Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008016.1 Hibiscus syriacus cultivar Beakdansim tig00110482_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: 5469637
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 8 of 25
Found at i:1703146 original size:19 final size:19
Alignment explanation
Indices: 1703122--1703182 Score: 59
Period size: 19 Copynumber: 3.0 Consensus size: 19
1703112 ATTTGGTTTT
1703122 TTTATTTTTATTATTATTA
1 TTTATTTTTATTATTATTA
**
1703141 TTTATTAGTATTATTATTAA
1 TTTATTTTTATTATTATT-A
*
1703161 TAATATTATTTATTATATATTA
1 T-TTATT-TTTATTAT-TATTA
1703183 CAGGCCCAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
19 16 0.48
20 2 0.06
21 4 0.12
22 7 0.21
23 4 0.12
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (19 bp):
TTTATTTTTATTATTATTA
Found at i:1704860 original size:20 final size:19
Alignment explanation
Indices: 1704835--1704876 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
1704825 CTATTTTATA
1704835 AATTATATATTAATTGTTTT
1 AATTATATATTAATT-TTTT
* *
1704855 AATTATTTATTTATTTTTT
1 AATTATATATTAATTTTTT
1704874 AAT
1 AAT
1704877 ATCGAAGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (19 bp):
AATTATATATTAATTTTTT
Found at i:1704985 original size:23 final size:26
Alignment explanation
Indices: 1704932--1704984 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 26
1704922 ATATTTCTAA
1704932 ATAAATAAATATTTTATTTATAAATAT
1 ATAAATAAATATTTTATTTAT-AATAT
* *
1704959 ATAAATTAATATTTTTTTTAT-ATAT
1 ATAAATAAATATTTTATTTATAATAT
1704984 A
1 A
1704985 ATTATAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 5 0.21
27 19 0.79
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (26 bp):
ATAAATAAATATTTTATTTATAATAT
Found at i:1710523 original size:10 final size:10
Alignment explanation
Indices: 1710508--1710537 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
1710498 AAAGAAAGAA
1710508 GAAAAAAAAG
1 GAAAAAAAAG
*
1710518 GAAAAAAAAA
1 GAAAAAAAAG
1710528 GAAAAAAAAG
1 GAAAAAAAAG
1710538 AAGGAAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (10 bp):
GAAAAAAAAG
Found at i:1710535 original size:23 final size:23
Alignment explanation
Indices: 1710502--1710545 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
1710492 TCCAGCAAAG
*
1710502 AAAGAAGAAAAAAAAGGAAAAAA
1 AAAGAAAAAAAAAAAGGAAAAAA
*
1710525 AAAGAAAAAAAAGAAGGAAAA
1 AAAGAAAAAAAAAAAGGAAAA
1710546 TTGAATCAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (23 bp):
AAAGAAAAAAAAAAAGGAAAAAA
Found at i:1710545 original size:10 final size:9
Alignment explanation
Indices: 1710506--1710539 Score: 50
Period size: 9 Copynumber: 3.6 Consensus size: 9
1710496 GCAAAGAAAG
1710506 AAGAAAAAA
1 AAGAAAAAA
1710515 AAGGAAAAAAA
1 AA-G-AAAAAA
1710526 AAGAAAAAA
1 AAGAAAAAA
1710535 AAGAA
1 AAGAA
1710540 GGAAAATTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
9 13 0.57
10 2 0.09
11 8 0.35
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (9 bp):
AAGAAAAAA
Found at i:1710545 original size:20 final size:20
Alignment explanation
Indices: 1710499--1710537 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1710489 TTATCCAGCA
*
1710499 AAGAAAGAAGAAAAAAAAGG
1 AAGAAAAAAGAAAAAAAAGG
*
1710519 AAAAAAAAAGAAAAAAAAG
1 AAGAAAAAAGAAAAAAAAG
1710538 AAGGAAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (20 bp):
AAGAAAAAAGAAAAAAAAGG
Found at i:1715482 original size:22 final size:22
Alignment explanation
Indices: 1715454--1715505 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
1715444 TACACTCTTC
*
1715454 AAAGATGATAGATTCCCTTTTT
1 AAAGATGACAGATTCCCTTTTT
*
1715476 AAAGATGACAGATTCTCTTTTT
1 AAAGATGACAGATTCCCTTTTT
1715498 AAAGATGA
1 AAAGATGA
1715506 AAGCTTTATC
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:0.37, C:0.12, G:0.15, T:0.37
Consensus pattern (22 bp):
AAAGATGACAGATTCCCTTTTT
Found at i:1716110 original size:113 final size:113
Alignment explanation
Indices: 1715921--1716652 Score: 1050
Period size: 113 Copynumber: 6.6 Consensus size: 113
1715911 CCATCATTTA
** * *
1715921 ATGGATCAACATTTTTAGTTAGAGTTCATAATAAAAAGAACTCATCTGAAGAAGGAAGAAGAAAT
1 ATGGATCAACATTTCCAGTTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAAT
* * *
1715986 TCATAATGAGAAGAATTTGTTCAACTTTTTGCTTGAATTCATCACTTG
66 TCATAATGAGAAGAACTTGTTCAACTTTTTGCTTAAATTCATCACTCG
* * * *
1716034 ATTGATCAACATTTCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGT
1 ATGGATCAACATTTCCAGTTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAAT
1716099 TCATAATGAGAAGAACTTGTTCAACTTTTTGCTTAAATTCATCACTCG
66 TCATAATGAGAAGAACTTGTTCAACTTTTTGCTTAAATTCATCACTCG
* * * * *
1716147 GTGGATCAGCAGTGCCAATTAGAGTTCATAAT--GAAGAACTCATCTGAAGAAGGAAGAAGAAAT
1 ATGGATCAACATTTCCAGTTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAAT
* * *
1716210 TCAT-A--AGAAGAATTTGTTCAAC-TTTTGCTT-GATTCATCACTTG
66 TCATAATGAGAAGAACTTGTTCAACTTTTTGCTTAAATTCATCACTCG
* * * *
1716253 ATGGATCAACATTT-CAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAATAAGT
1 ATGGATCAACATTTCCAGTTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAAT
*
1716317 TCATAATGAGAAGAACTTGTTTAACTTTTTGCTTAAATTCATCACTCG
66 TCATAATGAGAAGAACTTGTTCAACTTTTTGCTTAAATTCATCACTCG
* * * *
1716365 GTGGATCAGCAGTGCCAGTTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAAT
1 ATGGATCAACATTTCCAGTTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAAT
* * *
1716430 TCATAATGAGAAGAATTTGTTCAAC-TTTTGCTTGAATTCATCACTTG
66 TCATAATGAGAAGAACTTGTTCAACTTTTTGCTTAAATTCATCACTCG
* * *
1716477 ATGGATCAACATTTCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGT
1 ATGGATCAACATTTCCAGTTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAAT
1716542 TCATAATGAGAAGAACTTGTTCAACTTTTTGCTTAAATTCATCACTCG
66 TCATAATGAGAAGAACTTGTTCAACTTTTTGCTTAAATTCATCACTCG
* * * * *
1716590 GTGGATCAGCAGTGCCAGTTAGAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAA
1 ATGGATCAACATTTCCAGTTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
1716653 TTTGTTCAAC
Statistics
Matches: 545, Mismatches: 65, Indels: 18
0.87 0.10 0.03
Matches are distributed among these distances:
105 15 0.03
106 21 0.04
107 40 0.07
108 17 0.03
110 16 0.03
111 41 0.08
112 123 0.23
113 272 0.50
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.29
Consensus pattern (113 bp):
ATGGATCAACATTTCCAGTTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAAT
TCATAATGAGAAGAACTTGTTCAACTTTTTGCTTAAATTCATCACTCG
Found at i:1716555 original size:225 final size:226
Alignment explanation
Indices: 1715937--1717668 Score: 2918
Period size: 225 Copynumber: 7.8 Consensus size: 226
1715927 CAACATTTTT
* *
1715937 AGTTAGAGTTCATAATAAAAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAAT
1 AGTTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAAT
*
1716002 TTGTTCAACTTTTTGCTTGAATTCATCACTTGATTGATCAACATTTCCAGGTAGAGTTCATAATG
66 TTGTTCAACTTTTTGCTTGAATTCATCACTTGATGGATCAACATTTCCAGGTAGAGTTCATAATG
1716067 AGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCT
131 AGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCT
1716132 TAAATTCATCACTCGGTGGATCAGCAGTGCC
196 TAAATTCATCACTCGGTGGATCAGCAGTGCC
*
1716163 AATTAGAGTTCATAAT--GAAGAACTCATCTGAAGAAGGAAGAAGAAATTCAT-A--AGAAGAAT
1 AGTTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAAT
1716223 TTGTTCAAC-TTTTGCTTG-ATTCATCACTTGATGGATCAACATTT-CAGGTAGAGTTCATAATG
66 TTGTTCAACTTTTTGCTTGAATTCATCACTTGATGGATCAACATTTCCAGGTAGAGTTCATAATG
* *
1716285 AGAAGAACTCATCTGAAGAAGAAAGAATAAGTTCATAATGAGAAGAACTTGTTTAACTTTTTGCT
131 AGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCT
1716350 TAAATTCATCACTCGGTGGATCAGCAGTGCC
196 TAAATTCATCACTCGGTGGATCAGCAGTGCC
1716381 AGTTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAAT
1 AGTTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAAT
1716446 TTGTTCAAC-TTTTGCTTGAATTCATCACTTGATGGATCAACATTTCCAGGTAGAGTTCATAATG
66 TTGTTCAACTTTTTGCTTGAATTCATCACTTGATGGATCAACATTTCCAGGTAGAGTTCATAATG
1716510 AGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCT
131 AGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCT
1716575 TAAATTCATCACTCGGTGGATCAGCAGTGCC
196 TAAATTCATCACTCGGTGGATCAGCAGTGCC
*
1716606 AGTTAGAGTTCATAATAAGAAGAACTCATCT---GAA-GAAG--G---------A--AGAAGAAT
1 AGTTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAAT
1716654 TTGTTCAACTTTTTGCTTGAATTCATCACTTGATGGATCAACATTTCCAGGTAGAGTTCATAATG
66 TTGTTCAACTTTTTGCTTGAATTCATCACTTGATGGATCAACATTTCCAGGTAGAGTTCATAATG
*
1716719 AGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATGAGAAGAACTTGTTTAACTTTTTGCT
131 AGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCT
1716784 TAAATTCATCACTCGGTGGATCAGCAGTGCC
196 TAAATTCATCACTCGGTGGATCAGCAGTGCC
1716815 AGTTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAAT
1 AGTTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAAT
1716880 TTGTTCAACTTTTTGCTTGAATTCATCACTTGATGGATCAACATTTCCAGGTAGAGTTCATAATG
66 TTGTTCAACTTTTTGCTTGAATTCATCACTTGATGGATCAACATTTCCAGGTAGAGTTCATAATG
1716945 AGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCT
131 AGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCT
1717010 TAAATTCATCACTCGGTGGATCAGCAGTGCC
196 TAAATTCATCACTCGGTGGATCAGCAGTGCC
1717041 AGTTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAAT
1 AGTTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAAT
1717106 TTGTTCAACTTTTTGCTTGAATTCATCACTTGATGGATCAACATTT-CAGGTAGAGTTCATAATG
66 TTGTTCAACTTTTTGCTTGAATTCATCACTTGATGGATCAACATTTCCAGGTAGAGTTCATAATG
1717170 AGAAGAACTCATCTG-AGAAGAAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCT
131 AGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCT
1717234 TAAATTCATCACTCGGTGGATCAGCAGTGCC
196 TAAATTCATCACTCGGTGGATCAGCAGTGCC
*
1717265 AGTTAGAGTTCATAATGAGAAGAACTCATCTGAAGAATGAAGAAGAAATTCATAATGAGAAGAAT
1 AGTTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAAT
1717330 TTGTTCAACTTTTTGCTTGAATTCATCACTTGATGGATCAACATTTCCAGGTAGAGTTCATAATG
66 TTGTTCAACTTTTTGCTTGAATTCATCACTTGATGGATCAACATTTCCAGGTAGAGTTCATAATG
* * * * *
1717395 AGAAGAACTCATCTGAAG-AGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCC
131 AGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCT
* * * * * *
1717459 TGAATTCATCACTTGATGGATCAACATTTCC
196 TAAATTCATCACTCGGTGGATCAGCAGTGCC
* * *
1717490 AGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAAC
1 AGTTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAAT
* *
1717555 TTGTTCAACTTTTTGCTCGAATTCATCACTCGATGGATC-A-A----C---T----TTCATAATG
66 TTGTTCAACTTTTTGCTTGAATTCATCACTTGATGGATCAACATTTCCAGGTAGAGTTCATAATG
* *
1717607 AGAAGAACTCATCCGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAATCTTTT
131 AGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAA-CTTTT
1717669 GCATGATTCT
Statistics
Matches: 1443, Mismatches: 34, Indels: 70
0.93 0.02 0.05
Matches are distributed among these distances:
208 17 0.01
209 180 0.12
210 1 0.00
212 29 0.02
213 39 0.03
214 4 0.00
215 1 0.00
216 1 0.00
218 127 0.09
219 27 0.02
220 44 0.03
221 22 0.02
222 3 0.00
223 28 0.02
224 252 0.17
225 372 0.26
226 296 0.21
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.29
Consensus pattern (226 bp):
AGTTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAAT
TTGTTCAACTTTTTGCTTGAATTCATCACTTGATGGATCAACATTTCCAGGTAGAGTTCATAATG
AGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCT
TAAATTCATCACTCGGTGGATCAGCAGTGCC
Found at i:1716658 original size:96 final size:96
Alignment explanation
Indices: 1716550--1716748 Score: 308
Period size: 96 Copynumber: 2.1 Consensus size: 96
1716540 GTTCATAATG
* * *
1716550 AGAAGAACTTGTTCAACTTTTTGCTTAAATTCATCACTCGGTGGATCAGCAGTGCCAGTTAGAGT
1 AGAAGAACTTGTTCAACTTTTTGCTTAAATTCATCACTCGATGGATCAACAGTGCCAGGTAGAGT
*
1716615 TCATAATAAGAAGAACTCATCTGAAGAAGGA
66 TCATAATAAGAAGAACTCATCTGAAGAAGAA
* * * * *
1716646 AGAAGAATTTGTTCAACTTTTTGCTTGAATTCATCACTTGATGGATCAACATTTCCAGGTAGAGT
1 AGAAGAACTTGTTCAACTTTTTGCTTAAATTCATCACTCGATGGATCAACAGTGCCAGGTAGAGT
*
1716711 TCATAATGAGAAGAACTCATCTGAAGAAGAA
66 TCATAATAAGAAGAACTCATCTGAAGAAGAA
1716742 AGAAGAA
1 AGAAGAA
1716749 GTTCATAATG
Statistics
Matches: 93, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
96 93 1.00
ACGTcount: A:0.36, C:0.15, G:0.20, T:0.29
Consensus pattern (96 bp):
AGAAGAACTTGTTCAACTTTTTGCTTAAATTCATCACTCGATGGATCAACAGTGCCAGGTAGAGT
TCATAATAAGAAGAACTCATCTGAAGAAGAA
Found at i:1716844 original size:113 final size:113
Alignment explanation
Indices: 1716646--1717668 Score: 1565
Period size: 113 Copynumber: 9.2 Consensus size: 113
1716636 TGAAGAAGGA
*
1716646 AGAAGAATTTGTTCAACTTTTTGCTTGAATTCATCACTTGATGGATCAACATTTCCAGGTAGAGT
1 AGAAGAACTTGTTCAACTTTTTGCTTGAATTCATCACTTGATGGATCAACATTTCCAGGTAGAGT
*
1716711 TCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATG
66 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
* * * * * * * *
1716759 AGAAGAACTTGTTTAACTTTTTGCTTAAATTCATCACTCGGTGGATCAGCAGTGCCAGTTAGAGT
1 AGAAGAACTTGTTCAACTTTTTGCTTGAATTCATCACTTGATGGATCAACATTTCCAGGTAGAGT
*
1716824 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATG
66 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
*
1716872 AGAAGAATTTGTTCAACTTTTTGCTTGAATTCATCACTTGATGGATCAACATTTCCAGGTAGAGT
1 AGAAGAACTTGTTCAACTTTTTGCTTGAATTCATCACTTGATGGATCAACATTTCCAGGTAGAGT
*
1716937 TCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATG
66 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
* * * * * * *
1716985 AGAAGAACTTGTTCAACTTTTTGCTTAAATTCATCACTCGGTGGATCAGCAGTGCCAGTTAGAGT
1 AGAAGAACTTGTTCAACTTTTTGCTTGAATTCATCACTTGATGGATCAACATTTCCAGGTAGAGT
*
1717050 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATG
66 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
*
1717098 AGAAGAATTTGTTCAACTTTTTGCTTGAATTCATCACTTGATGGATCAACATTT-CAGGTAGAGT
1 AGAAGAACTTGTTCAACTTTTTGCTTGAATTCATCACTTGATGGATCAACATTTCCAGGTAGAGT
*
1717162 TCATAATGAGAAGAACTCATCTG-AGAAGAAAGAAGAAGTTCATAATG
66 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
* * * * * * *
1717209 AGAAGAACTTGTTCAACTTTTTGCTTAAATTCATCACTCGGTGGATCAGCAGTGCCAGTTAGAGT
1 AGAAGAACTTGTTCAACTTTTTGCTTGAATTCATCACTTGATGGATCAACATTTCCAGGTAGAGT
* *
1717274 TCATAATGAGAAGAACTCATCTGAAGAATGAAGAAGAAATTCATAATG
66 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
*
1717322 AGAAGAATTTGTTCAACTTTTTGCTTGAATTCATCACTTGATGGATCAACATTTCCAGGTAGAGT
1 AGAAGAACTTGTTCAACTTTTTGCTTGAATTCATCACTTGATGGATCAACATTTCCAGGTAGAGT
*
1717387 TCATAATGAGAAGAACTCATCTGAAG-AGGAAGAAGAAATTCATAATG
66 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
* * *
1717434 AGAAGAATTTGTTCAACCTTTTGCCTGAATTCATCACTTGATGGATCAACATTTCCAGGTAGAGT
1 AGAAGAACTTGTTCAACTTTTTGCTTGAATTCATCACTTGATGGATCAACATTTCCAGGTAGAGT
1717499 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
66 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
* *
1717547 AGAAGAACTTGTTCAACTTTTTGCTCGAATTCATCACTCGATGGATC-A-A----C---T----T
1 AGAAGAACTTGTTCAACTTTTTGCTTGAATTCATCACTTGATGGATCAACATTTCCAGGTAGAGT
*
1717599 TCATAATGAGAAGAACTCATCCGAAGAAGGAAGAAGAAGTTCATAATG
66 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
1717647 AGAAGAACTTGTTCAATCTTTT
1 AGAAGAACTTGTTCAA-CTTTT
1717669 GCATGATTCT
Statistics
Matches: 835, Mismatches: 71, Indels: 20
0.90 0.08 0.02
Matches are distributed among these distances:
100 64 0.08
101 5 0.01
104 1 0.00
107 1 0.00
111 70 0.08
112 174 0.21
113 520 0.62
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.29
Consensus pattern (113 bp):
AGAAGAACTTGTTCAACTTTTTGCTTGAATTCATCACTTGATGGATCAACATTTCCAGGTAGAGT
TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
Found at i:1716909 original size:226 final size:226
Alignment explanation
Indices: 1716646--1717668 Score: 1745
Period size: 226 Copynumber: 4.6 Consensus size: 226
1716636 TGAAGAAGGA
1716646 AGAAGAATTTGTTCAACTTTTTGCTTGAATTCATCACTTGATGGATCAACATTTCCAGGTAGAGT
1 AGAAGAATTTGTTCAACTTTTTGCTTGAATTCATCACTTGATGGATCAACATTTCCAGGTAGAGT
*
1716711 TCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATGAGAAGAACTTGTTTAAC
66 TCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAAC
1716776 TTTTTGCTTAAATTCATCACTCGGTGGATCAGCAGTGCCAGTTAGAGTTCATAATGAGAAGAACT
131 TTTTTGCTTAAATTCATCACTCGGTGGATCAGCAGTGCCAGTTAGAGTTCATAATGAGAAGAACT
1716841 CATCTGAAGAAGGAAGAAGAAATTCATAATG
196 CATCTGAAGAAGGAAGAAGAAATTCATAATG
1716872 AGAAGAATTTGTTCAACTTTTTGCTTGAATTCATCACTTGATGGATCAACATTTCCAGGTAGAGT
1 AGAAGAATTTGTTCAACTTTTTGCTTGAATTCATCACTTGATGGATCAACATTTCCAGGTAGAGT
1716937 TCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAAC
66 TCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAAC
1717002 TTTTTGCTTAAATTCATCACTCGGTGGATCAGCAGTGCCAGTTAGAGTTCATAATGAGAAGAACT
131 TTTTTGCTTAAATTCATCACTCGGTGGATCAGCAGTGCCAGTTAGAGTTCATAATGAGAAGAACT
1717067 CATCTGAAGAAGGAAGAAGAAATTCATAATG
196 CATCTGAAGAAGGAAGAAGAAATTCATAATG
1717098 AGAAGAATTTGTTCAACTTTTTGCTTGAATTCATCACTTGATGGATCAACATTT-CAGGTAGAGT
1 AGAAGAATTTGTTCAACTTTTTGCTTGAATTCATCACTTGATGGATCAACATTTCCAGGTAGAGT
1717162 TCATAATGAGAAGAACTCATCTG-AGAAGAAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAAC
66 TCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAAC
1717226 TTTTTGCTTAAATTCATCACTCGGTGGATCAGCAGTGCCAGTTAGAGTTCATAATGAGAAGAACT
131 TTTTTGCTTAAATTCATCACTCGGTGGATCAGCAGTGCCAGTTAGAGTTCATAATGAGAAGAACT
*
1717291 CATCTGAAGAATGAAGAAGAAATTCATAATG
196 CATCTGAAGAAGGAAGAAGAAATTCATAATG
1717322 AGAAGAATTTGTTCAACTTTTTGCTTGAATTCATCACTTGATGGATCAACATTTCCAGGTAGAGT
1 AGAAGAATTTGTTCAACTTTTTGCTTGAATTCATCACTTGATGGATCAACATTTCCAGGTAGAGT
* * *
1717387 TCATAATGAGAAGAACTCATCTGAAG-AGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAAC
66 TCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAAC
* * * * * * * * *
1717451 CTTTTGCCTGAATTCATCACTTGATGGATCAACATTTCCAGGTAGAGTTCATAATGAGAAGAACT
131 TTTTTGCTTAAATTCATCACTCGGTGGATCAGCAGTGCCAGTTAGAGTTCATAATGAGAAGAACT
*
1717516 CATCTGAAGAAGGAAGAAGAAGTTCATAATG
196 CATCTGAAGAAGGAAGAAGAAATTCATAATG
* * *
1717547 AGAAGAACTTGTTCAACTTTTTGCTCGAATTCATCACTCGATGGATC-A-A----C---T----T
1 AGAAGAATTTGTTCAACTTTTTGCTTGAATTCATCACTTGATGGATCAACATTTCCAGGTAGAGT
* *
1717599 TCATAATGAGAAGAACTCATCCGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAAT
66 TCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAA-
1717664 CTTTT
130 CTTTT
1717669 GCATGATTCT
Statistics
Matches: 770, Mismatches: 23, Indels: 20
0.95 0.03 0.02
Matches are distributed among these distances:
212 26 0.03
213 35 0.05
214 4 0.01
216 1 0.00
219 1 0.00
223 1 0.00
224 191 0.25
225 230 0.30
226 281 0.36
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.29
Consensus pattern (226 bp):
AGAAGAATTTGTTCAACTTTTTGCTTGAATTCATCACTTGATGGATCAACATTTCCAGGTAGAGT
TCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAAC
TTTTTGCTTAAATTCATCACTCGGTGGATCAGCAGTGCCAGTTAGAGTTCATAATGAGAAGAACT
CATCTGAAGAAGGAAGAAGAAATTCATAATG
Found at i:1718026 original size:16 final size:16
Alignment explanation
Indices: 1718007--1718055 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 16
1717997 TTACATTTGG
*
1718007 TTTTTTTTATTTTTAT
1 TTTTTTTTATTATTAT
*
1718023 TTTTATTTATTATTAT
1 TTTTTTTTATTATTAT
* *
1718039 TTATTATTATTATTAT
1 TTTTTTTTATTATTAT
1718055 T
1 T
1718056 ATATATTACA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (16 bp):
TTTTTTTTATTATTAT
Found at i:1718031 original size:10 final size:10
Alignment explanation
Indices: 1718013--1718063 Score: 70
Period size: 10 Copynumber: 5.3 Consensus size: 10
1718003 TTGGTTTTTT
1718013 TTATT-TTTA
1 TTATTATTTA
*
1718022 TTTTTATTTA
1 TTATTATTTA
1718032 TTATTATTTA
1 TTATTATTTA
1718042 TTATTA-TTA
1 TTATTATTTA
*
1718051 TTATTATATA
1 TTATTATTTA
1718061 TTA
1 TTA
1718064 CAGGCCCAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
9 13 0.35
10 24 0.65
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (10 bp):
TTATTATTTA
Found at i:1718037 original size:3 final size:3
Alignment explanation
Indices: 1718013--1718063 Score: 57
Period size: 3 Copynumber: 16.0 Consensus size: 3
1718003 TTGGTTTTTT
* *
1718013 TTA TTT TTA TTT TTA TTTA TTA TTA TTTA TTA TTA TTA TTA TTA TATA
1 TTA TTA TTA TTA TTA -TTA TTA TTA -TTA TTA TTA TTA TTA TTA T-TA
1718061 TTA
1 TTA
1718064 CAGGCCCAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
3 32 0.78
4 9 0.22
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:1719525 original size:18 final size:18
Alignment explanation
Indices: 1719504--1719539 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
1719494 ATATTTTATA
1719504 AATTATATATTAATTTTT
1 AATTATATATTAATTTTT
* *
1719522 AATTATTTATTTATTTTT
1 AATTATATATTAATTTTT
1719540 TTATCGAAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
AATTATATATTAATTTTT
Found at i:1719641 original size:20 final size:20
Alignment explanation
Indices: 1719618--1719655 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1719608 TATTTTATAA
1719618 ATATATAAATTAT-ATTTTTT
1 ATATAT-AATTATAATTTTTT
1719638 ATATATAATTATAATTTT
1 ATATATAATTATAATTTT
1719656 GAAATAATAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (20 bp):
ATATATAATTATAATTTTTT
Found at i:1719650 original size:26 final size:25
Alignment explanation
Indices: 1719590--1719651 Score: 65
Period size: 26 Copynumber: 2.4 Consensus size: 25
1719580 TCTGATATTT
* *
1719590 TAAATAAATAAATATTTTTATTTTA
1 TAAATATATAAATATTTTTATTATA
1719615 TAAATATATAAATTATATTTT-TTATA
1 TAAATATATAAA-TAT-TTTTATTATA
1719641 TATAAT-TATAA
1 TA-AATATATAA
1719652 TTTTGAAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
25 11 0.34
26 14 0.44
27 7 0.22
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (25 bp):
TAAATATATAAATATTTTTATTATA
Found at i:1721280 original size:70 final size:71
Alignment explanation
Indices: 1721195--1721335 Score: 275
Period size: 70 Copynumber: 2.0 Consensus size: 71
1721185 TCTAAAACAA
1721195 TAAGGATATATAGAAGCATCTAAATCATTGGAATAAATTTAATAAATAAACTATATTTCACACA-
1 TAAGGATATATAGAAGCATCTAAATCATTGGAATAAATTTAATAAATAAACTATATTTCACACAC
1721259 ATATAT
66 ATATAT
1721265 TAAGGATATATAGAAGCATCTAAATCATTGGAATAAATTTAATAAATAAACTATATTTCACACAC
1 TAAGGATATATAGAAGCATCTAAATCATTGGAATAAATTTAATAAATAAACTATATTTCACACAC
1721330 ATATAT
66 ATATAT
1721336 ATCGTTGGCT
Statistics
Matches: 70, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
70 64 0.91
71 6 0.09
ACGTcount: A:0.48, C:0.11, G:0.09, T:0.33
Consensus pattern (71 bp):
TAAGGATATATAGAAGCATCTAAATCATTGGAATAAATTTAATAAATAAACTATATTTCACACAC
ATATAT
Found at i:1723406 original size:18 final size:19
Alignment explanation
Indices: 1723360--1723408 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
1723350 ATTATATTAA
**
1723360 AAATTCATTTAAATAATTC
1 AAATTCATAAAAATAATTC
