Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008823.1 Hibiscus syriacus cultivar Beakdansim tig00111993_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: 1111368
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 6
Found at i:398651 original size:42 final size:41
Alignment explanation
Indices: 398605--398683 Score: 95
Period size: 41 Copynumber: 1.9 Consensus size: 41
398595 ATCAGCAAGT
* * * *
398605 CTTTTGGGCATGATGATTAAATCCTTCGGGTCATCTGTCAGG
1 CTTTTGAGCAAGATGA-TAAATCCTTCAGGCCATCTGTCAGG
* *
398647 CTTTTGAGTAAGATGATAAGTCCTTCAGGCCATCTGT
1 CTTTTGAGCAAGATGATAAATCCTTCAGGCCATCTGT
398684 AAGACCATCA
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
41 18 0.58
42 13 0.42
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.35
Consensus pattern (41 bp):
CTTTTGAGCAAGATGATAAATCCTTCAGGCCATCTGTCAGG
Found at i:398682 original size:41 final size:43
Alignment explanation
Indices: 398580--398683 Score: 115
Period size: 42 Copynumber: 2.5 Consensus size: 43
398570 TCTTACTTAG
* * * *
398580 TAAGTCCTTCGGGCCATCAG-CAAGTCTTTTGGGCATGATGAT
1 TAAGTCCTTCGGGCCATCTGTCAAGGCTTTTGAGCAAGATGAT
* * *
398622 TAAATCCTTCGGGTCATCTGTC-AGGCTTTTGAGTAAGATGA-
1 TAAGTCCTTCGGGCCATCTGTCAAGGCTTTTGAGCAAGATGAT
*
398663 TAAGTCCTTCAGGCCATCTGT
1 TAAGTCCTTCGGGCCATCTGT
398684 AAGACCATCA
Statistics
Matches: 51, Mismatches: 10, Indels: 3
0.80 0.16 0.05
Matches are distributed among these distances:
41 18 0.35
42 32 0.63
43 1 0.02
ACGTcount: A:0.22, C:0.21, G:0.24, T:0.33
Consensus pattern (43 bp):
TAAGTCCTTCGGGCCATCTGTCAAGGCTTTTGAGCAAGATGAT
Found at i:398741 original size:711 final size:711
Alignment explanation
Indices: 397366--400006 Score: 2741
Period size: 711 Copynumber: 3.7 Consensus size: 711
397356 TAAAAAAATG
* * * * *
397366 AGAAAGTGATTTTCAAAGTTTCTTACTTAGTAAGTCCTTCAGGCCATTAATAAGTCTTTCGAGAA
1 AGAAAGTGATTTCCAAAGTTTCTTACTTAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCA
* * * **
397431 TGATGATTAAATCCTTCAAGTCATTTGTAAGTCTTTCGATCAAGATGATAAGTCTTCGGGA-CAT
66 TGATGATTAAATCCTTCGAGTCATTTGTAAGGCTTTCGAGCAAGATGATAAGTCTTCATGACCAT
* * * * *
397495 CCATAAGACCTTTGGGTAAGATGTTCTCACGTGGTATTCAAAAAGATGAGAAAGTGATTTCCAAA
131 CCATAAGACCTTCGGGTAAGATGTTTTCACATGAT-TTCAAAAAAATGAGAAAGTGATTTCCAAA
* * * ***
397560 GTTTCTCATTTAGAATTTTCAGAAAATGAAATTCTTGAAAAGCAAGAAAGTGATTTCCAAAGTTT
195 GTTTCTCATTTAGTATTTTCAAAAAATGAAATTCTTGAAAAGTAAGAAAACAATTTCCAAAGTTT
*
397625 CATACTTAATAAGTCC-TTCGGGGCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTT-GA
260 CATACTTAGTAAGTCCATT----G-ATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTTCGA
* * * * * * * * * *
397688 GTTATTTGTCAGGCTTGCGAGCAAGATGATAAGTCAATCATGCTATCCGTAAGACCTTT-GGGTA
320 GTCATCTGTAAGGCTTTCGAGCAAGATGATAAGTCATTCGTGCCATCCATAAGA-CTTTCAGGCA
* * * ** *
397752 GGATGATTTCACATTAACTTTTAAAAAAATGAGAAAGTGATTTTTAAAGTTTCTCATTTAGTGTT
384 GGATGTTTTCAC-GTGA-TTTTAAAAAAATGAGAAAGTGATTTCCAAAGTTTCTCATTTAGTATT
* * * *
397817 TTTAGAAAATGAAATTTTTGAAAAGTAAAAAAGCAATTTCCAAAGTTTCTTACTTAGTAAG-CCA
447 TTCAGAAAATAAAATTTTTGAAAAGTAAGAAAGCGATTTCCAAAGTTTCTTACTTAGTAAGTCC-
*
397881 TT-----ATCAGTACGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTGTAAGTCTTTCA
511 TTGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTGTAAGTCTTTCA
* ** * ** *
397941 AGCAAGATGATATA-TCCTTCATTCCATCCATAAGACTTTCATACAGGATGTTTTCACGTGATTT
576 AGCAAGATGATA-AGTCCTTCAATCCATCTGTAAGACCTTCAGGCAGGATGTTTTCACATGATTT
* * ** *
398005 TCAAAAAGATAAGAAAGTA-ATTTCCAAAGTTCCTCATTTAGAATTTTCAGAAAATGAAATTCTT
640 TCAAAAAGATGAGAAAG-AGATTTCCAAAGTTTCTCATTTATTATTTTCAGAAAATGAAATTTTT
*
398069 GAAAAGCA
704 GAAAAGTA
* * * *
398077 AGAAAGTGATTTCCAAAGTTTCATACTTAATAAGTCCTTCGGGGCATCAGTAAGTCTTTCAAGCA
1 AGAAAGTGATTTCCAAAGTTTCTTACTTAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCA
* * * * *
398142 TGATGATTAAATCCTTCGAGTTATTTGTCAGGCTTGCGAGCAAGATGATAAGTCAATCATG-CTA
66 TGATGATTAAATCCTTCGAGTCATTTGTAAGGCTTTCGAGCAAGATGATAAGTC-TTCATGACCA
* * * * *
398206 TCCGTAAGACCTTTGGGTAGGATGATTTCACATGAACTTTAAAAAAAATGAGAAAGTGATTTCCA
130 TCCATAAGACCTTCGGGTAAGATGTTTTCACATG-A-TTTCAAAAAAATGAGAAAGTGATTTCCA
* * * *
398271 AAGTTTCTCATTTAGTGTTTTTACAAAATGAAATTTTTGAAAAGTAAGAAAACAATTTCCAAAGT
193 AAGTTTCTCATTTAGTATTTTCAAAAAATGAAATTCTTGAAAAGTAAGAAAACAATTTCCAAAGT
* * * *
398336 TTCTTACTTAGTAAG-CCATT-ATCAGTACGTCTTTCAAGCATGATGATTAAATCCTTCCG-GTC
258 TTCATACTTAGTAAGTCCATTGATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTTCGAGTC
* * * * * *
398398 ATCTGTAAGTCTTTCAAGCAAGATGATATGTCCTTCGTTCCATCCATAAGACTTTCATGCAGGAT
323 ATCTGTAAGGCTTTCGAGCAAGATGATAAGTCATTCGTGCCATCCATAAGACTTTCAGGCAGGAT
* ** ** *
398463 GTTTTCACGTGATTTTCAAAAAGATGAGAAAACGAACTCCAAAGTTTCTAATTTAGTATTTTCAG
388 GTTTTCACGTGATTTT-AAAAAAATGAGAAAGTGATTTCCAAAGTTTCTCATTTAGTATTTTCAG
* *
398528 AAAATAAAATTTTTGAAAAGTAAGAAAGTGGTTTCCAAAGTTTCTTACTTAGTAAGTCCTTCGGG
452 AAAATAAAATTTTTGAAAAGTAAGAAAGCGATTTCCAAAGTTTCTTACTTAGTAAGTCCTT-GGG
* * * * * ** *
398593 CCATCAGCAAGTCTTTTGGGCATGATGATTAAATCCTTCGGGTCATCTGTCAGGCTTTTGAGTAA
516 CCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTGTAAGTCTTTCAAGCAA
** * * *
398658 GATGATAAGTCCTTCAGGCCATCTGTAAGACCATCAGGTAGGATGTTTTCACATGAATTT-AAAA
581 GATGATAAGTCCTTCAATCCATCTGTAAGACCTTCAGGCAGGATGTTTTCACATGATTTTCAAAA
* * * *
398722 AAATGAGAAAGCGATTTCCAAAGTTTCTCATTTATTGTTTTCAGAAAATGAAATTTTTGAAATGT
646 AGATGAGAAAGAGATTTCCAAAGTTTCTCATTTATTATTTTCAGAAAATGAAATTTTTGAAAAGT
398787 A
711 A
*
398788 AGAAAGTGATTTCCAAAGTTTCTTACTTAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTTGAGCA
1 AGAAAGTGATTTCCAAAGTTTCTTACTTAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCA
* * * * *
398853 TGATGATTAAATACGTCGTGTCATCTGTAAGTCTTTCGAGCAAGATGATAAGTCCTTC--GAGCC
66 TGATGATTAAATCCTTCGAGTCATTTGTAAGGCTTTCGAGCAAGATGATAAGT-CTTCATGA-CC
* ** * *
398916 ATCCATAAGACCTTCGGGCAAGATGTTTTCATGTGGTTTTCAAAAAGATGAGAAA--G--TTCCA
129 ATCCATAAGACCTTCGGGTAAGATGTTTTCACAT-GATTTCAAAAAAATGAGAAAGTGATTTCCA
** * *
398977 AA-TATTCTCATTTAGTATTTTCTTAAAATGAAATTCTTGAAAAATAAGAAAGA-GATTTCCAAA
193 AAGT-TTCTCATTTAGTATTTTCAAAAAATGAAATTCTTGAAAAGTAAGAAA-ACAATTTCCAAA
399040 GTTTCATACTTA-TAAGT-CATTCGGGGCATCAGTAAGTCTTTCGAGCATGATGATTAAAT-CTT
256 GTTTCATACTTAGTAAGTCCATT----G-ATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTT
* * * *
399102 TCGAGTCATCTGTTAGGCTTTTGAGCAAGATGATAAGTCATTCAG-GCCATCCGTAAGACCTTC-
316 TCGAGTCATCTGTAAGGCTTTCGAGCAAGATGATAAGTCATTC-GTGCCATCCATAAGACTTTCA
* * * * *
399165 GAGTAGGATGTTTTCACATGAACTTTAAAAAAACTGAGAAAGTGATTTTCAAAGTTTCTCATTCA
380 G-GCAGGATGTTTTCACGTG-ATTTTAAAAAAA-TGAGAAAGTGATTTCCAAAGTTTCTCATTTA
* * *
399230 GTGTTTTTAG-----AAAA----TGCAAAGTAAGAAAGCGATTTCCAAAGTTTCTTACTTAGTAA
442 GTATTTTCAGAAAATAAAATTTTTGAAAAGTAAGAAAGCGATTTCCAAAGTTTCTTACTTAGTAA
* *
399286 GTCATTTGGGCCATCAGTAAGTCTTTCGAGTATGATGATTAAATCCTTCGGGTCATCTGTAAGTC
507 GTC-CTTGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTGTAAGTC
399351 TTTCAAGCAAGATGATAAGTCCTTTTGGCAATCCATAAGACCTTCGGGCAATCCATAAGACCTTC
571 TTTCAAGCAAGATGATAAGTCC--TT--CAATCCAT-----C-T---G-------TAAGACCTTC
* *
399416 GGGCAAGATGTTTTCACATGATTTTCAAAAAGATGAGAAAGAGATTTCCAAAGTTTCTCATTTAT
616 AGGCAGGATGTTTTCACATGATTTTCAAAAAGATGAGAAAGAGATTTCCAAAGTTTCTCATTTAT
*
399481 TATTTTCAAAAAATGAAATTTTTGAAAAGTA
681 TATTTTCAGAAAATGAAATTTTTGAAAAGTA
* * *
399512 AGAAAGTGGTTTCCAAAGTTTCTTAC----TAAGTCCTTCGGGCCATTAGTAAGTCTTTCTAGCA
1 AGAAAGTGATTTCCAAAGTTTCTTACTTAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCA
* * * * * * *
399573 TGATGATTAAATTCTTCGGGTCATATCTCAGGATTTCAAGCAAGATGATAAGTCCTT--TGGACC
66 TGATGATTAAATCCTTCGAGTCATTTGTAAGGCTTTCGAGCAAGATGATAAGT-CTTCAT-GACC
* * * * *
399636 ACCCGTACGACCTTCGGGTAGGATGTTTTCACATGAATTTTAAAAAAATGAGAAAGTGATTTCCA
129 ATCCATAAGACCTTCGGGTAAGATGTTTTCACATG-ATTTCAAAAAAATGAGAAAGTGATTTCCA
* * * * * *
399701 AAGATTCTCATTTAGTGTTTTCAAAAAATGAAATTTTTGAAAACTAAGAAAGCAATTTCCAAATT
193 AAGTTTCTCATTTAGTATTTTCAAAAAATGAAATTCTTGAAAAGTAAGAAAACAATTTCCAAAGT
* * ** * * *
399766 TTCTTACTTAGTAAGTCCTTTGGGCCATCAGTAAACCTTTTGAGTATGATGATTGAATCCTTT-G
258 TTCATACTTAGTAAGTCCATT--G--ATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTTCG
* * * * * * * * **
399830 GGTTATCTCTCAA-TCTTTCGAGCAAGATGATATGTCCTTCGGGCCATCTATAAGACTTTTGGGC
319 AGTCATCTGT-AAGGCTTTCGAGCAAGATGATAAGTCATTCGTGCCATCCATAAGACTTTCAGGC
* *
399894 AGGATGTTTTCACGTGATTTTCAAAAAAATGAGAAAGTGATTTCCAAAGTTTTTCAGTTAGTATT
383 AGGATGTTTTCACGTGATTTT-AAAAAAATGAGAAAGTGATTTCCAAAGTTTCTCATTTAGTATT
* * *
399959 TTCAGAGAAT-AAATTTTTAAAAATTAAGAAAGCGATTTCCAAAGTTTC
447 TTCAGAAAATAAAATTTTTGAAAAGTAAGAAAGCGATTTCCAAAGTTTC
400007 ATACCCAGTA
Statistics
Matches: 1595, Mismatches: 252, Indels: 145
0.80 0.13 0.07
Matches are distributed among these distances:
703 113 0.07
704 2 0.00
705 15 0.01
706 165 0.10
707 101 0.06
708 2 0.00
709 1 0.00
710 21 0.01
711 399 0.25
712 176 0.11
713 97 0.06
714 1 0.00
716 1 0.00
719 1 0.00
720 125 0.08
721 2 0.00
722 1 0.00
723 30 0.02
724 201 0.13
725 101 0.06
726 9 0.01
728 3 0.00
732 28 0.02
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.34
Consensus pattern (711 bp):
AGAAAGTGATTTCCAAAGTTTCTTACTTAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCA
TGATGATTAAATCCTTCGAGTCATTTGTAAGGCTTTCGAGCAAGATGATAAGTCTTCATGACCAT
CCATAAGACCTTCGGGTAAGATGTTTTCACATGATTTCAAAAAAATGAGAAAGTGATTTCCAAAG
TTTCTCATTTAGTATTTTCAAAAAATGAAATTCTTGAAAAGTAAGAAAACAATTTCCAAAGTTTC
ATACTTAGTAAGTCCATTGATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTTCGAGTCATC
TGTAAGGCTTTCGAGCAAGATGATAAGTCATTCGTGCCATCCATAAGACTTTCAGGCAGGATGTT
TTCACGTGATTTTAAAAAAATGAGAAAGTGATTTCCAAAGTTTCTCATTTAGTATTTTCAGAAAA
TAAAATTTTTGAAAAGTAAGAAAGCGATTTCCAAAGTTTCTTACTTAGTAAGTCCTTGGGCCATC
AGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTGTAAGTCTTTCAAGCAAGATGA
TAAGTCCTTCAATCCATCTGTAAGACCTTCAGGCAGGATGTTTTCACATGATTTTCAAAAAGATG
AGAAAGAGATTTCCAAAGTTTCTCATTTATTATTTTCAGAAAATGAAATTTTTGAAAAGTA
Found at i:399394 original size:20 final size:20
Alignment explanation
Indices: 399377--399421 Score: 90
Period size: 20 Copynumber: 2.2 Consensus size: 20
399367 AAGTCCTTTT
399377 GGCAATCCATAAGACCTTCG
1 GGCAATCCATAAGACCTTCG
399397 GGCAATCCATAAGACCTTCG
1 GGCAATCCATAAGACCTTCG
399417 GGCAA
1 GGCAA
399422 GATGTTTTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.31, C:0.29, G:0.22, T:0.18
Consensus pattern (20 bp):
GGCAATCCATAAGACCTTCG
Found at i:399937 original size:239 final size:238
Alignment explanation
Indices: 397366--400006 Score: 2680
Period size: 239 Copynumber: 11.1 Consensus size: 238
397356 TAAAAAAATG
* * * * * *
397366 AGAAAGTGATTTTCAAAGTTTCTTACTTAGTAAGTCCTTCAGGCCATTAATAAGTCTTTCGAGAA
1 AGAAAGCGATTTCCAAAGTTTCTTACTTAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCA
** * * *
397431 TGATGATTAAATCCTTCAAGTCATTTGTAAGTCTTTCGATCAAGATGATAAGT-CTTCGGGACAT
66 TGATGATTAAATCCTTCGGGTCATCTGTAA-TCTTTCGAGCAAGATGATAAGTCCTTCGGGCCAT
* * * * * * *
397495 CCATAAGACCTTTGGGTAAGATGTTCTCACGTGGTATTCAAAAAGATGAGAAAGTGATTTCCAAA
130 CCATAAGACCTTCGGGTAGGATGTTTTCACATGATTTTCAAAAAAATGAGAAAGTGATTTCCAAA
* * *
397560 GTTTCTCATTTAGAATTTTCAGAAAATGAAATTCTTGAAAAGCA
195 GTTTCTCATTTAGTATTTTCAGAAAATGAAATTTTTGAAAAGTA
* * * *
397604 AGAAAGTGATTTCCAAAGTTTCATACTTAATAAGTCCTTCGGGGCATCAGTAAGTCTTTCGAGCA
1 AGAAAGCGATTTCCAAAGTTTCTTACTTAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCA
* * * * ** * ** ** *
397669 TGATGATTAAATCCTTTGAGTTATTTGTCAGGCTTGCGAGCAAGATGATAAGTCAATCATGCTAT
66 TGATGATTAAATCCTTCGGGTCATCTGT-AATCTTTCGAGCAAGATGATAAGTCCTTCGGGCCAT
* * * * **
397734 CCGTAAGACCTTTGGGTAGGATGATTTCACATTAACTTTT-AAAAAAATGAGAAAGTGATTTTTA
130 CCATAAGACCTTCGGGTAGGATGTTTTCACA-TGA-TTTTCAAAAAAATGAGAAAGTGATTTCCA
* *
397798 AAGTTTCTCATTTAGTGTTTTTAGAAAATGAAATTTTTGAAAAGTA
193 AAGTTTCTCATTTAGTATTTTCAGAAAATGAAATTTTTGAAAAGTA
* * *
397844 AAAAAGCAATTTCCAAAGTTTCTTACTTAGTAAG-CCATT------ATCAGTACGTCTTTCGAGC
1 AGAAAGCGATTTCCAAAGTTTCTTACTTAGTAAGTCC-TTCGGGCCATCAGTAAGTCTTTCGAGC
* ***
397902 ATGATGATTAAATCCTTCGGGTCATCTGTAAGTCTTTCAAGCAAGATGATATA-TCCTTCATTCC
65 ATGATGATTAAATCCTTCGGGTCATCTGTAA-TCTTTCGAGCAAGATGATA-AGTCCTTCGGGCC
* **** * * * *
397966 ATCCATAAGACTTTCATACAGGATGTTTTCACGTGATTTTCAAAAAGATAAGAAAGTAATTTCCA
128 ATCCATAAGACCTTCGGGTAGGATGTTTTCACATGATTTTCAAAAAAATGAGAAAGTGATTTCCA
* * * *
398031 AAGTTCCTCATTTAGAATTTTCAGAAAATGAAATTCTTGAAAAGCA
193 AAGTTTCTCATTTAGTATTTTCAGAAAATGAAATTTTTGAAAAGTA
* * * * *
398077 AGAAAGTGATTTCCAAAGTTTCATACTTAATAAGTCCTTCGGGGCATCAGTAAGTCTTTCAAGCA
1 AGAAAGCGATTTCCAAAGTTTCTTACTTAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCA
