Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007936.1 Hibiscus syriacus cultivar Beakdansim tig00110346_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2869312
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 11
Found at i:679083 original size:2 final size:2
Alignment explanation
Indices: 679076--679131 Score: 53
Period size: 2 Copynumber: 29.0 Consensus size: 2
679066 AATGAAAATA
* * * *
679076 AT AT AT AT AT AT AT AT AC AT GT A- AT AT AT AT GT A- AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
679116 AT AT AT AT AA AT AT AT
1 AT AT AT AT AT AT AT AT
679132 GTTTATAAAA
Statistics
Matches: 43, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
1 2 0.05
2 41 0.95
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.43
Consensus pattern (2 bp):
AT
Found at i:679104 original size:17 final size:17
Alignment explanation
Indices: 679076--679124 Score: 62
Period size: 19 Copynumber: 2.8 Consensus size: 17
679066 AATGAAAATA
679076 ATATATATATATATATAC
1 ATATATATATATATA-AC
* *
679094 ATGTAATATATATGTAAC
1 ATAT-ATATATATATAAC
679112 ATATATATATATA
1 ATATATATATATA
679125 AATATATGTT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
17 8 0.31
18 8 0.31
19 10 0.38
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.43
Consensus pattern (17 bp):
ATATATATATATATAAC
Found at i:679108 original size:11 final size:11
Alignment explanation
Indices: 679074--679117 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
679064 CAAATGAAAA
*
679074 TAATATATATA
1 TAATATATATG
*
679085 TATATATACATG
1 TA-ATATATATG
679097 TAATATATATG
1 TAATATATATG
*
679108 TAACATATAT
1 TAATATATAT
679118 ATATATAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
11 19 0.68
12 9 0.32
ACGTcount: A:0.48, C:0.05, G:0.05, T:0.43
Consensus pattern (11 bp):
TAATATATATG
Found at i:679660 original size:105 final size:105
Alignment explanation
Indices: 679467--680344 Score: 1471
Period size: 105 Copynumber: 8.4 Consensus size: 105
679457 GTATTTTTCT
* * * * * * **
679467 GAGTCCAATATCC-TCGGCTGTGAAGTTGAAACTGGTTCT-AGAACTGGGAAATTCTTTACTGAC
1 GAGTCCAATATCCTTC-GTTGTGAAGTTGAAATTGGCTCTGA-AATTGAGAAA-TGTTTGTTGAC
679530 AACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
63 AACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
679573 GAGTCCAATATCCTTCGTTGCGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
* *
679638 CAGCGGTCCCTTCGTCTTGAAGTTGAACTTGCGTTGTCCG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
679678 GAGTCCAATATCCTTCGTTTTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
679743 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
679783 GAGTCCAATATCCTTCGTTGTGAAGTTAAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
679848 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
679888 GAGTCCAATATCCTTCGTTGTGAAGTTGAAACTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
*
679953 CAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
679993 GAGTCCAATATCCTTCGTTGTGAAGTTGAAACTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
*
680058 CAGCGGTCCCTTCGTCATGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
680098 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGGAATTGAGAAATGGTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
* *
680163 TAGCGGTCCCTTC-TCCGTGAAGTTGAACTTGCGCTGTCTG
66 CAGCGGTCCCTTCGT-CGTGAAGTTGAACTTGCGTTGTCTG
*
680203 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGGTTGTTG---AC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
*
680265 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
680305 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
680345 GGTAAAACCT
Statistics
Matches: 736, Mismatches: 32, Indels: 12
0.94 0.04 0.02
Matches are distributed among these distances:
102 77 0.10
103 1 0.00
104 1 0.00
105 614 0.83
106 40 0.05
107 3 0.00
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (105 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:681218 original size:4 final size:4
Alignment explanation
Indices: 681183--681212 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
681173 AACGTTCTTT
681183 TTTG TTT- TTTG TTTG TTTG TTTG TTTG TTT
1 TTTG TTTG TTTG TTTG TTTG TTTG TTTG TTT
681213 TTTTTTCAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 22 0.88
ACGTcount: A:0.00, C:0.00, G:0.20, T:0.80
Consensus pattern (4 bp):