1723379 AAATTCATAAAAATAACTT-
1 AAATTCATAAAAATAA-TTC
1723398 AAA-TCATAAAA
1 AAATTCATAAAA
1723409 TAAATTTATG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
18 8 0.30
19 17 0.63
20 2 0.07
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (19 bp):
AAATTCATAAAAATAATTC
Found at i:1724250 original size:21 final size:19
Alignment explanation
Indices: 1724217--1724269 Score: 61
Period size: 21 Copynumber: 2.7 Consensus size: 19
1724207 AACCCACCCC
*
1724217 TTCTTCTTTTCCAAGTTATT
1 TTCTTCTTCTCCAAGTTA-T
* *
1724237 ATTTTTCTTCTCCAGGTTAT
1 -TTCTTCTTCTCCAAGTTAT
1724257 TTCTTCTTCTCCA
1 TTCTTCTTCTCCA
1724270 GATTACTTAC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 12 0.43
20 1 0.04
21 15 0.54
ACGTcount: A:0.13, C:0.25, G:0.06, T:0.57
Consensus pattern (19 bp):
TTCTTCTTCTCCAAGTTAT
Found at i:1724265 original size:19 final size:18
Alignment explanation
Indices: 1724235--1724270 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
1724225 TTCCAAGTTA
1724235 TTATTTTTCTTCTCCAGG
1 TTATTTTTCTTCTCCAGG
1724253 TTATTTCTTCTTCTCCAG
1 TTATTT-TTCTTCTCCAG
1724271 ATTACTTACT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.11, C:0.25, G:0.08, T:0.56
Consensus pattern (18 bp):
TTATTTTTCTTCTCCAGG
Found at i:1724283 original size:19 final size:19
Alignment explanation
Indices: 1724241--1724285 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
1724231 GTTATTATTT
* *
1724241 TTCTTCTCCAGGTTATTTC
1 TTCTTCTCCAGATTATTAC
1724260 TTCTTCTCCAGATTACTTAC
1 TTCTTCTCCAGATTA-TTAC
1724280 -TCTTCT
1 TTCTTCT
1724286 TCTAGAATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 20 0.87
20 3 0.13
ACGTcount: A:0.13, C:0.29, G:0.07, T:0.51
Consensus pattern (19 bp):
TTCTTCTCCAGATTATTAC
Found at i:1725782 original size:180 final size:181
Alignment explanation
Indices: 1725474--1725854 Score: 571
Period size: 180 Copynumber: 2.1 Consensus size: 181
1725464 ATTTTCTAAT
* * *
1725474 TTATATAA-AAATTAAATATTTTTTAATTCAAAAAAATTTATAATTAATTTAAATAATATATAAT
1 TTATATAATATATTTAATATTTTTTAATTCAAAAAAATTTACAATTAATTTAAATAATATATAAT
*
1725538 TATAAAATAAAAATTTTAGATAAATTTTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTATT
66 TATAAAATAAAAAATTTAGATAAATTTTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTATT
* * * *
1725603 GGATCTTAAATTATTAATTGGGTTTTAAATGGTTTGGGCTT-AACCCATATTT
131 AGATCTTAAATTATTAATTGGGTTTTAAATGATTTAGG-TTGAACCCATA-TG
1725655 TATATATAATATATTTAATATTTTTTAATT-AAAAAACAGTTTACAATTAATTTAAATAATATAT
1 T-TATATAATATATTTAATATTTTTTAATTCAAAAAA-A-TTTACAATTAATTTAAATAATATAT
*
1725719 AATTATAAAA-AAAAAATTTATAT-AA-TTTTTAATT-ATTAATATTGATTTAAGTTTAAAAGTT
63 AATTATAAAATAAAAAATTTAGATAAATTTTTTAATTAATTAATATTGATTTAAGTTTAAAAGTT
*
1725780 ATTAGATCTTAAATTATTAATTGGGTTTTAAATGATTTAGGTTGAGCCCATATG
128 ATTAGATCTTAAATTATTAATTGGGTTTTAAATGATTTAGGTTGAACCCATATG
1725834 TTATATAATATA-TTAATATTT
1 TTATATAATATATTTAATATTT
1725855 AAAATTTAAT
Statistics
Matches: 185, Mismatches: 10, Indels: 14
0.89 0.05 0.07
Matches are distributed among these distances:
177 9 0.05
178 11 0.06
179 4 0.02
180 72 0.39
181 10 0.05
182 15 0.08
183 30 0.16
184 34 0.18
ACGTcount: A:0.43, C:0.03, G:0.07, T:0.46
Consensus pattern (181 bp):
TTATATAATATATTTAATATTTTTTAATTCAAAAAAATTTACAATTAATTTAAATAATATATAAT
TATAAAATAAAAAATTTAGATAAATTTTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTATT
AGATCTTAAATTATTAATTGGGTTTTAAATGATTTAGGTTGAACCCATATG
Found at i:1726650 original size:16 final size:17
Alignment explanation
Indices: 1726631--1726666 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
1726621 TTAATTTATT
*
1726631 AAAAAGAATATGTAT-G
1 AAAAAGAAAATGTATAG
1726647 AAAAAGAAAATGTATAG
1 AAAAAGAAAATGTATAG
1726664 AAA
1 AAA
1726667 TAAATTGTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.64, C:0.00, G:0.17, T:0.19
Consensus pattern (17 bp):
AAAAAGAAAATGTATAG
Found at i:1729231 original size:33 final size:33
Alignment explanation
Indices: 1729188--1729295 Score: 94
Period size: 33 Copynumber: 3.3 Consensus size: 33
1729178 GTGAGATTTG
1729188 GATTGTTGTCTTTGTGTTGTTTCATGGACATTC
1 GATTGTTGTCTTTGTGTTGTTTCATGGACATTC
* * * * * *
1729221 GATTGCTGTCTTGGTATTGCTTCACTGG-CTTTT
1 GATTGTTGTCTTTGTGTTGTTTCA-TGGACATTC
* * *
1729254 GATTGTTGCCTTTGGGTTGTTTCAATGGA-TTTC
1 GATTGTTGTCTTTGTGTTGTTTC-ATGGACATTC
*
1729287 GATCGTTGT
1 GATTGTTGT
1729296 TCCATCTTCA
Statistics
Matches: 57, Mismatches: 15, Indels: 6
0.73 0.19 0.08
Matches are distributed among these distances:
33 53 0.93
34 4 0.07
ACGTcount: A:0.11, C:0.14, G:0.26, T:0.49
Consensus pattern (33 bp):
GATTGTTGTCTTTGTGTTGTTTCATGGACATTC
Found at i:1735806 original size:2 final size:2
Alignment explanation
Indices: 1735799--1735823 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1735789 CCCAAGTAAA
1735799 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
1735824 CTGGGATTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1736721 original size:131 final size:131
Alignment explanation
Indices: 1736563--1736824 Score: 524
Period size: 131 Copynumber: 2.0 Consensus size: 131
1736553 CATTAATTAC
1736563 TAATTAATTGGATTATTTCACTTATGCAGATAACATGTTTGAATATCCAAATCTTATTTCAAATT
1 TAATTAATTGGATTATTTCACTTATGCAGATAACATGTTTGAATATCCAAATCTTATTTCAAATT
1736628 TATTATCCCATTGGTATTAATTATTCATGTGAGATTGTTAACAGTGCCATCTTAAAATGTCAATT
66 TATTATCCCATTGGTATTAATTATTCATGTGAGATTGTTAACAGTGCCATCTTAAAATGTCAATT
1736693 G
131 G
1736694 TAATTAATTGGATTATTTCACTTATGCAGATAACATGTTTGAATATCCAAATCTTATTTCAAATT
1 TAATTAATTGGATTATTTCACTTATGCAGATAACATGTTTGAATATCCAAATCTTATTTCAAATT
1736759 TATTATCCCATTGGTATTAATTATTCATGTGAGATTGTTAACAGTGCCATCTTAAAATGTCAATT
66 TATTATCCCATTGGTATTAATTATTCATGTGAGATTGTTAACAGTGCCATCTTAAAATGTCAATT
1736824 G
131 G
1736825 ATTTTTCCTT
Statistics
Matches: 131, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
131 131 1.00
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.42
Consensus pattern (131 bp):
TAATTAATTGGATTATTTCACTTATGCAGATAACATGTTTGAATATCCAAATCTTATTTCAAATT
TATTATCCCATTGGTATTAATTATTCATGTGAGATTGTTAACAGTGCCATCTTAAAATGTCAATT
G
Found at i:1738167 original size:24 final size:24
Alignment explanation
Indices: 1738140--1738204 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
1738130 AGCTCATATA
*
1738140 AATTTGCACCGAAGTGCCTCGTAG
1 AATTTGCACCGAAGTGCCGCGTAG
1738164 AATTTGTC-CCGAAG-GACCGCGTAG
1 AATTTG-CACCGAAGTG-CCGCGTAG
* *
1738188 AA-ATGCACCGTAGTGCC
1 AATTTGCACCGAAGTGCC
1738205 ATATAAGATT
Statistics
Matches: 34, Mismatches: 3, Indels: 9
0.74 0.07 0.20
Matches are distributed among these distances:
22 1 0.03
23 10 0.29
24 22 0.65
25 1 0.03
ACGTcount: A:0.26, C:0.26, G:0.26, T:0.22
Consensus pattern (24 bp):
AATTTGCACCGAAGTGCCGCGTAG
Found at i:1744163 original size:21 final size:21
Alignment explanation
Indices: 1744126--1744170 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1744116 GATTTCTGGG
*
1744126 CAAGGGGAATCAGTACCCATT
1 CAAGGGGAACCAGTACCCATT
*
1744147 CAAGGGGAACC-GATACCCCTT
1 CAAGGGGAACCAG-TACCCATT
1744168 CAA
1 CAA
1744171 ACGACAGAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 1 0.05
21 20 0.95
ACGTcount: A:0.33, C:0.29, G:0.22, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCAGTACCCATT
Found at i:1744970 original size:31 final size:31
Alignment explanation
Indices: 1744932--1745112 Score: 282
Period size: 31 Copynumber: 6.0 Consensus size: 31
1744922 GGGTCGAGGG
1744932 TTACCTATGTTCTTCGGAACATATGGACTGT
1 TTACCTATGTTCTTCGGAACATATGGACTGT
1744963 TTACCTATGTTCTTCGGAACATATGGACTGT
1 TTACCTATGTTCTTCGGAACATATGGACTGT
1744994 TTACCTATG---TTCGGAACATATGGACTGT
1 TTACCTATGTTCTTCGGAACATATGGACTGT
1745022 TTACCTATGTTCTTCGGAACATATGGA-TGT
1 TTACCTATGTTCTTCGGAACATATGGACTGT
* * *
1745052 TTACCTATGTCCTTCGGGACATATGGACTGA
1 TTACCTATGTTCTTCGGAACATATGGACTGT
*
1745083 TTACCTAGGTTCTTCGGAATC-TATGGACTG
1 TTACCTATGTTCTTCGGAA-CATATGGACTG
1745113 GTCCTTCGGG
Statistics
Matches: 139, Mismatches: 6, Indels: 10
0.90 0.04 0.06
Matches are distributed among these distances:
28 28 0.20
30 28 0.20
31 82 0.59
32 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.37
Consensus pattern (31 bp):
TTACCTATGTTCTTCGGAACATATGGACTGT
Found at i:1745014 original size:59 final size:60
Alignment explanation
Indices: 1744932--1745112 Score: 269
Period size: 59 Copynumber: 3.0 Consensus size: 60
1744922 GGGTCGAGGG
1744932 TTACCTATGTTCTTCGGAACATATGGACTGTTTACCTATGTTCTTCGGAACATATGGACTGT
1 TTACCTATG--CTTCGGAACATATGGACTGTTTACCTATGTTCTTCGGAACATATGGACTGT
1744994 TTACCTATG-TTCGGAACATATGGACTGTTTACCTATGTTCTTCGGAACATATGGA-TGT
1 TTACCTATGCTTCGGAACATATGGACTGTTTACCTATGTTCTTCGGAACATATGGACTGT
* * *
1745052 TTACCTATGTCCTTCGGGACATATGGACTGATTACCTAGGTTCTTCGGAATC-TATGGACTG
1 TTACCTATG--CTTCGGAACATATGGACTGTTTACCTATGTTCTTCGGAA-CATATGGACTG
1745113 GTCCTTCGGG
Statistics
Matches: 111, Mismatches: 3, Indels: 10
0.90 0.02 0.08
Matches are distributed among these distances:
58 12 0.11
59 46 0.41
61 41 0.37
62 12 0.11
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.37
Consensus pattern (60 bp):
TTACCTATGCTTCGGAACATATGGACTGTTTACCTATGTTCTTCGGAACATATGGACTGT
Found at i:1748073 original size:21 final size:21
Alignment explanation
Indices: 1748047--1748091 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
1748037 GATTTCTGGG
* *
1748047 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
1748068 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
1748089 CAA
1 CAA
1748092 ACGACAGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:1748885 original size:31 final size:31
Alignment explanation
Indices: 1748847--1749031 Score: 318
Period size: 31 Copynumber: 6.0 Consensus size: 31
1748837 GGGTCGAGGG
1748847 TTACCTATGTTCTTCGGAACATATGGACTGT
1 TTACCTATGTTCTTCGGAACATATGGACTGT
1748878 TTACCTATGTTCTTCGGAACATATGGACTGT
1 TTACCTATGTTCTTCGGAACATATGGACTGT
1748909 TTACCTATGTTCTTCGGAACATATGGACTGT
1 TTACCTATGTTCTTCGGAACATATGGACTGT
1748940 TTACCTATGTTCTTCGGAACATATGGACTGT
1 TTACCTATGTTCTTCGGAACATATGGACTGT
* * *
1748971 TTACCTATGTCCTTCGGGACATATGGACTGA
1 TTACCTATGTTCTTCGGAACATATGGACTGT
*
1749002 TTACCTAGGTTCTTCGGAATC-TATGGACTG
1 TTACCTATGTTCTTCGGAA-CATATGGACTG
1749032 GTCCTTCGGA
Statistics
Matches: 147, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
31 146 0.99
32 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.37
Consensus pattern (31 bp):
TTACCTATGTTCTTCGGAACATATGGACTGT
Found at i:1751793 original size:22 final size:22
Alignment explanation
Indices: 1751768--1751819 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
1751758 TGAACAGTAT
*
1751768 CGTGAATAATAATGAACAATGC
1 CGTGAACAATAATGAACAATGC
* *
1751790 CGTGAACATTAATGAACAATAC
1 CGTGAACAATAATGAACAATGC
*
1751812 CATGAACA
1 CGTGAACA
1751820 GTGAAAAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.46, C:0.17, G:0.15, T:0.21
Consensus pattern (22 bp):
CGTGAACAATAATGAACAATGC
Found at i:1757083 original size:134 final size:134
Alignment explanation
Indices: 1756895--1757161 Score: 534
Period size: 134 Copynumber: 2.0 Consensus size: 134
1756885 CGACTTCACC
1756895 CGATACGAGAAGTCAAAACCTGATTTACTAATAAACAAATCAGCAGCCAACCCATTAATCTGAGG
1 CGATACGAGAAGTCAAAACCTGATTTACTAATAAACAAATCAGCAGCCAACCCATTAATCTGAGG
1756960 TCTAACAAAAACTTAAAATAACGGTTGAAATTAGGATCTCAAGCACCTTGAACATTCCAAAATAA