* * * ** * ** ** *
398142 TGATGATTAAATCCTTCGAGTTATTTGTCAGGCTTGCGAGCAAGATGATAAGTCAATCATGCTAT
66 TGATGATTAAATCCTTCGGGTCATCTGT-AATCTTTCGAGCAAGATGATAAGTCCTTCGGGCCAT
* * * * *
398207 CCGTAAGACCTTTGGGTAGGATGATTTCACATGAACTTTAAAAAAAATGAGAAAGTGATTTCCAA
130 CCATAAGACCTTCGGGTAGGATGTTTTCACATG-ATTTTCAAAAAAATGAGAAAGTGATTTCCAA
* * *
398272 AGTTTCTCATTTAGTGTTTTTACAAAATGAAATTTTTGAAAAGTA
194 AGTTTCTCATTTAGTATTTTCAGAAAATGAAATTTTTGAAAAGTA
* * * *
398317 AGAAAACAATTTCCAAAGTTTCTTACTTAGTAAG-CCATT------ATCAGTACGTCTTTCAAGC
1 AGAAAGCGATTTCCAAAGTTTCTTACTTAGTAAGTCC-TTCGGGCCATCAGTAAGTCTTTCGAGC
* * * **
398375 ATGATGATTAAATCCTTCCGGTCATCTGTAAGTCTTTCAAGCAAGATGATATGTCCTTCGTTCCA
65 ATGATGATTAAATCCTTCGGGTCATCTGTAA-TCTTTCGAGCAAGATGATAAGTCCTTCGGGCCA
* ** * * * ** **
398440 TCCATAAGACTTTCATGCAGGATGTTTTCACGTGATTTTCAAAAAGATGAGAAAACGAACTCCAA
129 TCCATAAGACCTTCGGGTAGGATGTTTTCACATGATTTTCAAAAAAATGAGAAAGTGATTTCCAA
* *
398505 AGTTTCTAATTTAGTATTTTCAGAAAATAAAATTTTTGAAAAGTA
194 AGTTTCTCATTTAGTATTTTCAGAAAATGAAATTTTTGAAAAGTA
* * * * *
398550 AGAAAGTGGTTTCCAAAGTTTCTTACTTAGTAAGTCCTTCGGGCCATCAGCAAGTCTTTTGGGCA
1 AGAAAGCGATTTCCAAAGTTTCTTACTTAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCA
** * * *
398615 TGATGATTAAATCCTTCGGGTCATCTGTCAGGCTTTTGAGTAAGATGATAAGTCCTTCAGGCCAT
66 TGATGATTAAATCCTTCGGGTCATCTGT-AATCTTTCGAGCAAGATGATAAGTCCTTCGGGCCAT
** * * * *
398680 CTGTAAGACCATCAGGTAGGATGTTTTCACATGAATTT-AAAAAAATGAGAAAGCGATTTCCAAA
130 CCATAAGACCTTCGGGTAGGATGTTTTCACATGATTTTCAAAAAAATGAGAAAGTGATTTCCAAA
* * *
398744 GTTTCTCATTTATTGTTTTCAGAAAATGAAATTTTTGAAATGTA
195 GTTTCTCATTTAGTATTTTCAGAAAATGAAATTTTTGAAAAGTA
* *
398788 AGAAAGTGATTTCCAAAGTTTCTTACTTAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTTGAGCA
1 AGAAAGCGATTTCCAAAGTTTCTTACTTAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCA
* * * *
398853 TGATGATTAAATACGTCGTGTCATCTGTAAGTCTTTCGAGCAAGATGATAAGTCCTTCGAGCCAT
66 TGATGATTAAATCCTTCGGGTCATCTGTAA-TCTTTCGAGCAAGATGATAAGTCCTTCGGGCCAT
* * ** * *
398918 CCATAAGACCTTCGGGCAAGATGTTTTCATGTGGTTTTCAAAAAGATGAGAAA--G--TTCCAAA
130 CCATAAGACCTTCGGGTAGGATGTTTTCACATGATTTTCAAAAAAATGAGAAAGTGATTTCCAAA
** * *
398979 -TATTCTCATTTAGTATTTTCTTAAAATGAAATTCTTGAAAAATA
195 GT-TTCTCATTTAGTATTTTCAGAAAATGAAATTTTTGAAAAGTA
* * * *
399023 AGAAAGAGATTTCCAAAGTTTCATACTTA-TAAGTCATTCGGGGCATCAGTAAGTCTTTCGAGCA
1 AGAAAGCGATTTCCAAAGTTTCTTACTTAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCA
* * ** * * *
399087 TGATGATTAAATCTTTCGAGTCATCTGTTAGGCTTTTGAGCAAGATGATAAGTCATTCAGGCCAT
66 TGATGATTAAATCCTTCGGGTCATCTG-TAATCTTTCGAGCAAGATGATAAGTCCTTCGGGCCAT
* * * *
399152 CCGTAAGACCTTCGAGTAGGATGTTTTCACATGAACTTT-AAAAAAACTGAGAAAGTGATTTTCA
130 CCATAAGACCTTCGGGTAGGATGTTTTCACATG-ATTTTCAAAAAAA-TGAGAAAGTGATTTCCA
* * * *
399216 AAGTTTCTCATTCAGTGTTTTTAG---A--AAA----TGCAAAGTA
193 AAGTTTCTCATTTAGTATTTTCAGAAAATGAAATTTTTGAAAAGTA
* * *
399253 AGAAAGCGATTTCCAAAGTTTCTTACTTAGTAAGTCATTTGGGCCATCAGTAAGTCTTTCGAGTA
1 AGAAAGCGATTTCCAAAGTTTCTTACTTAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCA
*
399318 TGATGATTAAATCCTTCGGGTCATCTGTAAGTCTTTCAAGCAAGATGATAAGTCCTTTTGGCAAT
66 TGATGATTAAATCCTTCGGGTCATCTGTAA-TCTTTCGAGCAAGATGATAA---------G----
* * * *
399383 CCATAAGACCTTCGGGCAATCCATAAGACCTTCGGGCAAGATGTTTTCACATGATTTTCAAAAAG
117 ---T----CCTTCGGGCCATCCATAAGACCTTCGGGTAGGATGTTTTCACATGATTTTCAAAAAA
* * *
399448 ATGAGAAAGAGATTTCCAAAGTTTCTCATTTATTATTTTCAAAAAATGAAATTTTTGAAAAGTA
175 ATGAGAAAGTGATTTCCAAAGTTTCTCATTTAGTATTTTCAGAAAATGAAATTTTTGAAAAGTA
* * * *
399512 AGAAAGTGGTTTCCAAAGTTTCTTAC----TAAGTCCTTCGGGCCATTAGTAAGTCTTTCTAGCA
1 AGAAAGCGATTTCCAAAGTTTCTTACTTAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCA
* * * *** * * * *
399573 TGATGATTAAATTCTTCGGGTCATATCTCAGGATTTCAAGCAAGATGATAAGTCCTTTGGACCAC
66 TGATGATTAAATCCTTCGGGTCATCTGT-AATCTTTCGAGCAAGATGATAAGTCCTTCGGGCCAT
* *
399638 CCGTACGACCTTCGGGTAGGATGTTTTCACATGAATTTT-AAAAAAATGAGAAAGTGATTTCCAA
130 CCATAAGACCTTCGGGTAGGATGTTTTCACATG-ATTTTCAAAAAAATGAGAAAGTGATTTCCAA
* * * *
399702 AGATTCTCATTTAGTGTTTTCAAAAAATGAAATTTTTGAAAACTA
194 AGTTTCTCATTTAGTATTTTCAGAAAATGAAATTTTTGAAAAGTA
* * * ** * *
399747 AGAAAGCAATTTCCAAATTTTCTTACTTAGTAAGTCCTTTGGGCCATCAGTAAACCTTTTGAGTA
1 AGAAAGCGATTTCCAAAGTTTCTTACTTAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCA
* * * * *
399812 TGATGATTGAATCCTTTGGGTTATCTCTCAATCTTTCGAGCAAGATGATATGTCCTTCGGGCCAT
66 TGATGATTAAATCCTTCGGGTCATCTGT-AATCTTTCGAGCAAGATGATAAGTCCTTCGGGCCAT
* * * * *
399877 CTATAAGACTTTTGGGCAGGATGTTTTCACGTGATTTTCAAAAAAATGAGAAAGTGATTTCCAAA
130 CCATAAGACCTTCGGGTAGGATGTTTTCACATGATTTTCAAAAAAATGAGAAAGTGATTTCCAAA
* * * * *
399942 GTTTTTCAGTTAGTATTTTCAGAGAAT-AAATTTTTAAAAATTA
195 GTTTCTCATTTAGTATTTTCAGAAAATGAAATTTTTGAAAAGTA
399985 AGAAAGCGATTTCCAAAGTTTC
1 AGAAAGCGATTTCCAAAGTTTC
400007 ATACCCAGTA
Statistics
Matches: 1976, Mismatches: 349, Indels: 156
0.80 0.14 0.06
Matches are distributed among these distances:
230 36 0.02
231 74 0.04
232 4 0.00
233 190 0.10
234 308 0.16
235 205 0.10
236 6 0.00
237 3 0.00
238 346 0.18
239 414 0.21
240 193 0.10
241 3 0.00
246 1 0.00
247 1 0.00
250 38 0.02
251 44 0.02
253 1 0.00
255 76 0.04
256 1 0.00
259 32 0.02
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.34
Consensus pattern (238 bp):
AGAAAGCGATTTCCAAAGTTTCTTACTTAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCA
TGATGATTAAATCCTTCGGGTCATCTGTAATCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATC
CATAAGACCTTCGGGTAGGATGTTTTCACATGATTTTCAAAAAAATGAGAAAGTGATTTCCAAAG
TTTCTCATTTAGTATTTTCAGAAAATGAAATTTTTGAAAAGTA
Found at i:404342 original size:59 final size:59
Alignment explanation
Indices: 404268--404603 Score: 530
Period size: 59 Copynumber: 5.7 Consensus size: 59
404258 TTATGTAGGG
* * *
404268 AATTCATATAATTAGTATGATTTCCTTACCATTTTTGCACACAAAGTGCCCGATCTGGA
1 AATTCATACAATTAGTATGATTTCCTTACCATTTTAGCACACAAAGTGCCCTATCTGGA
* *
404327 AATTCATACACTTAGTATGATTTCCTTACCATTTTAGCGCACAAAGTGCCCTATCTAGG-
1 AATTCATACAATTAGTATGATTTCCTTACCATTTTAGCACACAAAGTGCCCTATCT-GGA
* *
404386 AATTCATACAATTAGTATGATTTCCTTACAATTTTAGCACACAAAGAGCCCTATCTGGA
1 AATTCATACAATTAGTATGATTTCCTTACCATTTTAGCACACAAAGTGCCCTATCTGGA
* * *
404445 AATCCATACACTTAGTATGATTTCATTACCATTTTAGCACACAAAGTGCCCTATCTGGA
1 AATTCATACAATTAGTATGATTTCCTTACCATTTTAGCACACAAAGTGCCCTATCTGGA
* *
404504 AATTCATACAATTATTATGATTTCCTTACCATTTTAGTACACAAAGTGCCCTATCTGGA
1 AATTCATACAATTAGTATGATTTCCTTACCATTTTAGCACACAAAGTGCCCTATCTGGA
* *
404563 AATCCATACACTTAGTATGATTTCCTTACCATTTTAGCACA
1 AATTCATACAATTAGTATGATTTCCTTACCATTTTAGCACA
404604 AAAATTGTCC
Statistics
Matches: 252, Mismatches: 23, Indels: 4
0.90 0.08 0.01
Matches are distributed among these distances:
58 2 0.01
59 248 0.98
60 2 0.01
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.35
Consensus pattern (59 bp):
AATTCATACAATTAGTATGATTTCCTTACCATTTTAGCACACAAAGTGCCCTATCTGGA
Found at i:404951 original size:18 final size:19
Alignment explanation
Indices: 404928--404964 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
404918 AGATTTTTGG
404928 CCCTT-CAGTATCGATACC
1 CCCTTCCAGTATCGATACC
404946 CCCTTCCAGTATCGATACC
1 CCCTTCCAGTATCGATACC
404965 AAAATTAGCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.22, C:0.41, G:0.11, T:0.27
Consensus pattern (19 bp):
CCCTTCCAGTATCGATACC
Found at i:405060 original size:94 final size:95
Alignment explanation
Indices: 404939--405113 Score: 280
Period size: 94 Copynumber: 1.9 Consensus size: 95
404929 CCTTCAGTAT
* *
404939 CGATACCCCCTTCCAGTATCGATACCAAAATTAGCTTCGATCTAACCTGGTATCGATACCCTCAC
1 CGATACCCCCTACCAGTATCGATACCAAAATTAGCTTCGATATAACCTGGTATCGATACCCTCAC
*
405004 CATGGTATCGATACTACTATGCTATGGTAC
66 AATGGTATCGATACTACTATGCTATGGTAC
* ** *
405034 CGATACCCCC-ACCAGTATCGATACCAAAATTAGGTTCGATATTTCCTGGTATCGATACCCTTAC
1 CGATACCCCCTACCAGTATCGATACCAAAATTAGCTTCGATATAACCTGGTATCGATACCCTCAC
405098 AATGGTATCGATACTA
66 AATGGTATCGATACTA
405114 ATCGTTAGTA
Statistics
Matches: 73, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
94 63 0.86
95 10 0.14
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.29
Consensus pattern (95 bp):
CGATACCCCCTACCAGTATCGATACCAAAATTAGCTTCGATATAACCTGGTATCGATACCCTCAC
AATGGTATCGATACTACTATGCTATGGTAC
Found at i:411254 original size:59 final size:59
Alignment explanation
Indices: 411182--411402 Score: 352
Period size: 59 Copynumber: 3.7 Consensus size: 59
411172 ATAGGGAATT
* *
411182 CATACAATTAGTATGATTTCCTTACCATTTTAGCACACAAAGTGTCTTATTTGGAAATC
1 CATACAATTAGTATGATTTCCTTACCATTTTAGCACACAAAGTGCCCTATTTGGAAATC
* * *
411241 CATACACTTAGTATCATTTCCTTACCATTTTAGCACACAAAGTGCCCTATTTGGAAATT
1 CATACAATTAGTATGATTTCCTTACCATTTTAGCACACAAAGTGCCCTATTTGGAAATC
* * *
411300 CATACAATTAGTATGATTTCCTTACCATTTTAGTACACAAAGTGCCCCATCTGGAAATC
1 CATACAATTAGTATGATTTCCTTACCATTTTAGCACACAAAGTGCCCTATTTGGAAATC
* *
411359 CATACACTTAGTATGATTTCCTTACCATTTTAGCACAAAAAGTG
1 CATACAATTAGTATGATTTCCTTACCATTTTAGCACACAAAGTG
411403 TCCTTTGGTA
Statistics
Matches: 148, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
59 148 1.00
ACGTcount: A:0.32, C:0.22, G:0.11, T:0.35
Consensus pattern (59 bp):
CATACAATTAGTATGATTTCCTTACCATTTTAGCACACAAAGTGCCCTATTTGGAAATC
Found at i:411768 original size:22 final size:21
Alignment explanation
Indices: 411727--411783 Score: 89
Period size: 22 Copynumber: 2.7 Consensus size: 21
411717 TGACCCTTCA
*
411727 GTATCGATAC-CCTTACTATG
1 GTATCGATACTCCCTACTATG
411747 GTATCGATACTACCCTACTATG
1 GTATCGATACT-CCCTACTATG
411769 GTATCGATACTCCCT
1 GTATCGATACTCCCT
411784 TCCAGTATCG
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
20 10 0.29
21 4 0.12
22 20 0.59
ACGTcount: A:0.25, C:0.28, G:0.14, T:0.33
Consensus pattern (21 bp):
GTATCGATACTCCCTACTATG
Found at i:411926 original size:94 final size:95
Alignment explanation
Indices: 411765--411966 Score: 248
Period size: 94 Copynumber: 2.1 Consensus size: 95
411755 ACTACCCTAC
* * * **
411765 TATGGTATCGATACTCCCTTCCAGTATCGATACCAAAATTAGCTTCAATGCAACCTGGTATCGAT
1 TATGGTACCGATACCCCCATCCAGTATCGATACCAAAATTAGCTTCAATGCAACCTGGTATAAAT
411830 ACCCTCACCACGGTATCAATACTACTAT-GT
66 ACCCTCACCACGGTATCAATACTAC-ATCGT
* ***
411860 TATGGTACCGATACCCCCAT-CAGTATCGATACCAAAATTAGGTTCAATGTTTCCTGGTATAAAT
1 TATGGTACCGATACCCCCATCCAGTATCGATACCAAAATTAGCTTCAATGCAACCTGGTATAAAT
* * **
411924 ACCCTTACCATGGTATTGATACTACATCGT
66 ACCCTCACCACGGTATCAATACTACATCGT
*
411954 T-CGGTACCGATAC
1 TATGGTACCGATAC
411967 TGATTGAATC
Statistics
Matches: 92, Mismatches: 14, Indels: 4
0.84 0.13 0.04
Matches are distributed among these distances:
93 13 0.14
94 62 0.67
95 17 0.18
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (95 bp):
TATGGTACCGATACCCCCATCCAGTATCGATACCAAAATTAGCTTCAATGCAACCTGGTATAAAT
ACCCTCACCACGGTATCAATACTACATCGT
Found at i:415816 original size:21 final size:22
Alignment explanation
Indices: 415787--415827 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
415777 TTAGGTAATG
*
415787 AAATCAACATTTTCAGTAGAAA
1 AAATCAACATTTTAAGTAGAAA
415809 AAAT-AACATTTTAAGTAGA
1 AAATCAACATTTTAAGTAGA
415828 GTTCTATCAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.51, C:0.10, G:0.10, T:0.29
Consensus pattern (22 bp):
AAATCAACATTTTAAGTAGAAA
Found at i:420781 original size:6 final size:6
Alignment explanation
Indices: 420770--420968 Score: 198
Period size: 6 Copynumber: 33.7 Consensus size: 6
420760 GGTTCCCTTT
420770 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
*
420818 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC -TTTAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
* * * * *
420865 --ATAC AT-TAC ATGTTGTC ATGT-T A-ATAC ATGTAC ATGATGTAC ATATAC
1 ATATAC ATATAC AT-AT-AC ATATAC ATATAC ATATAC AT-A--TAC ATATAC
* * * *
420913 ATATAC CTATAC --ATAC ATATAC ATATAC ATGTAC ATGTAC ATGTAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
*
420959 ATGTAC ATAT
1 ATATAC ATAT
420969 CTTTCTATTT
Statistics
Matches: 169, Mismatches: 12, Indels: 24
0.82 0.06 0.12
Matches are distributed among these distances:
4 8 0.05
5 11 0.07
6 139 0.82
7 2 0.01
8 4 0.02
9 5 0.03
ACGTcount: A:0.43, C:0.17, G:0.05, T:0.35
Consensus pattern (6 bp):
ATATAC
Found at i:420930 original size:16 final size:16
Alignment explanation
Indices: 420909--420942 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
420899 TGATGTACAT
*
420909 ATACATATACCTATAC
1 ATACATATACATATAC
420925 ATACATATACATATAC
1 ATACATATACATATAC
420941 AT
1 AT
420943 GTACATGTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.47, C:0.21, G:0.00, T:0.32