TTTG
Found at i:691869 original size:16 final size:17
Alignment explanation
Indices: 691848--691902 Score: 58
Period size: 20 Copynumber: 3.1 Consensus size: 17
691838 AGAGAAAAAA
691848 ATAAT-AATATATGTAT
1 ATAATAAATATATGTAT
*
691864 ATAATAAAATAAATGTAAAT
1 ATAAT-AAATATATGT--AT
691884 ATATATAAATATATGTAT
1 ATA-ATAAATATATGTAT
691902 A
1 A
691903 AATGAGTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
16 5 0.16
18 11 0.34
20 14 0.44
21 2 0.06
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.38
Consensus pattern (17 bp):
ATAATAAATATATGTAT
Found at i:693369 original size:2 final size:2
Alignment explanation
Indices: 693272--693360 Score: 128
Period size: 2 Copynumber: 45.5 Consensus size: 2
693262 AACGAAAATA
693272 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * *
693314 AT AT AT AT AC AT GT A- AT AT AT AT GT A- AC AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
693354 AT AT AT A
1 AT AT AT A
693361 AAAATATATG
Statistics
Matches: 78, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
1 2 0.03
2 76 0.97
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.46
Consensus pattern (2 bp):
AT
Found at i:694084 original size:45 final size:45
Alignment explanation
Indices: 694034--694141 Score: 164
Period size: 45 Copynumber: 2.4 Consensus size: 45
694024 AATCTAATGC
* *
694034 TTTTGATTATTGGGTTGTC-AAAAGTAAAATCAAAGGATTATTTTA
1 TTTTGATTATTGGGTTG-CGAAAAGTAAAATCAAAGGATTAGTTCA
* *
694079 TTTTGATTATTGGGTTGCGAAAATTAAAATCAAAGGATTAGTTCC
1 TTTTGATTATTGGGTTGCGAAAAGTAAAATCAAAGGATTAGTTCA
694124 TTTTGATTATTGGGTTGC
1 TTTTGATTATTGGGTTGC
694142 TAAACTTGAA
Statistics
Matches: 58, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
44 1 0.02
45 57 0.98
ACGTcount: A:0.31, C:0.06, G:0.20, T:0.43
Consensus pattern (45 bp):
TTTTGATTATTGGGTTGCGAAAAGTAAAATCAAAGGATTAGTTCA
Found at i:694362 original size:58 final size:58
Alignment explanation
Indices: 694272--694424 Score: 270
Period size: 58 Copynumber: 2.6 Consensus size: 58
694262 TTTTAAAAAA
* * *
694272 AGTTGAATTTATTTCCTTGAGAATCTTAAATGATTTTAACTTTGAAAGGAAAATAAAT
1 AGTTGAATTTATTTCCTTGAGAATCTTGAATGATTCTAACTTTAAAAGGAAAATAAAT
*
694330 AGTTGAATTTATTTCCTTGAGAACCTTGAATGATTCTAACTTTAAAAGGAAAATAAAT
1 AGTTGAATTTATTTCCTTGAGAATCTTGAATGATTCTAACTTTAAAAGGAAAATAAAT
694388 AGTTGAATTTATTTCCTTGAGAATCTTGAATGATTCT
1 AGTTGAATTTATTTCCTTGAGAATCTTGAATGATTCT
694425 GTTTTGTAAA
Statistics
Matches: 90, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
58 90 1.00
ACGTcount: A:0.37, C:0.09, G:0.14, T:0.40
Consensus pattern (58 bp):
AGTTGAATTTATTTCCTTGAGAATCTTGAATGATTCTAACTTTAAAAGGAAAATAAAT
Found at i:694541 original size:58 final size:57
Alignment explanation
Indices: 694444--694625 Score: 220
Period size: 58 Copynumber: 3.1 Consensus size: 57
694434 ACCGTTAAAG
* * * *
694444 TTATTTTCATGTGAATCTTATATGATTTTGTTTTGTAAAAGGAAATGAATCGTTGAAT
1 TTATTTTCATGTGAATC-TATATGATTATGGTTTGTAAAAGGAAATAAATCATTGAAT
* * * *
694502 TTATTTTCTTGCGAATGCTATATTATTATGGTTTATAAAAGGAAATAAATCATTGAAT
1 TTATTTTCATGTGAAT-CTATATGATTATGGTTTGTAAAAGGAAATAAATCATTGAAT
* * * * *
694560 TTATTTTCCTGTGAAATTTATATGATTATGGTTTGTAAAAGGAAATAAGTAATAGAAT
1 TTATTTTCATGTG-AATCTATATGATTATGGTTTGTAAAAGGAAATAAATCATTGAAT
694618 TTATTTTC
1 TTATTTTC
694626 CTATTTTGTG
Statistics
Matches: 106, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
58 102 0.96
59 4 0.04
ACGTcount: A:0.34, C:0.05, G:0.15, T:0.45
Consensus pattern (57 bp):
TTATTTTCATGTGAATCTATATGATTATGGTTTGTAAAAGGAAATAAATCATTGAAT
Found at i:694699 original size:39 final size:39
Alignment explanation
Indices: 694591--694744 Score: 147
Period size: 39 Copynumber: 4.1 Consensus size: 39
694581 ATGATTATGG
* * * * *
694591 TTTGTAAAAGGAAATAAGTAATAGAATTTATTTTCCTAT
1 TTTGTGAAAGGAAATAAATCATTGGATTTATTTTCCTAT
* * *
694630 TTTGTGAAAGGAAATAAATCGTTGGCTTTATTTTCTTAT
1 TTTGTGAAAGGAAATAAATCATTGGATTTATTTTCCTAT
* * *
694669 TTTGTGAAAGGAAATAACTCATTGGATTTATTTTTCT-G
1 TTTGTGAAAGGAAATAAATCATTGGATTTATTTTCCTAT
* * *
694707 CTT-T---AGGAATTAAATCGTTGGATTTATTTTCCTAT
1 TTTGTGAAAGGAAATAAATCATTGGATTTATTTTCCTAT
694742 TTT
1 TTT
694745 TTACTAATAA
Statistics
Matches: 93, Mismatches: 21, Indels: 6
0.77 0.17 0.05
Matches are distributed among these distances:
34 25 0.27
35 2 0.02
37 1 0.01
38 2 0.02
39 63 0.68
ACGTcount: A:0.31, C:0.08, G:0.16, T:0.46
