACTCTTCATCACGTATGAGCCATGTCATCCCCCGACCAGATCTCCTCAT
* * * *
4655151 CGCATAGGAGCCGTGTCACCCCTAGATAACCAGCCGTCCTCATCGCGTAGGAACCGAGTTATCAC
66 CACATAGGAGCCGTGTCACCCCTAGATAACCAGACGTCCTCATCACGTAGGAACCGAGTGATCAC
4655216 CCTT
131 CCTT
* * * * *
4655220 CCTAAAGATGGCCAAGAACTCTTCATCATGTATGAG-CAGTGTCATCCCTCAATCAGATTTCCTC
1 CCTAAAGATGGCC-AGAACTCTTCATCACGTATGAGCCA-TGTCATCCCCCGACCAGATCTCCTC
4655284 ATCA
64 ATCA
4655288 TGTAGGAACT
Statistics
Matches: 179, Mismatches: 20, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
134 133 0.74
135 46 0.26
ACGTcount: A:0.26, C:0.32, G:0.18, T:0.25
Consensus pattern (134 bp):
CCTAAAGATGGCCAGAACTCTTCATCACGTATGAGCCATGTCATCCCCCGACCAGATCTCCTCAT
CACATAGGAGCCGTGTCACCCCTAGATAACCAGACGTCCTCATCACGTAGGAACCGAGTGATCAC
CCTT
Found at i:4655506 original size:3 final size:3
Alignment explanation
Indices: 4655500--4655538 Score: 53
Period size: 3 Copynumber: 12.7 Consensus size: 3
4655490 GGTCTTCTTT
4655500 TTA TTA TTA TTTA TT- TTA TTA TTA TTA TTA TTAA TTA TT
1 TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TT-A TTA TT
4655539 TTGTTACATA
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
2 2 0.06
3 25 0.76
4 6 0.18
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:4669401 original size:23 final size:23
Alignment explanation
Indices: 4669365--4669426 Score: 81
Period size: 23 Copynumber: 2.7 Consensus size: 23
4669355 CATTTTAATC
4669365 AAAATATTAATTATTAAAATATTT
1 AAAATA-TAATTATTAAAATATTT
* *
4669389 AAAATATAATTATTAATATTTTT
1 AAAATATAATTATTAAAATATTT
4669412 AATAATAT-ATTATTA
1 AA-AATATAATTATTA
4669427 TATTTTTAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
23 24 0.69
24 11 0.31
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (23 bp):
AAAATATAATTATTAAAATATTT
Found at i:4669432 original size:22 final size:23
Alignment explanation
Indices: 4669374--4669442 Score: 88
Period size: 23 Copynumber: 3.0 Consensus size: 23
4669364 CAAAATATTA
* *
4669374 ATTATTAAAATATTTAA-AATAT
1 ATTATTAATATTTTTAATAATAT
4669396 AATTATTAATATTTTTAATAATAT
1 -ATTATTAATATTTTTAATAATAT
*
4669420 ATTATT-ATATTTTTAATATTAT
1 ATTATTAATATTTTTAATAATAT
4669442 A
1 A
4669443 ATAAAATAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
22 16 0.38
23 21 0.50
24 5 0.12
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (23 bp):
ATTATTAATATTTTTAATAATAT
Found at i:4669587 original size:19 final size:18
Alignment explanation
Indices: 4669563--4669631 Score: 52
Period size: 19 Copynumber: 3.6 Consensus size: 18
4669553 ATATTATTAA
4669563 ATTATTAATAATGAATAAT
1 ATTATTAATAAT-AATAAT
* *
4669582 ATTATTTAT-ATATTTAAT
1 ATTATTAATAATA-ATAAT
4669600 ATTAATATAATAATCTAATAAT
1 ATT-AT-TAATAA--TAATAAT
4669622 ATT-TTAATAA
1 ATTATTAATAA
4669632 AGATATTTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 12
0.71 0.07 0.21
Matches are distributed among these distances:
17 1 0.03
18 9 0.22
19 16 0.40
20 4 0.10
21 1 0.03
22 7 0.17
23 2 0.05
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (18 bp):
ATTATTAATAATAATAAT
Found at i:4669606 original size:27 final size:27
Alignment explanation
Indices: 4669526--4669611 Score: 70
Period size: 27 Copynumber: 3.1 Consensus size: 27
4669516 ATAAAAATTT
* *
4669526 ATATTATTTAT-TAATTTCATAGAAATA
1 ATATTATTTATAT-ATTTAATATAAATA
* *
4669553 ATATTA-TTAAAT-TATTAATAATGAATA
1 ATATTATTTATATAT-TTAAT-ATAAATA
4669580 ATATTATTTATATATTTAATATTAATATA
1 ATATTATTTATATATTTAATA-TAA-ATA
4669609 ATA
1 ATA
