Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 115 of 290
Found at i:35840424 original size:53 final size:54
Alignment explanation
Indices: 35840361--35840476 Score: 198
Period size: 54 Copynumber: 2.2 Consensus size: 54
35840351 GACGTCAAAA
*
35840361 CTAACAATCTTA-TTTTTTATATATATAACAAAAATTTAAGAGAAATTTGCATT
1 CTAACAATCTTATTTTTTTATATATATAACAAAAATTTAAGAGAAATTTACATT
35840414 CTAACAATCTTATTTTTTTATATATATAACAAAAATTTAAGAGAAATTTACATT
1 CTAACAATCTTATTTTTTTATATATATAACAAAAATTTAAGAGAAATTTACATT
* *
35840468 TTAAAAATC
1 CTAACAATC
35840477 CACCCCTAAA
Statistics
Matches: 59, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
53 12 0.20
54 47 0.80
ACGTcount: A:0.45, C:0.09, G:0.04, T:0.41
Consensus pattern (54 bp):
CTAACAATCTTATTTTTTTATATATATAACAAAAATTTAAGAGAAATTTACATT
Found at i:35842495 original size:33 final size:32
Alignment explanation
Indices: 35842435--35842511 Score: 95
Period size: 33 Copynumber: 2.4 Consensus size: 32
35842425 TAATTCTTAT
35842435 TTTATTGTTAATTTTACTATTATTTTAGAGGTA
1 TTTATTGTTAATTTTAC-ATTATTTTAGAGGTA
* *
35842468 TTTACTTGTTAAGTTTTA-ATTATTTTAGCGTTA
1 TTTA-TTGTTAA-TTTTACATTATTTTAGAGGTA
35842501 TTTATT-TTAAT
1 TTTATTGTTAAT
35842512 ATTTTTAGTA
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
30 1 0.03
31 4 0.10
32 2 0.05
33 21 0.52
34 7 0.17
35 5 0.12
ACGTcount: A:0.26, C:0.04, G:0.10, T:0.60
Consensus pattern (32 bp):
TTTATTGTTAATTTTACATTATTTTAGAGGTA
Found at i:35842856 original size:24 final size:23
Alignment explanation
Indices: 35842816--35842861 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
35842806 AACATACCCA
*
35842816 CATATTTATAATAATAAATAATAT
1 CATATTTACAATAATAAA-AATAT
35842840 CATATTCTACAAT-ATAAAAATA
1 CATATT-TACAATAATAAAAATA
35842862 ATGAAACAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 4 0.20
24 11 0.55
25 5 0.25
ACGTcount: A:0.54, C:0.09, G:0.00, T:0.37
Consensus pattern (23 bp):
CATATTTACAATAATAAAAATAT
Found at i:35843756 original size:18 final size:17
Alignment explanation
Indices: 35843733--35843782 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 17
35843723 TTATATTACT
35843733 ATAAAATATATATAATAC
1 ATAAAATATATATAA-AC
*
35843751 ATAAAAAATACTATAAAC
1 ATAAAATATA-TATAAAC
*
35843769 ATTAAAATAAATAT
1 A-TAAAATATATAT
35843783 TTCCCAATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 15 0.56
19 12 0.44
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (17 bp):
ATAAAATATATATAAAC
Found at i:35844683 original size:24 final size:24
Alignment explanation
Indices: 35844647--35844703 Score: 105
Period size: 24 Copynumber: 2.4 Consensus size: 24
35844637 ACACTACTCC
*
35844647 AACTGCACAGAGCTTCCCACCCTA
1 AACTGCACCGAGCTTCCCACCCTA
35844671 AACTGCACCGAGCTTCCCACCCTA
1 AACTGCACCGAGCTTCCCACCCTA
35844695 AACTGCACC
1 AACTGCACC
35844704 CTCCATTTCA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.28, C:0.44, G:0.12, T:0.16
Consensus pattern (24 bp):
AACTGCACCGAGCTTCCCACCCTA
Found at i:35853172 original size:40 final size:40
Alignment explanation
Indices: 35853113--35853204 Score: 134
Period size: 40 Copynumber: 2.3 Consensus size: 40
35853103 TATTCGAATG
* *
35853113 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
*
35853153 ATATCTGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
35853193 ATATCC-GGCTAA
1 ATATCCGGGCTAA
35853205 ATTCCGAAGG
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
39 6 0.13
40 39 0.83
41 2 0.04
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
Found at i:35861110 original size:40 final size:40
Alignment explanation
Indices: 35861055--35861149 Score: 172
Period size: 40 Copynumber: 2.4 Consensus size: 40
35861045 TATTCGAATG
35861055 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
35861095 ATATCCGAGCTAAGTCCTGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
35861135 ATATCCGGGCTAAGT
1 ATATCCGGGCTAAGT
35861150 ACCTTGATAA
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 52 1.00
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:35863882 original size:40 final size:40
Alignment explanation
Indices: 35863822--35863954 Score: 196
Period size: 40 Copynumber: 3.3 Consensus size: 40
35863812 AATGTCTCGT
* * *
35863822 ACACTAAGTGCCGTACATAGCCGAAGCTATCTC-AACTCGC
1 ACACTAAGTGCCATATATAGCCGAAGCTATGTCGAA-TCGC
*
35863862 ACATTAAGTGCCATATATAGCCGAAGCTATGTCGAATCGC
1 ACACTAAGTGCCATATATAGCCGAAGCTATGTCGAATCGC
* *
35863902 ACACTAAATGCCATATATAGCCGAAGCTATGTCGTATCGC
1 ACACTAAGTGCCATATATAGCCGAAGCTATGTCGAATCGC
35863942 ACACTAAGTGCCA
1 ACACTAAGTGCCA
35863955 CAAATAACCG
Statistics
Matches: 84, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
40 82 0.98
41 2 0.02
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.23
Consensus pattern (40 bp):
ACACTAAGTGCCATATATAGCCGAAGCTATGTCGAATCGC
Found at i:35866186 original size:23 final size:23
Alignment explanation
Indices: 35866159--35866263 Score: 99
Period size: 23 Copynumber: 4.6 Consensus size: 23
35866149 ACAGCTCGTA
*
35866159 AGAGCTTACTGTTTCAGCTCATT
1 AGAGCTTACTGTTTCAGCTCAAT
* * * *
35866182 GGAGCTTACCGATTAAGCTCGAA-
1 AGAGCTTACTGTTTCAGCTC-AAT
*
35866205 AGAGCTTACT-ATTCAGCTCAAT
1 AGAGCTTACTGTTTCAGCTCAAT
* *
35866227 -GAGCTTACCGTTTCCAACTCAAT
1 AGAGCTTACTGTTT-CAGCTCAAT
35866250 AGAGCTTACTGTTT
1 AGAGCTTACTGTTT
35866264 ATCAGTTTAG
Statistics
Matches: 65, Mismatches: 12, Indels: 9
0.76 0.14 0.10
Matches are distributed among these distances:
21 10 0.15
22 10 0.15
23 32 0.49
24 13 0.20
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (23 bp):
AGAGCTTACTGTTTCAGCTCAAT
Found at i:35866259 original size:45 final size:46
Alignment explanation
Indices: 35866151--35866236 Score: 131
Period size: 46 Copynumber: 1.9 Consensus size: 46
35866141 GACTCACCAC
* * *
35866151 AGCTCGTAAGAGCTTACTGTTTCAGCTCATTGGAGCTTACCGATTA
1 AGCTCGAAAGAGCTTACTGATTCAGCTCAATGGAGCTTACCGATTA
35866197 AGCTCGAAAGAGCTTACT-ATTCAGCTCAAT-GAGCTTACCG
1 AGCTCGAAAGAGCTTACTGATTCAGCTCAATGGAGCTTACCG
35866237 TTTCCAACTC
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
44 10 0.27
45 10 0.27
46 17 0.46
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (46 bp):
AGCTCGAAAGAGCTTACTGATTCAGCTCAATGGAGCTTACCGATTA
Found at i:35869836 original size:15 final size:15
Alignment explanation
Indices: 35869818--35869877 Score: 75
Period size: 15 Copynumber: 4.0 Consensus size: 15
35869808 AACTCTAATC
*
35869818 CTATTAGACACATCA
1 CTATCAGACACATCA
*
35869833 CTATCAGATACATCA
1 CTATCAGACACATCA
*
35869848 CTAACAGACACATCA
1 CTATCAGACACATCA
* *
35869863 CTGTCAAACACATCA
1 CTATCAGACACATCA
35869878 AAACCATACA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 38 1.00
ACGTcount: A:0.42, C:0.30, G:0.07, T:0.22
Consensus pattern (15 bp):
CTATCAGACACATCA
Found at i:35870186 original size:110 final size:110
Alignment explanation
Indices: 35870060--35870293 Score: 387
Period size: 110 Copynumber: 2.1 Consensus size: 110
35870050 TATACATGGT
* * *
35870060 AGACAATAACCAAACACTTTAACCCTGAACCTAGGCAATGGTAGACAATAACCAATACAATATAG
1 AGACAATAACCAAACACTTTAACCCTAAACCTAGGAAATGGCAGACAATAACCAATACAATATAG
35870125 AAGCTAAAGAACAAATTTAATCCAAAAAAATATCATGCACATGAA
66 AAGCTAAAGAACAAATTTAATCCAAAAAAATATCATGCACATGAA
* *
35870170 AGACAATAACCAAACACTTTAACCTTAAACTTAGGAAATGGCAGACAATAACCAATACAATATAG
1 AGACAATAACCAAACACTTTAACCCTAAACCTAGGAAATGGCAGACAATAACCAATACAATATAG
* **
35870235 AAGCTAAAGAACAAATTTAATCCAAAACAATATCATGCACATGGC
66 AAGCTAAAGAACAAATTTAATCCAAAAAAATATCATGCACATGAA
*
35870280 AGACAATAATCAAA
1 AGACAATAACCAAA
35870294 TAATAATCAT
Statistics
Matches: 115, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
110 115 1.00
ACGTcount: A:0.50, C:0.20, G:0.11, T:0.19
Consensus pattern (110 bp):
AGACAATAACCAAACACTTTAACCCTAAACCTAGGAAATGGCAGACAATAACCAATACAATATAG
AAGCTAAAGAACAAATTTAATCCAAAAAAATATCATGCACATGAA
Found at i:35870980 original size:40 final size:40
Alignment explanation
Indices: 35870921--35871011 Score: 173
Period size: 40 Copynumber: 2.3 Consensus size: 40
35870911 TACCAATCGA
35870921 TTTCTAACCCTTAATCCTGTTAATCGGTTTTCGAATCAAT
1 TTTCTAACCCTTAATCCTGTTAATCGGTTTTCGAATCAAT
*
35870961 TTTTTAACCCTTAATCCTGTTAATCGGTTTTCGAATCAAT
1 TTTCTAACCCTTAATCCTGTTAATCGGTTTTCGAATCAAT
35871001 TTTCTAACCCT
1 TTTCTAACCCT
35871012 CAACCAACCT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 49 1.00
ACGTcount: A:0.24, C:0.23, G:0.09, T:0.44
Consensus pattern (40 bp):
TTTCTAACCCTTAATCCTGTTAATCGGTTTTCGAATCAAT
Found at i:35871677 original size:9 final size:9
Alignment explanation
Indices: 35871626--35871813 Score: 57
Period size: 9 Copynumber: 20.1 Consensus size: 9
35871616 TTAAACAAAC
35871626 ATTA-AAAA
1 ATTATAAAA
35871634 ATT-TAAAAA
1 ATTAT-AAAA
*
35871643 ATTAT-TAA
1 ATTATAAAA
35871651 A-TATGAAAA
1 ATTAT-AAAA
* *
35871660 AATAAAAAA
1 ATTATAAAA
35871669 ATTATAAAA
1 ATTATAAAA
* *
35871678 CTAATAAAA
1 ATTATAAAA
* *
35871687 CATATTTAAAT
1 -AT-TATAAAA
*
35871698 ATT-TATAAT
1 ATTATA-AAA
*
35871707 TTTATAAAA
1 ATTATAAAA
35871716 ATGTATTAAAA
1 AT-TA-TAAAA
* *
35871727 CTCTATAAAG
1 AT-TATAAAA
*
35871737 TTTATAAAAAA
1 ATTAT--AAAA
*
35871748 ATCATAAAA
1 ATTATAAAA
35871757 ATTATAAAA
1 ATTATAAAA
* *
35871766 A-AATATCAA
1 ATTATA-AAA
*
35871775 ATGTATTAAA
1 AT-TATAAAA
35871785 ATTGATATAAA
1 ATT-ATA-AAA
35871796 ATTATAAAA
1 ATTATAAAA
35871805 A-TATAAAA
1 ATTATAAAA
35871813 A
1 A
35871814 AAATCATAAA
Statistics
Matches: 133, Mismatches: 28, Indels: 38
0.67 0.14 0.19
Matches are distributed among these distances:
7 3 0.02
8 19 0.14
9 61 0.46
10 24 0.18
11 26 0.20
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (9 bp):
ATTATAAAA
Found at i:35871754 original size:20 final size:20
Alignment explanation
Indices: 35871738--35871825 Score: 65
Period size: 20 Copynumber: 4.5 Consensus size: 20
35871728 TCTATAAAGT
35871738 TTATAAAAAAATCATAAAAA
1 TTATAAAAAAATCATAAAAA
*
35871758 TTATAAAAAAAT-AT-CAAA
1 TTATAAAAAAATCATAAAAA
* * *
35871776 TGTAT-TAAAATTGATATAAAA
1 T-TATAAAAAAATCATA-AAAA
* * *
35871797 TTATAAAAATATAAAAAAAA
1 TTATAAAAAAATCATAAAAA
*
35871817 TCATAAAAA
1 TTATAAAAA
35871826 CTTGAATTGC
Statistics
Matches: 53, Mismatches: 10, Indels: 10
0.73 0.14 0.14
Matches are distributed among these distances:
18 9 0.17
19 7 0.13
20 27 0.51
21 10 0.19
ACGTcount: A:0.66, C:0.03, G:0.02, T:0.28
Consensus pattern (20 bp):
TTATAAAAAAATCATAAAAA
Found at i:35871777 original size:59 final size:59
Alignment explanation
Indices: 35871714--35871825 Score: 145
Period size: 59 Copynumber: 1.9 Consensus size: 59
35871704 AATTTTATAA
* * * * *
35871714 AAATGTATTAAAACT-CTATAAAGTTTATAAAAAAATCATAAAAATTATAAAAAAATATC
1 AAATGTATTAAAACTGATATAAA-ATTATAAAAAAATAAAAAAAATCATAAAAAAATATC
* *
35871773 AAATGTATTAAAATTGATATAAAATTATAAAAATATAAAAAAAATCATAAAAA
1 AAATGTATTAAAACTGATATAAAATTATAAAAAAATAAAAAAAATCATAAAAA
35871826 CTTGAATTGC
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
59 39 0.87
60 6 0.13
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.29
Consensus pattern (59 bp):
AAATGTATTAAAACTGATATAAAATTATAAAAAAATAAAAAAAATCATAAAAAAATATC
Found at i:35873080 original size:5 final size:5
Alignment explanation
Indices: 35873070--35873099 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
35873060 GCAATTAAGG
*
35873070 GAAAA GAAAA GAAAA GAAAA GAGAA GAAAA
1 GAAAA GAAAA GAAAA GAAAA GAAAA GAAAA
35873100 ATAACAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (5 bp):
GAAAA
Found at i:35888626 original size:22 final size:21
Alignment explanation
Indices: 35888596--35888642 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
35888586 TACAAATTAA
35888596 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
35888618 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
35888639 ATCT
1 ATCT
35888643 AAGATTGCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.34
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:35888648 original size:19 final size:19
Alignment explanation
Indices: 35888613--35888710 Score: 155
Period size: 19 Copynumber: 5.2 Consensus size: 19
35888603 AGATTACAAG
35888613 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
35888634 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
*
35888653 ATAATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
35888670 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
35888689 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
35888708 ATC
1 ATC
35888711 CTTAAAGATT