Consensus pattern (16 bp):
ATACATATACATATAC
Found at i:430430 original size:75 final size:73
Alignment explanation
Indices: 430333--430518 Score: 169
Period size: 75 Copynumber: 2.5 Consensus size: 73
430323 AGGATAATGT
* *** * *
430333 TATATTATTTAAGGATTTATATTCAATTAAAATGTGAATATGTTATTACAT-ATTTATATTAAAT
1 TATATTATTTAA-AATTTATATTCAATT-AAATACAAATATATTA-TACATAATCTATATTAAAT
* *
430397 TGAAATAGGAA
63 TAAAATACGAA
* ** * *
430408 TATATTATTTATAAATTCATATTTGATTAAATACAAATATATTATATATGAATCTATATTCAATT
1 TATATTATTTA-AAATTTATATTCAATTAAATACAAATATATTATACAT-AATCTATATTAAATT
430473 AAAATACGAA
64 AAAATACGAA
*
430483 TATATTA-TTACAAATTTATATTCAATTGGAATACAA
1 TATATTATTTA-AAATTTATATTCAATT-AAATACAA
430519 TATTGTAGTT
Statistics
Matches: 89, Mismatches: 18, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
73 4 0.04
74 28 0.31
75 56 0.63
76 1 0.01
ACGTcount: A:0.45, C:0.05, G:0.07, T:0.43
Consensus pattern (73 bp):
TATATTATTTAAAATTTATATTCAATTAAATACAAATATATTATACATAATCTATATTAAATTAA
AATACGAA
Found at i:430516 original size:37 final size:37
Alignment explanation
Indices: 430347--430509 Score: 166
Period size: 37 Copynumber: 4.4 Consensus size: 37
430337 TTATTTAAGG
** * *
430347 ATTTATATTCAATTAAAATGTGAATATGTTATTACAT
1 ATTTATATTCAATTAAAATACGAATATATTATTACAA
* * * *
430384 ATTTATATTAAATTGAAATAGGAATATATTATTTATAA
1 ATTTATATTCAATTAAAATACGAATATATTA-TTACAA
* ** * **
430422 ATTCATATTTGATT-AAATACAAATATATTATATATGA
1 ATTTATATTCAATTAAAATACGAATATATTAT-TACAA
*
430459 ATCTATATTCAATTAAAATACGAATATATTATTACAA
1 ATTTATATTCAATTAAAATACGAATATATTATTACAA
430496 ATTTATATTCAATT
1 ATTTATATTCAATT
430510 GGAATACAAT
Statistics
Matches: 102, Mismatches: 21, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
36 1 0.01
37 70 0.69
38 31 0.30
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.44
Consensus pattern (37 bp):
ATTTATATTCAATTAAAATACGAATATATTATTACAA
Found at i:433363 original size:205 final size:205
Alignment explanation
Indices: 433011--433422 Score: 824
Period size: 205 Copynumber: 2.0 Consensus size: 205
433001 CATTGATGGT
433011 TTTGATAATTGAATTTTCTTTAAATATGACATATCTATTTGAATATTTTGAATCAAAAAGATATT
1 TTTGATAATTGAATTTTCTTTAAATATGACATATCTATTTGAATATTTTGAATCAAAAAGATATT
433076 GTGTGGATTCTTTAAAATTCGAATATTAATAGGATAATGTTATATTATTTAAGAATTTATATTCA
66 GTGTGGATTCTTTAAAATTCGAATATTAATAGGATAATGTTATATTATTTAAGAATTTATATTCA
433141 TTTAAAATGTGAATATGTTAGGATTTTTTATAACTCCGTAAAAAGACTATATTTAGGGCATTTGC
131 TTTAAAATGTGAATATGTTAGGATTTTTTATAACTCCGTAAAAAGACTATATTTAGGGCATTTGC
433206 ACTTAAGTTA
196 ACTTAAGTTA
433216 TTTGATAATTGAATTTTCTTTAAATATGACATATCTATTTGAATATTTTGAATCAAAAAGATATT
1 TTTGATAATTGAATTTTCTTTAAATATGACATATCTATTTGAATATTTTGAATCAAAAAGATATT
433281 GTGTGGATTCTTTAAAATTCGAATATTAATAGGATAATGTTATATTATTTAAGAATTTATATTCA
66 GTGTGGATTCTTTAAAATTCGAATATTAATAGGATAATGTTATATTATTTAAGAATTTATATTCA
433346 TTTAAAATGTGAATATGTTAGGATTTTTTATAACTCCGTAAAAAGACTATATTTAGGGCATTTGC
131 TTTAAAATGTGAATATGTTAGGATTTTTTATAACTCCGTAAAAAGACTATATTTAGGGCATTTGC
433411 ACTTAAGTTA
196 ACTTAAGTTA
433421 TT
1 TT
433423 GGTTGTCTAA
Statistics
Matches: 207, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
205 207 1.00
ACGTcount: A:0.36, C:0.07, G:0.13, T:0.44
Consensus pattern (205 bp):
TTTGATAATTGAATTTTCTTTAAATATGACATATCTATTTGAATATTTTGAATCAAAAAGATATT
GTGTGGATTCTTTAAAATTCGAATATTAATAGGATAATGTTATATTATTTAAGAATTTATATTCA
TTTAAAATGTGAATATGTTAGGATTTTTTATAACTCCGTAAAAAGACTATATTTAGGGCATTTGC
ACTTAAGTTA
Found at i:437428 original size:61 final size:61
Alignment explanation
Indices: 437349--437470 Score: 156
Period size: 61 Copynumber: 2.0 Consensus size: 61
437339 GTGCAGGAAA
* * *
437349 GGTGGATACGACCTTATGTATCA-TGTCTGGATTAGCACTATGGCATAAGCTTAGTGTAGGT
1 GGTGGATACGACCTTATGTAT-ATTATCCGGATTAGCACTATGGCATAAGCTTAGTGCAGGT
* * * **
437410 GGTGGGTATGACCTTATGTGTATTATCCGGATTAGCACTATGGTGTAAGCTTAGTGCAGGT
1 GGTGGATACGACCTTATGTATATTATCCGGATTAGCACTATGGCATAAGCTTAGTGCAGGT
437471 TTAGCACTAC
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
60 1 0.02
61 51 0.98
ACGTcount: A:0.23, C:0.14, G:0.30, T:0.34
Consensus pattern (61 bp):
GGTGGATACGACCTTATGTATATTATCCGGATTAGCACTATGGCATAAGCTTAGTGCAGGT
Found at i:437570 original size:20 final size:20
Alignment explanation
Indices: 437530--437571 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
437520 TTGTATATTG
* *
437530 GGCTATTGTCTATTGTTTAT
1 GGCTATTGTCTATGGTATAT
437550 GGCTATTGTCTATGGTATAT
1 GGCTATTGTCTATGGTATAT
437570 GG
1 GG
437572 TTATGGAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.17, C:0.10, G:0.26, T:0.48
Consensus pattern (20 bp):
GGCTATTGTCTATGGTATAT
Found at i:437681 original size:31 final size:31
Alignment explanation
Indices: 437643--437704 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
437633 AGCACATTGA
*
437643 TAAAATAACCTTACGAGTTTATGGAATAATG
1 TAAAATAACCTTACGAGCTTATGGAATAATG
* *
437674 TAAAATAAGCTTACGAGCTTATGGATTAATG
1 TAAAATAACCTTACGAGCTTATGGAATAATG
437705 GTAAGTATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.40, C:0.10, G:0.18, T:0.32
Consensus pattern (31 bp):
TAAAATAACCTTACGAGCTTATGGAATAATG
Found at i:437734 original size:75 final size:76
Alignment explanation
Indices: 437597--437739 Score: 216
Period size: 75 Copynumber: 1.9 Consensus size: 76
437587 AAGTGTATTG
*
437597 GTAAAATAAACTTACGAGCTTATGGAATAAATGGTAAGCACATTGATAAAATAACCTTACGAGTT
1 GTAAAATAAACTTACGAGCTTATGGAATAAATGGTAAGCACATTGATAAAATAACCTTACGAGCT
437662 TATGGAATAAT
66 TATGGAATAAT
* * * * * *
437673 GTAAAATAAGCTTACGAGCTTATGG-ATTAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCT
1 GTAAAATAAACTTACGAGCTTATGGAATAAATGGTAAGCACATTGATAAAATAACCTTACGAGCT
437737 TAT
66 TAT
437740 TGGATTAAAT
Statistics
Matches: 60, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
75 36 0.60
76 24 0.40
ACGTcount: A:0.41, C:0.10, G:0.19, T:0.31
Consensus pattern (76 bp):
GTAAAATAAACTTACGAGCTTATGGAATAAATGGTAAGCACATTGATAAAATAACCTTACGAGCT
TATGGAATAAT
Found at i:437768 original size:46 final size:45
Alignment explanation
Indices: 437673--437815 Score: 252
Period size: 46 Copynumber: 3.2 Consensus size: 45
437663 ATGGAATAAT
437673 GTAAAATAAGCTTACGAGCTTATGGATT-AATGGTAAGTATATTG
1 GTAAAATAAGCTTACGAGCTTATGGATTAAATGGTAAGTATATTG
437717 GTAAAATAAGCTTACGAGCTTATTGGATTAAATGGTAAGTATATTG
1 GTAAAATAAGCTTACGAGCTTA-TGGATTAAATGGTAAGTATATTG
* *
437763 GTAAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTGTATTG
1 GTAAAATAAGCTTACGAGCTTATGGATTAAATGGTAAGTATATTG
437808 GTAAAATA
1 GTAAAATA
437816 TTGGATATGC
Statistics
Matches: 95, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
44 22 0.23
45 35 0.37
46 38 0.40
ACGTcount: A:0.38, C:0.06, G:0.22, T:0.33
Consensus pattern (45 bp):
GTAAAATAAGCTTACGAGCTTATGGATTAAATGGTAAGTATATTG
Found at i:440480 original size:6 final size:6
Alignment explanation
Indices: 440456--440570 Score: 76
Period size: 6 Copynumber: 18.3 Consensus size: 6
440446 TATATAATAT
* * *
440456 AAGAAA AATAAAA ACAGAAA AAGAAA AAGAATA AA-AAGA AA-AAG AATAAA
1 AAGAAA AA-GAAA A-AGAAA AAGAAA AAGAA-A AAGAA-A AAGAAA AAGAAA
* *
440506 AAGAAA AAGAAA ACGAAGA AGAAAAA AAGACAA ATAGAAA AAG-AA AAG-AA
1 AAGAAA AAGAAA AAGAA-A A-AGAAA AAGA-AA A-AGAAA AAGAAA AAGAAA
440556 AAGAAA AAGAGAA AA
1 AAGAAA AAGA-AA AA
440571 AATTGAGAGA
Statistics
Matches: 89, Mismatches: 10, Indels: 19
0.75 0.08 0.16
Matches are distributed among these distances:
5 12 0.13
6 46 0.52
7 25 0.28
8 6 0.07
ACGTcount: A:0.78, C:0.03, G:0.16, T:0.03
Consensus pattern (6 bp):
AAGAAA
Found at i:440483 original size:15 final size:15
Alignment explanation
Indices: 440473--440565 Score: 98
Period size: 15 Copynumber: 5.9 Consensus size: 15
440463 ATAAAAACAG
440473 AAAAAGAAAAAGAAT
1 AAAAAGAAAAAGAAT
440488 AAAAAGAAAAAGAAT
1 AAAAAGAAAAAGAAT
*
440503 AAAAAGAAAAAGAAA
1 AAAAAGAAAAAGAAT
*
440518 ACGAAGAAGAAAAA-AAG
1 A--AA-AAGAAAAAGAAT
*
440535 ACAAATAGAAAAAGAAA
1 A-AAA-AGAAAAAGAAT
440552 AGAAAAGAAAAAGA
1 A-AAAAGAAAAAGA
440566 GAAAAAATTG
Statistics
Matches: 68, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
15 31 0.46
16 18 0.26
17 11 0.16
18 8 0.12
ACGTcount: A:0.78, C:0.02, G:0.16, T:0.03
Consensus pattern (15 bp):
AAAAAGAAAAAGAAT
Found at i:440509 original size:30 final size:31
Alignment explanation
Indices: 440471--440571 Score: 127
Period size: 30 Copynumber: 3.2 Consensus size: 31
440461 AAATAAAAAC
*
440471 AGAAAAAGAAAAAGAATA-AAAAGAAAAAGA
1 AGAAAAAGAAAAAGAAAAGAAAAGAAAAAGA
*
440501 ATAAAAAGAAAAAGAAAACGAAGAAGAAAAA-A
1 AGAAAAAGAAAAAGAAAA-GAA-AAGAAAAAGA
440533 AGACAAATAGAAAAAGAAAAGAAAAGAAAAAG-
1 AGA-AAA-AGAAAAAGAAAAGAAAAGAAAAAGA
440565 AGAAAAA
1 AGAAAAA
440572 ATTGAGAGAT
Statistics
Matches: 62, Mismatches: 3, Indels: 12
0.81 0.04 0.16
Matches are distributed among these distances:
30 17 0.27
31 3 0.05
32 16 0.26
33 14 0.23
34 12 0.19
ACGTcount: A:0.78, C:0.02, G:0.17, T:0.03
Consensus pattern (31 bp):
AGAAAAAGAAAAAGAAAAGAAAAGAAAAAGA
Found at i:440564 original size:50 final size:49
Alignment explanation
Indices: 440456--440565 Score: 134
Period size: 50 Copynumber: 2.2 Consensus size: 49
440446 TATATAATAT
* * *
440456 AAGAAAAATAAAAACAGAAAAAGAAAAAGAATAAAAAGAAAAAGAATAAA
1 AAGAAAAA-GAAAACAGAAAAAGAAAAAGAAGAAAAAGAAAAAGAAAAAA
*
440506 AAGAAAAAGAAAAC-GAAGAAGAAAAA-AAGACAAATAGAAAAAGAAAAGAA
1 AAGAAAAAGAAAACAGAAAAAGAAAAAGAAGA-AAA-AGAAAAAGAAAA-AA
440556 AAGAAAAAGA
1 AAGAAAAAGA
440566 GAAAAAATTG
Statistics
Matches: 53, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
47 3 0.06
48 14 0.26
49 16 0.30
50 20 0.38
ACGTcount: A:0.78, C:0.03, G:0.15, T:0.04
Consensus pattern (49 bp):
AAGAAAAAGAAAACAGAAAAAGAAAAAGAAGAAAAAGAAAAAGAAAAAA
Found at i:440572 original size:15 final size:15
Alignment explanation
Indices: 440459--440572 Score: 90
Period size: 15 Copynumber: 7.3 Consensus size: 15
440449 ATAATATAAG
* *
440459 AAAAATAAAAACAG-
1 AAAAAGAAAAAGAGA
440473 AAAAAGAAAAAGA-A
1 AAAAAGAAAAAGAGA
440487 TAAAAAGAAAAAGA-A
1 -AAAAAGAAAAAGAGA
*
440502 TAAAAAGAAAAAGAAA
1 -AAAAAGAAAAAGAGA
*
440518 ACGAAGAAGAAAAAAAGA
1 A--AA-AAGAAAAAGAGA
* *
440536 CAAATAGAAAAAGAAA
1 -AAAAAGAAAAAGAGA
440552 AGAAAAGAAAAAGAGA
1 A-AAAAGAAAAAGAGA
440568 AAAAA
1 AAAAA
440573 TTGAGAGATC
Statistics
Matches: 83, Mismatches: 9, Indels: 15
0.78 0.08 0.14
Matches are distributed among these distances:
14 11 0.13
15 34 0.41
16 23 0.28
17 4 0.05
18 10 0.12
19 1 0.01
ACGTcount: A:0.79, C:0.03, G:0.15, T:0.04
Consensus pattern (15 bp):
AAAAAGAAAAAGAGA
Found at i:443454 original size:14 final size:14
Alignment explanation
Indices: 443431--443469 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
443421 AAAATCGGAC
*
443431 AGCAGGTTCTGCAA
1 AGCAGATTCTGCAA
443445 AGCAGATTCTGCAA
1 AGCAGATTCTGCAA
*
443459 AGTAGATTCTG
1 AGCAGATTCTG
443470 TTGGTCAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.26
Consensus pattern (14 bp):
AGCAGATTCTGCAA
Found at i:444703 original size:61 final size:60
Alignment explanation
Indices: 444585--444703 Score: 134
Period size: 61 Copynumber: 1.9 Consensus size: 60
444575 TATCATGTCC
* * * *
444585 GGATTAGCACTATATCGTAAGCTTAGTGCAGGTGGTGGGCACGACCTTATGTGTATTATCT
1 GGATTAGCACTATATCGTAAGCTTAGTGCAGGT-GTGAGCACGACATTAGGTATATTATCT
* *
444646 GGATTAGCACTATGA-CGTAAGCTTAGTGCAGGT-TTAGCACTACAATATAGGTATATTA
1 GGATTAGCACTAT-ATCGTAAGCTTAGTGCAGGTGTGAGCACGAC-AT-TAGGTATATTA
444704 CTAGAATACC
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
59 7 0.14
60 1 0.02
61 40 0.82
62 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.32
Consensus pattern (60 bp):
GGATTAGCACTATATCGTAAGCTTAGTGCAGGTGTGAGCACGACATTAGGTATATTATCT
Found at i:444855 original size:45 final size:45
Alignment explanation
Indices: 444801--444902 Score: 159
Period size: 45 Copynumber: 2.3 Consensus size: 45
444791 TGACAAGTGT
*
444801 ATTGGTAAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTAC
1 ATTGGTAAAATAAGCTTACGAGCTTATAGAATAAATGGTAAGTAC
* * **
444846 ATTGATAAAATAAGCTTACGAGCTTATAGAATAAATGTTAAGTGT
1 ATTGGTAAAATAAGCTTACGAGCTTATAGAATAAATGGTAAGTAC
444891 ATTGGTAAAATA
1 ATTGGTAAAATA
444903 TTGGACATGC
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 51 1.00
ACGTcount: A:0.42, C:0.07, G:0.20, T:0.31
Consensus pattern (45 bp):
ATTGGTAAAATAAGCTTACGAGCTTATAGAATAAATGGTAAGTAC
Found at i:455048 original size:40 final size:40
Alignment explanation
Indices: 454998--455101 Score: 127
Period size: 40 Copynumber: 2.6 Consensus size: 40
454988 TTACCTTTGA
*
454998 TATCGATACTGCAAGAACAATATCGATACTATTCATGCAG