4669612 ATCTAATAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 12
0.72 0.09 0.19
Matches are distributed among these distances:
25 1 0.02
26 7 0.15
27 19 0.41
28 12 0.26
29 7 0.15
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.49
Consensus pattern (27 bp):
ATATTATTTATATATTTAATATAAATA
Found at i:4669652 original size:23 final size:23
Alignment explanation
Indices: 4669626--4669670 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
4669616 AATAATATTT
4669626 TAATAAAGATATTTAAAATATAC
1 TAATAAAGATATTTAAAATATAC
* * *
4669649 TAATTAATATTTTTAAAATATA
1 TAATAAAGATATTTAAAATATA
4669671 ATATTACACT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (23 bp):
TAATAAAGATATTTAAAATATAC
Found at i:4671052 original size:20 final size:17
Alignment explanation
Indices: 4671011--4671046 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
4671001 AAGTTCTTAA
*
4671011 GTTAGCTTGGTGGTTGG
1 GTTAACTTGGTGGTTGG
4671028 GTTAACTTGGTGGTTGG
1 GTTAACTTGGTGGTTGG
4671045 GT
1 GT
4671047 GTTTAATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.08, C:0.06, G:0.44, T:0.42
Consensus pattern (17 bp):
GTTAACTTGGTGGTTGG
Found at i:4672623 original size:25 final size:25
Alignment explanation
Indices: 4672595--4672642 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
4672585 TTTTTCCTGC
4672595 TATATATATA-TATTTATTATTATAT
1 TATATATATATTA-TTATTATTATAT
*
4672620 TATATATTTATTATTATTATTAT
1 TATATATATATTATTATTATTAT
4672643 TACATAACCC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 19 0.90
26 2 0.10
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (25 bp):
TATATATATATTATTATTATTATAT
Found at i:4672625 original size:19 final size:19
Alignment explanation
Indices: 4672595--4672642 Score: 78
Period size: 19 Copynumber: 2.4 Consensus size: 19
4672585 TTTTTCCTGC
4672595 TATATATATATATTTATTAT
1 TATAT-TATATATTTATTAT
4672615 TATATTATATATTTATTAT
1 TATATTATATATTTATTAT
4672634 TATTATTAT
1 TA-TATTAT
4672643 TACATAACCC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 16 0.59
20 11 0.41
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
TATATTATATATTTATTAT
Found at i:4672917 original size:25 final size:24
Alignment explanation
Indices: 4672872--4672918 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
4672862 CAAATCCAAT
* *
4672872 AAAAAAAGAAATCAAATCTAATAA
1 AAAAAAACAAATCAAACCTAATAA
*
4672896 AAAACAAACAAATCACACCTAAT
1 AAAA-AAACAAATCAAACCTAAT
4672919 CCTTGTTTCT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 4 0.21
25 15 0.79
ACGTcount: A:0.66, C:0.17, G:0.02, T:0.15
Consensus pattern (24 bp):
AAAAAAACAAATCAAACCTAATAA
Found at i:4675344 original size:34 final size:30
Alignment explanation
Indices: 4675306--4675374 Score: 95
Period size: 30 Copynumber: 2.2 Consensus size: 30
4675296 TTGATATAAC
4675306 AATTTAAGGCAAAATGGTTTTTGGACTTGAATTG
1 AATTTAA--CAAAAT-GTTTTTGGACTT-AATTG
4675340 AATTT-ACAAAATGTTTTTGGACTTAATTG
1 AATTTAACAAAATGTTTTTGGACTTAATTG
4675369 AATTTA
1 AATTTA
4675375 TTCAAAGTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
29 10 0.29
30 12 0.35
31 6 0.18
33 1 0.03
34 5 0.15
ACGTcount: A:0.35, C:0.06, G:0.17, T:0.42
Consensus pattern (30 bp):
AATTTAACAAAATGTTTTTGGACTTAATTG
Found at i:4675385 original size:29 final size:30
Alignment explanation
Indices: 4675315--4675374 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
4675305 CAATTTAAGG
4675315 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAAT-GTTTTTGGACTTGAATTGAATTTA