66 TCTAACAAAAACTTAAAATAACGGTTGAAATTAGGATCTCAAGCACCTTGAACATTCCAAAATAA
1757025 TAAA
131 TAAA
1757029 CGATACGAGAAGTCAAAACCTGATTTACTAATAAACAAATCAGCAGCCAACCCATTAATCTGAGG
1 CGATACGAGAAGTCAAAACCTGATTTACTAATAAACAAATCAGCAGCCAACCCATTAATCTGAGG
1757094 TCTAACAAAAACTTAAAATAACGGTTGAAATTAGGATCTCAAGCACCTTGAACATTCCAAAATAA
66 TCTAACAAAAACTTAAAATAACGGTTGAAATTAGGATCTCAAGCACCTTGAACATTCCAAAATAA
1757159 TAA
131 TAA
1757162 CTTAGACATA
Statistics
Matches: 133, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
134 133 1.00
ACGTcount: A:0.45, C:0.20, G:0.13, T:0.22
Consensus pattern (134 bp):
CGATACGAGAAGTCAAAACCTGATTTACTAATAAACAAATCAGCAGCCAACCCATTAATCTGAGG
TCTAACAAAAACTTAAAATAACGGTTGAAATTAGGATCTCAAGCACCTTGAACATTCCAAAATAA
TAAA
Found at i:1761616 original size:134 final size:134
Alignment explanation
Indices: 1761371--1761639 Score: 529
Period size: 134 Copynumber: 2.0 Consensus size: 134
1761361 ATTTATTAAA
*
1761371 TTAATAATCTTATATATAATCTTATACTGGCTGAAATATTTTTTTCTATTAAAATGTCTGATTCA
1 TTAAAAATCTTATATATAATCTTATACTGGCTGAAATATTTTTTTCTATTAAAATGTCTGATTCA
1761436 ATTTGTTATCATTTAGGAGGATGTTTAAATACAATTTATTCGAATAAGAAGGTTTTATCAAATGC
66 ATTTGTTATCATTTAGGAGGATGTTTAAATACAATTTATTCGAATAAGAAGGTTTTATCAAATGC
1761501 AATT
131 AATT
1761505 TTAAAAATCTTATATATAATCTTATACTGGCTGAAATATTTTTTTCTATTAAAATGTCTGATTCA
1 TTAAAAATCTTATATATAATCTTATACTGGCTGAAATATTTTTTTCTATTAAAATGTCTGATTCA
1761570 ATTTGTTATCATTTAGGAGGATGTTTAAATACAATTTATTCGAATAAGAAGGTTTTATCAAATGC
66 ATTTGTTATCATTTAGGAGGATGTTTAAATACAATTTATTCGAATAAGAAGGTTTTATCAAATGC
1761635 AATT
131 AATT
1761639 T
1 T
1761640 ATTAAAATTA
Statistics
Matches: 134, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
134 134 1.00
ACGTcount: A:0.35, C:0.09, G:0.12, T:0.44
Consensus pattern (134 bp):
TTAAAAATCTTATATATAATCTTATACTGGCTGAAATATTTTTTTCTATTAAAATGTCTGATTCA
ATTTGTTATCATTTAGGAGGATGTTTAAATACAATTTATTCGAATAAGAAGGTTTTATCAAATGC
AATT
Found at i:1763770 original size:20 final size:20
Alignment explanation
Indices: 1763745--1763793 Score: 98
Period size: 20 Copynumber: 2.5 Consensus size: 20
1763735 AGGTATAAAC
1763745 TGAACTTAAATTTTTTACGT
1 TGAACTTAAATTTTTTACGT
1763765 TGAACTTAAATTTTTTACGT
1 TGAACTTAAATTTTTTACGT
1763785 TGAACTTAA
1 TGAACTTAA
1763794 GCTTCAGATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.47
Consensus pattern (20 bp):
TGAACTTAAATTTTTTACGT
Found at i:1766790 original size:20 final size:19
Alignment explanation
Indices: 1766742--1766790 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
1766732 AACTTAAATC
*
1766742 AAAATAATTAAAATAAATAT
1 AAAATAATT-TAATAAATAT
1766762 AAAAT--TTTAATAATATAT
1 AAAATAATTTAATAA-ATAT
1766780 AAAATAATTTA
1 AAAATAATTTA
1766791 TATGATATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
17 5 0.20
18 11 0.44
20 9 0.36
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (19 bp):
AAAATAATTTAATAAATAT
Found at i:1766835 original size:14 final size:13
Alignment explanation
Indices: 1766818--1766902 Score: 70
Period size: 14 Copynumber: 6.5 Consensus size: 13
1766808 ATCTATAATA
1766818 TAATATTAAAAAAT
1 TAATATT-AAAAAT
*
1766832 TAATATT--TAAT
1 TAATATTAAAAAT
*
1766843 TTAT-TTAAAAATT
1 TAATATTAAAAA-T
1766856 TAATATT-AAAAT
1 TAATATTAAAAAT
* *
1766868 TAATATTTATAAT
1 TAATATTAAAAAT
1766881 ATAATATTAAAAAAT
1 -TAATATT-AAAAAT
1766896 TAATATT
1 TAATATT
1766903 TAATTTATTT
Statistics
Matches: 57, Mismatches: 7, Indels: 14
0.73 0.09 0.18
Matches are distributed among these distances:
10 2 0.04
11 6 0.11
12 10 0.18
13 12 0.21
14 23 0.40
15 4 0.07
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
TAATATTAAAAAT
Found at i:1766888 original size:64 final size:64
Alignment explanation
Indices: 1766799--1766953 Score: 253
Period size: 64 Copynumber: 2.5 Consensus size: 64
1766789 TATATGATAT
*
1766799 AAATTAAATATCTATAATATAATATTAAAAAATTAATATTTAATTTATTTAAAAATTTAATATTA
1 AAATT-AATATATATAATATAATATTAAAAAATTAATATTTAATTTATTTAAAAATTTAATATTA
* *
1766864 AAATTAATATTTATAATATAATATTAAAAAATTAATATTTAATTTATTTACAAATTTAATATTA
1 AAATTAATATATATAATATAATATTAAAAAATTAATATTTAATTTATTTAAAAATTTAATATTA
1766928 AAATTAA-A-ATATAATATAATA-TAAAA
1 AAATTAATATATATAATATAATATTAAAA
1766954 TTAAATATAA
Statistics
Matches: 87, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
61 5 0.06
62 12 0.14
63 1 0.01
64 64 0.74
65 5 0.06
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.43
Consensus pattern (64 bp):
AAATTAATATATATAATATAATATTAAAAAATTAATATTTAATTTATTTAAAAATTTAATATTA
Found at i:1766901 original size:40 final size:37
Alignment explanation
Indices: 1766818--1766902 Score: 100
Period size: 40 Copynumber: 2.2 Consensus size: 37
1766808 ATCTATAATA
* *
1766818 TAATATTAAAAAATTAATATTTAATTTATTTAAAAATT
1 TAATATT-AAAAATTAATATTTAATTAATTTAAAAAAT
1766856 TAATATT-AAAATTAATATTTATAATATAATATTAAAAAAT
1 TAATATTAAAAATTAATA-TT-TAAT-TAAT-TTAAAAAAT
1766896 TAATATT
1 TAATATT
1766903 TAATTTATTT
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
36 10 0.24
37 2 0.05
38 11 0.27
39 3 0.07
40 15 0.37
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (37 bp):
TAATATTAAAAATTAATATTTAATTAATTTAAAAAAT
Found at i:1766954 original size:17 final size:17
Alignment explanation
Indices: 1766940--1766980 Score: 82
Period size: 17 Copynumber: 2.4 Consensus size: 17
1766930 ATTAAAATAT
1766940 AATATAATATAAAATTA
1 AATATAATATAAAATTA
1766957 AATATAATATAAAATTA
1 AATATAATATAAAATTA
1766974 AATATAA
1 AATATAA
1766981 AACCTCTTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
AATATAATATAAAATTA
Found at i:1766962 original size:22 final size:24
Alignment explanation
Indices: 1766920--1766975 Score: 89
Period size: 22 Copynumber: 2.4 Consensus size: 24
1766910 TTTACAAATT
1766920 TAATATTAAAATTAAAATATAATA
1 TAATATTAAAATTAAAATATAATA
1766944 TAATA-TAAAATT-AAATATAATA
1 TAATATTAAAATTAAAATATAATA
*
1766966 TAAAATTAAA
1 TAATATTAAA
1766976 TATAAAACCT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
22 14 0.47
23 11 0.37
24 5 0.17
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (24 bp):
TAATATTAAAATTAAAATATAATA
Found at i:1766971 original size:12 final size:12
Alignment explanation
Indices: 1766932--1766982 Score: 54
Period size: 12 Copynumber: 4.4 Consensus size: 12
1766922 ATATTAAAAT
1766932 TAAAATATAATA
1 TAAAATATAATA
*
1766944 T--AATATAAAA
1 TAAAATATAATA
*
1766954 TTAAATATAATA
1 TAAAATATAATA
1766966 TAAAAT-TAAATA
1 TAAAATAT-AATA
1766978 TAAAA
1 TAAAA
1766983 CCTCTTTGAA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
10 9 0.27
11 1 0.03
12 23 0.70
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
TAAAATATAATA
Found at i:1771312 original size:20 final size:21
Alignment explanation
Indices: 1771287--1771325 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1771277 ACGAATACGT
*
1771287 GAATTT-GTAAATCGCAACGC
1 GAATTTAGAAAATCGCAACGC
1771307 GAATTTAGAAAATCGCAAC
1 GAATTTAGAAAATCGCAAC
1771326 AAAGAAGTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.41, C:0.18, G:0.18, T:0.23
Consensus pattern (21 bp):
GAATTTAGAAAATCGCAACGC
Found at i:1771380 original size:21 final size:20
Alignment explanation
Indices: 1771333--1771402 Score: 83
Period size: 19 Copynumber: 3.5 Consensus size: 20
1771323 AACAAAGAAG
*
1771333 TCAAATTCGC-AAC-GAGTTT
1 TCAAATTCGCTAACTGA-ATT
1771352 TCCAAATTCGCTACACTGAATT
1 T-CAAATTCGCTA-ACTGAATT
1771374 TCAAATTCG-TAACTGAATT
1 TCAAATTCGCTAACTGAATT
1771393 TCAAATTCGC
1 TCAAATTCGC
1771403 AGCTCGATTT
Statistics
Matches: 45, Mismatches: 1, Indels: 9
0.82 0.02 0.16
Matches are distributed among these distances:
19 18 0.40
20 11 0.24
21 9 0.20
22 5 0.11
23 2 0.04
ACGTcount: A:0.33, C:0.23, G:0.11, T:0.33
Consensus pattern (20 bp):
TCAAATTCGCTAACTGAATT
Found at i:1771390 original size:19 final size:21
Alignment explanation
Indices: 1771354--1771402 Score: 84
Period size: 19 Copynumber: 2.4 Consensus size: 21
1771344 ACGAGTTTTC
1771354 CAAATTCGCTACACTGAATTT
1 CAAATTCGCTACACTGAATTT
1771375 CAAATTCG-TA-ACTGAATTT
1 CAAATTCGCTACACTGAATTT
1771394 CAAATTCGC
1 CAAATTCGC
1771403 AGCTCGATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 17 0.63
20 2 0.07
21 8 0.30
ACGTcount: A:0.35, C:0.22, G:0.10, T:0.33
Consensus pattern (21 bp):
CAAATTCGCTACACTGAATTT
Found at i:1771601 original size:14 final size:15
Alignment explanation
Indices: 1771582--1771620 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
1771572 TCCCCATCTC
1771582 TAATTTTTTT-TACA
1 TAATTTTTTTCTACA
*
1771596 TAATTTTATTTCTATA
1 TAATTTT-TTTCTACA
1771612 TAATTTTTT
1 TAATTTTTT
1771621 CGTTGATTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 7 0.32
15 5 0.23
16 10 0.45
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (15 bp):
TAATTTTTTTCTACA
Found at i:1772019 original size:25 final size:25
Alignment explanation
Indices: 1771985--1772032 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
1771975 AAAGTTATTC
1771985 GTATAAAGAAAGATGATTGTTTTAA
1 GTATAAAGAAAGATGATTGTTTTAA
*
1772010 GTATCAAGAAAGATGATTGTTTT
1 GTATAAAGAAAGATGATTGTTTT
1772033 GATACAAAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.40, C:0.02, G:0.21, T:0.38
Consensus pattern (25 bp):
GTATAAAGAAAGATGATTGTTTTAA
Found at i:1773975 original size:18 final size:18
Alignment explanation
Indices: 1773949--1773984 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
1773939 AAGCAAAAGG
1773949 AAATCAAAATCGCAATCA
1 AAATCAAAATCGCAATCA
* *
1773967 AAATGAAAATCTCAATCA
1 AAATCAAAATCGCAATCA
1773985 CAACCGGCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.56, C:0.19, G:0.06, T:0.19
Consensus pattern (18 bp):
AAATCAAAATCGCAATCA
Found at i:1774342 original size:20 final size:20
Alignment explanation
Indices: 1774319--1774403 Score: 98
Period size: 20 Copynumber: 4.2 Consensus size: 20
1774309 AAAGCGCAAC
1774319 GCGAATTTGACTTTCGCATT
1 GCGAATTTGACTTTCGCATT
** *
1774339 GCGAATTTGACTTTAACGTT
1 GCGAATTTGACTTTCGCATT
* * **
1774359 GCGAATTTAACTATCGCACC
1 GCGAATTTGACTTTCGCATT
*
1774379 GCGAATTTGACTTTCGCGTT
1 GCGAATTTGACTTTCGCATT
1774399 GCGAA
1 GCGAA
1774404 AGTGTACCTT
Statistics
Matches: 50, Mismatches: 15, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 50 1.00
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.34
Consensus pattern (20 bp):
GCGAATTTGACTTTCGCATT
Found at i:1774376 original size:40 final size:40
Alignment explanation
Indices: 1774319--1774403 Score: 116
Period size: 40 Copynumber: 2.1 Consensus size: 40
1774309 AAAGCGCAAC
* * **
1774319 GCGAATTTGACTTTCGCATTGCGAATTTGACTTTAACGTT
1 GCGAATTTAACTATCGCACCGCGAATTTGACTTTAACGTT
**
1774359 GCGAATTTAACTATCGCACCGCGAATTTGACTTTCGCGTT
1 GCGAATTTAACTATCGCACCGCGAATTTGACTTTAACGTT
1774399 GCGAA
1 GCGAA
1774404 AGTGTACCTT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.34
Consensus pattern (40 bp):
GCGAATTTAACTATCGCACCGCGAATTTGACTTTAACGTT
Found at i:1774545 original size:64 final size:64
Alignment explanation
Indices: 1774466--1774610 Score: 247
Period size: 64 Copynumber: 2.3 Consensus size: 64
1774456 GCAACTAATT
*
1774466 AACTTTTACAAATCAATTAAACAAGA-AAAAAATAATTCTTATTTACACATCAATTACACAAATC
1 AACTTTTACAAATCAATTAAACAA-ACAAAAAATAATTCTTATTTACACATCAATTAAACAAATC
* *
1774530 AACTTTTACAAATCAATTAAACAAACAAAAAATAATTCTTATTTCCTCATCAATTAAACAAATC
1 AACTTTTACAAATCAATTAAACAAACAAAAAATAATTCTTATTTACACATCAATTAAACAAATC