Statistics
Matches: 73, Mismatches: 2, Indels: 6
0.90 0.02 0.07
Matches are distributed among these distances:
17 16 0.22
19 48 0.66
20 1 0.01
21 8 0.11
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.38
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:35888675 original size:36 final size:37
Alignment explanation
Indices: 35888624--35888710 Score: 140
Period size: 36 Copynumber: 2.3 Consensus size: 37
35888614 TCATATCTTC
35888624 AAGATTGCATATCATATCTAAGATTGCATATAATATCT
1 AAGATTG-ATATCATATCTAAGATTGCATATAATATCT
*
35888662 AAGATTG-TATCATATCTAAGATTGCATATCATATCT
1 AAGATTGATATCATATCTAAGATTGCATATAATATCT
35888698 AAGATTGCATATC
1 AAGATTG-ATATC
35888711 CTTAAAGATT
Statistics
Matches: 46, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
36 35 0.76
38 11 0.24
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.37
Consensus pattern (37 bp):
AAGATTGATATCATATCTAAGATTGCATATAATATCT
Found at i:35888719 original size:36 final size:35
Alignment explanation
Indices: 35888613--35888720 Score: 103
Period size: 36 Copynumber: 2.9 Consensus size: 35
35888603 AGATTACAAG
*
35888613 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGCAT
1 ATCATATC-T-AAGATTGCATATC--CT-TAAGATTGCAT
*
35888653 ATAATATCTAAGATTGTATCATAT-C-TAAGATTGCAT
1 ATCATATCTAAGATTG---CATATCCTTAAGATTGCAT
35888689 ATCATATCTAAGATTGCATATCCTTAAAGATT
1 ATCATATCTAAGATTGCATATCCTT-AAGATT
35888721 ATATTTTCAT
Statistics
Matches: 59, Mismatches: 3, Indels: 16
0.76 0.04 0.21
Matches are distributed among these distances:
33 5 0.08
34 1 0.02
35 1 0.02
36 32 0.54
38 7 0.12
39 1 0.02
40 7 0.12
41 5 0.08
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.38
Consensus pattern (35 bp):
ATCATATCTAAGATTGCATATCCTTAAGATTGCAT
Found at i:35889958 original size:220 final size:218
Alignment explanation
Indices: 35889289--35890214 Score: 633
Period size: 220 Copynumber: 4.2 Consensus size: 218
35889279 ATGGAGATGC
** * * *
35889289 CAGATCTATTATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCT-ACTATCTTCAACT
1 CAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGAATGCC--ATCTGA-AATCTTCAACT
* * * * *
35889353 TGTTCCCTATAAACACAGGGATGCCCTGCTGAAATCTTCGATCTGATTTGC-TATAAGCATAGGA
63 TGTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCGATCTG-CTTCCATATAAACACAGGA
* * * * * *** * * * **
35889417 ATGTCAGATATGCTATCTTTGATTTATTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTC-
127 GTGCCAAATCTACTATCTGCAATCTGTTCCCTATAAACACAGGGATGCCATA-CTGAAATCTTCG
* * *
35889481 AACTTG-TTCGCTATAAACACAGG-GATG-
191 ATC-TGCTTCGCTGTAAGCACAGGAG-TGT
* ** * * * * ** *
35889508 C-CATGCTGAAATCTTCGATCTGCTTCACTGTAATCACAGGAATGTCAGATCTGCTATCTTCGA-
1 CAGAT-CTGCTATCTTCGATCTG-TTCCCTATAAACACAGGAATG-C-CATCTGAAATCTTCAAC
** * *
35889571 TCTGTTCCCTATAAACACAGGGATGCCAAAT-CTGCTATCTTC-AACTTG-TTCCCTATAAACAC
62 T-TGTTCCCTATAAACACAGGGATGCC--ATGCTGAAATCTTCGATC-TGCTTCCATATAAACAC
** * * * * * * * * *
35889633 AAGGA-TGCC--ATGCTAAAATCTTCGATCTGCTTCGCTGTAAGCACA-AGAGTGTCAGATCTGC
123 -AGGAGTGCCAAAT-CTACTATCTGCAATCTG-TTCCCTATAAACACAGGGA-TGCCATA-CTGA
* * * * **
35889694 TATCTTCGATCTG-TTCCCTATAAACACAGG-GATAC
183 AATCTTCGATCTGCTTCGCTGTAAGCACAGGAG-TGT
* * * *
35889729 CAAATCTGCTATCTTC-AACTTGTTCCCTATAAACACAGGAATGCCATGCTGAAATCTCTGATC-
1 CAGATCTGCTATCTTCGATC-TGTTCCCTATAAACACAGGAATGCCAT-CTGAAATCT-TCAACT
* * * * ** *
35889792 TGCTTCGCTGTAAGCACA-GGAGTGTCA-GATCTGCTATCTTCGATCTG-TTCCCTATAAACACA
63 TG-TTCCCTATAAACACAGGGA-TGCCATG--CTGAAATCTTCGATCTGCTTCCATATAAACACA
* * *
35889854 GG-GATGCCAAATCTGCTATCTGCAA-CTTGTTCCCTATAAACATAGGGATGCCATGCTGAAATC
124 GGAG-TGCCAAATCTACTATCTGCAATC-TGTTCCCTATAAACACAGGGATGCCATACTGAAATC
35889917 TTCGATCTGCTTCGCTGTAAGCACAGGAGTGT
187 TTCGATCTGCTTCGCTGTAAGCACAGGAGTGT
* **
35889949 CAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTT
1 CAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGAATGCC--ATCTGAAATCTTCAACTT
* * *
35890014 GTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCGATGTAAGCACAGGAGT
64 GTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCCATATAAACACAGGAGT
** * *
35890079 GTTAGATCTACTATCTTCAATCTGTTCCCTATAAACACAGGGATGCCATACTGAAATCTTCGATC
129 GCCAAATCTACTATCTGCAATCTGTTCCCTATAAACACAGGGATGCCATACTGAAATCTTCGATC
*
35890144 TGCTTTGCTGTAAGCACAGGAGTGT
194 TGCTTCGCTGTAAGCACAGGAGTGT
*
35890169 CAGATCTGCTATCTTTGATCTGTTCCCTATAAACACA-GAGATGCCA
1 CAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGA-ATGCCA
35890215 AATCTTGTTT
Statistics
Matches: 561, Mismatches: 101, Indels: 91
0.75 0.13 0.12
Matches are distributed among these distances:
218 8 0.01
219 77 0.14
220 407 0.73
221 62 0.11
222 7 0.01
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (218 bp):
CAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGAATGCCATCTGAAATCTTCAACTTGT
TCCCTATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCCATATAAACACAGGAGTGC
CAAATCTACTATCTGCAATCTGTTCCCTATAAACACAGGGATGCCATACTGAAATCTTCGATCTG
CTTCGCTGTAAGCACAGGAGTGT
Found at i:35890074 original size:88 final size:87
Alignment explanation
Indices: 35889284--35890214 Score: 643
Period size: 88 Copynumber: 10.6 Consensus size: 87
35889274 TCGAAATGGA
** * *
35889284 GATGCCAGATCTATTATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAAT-CT-ACTATCT
1 GATGCCAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCC--ATGCTGA-AATCT
*
35889347 TC-AACTTGTTCCCTATAAACACAGG
63 TCGATC-TGTTCCCTATAAACACAGG
* ** ** * * * * * **
35889372 GATGCC--CTGCTGAAATCTTCGATCTGATTTGCTATAAGCATAGGAATGTCA-GATATGCTATC
1 GATGCCAGAT-CTGCTATCTTCGATCTG-TTCCCTATAAACACAGGGATGCCATG--CTGAAATC
* * *
35889434 TTTGATTTATTCCCTATAAACACAGG
62 TTCGATCTGTTCCCTATAAACACAGG
* * *
35889460 GATGCCAAATCTGCTATCTTC-AACTTGTTCGCTATAAACACAGGGATGCCATGCTGAAATCTTC
1 GATGCCAGATCTGCTATCTTCGATC-TGTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTC
* * *
35889524 GATCTGCTTCACTGTAATCACAGG
65 GATCTG-TTCCCTATAAACACAGG
* * **
35889548 AATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAAT-CTGCTATCTT
1 GATGCCAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCC--ATGCTGAAATCTT
* *
35889612 C-AACTTGTTCCCTATAAACACAAG
64 CGATC-TGTTCCCTATAAACACAGG
*** * * * * * **
35889636 GATGCC--ATGCTAAAATCTTCGATCTGCTTCGCTGTAAGCACA-AGAGTGTCA-GATCTGCTAT
1 GATGCCAGAT-CTGCTATCTTCGATCTG-TTCCCTATAAACACAGGGA-TGCCATG--CTGAAAT
35889697 CTTCGATCTGTTCCCTATAAACACAGG
61 CTTCGATCTGTTCCCTATAAACACAGG
* * * *
35889724 GATACCAAATCTGCTATCTTC-AACTTGTTCCCTATAAACACAGGAATGCCATGCTGAAATC-TC
1 GATGCCAGATCTGCTATCTTCGATC-TGTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTC
* * *
35889787 TGATCTGCTTCGCTGTAAGCACA-G
65 -GATCTG-TTCCCTATAAACACAGG
* **
35889811 GAGTGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAAT-CTGCTATCT
1 GA-TGCCAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCC--ATGCTGAAATCT
* * *
35889875 GC-AACTTGTTCCCTATAAACATAGG
63 TCGATC-TGTTCCCTATAAACACAGG
** * * * * **
35889900 GATGCC--ATGCTGAAATCTTCGATCTGCTTCGCTGTAAGCACA-GGAGTGTCA-GATCTGCTAT
1 GATGCCAGAT-CTGCTATCTTCGATCTG-TTCCCTATAAACACAGGGA-TGCCATG--CTGAAAT
35889961 CTTCGATCTGTTCCCTATAAACACAGG
61 CTTCGATCTGTTCCCTATAAACACAGG
* *
35889988 GATGCCAAATCTGCTATCTTC-AACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTC
1 GATGCCAGATCTGCTATCTTCGATC-TGTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTC
** * *
35890052 GATCTGCTTCGATGTAAGCACA-G
65 GATCTG-TTCCCTATAAACACAGG
** * * *
35890075 GAGTGTTAGATCTACTATCTTCAATCTGTTCCCTATAAACACAGGGATGCCATACTGAAATCTTC
1 GA-TGCCAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTC
** * *
35890140 GATCTGCTTTGCTGTAAGCACA-G
65 GATCTG-TTCCCTATAAACACAGG
* * *
35890163 GAGTGTCAGATCTGCTATCTTTGATCTGTTCCCTATAAACACAGAGATGCCA
1 GA-TGCCAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCA
35890215 AATCTTGTTT
Statistics
Matches: 667, Mismatches: 124, Indels: 104
0.75 0.14 0.12
Matches are distributed among these distances:
86 10 0.01
87 91 0.14
88 484 0.73
89 72 0.11
90 10 0.01
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (87 bp):
GATGCCAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCG
ATCTGTTCCCTATAAACACAGG
Found at i:35890163 original size:132 final size:132
Alignment explanation
Indices: 35889289--35890126 Score: 1399
Period size: 132 Copynumber: 6.3 Consensus size: 132
35889279 ATGGAGATGC
** * *
35889289 CAGATCTATTATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTACTATCTTCAACTT
1 CAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTT
* * * * * *
35889354 GTTCCCTATAAACACAGGGATGCCCTGCTGAAATCTTCGATCTGATTTGCTATAAGCATAGGAAT
66 GTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCGCTGTAAGCACAGGAGT
35889419 GT
131 GT
* * * *
35889421 CAGATATGCTATCTTTGATTTATTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTT
1 CAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTT
* * * *
35889486 GTTCGCTATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCACTGTAATCACAGGAAT
66 GTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCGCTGTAAGCACAGGAGT
35889551 GT
131 GT
35889553 CAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTT
1 CAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTT
* * *
35889618 GTTCCCTATAAACACAAGGATGCCATGCTAAAATCTTCGATCTGCTTCGCTGTAAGCACAAGAGT
66 GTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCGCTGTAAGCACAGGAGT
35889683 GT
131 GT
*
35889685 CAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATACCAAATCTGCTATCTTCAACTT
1 CAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTT
*
35889750 GTTCCCTATAAACACAGGAATGCCATGCTGAAATC-TCTGATCTGCTTCGCTGTAAGCACAGGAG
66 GTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTC-GATCTGCTTCGCTGTAAGCACAGGAG
35889814 TGT
130 TGT
*
35889817 CAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTGCAACTT
1 CAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTT
*
35889882 GTTCCCTATAAACATAGGGATGCCATGCTGAAATCTTCGATCTGCTTCGCTGTAAGCACAGGAGT
66 GTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCGCTGTAAGCACAGGAGT
35889947 GT
131 GT
35889949 CAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTT
1 CAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTT
*
35890014 GTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCGATGTAAGCACAGGAGT
66 GTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCGCTGTAAGCACAGGAGT
35890079 GT
131 GT
* * *
35890081 TAGATCTACTATCTTCAATCTGTTCCCTATAAACACAGGGATGCCA
1 CAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCA
35890127 TACTGAAATC
Statistics
Matches: 664, Mismatches: 40, Indels: 4
0.94 0.06 0.01
Matches are distributed among these distances:
131 2 0.00
132 660 0.99
133 2 0.00
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (132 bp):
CAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTT
GTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCGCTGTAAGCACAGGAGT
GT
Found at i:35891144 original size:7 final size:7
Alignment explanation
Indices: 35891132--35891188 Score: 55
Period size: 8 Copynumber: 7.9 Consensus size: 7
35891122 GGCCTCTCCA
35891132 TTTTTTC
1 TTTTTTC
35891139 TTTTTTC
1 TTTTTTC
*
35891146 TTTTTATT
1 TTTTT-TC
35891154 TTATTTTC
1 TT-TTTTC
35891162 TCTTTTTC
1 T-TTTTTC
35891170 --TTTTC
1 TTTTTTC
35891175 TTTTTTCC
1 TTTTTT-C
35891183 TTTTTT
1 TTTTTT
35891189 TTGAAACAGA
Statistics
Matches: 42, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
5 5 0.12
7 16 0.38
8 17 0.40
9 4 0.10
ACGTcount: A:0.04, C:0.14, G:0.00, T:0.82
Consensus pattern (7 bp):
TTTTTTC
Found at i:35891160 original size:18 final size:18
Alignment explanation
Indices: 35891134--35891187 Score: 72
Period size: 18 Copynumber: 2.9 Consensus size: 18
35891124 CCTCTCCATT
35891134 TTTTCTTTTTTCTTTTTA
1 TTTTCTTTTTTCTTTTTA
* * *
35891152 TTTTATTTTCTCTTTTTC
1 TTTTCTTTTTTCTTTTTA
35891170 TTTTCTTTTTTCCTTTTT
1 TTTTCTTTTTT-CTTTTT
35891188 TTTGAAACAG
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
18 24 0.80
19 6 0.20
ACGTcount: A:0.04, C:0.15, G:0.00, T:0.81
Consensus pattern (18 bp):
TTTTCTTTTTTCTTTTTA
Found at i:35891168 original size:13 final size:12
Alignment explanation
Indices: 35891134--35891180 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
35891124 CCTCTCCATT
*
35891134 TTTTCTTTTTTC
1 TTTTCTTTTTTA
*
35891146 TTTT-TATTTTA
1 TTTTCTTTTTTA
*
35891157 TTTTCTCTTTTTC
1 TTTTCT-TTTTTA
35891170 TTTTCTTTTTT
1 TTTTCTTTTTT
35891181 CCTTTTTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
11 9 0.31
