Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009611.1 Hibiscus syriacus cultivar Beakdansim tig00116997_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: 6671611
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 15 of 27
Found at i:3980939 original size:7 final size:7
Alignment explanation
Indices: 3980919--3981012 Score: 50
Period size: 7 Copynumber: 13.6 Consensus size: 7
3980909 CATCATAAAG
*
3980919 AGAAAGA
1 AGAAAAA
3980926 AGAAAAA
1 AGAAAAA
*
3980933 A-AGAAA
1 AGAAAAA
*
3980939 A-AAAAT
1 AGAAAAA
3980945 AGAAAAA
1 AGAAAAA
* * *
3980952 ATATAGA
1 AGAAAAA
3980959 AGAAAAA
1 AGAAAAA
*
3980966 AGAGAAA
1 AGAAAAA
*
3980973 AGAAAAT
1 AGAAAAA
* **
3980980 TGAAATG
1 AGAAAAA
3980987 AGAAAAA
1 AGAAAAA
3980994 ATGAAAATA
1 A-GAAAA-A
3981003 A-AAAAA
1 AGAAAAA
3981009 AGAA
1 AGAA
3981013 GGAAAGAAGA
Statistics
Matches: 63, Mismatches: 20, Indels: 8
0.69 0.22 0.09
Matches are distributed among these distances:
6 11 0.17
7 45 0.71
8 5 0.08
9 2 0.03
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.09
Consensus pattern (7 bp):
AGAAAAA
Found at i:3983377 original size:37 final size:36
Alignment explanation
Indices: 3983196--3983376 Score: 267
Period size: 36 Copynumber: 5.0 Consensus size: 36
3983186 GATTGGGGCA
*
3983196 AGTCAATCTTAAGCCTTCACCGGAGAGTAGTGAAGC
1 AGTCAATCTTAAGCCTTCACCGAAGAGTAGTGAAGC
* *
3983232 GGTC-ATCTTAAGCCTTCACCGAAGAGAAGTGAAGC
1 AGTCAATCTTAAGCCTTCACCGAAGAGTAGTGAAGC
*
3983267 AGTCATTCTTAAGCCTTCACCGAAGAAG-AGTGAAGC
1 AGTCAATCTTAAGCCTTCACCGAAG-AGTAGTGAAGC
* *
3983303 AGTTAATCTTAAGCCTTCACCAAAGAGTAGTGAAGC
1 AGTCAATCTTAAGCCTTCACCGAAGAGTAGTGAAGC
*
3983339 AACTCAATCTTAAGCCTTCACCGAAGAGTAGTGAAGC
1 -AGTCAATCTTAAGCCTTCACCGAAGAGTAGTGAAGC
3983376 A
1 A
3983377 AATCCATCCG
Statistics
Matches: 130, Mismatches: 11, Indels: 8
0.87 0.07 0.05
Matches are distributed among these distances:
35 34 0.26
36 61 0.47
37 35 0.27
ACGTcount: A:0.34, C:0.22, G:0.22, T:0.22
Consensus pattern (36 bp):
AGTCAATCTTAAGCCTTCACCGAAGAGTAGTGAAGC
Found at i:3983806 original size:205 final size:205
Alignment explanation
Indices: 3983380--3985077 Score: 2560
Period size: 205 Copynumber: 8.2 Consensus size: 205
3983370 TGAAGCAAAT
* * * *
3983380 CCATCCGTAAGACCTTCGGGTATGATGTTTTCA-TTGAATTTGAAAATAAGAAAATGATGATTTA
1 CCATCCATAAAACCTTCGGGTAGGATGTTTTCACATGAATTTGAAAATAA-AAAA--ATGA--T-
*
3983444 AGATGATGAAATTTTTGAAAACGAAGAATGCGAGTTTCAAAATTTCACAATTTATAAGTCCTTCG
60 -G-T--TGGAATTTTTGAAAACGAAGAATGCGAGTTTCAAAATTTCACAATTTATAAGTCCTTCG
* *
3983509 GGCCATCAGTAAGTCTTTCGAACATGATGCTTAAATCCCTCGGGTCATCTGTAAGTCTTTAGAGC
121 GGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGTCTTTAGAGC
*
3983574 AAGATGATAAGTCCTCCGGG
186 AAGATGATAAGTCCTTCGGG
* * *
3983594 ACATCCATAAAACCCTCGGGTAGGATGTTTTCACATGAATTTGAGAATAAAAAAATGATGTTGGA
1 CCATCCATAAAACCTTCGGGTAGGATGTTTTCACATGAATTTGAAAATAAAAAAATGATGTTGGA
* *
3983659 ATTTTTGAAAATGAAGAATGCGAGTTTCAAAATTTCACAATTTATAAGTCCTTTGGGCCATCAGT
66 ATTTTTGAAAACGAAGAATGCGAGTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGT
*
3983724 AAGTCTTTCGAGCATGATGCTTAAATCATTCGGGTCATCTGTAAGTCTTTAGAGCAAGATGATAA
131 AAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGTCTTTAGAGCAAGATGATAA
3983789 GTCCTTCGGG
196 GTCCTTCGGG
* *
3983799 CCATCCATAAAACCTTCGGGTAGGATGTTTTCACATGAATTTGAGAATGAAAAAATGATGTTGGA
1 CCATCCATAAAACCTTCGGGTAGGATGTTTTCACATGAATTTGAAAATAAAAAAATGATGTTGGA
*
3983864 ATTTTTGAAAACGAAGAATGCGAGTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCTATCAGT
66 ATTTTTGAAAACGAAGAATGCGAGTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGT
* *
3983929 AAGTCTTTCGAGCATGATGCGTAAATCCTTCGGGTCATCTGTAAGTATTTAGAGCAAGATGATAA
131 AAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGTCTTTAGAGCAAGATGATAA
3983994 GTCCTTCGGG
196 GTCCTTCGGG
*
3984004 CCATCCATAAAACCTTCGGGTAGGAT-TTTTCA-TTGAATTTGAAAATAAGAAAATAATGTTTTA
1 CCATCCATAAAACCTTCGGGTAGGATGTTTTCACATGAATTTGAAAAT-A-AAAA-AA-----T-
* *
3984067 AGATGATGAAATTTTTGAAAACGAAGAATGCGAGTTTCAAAATTTCACAATTTATAAGTCCTTCG
57 -GATGTTGGAATTTTTGAAAACGAAGAATGCGAGTTTCAAAATTTCACAATTTATAAGTCCTTCG
* * **
3984132 GGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCAGCAAGTCTTCCGAGC
121 GGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGTCTTTAGAGC
* *
3984197 ATGATGATTAAGTCCTTCGAG
186 AAGATGA-TAAGTCCTTCGGG
* *
3984218 CCATCCATAAAACTTTCGGGTAGGATGTTTTCACATGAATTTGAAAATAAAAAAATGATGATGGA
1 CCATCCATAAAACCTTCGGGTAGGATGTTTTCACATGAATTTGAAAATAAAAAAATGATGTTGGA
*
3984283 ATTTTTGAAAACGAAGAATGCGAGTTTCAAAATTTCACAATTTATAAGTCCTTCGAGCCATCAGT
66 ATTTTTGAAAACGAAGAATGCGAGTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGT
3984348 AAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGTCTTTAGAGCAAGATGATAA
131 AAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGTCTTTAGAGCAAGATGATAA
3984413 GTCCTTCGGG
196 GTCCTTCGGG
* * *
3984423 CCATCCATAAAACATTCGGGTAGGATGTTTTCACATGAATTTGAGAAT-GAAAAATGATGTTGGA
1 CCATCCATAAAACCTTCGGGTAGGATGTTTTCACATGAATTTGAAAATAAAAAAATGATGTTGGA
* *
3984487 ATTTTTGAAAACGAAGAATGCGAGTTTCAAAATTTCATAATTTATAAGTCATTCGGGCCATCAGT
66 ATTTTTGAAAACGAAGAATGCGAGTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGT
*
3984552 AAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGTCTTTAGAGTAAGATGATAA
131 AAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGTCTTTAGAGCAAGATGATAA
3984617 GTCCTTCGGG
196 GTCCTTCGGG
* *
3984627 CCATCCATAAAACCTTCGGGTAGGATGTTTTCACATGAATTTGAAAATGAAAAAATGATGATGGA
1 CCATCCATAAAACCTTCGGGTAGGATGTTTTCACATGAATTTGAAAATAAAAAAATGATGTTGGA
3984692 ATTTTTGAAAACGAAGAATGCGAGTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGT
66 ATTTTTGAAAACGAAGAATGCGAGTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGT
*
3984757 AAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATGATAA
131 AAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGTCTTTAGAGCAAGATGATAA
3984822 GTCCTTCGGG
196 GTCCTTCGGG
** * * * *
3984832 CCATCTGTAAGACCTTCGGGTAAGATGTTTTCA-TTGAATTTGAAAATAAGAAAATGATGTTTTA
1 CCATCCATAAAACCTTCGGGTAGGATGTTTTCACATGAATTTGAAAATAAAAAAATGATG--TT-
3984896 AGATGATAAAATTTTTGAAAACGAAGAATGCGAGTTTCAAAATTTCACAATTTATAAGTCCTTCG
63 -G--G----AATTTTTGAAAACGAAGAATGCGAGTTTCAAAATTTCACAATTTATAAGTCCTTCG
* * * *
3984961 GGCCATCAGTAAGTCTTTTGAGCATGATGCTTAAATCCTTCGGGCCATCAGTAAGTCTTTCGAGC
121 GGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGTCTTTAGAGC
* * *
3985026 ATGATGCTTAAATCCTTCGGG
186 AAGATG-ATAAGTCCTTCGGG
* ** *
3985047 TCATCCATAAGGCCTTCGGGCAGGATGTTTT
1 CCATCCATAAAACCTTCGGGTAGGATGTTTT
3985078 TCACCAAGAT
Statistics
Matches: 1373, Mismatches: 85, Indels: 51
0.91 0.06 0.03
Matches are distributed among these distances:
203 12 0.01
204 225 0.16
205 600 0.44
206 132 0.10
207 1 0.00
208 3 0.00
210 2 0.00
211 1 0.00
212 4 0.00
213 128 0.09
214 194 0.14
215 58 0.04
216 13 0.01
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (205 bp):
CCATCCATAAAACCTTCGGGTAGGATGTTTTCACATGAATTTGAAAATAAAAAAATGATGTTGGA
ATTTTTGAAAACGAAGAATGCGAGTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGT
AAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGTCTTTAGAGCAAGATGATAA
GTCCTTCGGG
Found at i:3983973 original size:42 final size:40
Alignment explanation
Indices: 3983907--3984004 Score: 106
Period size: 42 Copynumber: 2.4 Consensus size: 40
3983897 TTCACAATTT
* * * *
3983907 ATAAGTCCTTCGGGCTATCAGTAAGTCTTTCGAGCATGATG
1 ATAAATCCTTCGGGC-ATCAGTAAGTATTTAGAGCAAGATG
* *
3983948 CGTAAATCCTTCGGGTCATCTGTAAGTATTTAGAGCAAGATG
1 -ATAAATCCTTCGGG-CATCAGTAAGTATTTAGAGCAAGATG
*
3983990 ATAAGTCCTTCGGGC
1 ATAAATCCTTCGGGC
3984005 CATCCATAAA
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
40 1 0.02
41 12 0.26
42 33 0.70
43 1 0.02
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (40 bp):
ATAAATCCTTCGGGCATCAGTAAGTATTTAGAGCAAGATG
Found at i:3984188 original size:42 final size:42
Alignment explanation
Indices: 3984125--3984222 Score: 142
Period size: 42 Copynumber: 2.3 Consensus size: 42
3984115 AATTTATAAG
* * *
3984125 TCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAA
1 TCCTTCGGGCCATCAGCAAGTCTTCCGAGCATGATGATTAAA
* *
3984167 TCCTTCGGGTCATCAGCAAGTCTTCCGAGCATGATGATTAAG
1 TCCTTCGGGCCATCAGCAAGTCTTCCGAGCATGATGATTAAA
*
3984209 TCCTTCGAGCCATC
1 TCCTTCGGGCCATC
3984223 CATAAAACTT
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.30
Consensus pattern (42 bp):
TCCTTCGGGCCATCAGCAAGTCTTCCGAGCATGATGATTAAA
Found at i:3984392 original size:42 final size:41
Alignment explanation
Indices: 3984326--3984427 Score: 123
Period size: 42 Copynumber: 2.5 Consensus size: 41
3984316 TTCACAATTT
* * * *
3984326 ATAAGTCCTTCGAGCCATCAGTAAGTCTTTCGAGCATGATG
1 ATAAATCCTTCGGGCCATCAGTAAGTCTTTAGAGCAAGATG
* * *
3984367 CTTAAATCCTTCGGGTCATCTGTAAGTCTTTAGAGCAAGATG
1 -ATAAATCCTTCGGGCCATCAGTAAGTCTTTAGAGCAAGATG
*
3984409 ATAAGTCCTTCGGGCCATC
1 ATAAATCCTTCGGGCCATC
3984428 CATAAAACAT
Statistics
Matches: 50, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
41 16 0.32
42 34 0.68
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (41 bp):
ATAAATCCTTCGGGCCATCAGTAAGTCTTTAGAGCAAGATG
Found at i:3984591 original size:623 final size:623
Alignment explanation
Indices: 3983380--3985077 Score: 2727
Period size: 623 Copynumber: 2.7 Consensus size: 623
3983370 TGAAGCAAAT
* * * *
3983380 CCATCCGTAAGACCTTCGGGTATGATGTTTTCATTGAATTTGAAAATAAGAAAATGATGATTTAA
1 CCATCCATAAAACCTTCGGGTAGGATGTTTTCATTGAATTTGAAAATAAGAAAATAATG-TTTAA
3983445 GATGATGAAATTTTTGAAAACGAAGAATGCGAGTTTCAAAATTTCACAATTTATAAGTCCTTCGG
65 GATGATGAAATTTTTGAAAACGAAGAATGCGAGTTTCAAAATTTCACAATTTATAAGTCCTTCGG
* *
3983510 GCCATCAGTAAGTCTTTCGAACATGATGCTTAAATCCCTCGGGTCATCTGTAAGTCTTTAGAGCA
130 GCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGTCTTTAGAGCA
* * * *
3983575 AGATGATAAGTCCTCCGGGACATCCATAAAACCCTCGGGTAGGATGTTTTCACATGAATTTGAGA
195 AGATGATAAGTCCTTCGGGCCATCCATAAAACCTTCGGGTAGGATGTTTTCACATGAATTTGAAA
* *
3983640 ATAAAAAAATGATGTTGGAATTTTTGAAAATGAAGAATGCGAGTTTCAAAATTTCACAATTTATA
260 ATAAAAAAATGATGATGGAATTTTTGAAAACGAAGAATGCGAGTTTCAAAATTTCACAATTTATA
* *
3983705 AGTCCTTTGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCATTCGGGTCATCTGTAAGT
325 AGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGT
3983770 CTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAAACCTTCGGGTAGGATGTTTTCACAT
390 CTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAAACCTTCGGGTAGGATGTTTTCACAT
3983835 GAATTTGAGAATGAAAAAATGATGTTGGAATTTTTGAAAACGAAGAATGCGAGTTTCAAAATTTC
455 GAATTTGAGAATGAAAAAATGATGTTGGAATTTTTGAAAACGAAGAATGCGAGTTTCAAAATTTC
* *
3983900 ACAATTTATAAGTCCTTCGGGCTATCAGTAAGTCTTTCGAGCATGATGCGTAAATCCTTCGGGTC
520 ACAATTTATAAGTCATTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCGTAAATCCTTCGGGTC
3983965 ATCTGTAAGTATTTAGAGCAAGATGATAAGTCCTTCGGG
585 ATCTGTAAGTATTTAGAGCAAGATGATAAGTCCTTCGGG
3984004 CCATCCATAAAACCTTCGGGTAGGAT-TTTTCATTGAATTTGAAAATAAGAAAATAATGTTTTAA
1 CCATCCATAAAACCTTCGGGTAGGATGTTTTCATTGAATTTGAAAATAAGAAAATAATG-TTTAA
3984068 GATGATGAAATTTTTGAAAACGAAGAATGCGAGTTTCAAAATTTCACAATTTATAAGTCCTTCGG
65 GATGATGAAATTTTTGAAAACGAAGAATGCGAGTTTCAAAATTTCACAATTTATAAGTCCTTCGG
* * **
3984133 GCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCAGCAAGTCTTCCGAGCA
130 GCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGTCTTTAGAGCA
* * *
3984198 TGATGATTAAGTCCTTCGAGCCATCCATAAAACTTTCGGGTAGGATGTTTTCACATGAATTTGAA
195 AGATGA-TAAGTCCTTCGGGCCATCCATAAAACCTTCGGGTAGGATGTTTTCACATGAATTTGAA
3984263 AATAAAAAAATGATGATGGAATTTTTGAAAACGAAGAATGCGAGTTTCAAAATTTCACAATTTAT
259 AATAAAAAAATGATGATGGAATTTTTGAAAACGAAGAATGCGAGTTTCAAAATTTCACAATTTAT
*
3984328 AAGTCCTTCGAGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAG
324 AAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAG
*
3984393 TCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAAACATTCGGGTAGGATGTTTTCACA
389 TCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAAACCTTCGGGTAGGATGTTTTCACA
3984458 TGAATTTGAGAATG-AAAAATGATGTTGGAATTTTTGAAAACGAAGAATGCGAGTTTCAAAATTT
454 TGAATTTGAGAATGAAAAAATGATGTTGGAATTTTTGAAAACGAAGAATGCGAGTTTCAAAATTT
* *
3984522 CATAATTTATAAGTCATTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGT
519 CACAATTTATAAGTCATTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCGTAAATCCTTCGGGT
* *
3984587 CATCTGTAAGTCTTTAGAGTAAGATGATAAGTCCTTCGGG
584 CATCTGTAAGTATTTAGAGCAAGATGATAAGTCCTTCGGG
*
3984627 CCATCCATAAAACCTTCGGGTAGGATGTTTTCACATGAATTTGAAAAT--GAAAA-AA----T--
1 CCATCCATAAAACCTTCGGGTAGGATGTTTTCA-TTGAATTTGAAAATAAGAAAATAATGTTTAA
*
3984683 GATGATGGAATTTTTGAAAACGAAGAATGCGAGTTTCAAAATTTCACAATTTATAAGTCCTTCGG
65 GATGATGAAATTTTTGAAAACGAAGAATGCGAGTTTCAAAATTTCACAATTTATAAGTCCTTCGG
*
3984748 GCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCA
130 GCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGTCTTTAGAGCA
** * * *
3984813 AGATGATAAGTCCTTCGGGCCATCTGTAAGACCTTCGGGTAAGATGTTTTCA-TTGAATTTGAAA
195 AGATGATAAGTCCTTCGGGCCATCCATAAAACCTTCGGGTAGGATGTTTTCACATGAATTTGAAA
**
3984877 ATAAGAAAATGATGTTTTAAGATGATAAAATTTTTGAAAACGAAGAATGCGAGTTTCAAAATTTC
260 ATAA-AAAA--A-----T--GATGATGGAATTTTTGAAAACGAAGAATGCGAGTTTCAAAATTTC
* *
3984942 ACAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTTGAGCATGATGCTTAAATCCTTCGGGCC
315 ACAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTC
* * * * * * ** *
3985007 ATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCCATAAGGCCTTCGGGCAGGA
380 ATCTGTAAGTCTTTAGAGCAAGATG-ATAAGTCCTTCGGGCCATCCATAAAACCTTCGGGTAGGA
3985072 TGTTTT
444 TGTTTT
3985078 TCACCAAGAT
Statistics
Matches: 1000, Mismatches: 60, Indels: 28
0.92 0.06 0.03
Matches are distributed among these distances:
613 15 0.01
614 44 0.04
615 129 0.13
616 1 0.00
617 1 0.00
621 1 0.00
622 2 0.00
623 472 0.47
624 322 0.32
625 13 0.01
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (623 bp):
CCATCCATAAAACCTTCGGGTAGGATGTTTTCATTGAATTTGAAAATAAGAAAATAATGTTTAAG
ATGATGAAATTTTTGAAAACGAAGAATGCGAGTTTCAAAATTTCACAATTTATAAGTCCTTCGGG
CCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGTCTTTAGAGCAA
GATGATAAGTCCTTCGGGCCATCCATAAAACCTTCGGGTAGGATGTTTTCACATGAATTTGAAAA
TAAAAAAATGATGATGGAATTTTTGAAAACGAAGAATGCGAGTTTCAAAATTTCACAATTTATAA
GTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGTC
TTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAAACCTTCGGGTAGGATGTTTTCACATG
AATTTGAGAATGAAAAAATGATGTTGGAATTTTTGAAAACGAAGAATGCGAGTTTCAAAATTTCA
CAATTTATAAGTCATTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCGTAAATCCTTCGGGTCA
TCTGTAAGTATTTAGAGCAAGATGATAAGTCCTTCGGG
Found at i:3984837 original size:41 final size:42
Alignment explanation
Indices: 3984735--3984847 Score: 147
Period size: 42 Copynumber: 2.7 Consensus size: 42
3984725 TTCACAATTT
* * * *
3984735 ATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGC
1 ATAAGTCCTTCGGGCCATCTGTAAGCCTTTAGAGCAAGATGC
* * *
3984777 TTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATG-
1 ATAAGTCCTTCGGGCCATCTGTAAGCCTTTAGAGCAAGATGC
3984818 ATAAGTCCTTCGGGCCATCTGTAAGACCTT
1 ATAAGTCCTTCGGGCCATCTGTAAG-CCTT
3984848 CGGGTAAGAT
Statistics
Matches: 60, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
41 22 0.37
42 38 0.63
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (42 bp):
ATAAGTCCTTCGGGCCATCTGTAAGCCTTTAGAGCAAGATGC
Found at i:3984975 original size:20 final size:20
Alignment explanation
Indices: 3984950--3985022 Score: 58
Period size: 20 Copynumber: 3.5 Consensus size: 20
3984940 TCACAATTTA
3984950 TAAGTCCTTCGGGCCATCAG
1 TAAGTCCTTCGGGCCATCAG
* * * *
3984970 TAAGTCTTTTGAG-CATGATG
1 TAAGTCCTTCGGGCCATCA-G
*
3984990 CTTAAATCCTTCGGGCCATCAG
1 --TAAGTCCTTCGGGCCATCAG
*
3985012 TAAGTCTTTCG
1 TAAGTCCTTCG
3985023 AGCATGATGC
Statistics
Matches: 38, Mismatches: 11, Indels: 8
0.67 0.19 0.14
Matches are distributed among these distances:
19 4 0.11
20 20 0.53
22 10 0.26
23 4 0.11
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.33
Consensus pattern (20 bp):
TAAGTCCTTCGGGCCATCAG
Found at i:3985013 original size:42 final size:42
Alignment explanation
Indices: 3984954--3985051 Score: 178
Period size: 42 Copynumber: 2.3 Consensus size: 42
3984944 AATTTATAAG
*
3984954 TCCTTCGGGCCATCAGTAAGTCTTTTGAGCATGATGCTTAAA
1 TCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAA
3984996 TCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAA
1 TCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAA
*
3985038 TCCTTCGGGTCATC
1 TCCTTCGGGCCATC
3985052 CATAAGGCCT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 54 1.00
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.33
Consensus pattern (42 bp):
TCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAA
Found at i:3985044 original size:829 final size:829
Alignment explanation
Indices: 3983445--3985077 Score: 2899
Period size: 829 Copynumber: 2.0 Consensus size: 829
3983435 GATGATTTAA
*
3983445 GATGATGAAATTTTTGAAAACGAAGAATGCGAGTTTCAAAATTTCACAATTTATAAGTCCTTCGG
1 GATGATGAAATTTTTGAAAACGAAGAATGCGAGTTTCAAAATTTCACAATTTATAAGTCCTTCGA
3983510 GCCATCAGTAAGTCTTTCGAACATGATGCTTAAATCCCTCGGGTCATCTGTAAGTCTTTAGAGCA
66 GCCATCAGTAAGTCTTTCGAACATGATGCTTAAATCCCTCGGGTCATCTGTAAGTCTTTAGAGCA
*
3983575 AGATGATAAGTCCTCCGGGACATCCATAAAACCCTCGGGTAGGATGTTTTCACATGAATTTGAGA
131 AGATGATAAGTCCTCCGGGACATCCATAAAACACTCGGGTAGGATGTTTTCACATGAATTTGAGA
*
3983640 ATAAAAAAATGATGTTGGAATTTTTGAAAATGAAGAATGCGAGTTTCAAAATTTCACAATTTATA
196 ATAAAAAAATGATGTTGGAATTTTTGAAAACGAAGAATGCGAGTTTCAAAATTTCACAATTTATA
* *
3983705 AGTCCTTTGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCATTCGGGTCATCTGTAAGT
261 AGTCATTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCATTCGGGTCATCTGTAAGT
3983770 CTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAAACCTTCGGGTAGGATGTTTTCACAT
326 CTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAAACCTTCGGGTAGGATGTTTTCACAT
* *
3983835 GAATTTGAGAATGAAAAAATGATGTTGGAATTTTTGAAAACGAAGAATGCGAGTTTCAAAATTTC
391 GAATTTGAAAATGAAAAAATGATGATGGAATTTTTGAAAACGAAGAATGCGAGTTTCAAAATTTC
*
3983900 ACAATTTATAAGTCCTTCGGGCTATCAGTAAGTCTTTCGAGCATGATGCGTAAATCCTTCGGGTC
456 ACAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCGTAAATCCTTCGGGTC
* *
3983965 ATCTGTAAGTATTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAAACCTTCGGGTAGGAT
521 ATCTGTAAGCATTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAAACCTTCGGGTAAGAT
*
3984030 TTTTCATTGAATTTGAAAATAAGAAAATAATGTTTTAAGATGATGAAATTTTTGAAAACGAAGAA
586 TTTTCATTGAATTTGAAAATAAGAAAATAATGTTTTAAGATGATAAAATTTTTGAAAACGAAGAA
3984095 TGCGAGTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGAT
651 TGCGAGTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGAT
* *
3984160 GCTTAAATCCTTCGGGTCATCAGCAAGTCTTCCGAGCATGATGATTAAGTCCTTCGAGCCATCCA
716 GCTTAAATCCTTCGGGCCATCAGCAAGTCTTCCGAGCATGATGATTAAATCCTTCGAGCCATCCA
* *
3984225 TAAAACTTTCGGGTAGGATGTTTTCACATGAATTTGAAAATAAAAAAAT
781 TAAAACCTTCGGGCAGGATGTTTTCACATGAATTTGAAAATAAAAAAAT
*
3984274 GATGATGGAATTTTTGAAAACGAAGAATGCGAGTTTCAAAATTTCACAATTTATAAGTCCTTCGA
1 GATGATGAAATTTTTGAAAACGAAGAATGCGAGTTTCAAAATTTCACAATTTATAAGTCCTTCGA
* *
3984339 GCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGTCTTTAGAGCA
66 GCCATCAGTAAGTCTTTCGAACATGATGCTTAAATCCCTCGGGTCATCTGTAAGTCTTTAGAGCA
* * *
3984404 AGATGATAAGTCCTTCGGGCCATCCATAAAACATTCGGGTAGGATGTTTTCACATGAATTTGAGA
131 AGATGATAAGTCCTCCGGGACATCCATAAAACACTCGGGTAGGATGTTTTCACATGAATTTGAGA
* *
3984469 AT-GAAAAATGATGTTGGAATTTTTGAAAACGAAGAATGCGAGTTTCAAAATTTCATAATTTATA
196 ATAAAAAAATGATGTTGGAATTTTTGAAAACGAAGAATGCGAGTTTCAAAATTTCACAATTTATA
*
3984533 AGTCATTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGT
261 AGTCATTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCATTCGGGTCATCTGTAAGT
*
3984598 CTTTAGAGTAAGATGATAAGTCCTTCGGGCCATCCATAAAACCTTCGGGTAGGATGTTTTCACAT
326 CTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAAACCTTCGGGTAGGATGTTTTCACAT
3984663 GAATTTGAAAATGAAAAAATGATGATGGAATTTTTGAAAACGAAGAATGCGAGTTTCAAAATTTC
391 GAATTTGAAAATGAAAAAATGATGATGGAATTTTTGAAAACGAAGAATGCGAGTTTCAAAATTTC
*
3984728 ACAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTC
456 ACAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCGTAAATCCTTCGGGTC
* ** *
3984793 ATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCTGTAAGACCTTCGGGTAAGAT
521 ATCTGTAAGCATTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAAACCTTCGGGTAAGAT
*
3984858 GTTTTCATTGAATTTGAAAATAAGAAAATGATGTTTTAAGATGATAAAATTTTTGAAAACGAAGA
586 -TTTTCATTGAATTTGAAAATAAGAAAATAATGTTTTAAGATGATAAAATTTTTGAAAACGAAGA
*
3984923 ATGCGAGTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTTGAGCATGA
650 ATGCGAGTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGA
* * * * *
3984988 TGCTTAAATCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCC
715 TGCTTAAATCCTTCGGGCCATCAGCAAGTCTTCCGAGCATGATGATTAAATCCTTCGAGCCATCC
**
3985053 ATAAGGCCTTCGGGCAGGATGTTTT
780 ATAAAACCTTCGGGCAGGATGTTTT
3985078 TCACCAAGAT
Statistics
Matches: 764, Mismatches: 39, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
828 370 0.48
829 394 0.52
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (829 bp):
GATGATGAAATTTTTGAAAACGAAGAATGCGAGTTTCAAAATTTCACAATTTATAAGTCCTTCGA
GCCATCAGTAAGTCTTTCGAACATGATGCTTAAATCCCTCGGGTCATCTGTAAGTCTTTAGAGCA
AGATGATAAGTCCTCCGGGACATCCATAAAACACTCGGGTAGGATGTTTTCACATGAATTTGAGA