1 TATCGATACTGCAAGAATAATATCGATACTATTCATGCAG
* * * * * *
455038 TATCGATACTGTAAGAATAATATTGGTATTGTTCATGTAG
1 TATCGATACTGCAAGAATAATATCGATACTATTCATGCAG
* *
455078 TATTGATATTGCAAGAATAATATC
1 TATCGATACTGCAAGAATAATATC
455102 ATTATTATTT
Statistics
Matches: 53, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 53 1.00
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.35
Consensus pattern (40 bp):
TATCGATACTGCAAGAATAATATCGATACTATTCATGCAG
Found at i:456403 original size:21 final size:20
Alignment explanation
Indices: 456379--456427 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
456369 CTCAAAAATA
**
456379 TTTTTCAAAATTTCATTTTG
1 TTTTTCAAAATCACATTTTG
456399 TTTTTCAAAATCACATTTTG
1 TTTTTCAAAATCACATTTTG
*
456419 -CTTTCAAAA
1 TTTTTCAAAA
456428 CCAAATCATT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 8 0.31
20 18 0.69
ACGTcount: A:0.31, C:0.14, G:0.04, T:0.51
Consensus pattern (20 bp):
TTTTTCAAAATCACATTTTG
Found at i:458751 original size:37 final size:38
Alignment explanation
Indices: 458609--458766 Score: 130
Period size: 37 Copynumber: 4.3 Consensus size: 38
458599 AAATAAGTTC
* **
458609 AATA-GAATATGTTA-TTACAAATTTATATTTGATTGA
1 AATACGAATATATTATTTACAAATTTATATTCAATTGA
* * * *
458645 AATAGGAATATATCATTTATAAATTTATAGTT-GA-TGA
1 AATACGAATATATTATTTACAAATTTATA-TTCAATTGA
* ** * *
458682 AATACAAATATATTATTTATGAATTTCTATTCAATTAA
1 AATACGAATATATTATTTACAAATTTATATTCAATTGA
** *
458720 AATTTGAATATATTA-TTACAAATTTATATTCAATTGG
1 AATACGAATATATTATTTACAAATTTATATTCAATTGA
458757 AATAC-AATAT
1 AATACGAATAT
458767 TTTAGTTCTA
Statistics
Matches: 97, Mismatches: 20, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
36 11 0.11
37 56 0.58
38 28 0.29
39 2 0.02
ACGTcount: A:0.44, C:0.05, G:0.08, T:0.43
Consensus pattern (38 bp):
AATACGAATATATTATTTACAAATTTATATTCAATTGA
Found at i:461770 original size:13 final size:13
Alignment explanation
Indices: 461752--461776 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
461742 CATTAGTCCA
461752 CATAATCAATATT
1 CATAATCAATATT
461765 CATAATCAATAT
1 CATAATCAATAT
461777 GCAATAGGGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (13 bp):
CATAATCAATATT
Found at i:461855 original size:23 final size:23
Alignment explanation
Indices: 461829--461883 Score: 101
Period size: 23 Copynumber: 2.4 Consensus size: 23
461819 CATGAACTAA
461829 AGAAATAAACATTCAATAAAGTT
1 AGAAATAAACATTCAATAAAGTT
461852 AGAAATAAACATTCAATAAAGTT
1 AGAAATAAACATTCAATAAAGTT
*
461875 AAAAATAAA
1 AGAAATAAA
461884 AATCATTCAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.62, C:0.07, G:0.07, T:0.24
Consensus pattern (23 bp):
AGAAATAAACATTCAATAAAGTT
Found at i:464162 original size:45 final size:45
Alignment explanation
Indices: 464104--464220 Score: 135
Period size: 45 Copynumber: 2.6 Consensus size: 45
464094 ATGTTCAGGT
* * ** *
464104 AAGAATATACGGTCAAAAGAGATGTTTGCCAAAGATGTTTAGGGA
1 AAGAACATTCGGTCAAAAGAGATACTTACCAAAGATGTTTAGGGA
* * * * *
464149 AAGAACATTCGGTCAAAGGAGGTACTTACCGAGGATGTTTGGGGA
1 AAGAACATTCGGTCAAAAGAGATACTTACCAAAGATGTTTAGGGA
*
464194 AAGAACATTCGGTCAAAAGAGGTACTT
1 AAGAACATTCGGTCAAAAGAGATACTT
464221 GTCGAGAGTG
Statistics
Matches: 61, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 61 1.00
ACGTcount: A:0.37, C:0.12, G:0.28, T:0.23
Consensus pattern (45 bp):
AAGAACATTCGGTCAAAAGAGATACTTACCAAAGATGTTTAGGGA
Found at i:466777 original size:17 final size:17
Alignment explanation
Indices: 466736--466796 Score: 77
Period size: 17 Copynumber: 3.5 Consensus size: 17
466726 ATAAGCATAC
* *
466736 TACTTCATCTAAAGTATG
1 TACTTCAT-TTAAGCATG
466754 TACTTCATTTAAGCATG
1 TACTTCATTTAAGCATG
*
466771 TAGTTCATTTAAGCATG
1 TACTTCATTTAAGCATG
466788 CTACTTCAT
1 -TACTTCAT
466797 GTTGTTCATT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
17 23 0.61
18 15 0.39
ACGTcount: A:0.30, C:0.18, G:0.11, T:0.41
Consensus pattern (17 bp):
TACTTCATTTAAGCATG
Found at i:466827 original size:18 final size:17
Alignment explanation
Indices: 466794--466845 Score: 68
Period size: 18 Copynumber: 2.9 Consensus size: 17
466784 CATGCTACTT
466794 CATGTTGTTCATTTAAG
1 CATGTTGTTCATTTAAG
*
466811 CATGTTAGTTTATTTAAG
1 CATGTT-GTTCATTTAAG
*
466829 TATGTTGGTTCATTTAA
1 CATGTT-GTTCATTTAA
466846 TAAATCTAGT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
17 6 0.20
18 24 0.80
ACGTcount: A:0.25, C:0.08, G:0.17, T:0.50
Consensus pattern (17 bp):
CATGTTGTTCATTTAAG
Found at i:470969 original size:10 final size:9
Alignment explanation
Indices: 470947--470971 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
470937 TTGGAAATTC
470947 TTTTTCTGA
1 TTTTTCTGA
470956 TTTTTCTGA
1 TTTTTCTGA
470965 TTTTTCT
1 TTTTTCT
470972 TTTTGTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.08, C:0.12, G:0.08, T:0.72
Consensus pattern (9 bp):
TTTTTCTGA
Found at i:475643 original size:19 final size:19
Alignment explanation
Indices: 475619--475659 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
475609 GTTGTACGAT
475619 AGTTACCGGAAGTAGGTAA
1 AGTTACCGGAAGTAGGTAA
475638 AGTTACCGGAAGTAGGTAA
1 AGTTACCGGAAGTAGGTAA
475657 AGT
1 AGT
475660 CACCCACAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.37, C:0.10, G:0.32, T:0.22
Consensus pattern (19 bp):
AGTTACCGGAAGTAGGTAA
Found at i:488158 original size:79 final size:79
Alignment explanation
Indices: 488022--488174 Score: 252
Period size: 79 Copynumber: 1.9 Consensus size: 79
488012 CTAAAACGAA
* **
488022 CATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGACATAGCTGAAATGTTTAT
1 CATAAAAGAATAATGCATATGGGTGCATTATTGGAATGAAAGGATGACATAGCTGAAATGCATAT
488087 GGGTACATTGTCAG
66 GGGTACATTGTCAG
* *
488101 CATAAAAGAATAATGCATATGGGTGCATTATTGGAATGAAAGGATGTCATAGTTGAAATGCATAT
1 CATAAAAGAATAATGCATATGGGTGCATTATTGGAATGAAAGGATGACATAGCTGAAATGCATAT
*
488166 GGGTGCATT
66 GGGTACATT
488175 ATCAACAGAA
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
79 68 1.00
ACGTcount: A:0.36, C:0.09, G:0.25, T:0.29
Consensus pattern (79 bp):
CATAAAAGAATAATGCATATGGGTGCATTATTGGAATGAAAGGATGACATAGCTGAAATGCATAT
GGGTACATTGTCAG
Found at i:488201 original size:45 final size:45
Alignment explanation
Indices: 488149--488456 Score: 409
Period size: 45 Copynumber: 6.8 Consensus size: 45
488139 AAAGGATGTC
* * *
488149 ATAGTTGAAATGCATATGGGTGCATTATCAACAGAAAATTATACG
1 ATAGTTGAAATGCATATGGGTACATTATCAACAGAAAAGTATACT
** * * * *
488194 ACGGTTGAAATGTATATAGGTACATTATCAACATAAAAGTATACA
1 ATAGTTGAAATGCATATGGGTACATTATCAACAGAAAAGTATACT
* * * *
488239 ATAGTTGAAATGCATATAGGTACATTGTCAATAGAAAAGTATGCT
1 ATAGTTGAAATGCATATGGGTACATTATCAACAGAAAAGTATACT
* * * * *
488284 AGAGTTTAAATGTATATGGGTACATTATCAACTGAAAATTATACT
1 ATAGTTGAAATGCATATGGGTACATTATCAACAGAAAAGTATACT
*
488329 ATAGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATACT
1 ATAGTTGAAATGCATATGGGTACATTATCAACAGAAAAGTATACT
**
488374 ATAGTTGAAATGCATATGGGCGCATTATCAACAGAAAAGTATACT
1 ATAGTTGAAATGCATATGGGTACATTATCAACAGAAAAGTATACT
* *
488419 ATAATTGAAATGCATATGGGTGCATTATCAACAGAAAA
1 ATAGTTGAAATGCATATGGGTACATTATCAACAGAAAA
488457 ATAGGGTATA
Statistics
Matches: 229, Mismatches: 34, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 229 1.00
ACGTcount: A:0.42, C:0.10, G:0.18, T:0.30
Consensus pattern (45 bp):
ATAGTTGAAATGCATATGGGTACATTATCAACAGAAAAGTATACT
Found at i:488354 original size:135 final size:135
Alignment explanation
Indices: 488151--488456 Score: 450
Period size: 135 Copynumber: 2.3 Consensus size: 135
488141 AGGATGTCAT
*
488151 AGTTGAAATGCATATGGGTGCATTATCAACAGAAAATTATACGACGGTTGAAATGTATATAGGTA
1 AGTTGAAATGCATATGGGTGCATTATCAACAGAAAATTATACGACAGTTGAAATGTATATAGGTA
* * * *
488216 CATTATCAACATAAAAGTATACAATAGTTGAAATGCATATAGGTACATTGTCAATAGAAAAGTAT
66 CATTATCAACAGAAAAGTATACAATAGTTGAAATGCATATAGGCACATTATCAACAGAAAAGTAT
*
488281 GCTAG
131 ACTAG
* * * * * * *
488286 AGTTTAAATGTATATGGGTACATTATCAACTGAAAATTATACTATAGTTGAAATGTATATGGGTA
1 AGTTGAAATGCATATGGGTGCATTATCAACAGAAAATTATACGACAGTTGAAATGTATATAGGTA
* * *
488351 CATTATCAACAGAAAAGTATACTATAGTTGAAATGCATATGGGCGCATTATCAACAGAAAAGTAT
66 CATTATCAACAGAAAAGTATACAATAGTTGAAATGCATATAGGCACATTATCAACAGAAAAGTAT
*
488416 ACTAT
131 ACTAG
*
488421 AATTGAAATGCATATGGGTGCATTATCAACAGAAAA
1 AGTTGAAATGCATATGGGTGCATTATCAACAGAAAA
488457 ATAGGGTATA
Statistics
Matches: 149, Mismatches: 22, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
135 149 1.00
ACGTcount: A:0.42, C:0.10, G:0.18, T:0.30
Consensus pattern (135 bp):
AGTTGAAATGCATATGGGTGCATTATCAACAGAAAATTATACGACAGTTGAAATGTATATAGGTA
CATTATCAACAGAAAAGTATACAATAGTTGAAATGCATATAGGCACATTATCAACAGAAAAGTAT
ACTAG
Found at i:490972 original size:2 final size:2
Alignment explanation
Indices: 490965--490995 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
490955 TGTCAAAAAG
490965 AT AT AT AT AT AT AT AT AT AT A- AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
490996 CTTTTATGGT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:494222 original size:51 final size:51
Alignment explanation
Indices: 494162--494260 Score: 148
Period size: 51 Copynumber: 1.9 Consensus size: 51
494152 AATGTTAATA
*
494162 AAGTAATAATGACTT-AAAGCATATAATATTTTGAACT-AGTCTTTTCCTTGG
1 AAGTAATAATGACTTAAAAG-ATATAATATTTTGAA-TGAGCCTTTTCCTTGG
*
494213 AAGTAATAATGACTTAAAAGATATGATATTTTGAATGAGCCTTTTCCT
1 AAGTAATAATGACTTAAAAGATATAATATTTTGAATGAGCCTTTTCCT
494261 CGGACAAGTA
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
50 1 0.02
51 39 0.89
52 4 0.09
ACGTcount: A:0.36, C:0.11, G:0.14, T:0.38
Consensus pattern (51 bp):
AAGTAATAATGACTTAAAAGATATAATATTTTGAATGAGCCTTTTCCTTGG
Found at i:496206 original size:58 final size:58
Alignment explanation
Indices: 496116--496231 Score: 232
Period size: 58 Copynumber: 2.0 Consensus size: 58
496106 CAGACGTTAA
496116 TTTAATGGCACAATATAAACTAGAAGAACTTCACATTCAGAAGGATAATTTTACAATT
1 TTTAATGGCACAATATAAACTAGAAGAACTTCACATTCAGAAGGATAATTTTACAATT
496174 TTTAATGGCACAATATAAACTAGAAGAACTTCACATTCAGAAGGATAATTTTACAATT
1 TTTAATGGCACAATATAAACTAGAAGAACTTCACATTCAGAAGGATAATTTTACAATT
496232 ATGAAACAAA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.43, C:0.14, G:0.12, T:0.31
Consensus pattern (58 bp):
TTTAATGGCACAATATAAACTAGAAGAACTTCACATTCAGAAGGATAATTTTACAATT
Found at i:499349 original size:29 final size:29
Alignment explanation
Indices: 499312--499420 Score: 200
Period size: 29 Copynumber: 3.8 Consensus size: 29
499302 GGAGTTTAGT
*
499312 ACTGTCAAATTATTCAAAGAGTAGAAATG
1 ACTGCCAAATTATTCAAAGAGTAGAAATG
499341 ACTGCCAAATTATTCAAAGAGTAGAAATG
1 ACTGCCAAATTATTCAAAGAGTAGAAATG
499370 ACTGCCAAATTATTCAAAGAGTAGAAATG
1 ACTGCCAAATTATTCAAAGAGTAGAAATG
*
499399 ACTGCCAAATTATCCAAAGAGT
1 ACTGCCAAATTATTCAAAGAGT
499421 TCATGCAATT
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
29 78 1.00
ACGTcount: A:0.44, C:0.15, G:0.17, T:0.25
Consensus pattern (29 bp):
ACTGCCAAATTATTCAAAGAGTAGAAATG
Found at i:515197 original size:13 final size:14
Alignment explanation
Indices: 515174--515208 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
515164 CTCTGGGATG
515174 AAAAATGAAGAAAC
1 AAAAATGAAGAAAC
515188 AAAAAT-AAGAAAC
1 AAAAATGAAGAAAC
*
515201 AACAATGA
1 AAAAATGA
515209 CGGTGGTTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 12 0.63
14 7 0.37
ACGTcount: A:0.71, C:0.09, G:0.11, T:0.09
Consensus pattern (14 bp):
AAAAATGAAGAAAC
Found at i:517397 original size:3 final size:3
Alignment explanation
Indices: 517385--517435 Score: 68
Period size: 3 Copynumber: 17.0 Consensus size: 3
517375 TTTTTTATCG
*
517385 TTA TTT TTA TTA TTA TTA TTA TTA TTA TTTA TTA TTA -TA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA
*
517430 ATA TTA
1 TTA TTA
517436 CATATTACAT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
2 2 0.05
3 37 0.88
4 3 0.07
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:517441 original size:24 final size:25
Alignment explanation
Indices: 517391--517442 Score: 70
Period size: 24 Copynumber: 2.1 Consensus size: 25
517381 ATCGTTATTT
* **
517391 TTATTATTATTATTATTATTATTTA
1 TTATTATTATTATTAATATTACATA
517416 TTATTA-TATTATTAATATTACATA
1 TTATTATTATTATTAATATTACATA
517440 TTA
1 TTA
517443 CATATTTTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 18 0.75
25 6 0.25
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.62
Consensus pattern (25 bp):
TTATTATTATTATTAATATTACATA
Found at i:519570 original size:22 final size:22
Alignment explanation
Indices: 519545--519588 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
519535 TCAAACGATG
*