4675346 CAAAATGTTTTTGGACTT-AATTGAATTTA
1 CAAAATGTTTTTGGACTTGAATTGAATTTA
4675375 TTCAAAGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 11 0.38
30 12 0.41
31 6 0.21
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (30 bp):
CAAAATGTTTTTGGACTTGAATTGAATTTA
Found at i:4675524 original size:18 final size:18
Alignment explanation
Indices: 4675491--4675558 Score: 88
Period size: 18 Copynumber: 3.9 Consensus size: 18
4675481 ATTGCTCGGA
4675491 GGGTATCTATACCCCCCAG
1 GGGTATCTATA-CCCCCAG
*
4675510 GGGTATCCATA-CCCC--
1 GGGTATCTATACCCCCAG
*
4675525 GGGTATCGATACCCCCAG
1 GGGTATCTATACCCCCAG
4675543 GGGTATCTATACCCCC
1 GGGTATCTATACCCCC
4675559 TGGCTGCAAC
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
15 10 0.23
16 4 0.09
17 4 0.09
18 15 0.35
19 10 0.23
ACGTcount: A:0.21, C:0.37, G:0.22, T:0.21
Consensus pattern (18 bp):
GGGTATCTATACCCCCAG
Found at i:4675530 original size:15 final size:15
Alignment explanation
Indices: 4675510--4675539 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4675500 TACCCCCCAG
4675510 GGGTATCCATACCCC
1 GGGTATCCATACCCC
*
4675525 GGGTATCGATACCCC
1 GGGTATCCATACCCC
4675540 CAGGGGTATC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.20, C:0.37, G:0.23, T:0.20
Consensus pattern (15 bp):
GGGTATCCATACCCC
Found at i:4675545 original size:33 final size:34
Alignment explanation
Indices: 4675491--4675557 Score: 109
Period size: 33 Copynumber: 2.0 Consensus size: 34
4675481 ATTGCTCGGA
*
4675491 GGGTATCTATACCCCCCAGGGGTATCCATACCCC
1 GGGTATCGATACCCCCCAGGGGTATCCATACCCC
*
4675525 GGGTATCGATA-CCCCCAGGGGTATCTATACCCC
1 GGGTATCGATACCCCCCAGGGGTATCCATACCCC
4675558 CTGGCTGCAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 21 0.68
34 10 0.32
ACGTcount: A:0.21, C:0.36, G:0.22, T:0.21
Consensus pattern (34 bp):
GGGTATCGATACCCCCCAGGGGTATCCATACCCC
Found at i:4675613 original size:21 final size:21
Alignment explanation
Indices: 4675589--4675630 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
4675579 ATTTGAATTT
*
4675589 TATGAAGTAGTACTGATACCC
1 TATGAAGGAGTACTGATACCC
*
4675610 TATGAAGGGGTACTGATACCC
1 TATGAAGGAGTACTGATACCC
4675631 CCTATCGTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (21 bp):
TATGAAGGAGTACTGATACCC
Found at i:4676884 original size:20 final size:19
Alignment explanation
Indices: 4676842--4676889 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
4676832 AAATGATTTT
*
4676842 ATTTTGAAAACAAAAATAG
1 ATTTTGAAAACAAAAATAA
* *
4676861 ATTTTGAAAGCCAAAATGAA
1 ATTTTGAAAACAAAAAT-AA
4676881 ATTTT-AAAA
1 ATTTTGAAAA
4676890 AAGGATTTAG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
19 18 0.75
20 6 0.25
ACGTcount: A:0.54, C:0.06, G:0.10, T:0.29
Consensus pattern (19 bp):
ATTTTGAAAACAAAAATAA
Found at i:4678042 original size:19 final size:20
Alignment explanation
Indices: 4678018--4678064 Score: 62
Period size: 19 Copynumber: 2.4 Consensus size: 20
4678008 TATTTTTTCC
4678018 AACAATTGGTTAT-CTTTT-T
1 AACAATTGG-TATCCTTTTGT
*
4678037 AACAATTAGTATCCTTTTGT
1 AACAATTGGTATCCTTTTGT
4678057 AACAATTG
1 AACAATTG
4678065 ATATGTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 3 0.12
19 13 0.54
20 8 0.33
ACGTcount: A:0.32, C:0.13, G:0.11, T:0.45
Consensus pattern (20 bp):
AACAATTGGTATCCTTTTGT
Found at i:4678214 original size:34 final size:30
Alignment explanation
Indices: 4678176--4678244 Score: 95
Period size: 30 Copynumber: 2.2 Consensus size: 30
4678166 TTGATATAAC
4678176 AATTTAAGGCAAAATGGTTTTTGGACTTGAATTG