Consensus pattern (39 bp):
TTTGTGAAAGGAAATAAATCATTGGATTTATTTTCCTAT
Found at i:698166 original size:53 final size:53
Alignment explanation
Indices: 698069--698185 Score: 155
Period size: 53 Copynumber: 2.2 Consensus size: 53
698059 GGGTGGATAC
* *
698069 GTGCCCACCCTAAAACCTAAAATTTTTTCTATTAATCACTTATTTTATTGATG
1 GTGCCCACCCTAAAACCTAAAATTTTTTCAATTAATCACATATTTTATTGATG
* * * *
698122 GTGCCCACCCTGAAA-TTTAAATTTTCTTCAATTAGTCACATATTTTATTGATG
1 GTGCCCACCCTAAAACCTAAAATTTT-TTCAATTAATCACATATTTTATTGATG
*
698175 GTGCCCGCCCT
1 GTGCCCACCCT
698186 TCAATTTTAT
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
52 8 0.14
53 48 0.86
ACGTcount: A:0.26, C:0.23, G:0.11, T:0.39
Consensus pattern (53 bp):
GTGCCCACCCTAAAACCTAAAATTTTTTCAATTAATCACATATTTTATTGATG
Found at i:698495 original size:10 final size:8
Alignment explanation
Indices: 698466--698502 Score: 56
Period size: 8 Copynumber: 4.4 Consensus size: 8
698456 ATGATTTTTT
698466 TTTGAAAA
1 TTTGAAAA
698474 TTTGAAAA
1 TTTGAAAA
698482 TTTGAATTAA
1 TTTGAA--AA
698492 TTTGAAAA
1 TTTGAAAA
698500 TTT
1 TTT
698503 TGAATTGGAG
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
8 19 0.70
10 8 0.30
ACGTcount: A:0.43, C:0.00, G:0.11, T:0.46
Consensus pattern (8 bp):
TTTGAAAA
Found at i:698495 original size:18 final size:19
Alignment explanation
Indices: 698472--698508 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
698462 TTTTTTTGAA
698472 AATTTGAAAA-TTTGAATT
1 AATTTGAAAATTTTGAATT
698490 AATTTGAAAATTTTGAATT
1 AATTTGAAAATTTTGAATT
698509 GGAGTCGTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.43, C:0.00, G:0.11, T:0.46
Consensus pattern (19 bp):
AATTTGAAAATTTTGAATT
Found at i:703466 original size:6 final size:6
Alignment explanation
Indices: 703016--703465 Score: 588
Period size: 6 Copynumber: 75.3 Consensus size: 6
703006 TGGGGGTGGG
* * *
703016 TGGGTA TGGGTA TGGGTA TGGGTA TGGGTATA TGGG-- TGTGTG TGTGTA
1 TGGGTA TGGGTA TGGGTA TGGGTA TGGG--TA TGGGTA TGGGTA TGGGTA
* * * *
703064 TGGGTA TGTGTA TGTGTG TGTGTA TGGGTA TGGGTA TGGGTATA TGGG--
1 TGGGTA TGGGTA TGGGTA TGGGTA TGGGTA TGGGTA TGGG--TA TGGGTA
* * * * * *
703112 TGTGTG TGTGTA TGGGTA TGTGTA T--GTG TGTGTA TGGGTA TGGGTA
1 TGGGTA TGGGTA TGGGTA TGGGTA TGGGTA TGGGTA TGGGTA TGGGTA
703158 TGGGTA TGGGTA TGGGTA TGGGTA TGGGTA TGGGTA TGGGTA TGGGTA
1 TGGGTA TGGGTA TGGGTA TGGGTA TGGGTA TGGGTA TGGGTA TGGGTA
703206 TGGGTA TGGGTA TGGGTA TGGGTA TGGGTA TGGGTA TGGGTA TGGGTA
1 TGGGTA TGGGTA TGGGTA TGGGTA TGGGTA TGGGTA TGGGTA TGGGTA
* * * *
703254 TGTGTA TGGGTA TGGGTA TGTGTA TGTGTA TGTGTA TGGGTA TGGGTA
1 TGGGTA TGGGTA TGGGTA TGGGTA TGGGTA TGGGTA TGGGTA TGGGTA
* * * * *
703302 TGGGTA TGTGTA TGTGTA TGTGTA TGTGTA TGTGTA TGGGTA TGGGTA
1 TGGGTA TGGGTA TGGGTA TGGGTA TGGGTA TGGGTA TGGGTA TGGGTA
*
703350 TGTGTA TGGGTA TGGGTA TGGGTA TGGGTA TGGGTA TGGGTA TGGGTA
1 TGGGTA TGGGTA TGGGTA TGGGTA TGGGTA TGGGTA TGGGTA TGGGTA
703398 TGGGTA TGGGTA TGGGTA TGGGTA TGGGTA TGGGTA TGGGTA TGGGTA
1 TGGGTA TGGGTA TGGGTA TGGGTA TGGGTA TGGGTA TGGGTA TGGGTA
* * *
703446 TGTGTA TGTGTA TGTGTA TG
1 TGGGTA TGGGTA TGGGTA TG
703466 TATATATATA
Statistics
Matches: 411, Mismatches: 23, Indels: 20
0.91 0.05 0.04
Matches are distributed among these distances:
4 9 0.02
6 390 0.95
8 12 0.03
ACGTcount: A:0.16, C:0.00, G:0.46, T:0.38
Consensus pattern (6 bp):
TGGGTA
Found at i:704023 original size:18 final size:19
Alignment explanation
Indices: 703986--704023 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
703976 CACGGAATGT
703986 AAGATTACCAGTGAGAATAA
1 AAGATTACCAGT-AGAATAA
704006 AAGATTACCAGT-GAATAA
1 AAGATTACCAGTAGAATAA
704024 GATTACTGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 6 0.33
20 12 0.67
ACGTcount: A:0.50, C:0.11, G:0.18, T:0.21
Consensus pattern (19 bp):
AAGATTACCAGTAGAATAA
Found at i:704027 original size:16 final size:17
Alignment explanation
Indices: 703985--704029 Score: 56
Period size: 20 Copynumber: 2.5 Consensus size: 17
703975 TCACGGAATG
703985 TAAGATTACCAGTGAGAA
1 TAAGATTACCAGT-AGAA
704003 TAAAAGATTACCAGT-GAA
1 T--AAGATTACCAGTAGAA
704021 TAAGATTAC
1 TAAGATTAC
704030 TGAGAATGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
16 8 0.32
18 5 0.20
20 12 0.48
ACGTcount: A:0.47, C:0.11, G:0.18, T:0.24
Consensus pattern (17 bp):
TAAGATTACCAGTAGAA
Found at i:705569 original size:2 final size:2
Alignment explanation