ATAAAAAAATGATGTTGGAATTTTTGAAAACGAAGAATGCGAGTTTCAAAATTTCACAATTTATA
AGTCATTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCATTCGGGTCATCTGTAAGT
CTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAAACCTTCGGGTAGGATGTTTTCACAT
GAATTTGAAAATGAAAAAATGATGATGGAATTTTTGAAAACGAAGAATGCGAGTTTCAAAATTTC
ACAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCGTAAATCCTTCGGGTC
ATCTGTAAGCATTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAAACCTTCGGGTAAGAT
TTTTCATTGAATTTGAAAATAAGAAAATAATGTTTTAAGATGATAAAATTTTTGAAAACGAAGAA
TGCGAGTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGAT
GCTTAAATCCTTCGGGCCATCAGCAAGTCTTCCGAGCATGATGATTAAATCCTTCGAGCCATCCA
TAAAACCTTCGGGCAGGATGTTTTCACATGAATTTGAAAATAAAAAAAT
Found at i:3991151 original size:56 final size:58
Alignment explanation
Indices: 3991025--3991190 Score: 221
Period size: 57 Copynumber: 2.9 Consensus size: 58
3991015 AGGTTGTTCC
* * * ** * * *
3991025 TTGTGTGCTAGATTTGCGTATAATTGCGTCATGATAAATTTGGCTCTG-TTTTTTTGG
1 TTGTGTGCTAGATATGTGTATAACTATGACATGATAAATTTAGCTCTGATTTTTTTGA
3991082 TTGTGTGCTAGATATGTGTATAACTATGACATGATAAA-TTAGCTCTGATTTTTTT-A
1 TTGTGTGCTAGATATGTGTATAACTATGACATGATAAATTTAGCTCTGATTTTTTTGA
* *
3991138 TTGTGTGCTAGATATGTGCATAACTATGACATGATAAATTTAGCTTTGATTTT
1 TTGTGTGCTAGATATGTGTATAACTATGACATGATAAATTTAGCTCTGATTTT
3991191 AGGGCCACAT
Statistics
Matches: 97, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
56 45 0.46
57 52 0.54
ACGTcount: A:0.25, C:0.10, G:0.20, T:0.45
Consensus pattern (58 bp):
TTGTGTGCTAGATATGTGTATAACTATGACATGATAAATTTAGCTCTGATTTTTTTGA
Found at i:3999017 original size:2 final size:2
Alignment explanation
Indices: 3999010--3999045 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
3999000 CATAATTTTG
3999010 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3999046 TAGTTTAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3999318 original size:16 final size:16
Alignment explanation
Indices: 3999297--3999331 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
3999287 ATTCATTGTA
*
3999297 TTCAAAACTTATCATT
1 TTCAAAACTCATCATT
3999313 TTCAAAACTCATCATT
1 TTCAAAACTCATCATT
3999329 TTC
1 TTC
3999332 TATTAAAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.34, C:0.23, G:0.00, T:0.43
Consensus pattern (16 bp):
TTCAAAACTCATCATT
Found at i:4001790 original size:13 final size:13
Alignment explanation
Indices: 4001772--4001837 Score: 63
Period size: 13 Copynumber: 5.3 Consensus size: 13
4001762 GTCACAACCC
4001772 GACCCGACCCGTT
1 GACCCGACCCGTT
4001785 GACCCGACCC---
1 GACCCGACCCGTT
4001795 GACCCGTTTACCC---
1 GACCCG---ACCCGTT
4001808 GACCCGACCCGTT
1 GACCCGACCCGTT
4001821 GACCCGACCCGTT
1 GACCCGACCCGTT
4001834 GACC
1 GACC
4001838 GTTGATCCGT
Statistics
Matches: 47, Mismatches: 0, Indels: 12
0.80 0.00 0.20
Matches are distributed among these distances:
10 10 0.21
13 37 0.79
ACGTcount: A:0.17, C:0.48, G:0.21, T:0.14
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:4001791 original size:18 final size:18
Alignment explanation
Indices: 4001768--4001831 Score: 119
Period size: 18 Copynumber: 3.6 Consensus size: 18
4001758 ACCGGTCACA
4001768 ACCCGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
*
4001786 ACCCGACCCGACCCGTTT
1 ACCCGACCCGACCCGTTG
4001804 ACCCGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
4001822 ACCCGACCCG
1 ACCCGACCCG
4001832 TTGACCGTTG
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 44 1.00
ACGTcount: A:0.17, C:0.52, G:0.20, T:0.11
Consensus pattern (18 bp):
ACCCGACCCGACCCGTTG
Found at i:4001824 original size:8 final size:8
Alignment explanation
Indices: 4001813--4001859 Score: 50
Period size: 8 Copynumber: 6.5 Consensus size: 8
4001803 TACCCGACCC
4001813 GACCCGTT
1 GACCCGTT
4001821 GACCC---
1 GACCCGTT
4001826 GACCCGTT
1 GACCCGTT
4001834 GA-CCGTT
1 GACCCGTT
*
4001841 GATCCGTT
1 GACCCGTT
4001849 GA-CCGTT
1 GACCCGTT
4001856 GACC
1 GACC
4001860 GGAGTTGACC
Statistics
Matches: 34, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
5 5 0.15
7 14 0.41
8 15 0.44
ACGTcount: A:0.15, C:0.36, G:0.26, T:0.23
Consensus pattern (8 bp):
GACCCGTT
Found at i:4001841 original size:7 final size:7
Alignment explanation
Indices: 4001829--4001860 Score: 55
Period size: 7 Copynumber: 4.4 Consensus size: 7
4001819 TTGACCCGAC
4001829 CCGTTGA
1 CCGTTGA
4001836 CCGTTGA
1 CCGTTGA
4001843 TCCGTTGA
1 -CCGTTGA
4001851 CCGTTGA
1 CCGTTGA
4001858 CCG
1 CCG
4001861 GAGTTGACCA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 17 0.71
8 7 0.29
ACGTcount: A:0.12, C:0.31, G:0.28, T:0.28
Consensus pattern (7 bp):
CCGTTGA
Found at i:4001849 original size:15 final size:15
Alignment explanation
Indices: 4001829--4001857 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
4001819 TTGACCCGAC
4001829 CCGTTGACCGTTGAT
1 CCGTTGACCGTTGAT
4001844 CCGTTGACCGTTGA
1 CCGTTGACCGTTGA
4001858 CCGGAGTTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.28, G:0.28, T:0.31
Consensus pattern (15 bp):
CCGTTGACCGTTGAT
Found at i:4004128 original size:23 final size:24
Alignment explanation
Indices: 4004102--4004182 Score: 103
Period size: 23 Copynumber: 3.5 Consensus size: 24
4004092 AATTATGTTA
4004102 TGATA-TTGACCTGGATTCTGATC
1 TGATACTTGACCTGGATTCTGATC
*
4004125 TGATA-TTGACATGGATTCTGATC
1 TGATACTTGACCTGGATTCTGATC
* * * *
4004148 TGATACATGACCTGAATTATGATA
1 TGATACTTGACCTGGATTCTGATC
4004172 TGATACTTGAC
1 TGATACTTGAC
4004183 TTGAATTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
23 27 0.54
24 23 0.46
ACGTcount: A:0.28, C:0.15, G:0.20, T:0.37
Consensus pattern (24 bp):
TGATACTTGACCTGGATTCTGATC
Found at i:4004269 original size:35 final size:35
Alignment explanation
Indices: 4004222--4004296 Score: 123
Period size: 35 Copynumber: 2.1 Consensus size: 35
4004212 TGGAGGAAGA
* *
4004222 TTACTTGGAGGCTCCTTGGCTGTGTGCTCAGGGCC
1 TTACTTGCAGGCTCCTCGGCTGTGTGCTCAGGGCC
*
4004257 TTACTTGCAGGCTCCTCGGCTTTGTGCTCAGGGCC
1 TTACTTGCAGGCTCCTCGGCTGTGTGCTCAGGGCC
4004292 TTACT
1 TTACT
4004297 GTTCGTGACG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.09, C:0.28, G:0.29, T:0.33
Consensus pattern (35 bp):
TTACTTGCAGGCTCCTCGGCTGTGTGCTCAGGGCC
Found at i:4005991 original size:17 final size:20
Alignment explanation
Indices: 4005954--4005993 Score: 59
Period size: 17 Copynumber: 2.1 Consensus size: 20
4005944 AATTTAATTA
4005954 TTTTTATTTGTTTATAATAT
1 TTTTTATTTGTTTATAATAT
4005974 TTTTTA-TT-TTTA-AATAT
1 TTTTTATTTGTTTATAATAT
4005991 TTT
1 TTT
4005994 AGGTTGTGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 8 0.40
18 4 0.20
19 2 0.10
20 6 0.30
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (20 bp):
TTTTTATTTGTTTATAATAT
Found at i:4007419 original size:64 final size:64
Alignment explanation
Indices: 4007351--4007507 Score: 178
Period size: 64 Copynumber: 2.5 Consensus size: 64
4007341 TTGAAGGTGT
** *
4007351 ATCGATGCACAGGTAGTGCATCGATGCA-CTCTTTTAA-AATAAAAAGATCGAATGCA-ATTAGT
1 ATCGATGCACAGGTAGTGCATCGATGCATC-CCATTAATAAT-AAAACATCGAATGCATATTA-T
4007413 GC
63 GC
* * *
4007415 ATCGATGCATAAGGCA-TGCATCGATGCATCCCATTAATAATAAAACATCGAATGCATTTTATGC
1 ATCGATGCA-CAGGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCATATTATGC
* *
4007479 ACCGATGCACAAGTAGTGCATCGATGCAT
1 ATCGATGCACAGGTAGTGCATCGATGCAT
4007508 ACCTTCATTA
Statistics
Matches: 78, Mismatches: 10, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
63 3 0.04
64 64 0.82
65 11 0.14
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (64 bp):
ATCGATGCACAGGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCATATTATGC
Found at i:4007923 original size:29 final size:29
Alignment explanation
Indices: 4007884--4007964 Score: 128
Period size: 29 Copynumber: 2.8 Consensus size: 29
4007874 TATGTGATAT
4007884 GAGAACATGACATGAGCTACATGATCACAA
1 GAGAA-ATGACATGAGCTACATGATCACAA
* *
4007914 GAGAAATGACATAAACTACATGATCACAA
1 GAGAAATGACATGAGCTACATGATCACAA
4007943 GAGAAATGACATGAG-TACATGA
1 GAGAAATGACATGAGCTACATGA
4007965 ACATATAAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
28 7 0.15
29 35 0.74
30 5 0.11
ACGTcount: A:0.47, C:0.16, G:0.20, T:0.17
Consensus pattern (29 bp):
GAGAAATGACATGAGCTACATGATCACAA
Found at i:4012050 original size:29 final size:29
Alignment explanation
Indices: 4012011--4012149 Score: 244
Period size: 29 Copynumber: 4.8 Consensus size: 29
4012001 TATGTGATAT
4012011 GAGAACATGACATGAGCTACATGATCACAA
1 GAGAA-ATGACATGAGCTACATGATCACAA
*
4012041 GAGAAATGACATGAGTTACATGATCACAA
1 GAGAAATGACATGAGCTACATGATCACAA
4012070 GAGAAATGACATGAGCTACATGATCACAA
1 GAGAAATGACATGAGCTACATGATCACAA
*
4012099 GAGAAATGACATGAACTACATGATCACAA
1 GAGAAATGACATGAGCTACATGATCACAA
4012128 GAGAAATGACATGAG-TACATGA
1 GAGAAATGACATGAGCTACATGA
4012150 ACATATAAAA
Statistics
Matches: 105, Mismatches: 4, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
28 7 0.07
29 93 0.89
30 5 0.05
ACGTcount: A:0.45, C:0.16, G:0.21, T:0.18
Consensus pattern (29 bp):
GAGAAATGACATGAGCTACATGATCACAA
Found at i:4014005 original size:105 final size:104
Alignment explanation
Indices: 4013824--4014017 Score: 325
Period size: 105 Copynumber: 1.9 Consensus size: 104
4013814 CAAAAAATTA
*
4013824 AACCATGAGAACTTAGTGAGGCCTCTTTAAATGCATATGGAGACCAAGGAACCAAGTAAGCCCTT
1 AACCATGAGAACTTAGTGAGGCCTCTTTAAATGCAGATGGAGACCAAGGAACCAAGTAAGCCCTT
*
4013889 CCATGAACAATAAATTCATAACCTAGGGCCGAAAAAACCG
66 CCAAGAACAAT-AATTCATAACCTAGGGCCGAAAAAACCG
**
4013929 AACCATGAGAACTTAGTGAGGCCTCTTTAAATGCAGATGGAGACCAAGGGCCCAAGTAAGCCCTT
1 AACCATGAGAACTTAGTGAGGCCTCTTTAAATGCAGATGGAGACCAAGGAACCAAGTAAGCCCTT
* *
4013994 CCAAGAGCAATAGTTCATAACCTA
66 CCAAGAACAATAATTCATAACCTA
4014018 ATGCTTTCAA
Statistics
Matches: 83, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
104 12 0.14
105 71 0.86
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.20
Consensus pattern (104 bp):
AACCATGAGAACTTAGTGAGGCCTCTTTAAATGCAGATGGAGACCAAGGAACCAAGTAAGCCCTT
CCAAGAACAATAATTCATAACCTAGGGCCGAAAAAACCG
Found at i:4021605 original size:29 final size:29
Alignment explanation
Indices: 4021559--4021636 Score: 147
Period size: 29 Copynumber: 2.7 Consensus size: 29
4021549 TGCCGGGGAC
*
4021559 AAACTTAAACTTAAAAAATTCTAAGGGGT
1 AAACTTAAACTTATAAAATTCTAAGGGGT
4021588 AAACTTAAACTTATAAAATTCTAAGGGGT
1 AAACTTAAACTTATAAAATTCTAAGGGGT
4021617 AAACTTAAACTTATAAAATT
1 AAACTTAAACTTATAAAATT
4021637 ATAGTGGAAC
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 48 1.00
ACGTcount: A:0.49, C:0.10, G:0.10, T:0.31
Consensus pattern (29 bp):
AAACTTAAACTTATAAAATTCTAAGGGGT
Found at i:4034098 original size:5 final size:5
Alignment explanation
Indices: 4034090--4034125 Score: 54
Period size: 5 Copynumber: 7.2 Consensus size: 5