1 AATTTAA--CAAAAT-GTTTTTGGACTT-AATTG
4678210 AATTT-ACAAAATGTTTTTGGACTTAATTG
1 AATTTAACAAAATGTTTTTGGACTTAATTG
4678239 AATTTA
1 AATTTA
4678245 TTCAAAGTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
29 10 0.29
30 12 0.35
31 6 0.18
33 1 0.03
34 5 0.15
ACGTcount: A:0.35, C:0.06, G:0.17, T:0.42
Consensus pattern (30 bp):
AATTTAACAAAATGTTTTTGGACTTAATTG
Found at i:4678255 original size:29 final size:30
Alignment explanation
Indices: 4678185--4678244 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
4678175 CAATTTAAGG
4678185 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAAT-GTTTTTGGACTTGAATTGAATTTA
4678216 CAAAATGTTTTTGGACTT-AATTGAATTTA
1 CAAAATGTTTTTGGACTTGAATTGAATTTA
4678245 TTCAAAGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 11 0.38
30 12 0.41
31 6 0.21
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (30 bp):
CAAAATGTTTTTGGACTTGAATTGAATTTA
Found at i:4678385 original size:19 final size:19
Alignment explanation
Indices: 4678361--4678430 Score: 76
Period size: 19 Copynumber: 3.8 Consensus size: 19
4678351 ATTGCTCGGA
4678361 GGGTATCTATACCCCCCAG
1 GGGTATCTATACCCCCCAG
*
4678380 GGGTATCCATA--CCCC--
1 GGGTATCTATACCCCCCAG
* *
4678395 GGGTATCGATACACCCACAG
1 GGGTATCTATAC-CCCCCAG
4678415 GGGTATCTATACCCCC
1 GGGTATCTATACCCCC
4678431 TGGCTGCAAC
Statistics
Matches: 41, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
15 10 0.24
17 4 0.10
18 3 0.07
19 13 0.32
20 11 0.27
ACGTcount: A:0.23, C:0.36, G:0.21, T:0.20
Consensus pattern (19 bp):
GGGTATCTATACCCCCCAG
Found at i:4678418 original size:35 final size:34
Alignment explanation
Indices: 4678361--4678429 Score: 102
Period size: 35 Copynumber: 2.0 Consensus size: 34
4678351 ATTGCTCGGA
* *
4678361 GGGTATCTATACCCCCCAGGGGTATCCATACCCC
1 GGGTATCGATACCCCACAGGGGTATCCATACCCC
*
4678395 GGGTATCGATACACCCACAGGGGTATCTATACCCC
1 GGGTATCGATAC-CCCACAGGGGTATCCATACCCC
4678430 CTGGCTGCAA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
34 11 0.35
35 20 0.65
ACGTcount: A:0.23, C:0.35, G:0.22, T:0.20
Consensus pattern (34 bp):
GGGTATCGATACCCCACAGGGGTATCCATACCCC
Found at i:4678569 original size:20 final size:21
Alignment explanation
Indices: 4678531--4678569 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
4678521 TTTTAGCAGA
*
4678531 AAAATCATCCCAAATGGCTCC
1 AAAATCATCCCAAACGGCTCC
*
4678552 AAAA-CATCCCCAACGGCT
1 AAAATCATCCCAAACGGCT
4678570 ATATACGACT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.38, C:0.36, G:0.10, T:0.15
Consensus pattern (21 bp):
AAAATCATCCCAAACGGCTCC
Found at i:4681915 original size:20 final size:20
Alignment explanation
Indices: 4681890--4681980 Score: 83
Period size: 20 Copynumber: 4.5 Consensus size: 20
4681880 TCATCTTTGT
*
4681890 ATCTTTACAGTCGCATTCGC
1 ATCTTTACATTCGCATTCGC
* * *
4681910 ATCTTTATATTTGCGTTCGC
1 ATCTTTACATTCGCATTCGC
* * *
4681930 ATATTTACATTCACATTCAC
1 ATCTTTACATTCGCATTCGC
* * *
4681950 ATCTTTGCATTTGCATTCTC
1 ATCTTTACATTCGCATTCGC
*
4681970 ATCTTTGCATT
1 ATCTTTACATT
4681981 GGAATTCATA
Statistics
Matches: 56, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 56 1.00
ACGTcount: A:0.21, C:0.24, G:0.10, T:0.45
Consensus pattern (20 bp):
ATCTTTACATTCGCATTCGC
Found at i:4681987 original size:20 final size:20
Alignment explanation
Indices: 4681944--4681988 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
4681934 TTACATTCAC
* *
4681944 ATTCACATCTTTGCATTTGC
1 ATTCACATCTTTGCATTGGA
*
4681964 ATTCTCATCTTTGCATTGGA