Indices: 705562--705596 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
705552 AGCACTAAAG
705562 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
705597 CGTTTACAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:715407 original size:19 final size:19
Alignment explanation
Indices: 715383--715434 Score: 95
Period size: 19 Copynumber: 2.7 Consensus size: 19
715373 AGAACACTTA
715383 GTGCATCGGTGCATTAAGT
1 GTGCATCGGTGCATTAAGT
715402 GTGCATCGGTGCATTAAGT
1 GTGCATCGGTGCATTAAGT
*
715421 GTGCATCGATGCAT
1 GTGCATCGGTGCAT
715435 AAAATGCATT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.21, C:0.17, G:0.31, T:0.31
Consensus pattern (19 bp):
GTGCATCGGTGCATTAAGT
Found at i:715580 original size:65 final size:64
Alignment explanation
Indices: 715402--715580 Score: 223
Period size: 65 Copynumber: 2.8 Consensus size: 64
715392 TGCATTAAGT
* ** *
715402 GTGCATCGGTGCATTAAGTGTGCATCGATGCATAAAATGCATTCGATGTTTTGAATAAGCCTAA
1 GTGCATCGATGCATGGAGTGTGCATCGATGCATAAAATGCATTCGATGTTTTGAATAAACCTAA
* * * * * * * *
715466 GTACATCGTTGCATGGTGTGTGCATCGATGCATAAAATGCAATCAATGTTTTTATTAAAACCTGA
1 GTGCATCGATGCATGGAGTGTGCATCGATGCATAAAATGCATTCGATGTTTTGAAT-AAACCTAA
* *
715531 GTGCATCGATGCATGGAGAGTGCATCGATGCATAAACTGCATTCGATGTT
1 GTGCATCGATGCATGGAGTGTGCATCGATGCATAAAATGCATTCGATGTT
715581 CAATTTATTC
Statistics
Matches: 96, Mismatches: 18, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
64 47 0.49
65 49 0.51
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.31
Consensus pattern (64 bp):
GTGCATCGATGCATGGAGTGTGCATCGATGCATAAAATGCATTCGATGTTTTGAATAAACCTAA
Found at i:724014 original size:64 final size:65
Alignment explanation
Indices: 723945--724090 Score: 186
Period size: 64 Copynumber: 2.3 Consensus size: 65
723935 CGGTGCATTA
* * *
723945 AGTGTGCATCGATGCATAAAATGCATTCGATGTTTTGAAT-AAGCCTAAGTGAATCGATGCATGG
1 AGTGTGCATCGATGCATAAAATGCAATCGATGTTTTCAATAAAACCTAAGTGAATCGATGCATGG
* * * * * *
724009 TGTGTGCATCGATTCATAAAATGCAATCGATGTTTTCATTAAAACCTGAGTGCATCGATGCATTG
1 AGTGTGCATCGATGCATAAAATGCAATCGATGTTTTCAATAAAACCTAAGTGAATCGATGCATGG
* *
724074 AGAGTGCATTGATGCAT
1 AGTGTGCATCGATGCAT
724091 TGAGAGTGCA
Statistics
Matches: 68, Mismatches: 13, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
64 35 0.51
65 33 0.49
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.32
Consensus pattern (65 bp):
AGTGTGCATCGATGCATAAAATGCAATCGATGTTTTCAATAAAACCTAAGTGAATCGATGCATGG
Found at i:724080 original size:19 final size:19
Alignment explanation
Indices: 724056--724106 Score: 93
Period size: 19 Copynumber: 2.7 Consensus size: 19
724046 ATTAAAACCT
724056 GAGTGCATCGATGCATTGA
1 GAGTGCATCGATGCATTGA
*
724075 GAGTGCATTGATGCATTGA
1 GAGTGCATCGATGCATTGA
724094 GAGTGCATCGATG
1 GAGTGCATCGATG
724107 TATAAACTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.25, C:0.14, G:0.33, T:0.27
Consensus pattern (19 bp):
GAGTGCATCGATGCATTGA
Found at i:724924 original size:30 final size:31
Alignment explanation
Indices: 724888--724947 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
724878 GAAAAATTTT
* * *
724888 GGGACC-ATTTTATAATTTTTAAAAAGTTGG
1 GGGACCAATTTGACAATTTTGAAAAAGTTGG
*
724918 GGGACCAATTTGACAATTTTGGAAAAGTTG
1 GGGACCAATTTGACAATTTTGAAAAAGTTG
724948 TGAATGGTTG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 6 0.24
31 19 0.76
ACGTcount: A:0.33, C:0.08, G:0.23, T:0.35
Consensus pattern (31 bp):
GGGACCAATTTGACAATTTTGAAAAAGTTGG
Found at i:726579 original size:20 final size:21
Alignment explanation
Indices: 726550--726590 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
726540 ATATGTATTT
726550 AATATACATAT-ATAAGTTTTA
1 AATATACATATGAT-AGTTTTA
726571 AATAT-CATATGATAGTTTTA
1 AATATACATATGATAGTTTTA
726591 GTTGAGATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.44, C:0.05, G:0.07, T:0.44
Consensus pattern (21 bp):
AATATACATATGATAGTTTTA
Found at i:731550 original size:13 final size:13
Alignment explanation
Indices: 731532--731557 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
731522 TTTTGGGGAC
731532 AAAATGGATAAAG
1 AAAATGGATAAAG
731545 AAAATGGATAAAG
1 AAAATGGATAAAG
731558 TGGGGGGAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.00, G:0.23, T:0.15
Consensus pattern (13 bp):
AAAATGGATAAAG
Found at i:732893 original size:10 final size:10
Alignment explanation