4034080 ATTTGCCACT
* *
4034090 CCTCT CCTCT CCTCA CCTCA CCTCA CCTCA CCTCA C
1 CCTCA CCTCA CCTCA CCTCA CCTCA CCTCA CCTCA C
4034126 TATGTTTATG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.14, C:0.61, G:0.00, T:0.25
Consensus pattern (5 bp):
CCTCA
Found at i:4035704 original size:15 final size:15
Alignment explanation
Indices: 4035684--4035713 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
4035674 GAAATGATAT
4035684 ATTCTACATCATCTA
1 ATTCTACATCATCTA
4035699 ATTCTACATCATCTA
1 ATTCTACATCATCTA
4035714 CTGGGACAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.27, G:0.00, T:0.40
Consensus pattern (15 bp):
ATTCTACATCATCTA
Found at i:4041975 original size:21 final size:20
Alignment explanation
Indices: 4041908--4041983 Score: 75
Period size: 21 Copynumber: 3.7 Consensus size: 20
4041898 AGTTATTTAT
4041908 TATATTTTAATATATTAAATTAA
1 TATATTTTAATA-ATT-AA-TAA
* **
4041931 TATATTTT-ATAA-TATTTT
1 TATATTTTAATAATTAATAA
4041949 TATATTTTAATAATTAGATAA
1 TATATTTTAATAATTA-ATAA
4041970 TATATTTTAATAAT
1 TATATTTTAATAAT
4041984 ATAAAAATTA
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
18 9 0.20
19 5 0.11
20 3 0.07
21 16 0.36
22 3 0.07
23 8 0.18
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.55
Consensus pattern (20 bp):
TATATTTTAATAATTAATAA
Found at i:4041992 original size:29 final size:27
Alignment explanation
Indices: 4041939--4041993 Score: 65
Period size: 29 Copynumber: 2.0 Consensus size: 27
4041929 AATATATTTT
* * *
4041939 ATAATATTTTTATATTTTAATAATTAG
1 ATAATATTTTTATAATATAAAAATTAG
4041966 ATAATATATTTTAATAATATAAAAATTA
1 ATAATAT-TTTT-ATAATATAAAAATTA
4041994 AAATCAATCT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 7 0.30
28 4 0.17
29 12 0.52
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (27 bp):
ATAATATTTTTATAATATAAAAATTAG
Found at i:4058510 original size:20 final size:20
Alignment explanation
Indices: 4058487--4058526 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
4058477 AGTGAGAAAC
4058487 AGTATAGTTTACCCTTATTT
1 AGTATAGTTTACCCTTATTT
4058507 AGTATAGTTTACCCTTATTT
1 AGTATAGTTTACCCTTATTT
4058527 TAAAAATAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.25, C:0.15, G:0.10, T:0.50
Consensus pattern (20 bp):
AGTATAGTTTACCCTTATTT
Found at i:4058928 original size:21 final size:20
Alignment explanation
Indices: 4058894--4058939 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 20
4058884 CGAACGGATT
*
4058894 ATTTTATTATTATTTTAATA
1 ATTTTATAATTATTTTAATA
*
4058914 ATTTTAATAATTATTTTATTA
1 ATTTT-ATAATTATTTTAATA
4058935 ATTTT
1 ATTTT
4058940 TTAAACTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 5 0.22
21 18 0.78
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (20 bp):
ATTTTATAATTATTTTAATA
Found at i:4058929 original size:12 final size:12
Alignment explanation
Indices: 4058891--4058943 Score: 53
Period size: 11 Copynumber: 4.8 Consensus size: 12
4058881 TATCGAACGG
*
4058891 ATTATTTT-ATT
1 ATTATTTTAATA
4058902 ATTATTTTAAT-
1 ATTATTTTAATA
4058913 A--ATTTTAATA
1 ATTATTTTAATA
*
4058923 ATTATTTTATTA
1 ATTATTTTAATA
4058935 ATT-TTTTAA
1 ATTATTTTAA
4058944 ACTTTAATGA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
9 8 0.22
10 1 0.03
11 14 0.39
12 13 0.36
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (12 bp):
ATTATTTTAATA
Found at i:4077461 original size:15 final size:15
Alignment explanation
Indices: 4077437--4077469 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
4077427 AATGGAGGTA
4077437 GCTGAAATGATGGTT
1 GCTGAAATGATGGTT
4077452 GCTGAAATGATGGTT
1 GCTGAAATGATGGTT
4077467 GCT
1 GCT
4077470 TACCTGAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.24, C:0.09, G:0.33, T:0.33
Consensus pattern (15 bp):
GCTGAAATGATGGTT
Found at i:4077670 original size:2 final size:2
Alignment explanation
Indices: 4077663--4077693 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
4077653 TGATATAATT
4077663 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4077694 TTCTTTTCTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4079142 original size:33 final size:33
Alignment explanation
Indices: 4079102--4079166 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
4079092 CATTTTTTAT
4079102 ATAGCTAATTCATATTGAAATAAACACTCACAC
1 ATAGCTAATTCATATTGAAATAAACACTCACAC
*
4079135 ATAGCTAATTCATATTGAAATAAACATTCACA
1 ATAGCTAATTCATATTGAAATAAACACTCACA
4079167 AATATAAGTA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.46, C:0.18, G:0.06, T:0.29
Consensus pattern (33 bp):
ATAGCTAATTCATATTGAAATAAACACTCACAC
Found at i:4083791 original size:18 final size:18
Alignment explanation
Indices: 4083763--4083807 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
4083753 TATTTATCAG
* *
4083763 AAATAATATTTCTTATGT
1 AAATGATATTTCTGATGT
*
4083781 AGATGATATTTCTGATGT
1 AAATGATATTTCTGATGT
4083799 AAATGATAT
1 AAATGATAT
4083808 GCTTAAGCAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.38, C:0.04, G:0.13, T:0.44
Consensus pattern (18 bp):
AAATGATATTTCTGATGT
Found at i:4089223 original size:24 final size:24
Alignment explanation
Indices: 4089196--4089245 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
4089186 ATAAAGAACC
4089196 AAAATAAA-CTTAAACATACCATTA
1 AAAATAAAGCTTAAACAT-CCATTA
*
4089220 AAAATAAAGTTTAAACATCCATTA
1 AAAATAAAGCTTAAACATCCATTA
4089244 AA
1 AA
4089246 CCAACCACCA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 16 0.67
25 8 0.33
ACGTcount: A:0.58, C:0.14, G:0.02, T:0.26
Consensus pattern (24 bp):
AAAATAAAGCTTAAACATCCATTA
Found at i:4090407 original size:20 final size:21
Alignment explanation
Indices: 4090384--4090429 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
4090374 TTAGTACACA
* *
4090384 TTTTTTTC-TTTTTTTCTTTT
1 TTTTTTTCACTTTTTCCTTTT
4090404 TTTTTTTCACTTTTTCCTTTT
1 TTTTTTTCACTTTTTCCTTTT
4090425 TTTTT
1 TTTTT
4090430 ACGCTGCTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 8 0.35
21 15 0.65
ACGTcount: A:0.02, C:0.13, G:0.00, T:0.85
Consensus pattern (21 bp):
TTTTTTTCACTTTTTCCTTTT
Found at i:4091613 original size:15 final size:15
Alignment explanation
Indices: 4091580--4091622 Score: 54
Period size: 14 Copynumber: 3.0 Consensus size: 15
4091570 AAAATAATAT
* *
4091580 TAAAATTAAAACTAA
1 TAAAAATAAAACAAA
4091595 -AAAAATAAAACAAA
1 TAAAAATAAAACAAA
4091609 TAAAAAT-AAACAAA
1 TAAAAATAAAACAAA
4091623 CAAACACTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 19 0.76
15 6 0.24
ACGTcount: A:0.77, C:0.07, G:0.00, T:0.16
Consensus pattern (15 bp):
TAAAAATAAAACAAA
Found at i:4094860 original size:24 final size:24
Alignment explanation
Indices: 4094833--4094882 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
4094823 ATAAAGAACC
4094833 AAAATAAA-CTTAAACATACCATTA
1 AAAATAAAGCTTAAACAT-CCATTA
*
4094857 AAAATAAAGTTTAAACATCCATTA
1 AAAATAAAGCTTAAACATCCATTA
4094881 AA
1 AA
4094883 CCAACCACCA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 16 0.67
25 8 0.33
ACGTcount: A:0.58, C:0.14, G:0.02, T:0.26
Consensus pattern (24 bp):
AAAATAAAGCTTAAACATCCATTA
Found at i:4097247 original size:15 final size:15
Alignment explanation
Indices: 4097214--4097256 Score: 54
Period size: 14 Copynumber: 3.0 Consensus size: 15
4097204 AAAATAATAT
* *
4097214 TAAAATTAAAACTAA
1 TAAAAATAAAACAAA
4097229 -AAAAATAAAACAAA
1 TAAAAATAAAACAAA
4097243 TAAAAAT-AAACAAA
1 TAAAAATAAAACAAA
4097257 CAAACACTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 19 0.76
15 6 0.24
ACGTcount: A:0.77, C:0.07, G:0.00, T:0.16
Consensus pattern (15 bp):
TAAAAATAAAACAAA
Found at i:4100498 original size:24 final size:24
Alignment explanation
Indices: 4100471--4100520 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
4100461 ATAAAGAACC
4100471 AAAATAAA-CTTAAACATACCATTA
1 AAAATAAAGCTTAAACAT-CCATTA
*
4100495 AAAATAAAGTTTAAACATCCATTA
1 AAAATAAAGCTTAAACATCCATTA
4100519 AA
1 AA
4100521 CCAACCACCA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 16 0.67
25 8 0.33
ACGTcount: A:0.58, C:0.14, G:0.02, T:0.26
Consensus pattern (24 bp):
AAAATAAAGCTTAAACATCCATTA
Found at i:4103814 original size:2 final size:2
Alignment explanation
Indices: 4103807--4103835 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
4103797 ATACAGAATG
4103807 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4103836 AGTTTTATTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4105420 original size:30 final size:30
Alignment explanation
Indices: 4105380--4105441 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
4105370 AATTCGACAT
**
4105380 GACTCAAATTTTATAAACTTGACTCAACTC
1 GACTCAAATTTTATAAACCCGACTCAACTC
*
4105410 GACTCGAATTTTATAAACCCGACTCAACTC
1 GACTCAAATTTTATAAACCCGACTCAACTC
4105440 GA
1 GA
4105442 AAAAATTTCA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.35, C:0.26, G:0.10, T:0.29
Consensus pattern (30 bp):
GACTCAAATTTTATAAACCCGACTCAACTC
Found at i:4119235 original size:25 final size:25
Alignment explanation
Indices: 4119207--4119255 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
4119197 ATTTCTTTCT
4119207 ATTATTTATATT-AGATCTTATTTTG
1 ATTATTT-TATTAAGATCTTATTTTG
* *
4119232 ATTATTTTCTTAAGATTTTATTTT
1 ATTATTTTATTAAGATCTTATTTT
4119256 ATTTAGTCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 3 0.14
25 18 0.86
ACGTcount: A:0.27, C:0.04, G:0.06, T:0.63
Consensus pattern (25 bp):
ATTATTTTATTAAGATCTTATTTTG
Found at i:4126646 original size:31 final size:32
Alignment explanation
Indices: 4126611--4126672 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 32
4126601 CTTTTTATAT
*
4126611 TTTAATTTTGTAAA-AAATTATATAAATATTA
1 TTTAATTTTGTAAAGAAAATATATAAATATTA
*
4126642 TTTAATTTTTTAAAGAAAATATATAAATATT
1 TTTAATTTTGTAAAGAAAATATATAAATATT
4126673 TTACAATTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
31 13 0.46
32 15 0.54
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (32 bp):
TTTAATTTTGTAAAGAAAATATATAAATATTA
Found at i:4126681 original size:32 final size:29
Alignment explanation
Indices: 4126607--4126685 Score: 95
Period size: 31 Copynumber: 2.6 Consensus size: 29
4126597 AAACCTTTTT
*
4126607 ATATTTTAATTTTGTAAAAAATTATATAA
1 ATATTTTAATTTTGTAAAAAAATATATAA
*
4126636 ATATTATTTAATTTTTTAAAGAAAATATATAA
1 ATA-T-TTTAATTTTGTAAA-AAAATATATAA
*
4126668 ATATTTTACAATTTGTAA
1 ATATTTTA-ATTTTGTAA
4126686 TATATACAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
29 3 0.07
30 5 0.12
31 21 0.50
32 13 0.31
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.48
Consensus pattern (29 bp):
ATATTTTAATTTTGTAAAAAAATATATAA
Found at i:4130050 original size:21 final size:21
Alignment explanation