1774594 AACTTTTACAAATCAAT
1 AACTTTTACAAATCAAT
1774611 GCAAAATTCA
Statistics
Matches: 77, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
63 1 0.01
64 76 0.99
ACGTcount: A:0.50, C:0.18, G:0.01, T:0.31
Consensus pattern (64 bp):
AACTTTTACAAATCAATTAAACAAACAAAAAATAATTCTTATTTACACATCAATTAAACAAATC
Found at i:1776017 original size:21 final size:21
Alignment explanation
Indices: 1775991--1776108 Score: 119
Period size: 21 Copynumber: 5.6 Consensus size: 21
1775981 GTGAATCGGG
* **
1775991 CTCTTGAACGGTGGGAGGAAC
1 CTCTTGAACGATGGGAGGGGC
** *
1776012 CTCTTGAACGATGACAAGGGC
1 CTCTTGAACGATGGGAGGGGC
* *
1776033 CTCTTGAATGGTGGGAGGGGC
1 CTCTTGAACGATGGGAGGGGC
* *
1776054 CTCTTGAATGATGAGAGGGGC
1 CTCTTGAACGATGGGAGGGGC
* **
1776075 CTCTTGAACGATAGGAGGCAC
1 CTCTTGAACGATGGGAGGGGC
1776096 CTCTTGAACGATG
1 CTCTTGAACGATG
1776109 ACAGGTGCAT
Statistics
Matches: 78, Mismatches: 19, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 78 1.00
ACGTcount: A:0.24, C:0.19, G:0.35, T:0.22
Consensus pattern (21 bp):
CTCTTGAACGATGGGAGGGGC
Found at i:1776050 original size:42 final size:42
Alignment explanation
Indices: 1775991--1776111 Score: 161
Period size: 42 Copynumber: 2.9 Consensus size: 42
1775981 GTGAATCGGG
1775991 CTCTTGAACGGTGGGAGGAACCTCTTGAACGATGACAAGGGC
1 CTCTTGAACGGTGGGAGGAACCTCTTGAACGATGACAAGGGC
* ** * * *
1776033 CTCTTGAATGGTGGGAGGGGCCTCTTGAATGATGAGAGGGGC
1 CTCTTGAACGGTGGGAGGAACCTCTTGAACGATGACAAGGGC
* * *
1776075 CTCTTGAACGATAGGAGGCACCTCTTGAACGATGACA
1 CTCTTGAACGGTGGGAGGAACCTCTTGAACGATGACA
1776112 GGTGCATCGG
Statistics
Matches: 66, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 66 1.00
ACGTcount: A:0.25, C:0.20, G:0.34, T:0.21
Consensus pattern (42 bp):
CTCTTGAACGGTGGGAGGAACCTCTTGAACGATGACAAGGGC
Found at i:1776448 original size:63 final size:62
Alignment explanation
Indices: 1776381--1776537 Score: 167
Period size: 63 Copynumber: 2.5 Consensus size: 62
1776371 TAGAGGGGCT
* *
1776381 ACCTCATCACGTAAAGTA-GATACCTCACCACGTAGTGCACCATTGTCATCGCGAAAAATATCC-
1 ACCTCATCACGTAAAG-ACG-TACCTCACCACGTAGCGCACCATTGTCATCACGAAAAATA-CCG
* * * * *
1776444 ACCTCATCACGTAAAGACCGTACCTCATCACGTAGCGCATCATTGTCTTCACGTAAAGTACCG
1 ACCTCATCACGTAAAGA-CGTACCTCACCACGTAGCGCACCATTGTCATCACGAAAAATACCG
*
1776507 ACCTCATGACGTAAAGCACCG-ACCTCACCAC
1 ACCTCATCACGTAAAG-A-CGTACCTCACCAC
1776538 TTAACTCCCC
Statistics
Matches: 81, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
62 3 0.04
63 73 0.90
64 5 0.06
ACGTcount: A:0.31, C:0.33, G:0.15, T:0.21
Consensus pattern (62 bp):
ACCTCATCACGTAAAGACGTACCTCACCACGTAGCGCACCATTGTCATCACGAAAAATACCG
Found at i:1776518 original size:21 final size:21
Alignment explanation
Indices: 1776494--1776533 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
1776484 CATTGTCTTC
*
1776494 ACGTAAAGTACCGACCTCATG
1 ACGTAAAGCACCGACCTCATG
1776515 ACGTAAAGCACCGACCTCA
1 ACGTAAAGCACCGACCTCA
1776534 CCACTTAACT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.35, C:0.33, G:0.17, T:0.15
Consensus pattern (21 bp):
ACGTAAAGCACCGACCTCATG
Found at i:1778239 original size:20 final size:20
Alignment explanation
Indices: 1778214--1778251 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
1778204 AGTAGTTTCT
1778214 GAAAATGAAAATCGCAACGC
1 GAAAATGAAAATCGCAACGC
1778234 GAAAATGAAAATCGCAAC
1 GAAAATGAAAATCGCAAC
1778252 ATGAAACTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.53, C:0.18, G:0.18, T:0.11
Consensus pattern (20 bp):
GAAAATGAAAATCGCAACGC
Found at i:1778257 original size:20 final size:20
Alignment explanation
Indices: 1778213--1778257 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
1778203 GAGTAGTTTC
*
1778213 TGAAAATGAAAATCGCAACG
1 TGAAAATGAAAATCGCAACA
*
1778233 CGAAAATGAAAATCGCAACA
1 TGAAAATGAAAATCGCAACA
1778253 TGAAA
1 TGAAA
1778258 CTAAATTCAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.53, C:0.16, G:0.18, T:0.13
Consensus pattern (20 bp):
TGAAAATGAAAATCGCAACA
Found at i:1778645 original size:22 final size:22
Alignment explanation
Indices: 1778608--1778665 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 22
1778598 TATGAGAGAT
1778608 GGAGAT-A-GACGGATTTCGTC
1 GGAGATGAGGACGGATTTCGTC
* * *
1778628 GGAGATGGGGATGGATTTCGTT
1 GGAGATGAGGACGGATTTCGTC
1778650 GGAGATGAGGACGGAT
1 GGAGATGAGGACGGAT
1778666 GTCGCCGTAG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
20 6 0.19
22 25 0.81
ACGTcount: A:0.24, C:0.09, G:0.43, T:0.24
Consensus pattern (22 bp):
GGAGATGAGGACGGATTTCGTC
Found at i:1778813 original size:20 final size:20
Alignment explanation
Indices: 1778788--1778890 Score: 111
Period size: 20 Copynumber: 5.2 Consensus size: 20
1778778 ATAAATGCGC
*
1778788 TTTGACTTTTGTGTTGCGAA
1 TTTGACTTCTGTGTTGCGAA
1778808 TTTGACTTCTGTGTTGCGAA
1 TTTGACTTCTGTGTTGCGAA
*
1778828 TTTGACTTCTGGGTTGCGAA
1 TTTGACTTCTGTGTTGCGAA
* * *
1778848 ATTGAAGTTC-GCGTTGCGAA
1 TTTG-ACTTCTGTGTTGCGAA
** *
1778868 TTTGAGATC-GTGTTGTGAA
1 TTTGACTTCTGTGTTGCGAA
1778887 TTTG
1 TTTG
1778891 TTAGTCATTT
Statistics
Matches: 73, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
19 16 0.22
20 53 0.73
21 4 0.05
ACGTcount: A:0.17, C:0.12, G:0.28, T:0.43
Consensus pattern (20 bp):
TTTGACTTCTGTGTTGCGAA
Found at i:1782635 original size:51 final size:51
Alignment explanation
Indices: 1782575--1782707 Score: 160
Period size: 51 Copynumber: 2.6 Consensus size: 51
1782565 ATTTACATCG
* * **
1782575 GTGTAAGTATATGTTAAGTGCTATATATTTTTTATTTTATTTACTTACACTT
1 GTGTAAGTATATGTTAAGTGCTACAT-TTTTTTATTTTATTCACTTACACCA
* * * *
1782627 GTGT-AGTATGTGTTACGTGCTACAGTTGTTTATTTTATTCACTTACACCA
1 GTGTAAGTATATGTTAAGTGCTACATTTTTTTATTTTATTCACTTACACCA
* *
1782677 GTGTAAATATATGTTAAATGCTACATTTTTT
1 GTGTAAGTATATGTTAAGTGCTACATTTTTT
1782708 GTAGTATGAA
Statistics
Matches: 66, Mismatches: 14, Indels: 3
0.80 0.17 0.04
Matches are distributed among these distances:
50 25 0.38
51 37 0.56
52 4 0.06
ACGTcount: A:0.26, C:0.11, G:0.14, T:0.49
Consensus pattern (51 bp):
GTGTAAGTATATGTTAAGTGCTACATTTTTTTATTTTATTCACTTACACCA
Found at i:1806024 original size:9 final size:9
Alignment explanation
Indices: 1806010--1806043 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
1806000 TAAGTAAAAT
1806010 ATTAAATAA
1 ATTAAATAA
1806019 ATTAAAT-A
1 ATTAAATAA
*
1806027 CTTAAATAA
1 ATTAAATAA
1806036 ATTAAATA
1 ATTAAATA
1806044 CAAAATATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (9 bp):
ATTAAATAA
Found at i:1806042 original size:17 final size:17
Alignment explanation
Indices: 1806006--1806044 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
1805996 TATATAAGTA
1806006 AAATA-TTAAATAAATT
1 AAATACTTAAATAAATT
1806022 AAATACTTAAATAAATT
1 AAATACTTAAATAAATT
1806039 AAATAC
1 AAATAC
1806045 AAAATATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (17 bp):
AAATACTTAAATAAATT
Found at i:1807928 original size:101 final size:102
Alignment explanation
Indices: 1807749--1807949 Score: 305
Period size: 101 Copynumber: 2.0 Consensus size: 102
1807739 TGCTGCATGG
* * * * **
1807749 GGCGCGTCTTTCTGCAAAGGGTGTTAGATCGAGAAAAATAATCTGAACGGTGCATGATCGGGAAT
1 GGCGCGCCTTTATGCAAAGAGTGTTAGATCGAGAAAAATAATATGAACGGTGCATGATCGAAAAT
1807814 ATTAAATGAAAAAGGTGATTTTTCGGGATAATCACAA
66 ATTAAATGAAAAAGGTGATTTTTCGGGATAATCACAA
* *
1807851 GGCGCGCCTTTATGCAAA-AGTGTTAGATCGGGAAATATAATATGAACGGTGCATGATCGAAAAT
1 GGCGCGCCTTTATGCAAAGAGTGTTAGATCGAGAAAAATAATATGAACGGTGCATGATCGAAAAT
* *
1807915 ATTAAATGGAAAAGGTGATTTTTTGGGATAATCAC
66 ATTAAATGAAAAAGGTGATTTTTCGGGATAATCAC
1807950 CAACTTAAGC
Statistics
Matches: 89, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
101 73 0.82
102 16 0.18
ACGTcount: A:0.35, C:0.12, G:0.26, T:0.27
Consensus pattern (102 bp):
GGCGCGCCTTTATGCAAAGAGTGTTAGATCGAGAAAAATAATATGAACGGTGCATGATCGAAAAT
ATTAAATGAAAAAGGTGATTTTTCGGGATAATCACAA
Found at i:1810400 original size:26 final size:28
Alignment explanation
Indices: 1810363--1810415 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
1810353 TTAATGTGTT
*
1810363 AAATTC-TTTT-TAATATTTTTTATTAA
1 AAATTCTTTTTATAATATTTTTGATTAA
1810389 AAATT-TTATTTATAATATTTTTGATTA
1 AAATTCTT-TTTATAATATTTTTGATTA
1810416 TTATTGAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
26 6 0.26
27 3 0.13
28 14 0.61
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (28 bp):
AAATTCTTTTTATAATATTTTTGATTAA
Found at i:1815548 original size:232 final size:232
Alignment explanation
Indices: 1815142--1815611 Score: 877
Period size: 232 Copynumber: 2.0 Consensus size: 232
1815132 TGGATAATTA
*
1815142 TTTAATTTTAGTTTATATTAATATATAGAATTAATTTAATACTTTATGCATATAGATATATGCAT
1 TTTAATTTTAGTTTATATTAATACATAGAATTAATTTAATACTTTATGCATATAGATATATGCAT
1815207 CTCAGTCACCAAACCATATACTATATATCATGCGTAGTGACATTTATTATTACATAATCTGGCAG
66 CTCAGTCACCAAACCATATACTATATATCATGCGTAGTGACATTTATTATTACATAATCTGGCAG
1815272 TTAACACCATTTTCCATTAACTATATAAACTAAAACCCATAATGTTGCCAAATTCAACCACCAAA
131 TTAACACCATTTTCCATTAACTATATAAACTAAAACCCATAATGTTGCCAAATTCAACCACCAAA
1815337 ATTTTTATTAATTTTATATTACAATTTTTATAGAACT
196 ATTTTTATTAATTTTATATTACAATTTTTATAGAACT
*
1815374 TTTAATTTTAGTTTATATTTATACATAGAATTAATTTAATACTTTATGCATATAGATATATGCAT
1 TTTAATTTTAGTTTATATTAATACATAGAATTAATTTAATACTTTATGCATATAGATATATGCAT
** * *
1815439 CTCAGTCACCAAACCATATACTATATATTTTGCTTAGTGACATTTATTATTACATAATTTGGCAG
66 CTCAGTCACCAAACCATATACTATATATCATGCGTAGTGACATTTATTATTACATAATCTGGCAG
1815504 TTAACACCATTTTCCATTAACTATATAAACTAAAACCCATAATGTTGCCAAATTCAACCACCAAA
131 TTAACACCATTTTCCATTAACTATATAAACTAAAACCCATAATGTTGCCAAATTCAACCACCAAA
*
1815569 ATTTTTATTAGTTTTATATTACAATTTTTATAGAACT
196 ATTTTTATTAATTTTATATTACAATTTTTATAGAACT
1815606 TTTAAT
1 TTTAAT
1815612 ATATAAAACT
Statistics
Matches: 231, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
232 231 1.00
ACGTcount: A:0.37, C:0.15, G:0.07, T:0.41
Consensus pattern (232 bp):
TTTAATTTTAGTTTATATTAATACATAGAATTAATTTAATACTTTATGCATATAGATATATGCAT
CTCAGTCACCAAACCATATACTATATATCATGCGTAGTGACATTTATTATTACATAATCTGGCAG
TTAACACCATTTTCCATTAACTATATAAACTAAAACCCATAATGTTGCCAAATTCAACCACCAAA
ATTTTTATTAATTTTATATTACAATTTTTATAGAACT
Found at i:1816640 original size:18 final size:18
Alignment explanation
Indices: 1816604--1816649 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
1816594 ACTTAAAAAT
** *
1816604 CCCTAAACCTGACCTAAA
1 CCCTAAACCCAACCCAAA
1816622 CCCTAAACCCAACCCAAA
1 CCCTAAACCCAACCCAAA
*
1816640 CACTAAACCC
1 CCCTAAACCC
1816650 GATCTGAATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.41, C:0.46, G:0.02, T:0.11
Consensus pattern (18 bp):
CCCTAAACCCAACCCAAA
Found at i:1817530 original size:42 final size:42
Alignment explanation
Indices: 1817473--1817569 Score: 160
Period size: 42 Copynumber: 2.3 Consensus size: 42
1817463 GATCAAAAAA
*
1817473 AACAACAGGG-GGAACACGATTCCAACAGAGGGTTCATCAAT
1 AACAAAAGGGAGGAACACGATTCCAACAGAGGGTTCATCAAT
*
1817514 AACAGAAGGGAGGAACACGATTCCAACAGAGGGTTCATCAAT
1 AACAAAAGGGAGGAACACGATTCCAACAGAGGGTTCATCAAT
*
1817556 AACAAAAGGCAGGA
1 AACAAAAGGGAGGA
1817570 GCATAACACA
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
41 8 0.16
42 43 0.84
ACGTcount: A:0.42, C:0.20, G:0.26, T:0.12
Consensus pattern (42 bp):
AACAAAAGGGAGGAACACGATTCCAACAGAGGGTTCATCAAT
Found at i:1825181 original size:40 final size:40
Alignment explanation
Indices: 1825126--1825201 Score: 152