Indices: 732878--732903 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
732868 GCTTATTTGC
732878 TCATTTTGAT
1 TCATTTTGAT
732888 TCATTTTGAT
1 TCATTTTGAT
732898 TCATTT
1 TCATTT
732904 CCAATGCAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.19, C:0.12, G:0.08, T:0.62
Consensus pattern (10 bp):
TCATTTTGAT
Found at i:733939 original size:18 final size:18
Alignment explanation
Indices: 733916--733958 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
733906 CTTTAAATTA
*
733916 TTTATTTAATTATTTTCT
1 TTTATTTAATTATTATCT
*
733934 TTTATTTAATTCTTATCT
1 TTTATTTAATTATTATCT
733952 TTTATTT
1 TTTATTT
733959 TAAAAACTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.21, C:0.07, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTATTTAATTATTATCT
Found at i:736344 original size:16 final size:16
Alignment explanation
Indices: 736325--736358 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
736315 TTCTCTTTTA
736325 TTTTTT-TATGT-TTC
1 TTTTTTCTATGTATTC
736339 TTTTTTCTATGTATTC
1 TTTTTTCTATGTATTC
736355 TTTT
1 TTTT
736359 CTTTGATAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 6 0.33
15 5 0.28
16 7 0.39
ACGTcount: A:0.09, C:0.09, G:0.06, T:0.76
Consensus pattern (16 bp):
TTTTTTCTATGTATTC
Found at i:738224 original size:21 final size:21
Alignment explanation
Indices: 738198--738257 Score: 102
Period size: 21 Copynumber: 2.8 Consensus size: 21
738188 CTCAACAACG
738198 AAGGGATTGATATTTTTTGAA
1 AAGGGATTGATATTTTTTGAA
*
738219 AAGGGATTGATCTTTTTTGAA
1 AAGGGATTGATATTTTTTGAA
738240 AAGGGATTGATCATTTTT
1 AAGGGATTGAT-ATTTTT
738258 AGAGGGATCG
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
21 31 0.86
22 5 0.14
ACGTcount: A:0.30, C:0.03, G:0.23, T:0.43
Consensus pattern (21 bp):
AAGGGATTGATATTTTTTGAA
Found at i:740702 original size:25 final size:25
Alignment explanation
Indices: 740671--740729 Score: 109
Period size: 25 Copynumber: 2.4 Consensus size: 25
740661 CAAGCTAAAG
740671 GAGATGAAATTTATAAACCAAAAAA
1 GAGATGAAATTTATAAACCAAAAAA
740696 GAGATGAAATTTATAAACCAAAAAA
1 GAGATGAAATTTATAAACCAAAAAA
*
740721 GAGAAGAAA
1 GAGATGAAA
740730 AGAATGAGGA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.61, C:0.07, G:0.15, T:0.17
Consensus pattern (25 bp):
GAGATGAAATTTATAAACCAAAAAA
Found at i:740849 original size:17 final size:18
Alignment explanation
Indices: 740824--740862 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
740814 GAAAATCAAG
*
740824 AGATG-AAAAATGAATTT
1 AGATGAAAAAATGAATCT
*
740841 AGATTAAAAAATGAATCT
1 AGATGAAAAAATGAATCT
740859 AGAT
1 AGAT
740863 AGAATTTTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.54, C:0.03, G:0.15, T:0.28
Consensus pattern (18 bp):
AGATGAAAAAATGAATCT
Found at i:744744 original size:27 final size:27
Alignment explanation
Indices: 744700--744764 Score: 94
Period size: 27 Copynumber: 2.4 Consensus size: 27
744690 TAGGTGCATC
* * *
744700 ATCTCTCAACTCAGCCCTATTTGGACT
1 ATCTCTCAACTCAACCCTATATGGACA
*
744727 ATTTCTCAACTCAACCCTATATGGACA
1 ATCTCTCAACTCAACCCTATATGGACA
744754 ATCTCTCAACT
1 ATCTCTCAACT
744765 GATGACCCTT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.28, C:0.32, G:0.08, T:0.32
Consensus pattern (27 bp):
ATCTCTCAACTCAACCCTATATGGACA
Found at i:750629 original size:19 final size:19
Alignment explanation
Indices: 750582--750643 Score: 70
Period size: 19 Copynumber: 3.3 Consensus size: 19
750572 CTTTCTTTAA
* *
750582 TTTCAAATTCAGAACTCGT
1 TTTCAAATTCATAACTCAT
**
750601 TTTCTGATTCATAACTCAT
1 TTTCAAATTCATAACTCAT
* *
750620 TTTCAAATTCATAGCTCAA
1 TTTCAAATTCATAACTCAT
750639 TTTCA
1 TTTCA
750644 TATTAATATT
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 35 1.00
ACGTcount: A:0.31, C:0.21, G:0.06, T:0.42
Consensus pattern (19 bp):
TTTCAAATTCATAACTCAT
Found at i:753772 original size:16 final size:16
Alignment explanation
Indices: 753741--753771 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
753731 AATAATTAAG
753741 TAAATTCAAGAAAAAA
1 TAAATTCAAGAAAAAA
753757 TAAATT-AAGAAAAAA
1 TAAATTCAAGAAAAAA
753772 AGAAGAAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.71, C:0.03, G:0.06, T:0.19
Consensus pattern (16 bp):
TAAATTCAAGAAAAAA
Found at i:763818 original size:21 final size:20
Alignment explanation
Indices: 763792--763851 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 20
763782 TGGGTACGAG
*
763792 TTTATTCGATATAGAGACTGA