Indices: 4130026--4130070 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
4130016 TGTTGTTCGT
* *
4130026 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
4130047 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
4130068 TTG
1 TTG
4130071 CCCAGAAATC
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:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:4133475 original size:149 final size:149
Alignment explanation
Indices: 4133205--4133519 Score: 578
Period size: 149 Copynumber: 2.1 Consensus size: 149
4133195 TATAATTGCA
4133205 CCGAAGTG-CCGCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAA
1 CCGAAG-GACCGCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAA
4133269 TTCCTTAAGAATCATATACATATGCTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATGTT
65 TTCCTTAAGAATCATATACATATGCTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATGTT
* *
4133334 CCACAGAATATATATATATC
130 CCAAAGAATATACATATATC
4133354 CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAAT
1 CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAAT
*
4133419 TCCTTAAGAATCATATACATATGCTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTC
66 TCCTTAAGAATCATATACATATGCTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTC
*
4133484 CAAAGAATATACATATGTC
131 CAAAGAATATACATATATC
4133503 CCGAAGGACCGCGTAGA
1 CCGAAGGACCGCGTAGA
4133520 CCCTCGACTC
Statistics
Matches: 161, Mismatches: 4, Indels: 2
0.96 0.02 0.01
Matches are distributed among these distances:
148 1 0.01
149 160 0.99
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (149 bp):
CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAAT
TCCTTAAGAATCATATACATATGCTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTC
CAAAGAATATACATATATC
Found at i:4134271 original size:2 final size:2
Alignment explanation
Indices: 4134264--4134304 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
4134254 CATATCCATC
4134264 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4134305 TCTCAAGATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4135183 original size:21 final size:21
Alignment explanation
Indices: 4135159--4135204 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
4135149 TGTTGTTCGT
* *
4135159 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
4135180 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
4135201 TTGA
1 TTGA
4135205 TCAGAAATCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.17, C:0.24, G:0.28, T:0.30
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:4150577 original size:19 final size:17
Alignment explanation
Indices: 4150540--4150587 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 17
4150530 ATTTGAAATT
4150540 ATTATATATTTTTAAAAA
1 ATTATAT-TTTTTAAAAA
4150558 ATTTATATTTTTTATTAAAA
1 A-TTATATTTTTTA--AAAA
4150578 A-TATATTTTT
1 ATTATATTTTT
4150588 ATTTTTTATA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
18 16 0.59
19 6 0.22
20 5 0.19
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
ATTATATTTTTTAAAAA
Found at i:4150586 original size:17 final size:17
Alignment explanation
Indices: 4150543--4150590 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
4150533 TGAAATTATT
4150543 ATATATTTTTA--AAAA
1 ATATATTTTTATTAAAA
4150558 ATTTATATTTTTTATTAAAA
1 A--TATA-TTTTTATTAAAA
4150578 ATATATTTTTATT
1 ATATATTTTTATT
4150591 TTTTATAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
15 1 0.04
17 12 0.43
18 10 0.36
20 5 0.18
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
ATATATTTTTATTAAAA
Found at i:4151107 original size:14 final size:15
Alignment explanation
Indices: 4151088--4151118 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
4151078 AAAAGATTGA
4151088 AATAAAG-AAAAATT
1 AATAAAGAAAAAATT
4151102 AATAAAGAAAAAATT
1 AATAAAGAAAAAATT
4151117 AA
1 AA
4151119 ATGATACTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.44
15 9 0.56
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.19
Consensus pattern (15 bp):
AATAAAGAAAAAATT
Found at i:4156026 original size:29 final size:30
Alignment explanation
Indices: 4155970--4156225 Score: 148
Period size: 29 Copynumber: 8.3 Consensus size: 30
4155960 TTAAATTTTA
* *
4155970 AAAATATATTTTGTTTTTGTTTTAACTTAT
1 AAAATATATTTTATTTTTATTTTAACTTAT
*
4156000 AAAATATATTTTATTTTT-TCTTAACTTAT
1 AAAATATATTTTATTTTTATTTTAACTTAT
* * *
4156029 TAAATATAATTTATTTTTATTTTAA-TGTAA
1 AAAATATATTTTATTTTTATTTTAACT-TAT
** ** *
4156059 AAATATATATTTTAGATTTATCATCACTTA-
1 AAA-ATATATTTTATTTTTATTTTAACTTAT
* * *
4156089 AAAATACATTTT-TTTCAAGTATCTTAAC-T-T
1 AAAATATATTTTATTT---TTATTTTAACTTAT
* * *
4156119 AAAATATATTTAAATATTTTATTAATAATTTAATAT
1 AAAATATATTT-TAT-TTTTATT-TTAA-CT--TAT
* *
4156155 AAAATATATTTTATTCTTATTTTAAATTA-
1 AAAATATATTTTATTTTTATTTTAACTTAT
* * *
4156184 AAAATATATTTTAATATTATCTTTAACTTTT
1 AAAATATATTTTATTTTTAT-TTTAACTTAT
4156215 AAAAATATATT
1 -AAAATATATT
4156226 AAAATATCTT
Statistics
Matches: 173, Mismatches: 33, Indels: 38
0.71 0.14 0.16
Matches are distributed among these distances:
28 1 0.01
29 53 0.31
30 52 0.30
31 28 0.16
32 13 0.08
33 5 0.03
34 6 0.03
35 3 0.02
36 12 0.07
ACGTcount: A:0.40, C:0.05, G:0.02, T:0.53
Consensus pattern (30 bp):
AAAATATATTTTATTTTTATTTTAACTTAT
Found at i:4156163 original size:28 final size:29
Alignment explanation
Indices: 4156132--4156196 Score: 80
Period size: 28 Copynumber: 2.3 Consensus size: 29
4156122 ATATATTTAA
4156132 ATATTTTATTAATAATTT-AA-TATAAAAT
1 ATATTTTATTAATAATTTAAATTA-AAAAT
** *
4156160 ATATTTTATTCTTATTTTAAATTAAAAAT
1 ATATTTTATTAATAATTTAAATTAAAAAT
4156189 ATATTTTA
1 ATATTTTA
4156197 ATATTATCTT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
28 15 0.47
29 15 0.47
30 2 0.06
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.54
Consensus pattern (29 bp):
ATATTTTATTAATAATTTAAATTAAAAAT
Found at i:4156509 original size:30 final size:30
Alignment explanation
Indices: 4156445--4156521 Score: 95
Period size: 30 Copynumber: 2.6 Consensus size: 30
4156435 ACATTAAAAT
* *
4156445 AAAATAAATTATATTTAATAAGTTAAGAAG
1 AAAATAAAATATATTTTATAAGTTAAGAAG
4156475 AAAATAAAATATATTTTATAAGTTACA-ACA-
1 AAAATAAAATATATTTTATAAGTTA-AGA-AG
*
4156505 AAAATAAAAGATATTTT
1 AAAATAAAATATATTTT
4156522 CAAAATTTAA
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
30 40 0.95
31 2 0.05
ACGTcount: A:0.57, C:0.03, G:0.06, T:0.34
Consensus pattern (30 bp):
AAAATAAAATATATTTTATAAGTTAAGAAG
Found at i:4157562 original size:19 final size:20
Alignment explanation
Indices: 4157538--4157587 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
4157528 GTTTAATAAT
4157538 TAATATAATCTT-TTTTCAA
1 TAATATAATCTTATTTTCAA
* *
4157557 TAATATAAGTTTTATTTTTAA
1 TAATATAA-TCTTATTTTCAA
4157578 TAATAATAAT
1 TAAT-ATAAT
4157588 AATAATTGGA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
19 8 0.31
20 3 0.12
21 11 0.42
22 4 0.15
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.52
Consensus pattern (20 bp):
TAATATAATCTTATTTTCAA
Found at i:4158761 original size:19 final size:19
Alignment explanation
Indices: 4158737--4158781 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
4158727 TACAATTTAG
4158737 GTTATGAAATGCCCATCAT
1 GTTATGAAATGCCCATCAT
*
4158756 GTTATGAAATGCCTATCAT
1 GTTATGAAATGCCCATCAT
4158775 GTTATGA
1 GTTATGA
4158782 TATGTAAGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.36
Consensus pattern (19 bp):
GTTATGAAATGCCCATCAT
Found at i:4159113 original size:18 final size:19
Alignment explanation
Indices: 4159070--4159149 Score: 98
Period size: 18 Copynumber: 4.4 Consensus size: 19
4159060 AAAATGCATT
*
4159070 AGCTATGAA-CTTGAAAATA
1 AGCTATGAATC-TAAAAATA
4159089 AGCTATGAATCTAAAAATA
1 AGCTATGAATCTAAAAATA
4159108 AG-TATGAATCTAAAAA-A
1 AGCTATGAATCTAAAAATA
4159125 AG-TATGAATCT-AAAATA
1 AGCTATGAATCTAAAAATA
*
4159142 AGTTATGA
1 AGCTATGA
4159150 GTCCGGAAAC
Statistics
Matches: 57, Mismatches: 1, Indels: 7
0.88 0.02 0.11
Matches are distributed among these distances:
16 4 0.07
17 15 0.26
18 19 0.33
19 18 0.32
20 1 0.02
ACGTcount: A:0.51, C:0.07, G:0.14, T:0.28
Consensus pattern (19 bp):
AGCTATGAATCTAAAAATA
Found at i:4159127 original size:17 final size:17
Alignment explanation
Indices: 4159092--4159149 Score: 89
Period size: 17 Copynumber: 3.3 Consensus size: 17
4159082 GAAAATAAGC
4159092 TATGAATCTAAAAATAAG
1 TATGAATCTAAAAA-AAG
4159110 TATGAATCTAAAAAAAG
1 TATGAATCTAAAAAAAG
*
4159127 TATGAATCTAAAATAAG
1 TATGAATCTAAAAAAAG
4159144 TTATGA
1 -TATGA
4159150 GTCCGGAAAC
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
17 19 0.50
18 19 0.50
ACGTcount: A:0.53, C:0.05, G:0.12, T:0.29
Consensus pattern (17 bp):
TATGAATCTAAAAAAAG
Found at i:4159237 original size:12 final size:12
Alignment explanation
Indices: 4159205--4159248 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
4159195 AAGTACGGAT
*
4159205 TATGAAAATGAAA
1 TATGAAAGTG-AA
*
4159218 TGTGAAAGTGAA
1 TATGAAAGTGAA
4159230 TATGAAAGTGAA
1 TATGAAAGTGAA
*
4159242 GATGAAA
1 TATGAAA
4159249 AATAAGATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
12 19 0.70
13 8 0.30
ACGTcount: A:0.52, C:0.00, G:0.25, T:0.23
Consensus pattern (12 bp):
TATGAAAGTGAA
Found at i:4159247 original size:18 final size:18
Alignment explanation
Indices: 4159206--4159249 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
4159196 AGTACGGATT
4159206 ATGAAAATGAAATGTGAA
1 ATGAAAATGAAATGTGAA
*
4159224 AGTGAATATGAAA-GTGAA
1 A-TGAAAATGAAATGTGAA
4159242 GATGAAAA
1 -ATGAAAA
4159250 ATAAGATATG
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 11 0.50
19 11 0.50
ACGTcount: A:0.55, C:0.00, G:0.25, T:0.20
Consensus pattern (18 bp):
ATGAAAATGAAATGTGAA
Found at i:4159333 original size:21 final size:20
Alignment explanation
Indices: 4159309--4159368 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
4159299 TTATTATGTA
*
4159309 TGATATTGTTTATCATGGCTT
1 TGATATTGTTTATCATGG-TG
** *
4159330 TGATA-TGACTATTATGTGTG
1 TGATATTGTTTATCATG-GTG
4159350 TGATATTGTTTATCATGGT
1 TGATATTGTTTATCATGGT
4159369 TTTTATAAAA
Statistics
Matches: 30, Mismatches: 7, Indels: 5
0.71 0.17 0.12
Matches are distributed among these distances:
20 16 0.53
21 14 0.47
ACGTcount: A:0.22, C:0.07, G:0.22, T:0.50
Consensus pattern (20 bp):
TGATATTGTTTATCATGGTG
Found at i:4160835 original size:2 final size:2
Alignment explanation
Indices: 4160824--4160900 Score: 117
Period size: 2 Copynumber: 40.5 Consensus size: 2
4160814 TGAGTGCATA
4160824 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
4160864 AT AT A- AT AT CT AT AT A- AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4160901 GTGTTTTATG
Statistics