519545 CAATATGTGTTATTTTAAGTGA
1 CAATATATGTTATTTTAAGTGA
* * *
519567 CAATTTATTTTATTTTATGTGA
1 CAATATATGTTATTTTAAGTGA
519589 ATGTAAATTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.30, C:0.05, G:0.14, T:0.52
Consensus pattern (22 bp):
CAATATATGTTATTTTAAGTGA
Found at i:521131 original size:30 final size:32
Alignment explanation
Indices: 521096--521156 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 32
521086 ATTTTACATG
*
521096 TACTAACTTA-TT-TTCTCTTTTGTTTGTGTA
1 TACTAACTTATTTCTTCTCTTTTGTTCGTGTA
521126 TACTAACTTATTTCTTCTCTTTTGTTCGTGT
1 TACTAACTTATTTCTTCTCTTTTGTTCGTGT
521157 CATTTTGTCA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
30 10 0.36
31 2 0.07
32 16 0.57
ACGTcount: A:0.15, C:0.16, G:0.10, T:0.59
Consensus pattern (32 bp):
TACTAACTTATTTCTTCTCTTTTGTTCGTGTA
Found at i:524144 original size:30 final size:31
Alignment explanation
Indices: 524108--524168 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
524098 GACGCAGAGT
**
524108 GCAAAGATCAAACCAAAG-AAAAAACAAAGA
1 GCAAAGAGAAAACCAAAGCAAAAAACAAAGA
* *
524138 GCAAAGAGAAAATCAAAGCAAAAATCAAAGA
1 GCAAAGAGAAAACCAAAGCAAAAAACAAAGA
524169 AAAAGCACAG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 15 0.58
31 11 0.42
ACGTcount: A:0.66, C:0.15, G:0.15, T:0.05
Consensus pattern (31 bp):
GCAAAGAGAAAACCAAAGCAAAAAACAAAGA
Found at i:524171 original size:11 final size:11
Alignment explanation
Indices: 524139--524172 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
524129 AAACAAAGAG
524139 CAAAGAGAAAAT
1 CAAAGA-AAAAT
524151 CAAAGCAAAAAT
1 CAAAG-AAAAAT
524163 CAAAGAAAAA
1 CAAAGAAAAA
524173 GCACAGAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 5 0.24
12 15 0.71
13 1 0.05
ACGTcount: A:0.71, C:0.12, G:0.12, T:0.06
Consensus pattern (11 bp):
CAAAGAAAAAT
Found at i:525372 original size:4 final size:4
Alignment explanation
Indices: 525363--525406 Score: 74
Period size: 4 Copynumber: 11.5 Consensus size: 4
525353 AGAAAAGTAT
525363 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC --AC ATAC ATAC AT
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT
525407 GATACATAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 2 0.05
4 36 0.95
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:525830 original size:36 final size:36
Alignment explanation
Indices: 525790--525874 Score: 116
Period size: 38 Copynumber: 2.3 Consensus size: 36
525780 CGTCTCATTA
* *
525790 GAGACAGTTTTCTTAAAAACAAATTTTGTCTCGCTT
1 GAGACACTTTTCTTAAAAACAAATTATGTCTCGCTT
*
525826 GAGACAACTTTCTCTTTAAAACAAATTATGTCTCGCTT
1 GAGAC-ACTTT-TCTTAAAAACAAATTATGTCTCGCTT
*
525864 GAGACATTTTT
1 GAGACACTTTT
525875 TCACAAATTT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
36 6 0.14
37 8 0.19
38 29 0.67
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.39
Consensus pattern (36 bp):
GAGACACTTTTCTTAAAAACAAATTATGTCTCGCTT
Found at i:526082 original size:105 final size:102
Alignment explanation
Indices: 525895--526133 Score: 288
Period size: 105 Copynumber: 2.3 Consensus size: 102
525885 TGAAAATTTT
* * *
525895 AAAACAAATTGCGTCTCGCTTGAGACATTTTTCCTTTGAGATACAAATTTTGAATTTGATTCACT
1 AAAACAAATTTCGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTGATTCACT
*
525960 AAAAACAAAATTAATCTCACCTT-AGATTCTTGTTTCTTTC-
66 AAAAACAAAATTAATCTCA-CTTGAGA-TCAT-TTTC--TCA
* * *
526000 AAAACAAATTTCGTCTCGCTTGAGACCTTTTCCCTTTGAGATCCAAATTTCGAATTTGTTTCAC-
1 AAAACAAATTTCGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTGATTCACT
* * *
526064 ATTAAACAAAGTTGATCTCACTTGAGATCATTTTCTCA
66 A-AAAACAAAATTAATCTCACTTGAGATCATTTTCTCA
*
526102 AAAACAAACTTT-GTCTCGCTTGAGACAATTTC
1 AAAACAAA-TTTCGTCTCGCTTGAGACATTTTC
526134 TCTAAAAACA
Statistics
Matches: 118, Mismatches: 12, Indels: 11
0.84 0.09 0.08
Matches are distributed among these distances:
101 2 0.02
102 26 0.22
103 7 0.06
104 7 0.06
105 76 0.64
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.37
Consensus pattern (102 bp):
AAAACAAATTTCGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTGATTCACT
AAAAACAAAATTAATCTCACTTGAGATCATTTTCTCA
Found at i:526124 original size:36 final size:36
Alignment explanation
Indices: 526079--526197 Score: 118
Period size: 36 Copynumber: 3.4 Consensus size: 36
526069 ACAAAGTTGA
*
526079 TCTCACTTGAGATCATTTTCTC-AAAAACAAACTTTG
1 TCTCACTTGAGA-CAATTTCTCTAAAAACAAACTTTG
* *
526115 TCTCGCTTGAGACAATTTCTCTAAAAACAAATTTTG
1 TCTCACTTGAGACAATTTCTCTAAAAACAAACTTTG
* * * * * *
526151 TCTCATTTGAGACTATATCT-T-AAAGCAAAGTTCG
1 TCTCACTTGAGACAATTTCTCTAAAAACAAACTTTG
*
526185 TCTCGCTTGAGAC
1 TCTCACTTGAGAC
526198 GTCATTTTCT
Statistics
Matches: 70, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
34 21 0.30
35 9 0.13
36 40 0.57
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.35
Consensus pattern (36 bp):
TCTCACTTGAGACAATTTCTCTAAAAACAAACTTTG
Found at i:526496 original size:28 final size:28
Alignment explanation
Indices: 526445--526519 Score: 98
Period size: 29 Copynumber: 2.7 Consensus size: 28
526435 CAGTTTCCCG
*
526445 TGAATAAAAATCTTGGAGTTTGTTCCTTT
1 TGAATAAAAATCTTTGAG-TTGTTCCTTT
* *
526474 TGAATAAATATCTTTGAGTTGTTTCTTT
1 TGAATAAAAATCTTTGAGTTGTTCCTTT
*
526502 TGAA-AAAAATCTGTGAGT
1 TGAATAAAAATCTTTGAGT
526520 CTATTTATTT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
27 12 0.29
28 13 0.32
29 16 0.39
ACGTcount: A:0.31, C:0.08, G:0.17, T:0.44
Consensus pattern (28 bp):
TGAATAAAAATCTTTGAGTTGTTCCTTT
Found at i:526530 original size:28 final size:27
Alignment explanation
Indices: 526471--526534 Score: 67
Period size: 27 Copynumber: 2.3 Consensus size: 27
526461 AGTTTGTTCC
* * * *
526471 TTTTGAATAAATATCTTTGAGTTGTTTC
1 TTTTGAA-AAAAATCTGTGAGTTATTTA
526499 TTTTGAAAAAAATCTGTGAGTCTATTTA
1 TTTTGAAAAAAATCTGTGAGT-TATTTA
526527 TTTT-AAAA
1 TTTTGAAAA
526535 CGATTTTTGT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
27 16 0.52
28 15 0.48
ACGTcount: A:0.33, C:0.06, G:0.12, T:0.48
Consensus pattern (27 bp):
TTTTGAAAAAAATCTGTGAGTTATTTA
Found at i:526629 original size:121 final size:121
Alignment explanation
Indices: 526406--526632 Score: 329
Period size: 119 Copynumber: 1.9 Consensus size: 121
526396 TATTTGAATC
*
526406 TTTTAAAACGATTTTTTATCTCTTAAAGACAGTTTCCCGTGAATAAAAATCTTGGAGTTTGTTCC
1 TTTTAAAACGATTTTTTATCTCTTAAAGACAGTTTCCCGTGAATAAAAATCTTGGAGTTGGTTCC
*
526471 TTTTGAATAAATATCTTTGAGTTGTTTCTTTTGAAAAAAATCTGTGAGTCTATTTA
66 TTTTGAATAAATATCTTTGAGTTGTTCCTTTTGAAAAAAATCTGTGAGTCTATTTA
* * * * *
526527 TTTTAAAACGATTTTTGTGTCTCTT-GAGACAGTTTCTCTTG-A-AAAAATCTTTGAGTTGGTTC
1 TTTTAAAACGATTTTT-TATCTCTTAAAGACAGTTTCCCGTGAATAAAAATCTTGGAGTTGGTTC
526589 CTTTTGAA-AAA-ATCTTTGAGTTTGTTCCTTTTGAATAAAAATCT
65 CTTTTGAATAAATATCTTTGAG-TTGTTCCTTTTGAA-AAAAATCT
526633 TGGAGTTTGT
Statistics
Matches: 96, Mismatches: 7, Indels: 8
0.86 0.06 0.07
Matches are distributed among these distances:
117 9 0.09
118 16 0.17
119 34 0.35
120 1 0.01
121 29 0.30
122 7 0.07
ACGTcount: A:0.29, C:0.12, G:0.15, T:0.45
Consensus pattern (121 bp):
TTTTAAAACGATTTTTTATCTCTTAAAGACAGTTTCCCGTGAATAAAAATCTTGGAGTTGGTTCC
TTTTGAATAAATATCTTTGAGTTGTTCCTTTTGAAAAAAATCTGTGAGTCTATTTA
Found at i:526646 original size:175 final size:177
Alignment explanation
Indices: 526445--526800 Score: 594
Period size: 175 Copynumber: 2.0 Consensus size: 177
526435 CAGTTTCCCG
526445 TGAATAAAAATCTTGGAGTTTGTTCCTTTTGAATAAATATCTTTGAGTTGTTTCTTTTGAAAAAA
1 TGAATAAAAATCTTGGAGTTTGTTCCTTTTGAATAAATATCTTTGAGTTGTTTCTTTTG-AAAAA
* *
526510 ATCTGTGAGTCTATTTATTTTAAAAC-GATTTTTGTGTCTCTTGAGACAGTTTCTCTTG-AAAAA
65 ATCTGTGAGTCTATTTATTTTAAAACAAAATTTTGTGTCTCTTGAGACAGTTTCTCTTGAAAAAA
* *
526573 ATCTTTGAGTTGGTTCCTTTTGAA-AAA-ATCTTTGAGTTTGTTCCTTT
130 ATCTTGGAGTTGGTTCCTTTTGAATAAATATCTTTGAG-TCGTTCCTTT
526620 TGAATAAAAATCTTGGAGTTTGTTCCTTTTGAATAAATATCTTTGAGTTGTTTCTTTTGAAAAAA
1 TGAATAAAAATCTTGGAGTTTGTTCCTTTTGAATAAATATCTTTGAGTTGTTTCTTTTGAAAAAA
* *
526685 TCTTTGAGTCTATTTATTTTGAAACAAAATTTTGTGTCTCTTGAGACAGTTTCTCTTGAAAAAAA
66 TCTGTGAGTCTATTTATTTTAAAACAAAATTTTGTGTCTCTTGAGACAGTTTCTCTTGAAAAAAA
* *
526750 TCTTGGAGTTTGTTCCTTTTGAATAAATATCTTTGAGTCGTTTCTTT
131 TCTTGGAGTTGGTTCCTTTTGAATAAATATCTTTGAGTCGTTCCTTT
526797 TGAA
1 TGAA
526801 AAATCTTTGA
Statistics
Matches: 169, Mismatches: 8, Indels: 6
0.92 0.04 0.03
Matches are distributed among these distances:
174 29 0.17
175 89 0.53
176 27 0.16
177 15 0.09
178 9 0.05
ACGTcount: A:0.28, C:0.11, G:0.16, T:0.46
Consensus pattern (177 bp):
TGAATAAAAATCTTGGAGTTTGTTCCTTTTGAATAAATATCTTTGAGTTGTTTCTTTTGAAAAAA
TCTGTGAGTCTATTTATTTTAAAACAAAATTTTGTGTCTCTTGAGACAGTTTCTCTTGAAAAAAA
TCTTGGAGTTGGTTCCTTTTGAATAAATATCTTTGAGTCGTTCCTTT
Found at i:526708 original size:27 final size:27
Alignment explanation
Indices: 526558--526827 Score: 197
Period size: 27 Copynumber: 9.5 Consensus size: 27
526548 TCTTGAGACA
*
526558 GTTTCTCTTGAAAAAATCTTTGAGT-T
1 GTTTCTTTTGAAAAAATCTTTGAGTCT
* *
526584 GGTTCCTTTTGAAAAAATCTTTGAGTTT
1 -GTTTCTTTTGAAAAAATCTTTGAGTCT
* * *
526612 GTTCCTTTTGAATAAAAATCTTGGAGTTT
1 GTTTCTTTTG-A-AAAAATCTTTGAGTCT
*
526641 GTTCCTTTTGAATAAATATCTTTGAGT-T
1 GTTTCTTTTGAA-AAA-ATCTTTGAGTCT
526669 GTTTCTTTTGAAAAAATCTTTGAGTCT
1 GTTTCTTTTGAAAAAATCTTTGAGTCT
* * * *
526696 ATTTATTTTGAAACAAAATTTTGTGTCTCTTGAGACA
1 GTTTCTTTTG-AA-AAAA-------TCT-TTGAGTCT
* * *
526733 GTTTCTCTTGAAAAAAATCTTGGAGTTT
1 GTTTCTTTTGA-AAAAATCTTTGAGTCT
*
526761 GTTCCTTTTGAATAAATATCTTTGAGTC-
1 GTTTCTTTTGAA-AAA-ATCTTTGAGTCT
526789 GTTTCTTTTG-AAAAATCTTTGAGTCT
1 GTTTCTTTTGAAAAAATCTTTGAGTCT
* *
526815 ATTTATTTTGAAA
1 GTTTCTTTTGAAA
526828 CAAAGTTTTG
Statistics
Matches: 199, Mismatches: 23, Indels: 42
0.75 0.09 0.16
Matches are distributed among these distances:
25 11 0.06
26 21 0.11
27 50 0.25
28 45 0.23
29 50 0.25
36 8 0.04
37 14 0.07
ACGTcount: A:0.27, C:0.11, G:0.15, T:0.47
Consensus pattern (27 bp):
GTTTCTTTTGAAAAAATCTTTGAGTCT
Found at i:526782 original size:29 final size:27
Alignment explanation
Indices: 526740--526804 Score: 76
Period size: 28 Copynumber: 2.3 Consensus size: 27
526730 ACAGTTTCTC
* *
526740 TTGAAAAAAATCTTGGAGTTTGTTCCTT
1 TTGAAAAATATCTTGGAG-TCGTTCCTT
* *
526768 TTGAATAAATATCTTTGAGTCGTTTCTT
1 TTGAA-AAATATCTTGGAGTCGTTCCTT
526796 TTGAAAAAT
1 TTGAAAAAT
526805 CTTTGAGTCT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
27 4 0.12
28 17 0.53
29 11 0.34
ACGTcount: A:0.31, C:0.09, G:0.15, T:0.45
Consensus pattern (27 bp):
TTGAAAAATATCTTGGAGTCGTTCCTT
Found at i:526810 original size:25 final size:25
Alignment explanation
Indices: 526745--526827 Score: 76
Period size: 26 Copynumber: 3.1 Consensus size: 25
526735 TTCTCTTGAA
* * *
526745 AAAAATCTTGGAGTTTGTTCCTTTTG
1 AAAAATCTTTGAG-TCGTTTCTTTTG
526771 AATAAATATCTTTGAGTCGTTTCTTTTG
1 -A-AAA-ATCTTTGAGTCGTTTCTTTTG
* *
526799 AAAAATCTTTGAGTCTATTTATTTTG
1 AAAAATCTTTGAGTC-GTTTCTTTTG
526825 AAA
1 AAA
526828 CAAAGTTTTG
Statistics
Matches: 48, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
25 11 0.23
26 14 0.29
27 2 0.04
28 13 0.27
29 8 0.17
ACGTcount: A:0.29, C:0.10, G:0.14, T:0.47
Consensus pattern (25 bp):
AAAAATCTTTGAGTCGTTTCTTTTG
Found at i:526844 original size:119 final size:121
Alignment explanation
Indices: 526619--526856 Score: 426
Period size: 119 Copynumber: 2.0 Consensus size: 121
526609 TTTGTTCCTT
*
526619 TTGAATAAAAATCTTGGAGTTTGTTCCTTTTGAATAAATATCTTTGAGTTGTTTCTTTTGAAAAA
1 TTGAATAAAAATCTTGGAGTTTGTTCCTTTTGAATAAATATCTTTGAGTCGTTTCTTTTGAAAAA
* *
526684 ATCTTTGAGTCTATTTATTTTGAAACAAAATTTTGTGTCTCTTGAGACAGTTTCTC
66 ATCTTTGAGTCTATTTATTTTGAAACAAAATTTTGTCTCTCTTGAGACAATTTCTC
526740 TTGAA-AAAAATCTTGGAGTTTGTTCCTTTTGAATAAATATCTTTGAGTCGTTTCTTTTG-AAAA
1 TTGAATAAAAATCTTGGAGTTTGTTCCTTTTGAATAAATATCTTTGAGTCGTTTCTTTTGAAAAA
*
526803 ATCTTTGAGTCTATTTATTTTGAAACAAAGTTTTGTCTCTCTTGAGACAATTTC
66 ATCTTTGAGTCTATTTATTTTGAAACAAAATTTTGTCTCTCTTGAGACAATTTC
526857 GTGAAAATCT
Statistics
Matches: 113, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
119 55 0.49
120 53 0.47
121 5 0.04
ACGTcount: A:0.28, C:0.11, G:0.15, T:0.46
Consensus pattern (121 bp):
TTGAATAAAAATCTTGGAGTTTGTTCCTTTTGAATAAATATCTTTGAGTCGTTTCTTTTGAAAAA
ATCTTTGAGTCTATTTATTTTGAAACAAAATTTTGTCTCTCTTGAGACAATTTCTC
Found at i:526949 original size:30 final size:30
Alignment explanation
Indices: 526909--527045 Score: 114
Period size: 30 Copynumber: 4.3 Consensus size: 30
526899 GACAATTTTG
* *
526909 TGAAAAAAAAATCTTTGAGATTGTTTCTGT
1 TGAAACAAAAATCTTTAAGATTGTTTCTGT
* *
526939 TGAAACAAAAATCTTTAAGCTTGTTTCTTT
1 TGAAACAAAAATCTTTAAGATTGTTTCTGT
* ** *