12 10 0.34
13 10 0.34
ACGTcount: A:0.04, C:0.13, G:0.00, T:0.83
Consensus pattern (12 bp):
TTTTCTTTTTTA
Found at i:35891185 original size:13 final size:12
Alignment explanation
Indices: 35891134--35891190 Score: 64
Period size: 13 Copynumber: 4.8 Consensus size: 12
35891124 CCTCTCCATT
35891134 TTTTCTTTTTTC
1 TTTTCTTTTTTC
* *
35891146 TTTT-TATTTTA
1 TTTTCTTTTTTC
35891157 TTTTCTCTTTTTC
1 TTTTCT-TTTTTC
35891170 TTTTCTTTTTTCC
1 TTTTCTTTTTT-C
35891183 TTTT-TTTT
1 TTTTCTTTT
35891191 GAAACAGAAG
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
11 9 0.24
12 14 0.37
13 15 0.39
ACGTcount: A:0.04, C:0.14, G:0.00, T:0.82
Consensus pattern (12 bp):
TTTTCTTTTTTC
Found at i:35896850 original size:22 final size:21
Alignment explanation
Indices: 35896820--35896866 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
35896810 TACAAATTAA
35896820 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
35896842 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
35896863 ATCT
1 ATCT
35896867 AAGATTGATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.34
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:35896883 original size:17 final size:19
Alignment explanation
Indices: 35896837--35896932 Score: 146
Period size: 19 Copynumber: 5.2 Consensus size: 19
35896827 AGATTACAAG
35896837 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
35896858 ATCATATCTAAGATTG-AT
1 ATCATATCTAAGATTGCAT
35896876 AT-ATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
35896892 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
35896911 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
35896930 ATC
1 ATC
35896933 CTTAAAGATT
Statistics
Matches: 72, Mismatches: 0, Indels: 8
0.90 0.00 0.10
Matches are distributed among these distances:
16 3 0.04
17 26 0.36
18 4 0.06
19 30 0.42
20 1 0.01
21 8 0.11
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.39
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:35896913 original size:14 final size:15
Alignment explanation
Indices: 35896859--35896932 Score: 60
Period size: 17 Copynumber: 4.5 Consensus size: 15
35896849 AGATTGCATA
35896859 TCATATCTAAGATTG
1 TCATATCTAAGATTG
*
35896874 ATATATATCTAAGATTG
1 -T-CATATCTAAGATTG
35896891 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
35896908 CATATCATATCTAAGATTG
1 ----TCATATCTAAGATTG
35896927 -CATATC
1 TCATATC
35896933 CTTAAAGATT
Statistics
Matches: 52, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
14 6 0.12
16 1 0.02
17 26 0.50
18 2 0.04
19 17 0.33
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:35897669 original size:132 final size:132
Alignment explanation
Indices: 35897511--35898485 Score: 1637
Period size: 132 Copynumber: 7.4 Consensus size: 132
35897501 ATGGAGATGC
* * * *
35897511 CAGATCTGTTATCTTCGATTTGTTCCCTATAAACACAAGGATGCCAAATCTACTATCTTCAACTT
1 CAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTT
* * * * * *
35897576 GTTCCCTATAAACACAGGGATGCCCTGCTGAAATCTTCGATCTGATTTGCTATAAGCATAGGAAT
66 GTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCGCTGTAAGCACAGGAGT
35897641 GT
131 GT
* * *
35897643 CAGATCTGCTATCTTTGATTTATTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTT
1 CAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTT
* * * *
35897708 GTTCGCTATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCACTGTAATCACAGGAAT
66 GTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCGCTGTAAGCACAGGAGT
35897773 GT
131 GT
35897775 CAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTT
1 CAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTT
* * * *
35897840 GTTCCCTATAAACACAAGGATGCCATGCTAAAATCTTCGATCTGCTGCGCTGTAAGCACAAGAGT
66 GTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCGCTGTAAGCACAGGAGT
35897905 GT
131 GT
*
35897907 CAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATACCAAATCTGCTATCTTCAACTT
1 CAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTT
*
35897972 GTTCCCTATAAACACAGGAATGCCATGCTGAAATC-TCTGATCTGCTTCGCTGTAAGCACAGGAG
66 GTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTC-GATCTGCTTCGCTGTAAGCACAGGAG
35898036 TGT
130 TGT
*
35898039 CAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTGCAACTT
1 CAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTT
*
35898104 GTTCCCTATAAACATAGGGATGCCATGCTGAAATCTTCGATCTGCTTCGCTGTAAGCACAGGAGT
66 GTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCGCTGTAAGCACAGGAGT
35898169 GT
131 GT
35898171 CAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTT
1 CAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTT
*
35898236 GTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCGATGTAAGCACAGGAGT
66 GTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCGCTGTAAGCACAGGAGT
35898301 GT
131 GT
* * * *
35898303 TAGATCTGCTATCTTCAATCTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTCCAACTC
1 CAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTT
*
35898368 GTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTTGCTGTAAGCACAGGAGT
66 GTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCGCTGTAAGCACAGGAGT
35898433 GT
131 GT
* *
35898435 CAGATCTGCTATCTTTGATCTGTTCCCTATAAACACAGAGATGCCAAATCT
1 CAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCT
35898486 TGTTTCTCTG
Statistics
Matches: 794, Mismatches: 47, Indels: 4
0.94 0.06 0.00
Matches are distributed among these distances:
131 2 0.00
132 790 0.99
133 2 0.00
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (132 bp):
CAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTT
GTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCGCTGTAAGCACAGGAGT
GT
Found at i:35900489 original size:22 final size:21
Alignment explanation
Indices: 35900459--35900505 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
35900449 TACAAATTAA
35900459 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
35900481 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
35900502 ATCT
1 ATCT
35900506 AAGATTGTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.34
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:35900511 original size:19 final size:19
Alignment explanation
Indices: 35900476--35900554 Score: 117
Period size: 19 Copynumber: 4.2 Consensus size: 19
35900466 AGATTACAAG
35900476 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
35900497 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
35900514 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
*
35900533 ATCATATATAAGATTGCAT
1 ATCATATCTAAGATTGCAT
35900552 ATC
1 ATC
35900555 CTTAAAGATT
Statistics
Matches: 55, Mismatches: 1, Indels: 6
0.89 0.02 0.10
Matches are distributed among these distances:
17 17 0.31
19 29 0.53
20 1 0.02
21 8 0.15
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.38
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:35900531 original size:36 final size:38
Alignment explanation
Indices: 35900476--35900548 Score: 123
Period size: 36 Copynumber: 2.0 Consensus size: 38
35900466 AGATTACAAG
*
35900476 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGT
1 ATCATATCTTCAAGATTGCATATCATATATAAGATTGT
35900514 ATCATATC-T-AAGATTGCATATCATATATAAGATTG
1 ATCATATCTTCAAGATTGCATATCATATATAAGATTG
35900549 CATATCCTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
36 25 0.74
37 1 0.03
38 8 0.24
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.38
Consensus pattern (38 bp):
ATCATATCTTCAAGATTGCATATCATATATAAGATTGT
Found at i:35900535 original size:14 final size:15
Alignment explanation
Indices: 35900498--35900535 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
35900488 AGATTGCATA
35900498 TCATATCTAAGATTG
1 TCATATCTAAGATTG
35900513 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
35900530 -CATATC
1 TCATATC
35900536 ATATATAAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 6 0.29
17 15 0.71
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.39
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:35900563 original size:36 final size:35
Alignment explanation
Indices: 35900477--35900564 Score: 108
Period size: 36 Copynumber: 2.4 Consensus size: 35
35900467 GATTACAAGA
*
35900477 TCATATCTTCAAGATTGCATATCATATCTAAGATTG
1 TCATATCTT-AAGATTGCATATCATATATAAGATTG
35900513 TATCATATC-TAAGATTGCATATCATATATAAGATTG
1 --TCATATCTTAAGATTGCATATCATATATAAGATTG
35900549 -CATATCCTTAAAGATT
1 TCATAT-CTT-AAGATT
35900565 ATATTTCCAT
Statistics
Matches: 46, Mismatches: 1, Indels: 8
0.84 0.02 0.15
Matches are distributed among these distances:
33 5 0.11
34 1 0.02
35 1 0.02
36 31 0.67
37 1 0.02
38 7 0.15
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.39
Consensus pattern (35 bp):
TCATATCTTAAGATTGCATATCATATATAAGATTG
Found at i:35911179 original size:15 final size:16
Alignment explanation
Indices: 35911153--35911193 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
35911143 TATACGAATA
*
35911153 TTAATATTAATTTTAG
1 TTAATTTTAATTTTAG
*
35911169 TT-ATTTTAATTTTAT
1 TTAATTTTAATTTTAG
35911184 TTAATTTTAA
1 TTAATTTTAA
35911194 GTCACTAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 13 0.59
16 9 0.41
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.63
Consensus pattern (16 bp):
TTAATTTTAATTTTAG
Found at i:35917875 original size:43 final size:43
Alignment explanation
Indices: 35917788--35918021 Score: 209
Period size: 43 Copynumber: 5.4 Consensus size: 43
35917778 CAAACGTCGC
* ** *
35917788 AAAAGATCATGACTTTTAGCAGCGTTTATGGGGAAAGTGCCGCT
1 AAAAG-TCATGACTTTTAGCGGCGTTTGCGGGGGAAGTGCCGCT
* * * *
35917832 AAAAGTCACGACTTTTAGCGGCATTTGCGGGGGAGGTGTCGCT
1 AAAAGTCATGACTTTTAGCGGCGTTTGCGGGGGAAGTGCCGCT
* * * * ****** *
35917875 AAAAGTAAAGGCTTTTAGCGGTGTTTGTAACAAAAGCGCCGCT
1 AAAAGTCATGACTTTTAGCGGCGTTTGCGGGGGAAGTGCCGCT
* * * *
35917918 AAAAGTCATGGCTTTTAGCGGCGTTTGC-GGGGAGGCGCGGCT
1 AAAAGTCATGACTTTTAGCGGCGTTTGCGGGGGAAGTGCCGCT
* * *
35917960 AAAAGTCATGGCTTTTAGCGGCATTTGCGGGAGAAGTGCCGCT
1 AAAAGTCATGACTTTTAGCGGCGTTTGCGGGGGAAGTGCCGCT
*
35918003 AAAAGCCATGACTTTTAGC
1 AAAAGTCATGACTTTTAGC
35918022 AGCGCTTTTG
Statistics
Matches: 150, Mismatches: 39, Indels: 3
0.78 0.20 0.02
Matches are distributed among these distances:
42 35 0.23
43 110 0.73
44 5 0.03
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.26
Consensus pattern (43 bp):
AAAAGTCATGACTTTTAGCGGCGTTTGCGGGGGAAGTGCCGCT
Found at i:35917916 original size:86 final size:85
Alignment explanation
Indices: 35917821--35917980 Score: 232
Period size: 86 Copynumber: 1.9 Consensus size: 85
35917811 GTTTATGGGG
* *
35917821 AAAGTGCCGCTAAAAGTCACGACTTTTAGCGGCATTTGCGGGGGAGGTGTC-GCTAAAAGTAAAG
1 AAAGCGCCGCTAAAAGTCACGACTTTTAGCGGCATTTGC-GGGGAGGCG-CGGCTAAAAGTAAAG
35917885 GCTTTTAGCGGTGTTTGTAACA
64 GCTTTTAGCGGTGTTTGTAACA
* * * * *
35917907 AAAGCGCCGCTAAAAGTCATGGCTTTTAGCGGCGTTTGCGGGGAGGCGCGGCTAAAAGTCATGGC
1 AAAGCGCCGCTAAAAGTCACGACTTTTAGCGGCATTTGCGGGGAGGCGCGGCTAAAAGTAAAGGC
35917972 TTTTAGCGG
66 TTTTAGCGG
35917981 CATTTGCGGG
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
84 1 0.02
85 30 0.45
86 35 0.53
ACGTcount: A:0.24, C:0.18, G:0.33, T:0.25
Consensus pattern (85 bp):
AAAGCGCCGCTAAAAGTCACGACTTTTAGCGGCATTTGCGGGGAGGCGCGGCTAAAAGTAAAGGC
TTTTAGCGGTGTTTGTAACA
Found at i:35918002 original size:85 final size:85
Alignment explanation
Indices: 35917818--35918021 Score: 241
Period size: 85 Copynumber: 2.4 Consensus size: 85
35917808 AGCGTTTATG
* *
35917818 GGGAAAGTGCCGCTAAAAGTCACGACTTTTAGCGGCATTTGCGGGGGAGGTGTCGCTAAAAGTAA
1 GGGAAAGTGCCGCTAAAAGTCATGACTTTTAGCGGCATTTGCGGGGGAGGCGTCGCTAAAAGTAA
** *
35917883 AGGCTTTTAGCGGTGTTTGTA
66 AGGCTTTTAGCGGCATTTG-C
*** * * * *
35917904 ACAAAAGCGCCGCTAAAAGTCATGGCTTTTAGCGGCGTTTGC-GGGGAGGCG-CGGCTAAAAGTC
1 GGGAAAGTGCCGCTAAAAGTCATGACTTTTAGCGGCATTTGCGGGGGAGGCGTC-GCTAAAAGTA
*
35917967 ATGGCTTTTAGCGGCATTTGC
65 AAGGCTTTTAGCGGCATTTGC
*
35917988 GGGAGAAGTGCCGCTAAAAGCCATGACTTTTAGC
1 GGGA-AAGTGCCGCTAAAAGTCATGACTTTTAGC
35918022 AGCGCTTTTG
Statistics
Matches: 97, Mismatches: 19, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
84 2 0.02
85 60 0.62
86 35 0.36
ACGTcount: A:0.25, C:0.19, G:0.32, T:0.25
Consensus pattern (85 bp):
GGGAAAGTGCCGCTAAAAGTCATGACTTTTAGCGGCATTTGCGGGGGAGGCGTCGCTAAAAGTAA
AGGCTTTTAGCGGCATTTGC
Found at i:35918047 original size:128 final size:130
Alignment explanation
Indices: 35917788--35918021 Score: 301
Period size: 128 Copynumber: 1.8 Consensus size: 130