Matches: 69, Mismatches: 2, Indels: 8
0.87 0.03 0.10
Matches are distributed among these distances:
1 4 0.06
2 65 0.94
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4161246 original size:23 final size:23
Alignment explanation
Indices: 4161181--4161278 Score: 92
Period size: 23 Copynumber: 4.3 Consensus size: 23
4161171 GAGTCGAGGG
*
4161181 TTCTACGCGGTCCTTCGGGACAA
1 TTCTACGCGGTCCTTCGGGACAT
* * **
4161204 TTC-ACGGGGTCATTTAGGACAT
1 TTCTACGCGGTCCTTCGGGACAT
4161226 TTCTACGCGGTCCTTCGGGACAT
1 TTCTACGCGGTCCTTCGGGACAT
* * * *
4161249 ATT-TATGTGGTACTTCGAGACAT
1 -TTCTACGCGGTCCTTCGGGACAT
4161272 TTCTACG
1 TTCTACG
4161279 TGGCACATCA
Statistics
Matches: 58, Mismatches: 14, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
22 19 0.33
23 37 0.64
24 2 0.03
ACGTcount: A:0.19, C:0.23, G:0.24, T:0.33
Consensus pattern (23 bp):
TTCTACGCGGTCCTTCGGGACAT
Found at i:4162818 original size:3 final size:3
Alignment explanation
Indices: 4162812--4162847 Score: 63
Period size: 3 Copynumber: 11.7 Consensus size: 3
4162802 CTACTACTAC
4162812 TAT TATT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
4162848 AGTTTATAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 29 0.91
4 3 0.09
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:4164200 original size:100 final size:100
Alignment explanation
Indices: 4164027--4164224 Score: 396
Period size: 100 Copynumber: 2.0 Consensus size: 100
4164017 TCGATCCAAC
4164027 GCGGACAGGACGACGAATGAAATATTCGTAGTCGGGAGATGATAACCAGAAAGTCGCATCAGCGA
1 GCGGACAGGACGACGAATGAAATATTCGTAGTCGGGAGATGATAACCAGAAAGTCGCATCAGCGA
4164092 ATTATGACTTCAAGGTGTGCCCGACGTTGATCGAG
66 ATTATGACTTCAAGGTGTGCCCGACGTTGATCGAG
4164127 GCGGACAGGACGACGAATGAAATATTCGTAGTCGGGAGATGATAACCAGAAAGTCGCATCAGCGA
1 GCGGACAGGACGACGAATGAAATATTCGTAGTCGGGAGATGATAACCAGAAAGTCGCATCAGCGA
4164192 ATTATGACTTCAAGGTGTGCCCGACGTTGATCG
66 ATTATGACTTCAAGGTGTGCCCGACGTTGATCG
4164225 GCTCTGATCG
Statistics
Matches: 98, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
100 98 1.00
ACGTcount: A:0.31, C:0.19, G:0.30, T:0.20
Consensus pattern (100 bp):
GCGGACAGGACGACGAATGAAATATTCGTAGTCGGGAGATGATAACCAGAAAGTCGCATCAGCGA
ATTATGACTTCAAGGTGTGCCCGACGTTGATCGAG
Found at i:4183441 original size:2 final size:2
Alignment explanation
Indices: 4183429--4183473 Score: 51
Period size: 2 Copynumber: 24.0 Consensus size: 2
4183419 ATATTCTATT
* *
4183429 TA TA TA T- TA TA TA T- TG TA AA TA T- TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4183468 TA TA TA
1 TA TA TA
4183474 AAATTTTGTG
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
1 3 0.08
2 34 0.92
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4190711 original size:22 final size:22
Alignment explanation
Indices: 4190683--4190743 Score: 79
Period size: 22 Copynumber: 2.8 Consensus size: 22
4190673 GGGTCTACGC
*
4190683 GGTCCTTCGGGACATATACAGT-
1 GGTCCTTCGGGACAAATACA-TA
*
4190705 GGTCCTTCGGGATAAATACATA
1 GGTCCTTCGGGACAAATACATA
*
4190727 GGTCATTCGGGACAAAT
1 GGTCCTTCGGGACAAAT
4190744 TTCATATGTC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 1 0.03
22 33 0.97
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (22 bp):
GGTCCTTCGGGACAAATACATA
Found at i:4191083 original size:16 final size:17
Alignment explanation
Indices: 4191053--4191085 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
4191043 AGATAAGAAA
4191053 TATGAATGATAATAGAG
1 TATGAATGATAATAGAG
*
4191070 TATGAAT-ATGATAGAG
1 TATGAATGATAATAGAG
4191086 ATCATGATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.45, C:0.00, G:0.24, T:0.30
Consensus pattern (17 bp):
TATGAATGATAATAGAG
Found at i:4202803 original size:21 final size:20
Alignment explanation
Indices: 4202790--4202854 Score: 85
Period size: 21 Copynumber: 3.1 Consensus size: 20
4202780 GCACCTCTGT
4202790 ACCCCTGCAGTGCATCCATGC
1 ACCCCTGCAGTGCA-CCATGC
* *
4202811 ACCCTTGCAGTGCATCAATGC
1 ACCCCTGCAGTGCA-CCATGC
4202832 ACCCCTGCAGTGCATCCATGC
1 ACCCCTGCAGTGCA-CCATGC
4202853 AC
1 AC
4202855 TCCATTTCGA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.22, C:0.40, G:0.18, T:0.20
Consensus pattern (20 bp):
ACCCCTGCAGTGCACCATGC
Found at i:4202899 original size:20 final size:20
Alignment explanation
Indices: 4202874--4202986 Score: 190
Period size: 20 Copynumber: 5.7 Consensus size: 20
4202864 AATTAAATTA
4202874 GTGCATCGATGCATCCTGCT
1 GTGCATCGATGCATCCTGCT
* *
4202894 GTGCATCGATGCATCCCGTT
1 GTGCATCGATGCATCCTGCT
4202914 GTGCATCGATGCATCCTGCT
1 GTGCATCGATGCATCCTGCT
*
4202934 GTGCATCGACGCATCCTGCT
1 GTGCATCGATGCATCCTGCT
4202954 GTGCATCGATGCATCCTGCT
1 GTGCATCGATGCATCCTGCT
*
4202974 GTGCATCCATGCA
1 GTGCATCGATGCA
4202987 CCAAGGCTAC
Statistics
Matches: 86, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 86 1.00
ACGTcount: A:0.16, C:0.31, G:0.25, T:0.28
Consensus pattern (20 bp):
GTGCATCGATGCATCCTGCT
Found at i:4204046 original size:22 final size:22
Alignment explanation
Indices: 4204018--4204059 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
4204008 CTATTATGTG
4204018 CTTTAGGCCCAAATGAATATAA
1 CTTTAGGCCCAAATGAATATAA
4204040 CTTTAGGCCCAAATGAATAT
1 CTTTAGGCCCAAATGAATAT
4204060 GGAAGAATCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.38, C:0.19, G:0.14, T:0.29
Consensus pattern (22 bp):
CTTTAGGCCCAAATGAATATAA
Found at i:4206361 original size:21 final size:21
Alignment explanation
Indices: 4206335--4206392 Score: 98
Period size: 21 Copynumber: 2.8 Consensus size: 21
4206325 GGTGTCAAAA
4206335 TGCATCCATGCACTCCTGCAG
1 TGCATCCATGCACTCCTGCAG
* *
4206356 TGCATCCATGTACCCCTGCAG
1 TGCATCCATGCACTCCTGCAG
4206377 TGCATCCATGCACTCC
1 TGCATCCATGCACTCC
4206393 ATTTCGAATG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.19, C:0.40, G:0.17, T:0.24
Consensus pattern (21 bp):
TGCATCCATGCACTCCTGCAG
Found at i:4206437 original size:20 final size:20
Alignment explanation
Indices: 4206412--4206461 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
4206402 GCAATTAGTG
4206412 CATCGATGCATCCTGCTGTA
1 CATCGATGCATCCTGCTGTA
* *
4206432 CATCGATGCATCCTGTTGTG
1 CATCGATGCATCCTGCTGTA
*
4206452 CATCCATGCA
1 CATCGATGCA
4206462 CCAAGGCTGT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.20, C:0.30, G:0.20, T:0.30
Consensus pattern (20 bp):
CATCGATGCATCCTGCTGTA
Found at i:4206545 original size:21 final size:21
Alignment explanation
Indices: 4206519--4206567 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
4206509 AGGGGTATTT
4206519 ATGCACCTTGATAGTACACCG
1 ATGCACCTTGATAGTACACCG
*
4206540 ATGCACCTTGATAGTGCACCG
1 ATGCACCTTGATAGTACACCG
4206561 ATGCACC
1 ATGCACC
4206568 ATGTTATGAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.27, C:0.31, G:0.20, T:0.22
Consensus pattern (21 bp):
ATGCACCTTGATAGTACACCG
Found at i:4206888 original size:34 final size:32
Alignment explanation
Indices: 4206849--4206918 Score: 86
Period size: 34 Copynumber: 2.1 Consensus size: 32
4206839 TTTTGTTAAG
* * *
4206849 GGGAAATGTTCTAGCTTATCCCGTGTAAAAGCTA
1 GGGAAAGGTTCTAGCTTAGCCCG-G-AAAAACTA
*
4206883 GGGAAAGGTTCTAGTTTAGCCCGGAAAAACTA
1 GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
4206915 GGGA
1 GGGA
4206919 GTTGTAAGGT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 11 0.34
33 1 0.03
34 20 0.62
ACGTcount: A:0.31, C:0.16, G:0.29, T:0.24
Consensus pattern (32 bp):
GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
Found at i:4209943 original size:22 final size:22
Alignment explanation
Indices: 4209892--4209952 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
4209882 GGGTCTACGC
*
4209892 GGTCCTTCGGGACATATACAGT
1 GGTCCTTCGGGACAAATACAGT
* *
4209914 GGTTCTTCAGGACAAATACA-T
1 GGTCCTTCGGGACAAATACAGT
*
4209935 AGGTCCTTCGGGATAAAT
1 -GGTCCTTCGGGACAAAT
4209953 TTCATATGCC
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
21 1 0.03
22 31 0.97
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.28
Consensus pattern (22 bp):
GGTCCTTCGGGACAAATACAGT
Found at i:4210292 original size:16 final size:17
Alignment explanation
Indices: 4210262--4210294 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
4210252 AGATAAGAAA
4210262 TATGAATGATAATAGAG
1 TATGAATGATAATAGAG
*
4210279 TATGAAT-ATGATAGAG
1 TATGAATGATAATAGAG
4210295 ATCATGATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.45, C:0.00, G:0.24, T:0.30
Consensus pattern (17 bp):
TATGAATGATAATAGAG
Found at i:4219111 original size:20 final size:20
Alignment explanation
Indices: 4219086--4219125 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
4219076 TTTATACCAT
4219086 GTAATAATTATGTTTAGTTA
1 GTAATAATTATGTTTAGTTA
4219106 GTAATAATTATGTTTAGTTA
1 GTAATAATTATGTTTAGTTA
4219126 TTTTTTAGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.15, T:0.50
Consensus pattern (20 bp):
GTAATAATTATGTTTAGTTA
Found at i:4225374 original size:24 final size:25
Alignment explanation
Indices: 4225314--4225378 Score: 71
Period size: 27 Copynumber: 2.6 Consensus size: 25
4225304 ATTTTCAAAT
*
4225314 TATTAATTTTTAAAAAAATATATAC
1 TATTAATTATTAAAAAAATATATAC
*
4225339 AATTTATATTATTAAATAAAATAT-TA-
1 TA-TTA-ATTATTAAA-AAAATATATAC
4225365 TATTAATTATTAAA
1 TATTAATTATTAAA
4225379 CATACAACTA
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
24 9 0.26
25 4 0.12
26 4 0.12
27 10 0.29
28 7 0.21
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (25 bp):
TATTAATTATTAAAAAAATATATAC
Found at i:4237077 original size:180 final size:180
Alignment explanation
Indices: 4236775--4237102 Score: 611
Period size: 180 Copynumber: 1.8 Consensus size: 180
4236765 TTCAAGCTCA
* *
4236775 ATCTCAACCTCTTCTCAGTGCCAATGTTGTACATGTCCAGAATAACAACCAAAGGAAATTCATTG
1 ATCTCAACCTCTTCTCAGTGCCAATGTTGAACATGTCCAGAATAACAACCAAAGGAAATTCACTG
*
4236840 ATCGATCTACTGATCCACAGTACACTGGAAATGAAAGAAACTCACAGCAGTACTCTCGTGGTCGA
66 ATCGATCTACTGATCCACAGTACACTGGAAATGAAAGAAACTCACAGCAGTACTCTCGTAGTCGA
* *
4236905 ACTAGTTCTCGAGGTCGTGGAAGAGCAAGGGTGCAGTGTCAATTGTGTGG
131 ACCAGTTCTCGAGCTCGTGGAAGAGCAAGGGTGCAGTGTCAATTGTGTGG
4236955 ATCTCAACCTCTTCTCAGTGCCAATGTTGAACATGTCCAGAATAACAACCAAAGGAAATTCACTG
1 ATCTCAACCTCTTCTCAGTGCCAATGTTGAACATGTCCAGAATAACAACCAAAGGAAATTCACTG
4237020 ATCGATCTACTGATCCACAGTACACTGGAAATGAAAGAAACTCACAGCAGTACTCTCGTAGTCGA
66 ATCGATCTACTGATCCACAGTACACTGGAAATGAAAGAAACTCACAGCAGTACTCTCGTAGTCGA
4237085 ACCAGTTCTCGAGCTCGT
131 ACCAGTTCTCGAGCTCGT
4237103 AGTCGAACCA
Statistics
Matches: 143, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
180 143 1.00
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (180 bp):
ATCTCAACCTCTTCTCAGTGCCAATGTTGAACATGTCCAGAATAACAACCAAAGGAAATTCACTG
ATCGATCTACTGATCCACAGTACACTGGAAATGAAAGAAACTCACAGCAGTACTCTCGTAGTCGA