526969 TGAAACAAAATTTTGTCTCTCTTAAGATAATTTCTTT
1 TGAAACAAAA------ATCT-TTAAGATTGTTTCTGT
*
527006 TGAAACAAAAATCTTTAAGTTTGTTTCT-T
1 TGAAACAAAAATCTTTAAGATTGTTTCTGT
527035 TGGAAACAAAA
1 T-GAAACAAAA
527046 TTTTGTCTCT
Statistics
Matches: 87, Mismatches: 12, Indels: 16
0.76 0.10 0.14
Matches are distributed among these distances:
29 2 0.02
30 56 0.64
31 3 0.03
36 3 0.03
37 23 0.26
ACGTcount: A:0.36, C:0.11, G:0.12, T:0.41
Consensus pattern (30 bp):
TGAAACAAAAATCTTTAAGATTGTTTCTGT
Found at i:527003 original size:37 final size:36
Alignment explanation
Indices: 526962--527220 Score: 164
Period size: 37 Copynumber: 7.6 Consensus size: 36
526952 TTTAAGCTTG
526962 TTTCTTTTGAAACAAAATTTTGTCTCTCTTAAGATAA
1 TTTCTTTTGAAACAAAATTTTGTCTCT-TTAAGATAA
* * **
526999 TTTCTTTTGAAACAAAA------ATCTTTAAGTTTG
1 TTTCTTTTGAAACAAAATTTTGTCTCTTTAAGATAA
*
527029 TTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAA
1 TTTCTTTTGAAACAAAATTTTGTCTCT-TTAAGATAA
* * **
527066 TTTCTTTTGAAACAAAA------ATCTTTGAG-TGTG
1 TTTCTTTTGAAACAAAATTTTGTCTCTTTAAGAT-AA
*
527096 TTTCTTTGGAAACAAAATTTTGTCTCTTTTAAGATAA
1 TTTCTTTTGAAACAAAATTTTGTCTC-TTTAAGATAA
* * * **
527133 TTTCTTTTGAAACAAAA------ATCTTTGAGTTTG
1 TTTCTTTTGAAACAAAATTTTGTCTCTTTAAGATAA
* *
527163 TTTCTTTGGAAACAACATTTTGTCTCTCTTAAGATAA
1 TTTCTTTTGAAACAAAATTTTGTCTCT-TTAAGATAA
527200 TTTCTTTT-AAA-AAAATCTTTG
1 TTTCTTTTGAAACAAAAT-TTTG
527221 AATCTGTTTC
Statistics
Matches: 164, Mismatches: 34, Indels: 49
0.66 0.14 0.20
Matches are distributed among these distances:
29 1 0.01
30 63 0.38
31 8 0.05
35 4 0.02
36 15 0.09
37 72 0.44
38 1 0.01
ACGTcount: A:0.32, C:0.12, G:0.11, T:0.46
Consensus pattern (36 bp):
TTTCTTTTGAAACAAAATTTTGTCTCTTTAAGATAA
Found at i:527009 original size:67 final size:67
Alignment explanation
Indices: 526932--527219 Score: 467
Period size: 67 Copynumber: 4.3 Consensus size: 67
526922 TTTGAGATTG
* *
526932 TTTCTGTTGAAACAAAAATCTTTAAGCTTGTTTCTTTTGAAACAAAATTTTGTCTCTCTTAAGAT
1 TTTCTTTTGAAACAAAAATCTTTAAGCTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGAT
526997 AA
66 AA
*
526999 TTTCTTTTGAAACAAAAATCTTTAAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGAT
1 TTTCTTTTGAAACAAAAATCTTTAAGCTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGAT
527064 AA
66 AA
* *
527066 TTTCTTTTGAAACAAAAATCTTTGAG-TGTGTTTCTTTGGAAACAAAATTTTGTCTCTTTTAAGA
1 TTTCTTTTGAAACAAAAATCTTTAAGCT-TGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGA
527130 TAA
65 TAA
* * *
527133 TTTCTTTTGAAACAAAAATCTTTGAGTTTGTTTCTTTGGAAACAACATTTTGTCTCTCTTAAGAT
1 TTTCTTTTGAAACAAAAATCTTTAAGCTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGAT
527198 AA
66 AA
527200 TTTCTTTT--AA-AAAAATCTTT
1 TTTCTTTTGAAACAAAAATCTTT
527220 GAATCTGTTT
Statistics
Matches: 212, Mismatches: 7, Indels: 7
0.94 0.03 0.03
Matches are distributed among these distances:
64 10 0.05
65 2 0.01
66 1 0.00
67 198 0.93
68 1 0.00
ACGTcount: A:0.32, C:0.12, G:0.11, T:0.45
Consensus pattern (67 bp):
TTTCTTTTGAAACAAAAATCTTTAAGCTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGAT
AA
Found at i:527662 original size:66 final size:66
Alignment explanation
Indices: 527456--527685 Score: 242
Period size: 66 Copynumber: 3.5 Consensus size: 66
527446 GTGATTCATT
* * ** *
527456 TTTGAGTAT-GTTTCTTTTGAAACAAAATTTTATCTCTTAAAGACAATTTCTTTTGAAAA-A---
1 TTTGAG-ATCGTTTCTATTGAAACAAAATTTTGTCTC-TCGAGACAACTTCTTTTGAAAATACCC
527516 ATC-
64 A-CA
* * * *
527519 TATGAGTTTGTTTCCT-TTGAAACAAAATTTTGTCTCTCGAGACAACTTCTTTTGAAGATACCCA
1 TTTGAGATCGTTT-CTATTGAAACAAAATTTTGTCTCTCGAGACAACTTCTTTTGAAAATACCCA
527583 CA
65 CA
* * *
527585 TTTGATATCGTTTCTATTGAAACAAAATTTTGTCTCTCGAGACAACTTTTTTTGAAAATGCCCAC
1 TTTGAGATCGTTTCTATTGAAACAAAATTTTGTCTCTCGAGACAACTTCTTTTGAAAATACCCAC
*
527650 C
66 A
*
527651 TTTGAGATCGTTTCTATTAAAAC-AAATTTTGTCTC
1 TTTGAGATCGTTTCTATTGAAACAAAATTTTGTCTC
527686 GCATGAGACA
Statistics
Matches: 142, Mismatches: 17, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
62 19 0.13
63 29 0.20
64 2 0.01
65 15 0.11
66 77 0.54
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.41
Consensus pattern (66 bp):
TTTGAGATCGTTTCTATTGAAACAAAATTTTGTCTCTCGAGACAACTTCTTTTGAAAATACCCAC
A
Found at i:528302 original size:43 final size:44
Alignment explanation
Indices: 528191--528494 Score: 203
Period size: 46 Copynumber: 6.9 Consensus size: 44
528181 TTTGTCACCC
* *
528191 TAGATAACCAG-CCGTCCTCATCACGTAGGAACCGTGTTATCACCTT
1 TAGATAACCAGACC-TCCTCATCACGTAGGAACCGTGTCAT-ACC-A
** * * * *
528237 TAGATGGCCAGAACTCTTCATCACGTATGAGCCGTGTCA-ACCA
1 TAGATAACCAGACCTCCTCATCACGTAGGAACCGTGTCATACCA
* *
528280 TAGATAACCAG-CCGTCCTCATCACGTAGGAACCGTGTTATCACCTT
1 TAGATAACCAGACC-TCCTCATCACGTAGGAACCGTGTCAT-ACC-A
** * * * * *
528326 TAGATGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATTCC-
1 TAGATAACCAGACCTCCTCATCACGTAGGAACCGTGTCATACCA
** * * *
528369 CCG---ACCAGATCTCTTCATCACGTAGGAGCCGTGTCA-ACCA
1 TAGATAACCAGACCTCCTCATCACGTAGGAACCGTGTCATACCA
* *
528409 TAGATAACCAG-CCGTCCTCATCACGTAGGAACCGTGTTATCACCTT
1 TAGATAACCAGACC-TCCTCATCACGTAGGAACCGTGTCAT-ACC-A
* * * *
528455 TAGATAGCCAAGAACTCTTCATCACGTAGGAGCCGTGTCA
1 TAGATAACC-AGACCTCCTCATCACGTAGGAACCGTGTCA
528495 CCTTTAGACG
Statistics
Matches: 200, Mismatches: 42, Indels: 31
0.73 0.15 0.11
Matches are distributed among these distances:
39 2 0.01
40 31 0.16
42 2 0.01
43 58 0.29
44 3 0.01
45 8 0.04
46 69 0.34
47 26 0.13
48 1 0.00
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (44 bp):
TAGATAACCAGACCTCCTCATCACGTAGGAACCGTGTCATACCA
Found at i:528342 original size:89 final size:89
Alignment explanation
Indices: 528183--528364 Score: 348
Period size: 89 Copynumber: 2.1 Consensus size: 89
528173 TCTTTGAGTT
*
528183 TGTC-ACCCTAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCA
1 TGTCAACCATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCA
528247 GAACTCTTCATCACGTATGAGCCG
66 GAACTCTTCATCACGTATGAGCCG
528271 TGTCAACCATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCA
1 TGTCAACCATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCA
528336 GAACTCTTCATCACGTATGAGCCG
66 GAACTCTTCATCACGTATGAGCCG
528360 TGTCA
1 TGTCA
528365 TTCCCCGACC
Statistics
Matches: 92, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
88 4 0.04
89 88 0.96
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (89 bp):
TGTCAACCATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCA
GAACTCTTCATCACGTATGAGCCG
Found at i:528427 original size:129 final size:130
Alignment explanation
Indices: 528244--528494 Score: 459
Period size: 129 Copynumber: 1.9 Consensus size: 130
528234 CTTTAGATGG
*
528244 CCAGAACTCTTCATCACGTATGAGCCGTGTCAACCATAGATAACCAGCCGTCCTCATCACGTAGG
1 CCAGAACTCTTCATCACGTAGGAGCCGTGTCAACCATAGATAACCAGCCGTCCTCATCACGTAGG
* *
528309 AACCGTGTTATCACCTTTAGATGGCC-AGAACTCTTCATCACGTATGAGCCGTGTCATTCCCCGA
66 AACCGTGTTATCACCTTTAGATAGCCAAGAACTCTTCATCACGTAGGAGCCGTGTCATTCCCCGA
*
528373 CCAGATCTCTTCATCACGTAGGAGCCGTGTCAACCATAGATAACCAGCCGTCCTCATCACGTAGG
1 CCAGAACTCTTCATCACGTAGGAGCCGTGTCAACCATAGATAACCAGCCGTCCTCATCACGTAGG
528438 AACCGTGTTATCACCTTTAGATAGCCAAGAACTCTTCATCACGTAGGAGCCGTGTCA
66 AACCGTGTTATCACCTTTAGATAGCCAAGAACTCTTCATCACGTAGGAGCCGTGTCA
528495 CCTTTAGACG
Statistics
Matches: 117, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
129 88 0.75
130 29 0.25
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.24
Consensus pattern (130 bp):
CCAGAACTCTTCATCACGTAGGAGCCGTGTCAACCATAGATAACCAGCCGTCCTCATCACGTAGG
AACCGTGTTATCACCTTTAGATAGCCAAGAACTCTTCATCACGTAGGAGCCGTGTCATTCCCCGA
Found at i:528479 original size:47 final size:43
Alignment explanation
Indices: 528208--528525 Score: 161
Period size: 43 Copynumber: 7.2 Consensus size: 43
528198 CCAGCCGTCC
* * *
528208 TCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCT
1 TCATCACGTAGGAACCGTG---TCACCTTTAGAAGACCAAAACTCT
* * * ** *
528254 TCATCACGTATGAGCCGTGTCAACC-ATAGATA-ACC-AGCCGTCC
1 TCATCACGTAGGAACCGTGTC-ACCTTTAGA-AGACCAAAAC-TCT
* * *
528297 TCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCT
1 TCATCACGTAGGAACCGTG---TCACCTTTAGAAGACCAAAACTCT
* * **** * *
528343 TCATCACGTATGAGCCGTGTCA---TTCCCCGACCAGATCTCT
1 TCATCACGTAGGAACCGTGTCACCTTTAGAAGACCAAAACTCT
* * ** *
528383 TCATCACGTAGGAGCCGTGTCAACC-ATAGATA-ACC-AGCCGTCC
1 TCATCACGTAGGAACCGTGTC-ACCTTTAGA-AGACCAAAAC-TCT
528426 TCATCACGTAGGAACCGTGTTATCACCTTTAGATAG-CCAAGAACTCT
1 TCATCACGTAGGAACCGTG---TCACCTTTAGA-AGACCAA-AACTCT
* * *
528473 TCATCACGTAGGAGCCGTGTCACCTTTAGACGACCCAAACTCT
1 TCATCACGTAGGAACCGTGTCACCTTTAGAAGACCAAAACTCT
528516 TCATCACGTA
1 TCATCACGTA
528526 TGAGCAGTGT
Statistics
Matches: 206, Mismatches: 44, Indels: 47
0.69 0.15 0.16
Matches are distributed among these distances:
40 32 0.16
41 1 0.00
42 2 0.01
43 71 0.34
44 17 0.08
45 6 0.03
46 54 0.26
47 22 0.11
48 1 0.00
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (43 bp):
TCATCACGTAGGAACCGTGTCACCTTTAGAAGACCAAAACTCT
Found at i:528708 original size:3 final size:3
Alignment explanation
Indices: 528696--528746 Score: 68
Period size: 3 Copynumber: 17.0 Consensus size: 3
528686 TTTTTTATCG
*
528696 TTA TTT TTA TTA TTA TTA TTA TTA TTA TTTA TTA TTA -TA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA
*
528741 ATA TTA
1 TTA TTA
528747 CATATTACAT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
2 2 0.05
3 37 0.88
4 3 0.07
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:528752 original size:24 final size:25
Alignment explanation
Indices: 528702--528753 Score: 70
Period size: 24 Copynumber: 2.1 Consensus size: 25
528692 ATCGTTATTT
* **
528702 TTATTATTATTATTATTATTATTTA
1 TTATTATTATTATTAATATTACATA
528727 TTATTA-TATTATTAATATTACATA
1 TTATTATTATTATTAATATTACATA
528751 TTA
1 TTA
528754 CATATTTTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 18 0.75
25 6 0.25
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.62
Consensus pattern (25 bp):
TTATTATTATTATTAATATTACATA
Found at i:530881 original size:22 final size:22
Alignment explanation
Indices: 530856--530899 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
530846 TCAAACGATG
*
530856 CAATATGTGTTATTTTAAGTGA
1 CAATATATGTTATTTTAAGTGA
* * *
530878 CAATTTATTTTATTTTATGTGA
1 CAATATATGTTATTTTAAGTGA
530900 ATGTAAATTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.30, C:0.05, G:0.14, T:0.52
Consensus pattern (22 bp):
CAATATATGTTATTTTAAGTGA
Found at i:536782 original size:12 final size:12
Alignment explanation
Indices: 536765--536794 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
536755 AAGAGAAGAG
536765 ATTTTCATTCTT
1 ATTTTCATTCTT
536777 ATTTTCATTCTT
1 ATTTTCATTCTT
536789 ATTTTC
1 ATTTTC
536795 CTTTCTCTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.17, C:0.17, G:0.00, T:0.67
Consensus pattern (12 bp):
ATTTTCATTCTT
Found at i:537708 original size:20 final size:20
Alignment explanation
Indices: 537678--537725 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
537668 AATGATTTTC
*
537678 TTTTG-AAAGCAAAATTG-GA
1 TTTTGAAAAGCAAAA-TGAAA
537697 TTTTGAAAAGCAAAATGAAA
1 TTTTGAAAAGCAAAATGAAA
537717 TTTTGAAAA
1 TTTTGAAAA
537726 ATGATTTTGA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 7 0.27
20 19 0.73
ACGTcount: A:0.48, C:0.04, G:0.17, T:0.31
Consensus pattern (20 bp):
TTTTGAAAAGCAAAATGAAA
Found at i:546602 original size:20 final size:20
Alignment explanation
Indices: 546577--546620 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
546567 CACTTGGCTA
* *
546577 AGAATCATGTATACCGTGCT
1 AGAATCAGGTATACCGTACT
*
546597 AGAATCAGGTATATCGTACT
1 AGAATCAGGTATACCGTACT
546617 AGAA
1 AGAA
546621 CCAAGCATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.27
Consensus pattern (20 bp):
AGAATCAGGTATACCGTACT
Found at i:547729 original size:42 final size:42
Alignment explanation
Indices: 547670--547754 Score: 161
Period size: 42 Copynumber: 2.0 Consensus size: 42
547660 AACTACACTT
*
547670 AGTGGAAAATCCCCAGGGTAATGATTCTCCCAATGAACAACA
1 AGTGGAAAATCCCCAGGGTAATGATTCTCCCAAGGAACAACA
547712 AGTGGAAAATCCCCAGGGTAATGATTCTCCCAAGGAACAACA
1 AGTGGAAAATCCCCAGGGTAATGATTCTCCCAAGGAACAACA
547754 A
1 A
547755 CGACAAAGAT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.39, C:0.24, G:0.20, T:0.18
Consensus pattern (42 bp):
AGTGGAAAATCCCCAGGGTAATGATTCTCCCAAGGAACAACA
Found at i:550569 original size:63 final size:63
Alignment explanation
Indices: 550484--550607 Score: 194
Period size: 63 Copynumber: 2.0 Consensus size: 63
550474 GTGTGGCTAG
* * * *