1 TTTATTCGGTAT-GAGACTGA
*
763813 TTTATTCGGTATGAAGATTGA
1 TTTATTCGGTATG-AGACTGA
763834 TTTATTCGGTATGGAGAC
1 TTTATTCGGTAT-GAGAC
763852 CGAGGGTATC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
20 1 0.03
21 32 0.94
22 1 0.03
ACGTcount: A:0.28, C:0.08, G:0.23, T:0.40
Consensus pattern (20 bp):
TTTATTCGGTATGAGACTGA
Found at i:766849 original size:11 final size:11
Alignment explanation
Indices: 766820--766902 Score: 55
Period size: 10 Copynumber: 7.5 Consensus size: 11
766810 CCATTCCCCA
766820 TCTTCTTTTTCT
1 TCTTC-TTTTCT
*
766832 TC-ACTTTTCT
1 TCTTCTTTTCT
*
766842 TCTTCTTTCTTT
1 TCTTCTTT-TCT
*
766854 CTCTTCTCTT-T
1 -TCTTCTTTTCT
**
766865 TCTTCACTT-T
1 TCTTCTTTTCT
*
766875 TCTTCTTTTCC
1 TCTTCTTTTCT
*
766886 TCTTCTTTTCC
1 TCTTCTTTTCT
766897 TCTTCT
1 TCTTCT
766903 CACACACGTT
Statistics
Matches: 59, Mismatches: 8, Indels: 9
0.78 0.11 0.12
Matches are distributed among these distances:
10 24 0.41
11 23 0.39
12 5 0.08
13 7 0.12
ACGTcount: A:0.02, C:0.31, G:0.00, T:0.66
Consensus pattern (11 bp):
TCTTCTTTTCT
Found at i:766876 original size:26 final size:26
Alignment explanation
Indices: 766822--766878 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
766812 ATTCCCCATC
* *
766822 TTCTTTTTCTTCACTTTTCTTCTTCT
1 TTCTTTCTCTTCACTTTTCTTCCTCT
*
766848 TTCTTTCTCTTCTCTTTTCTTCACT-T
1 TTCTTTCTCTTCACTTTTCTTC-CTCT
766874 TTCTT
1 TTCTT
766879 CTTTTCCTCT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 26 0.96
27 1 0.04
ACGTcount: A:0.04, C:0.28, G:0.00, T:0.68
Consensus pattern (26 bp):
TTCTTTCTCTTCACTTTTCTTCCTCT
Found at i:767488 original size:14 final size:14
Alignment explanation
Indices: 767469--767496 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
767459 AGACACAATC
767469 TGATACAAGATATT
1 TGATACAAGATATT
767483 TGATACAAGATATT
1 TGATACAAGATATT
767497 AACCAAAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.07, G:0.14, T:0.36
Consensus pattern (14 bp):
TGATACAAGATATT
Found at i:769321 original size:26 final size:26
Alignment explanation
Indices: 769274--769323 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
769264 ATAAGAGGAA
** *
769274 AAGAAGAAAAGTGGAGAGAAAGAAAG
1 AAGAAGAAAAGTAAAGAAAAAGAAAG
*
769300 AAGAAGAAAATTAAAGAAAAAGAA
1 AAGAAGAAAAGTAAAGAAAAAGAA
769324 GATAGGGAAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.26, T:0.06
Consensus pattern (26 bp):
AAGAAGAAAAGTAAAGAAAAAGAAAG
Found at i:772856 original size:23 final size:23
Alignment explanation
Indices: 772830--772883 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
772820 CTTTGACTTA
*
772830 AATTAATTAAAAAAAATTAGTTT
1 AATTAATTAAAAAAAATTAGCTT
* * *
772853 AATTAATTCAAATAATTTAGCTT
1 AATTAATTAAAAAAAATTAGCTT
*
772876 AAATAATT
1 AATTAATT
772884 TAAGTTTTTA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.41
Consensus pattern (23 bp):
AATTAATTAAAAAAAATTAGCTT
Found at i:773198 original size:17 final size:18
Alignment explanation
Indices: 773172--773206 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
773162 AAATAATAAC
*
773172 AATTTTTTTAT-TACAAA
1 AATTTATTTATATACAAA
773189 AATTTATTTATATACAAA
1 AATTTATTTATATACAAA
773207 TTCTAGAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.49
Consensus pattern (18 bp):
AATTTATTTATATACAAA
Found at i:775963 original size:37 final size:37
Alignment explanation
Indices: 775920--775993 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
775910 TATCAGTAAC
775920 ATTGACATCTTAGTGGCATGTAAAACCCCTTTTCACA
1 ATTGACATCTTAGTGGCATGTAAAACCCCTTTTCACA
775957 ATTGACATCTTAGTGGCATGTAAAACCCCTTTTCACA
1 ATTGACATCTTAGTGGCATGTAAAACCCCTTTTCACA
775994 GTAAAATACA
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:0.30, C:0.24, G:0.14, T:0.32
Consensus pattern (37 bp):
ATTGACATCTTAGTGGCATGTAAAACCCCTTTTCACA
Found at i:776524 original size:25 final size:25
Alignment explanation
Indices: 776495--776552 Score: 116
Period size: 25 Copynumber: 2.3 Consensus size: 25
776485 GTATATTATA
776495 ACAATTCAAATACCAATTGACTATT
1 ACAATTCAAATACCAATTGACTATT
776520 ACAATTCAAATACCAATTGACTATT
1 ACAATTCAAATACCAATTGACTATT
776545 ACAATTCA
1 ACAATTCA
776553 TTATAAATTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.45, C:0.21, G:0.03, T:0.31
Consensus pattern (25 bp):
ACAATTCAAATACCAATTGACTATT
Found at i:776650 original size:54 final size:54
Alignment explanation
Indices: 776565--777319 Score: 1205