ACCAGTTCTCGAGCTCGTGGAAGAGCAAGGGTGCAGTGTCAATTGTGTGG
Found at i:4237106 original size:24 final size:24
Alignment explanation
Indices: 4237074--4237126 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
4237064 CAGCAGTACT
4237074 CTCGTAGTCGAACCAGTTCTCGAG
1 CTCGTAGTCGAACCAGTTCTCGAG
4237098 CTCGTAGTCGAACCAGTTCTCGAG
1 CTCGTAGTCGAACCAGTTCTCGAG
*
4237122 GTCGT
1 CTCGT
4237127 GGAAGAGCAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.19, C:0.28, G:0.26, T:0.26
Consensus pattern (24 bp):
CTCGTAGTCGAACCAGTTCTCGAG
Found at i:4242863 original size:2 final size:2
Alignment explanation
Indices: 4242856--4242887 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
4242846 AGACTTTGTA
4242856 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4242888 GAAAAAAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4243967 original size:24 final size:22
Alignment explanation
Indices: 4243940--4243992 Score: 88
Period size: 24 Copynumber: 2.3 Consensus size: 22
4243930 CTATATCACA
4243940 TTTAAATTCTTTTAAAAATATTAT
1 TTTAAATTCTTTTAAAAATA-T-T
4243964 TTTAAATTCTTTTAAAAATATT
1 TTTAAATTCTTTTAAAAATATT
4243986 TTTAAAT
1 TTTAAAT
4243993 AAAACTTAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
22 8 0.28
23 1 0.03
24 20 0.69
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.55
Consensus pattern (22 bp):
TTTAAATTCTTTTAAAAATATT
Found at i:4244081 original size:13 final size:13
Alignment explanation
Indices: 4244063--4244089 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
4244053 AACGGTAAAC
4244063 ACCAAAAAATATA
1 ACCAAAAAATATA
4244076 ACCAAAAAATATA
1 ACCAAAAAATATA
4244089 A
1 A
4244090 GCACCTACTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.70, C:0.15, G:0.00, T:0.15
Consensus pattern (13 bp):
ACCAAAAAATATA
Found at i:4245001 original size:24 final size:22
Alignment explanation
Indices: 4244974--4245026 Score: 88
Period size: 24 Copynumber: 2.3 Consensus size: 22
4244964 CTATATCACA
4244974 TTTAAATTCTTTTAAAAATATTAT
1 TTTAAATTCTTTTAAAAATA-T-T
4244998 TTTAAATTCTTTTAAAAATATT
1 TTTAAATTCTTTTAAAAATATT
4245020 TTTAAAT
1 TTTAAAT
4245027 AAAACTTAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
22 8 0.28
23 1 0.03
24 20 0.69
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.55
Consensus pattern (22 bp):
TTTAAATTCTTTTAAAAATATT
Found at i:4247990 original size:5 final size:5
Alignment explanation
Indices: 4247980--4248013 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
4247970 AATTATTTTT
*
4247980 TATTA TATTA TATTA TATTA TATTTA TTTTA TAT
1 TATTA TATTA TATTA TATTA TA-TTA TATTA TAT
4248014 ATGATTATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
5 22 0.85
6 4 0.15
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (5 bp):
TATTA
Found at i:4248011 original size:21 final size:21
Alignment explanation
Indices: 4247982--4248021 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
4247972 TTATTTTTTA
4247982 TTATATTATATTAT-ATTATAT
1 TTATATTATA-TATGATTATAT
*
4248003 TTATTTTATATATGATTAT
1 TTATATTATATATGATTAT
4248022 TTGAAGAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (21 bp):
TTATATTATATATGATTATAT
Found at i:4248021 original size:15 final size:15
Alignment explanation
Indices: 4247971--4248023 Score: 63
Period size: 15 Copynumber: 3.5 Consensus size: 15
4247961 GTGAGGTAAA
*
4247971 ATTATTTTTTATTAT
1 ATTATTTTATATTAT
*
4247986 ATTATATTATATTAT
1 ATTATTTTATATTAT
4248001 ATTTATTTTATA-TAT
1 A-TTATTTTATATTAT
4248016 GATTATTT
1 -ATTATTT
4248024 GAAGAAAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
15 23 0.70
16 10 0.30
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (15 bp):
ATTATTTTATATTAT
Found at i:4252423 original size:15 final size:14
Alignment explanation
Indices: 4252403--4252436 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
4252393 ATAATTAATG
*
4252403 TTTAATAAGTAATTT
1 TTTAATAA-TAATAT
4252418 TTTAATAATAATAT
1 TTTAATAATAATAT
4252432 TTTAA
1 TTTAA
4252437 AATTAAAGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (14 bp):
TTTAATAATAATAT
Found at i:4253242 original size:32 final size:32
Alignment explanation
Indices: 4253201--4253291 Score: 173
Period size: 32 Copynumber: 2.8 Consensus size: 32
4253191 TCCGTTTGAT
4253201 AACTAAGTTCAGTTGAAAATACTAATTAAAAA
1 AACTAAGTTCAGTTGAAAATACTAATTAAAAA
4253233 AACTAAGTTCAGTTGAAAATACTAATTAAAAA
1 AACTAAGTTCAGTTGAAAATACTAATTAAAAA
*
4253265 AACTAAGTTCAGTTGAAAATATTAATT
1 AACTAAGTTCAGTTGAAAATACTAATT
4253292 TCTTCATTTA
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 58 1.00
ACGTcount: A:0.51, C:0.09, G:0.10, T:0.31
Consensus pattern (32 bp):
AACTAAGTTCAGTTGAAAATACTAATTAAAAA
Found at i:4254564 original size:3 final size:3
Alignment explanation
Indices: 4254550--4254591 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
4254540 AAAAAGATCG
*
4254550 AGA AGT AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
4254592 GGGGAACTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.64, C:0.00, G:0.33, T:0.02
Consensus pattern (3 bp):
AGA
Found at i:4257679 original size:18 final size:18
Alignment explanation
Indices: 4257656--4257692 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
4257646 TCTCCAGAAG
4257656 ACATTTTGACTAAATAAT
1 ACATTTTGACTAAATAAT
4257674 ACATTTTGACTAAATAAT
1 ACATTTTGACTAAATAAT
4257692 A
1 A
4257693 TCAGGATCCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.46, C:0.11, G:0.05, T:0.38
Consensus pattern (18 bp):
ACATTTTGACTAAATAAT
Found at i:4259528 original size:188 final size:188
Alignment explanation
Indices: 4259190--4259567 Score: 740
Period size: 188 Copynumber: 2.0 Consensus size: 188
4259180 TGTCTCAGCC
4259190 TGCCCTCCTAGAAACTTTCAAACAGTTGACACACACGCCATTATTATCTACAATCAACAATGGCA
1 TGCCCTCCTAGAAACTTTCAAACAGTTGACACACACGCCATTATTATCTACAATCAACAATGGCA
4259255 GTGGCTCGTTTGGCTTTGAGAAATTTGCAACAAAGGGTGTCATATTCTTCGTCTGTTTTGGGTCT
66 GTGGCTCGTTTGGCTTTGAGAAATTTGCAACAAAGGGTGTCATATTCTTCGTCTGTTTTGGGTCT
4259320 AATCTTGGAGAGAGGAGCGTTGGTAGGGTGCAAAGGCAAAGGTGGAATGATGAGACGT
131 AATCTTGGAGAGAGGAGCGTTGGTAGGGTGCAAAGGCAAAGGTGGAATGATGAGACGT
4259378 TGCCCTCCTAGAAACTTTCAAACAGTTGACACACACGCCATTATTATCTACAATCAACAATGGCA
1 TGCCCTCCTAGAAACTTTCAAACAGTTGACACACACGCCATTATTATCTACAATCAACAATGGCA
4259443 GTGGCTCGTTTGGCTTTGAGAAATTTGCAACAAAGGGTGTCATATTCTTCGTCTGTTTTGGGTCA
66 GTGGCTCGTTTGGCTTTGAGAAATTTGCAACAAAGGGTGTCATATTCTTCGTCTGTTTTGGGTC-
4259508 TAATCTTGGAGAGA-GAGCGTTGGTAGGGTGCAAAGGCAAAGGTGGAATGATGAGACGT
130 TAATCTTGGAGAGAGGAGCGTTGGTAGGGTGCAAAGGCAAAGGTGGAATGATGAGACGT
4259566 TG
1 TG
4259568 AAGAGGTTTA
Statistics
Matches: 189, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
188 175 0.93
189 14 0.07
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (188 bp):
TGCCCTCCTAGAAACTTTCAAACAGTTGACACACACGCCATTATTATCTACAATCAACAATGGCA
GTGGCTCGTTTGGCTTTGAGAAATTTGCAACAAAGGGTGTCATATTCTTCGTCTGTTTTGGGTCT
AATCTTGGAGAGAGGAGCGTTGGTAGGGTGCAAAGGCAAAGGTGGAATGATGAGACGT
Found at i:4263797 original size:23 final size:21
Alignment explanation
Indices: 4263750--4263810 Score: 77
Period size: 23 Copynumber: 2.8 Consensus size: 21
4263740 AGCTCGTATC
*
4263750 ATTGCACCGAAGTGCACGTAGA
1 ATTGCACCGTAGTGC-CGTAGA
4263772 ATTGCACCGTAGTGCCGTGTAGA
1 ATTGCACCGTAGTGCC--GTAGA
*
4263795 ATTACACCGTAGTGCC
1 ATTGCACCGTAGTGCC
4263811 CTATAATAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
21 1 0.03
22 14 0.40
23 20 0.57
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (21 bp):
ATTGCACCGTAGTGCCGTAGA
Found at i:4266006 original size:21 final size:21
Alignment explanation
Indices: 4265982--4266035 Score: 108
Period size: 21 Copynumber: 2.6 Consensus size: 21
4265972 TTGATGTTTA
4265982 AAGCTTATATAAGCTTTCCTT
1 AAGCTTATATAAGCTTTCCTT
4266003 AAGCTTATATAAGCTTTCCTT
1 AAGCTTATATAAGCTTTCCTT
4266024 AAGCTTATATAA
1 AAGCTTATATAA
4266036 TACTCCAAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.33, C:0.17, G:0.09, T:0.41
Consensus pattern (21 bp):
AAGCTTATATAAGCTTTCCTT
Found at i:4268737 original size:23 final size:23
Alignment explanation
Indices: 4268691--4268751 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
4268681 AGCTCGTATC
*
4268691 ATTGCACCGA-AGTG-CACGTAGA
1 ATTGCACC-ATAGTGCCGCGTAGA
* *
4268713 ATTGTACCGTAGTGCCGCGTAGA
1 ATTGCACCATAGTGCCGCGTAGA
4268736 ATTGCACCATAGTGCC
1 ATTGCACCATAGTGCC
4268752 CTATAATAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
22 11 0.34
23 21 0.66
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (23 bp):
ATTGCACCATAGTGCCGCGTAGA
Found at i:4277007 original size:2 final size:2
Alignment explanation
Indices: 4277002--4277041 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
4276992 ACACACACAC
4277002 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4277042 CTCACCTCCT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4280169 original size:39 final size:39
Alignment explanation
Indices: 4280125--4280215 Score: 155
Period size: 39 Copynumber: 2.3 Consensus size: 39
4280115 AATTAGGGTT
4280125 TGACATGTGTCAATAAAAGACTAAAACACGTGTCATTAA
1 TGACATGTGTCAATAAAAGACTAAAACACGTGTCATTAA
* *
4280164 TGACATGTGTCAGTAAAAGACTATAACACGTGTCATTAA
1 TGACATGTGTCAATAAAAGACTAAAACACGTGTCATTAA
*
4280203 TGACATGTATCAA
1 TGACATGTGTCAA
4280216 GACATGATTG
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 48 1.00
ACGTcount: A:0.41, C:0.15, G:0.16, T:0.27
Consensus pattern (39 bp):
TGACATGTGTCAATAAAAGACTAAAACACGTGTCATTAA
Found at i:4293422 original size:2 final size:2
Alignment explanation
Indices: 4293415--4293458 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
4293405 TCATAATTGA
4293415 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4293457 AT
1 AT
4293459 TAAAATATAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4295093 original size:235 final size:238
Alignment explanation
Indices: 4294702--4295235 Score: 685
Period size: 235 Copynumber: 2.2 Consensus size: 238
4294692 GTCGGGTCGT
* * *
4294702 TTTCTAATTCATATATTCAGGTCGGGTC-AGTGAAACTTTATTTTGGTCGAGTCGGGTCAGTTTT
1 TTTCTAATTCATATATTCGGGTCGGGTCGGGTGAAACTTTA-TTT--T-G-GTCGGGTCAATTTT
* * * * *
4294766 TTTAAGTGTGATATTCGGGTCGAGTTCGAGTTTAGGTTGAAATTACCCAACCGACCTGAAAATAT
61 TTTAAGTGTGATATTCGGGCCGAGTTCGAGTTTAGGGTGAAAATACCCAACCGACCTCAAAAAAT
4294831 ATATAATTTTACCTTATATATTTAGGAATAATTACAATAATA-CCCTCTATATATAA-TTTTTTC
126 ATATAATTTTACCTTATATATTTAGGAATAATTACAATAATACCCCTCTATATATAATTTTTTTC
4294894 AATTAAGTCACTATTTTTATTGAATAAAAA-A-AATTT-TTT-TC-AG
191 AATTAAGTCACTATTTTTATTGAATAAAAATATAATTTATTTGTCGAG
*
4294937 TTTCTAATTCATATATTTGGGTCGGGTCGGGTGAAACTTTA-TTTGGTCGGGTCAATTTTTTTAA