Period size: 40 Copynumber: 1.9 Consensus size: 40
1825116 CGCAACAATC
1825126 GAATCTTCCTCAGCTTCACCCTTAAGCTCAGGTGCTAAAA
1 GAATCTTCCTCAGCTTCACCCTTAAGCTCAGGTGCTAAAA
1825166 GAATCTTCCTCAGCTTCACCCTTAAGCTCAGGTGCT
1 GAATCTTCCTCAGCTTCACCCTTAAGCTCAGGTGCT
1825202 CCTAAACCTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.24, C:0.32, G:0.16, T:0.29
Consensus pattern (40 bp):
GAATCTTCCTCAGCTTCACCCTTAAGCTCAGGTGCTAAAA
Found at i:1826406 original size:18 final size:18
Alignment explanation
Indices: 1826383--1826448 Score: 123
Period size: 18 Copynumber: 3.7 Consensus size: 18
1826373 AACACATATA
1826383 TCCCGAAAGACCACTATG
1 TCCCGAAAGACCACTATG
1826401 TCCCGAAAGACCACTATG
1 TCCCGAAAGACCACTATG
1826419 TCCCGAAAGACCACTATG
1 TCCCGAAAGACCACTATG
*
1826437 ACCCGAAAGACC
1 TCCCGAAAGACC
1826449 GCGTAGACCC
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
18 47 1.00
ACGTcount: A:0.35, C:0.35, G:0.17, T:0.14
Consensus pattern (18 bp):
TCCCGAAAGACCACTATG
Found at i:1827320 original size:24 final size:20
Alignment explanation
Indices: 1827271--1827329 Score: 73
Period size: 20 Copynumber: 2.8 Consensus size: 20
1827261 TTCCCATTGA
*
1827271 AGTGCATCGGTGCATTCTAC
1 AGTGCATCGATGCATTCTAC
1827291 AGTGCATCGATGCATTCTTTAAC
1 AGTGCATCGATGCATTC--T-AC
1827314 AGGTGCATCGATGCAT
1 A-GTGCATCGATGCAT
1827330 AACCATGCAT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
20 16 0.47
22 1 0.03
23 3 0.09
24 14 0.41
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.31
Consensus pattern (20 bp):
AGTGCATCGATGCATTCTAC
Found at i:1834208 original size:34 final size:34
Alignment explanation
Indices: 1834170--1834245 Score: 143
Period size: 34 Copynumber: 2.2 Consensus size: 34
1834160 TTGAGAGTTG
*
1834170 TTCTCTTTTTTATCAAGAGATAATTATCATTGTT
1 TTCTCTTTTTTATCAAGAGAGAATTATCATTGTT
1834204 TTCTCTTTTTTATCAAGAGAGAATTATCATTGTT
1 TTCTCTTTTTTATCAAGAGAGAATTATCATTGTT
1834238 TTCTCTTT
1 TTCTCTTT
1834246 AGTAGATTAA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 41 1.00
ACGTcount: A:0.24, C:0.13, G:0.09, T:0.54
Consensus pattern (34 bp):
TTCTCTTTTTTATCAAGAGAGAATTATCATTGTT
Found at i:1834260 original size:34 final size:34
Alignment explanation
Indices: 1834170--1834259 Score: 108
Period size: 34 Copynumber: 2.6 Consensus size: 34
1834160 TTGAGAGTTG
** *
1834170 TTCTCTTTTTTATCAAGAGATAATTATCATTGTT
1 TTCTCTTTTAGATCAAGAGAGAATTATCATTGTT
**
1834204 TTCTCTTTTTTATCAAGAGAGAATTATCATTGTT
1 TTCTCTTTTAGATCAAGAGAGAATTATCATTGTT
*
1834238 TTCTCTTTAGTAGATTAAGAGA
1 TTCTCTTT--TAGATCAAGAGA
1834260 AGTTGTAATT
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
34 41 0.82
36 9 0.18
ACGTcount: A:0.28, C:0.11, G:0.12, T:0.49
Consensus pattern (34 bp):
TTCTCTTTTAGATCAAGAGAGAATTATCATTGTT
Found at i:1834822 original size:2 final size:2
Alignment explanation
Indices: 1834815--1834842 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1834805 TAGAACTACT
1834815 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1834843 CTAATAGTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1840183 original size:15 final size:15
Alignment explanation
Indices: 1840163--1840266 Score: 102
Period size: 15 Copynumber: 6.5 Consensus size: 15
1840153 TAATAAGGTT
1840163 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
1840178 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
1840193 ATTTTATTTTAAAATA
1 A-TTTATTTTAAAATA
* *
1840209 AATTATTATAAAATATGGA
1 ATTTATT-TTAAA-AT--A
*
1840228 TTGATTTATTTTTAAATA
1 ---ATTTATTTTAAAATA
1840246 ATTTATTTT-AAATA
1 ATTTATTTTAAAATA
1840260 ATTTATT
1 ATTTATT
1840267 AATATAGATT
Statistics
Matches: 76, Mismatches: 5, Indels: 17
0.78 0.05 0.17
Matches are distributed among these distances:
14 12 0.16
15 30 0.39
16 19 0.25
17 2 0.03
18 1 0.01
19 1 0.01
20 2 0.03
21 3 0.04
22 6 0.08
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (15 bp):
ATTTATTTTAAAATA
Found at i:1840244 original size:22 final size:22
Alignment explanation
Indices: 1840219--1840313 Score: 77
Period size: 22 Copynumber: 4.2 Consensus size: 22
1840209 AATTATTATA
*
1840219 AAATATGGATTGATTTATTTTT
1 AAATATAGATTGATTTATTTTT
** * * *
1840241 AAATAATTTATTTTAAATAATTTATT
1 AAAT-A--TAGATTGATTTATTT-TT
*
1840267 A-ATATAGATTGATTTATTTTA
1 AAATATAGATTGATTTATTTTT
1840288 AAATATAGATTGATTTA-TTTT
1 AAATATAGATTGATTTATTTTT
1840309 AAATA
1 AAATA
1840314 ATTTATTAGT
Statistics
Matches: 55, Mismatches: 13, Indels: 11
0.70 0.16 0.14
Matches are distributed among these distances:
21 10 0.18
22 29 0.53
23 1 0.02
24 1 0.02
25 11 0.20
26 3 0.05
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (22 bp):
AAATATAGATTGATTTATTTTT
Found at i:1840247 original size:68 final size:68
Alignment explanation
Indices: 1840163--1840320 Score: 205
Period size: 68 Copynumber: 2.3 Consensus size: 68
1840153 TAATAAGGTT
* *
1840163 ATTTATTTTAAAATAATTTATTTTAAAATAATTTTATT-T-TAAAATAAATTATTATAAAATATG
1 ATTTATTTTTAAATAATTTATTTT-AAATAA-TTTATTATATAAAATAAATTATTATAAAATATA
1840226 GATTG
64 GATTG
* * * * *
1840231 ATTTATTTTTAAATAATTTATTTTAAATAATTTATTAATATAGATTGATTTATTTTAAAATATAG
1 ATTTATTTTTAAATAATTTATTTTAAATAATTTATT-ATATAAAATAAATTATTATAAAATATAG
1840296 ATTG
65 ATTG
1840300 ATTTA-TTTTAAATAATTTATT
1 ATTTATTTTTAAATAATTTATT
1840321 AGTATGAATT
Statistics
Matches: 80, Mismatches: 7, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
66 6 0.08
67 6 0.08
68 40 0.50
69 28 0.35
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.53
Consensus pattern (68 bp):
ATTTATTTTTAAATAATTTATTTTAAATAATTTATTATATAAAATAAATTATTATAAAATATAGA
TTG
Found at i:1840256 original size:14 final size:14
Alignment explanation
Indices: 1840231--1840266 Score: 63
Period size: 14 Copynumber: 2.5 Consensus size: 14
1840221 ATATGGATTG
1840231 ATTTATTTTTAAATA
1 ATTTA-TTTTAAATA
1840246 ATTTATTTTAAATA
1 ATTTATTTTAAATA
1840260 ATTTATT
1 ATTTATT
1840267 AATATAGATT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 16 0.76
15 5 0.24
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (14 bp):
ATTTATTTTAAATA
Found at i:1840284 original size:32 final size:32
Alignment explanation
Indices: 1840246--1840397 Score: 112
Period size: 32 Copynumber: 5.4 Consensus size: 32
1840236 TTTTTAAATA
1840246 ATTTATTTTAAATAATTTATTAATATAGATTG
1 ATTTATTTTAAATAATTTATTAATATAGATTG
1840278 ATTTA-TTT---T-A---A--AATATAGATTG
1 ATTTATTTTAAATAATTTATTAATATAGATTG
*
1840300 ATTTATTTTAAATAATTTATTAGTAT-GAATTG
1 ATTTATTTTAAATAATTTATTAATATAG-ATTG
*
1840332 ATTTATTTT--A-AA---A-T-AT-GA-ATTG
1 ATTTATTTTAAATAATTTATTAATATAGATTG
* *
1840354 ATTTATTTTAAATAATTTATTAGTATAAATTG
1 ATTTATTTTAAATAATTTATTAATATAGATTG
1840386 ATTTATTTTAAA
1 ATTTATTTTAAA
1840398 ATATGGATTG
Statistics
Matches: 93, Mismatches: 5, Indels: 44
0.65 0.04 0.31
Matches are distributed among these distances:
22 29 0.31
23 3 0.03
24 3 0.03
25 3 0.03
26 2 0.02
27 2 0.02
28 2 0.02
29 3 0.03
30 3 0.03
31 5 0.05
32 38 0.41
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (32 bp):
ATTTATTTTAAATAATTTATTAATATAGATTG
Found at i:1840311 original size:54 final size:54
Alignment explanation
Indices: 1840246--1840972 Score: 876
Period size: 54 Copynumber: 13.4 Consensus size: 54
1840236 TTTTTAAATA
* * *
1840246 ATTTATTTTAAATAATTTATTAATATAGATTGATTTATTTTAAAATATAGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
* *
1840300 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGAATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
**
1840354 ATTTATTTTAAATAATTTATTAGTATAAATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
*
1840408 ATTTA--TT--AT--TGTAGTT-GTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTA-TTT---TAA---A--A-TATGGATTG
*
1840466 ATTTATTTTAAATAATTTATTAATATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
*
1840520 ATTTATTTTAAATAATTCATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
*
1840574 ATTTATTTTAAATAATTTATTAGTTTGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1840628 ATTTATTTTAAATAATTTATTAGTATTGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTA-TGGATTGATTTATTTTAAAATATGGATTG
* **
1840683 ATTTATTTTAAATAATTTATTAGTATGGATTGCTTTATTTT-AAATAATTTATTAG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAAT-ATGGATT-G
** * ** * * * *** *
1840738 TATGGA-TTGATTTATTTTA-AAATATGGATTGATTTATTATTGTAGTTGTATGTATTG
1 -ATTTATTTTAAATAATTTATTAGTATGGATTGATTTA-T-TT-TA-AAATATGGATTG
* * *
1840795 ATTTATTTTATATAATTTATTAGTATGAATTAATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1840849 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
*
1840903 ATTTA--TT--AT--TGTAGTT-GTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTTAAAATATGGATTG
*
1840951 ATTTGTTTTAAATAATTTATTA
1 ATTTATTTTAAATAATTTATTA
1840973 TTGTAGTTGT
Statistics
Matches: 584, Mismatches: 52, Indels: 74
0.82 0.07 0.10
Matches are distributed among these distances:
48 55 0.09
49 7 0.01
50 6 0.01
52 9 0.02
53 6 0.01
54 344 0.59
55 69 0.12
56 10 0.02
57 15 0.03
58 33 0.06
59 1 0.00
60 5 0.01
62 2 0.00
63 5 0.01
64 17 0.03
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (54 bp):
ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
Found at i:1840337 original size:18 final size:18
Alignment explanation
Indices: 1840314--1840392 Score: 58
Period size: 18 Copynumber: 4.4 Consensus size: 18
1840304 ATTTTAAATA
1840314 ATTTATTAGTATGAATTG
1 ATTTATTAGTATGAATTG
*
1840332 ATTTATTTTAAAATATGAATTG
1 ATTTA--TT--AGTATGAATTG
* *
1840354 ATTTATT--T-T-AAATA
1 ATTTATTAGTATGAATTG
*
1840368 ATTTATTAGTATAAATTG
1 ATTTATTAGTATGAATTG
1840386 ATTTATT
1 ATTTATT
1840393 TTAAAATATG
Statistics
Matches: 48, Mismatches: 5, Indels: 16
0.70 0.07 0.23
Matches are distributed among these distances:
14 10 0.21
15 1 0.02
16 2 0.04
17 1 0.02
18 15 0.31
20 4 0.08
22 15 0.31
ACGTcount: A:0.38, C:0.00, G:0.09, T:0.53
Consensus pattern (18 bp):
ATTTATTAGTATGAATTG
Found at i:1840348 original size:22 final size:22
Alignment explanation
Indices: 1840323--1840365 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
1840313 AATTTATTAG
1840323 TATGAATTGATTTATTTTAAAA
1 TATGAATTGATTTATTTTAAAA
1840345 TATGAATTGATTTATTTTAAA
1 TATGAATTGATTTATTTTAAA
1840366 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (22 bp):
TATGAATTGATTTATTTTAAAA
Found at i:1840465 original size:32 final size:32
Alignment explanation
Indices: 1840424--1840758 Score: 345
Period size: 32 Copynumber: 11.7 Consensus size: 32
1840414 TATTGTAGTT
1840424 GTATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
1840456 GTATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
1840488 ATATGGATTGATTTA-TTT---TAA---A--A
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
1840511 -TATGGATTGATTTATTTTAAATAATTCATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
1840542 GTATGGATTGATTTA-TTT---TAA---A--A
1 GTATGGATTGATTTATTTTAAATAATTTATTA
1840565 -TATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
1840596 GTTTGGATTGATTTA-TTT---TAA---A--A
1 GTATGGATTGATTTATTTTAAATAATTTATTA
1840619 -TATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
1840650 GTATTGGATTGATTTA-TTT---TAA---A--A
1 GTA-TGGATTGATTTATTTTAAATAATTTATTA
1840674 -TATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
1840705 GTATGGATTGCTTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
1840737 GTATGGATTGATTTATTTTAAA