Period size: 54 Copynumber: 14.0 Consensus size: 54
776555 ATAAATTCTA
*
776565 CAATACGGAAATTCATAAACTCATTATGAATTTCTTAAGTTGCACACACAGTGC
1 CAATACGAAAATTCATAAACTCATTATGAATTTCTTAAGTTGCACACACAGTGC
* * * * *
776619 CAATACGAAAATCCATAAACTCATTACGAATTTTTTAAGTTGCACACATAGTGT
1 CAATACGAAAATTCATAAACTCATTATGAATTTCTTAAGTTGCACACACAGTGC
* * *
776673 CAATACGGAAATCCATAAACTCATTATGAATTTCTTAAGTAGCACACACAGTGC
1 CAATACGAAAATTCATAAACTCATTATGAATTTCTTAAGTTGCACACACAGTGC
* *
776727 CAATAC-AGAAATCCATAAACTCATTATGAATTTCTTAAGTTGCACACACAGTTC
1 CAATACGA-AAATTCATAAACTCATTATGAATTTCTTAAGTTGCACACACAGTGC
* * *
776781 CAAAACGGAAATTCATAAACTCATTATGAATTTCTTAAGTTGCACACACAGTTC
1 CAATACGAAAATTCATAAACTCATTATGAATTTCTTAAGTTGCACACACAGTGC
776835 CAATAC-AGAAATTCATAAACTCATTATGAATTTCTTAAGTTGCACACACAGTGC
1 CAATACGA-AAATTCATAAACTCATTATGAATTTCTTAAGTTGCACACACAGTGC
776889 CAATA-GAGAAATTCATAAACTCATTATGAATTTCTTAAGTTGCACACACAGTGC
1 CAATACGA-AAATTCATAAACTCATTATGAATTTCTTAAGTTGCACACACAGTGC
*
776943 CAATACGTAAATTCATAAACTCATTATGAATTTCTTAAGTTGCACACACAGTGC
1 CAATACGAAAATTCATAAACTCATTATGAATTTCTTAAGTTGCACACACAGTGC
776997 CAATACGAAAATTCATAAACTCATTATGAATTTCTTAAGTTGCACACACAGTGC
1 CAATACGAAAATTCATAAACTCATTATGAATTTCTTAAGTTGCACACACAGTGC
* * *
777051 TAATACGGAAATTCATAAACTCATTATGAATTTCTTAAGTTGCACACACAATGC
1 CAATACGAAAATTCATAAACTCATTATGAATTTCTTAAGTTGCACACACAGTGC
*
777105 CAATACGGAAATTCATAAACTCATTATGAATTTCTTAAGTTG--CACACAGTGC
1 CAATACGAAAATTCATAAACTCATTATGAATTTCTTAAGTTGCACACACAGTGC
* * *
777157 CAATACGAAAATTTATAAACTCATTATGAATTTCTTAAGTTGCACACACAATAC
1 CAATACGAAAATTCATAAACTCATTATGAATTTCTTAAGTTGCACACACAGTGC
* * *
777211 CAATACAAAAATTTATAAACTCATTATGAATTTCTTAAGTTGCATACACAGTGC
1 CAATACGAAAATTCATAAACTCATTATGAATTTCTTAAGTTGCACACACAGTGC
* *
777265 CAATATGAAAATTCATAAACTCATTATGAATTTCTTAAGTTGCACACATAGTGC
1 CAATACGAAAATTCATAAACTCATTATGAATTTCTTAAGTTGCACACACAGTGC
777319 C
1 C
777320 CATTTGGTAA
Statistics
Matches: 653, Mismatches: 41, Indels: 14
0.92 0.06 0.02
Matches are distributed among these distances:
52 49 0.08
54 603 0.92
55 1 0.00
ACGTcount: A:0.39, C:0.20, G:0.11, T:0.30
Consensus pattern (54 bp):
CAATACGAAAATTCATAAACTCATTATGAATTTCTTAAGTTGCACACACAGTGC
Found at i:779074 original size:63 final size:63
Alignment explanation
Indices: 778972--779099 Score: 211
Period size: 63 Copynumber: 2.0 Consensus size: 63
778962 GAACTCCAAA
* * *
778972 GTGGACTACCAAGATTCATATACTTGTAGTAATAGCTTATTGGAAACCATCGGAATAATGTTT
1 GTGGACTACCAAGATTCATACACTTATAGTAATAACTTATTGGAAACCATCGGAATAATGTTT
* *
779035 GTGGACTACCAAGATTCATACACTTATAGTAATAACTTATTGGAAACCATTGGAATATTGTTT
1 GTGGACTACCAAGATTCATACACTTATAGTAATAACTTATTGGAAACCATCGGAATAATGTTT
779098 GT
1 GT
779100 ATGAAACTGC
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
63 60 1.00
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.34
Consensus pattern (63 bp):
GTGGACTACCAAGATTCATACACTTATAGTAATAACTTATTGGAAACCATCGGAATAATGTTT
Found at i:780880 original size:25 final size:25
Alignment explanation
Indices: 780832--780922 Score: 89
Period size: 25 Copynumber: 3.6 Consensus size: 25
780822 AATAAATTAT
* * *
780832 ATATTTTAAATGAAAATAAAAATAAA
1 ATATTTTAAAT-TAAGTTAAAATAAA
780858 AT-TTTTAAATTAAGTTAATAATAAA
1 ATATTTTAAATTAAGTTAA-AATAAA
780883 ATATATTT-AA-TAAGTTAAAATAAAA
1 ATAT-TTTAAATTAAGTTAAAAT-AAA
780908 ATAATTTTAAATTAA
1 AT-ATTTTAAATTAA
780923 TATATATAAA
Statistics
Matches: 55, Mismatches: 3, Indels: 13
0.77 0.04 0.18
Matches are distributed among these distances:
24 8 0.15
25 32 0.58
26 9 0.16
27 6 0.11
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.38
Consensus pattern (25 bp):
ATATTTTAAATTAAGTTAAAATAAA
Found at i:780936 original size:55 final size:55
Alignment explanation
Indices: 780819--780946 Score: 124
Period size: 55 Copynumber: 2.3 Consensus size: 55
780809 TTTAACAAAT
780819 TAAAATAAATTATATATTTTAAATGAAAATAAAAATAAAATTTTTAAATTAAGTTAA
1 TAAAATAAA-TATATATTTTAAATGAAAATAAAAAT-AAATTTTTAAATTAAGTTAA
* *
780876 T--AATAAA-ATATATTTAATAAGTTAAAATAAAAAT-AA-TTTTAAATTAA-TATATA
1 TAAAATAAATATATATTT--TAAATGAAAATAAAAATAAATTTTTAAATTAAGT-TA-A
780929 TAAAATAATATTATATAT
1 TAAAATAA-A-TATATAT
780947 AATCCGCTTC
Statistics
Matches: 60, Mismatches: 2, Indels: 17
0.76 0.03 0.22
Matches are distributed among these distances:
51 1 0.02
52 13 0.22
53 12 0.20
55 26 0.43
56 1 0.02
57 1 0.02
58 6 0.10
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (55 bp):