35917778 CAAACGTCGC
* *
35917788 AAAAGATCATGACTTTTAGCAGCGTTTATGGGGAAAGTGCCGCTAAAAGTCACGACTTTTAGCGG
1 AAAAGATCATGACTTTTAGCAGCGTTTACGGGGAAAGCGCCGCTAAAAGTCACGACTTTTAGCGG
* * * * * *
35917853 CATTTGCGGGGGAGGTGTCGCTAAAAGTAAAGGCTTTTAGCGGTGTTTGTAACAAAAGCGCCGCT
66 CATTTGCGGGAGAAGTGCCGCTAAAAGCAAAGACTTTTAGCGGTGTTTGTAACAAAAGCACCGCT
* * * * * * *
35917918 AAAAG-TCATGGCTTTTAGCGGCGTTTGCGGGG-AGGCGCGGCTAAAAGTCATGGCTTTTAGCGG
1 AAAAGATCATGACTTTTAGCAGCGTTTACGGGGAAAGCGCCGCTAAAAGTCACGACTTTTAGCGG
* *
35917981 CATTTGCGGGAGAAGTGCCGCTAAAAGCCATGACTTTTAGC
66 CATTTGCGGGAGAAGTGCCGCTAAAAGCAAAGACTTTTAGC
35918022 AGCGCTTTTG
Statistics
Matches: 88, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
128 60 0.68
129 23 0.26
130 5 0.06
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.26
Consensus pattern (130 bp):
AAAAGATCATGACTTTTAGCAGCGTTTACGGGGAAAGCGCCGCTAAAAGTCACGACTTTTAGCGG
CATTTGCGGGAGAAGTGCCGCTAAAAGCAAAGACTTTTAGCGGTGTTTGTAACAAAAGCACCGCT
Found at i:35918136 original size:31 final size:31
Alignment explanation
Indices: 35918096--35918161 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
35918086 AACCCTTCAT
* *
35918096 GCATTAAATCCAACCAAAAACAGCATATATA
1 GCATGAAATCCAACCAAAAACAGCAAATATA
* *
35918127 GCATGAAATCCAACCAAAAATAGCAAATGTA
1 GCATGAAATCCAACCAAAAACAGCAAATATA
35918158 GCAT
1 GCAT
35918162 AAAAAATACA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.50, C:0.21, G:0.11, T:0.18
Consensus pattern (31 bp):
GCATGAAATCCAACCAAAAACAGCAAATATA
Found at i:35918432 original size:21 final size:21
Alignment explanation
Indices: 35918408--35918454 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 21
35918398 TCTACTGCCA
35918408 TCGCTGCTACCT-CTGCCTTCC
1 TCGCTGCTA-CTGCTGCCTTCC
35918429 TCGCTGCTACTGCTGCCTTCC
1 TCGCTGCTACTGCTGCCTTCC
35918450 TCGCT
1 TCGCT
35918455 ACTGCATCCG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 2 0.08
21 23 0.92
ACGTcount: A:0.04, C:0.45, G:0.17, T:0.34
Consensus pattern (21 bp):
TCGCTGCTACTGCTGCCTTCC
Found at i:35918455 original size:18 final size:20
Alignment explanation
Indices: 35918411--35918459 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
35918401 ACTGCCATCG
35918411 CTGCTACCT-CTGCCTTCCTC
1 CTGCTA-CTGCTGCCTTCCTC
35918431 GCTGCTACTGCTGCCTTCCT-
1 -CTGCTACTGCTGCCTTCCTC
35918451 C-GCTACTGC
1 CTGCTACTGC
35918460 ATCCGCTCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
18 8 0.30
19 1 0.04
20 2 0.07
21 16 0.59
ACGTcount: A:0.06, C:0.45, G:0.16, T:0.33
Consensus pattern (20 bp):
CTGCTACTGCTGCCTTCCTC
Found at i:35923979 original size:9 final size:9
Alignment explanation
Indices: 35923965--35924174 Score: 115
Period size: 9 Copynumber: 24.1 Consensus size: 9
35923955 TATGTATTAC
*
35923965 GTAAGTTAA
1 GTAAGTTAT
*
35923974 GTAAGTTTT
1 GTAAGTTAT
35923983 GTAAGTTAT
1 GTAAGTTAT
35923992 GTAAGTTAT
1 GTAAGTTAT
*
35924001 GATATAAATTTAT
1 G---T-AAGTTAT
*
35924014 GTAAGGTAT
1 GTAAGTTAT
35924023 GTAAGTTAT
1 GTAAGTTAT
*
35924032 GTAAATTAT
1 GTAAGTTAT
* **
35924041 GATATGAAAT
1 G-TAAGTTAT
* *
35924051 AT-ATTTAT
1 GTAAGTTAT
35924059 GT-A-TTAT
1 GTAAGTTAT
35924066 GTAAGTTAT
1 GTAAGTTAT
*
35924075 ATAAGTTAT
1 GTAAGTTAT
35924084 GTAAGTTAT
1 GTAAGTTAT
35924093 -T-A--TAT
1 GTAAGTTAT
* *
35924098 AT-ATTTAT
1 GTAAGTTAT
35924106 GT-A-TTAT
1 GTAAGTTAT
35924113 GTAAGTTAT
1 GTAAGTTAT
35924122 GTAAGTTAT
1 GTAAGTTAT
*
35924131 -TATA-TGAT
1 GTA-AGTTAT
* *
35924139 ATATATTTAT
1 GTA-AGTTAT
35924149 GT-A-TTAT
1 GTAAGTTAT
35924156 GTAAGTTAT
1 GTAAGTTAT
35924165 GTAAGTTAT
1 GTAAGTTAT
35924174 G
1 G
35924175 ATATCATGTA
Statistics
Matches: 160, Mismatches: 24, Indels: 34
0.73 0.11 0.16
Matches are distributed among these distances:
5 3 0.02
6 2 0.01
7 19 0.12
8 19 0.12
9 100 0.62
10 9 0.06
12 1 0.01
13 7 0.04
ACGTcount: A:0.36, C:0.00, G:0.17, T:0.47
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:35924084 original size:43 final size:43
Alignment explanation
Indices: 35923982--35924178 Score: 247
Period size: 43 Copynumber: 4.6 Consensus size: 43
35923972 AAGTAAGTTT
* * * *
35923982 TGTAAGTTATGTAAGTTATGATAT-AAATTTATGTAAG--GTA
1 TGTAAGTTATGTAAGTTATGATATGAAATATATTTATGTATTA
*
35924022 TGTAAGTTATGTAAATTATGATATGAAATATATTTATGTATTA
1 TGTAAGTTATGTAAGTTATGATATGAAATATATTTATGTATTA
* * *
35924065 TGTAAGTTATATAAGTTATGTAAGTTATTATATATATTTATGTATTA
1 TGTAAGTTATGTAAGTTATG--A--TATGAAATATATTTATGTATTA
* *
35924112 TGTAAGTTATGTAAGTTATTATATGATATATATTTATGTATTA
1 TGTAAGTTATGTAAGTTATGATATGAAATATATTTATGTATTA
35924155 TGTAAGTTATGTAAGTTATGATAT
1 TGTAAGTTATGTAAGTTATGATAT
35924179 CATGTATTTA
Statistics
Matches: 137, Mismatches: 13, Indels: 11
0.85 0.08 0.07
Matches are distributed among these distances:
40 23 0.17
41 10 0.07
43 64 0.47
45 2 0.01
47 38 0.28
ACGTcount: A:0.37, C:0.00, G:0.16, T:0.48
Consensus pattern (43 bp):
TGTAAGTTATGTAAGTTATGATATGAAATATATTTATGTATTA
Found at i:35924154 original size:90 final size:92
Alignment explanation
Indices: 35923974--35924174 Score: 316
Period size: 90 Copynumber: 2.2 Consensus size: 92
35923964 CGTAAGTTAA
*
35923974 GTAAGTTTTGTAAGTTATGTAAGTTATGATATAAATTTATGTAAGGTATGTAAGTTATGTAAATT
1 GTAAGTTATGTAAGTTATGTAAGTTATGATATAAATTTATGTAAGGTATGTAAGTTATGTAAATT
35924039 ATGATATGAAATATATTTATGTATTAT
66 ATGATATGAAATATATTTATGTATTAT
* * * * *
35924066 GTAAGTTATATAAGTTATGTAAGTTATTATATATATTTATGT-A-TTATGTAAGTTATGTAAGTT
1 GTAAGTTATGTAAGTTATGTAAGTTATGATATAAATTTATGTAAGGTATGTAAGTTATGTAAATT
* *
35924129 ATTATATGATATATATTTATGTATTAT
66 ATGATATGAAATATATTTATGTATTAT
35924156 GTAAGTTATGTAAGTTATG
1 GTAAGTTATGTAAGTTATG
35924175 ATATCATGTA
Statistics
Matches: 100, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
90 61 0.61
91 1 0.01
92 38 0.38
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (92 bp):
GTAAGTTATGTAAGTTATGTAAGTTATGATATAAATTTATGTAAGGTATGTAAGTTATGTAAATT
ATGATATGAAATATATTTATGTATTAT
Found at i:35924377 original size:29 final size:29
Alignment explanation
Indices: 35924345--35924401 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
35924335 TCACCTAGAA
35924345 AAAAAATATTTTAATTAAATAAAATTTAT
1 AAAAAATATTTTAATTAAATAAAATTTAT
** *
35924374 AAAATTTATTTTAATTAAATAATATTTA
1 AAAAAATATTTTAATTAAATAAAATTTA
35924402 AATAAATTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (29 bp):
AAAAAATATTTTAATTAAATAAAATTTAT
Found at i:35924402 original size:15 final size:16
Alignment explanation
Indices: 35924349--35924400 Score: 56
Period size: 14 Copynumber: 3.4 Consensus size: 16
35924339 CTAGAAAAAA
35924349 AATATTTTAATTAAAT
1 AATATTTTAATTAAAT
* *
35924365 AA-AATTT-ATAAAAT
1 AATATTTTAATTAAAT
*
35924379 -TTATTTTAATTAAAT
1 AATATTTTAATTAAAT
35924394 AATATTT
1 AATATTT
35924401 AAATAAATTA
Statistics
Matches: 27, Mismatches: 6, Indels: 6
0.69 0.15 0.15
Matches are distributed among these distances:
14 10 0.37
15 10 0.37
16 7 0.26
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
AATATTTTAATTAAAT
Found at i:35924576 original size:16 final size:16
Alignment explanation
Indices: 35924542--35924615 Score: 51
Period size: 16 Copynumber: 4.2 Consensus size: 16
35924532 CATGGAAAAA
*
35924542 AATATTTTAATTAAA-T
1 AATA-TTTAAATAAATT
35924558 AATATTTAAATAAATT
1 AATATTTAAATAAATT
*
35924574 AATCCAAATTATATTAATTAATT
1 AAT----ATT-TA--AATAAATT
35924597 AATATTTAAATAAATT
1 AATATTTAAATAAATT
35924613 AAT
1 AAT
35924616 CCAAATTATA
Statistics
Matches: 47, Mismatches: 3, Indels: 16
0.71 0.05 0.24
Matches are distributed among these distances:
15 9 0.19
16 18 0.38
18 2 0.04
19 3 0.06
20 3 0.06
21 2 0.04
23 10 0.21
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (16 bp):
AATATTTAAATAAATT
Found at i:35924594 original size:19 final size:19
Alignment explanation
Indices: 35924570--35924630 Score: 63
Period size: 20 Copynumber: 3.2 Consensus size: 19
35924560 TATTTAAATA
35924570 AATTAATCCAAATTATATT
1 AATTAATCCAAATTATATT
* * *
35924589 AATTAAT-TAATATTTAAATA
1 AATTAATCCAA-A-TTATATT
35924609 AATTAATCCAAATTATA-T
1 AATTAATCCAAATTATATT
35924627 AATT
1 AATT
35924631 TAAAAAATTG
Statistics
Matches: 33, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
18 6 0.18
19 12 0.36
20 13 0.39
21 2 0.06
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.43
Consensus pattern (19 bp):
AATTAATCCAAATTATATT
Found at i:35924600 original size:39 final size:39
Alignment explanation
Indices: 35924548--35924630 Score: 150
Period size: 39 Copynumber: 2.2 Consensus size: 39
35924538 AAAAAATATT
35924548 TTAATTAAATAATATTTAAATAAATTAATCCAAATTATA
1 TTAATTAAATAATATTTAAATAAATTAATCCAAATTATA
*
35924587 TTAATTAATTAATATTTAAATAAATTAATCCAAATTATA
1 TTAATTAAATAATATTTAAATAAATTAATCCAAATTATA
35924626 -TAATT
1 TTAATT
35924631 TAAAAAATTG
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
38 5 0.12
39 38 0.88
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (39 bp):
TTAATTAAATAATATTTAAATAAATTAATCCAAATTATA
Found at i:35924615 original size:20 final size:20
Alignment explanation
Indices: 35924550--35924615 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
35924540 AAAATATTTT
*
35924550 AATTAAATAATATTTAAATA
1 AATTAATTAATATTTAAATA
* * *
35924570 AATTAATCCAA-A-TTATATT
1 AATTAAT-TAATATTTAAATA
35924589 AATTAATTAATATTTAAATA
1 AATTAATTAATATTTAAATA
35924609 AATTAAT
1 AATTAAT
35924616 CCAAATTATA
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
18 2 0.06
19 13 0.36
20 19 0.53
21 2 0.06
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (20 bp):
AATTAATTAATATTTAAATA
Found at i:35924623 original size:203 final size:193
Alignment explanation
Indices: 35924190--35924824 Score: 983
Period size: 203 Copynumber: 3.3 Consensus size: 193
35924180 ATGTATTTAA
* *
35924190 TTATTTTAAATAAATAATATTTAAATAAATTAATCCAAATTATATATTTTAAAAAATTGTGTATA
1 TTATTTTAATTAAATAATATTTAAATAAATTAATCCAAATTATATAATTTAAAAAATTGTGTATA
* * *
35924255 AAAAAGTCG--AACCGTATAAGATGAAATGTCAACTTTGTTCCTT-G-AAAAAAAATAGAAATAA
66 AAAAAGTCGAAAACCATATAAGATGAAATGCCAACTTTGTTCCTTGGAAAAAAAAATAAAAATAA
* * * * *
35924316 AATTTGACAATGTGGAAAATCACCTAGAAAAAAAATATTTTAATTAAATAAAATTTATAAAAT
131 AATTTGACGATGTGGAAAATCACATGGAAAAAAATTATTTTAATTAAATAATATTTATAAAAT
35924379 TTATTTTAATTAAATAATATTTAAATAAATTAATCCAAATTATATAATTTAAAAAATTGTGTATA
1 TTATTTTAATTAAATAATATTTAAATAAATTAATCCAAATTATATAATTTAAAAAATTGTGTATA
*
35924444 AAAAAGTCGAAAACCATATAAGATGAAATGTCAACTTTGTTCCTTGGAAAATAAAAATAAAAATA
66 AAAAAGTCGAAAACCATATAAGATGAAATGCCAACTTTGTTCCTTGGAAAA-AAAAATAAAAATA
35924509 AAATTTGACGATGTGGAAAATCACATGGAAAAAAA-TATTTTAATTAAATAATATTTAAATAAAT
130 AAATTTGACGATGTGGAAAATCACATGGAAAAAAATTATTTTAATTAAATAATATTT--AT-AA-
35924573 TAAT
191 -AAT
* *
35924577 CCAAATTATATTAATTAATTAATATTTAAATAAATTAATCCAAATTATATAATTTAAAAAATTGT
1 -----TTATTTTAATTAAATAATATTTAAATAAATTAATCCAAATTATATAATTTAAAAAATTGT
* * * *
35924642 GTATAAAAAAGTCGAAAACCGTATAAGATGAGATGCCAATTTTGTTCCTTGGAAAAAAAATTAAA
61 GTATAAAAAAGTCGAAAACCATATAAGATGAAATGCCAACTTTGTTCCTTGGAAAAAAAAATAAA
35924707 AATAAAATTTGACGATGTGGAAAATCACATGGAAAAAAATTATTTTAATTAAATAATATTTATAA
126 AATAAAATTTGACGATGTGGAAAATCACATGGAAAAAAATTATTTTAATTAAATAATATTTATAA
35924772 AAT
191 AAT
35924775 TTATTTTAATTAAATAATATTTAAATAAATTAATCCAAATTATATAATTT
1 TTATTTTAATTAAATAATATTTAAATAAATTAATCCAAATTATATAATTT
35924825 TAAATAAGAT
Statistics
Matches: 413, Mismatches: 17, Indels: 28
0.90 0.04 0.06
Matches are distributed among these distances:
189 72 0.17
191 33 0.08
192 1 0.00
193 71 0.17
194 44 0.11
195 2 0.00
196 2 0.00
198 6 0.01
200 2 0.00
201 2 0.00
202 47 0.11
203 131 0.32
ACGTcount: A:0.50, C:0.06, G:0.08, T:0.35
Consensus pattern (193 bp):
TTATTTTAATTAAATAATATTTAAATAAATTAATCCAAATTATATAATTTAAAAAATTGTGTATA
AAAAAGTCGAAAACCATATAAGATGAAATGCCAACTTTGTTCCTTGGAAAAAAAAATAAAAATAA
AATTTGACGATGTGGAAAATCACATGGAAAAAAATTATTTTAATTAAATAATATTTATAAAAT
Found at i:35924633 original size:19 final size:19
Alignment explanation
Indices: 35924567--35924633 Score: 73
Period size: 19 Copynumber: 3.5 Consensus size: 19
35924557 TAATATTTAA
35924567 ATAAATTAATCCAAATTAT
1 ATAAATTAATCCAAATTAT
* * *
35924586 ATTAATTAAT-TAATATTTAA
1 ATAAATTAATCCAA-A-TTAT
35924606 ATAAATTAATCCAAATTAT
1 ATAAATTAATCCAAATTAT
*
35924625 ATAATTTAA
1 ATAAATTAA
35924634 AAAATTGTGT
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
18 2 0.05
19 21 0.55
20 13 0.34
21 2 0.05
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (19 bp):
ATAAATTAATCCAAATTAT
Found at i:35924760 original size:29 final size:29
Alignment explanation