1 ATTCACATCTTTGCATTGGA
4681984 ATTCA
1 ATTCA
4681989 TATTCGTATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.22, C:0.22, G:0.11, T:0.44
Consensus pattern (20 bp):
ATTCACATCTTTGCATTGGA
Found at i:4684927 original size:20 final size:20
Alignment explanation
Indices: 4684893--4684941 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
4684883 AATGATTTTC
* * *
4684893 TTTTG-AAAGCAAAATTAGA
1 TTTTGAAAAACAAAATGAAA
4684912 TTTTGAAAAACAAAATGAAA
1 TTTTGAAAAACAAAATGAAA
4684932 TTTTGAAAAA
1 TTTTGAAAAA
4684942 TGACTTAGAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 5 0.19
20 21 0.81
ACGTcount: A:0.53, C:0.04, G:0.12, T:0.31
Consensus pattern (20 bp):
TTTTGAAAAACAAAATGAAA
Found at i:4686524 original size:21 final size:22
Alignment explanation
Indices: 4686487--4686527 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
4686477 TTAAATATTA
4686487 TAAAGGTAGTACTGATACTCAT
1 TAAAGGTAGTACTGATACTCAT
4686509 TAAAGG-AGTA-TCGATACTC
1 TAAAGGTAGTACT-GATACTC
4686528 CCTGTTCTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 1 0.06
21 11 0.61
22 6 0.33
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.29
Consensus pattern (22 bp):
TAAAGGTAGTACTGATACTCAT
Found at i:4708343 original size:15 final size:15
Alignment explanation
Indices: 4708323--4708354 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
4708313 TTTCGATTTG
*
4708323 AAAAAAATCGGTTAT
1 AAAAAAATCGATTAT
4708338 AAAAAAATCGATTAT
1 AAAAAAATCGATTAT
4708353 AA
1 AA
4708355 TATTATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.59, C:0.06, G:0.09, T:0.25
Consensus pattern (15 bp):
AAAAAAATCGATTAT
Found at i:4708443 original size:33 final size:33
Alignment explanation
Indices: 4708396--4708499 Score: 174
Period size: 33 Copynumber: 3.2 Consensus size: 33
4708386 ACAAAGTTTA
* *
4708396 CGAT-AATTGAAATACTTAAATACTTCCAAGTT
1 CGATAAATTCAAATACTTAAAAACTTCCAAGTT
4708428 CGATAAATTCAAATACTTAAAAACTTCCAAGTT
1 CGATAAATTCAAATACTTAAAAACTTCCAAGTT
*
4708461 CGATAAATTCAAATATTTAAAAACTTCCAAGTT
1 CGATAAATTCAAATACTTAAAAACTTCCAAGTT
4708494 CGATAA
1 CGATAA
4708500 TTGAAACAAA
Statistics
Matches: 68, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
32 4 0.06
33 64 0.94
ACGTcount: A:0.44, C:0.16, G:0.08, T:0.32
Consensus pattern (33 bp):
CGATAAATTCAAATACTTAAAAACTTCCAAGTT
Found at i:4708519 original size:21 final size:21
Alignment explanation
Indices: 4708494--4708535 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
4708484 CTTCCAAGTT
4708494 CGATAATTGAAACAAAGTTTA
1 CGATAATTGAAACAAAGTTTA
*
4708515 CGATAATTGAAATAAAGTTTA
1 CGATAATTGAAACAAAGTTTA
4708536 AAAATAAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.48, C:0.07, G:0.14, T:0.31
Consensus pattern (21 bp):
CGATAATTGAAACAAAGTTTA
Found at i:4713408 original size:6 final size:6
Alignment explanation
Indices: 4713397--4713439 Score: 86
Period size: 6 Copynumber: 7.2 Consensus size: 6
4713387 TGCTGTCAAT
4713397 AACTCC AACTCC AACTCC AACTCC AACTCC AACTCC AACTCC A
1 AACTCC AACTCC AACTCC AACTCC AACTCC AACTCC AACTCC A
4713440 CTTTGTCTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.35, C:0.49, G:0.00, T:0.16
Consensus pattern (6 bp):
AACTCC
Found at i:4718226 original size:2 final size:2
Alignment explanation
Indices: 4718219--4718247 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
4718209 TCTGCCCCTG
4718219 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4718248 ATTGAGTAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4722255 original size:20 final size:21