550484 AGCATTAGAATATATTATCTTTCATCACTATTGTTCCCACACATTTACAAGAGACATTTAAGT
1 AGCATTAGAATATATTACCTTTCATCACCATTGCTCCCACACACTTACAAGAGACATTTAAGT
* *
550547 AGCATTAGAATATCTTCCCTTTCATCACCATTGCTCCCACACACTTACAAGAGACATTTAA
1 AGCATTAGAATATATTACCTTTCATCACCATTGCTCCCACACACTTACAAGAGACATTTAA
550608 CTATATTTTG
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
63 55 1.00
ACGTcount: A:0.34, C:0.24, G:0.09, T:0.33
Consensus pattern (63 bp):
AGCATTAGAATATATTACCTTTCATCACCATTGCTCCCACACACTTACAAGAGACATTTAAGT
Found at i:551206 original size:15 final size:15
Alignment explanation
Indices: 551182--551221 Score: 71
Period size: 15 Copynumber: 2.7 Consensus size: 15
551172 CAAGAGATAA
*
551182 TCTTTACACTCCCTC
1 TCTTTTCACTCCCTC
551197 TCTTTTCACTCCCTC
1 TCTTTTCACTCCCTC
551212 TCTTTTCACT
1 TCTTTTCACT
551222 TGGCTAAGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.10, C:0.42, G:0.00, T:0.47
Consensus pattern (15 bp):
TCTTTTCACTCCCTC
Found at i:553209 original size:20 final size:20
Alignment explanation
Indices: 553176--553215 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
553166 TCATTTTGAT
*
553176 TTTCAAAATCAATT-TTTTC
1 TTTCAAAACCAATTATTTTC
553195 TTTCAAAACCAAATTATTTTC
1 TTTCAAAACC-AATTATTTTC
553216 AACTTTAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 9 0.50
20 4 0.22
21 5 0.28
ACGTcount: A:0.35, C:0.17, G:0.00, T:0.47
Consensus pattern (20 bp):
TTTCAAAACCAATTATTTTC
Found at i:564805 original size:31 final size:31
Alignment explanation
Indices: 564734--564813 Score: 124
Period size: 31 Copynumber: 2.6 Consensus size: 31
564724 ATTTAACAAA
* * **
564734 AAGGGGGAGAAAATTTAAGATGTGCTATAGT
1 AAGGGGGAGTAAGTTTTTGATGTGCTATAGT
564765 AAGGGGGAGTAAGTTTTTGATGTGCTATAGT
1 AAGGGGGAGTAAGTTTTTGATGTGCTATAGT
564796 AAGGGGGAGTAAGTTTTT
1 AAGGGGGAGTAAGTTTTT
564814 CAAAATCAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.31, C:0.03, G:0.35, T:0.31
Consensus pattern (31 bp):
AAGGGGGAGTAAGTTTTTGATGTGCTATAGT
Found at i:567896 original size:33 final size:32
Alignment explanation
Indices: 567842--568083 Score: 134
Period size: 33 Copynumber: 7.2 Consensus size: 32
567832 AATTTTGGCT
* * *
567842 TCGGGTCTTTTAAAGTTTGATATTTGGGTCGGG
1 TCGGGT-TTTTTAAGTGTGATATTCGGGTCGGG
567875 TCGGGTTTTTGTAAGTGTGATATTCGGGTCGGG
1 TCGGGTTTTT-TAAGTGTGATATTCGGGTCGGG
* ** **
567908 TCAGGATTTTTTCAA---AAATATTCGGGATCCTG
1 TC-GGGTTTTTT-AAGTGTGATATTCGGG-TCGGG
* *** * * *
567940 TCGGATTTTTTAA--AAAAAATTTGGGTTCAGG
1 TCGGGTTTTTTAAGTGTGATATTCGGG-TCGGG
*
567971 TCAGGTTTTTTAAGTGTGATATTCGGGTCGGG
1 TCGGGTTTTTTAAGTGTGATATTCGGGTCGGG
*
568003 TTTGGGGCAGGGTTTTTTACGTGTGATATTCGGGTCGGG
1 --T----C-GGGTTTTTTAAGTGTGATATTCGGGTCGGG
* *
568042 TCGGGGTTTTTTTAAGTTTGATATTTGGGTCGGG
1 TC-GGG-TTTTTTAAGTGTGATATTCGGGTCGGG
*
568076 TTGGGTTT
1 TCGGGTTT
568084 AGGGTGAAAA
Statistics
Matches: 166, Mismatches: 28, Indels: 31
0.74 0.12 0.14
Matches are distributed among these distances:
30 2 0.01
31 41 0.25
32 16 0.10
33 42 0.25
34 35 0.21
37 1 0.01
38 1 0.01
39 28 0.17
ACGTcount: A:0.17, C:0.09, G:0.33, T:0.41
Consensus pattern (32 bp):
TCGGGTTTTTTAAGTGTGATATTCGGGTCGGG
Found at i:567932 original size:31 final size:32
Alignment explanation
Indices: 567894--567983 Score: 96
Period size: 31 Copynumber: 2.9 Consensus size: 32
567884 TGTAAGTGTG
* *
567894 ATATTCGGG-TCGGGTCAGGATTTTTTCAAAA
1 ATATTCGGGATCAGGTCAGGATTTTTTAAAAA
**
567925 ATATTCGGGATCCTGTC-GGATTTTTTAAAAA
1 ATATTCGGGATCAGGTCAGGATTTTTTAAAAA
* * *
567956 AAATTTGGGTTCAGGTCAGG-TTTTTTAA
1 ATATTCGGGATCAGGTCAGGATTTTTTAA
567984 GTGTGATATT
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
31 42 0.86
32 7 0.14
ACGTcount: A:0.27, C:0.11, G:0.23, T:0.39
Consensus pattern (32 bp):
ATATTCGGGATCAGGTCAGGATTTTTTAAAAA
Found at i:568053 original size:34 final size:36
Alignment explanation
Indices: 567974--568076 Score: 120
Period size: 39 Copynumber: 2.8 Consensus size: 36
567964 GTTCAGGTCA
*
567974 GGTTTTTTAAGTGTGATATTCGGGTCGGGTTTGGGGCAG
1 GGTTTTTTAAGTGTGATATTCGGGTCGGG--TGCGG-AG
*
568013 GGTTTTTTACGTGTGATATTCGGGTCGGGT-CGG-G
1 GGTTTTTTAAGTGTGATATTCGGGTCGGGTGCGGAG
* * *
568047 GTTTTTTTAAGTTTGATATTTGGGTCGGGT
1 GGTTTTTTAAGTGTGATATTCGGGTCGGGT
568077 TGGGTTTAGG
Statistics
Matches: 58, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
34 27 0.47
36 2 0.03
37 1 0.02
39 28 0.48
ACGTcount: A:0.12, C:0.08, G:0.38, T:0.43
Consensus pattern (36 bp):
GGTTTTTTAAGTGTGATATTCGGGTCGGGTGCGGAG
Found at i:573045 original size:30 final size:29
Alignment explanation
Indices: 572951--573047 Score: 104
Period size: 30 Copynumber: 3.2 Consensus size: 29
572941 ACCTTTACCT
*
572951 TTCACTTTATTCATTTCATAGCATGTTTCA
1 TTCA-TTTATTCATTTCATAGCATGTATCA
* ** *
572981 TTCACTTCATTTGTTTCATAGCATGTATTA
1 TTCA-TTTATTCATTTCATAGCATGTATCA
* *
573011 TTCATTTAATTCATTTCGTAGCCTGTATCA
1 TTCATTT-ATTCATTTCATAGCATGTATCA
573041 TTCATTT
1 TTCATTT
573048 TCATCTAATA
Statistics
Matches: 55, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
29 2 0.04
30 53 0.96
ACGTcount: A:0.23, C:0.19, G:0.08, T:0.51
Consensus pattern (29 bp):
TTCATTTATTCATTTCATAGCATGTATCA
Found at i:573558 original size:20 final size:20
Alignment explanation
Indices: 573510--573562 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
573500 TAATACAAAA
* *
573510 TCGCAACGAGATACTGACTT
1 TCGCAACGCGATTCTGACTT
573530 TCGCAACGCGATTCTGACTT
1 TCGCAACGCGATTCTGACTT
573550 TCGCAACGCGATT
1 TCGCAACGCGATT
573563 TACATAGCGC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (20 bp):
TCGCAACGCGATTCTGACTT
Found at i:574171 original size:19 final size:19
Alignment explanation
Indices: 574149--574293 Score: 139
Period size: 19 Copynumber: 8.1 Consensus size: 19
574139 GAAACCAAAA
*
574149 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
574168 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
574182 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
574201 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
574220 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* **
574234 TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
* *
574253 TCGCGTTGCAATTCTCATT
1 TCGCGTTGCGATTTTCATT
*
574272 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
574292 TC
1 TC
574294 AACCAAAAGA
Statistics
Matches: 103, Mismatches: 12, Indels: 22
0.75 0.09 0.16
Matches are distributed among these distances:
14 20 0.19
16 5 0.05
17 6 0.06
19 56 0.54
20 16 0.16
ACGTcount: A:0.12, C:0.23, G:0.19, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:574232 original size:52 final size:52
Alignment explanation
Indices: 574149--574285 Score: 211
Period size: 52 Copynumber: 2.6 Consensus size: 52
574139 GAAACCAAAA
* **
574149 TCGCATTGCGATTTTCATTTCGCGTTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCTCGTTGCGATAGTCATT
574201 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCTCGTTGCGATAGTCATT
* * *
574253 TCGCGTTGCAATTCTCATTATCTCGTTGCGATT
1 TCGCGTTGCGATTTTCATT-TCGCGTTGCGATT
574286 TTCATTTCAA
Statistics
Matches: 78, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
52 66 0.85
53 12 0.15
ACGTcount: A:0.12, C:0.23, G:0.20, T:0.44
Consensus pattern (52 bp):
TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCTCGTTGCGATAGTCATT
Found at i:574241 original size:33 final size:33
Alignment explanation
Indices: 574204--574268 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
574194 TTTCATTTCG
** *
574204 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
1 CGTTGCGATAGTCATTTCGCGTTGCAATTCTCT
574237 CGTTGCGATAGTCATTTCGCGTTGCAATTCTC
1 CGTTGCGATAGTCATTTCGCGTTGCAATTCTC
574269 ATTATCTCGT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.12, C:0.25, G:0.22, T:0.42
Consensus pattern (33 bp):
CGTTGCGATAGTCATTTCGCGTTGCAATTCTCT
Found at i:575844 original size:63 final size:63
Alignment explanation
Indices: 575745--575875 Score: 262
Period size: 63 Copynumber: 2.1 Consensus size: 63
575735 GTTACGTGAT
575745 GAGGTCAATGCCTTGCGTGAGGAGATCGGTACTCTACGCGATAACGATGGTGCATGGCGTGTG
1 GAGGTCAATGCCTTGCGTGAGGAGATCGGTACTCTACGCGATAACGATGGTGCATGGCGTGTG
575808 GAGGTCAATGCCTTGCGTGAGGAGATCGGTACTCTACGCGATAACGATGGTGCATGGCGTGTG
1 GAGGTCAATGCCTTGCGTGAGGAGATCGGTACTCTACGCGATAACGATGGTGCATGGCGTGTG
575871 GAGGT
1 GAGGT
575876 GTCTACTTTA
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 68 1.00
ACGTcount: A:0.21, C:0.18, G:0.37, T:0.24
Consensus pattern (63 bp):
GAGGTCAATGCCTTGCGTGAGGAGATCGGTACTCTACGCGATAACGATGGTGCATGGCGTGTG
Found at i:576204 original size:95 final size:89
Alignment explanation
Indices: 576042--576228 Score: 293
Period size: 91 Copynumber: 2.0 Consensus size: 89
576032 TAGATTGCTT
*
576042 AGTAAATTTATTCGGTTGCTGCCAATACTGTTAAATTGTTTATTAACACTGTGAAGTTAGTATTT
1 AGTAAATTTATTCGGTTGCTGCCAATACTGCTAAATTGTTTATTAACACTGTGAAGTTAGTATTT
576107 GTCTTTTTGTTTTGTCTTTTGGTTGA
66 GTC--TTTGTTTTGTCTTTTGGTTGA
* *
576133 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATACTGCTAAA-T-TGT-TT-ATTAACACTGTGAAGTTAGT
576198 ATTTGTCTTTGTTTTGTCTTTTGGTTGA
62 ATTTGTCTTTGTTTTGTCTTTTGGTTGA
576226 AGT
1 AGT
576229 TTTGAAATAT
Statistics
Matches: 89, Mismatches: 3, Indels: 6
0.91 0.03 0.06
Matches are distributed among these distances:
91 33 0.37
92 1 0.01
93 27 0.30
94 2 0.02
95 26 0.29
ACGTcount: A:0.21, C:0.11, G:0.19, T:0.48
Consensus pattern (89 bp):
AGTAAATTTATTCGGTTGCTGCCAATACTGCTAAATTGTTTATTAACACTGTGAAGTTAGTATTT
GTCTTTGTTTTGTCTTTTGGTTGA
Found at i:576524 original size:42 final size:41
Alignment explanation
Indices: 576448--576650 Score: 183
Period size: 42 Copynumber: 4.9 Consensus size: 41
576438 GACTCGCCTG
* * * *
576448 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCACCTA
1 TCATCCCTCAAGAGTCCACTCCCACCATTCAAGAGGC-CCTA
* * * * *
576490 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTG
1 TCATCCCTCAAGAGTCCACTCCCACCATTCAAGAGGCC-CTA
* * *
576532 TCATCCCTCAAGAGTCCACTCCTATCATTGAAGAGGCCCCTA
1 TCATCCCTCAAGAGTCCACTCCCACCATTCAAGAGG-CCCTA
* * * *
576574 TCATTCCTCGAGAGTCCCCTCCCACCATTCAAGAGGCCACTG
1 TCATCCCTCAAGAGTCCACTCCCACCATTCAAGAGGCC-CTA
** *
576616 TCATCGTTGAAGAGGTCC-CTCCCACCATTCAAGAG
1 TCATCCCTCAAGA-GTCCACTCCCACCATTCAAGAG
576651 CCCGATTCAC
Statistics
Matches: 130, Mismatches: 27, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
41 3 0.02
42 121 0.93
43 6 0.05
ACGTcount: A:0.24, C:0.36, G:0.17, T:0.23
Consensus pattern (41 bp):
TCATCCCTCAAGAGTCCACTCCCACCATTCAAGAGGCCCTA
Found at i:576608 original size:21 final size:21
Alignment explanation
Indices: 576584--576650 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
576574 TCATTCCTCG
576584 AGAGTCCCCTCCCACCATTCA
1 AGAGTCCCCTCCCACCATTCA
* * ** * * *
576605 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCATTCA
576626 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCATTCA
576647 AGAG
1 AGAG
576651 CCCGATTCAC
Statistics
Matches: 31, Mismatches: 14, Indels: 3
0.65 0.29 0.06
Matches are distributed among these distances:
20 1 0.03
21 29 0.94
22 1 0.03
ACGTcount: A:0.25, C:0.36, G:0.19, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCATTCA
Found at i:576629 original size:84 final size:84
Alignment explanation
Indices: 576445--576620 Score: 325
Period size: 84 Copynumber: 2.1 Consensus size: 84
576435 CCCGACTCGC
*
576445 CTGTCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCACCTATCATTCCTCGAGAGTCCCCT
1 CTGTCATCCCTCAAGAGTCCACTCCTATCATTGAAGAGGCACCTATCATTCCTCGAGAGTCCCCT
*
576510 CCCACCGTTCAAGAGGCCA
66 CCCACCATTCAAGAGGCCA
*
576529 CTGTCATCCCTCAAGAGTCCACTCCTATCATTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
1 CTGTCATCCCTCAAGAGTCCACTCCTATCATTGAAGAGGCACCTATCATTCCTCGAGAGTCCCCT
576594 CCCACCATTCAAGAGGCCA
66 CCCACCATTCAAGAGGCCA
576613 CTGTCATC
1 CTGTCATC
576621 GTTGAAGAGG
Statistics
Matches: 89, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
84 89 1.00
ACGTcount: A:0.23, C:0.38, G:0.16, T:0.23
Consensus pattern (84 bp):
CTGTCATCCCTCAAGAGTCCACTCCTATCATTGAAGAGGCACCTATCATTCCTCGAGAGTCCCCT
CCCACCATTCAAGAGGCCA
Found at i:576650 original size:84 final size:84
Alignment explanation
Indices: 576445--576650 Score: 288
Period size: 84 Copynumber: 2.5 Consensus size: 84
576435 CCCGACTCGC
* * * *
576445 CTGTCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCACCTATCATTCCTCGAGAGTCCCCT
1 CTGTCATCCCTCAAGAGTCCACTCCCACCATTCAAGAGGCACCTATCATTCCTCGAGAGTCCCCT
*
576510 CCCACCGTTCAAGAGGCCA
66 CCCACCATTCAAGAGGCCA
* * * *
576529 CTGTCATCCCTCAAGAGTCCACTCCTATCATTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