Indices: 35924728--35924791 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
35924718 ACGATGTGGA
*
35924728 AAATCACATGGAAAAAAATTATTTTAATT
1 AAATAACATGGAAAAAAATTATTTTAATT
* ** * *
35924757 AAATAATATTTATAAAATTTATTTTAATT
1 AAATAACATGGAAAAAAATTATTTTAATT
35924786 AAATAA
1 AAATAA
35924792 TATTTAAATA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.41
Consensus pattern (29 bp):
AAATAACATGGAAAAAAATTATTTTAATT
Found at i:35924792 original size:29 final size:29
Alignment explanation
Indices: 35924741--35924806 Score: 107
Period size: 29 Copynumber: 2.3 Consensus size: 29
35924731 TCACATGGAA
35924741 AAAAATTATTTTAATTAAATAATATTTAT
1 AAAAATTATTTTAATTAAATAATATTTAT
*
35924770 AAAATTTATTTTAATTAAATAATATTTA-
1 AAAAATTATTTTAATTAAATAATATTTAT
35924798 AATAAATTA
1 AA-AAATTA
35924807 ATCCAAATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
28 2 0.06
29 32 0.94
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (29 bp):
AAAAATTATTTTAATTAAATAATATTTAT
Found at i:35924795 original size:16 final size:16
Alignment explanation
Indices: 35924747--35924796 Score: 61
Period size: 14 Copynumber: 3.3 Consensus size: 16
35924737 GGAAAAAAAT
35924747 TATTTTAATTAAATAA
1 TATTTTAATTAAATAA
* *
35924763 TA-TTT-ATAAAAT-T
1 TATTTTAATTAAATAA
35924776 TATTTTAATTAAATAA
1 TATTTTAATTAAATAA
35924792 TATTT
1 TATTT
35924797 AAATAAATTA
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
13 2 0.07
14 9 0.33
15 9 0.33
16 7 0.26
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
TATTTTAATTAAATAA
Found at i:35924797 original size:15 final size:15
Alignment explanation
Indices: 35924750--35924804 Score: 60
Period size: 15 Copynumber: 3.7 Consensus size: 15
35924740 AAAAAATTAT
35924750 TTTAATTAAATAATA
1 TTTAATTAAATAATA
* *
35924765 TTT-ATAAAAT-TTA
1 TTTAATTAAATAATA
35924778 TTTTAATTAAATAATA
1 -TTTAATTAAATAATA
*
35924794 TTTAAATAAAT
1 TTTAATTAAAT
35924805 TAATCCAAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
13 2 0.06
14 9 0.28
15 19 0.59
16 2 0.06
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
TTTAATTAAATAATA
Found at i:35926144 original size:16 final size:16
Alignment explanation
Indices: 35926123--35926166 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
35926113 ACTTAAATTT
35926123 AAAAAACAAAAACAAA
1 AAAAAACAAAAACAAA
* *
35926139 AAAAAAGAAAAAGAAA
1 AAAAAACAAAAACAAA
*
35926155 AAGAAAATAAAA
1 AA-AAAACAAAA
35926167 GATTAACTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 16 0.67
17 8 0.33
ACGTcount: A:0.86, C:0.05, G:0.07, T:0.02
Consensus pattern (16 bp):
AAAAAACAAAAACAAA
Found at i:35926155 original size:22 final size:22
Alignment explanation
Indices: 35926124--35926168 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
35926114 CTTAAATTTA
35926124 AAAAACAAAAACAAAAAAAAAG
1 AAAAACAAAAACAAAAAAAAAG
* * *
35926146 AAAAAGAAAAAGAAAATAAAAG
1 AAAAACAAAAACAAAAAAAAAG
35926168 A
1 A
35926169 TTAACTAACC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.84, C:0.04, G:0.09, T:0.02
Consensus pattern (22 bp):
AAAAACAAAAACAAAAAAAAAG
Found at i:35927535 original size:16 final size:16
Alignment explanation
Indices: 35927514--35927547 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
35927504 AATTTAATCG
* *
35927514 AACAAGATGATAGACT
1 AACAAGAGGATAAACT
35927530 AACAAGAGGATAAACT
1 AACAAGAGGATAAACT
35927546 AA
1 AA
35927548 TTTTGAATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.12, G:0.18, T:0.15
Consensus pattern (16 bp):
AACAAGAGGATAAACT
Found at i:35927901 original size:19 final size:19
Alignment explanation
Indices: 35927876--35927925 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
35927866 CTAGCGGCAT
*
35927876 CGACAGAGAGAAGAGGCTG
1 CGACAGAGAGAAGAGGATG
*
35927895 TGACAGAGAGAAGAGGATG
1 CGACAGAGAGAAGAGGATG
35927914 CGACAGAGAGAA
1 CGACAGAGAGAA
35927926 AAGGGTTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.42, C:0.12, G:0.40, T:0.06
Consensus pattern (19 bp):
CGACAGAGAGAAGAGGATG
Found at i:35928111 original size:21 final size:22
Alignment explanation
Indices: 35928085--35928130 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
35928075 GACGTAGTTA
35928085 GGGAAAATCAGAGAA-GAAATT
1 GGGAAAATCAGAGAATGAAATT
* * *
35928106 GGGAAATTGAGGGAATGAAATT
1 GGGAAAATCAGAGAATGAAATT
35928128 GGG
1 GGG
35928131 GTAATCTGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.43, C:0.02, G:0.37, T:0.17
Consensus pattern (22 bp):
GGGAAAATCAGAGAATGAAATT
Found at i:35928573 original size:115 final size:117
Alignment explanation
Indices: 35928298--35928575 Score: 304
Period size: 115 Copynumber: 2.4 Consensus size: 117
35928288 CAAAAAATTG
* * * * *
35928298 CCACTAA-AATCAGATAAAAACGACAGCGTTTTGCAC-GGTCGTAAAA-A-TTTTTGCGGCATTT
1 CCACTAATAGTCAGACAAAAACGACAACGTTTTGCACACGTCGTAAAACATTTTTTGCGCCATTT
* ** * *
35928359 TATGAGAAAATGCCACTAAAGGATATCCTTTTGCGGCATTTTAGTAAAAACG
66 AATGAGAAAACACCACTAAAGGATATCCTTTTGCGGCATTTTACTAAAAACA
* * *
35928411 CCACTAATAGGT-AGACAGAAACGACAACGTTTTGCACAC-TCTTAAAACATTTTTTGCGCCGTT
1 CCACTAATA-GTCAGACAAAAACGACAACGTTTTGCACACGTCGTAAAACATTTTTTGCGCCATT
* * **
35928474 TAATGAGAAAACACCACTAAAGGCT-TCTTTTTGCGGTGTTTT-CTAAAAAACA
65 TAATGAGAAAACACCACTAAAGGATATCCTTTTGCGGCATTTTACT-AAAAACA
* *
35928526 CCACTAATAGTCAGACAAAAACGACAACATTTTCCACACGT-GTAAAACAT
1 CCACTAATAGTCAGACAAAAACGACAACGTTTTGCACACGTCGTAAAACAT
35928576 ATTTGTGGCG
Statistics
Matches: 136, Mismatches: 21, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
113 7 0.05
114 33 0.24
115 63 0.46
116 33 0.24
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.27
Consensus pattern (117 bp):
CCACTAATAGTCAGACAAAAACGACAACGTTTTGCACACGTCGTAAAACATTTTTTGCGCCATTT
AATGAGAAAACACCACTAAAGGATATCCTTTTGCGGCATTTTACTAAAAACA
Found at i:35928653 original size:73 final size:74
Alignment explanation
Indices: 35928503--35928662 Score: 223
Period size: 73 Copynumber: 2.2 Consensus size: 74
35928493 AAGGCTTCTT
*
35928503 TTTGCGGTGTTTTCTAAAAAACACCACTAATAGTCAGACAAAAACGACAACATTTTCCACACGTG
1 TTTGCGGCGTTTTCTAAAAAACACCACTAATAGTCAGACAAAAACGACAACATTTTCCACACGTG
35928568 TAAAACATA
66 TAAAACATA
* * * * * * * *
35928577 TTTGTGGCGTTTTCTTAAAAACTCCACTAATAGTCAGA-AAAAACGACAGCGTTTTGCACACTTT
1 TTTGCGGCGTTTTCTAAAAAACACCACTAATAGTCAGACAAAAACGACAACATTTTCCACACGTG
35928641 TAAAACATA
66 TAAAACATA
*
35928650 TTTGCGGCTTTTT
1 TTTGCGGCGTTTT
35928663 TTTCTTAAAA
Statistics
Matches: 75, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
73 41 0.55
74 34 0.45
ACGTcount: A:0.35, C:0.20, G:0.14, T:0.31
Consensus pattern (74 bp):
TTTGCGGCGTTTTCTAAAAAACACCACTAATAGTCAGACAAAAACGACAACATTTTCCACACGTG
TAAAACATA
Found at i:35929052 original size:7 final size:7
Alignment explanation
Indices: 35929042--35929203 Score: 71
Period size: 7 Copynumber: 22.6 Consensus size: 7
35929032 TTTTTTAGAT
35929042 TTTAGGG
1 TTTAGGG
35929049 TTTAGGG
1 TTTAGGG
*
35929056 TTTAAGAG
1 TTT-AGGG
35929064 TTTAGGG
1 TTTAGGG
*
35929071 TTTAGGA
1 TTTAGGG
*
35929078 TTTAGTG
1 TTTAGGG
* **
35929085 TCTATAG
1 TTTAGGG
*
35929092 CTTATGGG
1 TTTA-GGG
35929100 TTTAGGGG
1 TTTA-GGG
*
35929108 TTAAGGG
1 TTTAGGG
35929115 -TTAGGAG
1 TTTAGG-G
35929122 -TTAGGG
1 TTTAGGG
*
35929128 TTAATGGG
1 TTTA-GGG
*
35929136 -TTAGGA
1 TTTAGGG
35929142 TTTATGGG
1 TTTA-GGG
35929150 -TTAGGG
1 TTTAGGG
* *
35929156 TCTAGTG
1 TTTAGGG
*
35929163 TTTAGAGT
1 TTTAG-GG
35929171 TTTAAGGG
1 TTT-AGGG
*
35929179 TTTATGG
1 TTTAGGG
* * *
35929186 TTCAAGA
1 TTTAGGG
35929193 TTTAGGG
1 TTTAGGG
35929200 TTTA
1 TTTA
35929204 AAGGTTTAAT
Statistics
Matches: 112, Mismatches: 33, Indels: 20
0.68 0.20 0.12
Matches are distributed among these distances:
6 10 0.09
7 72 0.64
8 28 0.25
9 2 0.02
ACGTcount: A:0.22, C:0.02, G:0.35, T:0.41
Consensus pattern (7 bp):
TTTAGGG
Found at i:35930537 original size:41 final size:41
Alignment explanation
Indices: 35930456--35930539 Score: 125
Period size: 41 Copynumber: 2.0 Consensus size: 41
35930446 CCTTCAAGTC
*
35930456 TGTTCACACTTCTTCTGTTCTTCACATTGTGCTTTGGATTT
1 TGTTCACACTTCTTCTGTTCTTCACATTGCGCTTTGGATTT
* *
35930497 TGTTCACACTTCTTCTGTTCTTCGCGTTGCGC-TTGTGATTT
1 TGTTCACACTTCTTCTGTTCTTCACATTGCGCTTTG-GATTT
35930538 TG
1 TG
35930540 ATATTCTTCG
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
40 3 0.08
41 36 0.92
ACGTcount: A:0.10, C:0.23, G:0.18, T:0.50
Consensus pattern (41 bp):
TGTTCACACTTCTTCTGTTCTTCACATTGCGCTTTGGATTT
Found at i:35932749 original size:25 final size:25
Alignment explanation
Indices: 35932720--35932773 Score: 67
Period size: 25 Copynumber: 2.1 Consensus size: 25
35932710 GTTTGCAAAG
35932720 AATAAATA-AAA-AAAATATTTAAGAC
1 AATAAATAGAAAGAAAAT-TTT-AGAC
35932745 AATAAATAGTAAAGAAAATTTTAGAC
1 AATAAATAG-AAAGAAAATTTTAGAC
35932771 AAT
1 AAT
35932774 GGTTAATATG
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
25 8 0.31
26 7 0.27
27 6 0.23
28 5 0.19
ACGTcount: A:0.63, C:0.04, G:0.07, T:0.26
Consensus pattern (25 bp):
AATAAATAGAAAGAAAATTTTAGAC
Found at i:35933009 original size:26 final size:25
Alignment explanation
Indices: 35932966--35933023 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 25
35932956 AATAAATAGT
35932966 TAATAATAAAATGATATAAAATA-A
1 TAATAATAAAATGATATAAAATATA
*
35932990 TAAATAATAAAAATGATATAATATATA
1 T-AATAAT-AAAATGATATAAAATATA
35933017 TAATAAT
1 TAATAAT
35933024 TTACATATAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
24 1 0.03
25 6 0.20
26 21 0.70
27 2 0.07
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (25 bp):
TAATAATAAAATGATATAAAATATA
Found at i:35935189 original size:21 final size:21
Alignment explanation
Indices: 35935143--35935184 Score: 70
Period size: 19 Copynumber: 2.1 Consensus size: 21
35935133 CAATTCATTA
35935143 TTATTAAACTTCTCTTTTGAG
1 TTATTAAACTTCTCTTTTGAG
35935164 TTATTAAA-TTCTC-TTTGAG
1 TTATTAAACTTCTCTTTTGAG
35935183 TT
1 TT
35935185 TTATTTTCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 8 0.38
20 5 0.24
21 8 0.38
ACGTcount: A:0.24, C:0.12, G:0.10, T:0.55
Consensus pattern (21 bp):
TTATTAAACTTCTCTTTTGAG
Found at i:35937484 original size:192 final size:191
Alignment explanation
Indices: 35937191--35937747 Score: 704
Period size: 192 Copynumber: 2.9 Consensus size: 191
35937181 GTCAAGCCTA
* * * * * * *
35937191 ATGCCATGTCCCAGGCATGGTCTTACGCTAGCTCTCGTCTCAATGCCGATGCCATGTCCCAGACA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAATGCTGATGCCATGTCCCAGACA
* * * * * * ** ** *
35937256 TGGTCTTACACTAGCTCACATGT-CGA-AGCCGATGCCATGTCCCAGACATCATTTTACACTAGC
66 TGGTCTTACACTGGCTCTCAT-TAC-ATTGTCGATGCCATGTACCAAACATGGTCATACACTGGC
* * * *
35937319 TCTCGTCTCAATGTCGATGCGATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGTCG
129 TCTCATATC-ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGTCG
* * *
35937383 ATTCCATGTCCCAGACATGGTTTTACACTAGCGCACATATCAATGCTGATGCCATGTCCCAGACA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAATGCTGATGCCATGTCCCAGACA
* * *
35937448 TGGTCTTACACTGGCTCTCATTACATTGTCGATGCCATGTTCCAAACATGGTCATACATTGGATC
66 TGGTCTTACACTGGCTCTCATTACATTGTCGATGCCATGTACCAAACATGGTCATACACTGGCTC
* * *
35937513 TCATATTATGGCTGATGCCATGTCCCAGACATGGTCATACACTGGCTCTCATAATGTGGTCG
131 TCATATCAT-GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGTCG
* * * *
35937575 ATGCCATGTCTCAGACTTGGTCTAACACTAGCACACATATCAATGTTGATGCCATGTCCCAGACA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAATGCTGATGCCATGTCCCAGACA
* *
35937640 TGGTCTTACACTGGCTCTCATTACATTGTCAATGCCTTGTACCAAACATGGTCATACACTGGCTC
66 TGGTCTTACACTGGCTCTCATTACATTGTCGATGCCATGTACCAAACATGGTCATACACTGGCTC
* *
35937705 TAATATCGTGGCCGATGCCATGTCCCAGACATGGTCTTACACT
131 TCATATCAT-GCCGATGCCATGTCCCAGACATGGTCTTACACT
35937748 AGCGCACATA
Statistics
Matches: 316, Mismatches: 46, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
191 4 0.01
192 312 0.99
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (191 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAATGCTGATGCCATGTCCCAGACA
TGGTCTTACACTGGCTCTCATTACATTGTCGATGCCATGTACCAAACATGGTCATACACTGGCTC
TCATATCATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGTCG
Found at i:35937756 original size:144 final size:143
Alignment explanation
Indices: 35937146--35937760 Score: 589
Period size: 144 Copynumber: 4.3 Consensus size: 143
35937136 ATTACGGATA
* * * * * *
35937146 CCATGTTCCAAACATGGTCTTACACTGGCTCACA-AGTCAA-GCCTAATGCCATGTCCCAGGCAT
1 CCATGTCCCAGACATGGTCTTACACTAGCTCACATA-TCAATGTC-GATGCCATGTCCCAGACAT