1 TTTCTAATTCATATATTCGGGTCGGGTCGGGTGAAACTTTATTTTGGTCGGGTCAATTTTTTTAA
* * *
4295001 GTGTGATATTCGAGTCGGGCCGGGTTCGGGTTTAGGGTGAAAAATACCCGACCCGACC-CAAAAA
66 GTGTGATA-T----TCGGGCCGAGTTCGAGTTTAGGGTG-AAAATACCC-AACCGACCTCAAAAA
4295065 ATATATAATTTTACCTTATATA-TTAGGAATAATTACAATAATACCCCTCTATATATAATTTTTT
124 ATATATAATTTTACCTTATATATTTAGGAATAATTACAATAATACCCCTCTATATATAA--TTTT
** *
4295129 TTTCAATTAAGTCACTATTTTTATTGAATAAAAATATTTTTTTATTTCGGGTCGGG
187 TTTCAATTAAGTCACTATTTTTATTGAATAAAAATA-TAATTTATTT---GTCGAG
*
4295185 TTTCTAATTCATATATTCGGGTCGGGTCGGATGAAACTTTATTTTGGTCGG
1 TTTCTAATTCATATATTCGGGTCGGGTCGGGTGAAACTTTATTTTGGTCGG
4295236 ATCAGGTCTC
Statistics
Matches: 260, Mismatches: 17, Indels: 30
0.85 0.06 0.10
Matches are distributed among these distances:
230 26 0.10
231 2 0.01
232 1 0.00
234 2 0.01
235 68 0.26
236 59 0.23
237 7 0.03
239 37 0.14
240 1 0.00
242 3 0.01
243 3 0.01
247 2 0.01
248 40 0.15
249 9 0.03
ACGTcount: A:0.29, C:0.13, G:0.17, T:0.40
Consensus pattern (238 bp):
TTTCTAATTCATATATTCGGGTCGGGTCGGGTGAAACTTTATTTTGGTCGGGTCAATTTTTTTAA
GTGTGATATTCGGGCCGAGTTCGAGTTTAGGGTGAAAATACCCAACCGACCTCAAAAAATATATA
ATTTTACCTTATATATTTAGGAATAATTACAATAATACCCCTCTATATATAATTTTTTTCAATTA
AGTCACTATTTTTATTGAATAAAAATATAATTTATTTGTCGAG
Found at i:4298107 original size:5 final size:6
Alignment explanation
Indices: 4298080--4298112 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
4298070 AGGTAGAGTG
4298080 ATGATT ATGATT ATGATT ATGA-T ATGA-T ATGAT
1 ATGATT ATGATT ATGATT ATGATT ATGATT ATGAT
4298113 CTGGTACATT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 10 0.38
6 16 0.62
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.45
Consensus pattern (6 bp):
ATGATT
Found at i:4298319 original size:7 final size:7
Alignment explanation
Indices: 4298307--4298332 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
4298297 ATGAAAGAAA
4298307 GGAATAT
1 GGAATAT
4298314 GGAATAT
1 GGAATAT
4298321 GGAATAT
1 GGAATAT
4298328 GGAAT
1 GGAAT
4298333 TGAAAGTTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.31, T:0.27
Consensus pattern (7 bp):
GGAATAT
Found at i:4299449 original size:32 final size:31
Alignment explanation
Indices: 4299413--4299497 Score: 102
Period size: 32 Copynumber: 2.7 Consensus size: 31
4299403 AATAAGATAA
*
4299413 ATTATATTTAAATTAGTTTAAA-T-TGATATGTG
1 ATTATATTTAAA--A-TTTAAATTATGATATATG
4299445 ATTATATTTAAAATTTAAATTTATGATATATG
1 ATTATATTTAAAATTTAAA-TTATGATATATG
*
4299477 ATTATATTTAAAATTTTAATT
1 ATTATATTTAAAATTTAAATT
4299498 TTTCATACAA
Statistics
Matches: 48, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
29 6 0.12
30 1 0.02
31 3 0.06
32 38 0.79
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (31 bp):
ATTATATTTAAAATTTAAATTATGATATATG
Found at i:4299498 original size:32 final size:32
Alignment explanation
Indices: 4299436--4299498 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
4299426 TAGTTTAAAT
*
4299436 TGATATGTGATTATATTTAAAATTTAAATTTA
1 TGATATATGATTATATTTAAAATTTAAATTTA
*
4299468 TGATATATGATTATATTTAAAATTTTAATTT
1 TGATATATGATTATATTTAAAATTTAAATTT
4299499 TTCATACAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (32 bp):
TGATATATGATTATATTTAAAATTTAAATTTA
Found at i:4313332 original size:25 final size:25
Alignment explanation
Indices: 4313304--4313353 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
4313294 TTTAATAATT
* *
4313304 AAATGATCGTTTAAGTAGTTTACCC
1 AAATGATCGTTTAAATACTTTACCC
*
4313329 AAATGGTCGTTTAAATACTTTACCC
1 AAATGATCGTTTAAATACTTTACCC
4313354 GATTTAATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (25 bp):
AAATGATCGTTTAAATACTTTACCC
Found at i:4314772 original size:45 final size:45
Alignment explanation
Indices: 4314721--4314860 Score: 130
Period size: 45 Copynumber: 3.2 Consensus size: 45
4314711 TGAATAAACA
4314721 TGTTGTTTTAAGTGTTATAAACAATTTGGATTCAATTGTGTCATT
1 TGTTGTTTTAAGTGTTATAAACAATTTGGATTCAATTGTGTCATT
* *** * * ***
4314766 TGTTG-TTTAACGTGTGTTTGTGCATTGTTGG-TTGAA-T-AAACA--
1 TGTTGTTTTAA-GTGT-TATAAACAAT-TTGGATTCAATTGTGTCATT
4314808 TGTTGTTTTAAGTGTTATAAACAATTTGGATTCAATTGTGTCATT
1 TGTTGTTTTAAGTGTTATAAACAATTTGGATTCAATTGTGTCATT
4314853 TGTTGTTT
1 TGTTGTTT
4314861 AACGTGTGTT
Statistics
Matches: 68, Mismatches: 18, Indels: 18
0.65 0.17 0.17
Matches are distributed among these distances:
40 4 0.06
41 9 0.13
42 10 0.15
43 7 0.10
44 7 0.10
45 18 0.26
46 9 0.13
47 4 0.06
ACGTcount: A:0.24, C:0.06, G:0.21, T:0.49
Consensus pattern (45 bp):
TGTTGTTTTAAGTGTTATAAACAATTTGGATTCAATTGTGTCATT
Found at i:4314845 original size:87 final size:87
Alignment explanation
Indices: 4314699--4314872 Score: 348
Period size: 87 Copynumber: 2.0 Consensus size: 87
4314689 GCCAAAGTGA
4314699 TGCATTGTTGGTTGAATAAACATGTTGTTTTAAGTGTTATAAACAATTTGGATTCAATTGTGTCA
1 TGCATTGTTGGTTGAATAAACATGTTGTTTTAAGTGTTATAAACAATTTGGATTCAATTGTGTCA
4314764 TTTGTTGTTTAACGTGTGTTTG
66 TTTGTTGTTTAACGTGTGTTTG
4314786 TGCATTGTTGGTTGAATAAACATGTTGTTTTAAGTGTTATAAACAATTTGGATTCAATTGTGTCA
1 TGCATTGTTGGTTGAATAAACATGTTGTTTTAAGTGTTATAAACAATTTGGATTCAATTGTGTCA
4314851 TTTGTTGTTTAACGTGTGTTTG
66 TTTGTTGTTTAACGTGTGTTTG
4314873 GAATGTGCTA
Statistics
Matches: 87, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
87 87 1.00
ACGTcount: A:0.24, C:0.07, G:0.22, T:0.47
Consensus pattern (87 bp):
TGCATTGTTGGTTGAATAAACATGTTGTTTTAAGTGTTATAAACAATTTGGATTCAATTGTGTCA
TTTGTTGTTTAACGTGTGTTTG
Found at i:4314856 original size:42 final size:42
Alignment explanation
Indices: 4314723--4314856 Score: 112
Period size: 42 Copynumber: 3.1 Consensus size: 42
4314713 AATAAACATG
4314723 TTGTTTTAAGTGTTATAAACAATTTGGATTCAATTGTGTCAT
1 TTGTTTTAAGTGTTATAAACAATTTGGATTCAATTGTGTCAT
* *** * * ***
4314765 TTGTTGTTTAACGTGTGTTTGTGCATTGTTGG-TTGAA-T-AAACAT
1 TTG-T-TTTAA-GTGT-TATAAACAAT-TTGGATTCAATTGTGTCAT
4314809 GTTGTTTTAAGTGTTATAAACAATTTGGATTCAATTGTGTCAT
1 -TTGTTTTAAGTGTTATAAACAATTTGGATTCAATTGTGTCAT
4314852 TTGTT
1 TTGTT
4314857 GTTTAACGTG
Statistics
Matches: 65, Mismatches: 18, Indels: 18
0.64 0.18 0.18
Matches are distributed among these distances:
40 4 0.06
41 9 0.14
42 13 0.20
43 9 0.14
44 9 0.14
45 8 0.12
46 9 0.14
47 4 0.06
ACGTcount: A:0.25, C:0.07, G:0.20, T:0.49
Consensus pattern (42 bp):
TTGTTTTAAGTGTTATAAACAATTTGGATTCAATTGTGTCAT
Found at i:4321868 original size:68 final size:69
Alignment explanation
Indices: 4321758--4321899 Score: 277
Period size: 68 Copynumber: 2.1 Consensus size: 69
4321748 TAAAAAATAA
4321758 TGGGTATACAATTTTTTTCCCTTAACCCATTAAGTTAAATTTCCCTACAAAGGCTTTGTGCATAG
1 TGGGTATACAATTTTTTTCCCTTAACCCATTAAGTTAAATTTCCCTACAAAGGCTTTGTGCATAG
4321823 GCCC
66 GCCC
4321827 TGGGTATACAATTTTTTTCCC-TAACCCATTAAGTTAAATTTCCCTACAAAGGCTTTGTGCATAG
1 TGGGTATACAATTTTTTTCCCTTAACCCATTAAGTTAAATTTCCCTACAAAGGCTTTGTGCATAG
4321891 GCCC
66 GCCC
4321895 TGGGT
1 TGGGT
4321900 GGAAGATGCA
Statistics
Matches: 73, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
68 52 0.71
69 21 0.29
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (69 bp):
TGGGTATACAATTTTTTTCCCTTAACCCATTAAGTTAAATTTCCCTACAAAGGCTTTGTGCATAG
GCCC
Found at i:4325548 original size:30 final size:30
Alignment explanation
Indices: 4325492--4325555 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
4325482 TAAACAATGG
*
4325492 TGCGCATGGGCTCCAAGGAGATTCTCGTGA
1 TGCGCATGGGCTCCAAGGAGACTCTCGTGA
* * *
4325522 TGCGTATGGGGTCCAAGG-GAACTCTCGTGG
1 TGCGCATGGGCTCCAAGGAG-ACTCTCGTGA
4325552 TGCG
1 TGCG
4325556 ACAATTGTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 1 0.03
30 28 0.97
ACGTcount: A:0.17, C:0.22, G:0.38, T:0.23
Consensus pattern (30 bp):
TGCGCATGGGCTCCAAGGAGACTCTCGTGA
Found at i:4325931 original size:105 final size:105
Alignment explanation
Indices: 4325749--4325958 Score: 357
Period size: 105 Copynumber: 2.0 Consensus size: 105
4325739 CCTCCTGGCA
* *
4325749 TGGTGCCCACCCGTTTTGACACTTCAACAAGCGCACATGGAAACCATGATGGCGCATATAAATTG
1 TGGTGCCCACCCGTTTTGACAATTCAACAAGCGCACATGGAAACCATGATGGCGCACATAAATTG
4325814 AGGGCCACACATGAGTTAAATCCCACTCATATTGAAGGCG
66 AGGGCCACACATGAGTTAAATCCCACTCATATTGAAGGCG
** *
4325854 TGGTGCCCACCCGTTTTGACAATTCAACAAGCGCACATGGAAATTATGATGGCGCACATGAATTG
1 TGGTGCCCACCCGTTTTGACAATTCAACAAGCGCACATGGAAACCATGATGGCGCACATAAATTG
* *
4325919 GGGGGCACACATGAGTTAAATCCCACTCATATTGAAGGCG
66 AGGGCCACACATGAGTTAAATCCCACTCATATTGAAGGCG
4325959 CACGTGAATC
Statistics
Matches: 98, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
105 98 1.00
ACGTcount: A:0.30, C:0.24, G:0.23, T:0.22
Consensus pattern (105 bp):
TGGTGCCCACCCGTTTTGACAATTCAACAAGCGCACATGGAAACCATGATGGCGCACATAAATTG
AGGGCCACACATGAGTTAAATCCCACTCATATTGAAGGCG
Found at i:4325995 original size:39 final size:39
Alignment explanation
Indices: 4325941--4326030 Score: 108
Period size: 39 Copynumber: 2.3 Consensus size: 39
4325931 GAGTTAAATC
* * *
4325941 CCACTCATATTGAAGGCGCACGTGAATCAAGGAAGAATG
1 CCACTCATGTTGAAGGCACACGTGAATCAAAGAAGAATG
* * * *
4325980 CCACTCATGTTGAAGGCACATGTGAATTAAATAATAATG
1 CCACTCATGTTGAAGGCACACGTGAATCAAAGAAGAATG
*
4326019 GCACTCATGTTG
1 CCACTCATGTTG
4326031 GAGAGTTAAA
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
39 43 1.00
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.24
Consensus pattern (39 bp):
CCACTCATGTTGAAGGCACACGTGAATCAAAGAAGAATG
Found at i:4329166 original size:29 final size:29
Alignment explanation
Indices: 4329123--4329205 Score: 139
Period size: 29 Copynumber: 2.8 Consensus size: 29
4329113 TTCACCTAAC
4329123 TAAATTGATGTAAGCAATGACATCATTAAT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
4329153 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
4329182 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
4329206 ATTTAGTTTG
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
29 46 0.92
30 4 0.08
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:4333787 original size:29 final size:29
Alignment explanation
Indices: 4333744--4333826 Score: 139
Period size: 29 Copynumber: 2.8 Consensus size: 29
4333734 TTCACCTAAC
4333744 TAAATTGATGTAAGCAATGACATCATTAAT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
4333774 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
4333803 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
4333827 ATTTAGTTTG
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
29 46 0.92
30 4 0.08
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:4334481 original size:2 final size:2
Alignment explanation
Indices: 4334474--4334502 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
4334464 ATATTTTTCT
4334474 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4334503 GAAAGAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Done.