1 CTGTCATCCCTCAAGAGTCCACTCCCACCATTCAAGAGGCACCTATCATTCCTCGAGAGTCCCCT
576594 CCCACCATTCAAGAGGCCA
66 CCCACCATTCAAGAGGCCA
** *
576613 CTGTCATCGTTGAAGAGGTCC-CTCCCACCATTCAAGAG
1 CTGTCATCCCTCAAGA-GTCCACTCCCACCATTCAAGAG
576651 CCCGATTCAC
Statistics
Matches: 112, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
84 108 0.96
85 4 0.04
ACGTcount: A:0.23, C:0.36, G:0.17, T:0.23
Consensus pattern (84 bp):
CTGTCATCCCTCAAGAGTCCACTCCCACCATTCAAGAGGCACCTATCATTCCTCGAGAGTCCCCT
CCCACCATTCAAGAGGCCA
Found at i:578022 original size:14 final size:14
Alignment explanation
Indices: 578003--578038 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
577993 ATTGTTTAAT
578003 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
578017 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
578031 TGATTTGT
1 TGATTTGT
578039 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:578238 original size:19 final size:19
Alignment explanation
Indices: 578216--578346 Score: 94
Period size: 19 Copynumber: 7.7 Consensus size: 19
578206 CGAAATTAAA
*
578216 TTCGCGTTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
*
578235 TTCGCATTGCGA--TTC-C
1 TTCGCATTGCGATTTTCAT
*
578251 CTCG--TTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
*
578268 TTCGCATTGCGA-----AA
1 TTCGCATTGCGATTTTCAT
* *
578282 TTAGCGTTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
578301 TTCGCATTGCGA--TTC-T
1 TTCGCATTGCGATTTTCAT
*
578317 CTCG--TTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
578334 TTCGCATTGCGAT
1 TTCGCATTGCGAT
578347 AGTAATTTCC
Statistics
Matches: 84, Mismatches: 13, Indels: 30
0.66 0.10 0.24
Matches are distributed among these distances:
14 23 0.27
16 13 0.15
17 13 0.15
19 35 0.42
ACGTcount: A:0.15, C:0.23, G:0.20, T:0.43
Consensus pattern (19 bp):
TTCGCATTGCGATTTTCAT
Found at i:578262 original size:33 final size:32
Alignment explanation
Indices: 578220--578346 Score: 193
Period size: 33 Copynumber: 3.9 Consensus size: 32
578210 ATTAAATTCG
578220 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATT-CCT
**
578253 CGTTGCGATTTTCATTTCGCATTGCGAAATT-AG
1 CGTTGCGATTTTCATTTCGCATTGCG--ATTCCT
578286 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTC-CT
578319 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
578347 AGTAATTTCC
Statistics
Matches: 86, Mismatches: 4, Indels: 8
0.88 0.04 0.08
Matches are distributed among these distances:
31 3 0.03
33 80 0.93
35 3 0.03
ACGTcount: A:0.15, C:0.23, G:0.20, T:0.43
Consensus pattern (32 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCT
Found at i:578298 original size:66 final size:66
Alignment explanation
Indices: 578213--578345 Score: 248
Period size: 66 Copynumber: 2.0 Consensus size: 66
578203 ACGCGAAATT
*
578213 AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
578278 G
66 G
*
578279 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
578344 G
66 G
578345 A
1 A
578346 TAGTAATTTC
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 65 1.00
ACGTcount: A:0.17, C:0.23, G:0.20, T:0.41
Consensus pattern (66 bp):
AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
G
Found at i:580655 original size:12 final size:12
Alignment explanation
Indices: 580638--580662 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
580628 TCTTCGGGGA
580638 CTTTTTCTTCTT
1 CTTTTTCTTCTT
580650 CTTTTTCTTCTT
1 CTTTTTCTTCTT
580662 C
1 C
580663 AAGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:581903 original size:20 final size:20
Alignment explanation
Indices: 581878--581967 Score: 128
Period size: 20 Copynumber: 4.5 Consensus size: 20
581868 ATTCATTTGA
* *
581878 CTATCGCAATGCGACAATGG
1 CTATCGCAACGCGAAAATGG
581898 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
* * *
581918 CGATCACAACGCAAAAATGG
1 CTATCGCAACGCGAAAATGG
581938 CTATCGCAACGCG-AAATGG
1 CTATCGCAACGCGAAAATGG
581957 CTATCGCAACG
1 CTATCGCAACG
581968 ACAAAATCGC
Statistics
Matches: 62, Mismatches: 8, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
19 17 0.27
20 45 0.73
ACGTcount: A:0.34, C:0.27, G:0.23, T:0.16
Consensus pattern (20 bp):
CTATCGCAACGCGAAAATGG
Found at i:582034 original size:19 final size:19
Alignment explanation
Indices: 581993--582057 Score: 95
Period size: 19 Copynumber: 3.7 Consensus size: 19
581983 GAAATGAAAA
581993 TCGCATTGCGATTTTC---
1 TCGCATTGCGATTTTCATT
582009 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
582026 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
582045 TCGCATTGCGATT
1 TCGCATTGCGATT
582058 CTCTCGTTGC
Statistics
Matches: 44, Mismatches: 0, Indels: 7
0.86 0.00 0.14
Matches are distributed among these distances:
14 11 0.25
16 3 0.07
17 3 0.07
19 27 0.61
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.46
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:582088 original size:20 final size:20
Alignment explanation
Indices: 582063--582101 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
582053 CGATTCTCTC
582063 GTTGCGATAGTCAGTTTTGT
1 GTTGCGATAGTCAGTTTTGT
*
582083 GTTGCGATAGTCTGTTTTG
1 GTTGCGATAGTCAGTTTTG
582102 CCTTCAACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.13, C:0.10, G:0.31, T:0.46
Consensus pattern (20 bp):
GTTGCGATAGTCAGTTTTGT
Found at i:582203 original size:14 final size:14
Alignment explanation
Indices: 582184--582220 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
582174 CATCAATTAA
582184 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
582198 ACAAATCATCTTTT
1 ACAAATCAACATTT
582212 ACAAATCAA
1 ACAAATCAA
582221 TTAAACAATC
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:584109 original size:20 final size:20
Alignment explanation
Indices: 584086--584132 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
584076 GAAACTTAAA
584086 ATCGCAACACAAAAATGACT
1 ATCGCAACACAAAAATGACT
* ** *
584106 ATCGCAACGCGGAAATGGCT
1 ATCGCAACACAAAAATGACT
584126 ATCGCAA
1 ATCGCAA
584133 TGCGAAATGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.40, C:0.26, G:0.19, T:0.15
Consensus pattern (20 bp):
ATCGCAACACAAAAATGACT
Found at i:584141 original size:19 final size:20
Alignment explanation
Indices: 584098--584153 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
584088 CGCAACACAA
584098 AAATGACTATCGCAACGCGG
1 AAATGACTATCGCAACGCGG
* *
584118 AAATGGCTATCGCAATGC-G
1 AAATGACTATCGCAACGCGG
**
584137 AAATGAAAATCGCAACG
1 AAATGACTATCGCAACG
584154 ACAAAATCGC
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 14 0.47
20 16 0.53
ACGTcount: A:0.39, C:0.21, G:0.23, T:0.16
Consensus pattern (20 bp):
AAATGACTATCGCAACGCGG
Found at i:584161 original size:14 final size:14
Alignment explanation
Indices: 584142--584199 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
584132 ATGCGAAATG
584142 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
584156 AAAATCGCAATGCGAA
1 AAAATCGCAA--CGAC
584172 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
584188 AAAATCGCAACG
1 AAAATCGCAACG
584200 CGAAACACAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.24, G:0.17, T:0.10
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:584184 original size:32 final size:33
Alignment explanation
Indices: 584126--584204 Score: 142
Period size: 32 Copynumber: 2.4 Consensus size: 33
584116 GGAAATGGCT
584126 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
584159 ATCGCAATGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
584191 ATCGCAACGCGAAA
1 ATCGCAATGCGAAA
584205 CACAAATCGC
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
32 29 0.64
33 16 0.36
ACGTcount: A:0.47, C:0.23, G:0.19, T:0.11
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:584252 original size:14 final size:14
Alignment explanation
Indices: 584233--584290 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
584223 TTTCATTTCG
584233 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
584247 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
584263 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
584279 CGTTGCGATTTT
1 CGTTGCGATTTT
584291 CATTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.10, C:0.17, G:0.24, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:584297 original size:33 final size:33
Alignment explanation
Indices: 584216--584306 Score: 166
Period size: 32 Copynumber: 2.8 Consensus size: 33
584206 ACAAATCGCA
*
584216 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
584249 TTGCGA-TTTCATTTCGCATTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
584281 TTGCGATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCATTGCGAT
584307 AGCCATTTCC
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
32 31 0.55
33 25 0.45
ACGTcount: A:0.12, C:0.19, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
Found at i:584325 original size:20 final size:19
Alignment explanation
Indices: 584291--584345 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
584281 TTGCGATTTT
*
584291 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
584310 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
*
584330 CATTTTCGTGTTGCGA
1 CA-TTTCGCGTTGCGA
584346 AAGTAAACTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.16
20 23 0.74
21 3 0.10
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:584852 original size:18 final size:18
Alignment explanation
Indices: 584826--584870 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
584816 GTCCATCAGA
*
584826 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGGCGAGG
*
584844 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
584862 TGATGGCTC
1 TGATGGCTC
584871 CCGAAGTGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.13, C:0.16, G:0.44, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGCGAGG
Found at i:586238 original size:20 final size:20
Alignment explanation
Indices: 586190--586248 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
586180 AATAGTTACT
**
586190 GAAAATGAAAATCGCAACAC
1 GAAAATGACTATCGCAACAC
*
586210 GAAAATGACTATCGCAACGC
1 GAAAATGACTATCGCAACAC
**
586230 GAATTTGACTATCGCAACA
1 GAAAATGACTATCGCAACA
586249 AGAGAATCGC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.44, C:0.22, G:0.17, T:0.17
Consensus pattern (20 bp):
GAAAATGACTATCGCAACAC
Found at i:586535 original size:21 final size:22
Alignment explanation
Indices: 586509--586551 Score: 79
Period size: 21 Copynumber: 2.0 Consensus size: 22
586499 GATGGAGATA
586509 GACGGATTTCG-CGGAGATGGG
1 GACGGATTTCGTCGGAGATGGG
586530 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGTCGGAGATGGG
586552 TGAGAGAGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 11 0.52
22 10 0.48
ACGTcount: A:0.19, C:0.14, G:0.47, T:0.21
Consensus pattern (22 bp):
GACGGATTTCGTCGGAGATGGG
Found at i:586825 original size:20 final size:19
Alignment explanation
Indices: 586719--586853 Score: 99
Period size: 20 Copynumber: 6.7 Consensus size: 19
586709 CGCTTTGAAA
*
586719 ATCGCATTGCGATTATGTATT
1 ATCGCATTGCGA-TA-GTAGT
* * *
586740 ATCGCGTTGCGAAAGTCAGA
1 ATCGCATTGCGATAGT-AGT
* *
586760 ATCGCGTTGCGAAAGTTAGT
1 ATCGCATTGCGATAG-TAGT
* * * *
586780 ATCTCGTTGCGATTTTGTATT
1 ATCGCATTGCGA--TAGTAGT
586801 ATCGCATTGCGATAGTAAGT
1 ATCGCATTGCGATAGT-AGT
586821 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGT-AGT
*
586841 ATCGCATTACGAT
1 ATCGCATTGCGAT
586854 TTTCCCAATT
Statistics
Matches: 94, Mismatches: 15, Indels: 11
0.78 0.12 0.09
Matches are distributed among these distances:
19 5 0.05
20 63 0.67
21 25 0.27
22 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (19 bp):
ATCGCATTGCGATAGTAGT
Found at i:586854 original size:61 final size:61
Alignment explanation
Indices: 586719--586856 Score: 177
Period size: 61 Copynumber: 2.3 Consensus size: 61
586709 CGCTTTGAAA
* * * * *
586719 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTTAGT
1 ATCGCATTGCGATTTTGTATTATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGT
* * * * *
586780 ATCTCGTTGCGATTTTGTATTATCGCATTGCGATAGTAAGTATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATTTTGTATTATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGT
*
586841 ATCGCATTACGATTTT
1 ATCGCATTGCGATTTT
586857 CCCAATTCGC
Statistics
Matches: 64, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
61 64 1.00
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.36
Consensus pattern (61 bp):
ATCGCATTGCGATTTTGTATTATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGT
Done.