* * * * * *
35937209 GGTCTTACGCTAGCTCTCGT-CTCAATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTC
64 GGTCTTACACTGGCTCTCATAAT--ATGTCGATGCCATGTCCCAGACATGGTCATACACTAGCTC
* **
35937273 ACATGTCGAAGCCGATG
127 ACATATCGTGGCCGATG
** * * * * *
35937290 CCATGTCCCAGACATCATTTTACACTAGCTCTCGTCTCAATGTCGATGCGATGTCCCAGACATGG
1 CCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAATGTCGATGCCATGTCCCAGACATGG
* * ** *
35937355 TCTTACACTGGCTCTCATAATGTGGTCGATTCCATGTCCCAGACATGGTTTTACACTAGCGCACA
66 TCTTACACTGGCTCTCATAATAT-GTCGATGCCATGTCCCAGACATGGTCATACACTAGCTCACA
* *
35937420 TATCAAT-GCTGATG
130 TATC-GTGGCCGATG
* * * * *
35937434 CCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-TACATTGTCGATGCCATGTTCCAAACATG
1 CCATGTCCCAGACATGGTCTTACACTAGCTCACATAT-CAATGTCGATGCCATGTCCCAGACATG
* * * * * * *
35937498 GTCATACATTGGATCTCATATTATGGCTGATGCCATGTCCCAGACATGGTCATACACTGGCTCTC
65 GTCTTACACTGGCTCTCATAATATGTC-GATGCCATGTCCCAGACATGGTCATACACTAGCTCAC
*
35937563 ATAAT-GTGGTCGATG
129 AT-ATCGTGGCCGATG
* * * * *
35937578 CCATGTCTCAGACTTGGTCTAACACTAGCACACATATCAATGTTGATGCCATGTCCCAGACATGG
1 CCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAATGTCGATGCCATGTCCCAGACATGG
* * * * *
35937643 TCTTACACTGGCTCTCATTACAT-TGTCAATGCCTTGTACCAAACATGGTCATACACTGGCTCTA
66 TCTTACACTGGCTCTCA-TA-ATATGTCGATGCCATGTCCCAGACATGGTCATACACTAGCTC-A
35937707 -ATATCGTGGCCGATG
128 CATATCGTGGCCGATG
*
35937722 CCATGTCCCAGACATGGTCTTACACTAGCGCACATATCA
1 CCATGTCCCAGACATGGTCTTACACTAGCTCACATATCA
35937761 TCCAAATGTC
Statistics
Matches: 382, Mismatches: 75, Indels: 28
0.79 0.15 0.06
Matches are distributed among these distances:
143 7 0.02
144 363 0.95
145 11 0.03
146 1 0.00
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.28
Consensus pattern (143 bp):
CCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAATGTCGATGCCATGTCCCAGACATGG
TCTTACACTGGCTCTCATAATATGTCGATGCCATGTCCCAGACATGGTCATACACTAGCTCACAT
ATCGTGGCCGATG
Found at i:35937759 original size:48 final size:47
Alignment explanation
Indices: 35937146--35937761 Score: 506
Period size: 48 Copynumber: 12.9 Consensus size: 47
35937136 ATTACGGATA
* * * * * * *
35937146 CCATGTTCCAAACATGGTCTTACACTGGCTCACA-AGTCAAGCCTAATG
1 CCATGTCCCAGACATGGTCTTACACTAGCTCTCATA-TCATGTC-GATG
* * * * *
35937194 CCATGTCCCAGGCATGGTCTTACGCTAGCTCTCGTCTCAATGCCGATG
1 CCATGTCCCAGACATGGTCTTACACTAGCTCTCATATC-ATGTCGATG
* * * *
35937242 CCATGTCCCAGACATGGTCTTACACTAGCTCACATGTCGAAGCCGATG
1 CCATGTCCCAGACATGGTCTTACACTAGCTCTCATATC-ATGTCGATG
** * * *
35937290 CCATGTCCCAGACATCATTTTACACTAGCTCTCGTCTCAATGTCGATG
1 CCATGTCCCAGACATGGTCTTACACTAGCTCTCATATC-ATGTCGATG
* * * *
35937338 CGATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGTCGATT
1 CCATGTCCCAGACATGGTCTTACACTAGCTCTCAT-ATCAT-GTCGATG
* * *
35937386 CCATGTCCCAGACATGGTTTTACACTAGCGCACATATCAATG-CTGATG
1 CCATGTCCCAGACATGGTCTTACACTAGCTCTCATATC-ATGTC-GATG
*
35937434 CCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-TACATTGTCGATG
1 CCATGTCCCAGACATGGTCTTACACTAGCTCTCATAT-CA-TGTCGATG
* * * * * * * *
35937482 CCATGTTCCAAACATGGTCATACATTGGATCTCATATTATGGCTGATG
1 CCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCATGTC-GATG
* * *
35937530 CCATGTCCCAGACATGGTCATACACTGGCTCTCATAAT-GTGGTCGATG
1 CCATGTCCCAGACATGGTCTTACACTAGCTCTCAT-ATCAT-GTCGATG
* * * * * *
35937578 CCATGTCTCAGACTTGGTCTAACACTAGCACACATATCAATGTTGATG
1 CCATGTCCCAGACATGGTCTTACACTAGCTCTCATATC-ATGTCGATG
* *
35937626 CCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-TACATTGTCAATG
1 CCATGTCCCAGACATGGTCTTACACTAGCTCTCATAT-CA-TGTCGATG
* * * * * * * *
35937674 CCTTGTACCAAACATGGTCATACACTGGCTCTAATATCGTGGCCGATG
1 CCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAT-GTCGATG
* *
35937722 CCATGTCCCAGACATGGTCTTACACTAGCGCACATATCAT
1 CCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAT
35937762 CCAAATGTCA
Statistics
Matches: 455, Mismatches: 93, Indels: 40
0.77 0.16 0.07
Matches are distributed among these distances:
47 14 0.03
48 427 0.94
49 14 0.03
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.28
Consensus pattern (47 bp):
CCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCATGTCGATG
Found at i:35954411 original size:12 final size:12
Alignment explanation
Indices: 35954394--35954418 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
35954384 CCACGACACG
35954394 CCCGTGTCTCAA
1 CCCGTGTCTCAA
35954406 CCCGTGTCTCAA
1 CCCGTGTCTCAA
35954418 C
1 C
35954419 AACCCCATAA
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:0.16, C:0.44, G:0.16, T:0.24
Consensus pattern (12 bp):
CCCGTGTCTCAA
Found at i:35955451 original size:48 final size:48
Alignment explanation
Indices: 35955395--35955758 Score: 333
Period size: 48 Copynumber: 7.6 Consensus size: 48
35955385 TGAATTACCA
* * * * *
35955395 ATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATGTTGAGGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCGAGGCTG
* * * * * *
35955443 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTCTCAATGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCGAGGCTG
* * * *
35955491 ATGCCATGTCGCAGACACGGTCTTACACTGGCTCACATGTCGAGGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCGAGGCTG
* * * * * * * *
35955539 ATGCCATGTCCCGGACATGGTGTTACACTAGCTCTCGTCTCAATGTTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCGAGGCTG
* * * * * *
35955587 ATGGCATGTCCTAGACATAGTCTTACATTGGCTCTCATAAT-GTGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-ATCGAGGCTG
*
35955635 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-TAC-ATTG-TCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAT-CGA-GGCT-G
* * * * *
35955683 ATGCCATGTTCCAAATATGGT-TTACACTGGCTCTCATATCGTGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCGAGGCTG
*
35955730 ATGTCATGTCCCAGACATGGTCTTACACT
1 ATGCCATGTCCCAGACATGGTCTTACACT
35955759 AGCGTACATA
Statistics
Matches: 246, Mismatches: 61, Indels: 18
0.76 0.19 0.06
Matches are distributed among these distances:
46 1 0.00
47 36 0.15
48 208 0.85
49 1 0.00
ACGTcount: A:0.21, C:0.27, G:0.22, T:0.29
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCGAGGCTG
Found at i:35955559 original size:96 final size:96
Alignment explanation
Indices: 35955395--35955761 Score: 447
Period size: 96 Copynumber: 3.8 Consensus size: 96
35955385 TGAATTACCA
* * *
35955395 ATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATGTTGAGGCTGATGCCATGTCCCAGACA
1 ATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCGAGGCCGATGCCATGTCCCAGACA
*
35955460 TGGTCTTACACTAGCTCTCGTCTCAATGCCG
66 TGGTCTTACACTAGCTCTCGTCTCAATGTCG
* * * * *
35955491 ATGCCATG-TCGCAGACACGGTCTTACACTGGCTCACATGTCGAGGCTGATGCCATGTCCCGGAC
1 ATGCCATGTTC-CAAACATGGTCTTACACTGGCTCACATATCGAGGCCGATGCCATGTCCCAGAC
* *
35955555 ATGGTGTTACACTAGCTCTCGTCTCAATGTTG
65 ATGGTCTTACACTAGCTCTCGTCTCAATGTCG
* * * * * *
35955587 ATGGCATG-TCCTAGACATAGTCTTACATTGGCTCTCATAAT-GTGGCCGATGCCATGTCCCAGA
1 ATGCCATGTTCC-AAACATGGTCTTACACTGGCTCACAT-ATCGAGGCCGATGCCATGTCCCAGA
* * *
35955650 CATGGTCTTACACTGGCTCTCAT-TACATTGTCG
64 CATGGTCTTACACTAGCTCTCGTCT-CAATGTCG
* * * *
35955683 ATGCCATGTTCCAAATATGGT-TTACACTGGCTCTCATATCGTGGCCGATGTCATGTCCCAGACA
1 ATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCGAGGCCGATGCCATGTCCCAGACA
35955747 TGGTCTTACACTAGC
66 TGGTCTTACACTAGC
35955762 GTACATATTA
Statistics
Matches: 237, Mismatches: 28, Indels: 13
0.85 0.10 0.05
Matches are distributed among these distances:
94 2 0.01
95 56 0.24
96 175 0.74
97 4 0.02
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.29
Consensus pattern (96 bp):
ATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCGAGGCCGATGCCATGTCCCAGACA
TGGTCTTACACTAGCTCTCGTCTCAATGTCG
Found at i:35959136 original size:22 final size:22
Alignment explanation
Indices: 35959108--35959153 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
35959098 TCAAGTCAAG
35959108 GGCTCAATGATTTGCCTAACAT
1 GGCTCAATGATTTGCCTAACAT
35959130 GGCTCAATGATTTGCCTAACAT
1 GGCTCAATGATTTGCCTAACAT
35959152 GG
1 GG
35959154 AGTGGGTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (22 bp):
GGCTCAATGATTTGCCTAACAT
Found at i:35977996 original size:10 final size:11
Alignment explanation
Indices: 35977968--35978000 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
35977958 CGTTTAGTCG
35977968 TTTTGTTTTCT
1 TTTTGTTTTCT
*
35977979 TATTGTTTT-T
1 TTTTGTTTTCT
35977989 TTTTGTTTTCT
1 TTTTGTTTTCT
35978000 T
1 T
35978001 GCTTGAGGAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.03, C:0.06, G:0.09, T:0.82
Consensus pattern (11 bp):
TTTTGTTTTCT
Found at i:35978097 original size:20 final size:21
Alignment explanation
Indices: 35978072--35978120 Score: 64
Period size: 23 Copynumber: 2.3 Consensus size: 21
35978062 GTTTTCTAGT
35978072 TGTTTTAG-ATTATTTTGTTA
1 TGTTTTAGTATTATTTTGTTA
*
35978092 TGTTTTTCGTTATTATTTTGTTA
1 TG-TTTTAG-TATTATTTTGTTA
35978115 TGTTTT
1 TGTTTT
35978121 TCATTTTTAG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 2 0.08
21 5 0.20
22 4 0.16
23 14 0.56
ACGTcount: A:0.14, C:0.02, G:0.14, T:0.69
Consensus pattern (21 bp):
TGTTTTAGTATTATTTTGTTA
Found at i:35978121 original size:11 final size:11
Alignment explanation
Indices: 35978084--35978121 Score: 51
Period size: 11 Copynumber: 3.4 Consensus size: 11
35978074 TTTTAGATTA
35978084 TTTTGTTATGT
1 TTTTGTTATGT
35978095 TTTTCGTTAT-T
1 TTTT-GTTATGT
35978106 ATTTTGTTATGT
1 -TTTTGTTATGT
35978118 TTTT
1 TTTT
35978122 CATTTTTAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
11 14 0.58
12 10 0.42
ACGTcount: A:0.11, C:0.03, G:0.13, T:0.74
Consensus pattern (11 bp):
TTTTGTTATGT
Found at i:35985305 original size:21 final size:18
Alignment explanation
Indices: 35985265--35985302 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
35985255 GTTTATTTGA
35985265 TGAAATGAAGATGATGGG
1 TGAAATGAAGATGATGGG
35985283 TGAAATGAAGATGATGGG
1 TGAAATGAAGATGATGGG
35985301 TG
1 TG
35985303 GTGGTGAAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.39, T:0.24
Consensus pattern (18 bp):
TGAAATGAAGATGATGGG
Found at i:35987579 original size:14 final size:16
Alignment explanation
Indices: 35987546--35987586 Score: 50
Period size: 14 Copynumber: 2.7 Consensus size: 16
35987536 TCATAATATG
*
35987546 AAAATATTTTATATTA
1 AAAATATATTATATTA
35987562 AAAATATATT-TA-TA
1 AAAATATATTATATTA
*
35987576 AAAATTTATTA
1 AAAATATATTA
35987587 GTTTTATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
14 11 0.50
15 2 0.09
16 9 0.41
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
AAAATATATTATATTA
Found at i:35992450 original size:20 final size:20
Alignment explanation
Indices: 35992425--35992488 Score: 82
Period size: 20 Copynumber: 3.4 Consensus size: 20
35992415 TTTCATGGAC
35992425 AAAAATGGACATATATAGAT
1 AAAAATGGACATATATAGAT
*
35992445 AAAAAT-GAC-TA-A-AGTT
1 AAAAATGGACATATATAGAT
35992461 CAAAAATGGACATATATAGAT
1 -AAAAATGGACATATATAGAT
35992482 AAAAATG
1 AAAAATG
35992489 ACTAAAGTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
16 3 0.08
17 7 0.19
18 5 0.14
19 5 0.14
20 14 0.38
21 3 0.08
ACGTcount: A:0.56, C:0.06, G:0.14, T:0.23
Consensus pattern (20 bp):
AAAAATGGACATATATAGAT
Found at i:35992466 original size:37 final size:37
Alignment explanation
Indices: 35992424--35992497 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
35992414 TTTTCATGGA
35992424 CAAAAATGGACATATATAGATAAAAATGACTAAAGTT
1 CAAAAATGGACATATATAGATAAAAATGACTAAAGTT
35992461 CAAAAATGGACATATATAGATAAAAATGACTAAAGTT
1 CAAAAATGGACATATATAGATAAAAATGACTAAAGTT
35992498 TTAATGAAGG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.54, C:0.08, G:0.14, T:0.24
Consensus pattern (37 bp):
CAAAAATGGACATATATAGATAAAAATGACTAAAGTT
Found at i:35995782 original size:39 final size:39
Alignment explanation
Indices: 35995728--35995841 Score: 165
Period size: 39 Copynumber: 2.9 Consensus size: 39
35995718 ATTTAATGTG
* *
35995728 TATTCGGACATAGGGTCCACAGGCTATGTGCTGGATTTA
1 TATTCGGACTTAGGGTCCGCAGGCTATGTGCTGGATTTA
*
35995767 TATTCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
1 TATTCGGACTTAGGGTCCGCAGGCTATGTGCTGGATTTA
* * * *
35995806 TATCCGGACTTAAGGTCGGCAGGCTACGTGCTGGAT
1 TATTCGGACTTAGGGTCCGCAGGCTATGTGCTGGAT
35995842 ATATGTCCGG
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 67 1.00
ACGTcount: A:0.21, C:0.19, G:0.31, T:0.29
Consensus pattern (39 bp):
TATTCGGACTTAGGGTCCGCAGGCTATGTGCTGGATTTA
Found at i:35995851 original size:39 final size:39