1 GTATGGATTGATTTATTTTAAA
1840759 ATATGGATTG
Statistics
Matches: 257, Mismatches: 5, Indels: 82
0.75 0.01 0.24
Matches are distributed among these distances:
22 53 0.21
23 17 0.07
24 1 0.00
25 3 0.01
26 13 0.05
28 9 0.04
29 7 0.03
31 13 0.05
32 129 0.50
33 12 0.05
ACGTcount: A:0.34, C:0.01, G:0.13, T:0.52
Consensus pattern (32 bp):
GTATGGATTGATTTATTTTAAATAATTTATTA
Found at i:1840512 original size:22 final size:22
Alignment explanation
Indices: 1840487--1840531 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
1840477 ATAATTTATT
1840487 AATATGGATTGATTTATTTTAA
1 AATATGGATTGATTTATTTTAA
1840509 AATATGGATTGATTTATTTTAA
1 AATATGGATTGATTTATTTTAA
1840531 A
1 A
1840532 TAATTCATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.38, C:0.00, G:0.13, T:0.49
Consensus pattern (22 bp):
AATATGGATTGATTTATTTTAA
Found at i:1840571 original size:22 final size:22
Alignment explanation
Indices: 1840543--1840585 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
1840533 AATTCATTAG
1840543 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
1840565 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
1840586 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:1840666 original size:87 final size:83
Alignment explanation
Indices: 1840289--1840892 Score: 516
Period size: 86 Copynumber: 7.3 Consensus size: 83
1840279 TTTATTTTAA
* *
1840289 AATATAGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGAATTG
1 AATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT-AAATA-G-ATTG
*
1840354 ATTTATTTTAAATAATTTATT
63 ATTTATTTGAAATAATTTATT
* ** ** ** * *
1840375 AGTATAAATTGATTTATTTTAAA-ATATGGATT-G-ATTTATT-ATTGTAGTTGT--ATGGATTG
1 AATATGGATTGATTTATTTTAAATA-ATTTATTAGTATGGATTGATT-TA-TTTTAAATAGATTG
*
1840434 ATTTATTTTAAATAATTTATT
63 ATTTATTTGAAATAATTTATT
* *
1840455 AGTATGGATTGATTTATTTTAAATAATTTATTAATATGGATTGATTTATTTTAAAATATGGATTG
1 AATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT-AAATA--GATTG
* *
1840520 ATTTATTTTAAATAATTCATT
63 ATTTATTTGAAATAATTTATT
* *
1840541 AGTATGGATTGATTTA-TTT---TAA---A--A-TATGGATTGATTTATTTTAAATA-ATTTA-T
1 AATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAGATTGATT
* * *
1840594 TAGTTTGGATTGATTTATTTT
66 TA-TTTGAAATAATTTA--TT
1840615 AAAATATGGATTGATTTATTTTAAATAATTTATTAGTATTGGATTGATTTATTTTAAAATATGGA
1 --AATATGGATTGATTTATTTTAAATAATTTATTAGTA-TGGATTGATTTATTTT-AAATA--GA
*
1840680 TTGATTTATTTTAAATAATTTATT
60 TTGATTTATTTGAAATAATTTATT
* * * *
1840704 AGTATGGATTGCTTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAA-ATATGGATT
1 AATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAGATTGATT
* *
1840768 GATTT---ATTATTGTAGTT
66 TATTTGAAATAATT-TA-TT
* * * * *
1840785 -GTATGTATTGATTTATTTTATATAATTTATTAGTATGAATTAATTTATTTTAAAATATGGATTG
1 AATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT-AAATA--GATTG
*
1840849 ATTTATTTTAAATAATTTATT
63 ATTTATTTGAAATAATTTATT
*
1840870 AGTATGGATTGATTTATTTTAAA
1 AATATGGATTGATTTATTTTAAA
1840893 ATATGGATTG
Statistics
Matches: 428, Mismatches: 47, Indels: 86
0.76 0.08 0.15
Matches are distributed among these distances:
71 3 0.01
72 13 0.03
74 2 0.00
75 5 0.01
76 33 0.08
77 4 0.01
79 6 0.01
80 102 0.24
81 10 0.02
82 23 0.05
83 7 0.02
84 20 0.05
85 14 0.03
86 107 0.25
87 55 0.13
88 5 0.01
89 2 0.00
91 14 0.03
92 3 0.01
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.52
Consensus pattern (83 bp):
AATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAGATTGATT
TATTTGAAATAATTTATT
Found at i:1840831 original size:32 final size:30
Alignment explanation
Indices: 1840785--1840891 Score: 104
Period size: 32 Copynumber: 3.7 Consensus size: 30
1840775 TATTGTAGTT
1840785 GTATGTATTGATTTATTTTATATAATTTATTA
1 GTATG-ATTGATTTATTTTA-ATAATTTATTA
*
1840817 GTATGAATTAATTTATTTTAA-AA--TA-T-
1 GTATG-ATTGATTTATTTTAATAATTTATTA
1840843 G---GATTGATTTATTTTAAATAATTTATTA
1 GTATGATTGATTTATTTT-AATAATTTATTA
1840871 GTATGGATTGATTTATTTTAA
1 GTAT-GATTGATTTATTTTAA
1840892 AATATGGATT
Statistics
Matches: 62, Mismatches: 3, Indels: 21
0.72 0.03 0.24
Matches are distributed among these distances:
22 12 0.19
23 3 0.05
24 2 0.03
26 3 0.05
27 2 0.03
28 3 0.05
30 2 0.03
31 3 0.05
32 32 0.52
ACGTcount: A:0.35, C:0.00, G:0.11, T:0.54
Consensus pattern (30 bp):
GTATGATTGATTTATTTTAATAATTTATTA
Found at i:1840843 original size:22 final size:22
Alignment explanation
Indices: 1840818--1840860 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
1840808 AATTTATTAG
1840818 TATGAATTAATTTATTTTAAAA
1 TATGAATTAATTTATTTTAAAA
* *
1840840 TATGGATTGATTTATTTTAAA
1 TATGAATTAATTTATTTTAAA
1840861 TAATTTATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (22 bp):
TATGAATTAATTTATTTTAAAA
Found at i:1840886 original size:18 final size:18
Alignment explanation
Indices: 1840863--1840910 Score: 51
Period size: 22 Copynumber: 2.4 Consensus size: 18
1840853 ATTTTAAATA
*
1840863 ATTTATTAGTATGGATTG
1 ATTTATTAATATGGATTG
1840881 ATTTATTTTAAAATATGGATTG
1 ATTTA--TT--AATATGGATTG
1840903 ATTTATTA
1 ATTTATTA
1840911 TTGTAGTTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 8
0.74 0.03 0.24
Matches are distributed among these distances:
18 6 0.24
20 4 0.16
22 15 0.60
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (18 bp):
ATTTATTAATATGGATTG
Found at i:1840897 original size:22 final size:22
Alignment explanation
Indices: 1840872--1840962 Score: 110
Period size: 22 Copynumber: 4.0 Consensus size: 22
1840862 AATTTATTAG
1840872 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
***
1840894 TATGGATTGATTTATTATTGTAGTTG
1 TATGGATTGATTTA-T-TT-TA-AAA
1840920 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
*
1840942 TATGGATTGATTTGTTTTAAA
1 TATGGATTGATTTATTTTAAA
1840963 TAATTTATTA
Statistics
Matches: 58, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
22 34 0.59
23 3 0.05
24 4 0.07
25 3 0.05
26 14 0.24
ACGTcount: A:0.31, C:0.00, G:0.18, T:0.52
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:1841022 original size:31 final size:31
Alignment explanation
Indices: 1840987--1841076 Score: 162
Period size: 31 Copynumber: 2.9 Consensus size: 31
1840977 AGTTGTATGG
*
1840987 ATTATTTAAATTTCAGTATTGTAAAACTAAA
1 ATTATTTAAATCTCAGTATTGTAAAACTAAA
1841018 ATTATTTAAATCTCAGTATTGTAAAACTAAA
1 ATTATTTAAATCTCAGTATTGTAAAACTAAA
*
1841049 ATTATTTAAATCTCAGTATTGCAAAACT
1 ATTATTTAAATCTCAGTATTGTAAAACT
1841077 CTTTTATGTT
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 57 1.00
ACGTcount: A:0.43, C:0.10, G:0.07, T:0.40
Consensus pattern (31 bp):
ATTATTTAAATCTCAGTATTGTAAAACTAAA
Found at i:1849984 original size:13 final size:14
Alignment explanation
Indices: 1849965--1850014 Score: 66
Period size: 14 Copynumber: 3.6 Consensus size: 14
1849955 TAATAAAAAT
1849965 AATTAAATACAAAC
1 AATTAAATACAAAC
1849979 -ATTAAATACAAAC
1 AATTAAATACAAAC
* * *
1849992 GATTCAATTCAAAC
1 AATTAAATACAAAC
1850006 AATTAAATA
1 AATTAAATA
1850015 ATAAAAAAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
13 13 0.43
14 17 0.57
ACGTcount: A:0.58, C:0.14, G:0.02, T:0.26
Consensus pattern (14 bp):
AATTAAATACAAAC
Found at i:1850801 original size:20 final size:20
Alignment explanation
Indices: 1850777--1850813 Score: 67
Period size: 19 Copynumber: 1.9 Consensus size: 20
1850767 ATTTAGTGTA
1850777 AAAAAATTA-TTATATACTC
1 AAAAAATTATTTATATACTC
1850796 AAAAAATTATTTATATAC
1 AAAAAATTATTTATATAC
1850814 GAAATCAGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (20 bp):
AAAAAATTATTTATATACTC
Found at i:1854386 original size:24 final size:24
Alignment explanation
Indices: 1854359--1854412 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
1854349 GTATTTGAAA
1854359 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* * *
1854383 TTTGATCTTGGTTAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
1854407 TTTGAT
1 TTTGAT
1854413 GATTTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.43
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:1854595 original size:3 final size:3
Alignment explanation
Indices: 1854587--1854616 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
1854577 ATATAACCCT
*
1854587 GAA GAA GAA GAA TAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1854617 ATCCCCAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.67, C:0.00, G:0.30, T:0.03
Consensus pattern (3 bp):
GAA
Found at i:1856881 original size:20 final size:20
Alignment explanation
Indices: 1856856--1856938 Score: 123
Period size: 20 Copynumber: 4.2 Consensus size: 20
1856846 CATCACGGAA
*
1856856 ATCGCAACTC-GAATATGACT
1 ATCGCAACGCGGAAT-TGACT
* *
1856876 ATCGCAACACGGAAATGACT
1 ATCGCAACGCGGAATTGACT
1856896 ATCGCAACGCGGAATTGACT
1 ATCGCAACGCGGAATTGACT
1856916 ATCGCAACGCGGAATTGACT
1 ATCGCAACGCGGAATTGACT
1856936 ATC
1 ATC
1856939 ACAATGAGAG
Statistics
Matches: 58, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
20 55 0.95
21 3 0.05
ACGTcount: A:0.34, C:0.25, G:0.20, T:0.20
Consensus pattern (20 bp):
ATCGCAACGCGGAATTGACT
Found at i:1856987 original size:33 final size:34
Alignment explanation
Indices: 1856948--1857011 Score: 112
Period size: 34 Copynumber: 1.9 Consensus size: 34
1856938 CACAATGAGA
*
1856948 GAATCGCAATGCG-AAATGAAAGTCGCAACGAGT
1 GAATCGCAATGCGAAAATGAAAATCGCAACGAGT
1856981 GAATCGCAATGCGAAAATGAAAATCGCAACG
1 GAATCGCAATGCGAAAATGAAAATCGCAACG
1857012 CGAATTTAGT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
33 13 0.45
34 16 0.55
ACGTcount: A:0.42, C:0.19, G:0.25, T:0.14
Consensus pattern (34 bp):
GAATCGCAATGCGAAAATGAAAATCGCAACGAGT
Found at i:1857213 original size:14 final size:14
Alignment explanation
Indices: 1857194--1857230 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
1857184 CATCAATTAA
1857194 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
1857208 ACAAATCATCTTTT
1 ACAAATCAACATTT
1857222 ACAAATCAA
1 ACAAATCAA
1857231 TTAAACAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:1858716 original size:42 final size:42
Alignment explanation
Indices: 1858609--1858720 Score: 111
Period size: 42 Copynumber: 2.7 Consensus size: 42
1858599 TCTAGAATGT
* * * *
1858609 TGGGAG-GGACCTCTTCAACGAAGACAGTGGCCTCTTGAACGG
1 TGGGAGAGG-CCTCTTGAACGATGACAGGGGCCTCTTGAACGA
* * ** *
1858651 TGGGAGGGGACTCTTGAGGGATGATAGGGGCCTCTTGAACGA
1 TGGGAGAGGCCTCTTGAACGATGACAGGGGCCTCTTGAACGA
1858693 TAGGG-GAGGCCTCTTGAACGATGACAGG
1 T-GGGAGAGGCCTCTTGAACGATGACAGG
1858721 TGAGTCGGGC
Statistics
Matches: 55, Mismatches: 13, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
42 50 0.91
43 5 0.09
ACGTcount: A:0.23, C:0.19, G:0.38, T:0.20
Consensus pattern (42 bp):
TGGGAGAGGCCTCTTGAACGATGACAGGGGCCTCTTGAACGA
Found at i:1859240 original size:20 final size:20
Alignment explanation
Indices: 1859182--1859285 Score: 124
Period size: 19 Copynumber: 5.3 Consensus size: 20
1859172 GAAACTTAAA
*
1859182 ATCGCAACGCGAAAATGACT
1 ATCGCAATGCGAAAATGACT
*
1859202 -TCGCAATGAG-AAATGACT
1 ATCGCAATGCGAAAATGACT
*
1859220 ATCGCAATGCGAAAATAACT
1 ATCGCAATGCGAAAATGACT
*
1859240 ATCGCAATGCG-AATTGACT
1 ATCGCAATGCGAAAATGACT
** *
1859259 ATCGCAATGCGAATTTAACT
1 ATCGCAATGCGAAAATGACT
1859279 ATCGCAA
1 ATCGCAA
1859286 CGAGAGAATC
Statistics
Matches: 73, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
18 8 0.11
19 34 0.47