Alignment explanation
Indices: 4722209--4722255 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
4722199 TGTACTATGC
*
4722209 TGAAAATTAATGTTAGACTGT
1 TGAAAATTAATGTTAGAATGT
* *
4722230 TG-AAATTGATTTTAGAATG-
1 TGAAAATTAATGTTAGAATGT
4722249 TGAAAAT
1 TGAAAAT
4722256 GAATAATTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
19 2 0.09
20 18 0.82
21 2 0.09
ACGTcount: A:0.40, C:0.02, G:0.19, T:0.38
Consensus pattern (21 bp):
TGAAAATTAATGTTAGAATGT
Found at i:4724935 original size:2 final size:2
Alignment explanation
Indices: 4724928--4724958 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
4724918 TATGCACTGT
4724928 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4724959 TCCTTTATGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4725360 original size:162 final size:162
Alignment explanation
Indices: 4725055--4725943 Score: 1271
Period size: 162 Copynumber: 5.4 Consensus size: 162
4725045 AAATTAATCC
* * * * * *** * *
4725055 TTCATCCAACTTGCATTATTGGCATCTTTCTGCCAAATGCACCTTTA-GACATTTAGTCTTTTAC
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCA-TTAATCTTTTAC
* * * *
4725119 CCAAAGGTATTTAATCTTTCATCTAACTGGCATGATTGACACCTTTCTGCCAAATGCACAATTAG
65 TCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAACTAG
** *
4725184 GCTTTTAGTCTTTTACTCAAAGGTATTTAACCT
130 GCCATTAATCTTTTACTCAAAGGTATTTAACCT
* *
4725217 TTCATCTAACTGTCATAATTGACACCTTTATGCCAAATGCACAGCTAGGCCATTAATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTTACT
* *
4725282 CAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTATGCCAAATGCACATCTAGG
66 CAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAACTAGG
4725347 CCATTAATCTTTTACTCAAAGGTATTTAACCT
131 CCATTAATCTTTTACTCAAAGGTATTTAACCT
* *
4725379 TTAATCTAACTGGCATAATTGACATCTTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTTACT
* * *
4725444 CAAAGGTATTTAACCTTTCATCTAACTGGAATAATTGACACCTTTATGCCAAATGCA-AAGATAG
66 CAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAA-CTAG
*
4725508 GCCATTAATCGTTTACTCAAAGGTATTTAACCT
130 GCCATTAATCTTTTACTCAAAGGTATTTAACCT
* * * *
4725541 TTCATATAACTGGCATAATTGACACATTTCTACTAAATGCACAGCTAGGCCATTAATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTTACT
**
4725606 CAAAGGT-TTTAACCTTTCATCTAACTGGCATAATTGACATATTTCTGCCAAATGCACAACTAGG
66 CAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAACTAGG
4725670 CCATTAATCTTTTACTCAAAGGTATTTAACCT
131 CCATTAATCTTTTACTCAAAGGTATTTAACCT
4725702 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAACTAGGCAATGCACAACTAGGC
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATG-----C-A--C-A-G-----CTAGGC
*
4725767 CATTAATATTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCC
51 CATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCC
*
4725832 AAATGCACAACTAGACCATTAATCTTTTACTCAAAGGTATTTAACCT
116 AAATGCACAACTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCT
* *
4725879 TTCATCTAACTAGCATAATTGACACCTTTCTACCAAATGCACAGCTAGGCCATTAATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTTACT
4725944 TTAGAACAAT
Statistics
Matches: 656, Mismatches: 52, Indels: 38
0.88 0.07 0.05
Matches are distributed among these distances:
161 116 0.18
162 377 0.57
163 3 0.00
166 1 0.00
167 2 0.00
168 1 0.00
169 2 0.00
170 1 0.00
171 2 0.00
172 1 0.00
176 27 0.04
177 123 0.19
ACGTcount: A:0.31, C:0.23, G:0.12, T:0.34
Consensus pattern (162 bp):
TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTTACT
CAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAACTAGG
CCATTAATCTTTTACTCAAAGGTATTTAACCT
Found at i:4725513 original size:243 final size:243
Alignment explanation
Indices: 4725055--4725943 Score: 1269
Period size: 243 Copynumber: 3.6 Consensus size: 243
4725045 AAATTAATCC
* * * * * * * * *
4725055 TTCATCCAACTTGCATTATTGGCATCTTTCTGCCAAATGCACCTTTA-GACATTTAGTCTTTTAC
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACATCTAGGCCA-TTAATCTTTTAC
* * * *
4725119 CCAAAGGTATTTAATCTTTCATCTAACTGGCATGATTGACACCTTTCTGCCAAATGCACAATTAG
65 TCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAACTAG
** * *
4725184 GCTTTTAGTCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGTCATAATTGACACCTTTATG
130 GCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTATG
* *
4725249 CCAAATGCACAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCT
195 CCAAATGCAAAGATAGGCCATTAATCTTTTACTCAAAGGTATTTAACCT
*
4725298 TTCATCTAACTGGCATAATTGACACCTTTATGCCAAATGCACATCTAGGCCATTAATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACATCTAGGCCATTAATCTTTTACT
* * *
4725363 CAAAGGTATTTAACCTTTAATCTAACTGGCATAATTGACATCTTTCTGCCAAATGCACAGCTAGG
66 CAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAACTAGG
*
4725428 CCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGAATAATTGACACCTTTATGC
131 CCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTATGC
*
4725493 CAAATGCAAAGATAGGCCATTAATCGTTTACTCAAAGGTATTTAACCT
196 CAAATGCAAAGATAGGCCATTAATCTTTTACTCAAAGGTATTTAACCT
* * * * *
4725541 TTCATATAACTGGCATAATTGACACATTTCTACTAAATGCACAGCTAGGCCATTAATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACATCTAGGCCATTAATCTTTTACT
**
4725606 CAAAGGT-TTTAACCTTTCATCTAACTGGCATAATTGACATATTTCTGCCAAATGCACAACTAGG
66 CAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAACTAGG
*
4725670 CCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGC
131 CCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTATGC
*
4725735 CAAATGCACAACTAGGCAATGCACAACTAGGCCATTAATATTTTACTCAAAGGTATTTAACCT
196 CAAATG-----C-A---AA-G----A-TAGGCCATTAATCTTTTACTCAAAGGTATTTAACCT
* *
4725798 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAACTAGACCATTAATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACATCTAGGCCATTAATCTTTTACT
* * *
4725863 CAAAGGTATTTAACCTTTCATCTAACTAGCATAATTGACACCTTTCTACCAAATGCACAGCTAGG
66 CAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAACTAGG
4725928 CCATTAATCTTTTACT
131 CCATTAATCTTTTACT
4725944 TTAGAACAAT
Statistics
Matches: 580, Mismatches: 49, Indels: 19
0.90 0.08 0.03
Matches are distributed among these distances:
242 123 0.21
243 280 0.48
244 3 0.01
247 1 0.00
248 1 0.00
251 2 0.00
252 1 0.00
256 1 0.00
257 100 0.17
258 68 0.12
ACGTcount: A:0.31, C:0.23, G:0.12, T:0.34
Consensus pattern (243 bp):
TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACATCTAGGCCATTAATCTTTTACT
CAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAACTAGG
CCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTATGC
CAAATGCAAAGATAGGCCATTAATCTTTTACTCAAAGGTATTTAACCT
Found at i:4725757 original size:15 final size:15
Alignment explanation
Indices: 4725737--4725766 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
4725727 CTTTCTGCCA
4725737 AATGCACAACTAGGC
1 AATGCACAACTAGGC
4725752 AATGCACAACTAGGC
1 AATGCACAACTAGGC
4725767 CATTAATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.27, G:0.20, T:0.13
Consensus pattern (15 bp):
AATGCACAACTAGGC
Done.