Alignment explanation
Indices: 35995732--35995878 Score: 143
Period size: 39 Copynumber: 3.8 Consensus size: 39
35995722 AATGTGTATT
* * * * * *
35995732 CGGACATAGGGTCCACAGGCTATGTGCTGGATTTATATT
1 CGGACTTAAGGTCCGCAGGCTACGTGCTGGATATATATC
* *
35995771 CGGACTTAGGGTCCGCAGGCTATGTGCTGGA-ATTATATC
1 CGGACTTAAGGTCCGCAGGCTACGTGCTGGATA-TATATC
* *
35995810 CGGACTTAAGGTCGGCAGGCTACGTGCTGGATATATGTC
1 CGGACTTAAGGTCCGCAGGCTACGTGCTGGATATATATC
* * * * *
35995849 CGGGCTAAAGTTCCGCAGGCTTCGAGCTGG
1 CGGACTTAAGGTCCGCAGGCTACGTGCTGG
35995879 TATTATACCG
Statistics
Matches: 92, Mismatches: 14, Indels: 4
0.84 0.13 0.04
Matches are distributed among these distances:
39 91 0.99
40 1 0.01
ACGTcount: A:0.20, C:0.21, G:0.32, T:0.27
Consensus pattern (39 bp):
CGGACTTAAGGTCCGCAGGCTACGTGCTGGATATATATC
Found at i:36002932 original size:39 final size:39
Alignment explanation
Indices: 36002874--36003033 Score: 178
Period size: 39 Copynumber: 4.1 Consensus size: 39
36002864 ATTTGATGTG
*
36002874 TATCCGGACTTAGGGTCCGCTGGCTATGTGCTGGAATTA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
*
36002913 TATTCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
* * * * *
36002952 TATCCAGACTTAAGGTCTGCAGGCTACGTGCTGGAAATA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
* * * * * * *
36002991 TGTCCGGGCTAAAGTTCCGCAGGCT-TCGAGCTGGTATTA
1 TATCCGGACTTAGGGTCCGCAGGCTAT-GTGCTGGAATTA
36003030 TATC
1 TATC
36003034 GGGTTTAAAT
Statistics
Matches: 101, Mismatches: 19, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 101 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (39 bp):
TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
Found at i:36011979 original size:53 final size:53
Alignment explanation
Indices: 36011797--36012003 Score: 191
Period size: 53 Copynumber: 3.8 Consensus size: 53
36011787 ATTAGGGTTT
* * * * *
36011797 AAGGATACCAAGTAAGACCATGCCAAGGCATGACATTGGTAAGTTTTACAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATGGTAAG-TTCATAAGGC
* * * * * * * * *
36011851 ATGGAAATCATGGAAGACCATGCCAAGAG-ATGGCATTGATAAACTACGATAAGGA
1 AAGGATACCATGTAAGACCATGCCAAG-GCATGGCAATGGT-AAGTTC-ATAAGGC
* * *
36011906 AAAGATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTCATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATGGTAAGTTCATAAGGC
* * *
36011959 AAGGATACCATGTAAGACCATGTCAAGACATGGTAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATGGTAAGTT
36012004 TAAAAGGGAA
Statistics
Matches: 119, Mismatches: 30, Indels: 9
0.75 0.19 0.06
Matches are distributed among these distances:
53 45 0.38
54 36 0.30
55 38 0.32
ACGTcount: A:0.38, C:0.17, G:0.25, T:0.20
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATGGTAAGTTCATAAGGC
Found at i:36014401 original size:39 final size:40
Alignment explanation
Indices: 36014333--36014413 Score: 155
Period size: 39 Copynumber: 2.0 Consensus size: 40
36014323 AATGTGAATG
36014333 TCCATATTCTAATCCCCCCTCATTTATGAGGTAAAACCTC
1 TCCATATTCTAATCCCCCCTCATTTATGAGGTAAAACCTC
36014373 TCCATATTCTAAT-CCCCCTCATTTATGAGGTAAAACCTC
1 TCCATATTCTAATCCCCCCTCATTTATGAGGTAAAACCTC
36014412 TC
1 TC
36014414 ATTCATTATG
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
39 28 0.68
40 13 0.32
ACGTcount: A:0.27, C:0.32, G:0.07, T:0.33
Consensus pattern (40 bp):
TCCATATTCTAATCCCCCCTCATTTATGAGGTAAAACCTC
Found at i:36025779 original size:42 final size:42
Alignment explanation
Indices: 36025733--36025828 Score: 113
Period size: 42 Copynumber: 2.3 Consensus size: 42
36025723 CGACCAAACT
*
36025733 ACACGCCCATGTACTCAGC-CGTGTGTCACACACAGTCTAGAC
1 ACACGCCCATGT-CTCAGCTCGTGTGTCACACACAGTCTAGAA
* * * * *
36025775 ACACGCCCTTGTGTCTGCTTGTGTGTCACACACGGTCTAGAA
1 ACACGCCCATGTCTCAGCTCGTGTGTCACACACAGTCTAGAA
*
36025817 ACACGCCTATGT
1 ACACGCCCATGT
36025829 GTCTGCCCGT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
41 4 0.09
42 41 0.91
ACGTcount: A:0.23, C:0.32, G:0.21, T:0.24
Consensus pattern (42 bp):
ACACGCCCATGTCTCAGCTCGTGTGTCACACACAGTCTAGAA
Found at i:36025830 original size:42 final size:42
Alignment explanation
Indices: 36025753--36025834 Score: 130
Period size: 42 Copynumber: 2.0 Consensus size: 42
36025743 GTACTCAGCC
*
36025753 GTGTGTCACACACAGTCTAGACACACGCCCTTGTGTCTGCTT
1 GTGTGTCACACACAGTCTAGAAACACGCCCTTGTGTCTGCTT
*
36025795 GTGTGTCACACACGGTCTAGAAACACG-CCTATGTGTCTGC
1 GTGTGTCACACACAGTCTAGAAACACGCCCT-TGTGTCTGC
36025835 CCGTGTGGAC
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
41 3 0.08
42 34 0.92
ACGTcount: A:0.21, C:0.29, G:0.23, T:0.27
Consensus pattern (42 bp):
GTGTGTCACACACAGTCTAGAAACACGCCCTTGTGTCTGCTT
Found at i:36031608 original size:40 final size:40
Alignment explanation
Indices: 36031553--36031777 Score: 292
Period size: 40 Copynumber: 5.6 Consensus size: 40
36031543 TATTCGGATG
36031553 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
36031593 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* * *
36031636 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * *
36031676 ATTTCCGGGCTAAGAT-CCGAAGGCATGTGTGCGAGTTACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCAAGTTACT
* * * *
36031716 ATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTGCG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
36031756 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
36031778 TACTTGGTTT
Statistics
Matches: 163, Mismatches: 17, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
39 15 0.09
40 109 0.67
41 2 0.01
43 37 0.23
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:36031696 original size:83 final size:80
Alignment explanation
Indices: 36031557--36031777 Score: 286
Period size: 83 Copynumber: 2.7 Consensus size: 80
36031547 CGGATGATAT
* *
36031557 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATGTG
*
36031622 TGCGAGTAGTTGCTATAC
66 TGC--G-AGTTACTATAC
* *
36031640 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATTTCCGGGCTAAGAT-CCGAAGGCATGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAG-TCCCGAAGGCATGT
*
36031704 GTGCGAGTTACTATAT
65 GTGCGAGTTACTATAC
* * * *
36031720 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTG-CGATATCC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TGACTATATCCGGGCTAAGTCCCGAAGG
36031778 TACTTGGTTT
Statistics
Matches: 124, Mismatches: 11, Indels: 10
0.86 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 13 0.10
80 44 0.35
81 3 0.02
83 62 0.50
84 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATGTG
TGCGAGTTACTATAC
Found at i:36051252 original size:43 final size:42
Alignment explanation
Indices: 36051149--36051267 Score: 150
Period size: 43 Copynumber: 2.8 Consensus size: 42
36051139 AGAGCTATTA
* *
36051149 AGATTACATGTAAGACCATATCTGGGATATGGCATCGATATG
1 AGATTACGTGTAAGACCATATCTGGGATATGGCATCGATACG
* * * *
36051191 AGGCTT-CGTGTAAAACCATAGCTGGGATATTGGCATTGATACG
1 A-GATTACGTGTAAGACCATATCTGGGATA-TGGCATCGATACG
*
36051234 AGATTACGTATAAGACCATATCTGGGATATGGCA
1 AGATTACGTGTAAGACCATATCTGGGATATGGCA
36051268 CTAGTACGGT
Statistics
Matches: 64, Mismatches: 10, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
42 29 0.45
43 35 0.55
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.28
Consensus pattern (42 bp):
AGATTACGTGTAAGACCATATCTGGGATATGGCATCGATACG
Found at i:36054213 original size:14 final size:15
Alignment explanation
Indices: 36054178--36054214 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
36054168 AAATATGACC
36054178 CATTCATTCCCTCATT
1 CATTCA-TCCCTCATT
36054194 CA-TCATCCCTCA-T
1 CATTCATCCCTCATT
36054207 CATTCATC
1 CATTCATC
36054215 ATTCTCTCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
13 3 0.15
14 12 0.60
15 3 0.15
16 2 0.10
ACGTcount: A:0.22, C:0.41, G:0.00, T:0.38
Consensus pattern (15 bp):
CATTCATCCCTCATT
Found at i:36059465 original size:20 final size:20
Alignment explanation
Indices: 36059428--36059465 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
36059418 TGATGGGGAG
*
36059428 CAAGAATATCAAGTTGGATT
1 CAAGAATATCAAGCTGGATT
36059448 CAAGAA-ATCGAAGCTGGA
1 CAAGAATATC-AAGCTGGA
36059466 GGAGAGAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.21
Consensus pattern (20 bp):
CAAGAATATCAAGCTGGATT
Found at i:36061417 original size:46 final size:46
Alignment explanation
Indices: 36061350--36061669 Score: 471
Period size: 46 Copynumber: 7.0 Consensus size: 46
36061340 AGTTTTCTCT
*
36061350 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
36061396 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACAATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
36061442 CTGATATTAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
36061488 CTGATATGAAATGTGTAAGACCATGGTTAAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
36061534 TTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** *
36061580 GTGATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCGAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
36061626 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
36061670 TCATGTCAAA
Statistics
Matches: 250, Mismatches: 23, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 1 0.00
46 249 1.00
ACGTcount: A:0.38, C:0.14, G:0.24, T:0.23
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:36062295 original size:18 final size:18
Alignment explanation
Indices: 36062272--36062308 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
36062262 GTTAGGGGTG
36062272 TTACACCTCCTCAAAAGT
1 TTACACCTCCTCAAAAGT
36062290 TTACACCTCCTCAAAAGT
1 TTACACCTCCTCAAAAGT
36062308 T
1 T
36062309 AAGTCTGACC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.32, G:0.05, T:0.30
Consensus pattern (18 bp):
TTACACCTCCTCAAAAGT
Found at i:36065901 original size:39 final size:40
Alignment explanation
Indices: 36065820--36065930 Score: 118
Period size: 40 Copynumber: 2.8 Consensus size: 40
36065810 GATATAGCTC
* * *
36065820 CTCATTCAAGTGCCTTCGGGACATAGCCCGG-TCATAGTAA
1 CTCATTCAA-TGCCTTCGGGACTTAACCCGGATCATAGAAA
**
36065860 CTCATTCAATGCCTTCGGGACTTAACCCGGATTTTA-AAA
1 CTCATTCAATGCCTTCGGGACTTAACCCGGATCATAGAAA
***
36065899 CTCGCACGAATGCCTTCGGGACTTAACCCGGA
1 CTCATTC-AATGCCTTCGGGACTTAACCCGGA
36065931 ATTGGTATCT
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
39 25 0.41
40 36 0.59
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.25
Consensus pattern (40 bp):
CTCATTCAATGCCTTCGGGACTTAACCCGGATCATAGAAA
Found at i:36065919 original size:40 final size:40
Alignment explanation
Indices: 36065867--36065997 Score: 156
Period size: 40 Copynumber: 3.3 Consensus size: 40
36065857 TAACTCATTC
* *
36065867 AATGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGAATTTAAAACTCGCACA
*** *
36065907 AATGCCTTCGGGACTTAACCCGGAATTGGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTTAAAACTCGCACA
* * *
36065947 AAGGCCTTCGGGACTTAA-CCTGAAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTTAA-AACTCGCACA
*
36065987 AATACCTTCGG
1 AATGCCTTCGG
36065998 ATCTTAGTCC
Statistics
Matches: 75, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
39 6 0.08
40 69 0.92
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTTAAAACTCGCACA
Found at i:36066010 original size:80 final size:80
Alignment explanation
Indices: 36065870--36066050 Score: 192
Period size: 80 Copynumber: 2.3 Consensus size: 80
36065860 CTCATTCAAT
** * *
36065870 GCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGACTTAACCCGGA-ATT
1 GCCTTCGGGACTTAACCCGGAAATTAAAACTCGCACAAATACCTTCGGGACTTAACCCGGATA-T
* *
36065934 GGT-A-TCTCGCACAAA
65 AGTCACT-TAGCACAAA
* **
36065949 GGCCTTCGGGACTTAA-CCTGAAATTAATAACTCGCACAAATACCTTC-GGATCTTAGTCCGGAT
1 -GCCTTCGGGACTTAACCCGGAAATTAA-AACTCGCACAAATACCTTCGGGA-CTTAACCCGGAT
36066012 ATAGTCACTTAGCACAAA
63 ATAGTCACTTAGCACAAA
*
36066030 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
36066051 CAGCATTCAA
Statistics
Matches: 84, Mismatches: 11, Indels: 11
0.79 0.10 0.10
Matches are distributed among these distances:
79 11 0.13
80 58 0.69
81 14 0.17
82 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCGGAAATTAAAACTCGCACAAATACCTTCGGGACTTAACCCGGATATA
GTCACTTAGCACAAA
Found at i:36070426 original size:98 final size:97
Alignment explanation
Indices: 36070252--36070427 Score: 219
Period size: 98 Copynumber: 1.8 Consensus size: 97
36070242 GATAAGATGT
*
36070252 CGATGCCATGTCCAAGACATGGTCTTACACTGGCTAACACATCAAAGTCGATGCCATGTCCCAGA
1 CGATGCCATGTCCAAGACATGGTCTTACACTGGCTAACACATCAAAGTCGATACCATGTCCCAGA