20 31 0.42
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.22
Consensus pattern (20 bp):
ATCGCAATGCGAAAATGACT
Found at i:1859258 original size:39 final size:39
Alignment explanation
Indices: 1859182--1859290 Score: 148
Period size: 39 Copynumber: 2.8 Consensus size: 39
1859172 GAAACTTAAA
* *
1859182 ATCGCAACGCGAAAATGACT-TCGCAATGAGAAATGACT
1 ATCGCAATGCGAAAATAACTATCGCAATGAGAAATGACT
* *
1859220 ATCGCAATGCGAAAATAACTATCGCAATGCGAATTGACT
1 ATCGCAATGCGAAAATAACTATCGCAATGAGAAATGACT
** *
1859259 ATCGCAATGCGAATTTAACTATCGCAACGAGA
1 ATCGCAATGCGAAAATAACTATCGCAATGAGA
1859291 GAATCGCAAT
Statistics
Matches: 62, Mismatches: 8, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
38 18 0.29
39 44 0.71
ACGTcount: A:0.39, C:0.21, G:0.19, T:0.21
Consensus pattern (39 bp):
ATCGCAATGCGAAAATAACTATCGCAATGAGAAATGACT
Found at i:1859350 original size:34 final size:37
Alignment explanation
Indices: 1859311--1859405 Score: 115
Period size: 40 Copynumber: 2.5 Consensus size: 37
1859301 GCGATTTCAT
1859311 TTCGCATTGCGAT-TC-TTTCG-TTGCGATAGTCAAA
1 TTCGCATTGCGATATCATTTCGATTGCGATAGTCAAA
**
1859345 TTCGCATTGCGATAGTCATTTTCGCATTGCGATAGTCATT
1 TTCGCATTGCGATA-TCA-TTTCG-ATTGCGATAGTCAAA
1859385 TTCGCATTGCGATAGTCATTT
1 TTCGCATTGCGATA-TCATTT
1859406 TCGCGTTGCG
Statistics
Matches: 53, Mismatches: 2, Indels: 7
0.85 0.03 0.11
Matches are distributed among these distances:
34 13 0.25
36 2 0.04
38 5 0.09
39 3 0.06
40 30 0.57
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.40
Consensus pattern (37 bp):
TTCGCATTGCGATATCATTTCGATTGCGATAGTCAAA
Found at i:1859356 original size:20 final size:20
Alignment explanation
Indices: 1859331--1859417 Score: 147
Period size: 20 Copynumber: 4.3 Consensus size: 20
1859321 GATTCTTTCG
**
1859331 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCATTTTCGCA
1859351 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
1859371 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
*
1859391 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCATTTTCGCA
1859411 TTGCGAT
1 TTGCGAT
1859418 TTTATTGTTG
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 64 1.00
ACGTcount: A:0.21, C:0.20, G:0.22, T:0.38
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCGCA
Found at i:1859427 original size:14 final size:14
Alignment explanation
Indices: 1859410--1859448 Score: 78
Period size: 14 Copynumber: 2.8 Consensus size: 14
1859400 TCATTTTCGC
1859410 GTTGCGATTTTATT
1 GTTGCGATTTTATT
1859424 GTTGCGATTTTATT
1 GTTGCGATTTTATT
1859438 GTTGCGATTTT
1 GTTGCGATTTT
1859449 CATTTCGCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.13, C:0.08, G:0.23, T:0.56
Consensus pattern (14 bp):
GTTGCGATTTTATT
Found at i:1859464 original size:33 final size:33
Alignment explanation
Indices: 1859425--1859497 Score: 83
Period size: 33 Copynumber: 2.2 Consensus size: 33
1859415 GATTTTATTG
* * **
1859425 TTGCGATTTTATTGTTGCGATTTTCATTTCGCA
1 TTGCGATTCTATCGTTGCGATAGTCATTTCGCA
* * *
1859458 TTGCGATTCTCTCGTTGCGATAGTCTTTTCGCG
1 TTGCGATTCTATCGTTGCGATAGTCATTTCGCA
1859491 TTGCGAT
1 TTGCGAT
1859498 AGTCATTTCG
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.12, C:0.19, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTCTATCGTTGCGATAGTCATTTCGCA
Found at i:1861449 original size:20 final size:20
Alignment explanation
Indices: 1861391--1861460 Score: 86
Period size: 20 Copynumber: 3.5 Consensus size: 20
1861381 GAAACTTTAA
* **
1861391 ATCGCAACACGAAAATGAAA
1 ATCGCAACGCGAAAATGACT
*
1861411 ATCGCAACACGAAAATGACT
1 ATCGCAACGCGAAAATGACT
**
1861431 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
1861451 ATCGCAACGC
1 ATCGCAACGC
1861461 AAGAATCGCA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.41, C:0.26, G:0.17, T:0.16
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:1861499 original size:33 final size:34
Alignment explanation
Indices: 1861431--1861503 Score: 87
Period size: 33 Copynumber: 2.2 Consensus size: 34
1861421 GAAAATGACT
* ** *
1861431 ATCGCAACGCGAATTTGACTATCGCAACGCAAGA
1 ATCGCAACGCGAATATGAAAATCACAACGCAAGA
1861465 ATCGCAACGCGAA-ATGAAAATCACAACG-ACAGA
1 ATCGCAACGCGAATATGAAAATCACAACGCA-AGA
1861498 ATCGCA
1 ATCGCA
1861504 TTGCGATAGT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
32 1 0.03
33 20 0.59
34 13 0.38
ACGTcount: A:0.41, C:0.26, G:0.19, T:0.14
Consensus pattern (34 bp):
ATCGCAACGCGAATATGAAAATCACAACGCAAGA
Found at i:1861885 original size:22 final size:22
Alignment explanation
Indices: 1861823--1861888 Score: 105
Period size: 22 Copynumber: 3.0 Consensus size: 22
1861813 TGTCTGTGAA
* *
1861823 TGATTTCGCCGGAGATGGAGAC
1 TGATTTCGTCGGAGATGGGGAC
*
1861845 TGATATCGTCGGAGATGGGGAC
1 TGATTTCGTCGGAGATGGGGAC
1861867 TGATTTCGTCGGAGATGGGGAC
1 TGATTTCGTCGGAGATGGGGAC
1861889 GGATGTCGCC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 40 1.00
ACGTcount: A:0.21, C:0.15, G:0.39, T:0.24
Consensus pattern (22 bp):
TGATTTCGTCGGAGATGGGGAC
Found at i:1862111 original size:20 final size:20
Alignment explanation
Indices: 1862088--1862174 Score: 156
Period size: 20 Copynumber: 4.3 Consensus size: 20
1862078 AGTCAGATTT
*
1862088 GCATTGCGATTTACATATTC
1 GCATTGCGATTTACGTATTC
1862108 GCATTGCGATTTACGTATTC
1 GCATTGCGATTTACGTATTC
1862128 GCATTGCGATTTACGTATTC
1 GCATTGCGATTTACGTATTC
*
1862148 GCATTGTGATTTACGTATTC
1 GCATTGCGATTTACGTATTC
1862168 GCATTGC
1 GCATTGC
1862175 AAATTAGGAA
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 64 1.00
ACGTcount: A:0.21, C:0.20, G:0.20, T:0.40
Consensus pattern (20 bp):
GCATTGCGATTTACGTATTC
Found at i:1862200 original size:21 final size:21
Alignment explanation
Indices: 1862166--1862239 Score: 112
Period size: 21 Copynumber: 3.5 Consensus size: 21
1862156 ATTTACGTAT
* * *
1862166 TCGCATTGCAAATTAGGAAAA
1 TCGCAATGCGAATTTGGAAAA
*
1862187 TCGCAACGCGAATTTGGAAAA
1 TCGCAATGCGAATTTGGAAAA
1862208 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAATTTGGAAAA
1862229 TCGCAATGCGA
1 TCGCAATGCGA
1862240 TAGTCAGAAT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 48 1.00
ACGTcount: A:0.38, C:0.18, G:0.23, T:0.22
Consensus pattern (21 bp):
TCGCAATGCGAATTTGGAAAA
Found at i:1862944 original size:16 final size:16
Alignment explanation
Indices: 1862925--1862967 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
1862915 ATGATGATAA
1862925 TAAATATTTTTAATTT
1 TAAATATTTTTAATTT
* * *
1862941 TAAAAATTATAAATTT
1 TAAATATTTTTAATTT
*
1862957 TATATATTTTT
1 TAAATATTTTT
1862968 GAAAAAAAAT
Statistics
Matches: 20, Mismatches: 7, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
TAAATATTTTTAATTT
Found at i:1863051 original size:154 final size:157
Alignment explanation
Indices: 1862860--1863171 Score: 603
Period size: 154 Copynumber: 2.0 Consensus size: 157
1862850 GTAAGTATTT
1862860 TAAAATATGAATAATTTTATAAAAGTTTTATAACTATTATTTCTTTTTCAAAATGATGATGATAA
1 TAAAATATGAATAATTTTATAAAAGTTTTATAACTATTATTTCTTTTTCAAAATGATGATGATAA
1862925 TAAATATTTTTAATTTTAAAAATTATAAATTTTATATATTTTTGAAAAAAAATTAAC-TT-TA-T
66 TAAATATTTTTAATTTTAAAAATTATAAATTTTATATATTTTTGAAAAAAAATTAACTTTATATT
1862987 TTTTTATTGAATTTTATTCACTTTTAA
131 TTTTTATTGAATTTTATTCACTTTTAA
1863014 TAAAATATGAATAATTTTATAAAAGTTTTATAACTATTATTTCTTTTTCAAAATGATGATGATAA
1 TAAAATATGAATAATTTTATAAAAGTTTTATAACTATTATTTCTTTTTCAAAATGATGATGATAA
1863079 TAAATATTTTTAATTTTAAAAATTATAAATTTTATATATTTTTGAAAAAAAATTAACTTTATATT
66 TAAATATTTTTAATTTTAAAAATTATAAATTTTATATATTTTTGAAAAAAAATTAACTTTATATT
1863144 TTTTTATTGAATTTTATTCACTTTTAA
131 TTTTTATTGAATTTTATTCACTTTTAA
1863171 T
1 T
1863172 TTTTTATTGT
Statistics
Matches: 155, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
154 122 0.79
155 2 0.01
156 2 0.01
157 29 0.19
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.50
Consensus pattern (157 bp):
TAAAATATGAATAATTTTATAAAAGTTTTATAACTATTATTTCTTTTTCAAAATGATGATGATAA
TAAATATTTTTAATTTTAAAAATTATAAATTTTATATATTTTTGAAAAAAAATTAACTTTATATT
TTTTTATTGAATTTTATTCACTTTTAA
Found at i:1863098 original size:16 final size:16
Alignment explanation
Indices: 1863079--1863121 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
1863069 ATGATGATAA
1863079 TAAATATTTTTAATTT
1 TAAATATTTTTAATTT
* * *
1863095 TAAAAATTATAAATTT
1 TAAATATTTTTAATTT
*
1863111 TATATATTTTT
1 TAAATATTTTT
1863122 GAAAAAAAAT
Statistics
Matches: 20, Mismatches: 7, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
TAAATATTTTTAATTT
Found at i:1863175 original size:28 final size:27
Alignment explanation
Indices: 1863134--1863199 Score: 80
Period size: 28 Copynumber: 2.4 Consensus size: 27
1863124 AAAAAAATTA
*
1863134 ACTTTATATTTTTTTATTGAA-TTTTATT
1 ACTTT-TAATTTTTTATTGAATTTTTA-T
*
1863162 CACTTTTAATTTTTTATTGTATTTTTAT
1 -ACTTTTAATTTTTTATTGAATTTTTAT
1863190 ACTTTTAATT
1 ACTTTTAATT
1863200 ACCATTTATA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 10 0.29
28 14 0.41
29 10 0.29
ACGTcount: A:0.24, C:0.06, G:0.03, T:0.67
Consensus pattern (27 bp):
ACTTTTAATTTTTTATTGAATTTTTAT
Found at i:1863268 original size:28 final size:28
Alignment explanation
Indices: 1863236--1863291 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
1863226 ATTCATTTTT
1863236 TTTAAAA-TCAATAAAAATACAATAAAAA
1 TTTAAAATTCAAT-AAAATACAATAAAAA
* *
1863264 TTTAAAATTGAATAAAATTCAATAAAAA
1 TTTAAAATTCAATAAAATACAATAAAAA
1863292 AGAATATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 21 0.84
29 4 0.16
ACGTcount: A:0.64, C:0.05, G:0.02, T:0.29
Consensus pattern (28 bp):
TTTAAAATTCAATAAAATACAATAAAAA
Found at i:1863716 original size:10 final size:10
Alignment explanation
Indices: 1863698--1863747 Score: 50
Period size: 10 Copynumber: 5.1 Consensus size: 10
1863688 ATTTTTTTAA
1863698 AAAAT-CAAT
1 AAAATACAAT
1863707 AAAATACAAT
1 AAAATACAAT
*
1863717 AAAATGA-ATT
1 AAAAT-ACAAT
*
1863727 AAAATTCAAT
1 AAAATACAAT
*
1863737 AAAATTCAAT
1 AAAATACAAT
1863747 A
1 A
1863748 CAAAAAGAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
9 5 0.14
10 29 0.83
11 1 0.03
ACGTcount: A:0.64, C:0.08, G:0.02, T:0.26
Consensus pattern (10 bp):
AAAATACAAT
Found at i:1867544 original size:152 final size:152
Alignment explanation
Indices: 1867268--1867571 Score: 608
Period size: 152 Copynumber: 2.0 Consensus size: 152
1867258 TATTAAAAAT
1867268 TAACTGTTTCCTAATCTCTCTCAGACTAATAATAATTTGACTCCTCATGATAATAAAACTGATGT
1 TAACTGTTTCCTAATCTCTCTCAGACTAATAATAATTTGACTCCTCATGATAATAAAACTGATGT
1867333 CTCCTAAAATAATAATATTTATTTTTTCTTTAGTAATTAACATAACATTTTCAATCAGCTCGTTT
66 CTCCTAAAATAATAATATTTATTTTTTCTTTAGTAATTAACATAACATTTTCAATCAGCTCGTTT
1867398 TATTAAAATGATGTTCGCTGAA
131 TATTAAAATGATGTTCGCTGAA
1867420 TAACTGTTTCCTAATCTCTCTCAGACTAATAATAATTTGACTCCTCATGATAATAAAACTGATGT
1 TAACTGTTTCCTAATCTCTCTCAGACTAATAATAATTTGACTCCTCATGATAATAAAACTGATGT
1867485 CTCCTAAAATAATAATATTTATTTTTTCTTTAGTAATTAACATAACATTTTCAATCAGCTCGTTT
66 CTCCTAAAATAATAATATTTATTTTTTCTTTAGTAATTAACATAACATTTTCAATCAGCTCGTTT
1867550 TATTAAAATGATGTTCGCTGAA
131 TATTAAAATGATGTTCGCTGAA
1867572 GTTGACCATA
Statistics
Matches: 152, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
152 152 1.00
ACGTcount: A:0.34, C:0.16, G:0.09, T:0.41
Consensus pattern (152 bp):
TAACTGTTTCCTAATCTCTCTCAGACTAATAATAATTTGACTCCTCATGATAATAAAACTGATGT
CTCCTAAAATAATAATATTTATTTTTTCTTTAGTAATTAACATAACATTTTCAATCAGCTCGTTT
TATTAAAATGATGTTCGCTGAA
Done.