36070317 CAGCTCCTACACTAACCTTCATATATCGAGGC
66 CAGCTCCTACACTAACCTTCATATATCGAGGC
* * * ** * * * *
36070349 CGATGCTATGTCCCAGATA-GGTCTTACACTGGCTCTCATCTATCGATGTCGATACTATGTCTCA
1 CGATGCCATGTCCAAGACATGGTCTTACACTGGCTAACA-C-ATCAAAGTCGATACCATGTCCCA
* *
36070413 GACAGGTCTTACACT
64 GACAGCTCCTACACT
36070428 GACACACAAC
Statistics
Matches: 65, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
96 17 0.26
97 17 0.26
98 31 0.48
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (97 bp):
CGATGCCATGTCCAAGACATGGTCTTACACTGGCTAACACATCAAAGTCGATACCATGTCCCAGA
CAGCTCCTACACTAACCTTCATATATCGAGGC
Found at i:36070428 original size:49 final size:49
Alignment explanation
Indices: 36070247--36070428 Score: 172
Period size: 49 Copynumber: 3.7 Consensus size: 49
36070237 CATGGGATAA
* **
36070247 GATGTCGATGCCATGTCCAAGACATGGTCTTACACTGGCTAACA-C-ATC
1 GATGTCGATGCCATGTCCCAGACA-GGTCTTACACTGGCTCTCATCTATC
* * * * ** *
36070295 AAAGTCGATGCCATGTCCCAGACAGCTCCTACACTAAC-CTTCATATATC
1 GATGTCGATGCCATGTCCCAGACAGGTCTTACACTGGCTC-TCATCTATC
* * * *
36070344 GAGGCCGATGCTATGTCCCAGATAGGTCTTACACTGGCTCTCATCTATC
1 GATGTCGATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCATCTATC
* * *
36070393 GATGTCGATACTATGTCTCAGACAGGTCTTACACTG
1 GATGTCGATGCCATGTCCCAGACAGGTCTTACACTG
36070429 ACACACAACA
Statistics
Matches: 105, Mismatches: 25, Indels: 7
0.77 0.18 0.05
Matches are distributed among these distances:
47 12 0.11
48 21 0.20
49 71 0.68
50 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (49 bp):
GATGTCGATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCATCTATC
Found at i:36070513 original size:48 final size:46
Alignment explanation
Indices: 36070448--36070568 Score: 152
Period size: 46 Copynumber: 2.6 Consensus size: 46
36070438 AAGCTAACGC
* * *
36070448 CATGTCCCAGACATGTCTTACACTATCTTGTATATCTCAAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGC-TCT-CATCTCAAGGCCGATG
* * * * *
36070496 CATGTCCCAAACCTGTCTTACACTAGCTCTCGTCTCAATGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAAGGCCGATG
36070542 CATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
36070569 ACACATATCA
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
46 37 0.59
47 2 0.03
48 24 0.38
ACGTcount: A:0.24, C:0.31, G:0.16, T:0.30
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAAGGCCGATG
Found at i:36077105 original size:49 final size:49
Alignment explanation
Indices: 36077000--36077266 Score: 174
Period size: 49 Copynumber: 5.7 Consensus size: 49
36076990 ACACATCAAA
* *
36077000 GTCGATGCCATGTCCCAGA-AGGTCTTACACTGACTTTCATATATTGAG
1 GTCGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATTCAG
* * * *
36077048 G-CTGATGCCATGTCCCAAACAGGTCTTATACTGGCTCTCATCTA-TCAG
1 GTC-GATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATTCAG
* * * *
36077096 TGTCGATGCCATGTCCTAGACAGGTCTTACACTGA-T-ACACA-A--CAA
1 -GTCGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATTCAG
* * * *
36077141 G-CTAACGCCATGTCCCAGACAGGTCTTACTCT-AGCT-T-GTATATCTCGAG
1 GTC-GATGCCATGTCCCAGACAGGTCTTACACTGA-CTCTCATATAT-TC-AG
*
36077190 GTCGATG-CATGTCCCAGACATGTCTTACACT-AGCTCTCATA-ATGT--G
1 GTCGATGCCATGTCCCAGACAGGTCTTACACTGA-CTCTCATATAT-TCAG
* * *
36077236 GCCGATG-AATGTCCCAGACATGTCTTACACT
1 GTCGATGCCATGTCCCAGACAGGTCTTACACT
36077267 AGCACACATA
Statistics
Matches: 174, Mismatches: 30, Indels: 32
0.74 0.13 0.14
Matches are distributed among these distances:
43 2 0.01
44 27 0.16
45 4 0.02
46 31 0.18
47 3 0.02
48 47 0.27
49 56 0.32
50 4 0.02
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.28
Consensus pattern (49 bp):
GTCGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATTCAG
Found at i:36077215 original size:141 final size:145
Alignment explanation
Indices: 36076956--36077229 Score: 332
Period size: 141 Copynumber: 1.9 Consensus size: 145
36076946 TAAGATGCCA
* * * * *
36076956 ATGCCATGTCCTAGACATGGTCTTACGCTGGCTAACACATCAAAGTCGATGCCATGTCCCAGAAG
1 ATGCCATGTCCTAGACATGGTCTTACACTGGATAACACAACAAAGTCAACGCCATGTCCCAGAAG
* * *
36077021 GTCTTACACTGACTTTCATATATTGAGGCTGATGCCATGTCCCAAACAGGTCTTATACTGGCTCT
66 GTCTTACACTGACTTTCATATATCGAGGCTGATGCCATGTCCCAAACAGGTCTTACACTAGCTCT
36077086 CATCTATCAGTGTCG
131 CATCTATCAGTGTCG
36077101 ATGCCATGTCCTAGACA-GGTCTTACACT-GAT-ACACAAC-AAG-CTAACGCCATGTCCCAGAC
1 ATGCCATGTCCTAGACATGGTCTTACACTGGATAACACAACAAAGTC-AACGCCATGTCCCAGA-
* * * *
36077161 AGGTCTTACTCT-AGCTTGT-ATATCTCGAGG-TCGATG-CATGTCCCAGACATGTCTTACACTA
64 AGGTCTTACACTGA-CTT-TCATATATCGAGGCT-GATGCCATGTCCCAAACAGGTCTTACACTA
36077222 GCTCTCAT
126 GCTCTCAT
36077230 AATGTGGCCG
Statistics
Matches: 112, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
140 1 0.01
141 48 0.43
142 33 0.29
143 3 0.03
144 10 0.09
145 17 0.15
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (145 bp):
ATGCCATGTCCTAGACATGGTCTTACACTGGATAACACAACAAAGTCAACGCCATGTCCCAGAAG
GTCTTACACTGACTTTCATATATCGAGGCTGATGCCATGTCCCAAACAGGTCTTACACTAGCTCT
CATCTATCAGTGTCG
Found at i:36086018 original size:19 final size:20
Alignment explanation
Indices: 36085981--36086018 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
36085971 GTTTTATGTG
* *
36085981 CATTATTTGATCTATTTTGA
1 CATTATGTGATCTAGTTTGA
36086001 CATTATGTG-TCTAGTTTG
1 CATTATGTGATCTAGTTTG
36086019 GCTTATTCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.21, C:0.11, G:0.16, T:0.53
Consensus pattern (20 bp):
CATTATGTGATCTAGTTTGA
Found at i:36087750 original size:27 final size:27
Alignment explanation
Indices: 36087720--36087860 Score: 128
Period size: 27 Copynumber: 5.2 Consensus size: 27
36087710 GTGACGAAGT
*
36087720 CACCAGATACAGTTATTGTGGTAGAGC
1 CACCAGATACAGTTATTGTGGCAGAGC
*
36087747 CACCAGA-ACAGATATATGTGGCAGAGC
1 CACCAGATACAGTTAT-TGTGGCAGAGC
* * * *
36087774 CACCAGAT-CAGATAATTGTGGTATATC
1 CACCAGATACAG-TTATTGTGGCAGAGC
* *
36087801 CACCAG-GACAGATATATGTGGCAGAGC
1 CACCAGATACAGTTAT-TGTGGCAGAGC
* *
36087828 CACCAGAT-CAGATAATTGTGGCATAGC
1 CACCAGATACAG-TTATTGTGGCAGAGC
36087855 CACCAG
1 CACCAG
36087861 GACGCTTCCT
Statistics
Matches: 90, Mismatches: 17, Indels: 14
0.74 0.14 0.12
Matches are distributed among these distances:
26 9 0.10
27 77 0.86
28 4 0.04
ACGTcount: A:0.33, C:0.22, G:0.24, T:0.21
Consensus pattern (27 bp):
CACCAGATACAGTTATTGTGGCAGAGC
Found at i:36087861 original size:54 final size:54
Alignment explanation
Indices: 36087720--36087863 Score: 227
Period size: 54 Copynumber: 2.7 Consensus size: 54
36087710 GTGACGAAGT
* * *
36087720 CACCAGATACAG-TTATTGTGGTAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGTATAGCCACCAGGACAGATATATGTGGCAGAGC
*
36087774 CACCAGATCAGATAATTGTGGTATATCCACCAGGACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGTATAGCCACCAGGACAGATATATGTGGCAGAGC
*
36087828 CACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
1 CACCAGATCAGATAATTGTGGTATAGCCACCAGGAC
36087864 GCTTCCTCCA
Statistics
Matches: 83, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
53 3 0.04
54 80 0.96
ACGTcount: A:0.33, C:0.22, G:0.24, T:0.20
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGTATAGCCACCAGGACAGATATATGTGGCAGAGC
Found at i:36089505 original size:26 final size:26
Alignment explanation
Indices: 36089474--36089581 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
36089464 TGAAATGCCC
36089474 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
36089500 ATCATGGAACCTTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
36089526 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
36089552 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
36089578 ATCA
1 ATCA
36089582 ATTTGTACCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:36090894 original size:21 final size:21
Alignment explanation
Indices: 36090861--36090901 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
36090851 CCTATCCATT
*
36090861 GTTTAAGAAATGATGTTTGAG
1 GTTTAAGAAATGAGGTTTGAG
* *
36090882 GTTTTAGAGATGAGGTTTGA
1 GTTTAAGAAATGAGGTTTGA
36090902 TCTTATAAGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.32, T:0.39
Consensus pattern (21 bp):
GTTTAAGAAATGAGGTTTGAG
Found at i:36092201 original size:19 final size:20
Alignment explanation
Indices: 36092164--36092203 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
36092154 TCTTAAAGTA
36092164 AAAATGAATGTCAAATTTTG
1 AAAATGAATGTCAAATTTTG
* *
36092184 AAAATGTATGTCAATTTTTG
1 AAAATGAATGTCAAATTTTG
36092204 TTTTGGCCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.40, C:0.05, G:0.15, T:0.40
Consensus pattern (20 bp):
AAAATGAATGTCAAATTTTG
Found at i:36092361 original size:22 final size:23
Alignment explanation
Indices: 36092319--36092372 Score: 65
Period size: 22 Copynumber: 2.3 Consensus size: 23
36092309 AAGCTTTTTT
36092319 TGAAAATATATTTTGATATAAAAA
1 TGAAAAT-TATTTTGATATAAAAA
* *
36092343 TGAAAATTTTTTTGA-ATAAAAG
1 TGAAAATTATTTTGATATAAAAA
*
36092365 TTAAAATT
1 TGAAAATT
36092373 GAATAAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
22 13 0.48
23 7 0.26
24 7 0.26
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (23 bp):
TGAAAATTATTTTGATATAAAAA
Found at i:36092954 original size:21 final size:17
Alignment explanation
Indices: 36092932--36092968 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
36092922 CAACAATAAG
36092932 AAAGAATATTCAAGCAA
1 AAAGAATATTCAAGCAA
36092949 AAAGAATATTCAAGCAA
1 AAAGAATATTCAAGCAA
36092966 AAA
1 AAA
36092969 TCATCAATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.62, C:0.11, G:0.11, T:0.16
Consensus pattern (17 bp):
AAAGAATATTCAAGCAA
Found at i:36094701 original size:95 final size:93
Alignment explanation
Indices: 36094438--36094716 Score: 342
Period size: 95 Copynumber: 2.9 Consensus size: 93
36094428 ACTAGTGGTG
* * ** * *
36094438 GATACCTTACCGATGGCTAAGATCCTGCAAATATTGTAAATTCCTCATAGCTCGTGTGAGCAGCA
1 GATACCTTA-CGATGGCTAAGATCCTACATATATTGTGGATTCTTCACAGCTCGTGTGAGCAGCA
* * * * * *
36094503 TCTTGTAACAATTAATGTCCCGATTTATTG
65 TCGTGTAATAGTTAATGT-CTGATTTACTA
* * * * *
36094533 GATACCTTACTAATGGCTAAGATCCTACATATATTGCGGATTATTCACAACTCTTGTGAGCAGCA
1 GATACCTTAC-GATGGCTAAGATCCTACATATATTGTGGATTCTTCACAGCTCGTGTGAGCAGCA
36094598 TCGTGTAATAGTTAATGTCTTGATTTACTA
65 TCGTGTAATAGTTAATGTC-TGATTTACTA
*
36094628 GATACCTTATCGATGGCTAAGATCCTACATATATTGTGGATTCTTCACAGCTCGTGTAAGCAGCA
1 GATACCTTA-CGATGGCTAAGATCCTACATATATTGTGGATTCTTCACAGCTCGTGTGAGCAGCA
*
36094693 TCGTGTAATGGTTAATGTCTGATT
65 TCGTGTAATAGTTAATGTCTGATT
36094717 CACAGCTCAT
Statistics
Matches: 157, Mismatches: 24, Indels: 7
0.84 0.13 0.04
Matches are distributed among these distances:
94 7 0.04
95 149 0.95
96 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (93 bp):
GATACCTTACGATGGCTAAGATCCTACATATATTGTGGATTCTTCACAGCTCGTGTGAGCAGCAT
CGTGTAATAGTTAATGTCTGATTTACTA
Found at i:36098696 original size:28 final size:28
Alignment explanation
Indices: 36098664--36098728 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
36098654 ATTTACTAGA
*
36098664 ATACCCCTATGTATGAAAAATTACCATT
1 ATACCCCTATGTATGAAAAATGACCATT
** *
36098692 ATACCCCTATGTATGCTAAATGACCTTT
1 ATACCCCTATGTATGAAAAATGACCATT
36098720 ATACCCCTA
1 ATACCCCTA
36098729 GTGTTAATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.34, C:0.26, G:0.08, T:0.32
Consensus pattern (28 bp):
ATACCCCTATGTATGAAAAATGACCATT
Found at i:36099389 original size:18 final size:18
Alignment explanation
Indices: 36099350--36099390 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
36099340 TAATAAGGCC
* *
36099350 TTTTAATTATTTTTATGG
1 TTTTAATTACTTTTATGA
*
36099368 TTTTAATTACTTTTATTA
1 TTTTAATTACTTTTATGA
36099386 TTTTA
1 TTTTA
36099391 TTTTATTATG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.24, C:0.02, G:0.05, T:0.68
Consensus pattern (18 bp):
TTTTAATTACTTTTATGA
Found at i:36102941 original size:46 final size:46
Alignment explanation
Indices: 36102874--36103045 Score: 181
Period size: 46 Copynumber: 3.7 Consensus size: 46
36102864 AACCCACCCC
* **
36102874 TAAGTGAACTCGGACTCAACTCAATGAACTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
*
36102920 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCATCCA
* * * *
36102968 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
* *
36103013 TAGGTGAACTCGGACTCAACTCAATGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
36103046 ATGCTCAACC
Statistics
Matches: 104, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 1 0.01
46 57 0.55
47 28 0.27
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
Done.