TAAAATAAATATATATTTTAAATGAAAATAAAAATAAATTTTTAAATTAAGTTAA
Found at i:781145 original size:13 final size:14
Alignment explanation
Indices: 781122--781150 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
781112 AAAATTTATT
781122 AAAAATCAAAATAA
1 AAAAATCAAAATAA
781136 AAAAAT-AAAATAA
1 AAAAATCAAAATAA
781149 AA
1 AA
781151 TTTAAAATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.83, C:0.03, G:0.00, T:0.14
Consensus pattern (14 bp):
AAAAATCAAAATAA
Found at i:781322 original size:23 final size:24
Alignment explanation
Indices: 781295--781340 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
781285 ATTTTATATG
781295 TATTAAATTA-AAAATATATTTTA
1 TATTAAATTATAAAATATATTTTA
* *
781318 TATTAACTTATTAAATATATTTT
1 TATTAAATTATAAAATATATTTT
781341 GTTATTAACT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (24 bp):
TATTAAATTATAAAATATATTTTA
Found at i:781338 original size:24 final size:25
Alignment explanation
Indices: 781306--781352 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
781296 ATTAAATTAA
781306 AAATATATTTT-ATATTAACTTATT
1 AAATATATTTTGATATTAACTTATT
*
781330 AAATATATTTTGTTATTAACTTA
1 AAATATATTTTGATATTAACTTA
781353 ATTTTTTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 11 0.52
25 10 0.48
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.53
Consensus pattern (25 bp):
AAATATATTTTGATATTAACTTATT
Found at i:784665 original size:865 final size:848
Alignment explanation
Indices: 783466--785119 Score: 2612
Period size: 865 Copynumber: 1.9 Consensus size: 848
783456 TATTGTAAAT
* *
783466 TGACAGTCTCGCCCATATTAATTTCATGTTTTTCATCAAAAACATAAAAATTTATGACTAGATAT
1 TGACAGTCTCGCCCATATTAATTTCAAGTTTTTCATAAAAAACATAAAAATTTATGACTAGATAT
*
783531 GCAAATTTATTACCACGAAATTATACCACCAACACAAATCATTAATGACTATCCAGCACAACATA
66 GCAAATTTATTACCACGAAATTATACCACCAACACAAATCATTAACGACTATCCAGCACAACATA
* *
783596 AAACATTACCATAGCATATATCAATGACATATAAAGGTATTATATCTTACTTATAAAATTTACTT
131 AAACATTACCATAGCATATATCAATGACATATAAAGATATTATATCTTACTTACAAAATTTACTT
*
783661 AGCACAAAATAATAGGGTAAACTACACAAATTGTCACTTTCGTTTGAGTTTTATAAACTTATGGT
196 AGCACAAAATAATAGGGTAAACTACACAAATTGTCACTTTCATTTGAGTTTTATAAACTTATGGT
*
783726 CACTAGATTAAAAAACATAACATATGATCACTTTCGTTTTGTTTTAATTAAGATATGGTCTCTAG
261 CACTAGATTAAAAAACATAACATATGATCACTTTCATTTTGTTTTAATTAAGATATGGTCTCTAG
*
783791 GCGTTAACCTCTGTTAGTTTGATCACATGGCATGTTAGTAAAAGGGTTTAATTTTTATTTTAA-C
326 GCGTTAACCTCTGTTAGTTTGATCACATGGCATGCTAGTAAAAGGGTTTAATTTTTATTTTAACC
**
783855 CCTAAAATTTAGATAAAATACTAATTAAGGACCTTTTTATAAATTCAAAGTAGTTTAGGGACAAA
391 CCTAAAATTTAGATAAAATACTAATTAAGGACCTTTTTATAAATTCAAAGTAGTTTAGAAACAAA
*
783920 GTTCTAATTCACCCTTCTTAATATATATTTCTTCTTCCCCTGACTTCCCCAATTGCGCCTTTGAA
456 GTTCTAATTCACCCTTCTTAATATATA--T-TTCTTCCCCTGACTTCCCCAATTGCACCTTTGAA
* * *
783985 AAACCTTTTCGTCGTTCATCTTCTTTGTTGCACAAGACATCCAATCGAGTGAATACAG-GTAGGG
518 AAACCTTTTCGTCGTTCATCTTCTTCGATGCACAAGACATCCAATCGAGTGAATA-AGAGTAGGA
784049 TGGCGGTGGTTCTTTGATGTAGGGTAATCTACACTTTAATTGTGGATATAGTGAAAGAGTAAGTA
582 TGGCGGTGGTTCTTTGATGTAGGGTAATCTACACTTTAATTGTGGATATAGTGAAAGAGTAAGTA
* *
784114 CCTGCAAGAAGATAAGCTCAAATGGAAAGTTAGGTAGTTTATGTAAGGGTGAAATCATGGACTGA
647 CCTGCAAGAAGATAAGCACAAATGGAAAGTTAGATAGTTTATGTAAGGGTGAAATCATGGACTGA
*
784179 ATGTGATGAATGATATAAAGATTGGATGCGGAAGTATTTTGGCTTG-TAATGGGATTATGAATGA
712 ATGTGATGAATGATATAAAGATTGGATACGGAAGTATTTTGGCTTGATAATGGGATTATGAATGA
784243 AATGGATAAGGGTCACTGGAATTATTGTAAATAGTACTTAAAATGCATTTTTCAATGCTAAATGC
777 AATGGATAAGGGTCACTGGAATTATTGTAAATAGTACTTAAAATGCATTTTTCAATGCTAAATGC
784308 ATGTACA
842 ATGTACA
* * * *
784315 TGACAGTCTCGCTCATCTTAATTTCAAGTTTTTCATAAAAAAACATAGAAATTTATGACTAGTTA
1 TGACAGTCTCGCCCATATTAATTTCAAGTTTTTCAT-AAAAAACATAAAAATTTATGACTAGATA
784380 TGCAAATTTATTACCACGAAATTATACCACCATGATTTATACCACCAAAACAAATCATTAACGAC
65 TGCAAATTTATTACCACGAAATTATACCACC---------A--A-C---ACAAATCATTAACGAC
*
784445 TATCCAGCACAACATAAAACATTACCATAGCGTATATCAATGACATATAAAGATATTATATCTTA
115 TATCCAGCACAACATAAAACATTACCATAGCATATATCAATGACATATAAAGATATTATATCTTA
* *
784510 TTTACAAAATTTACTTAGCTCAAAATAATAGGGTAAACTACACAAATTGTCACTTTCATTTGAGT
180 CTTACAAAATTTACTTAGCACAAAATAATAGGGTAAACTACACAAATTGTCACTTTCATTTGAGT
* * * *
784575 TTTATAAACTTATGGTTACTGGATTAAAAAACATAATATGTGATCACTTTCATTTTGTTTTAATT
245 TTTATAAACTTATGGTCACTAGATTAAAAAACATAACATATGATCACTTTCATTTTGTTTTAATT
* * * * * *
784640 AAGATGTGGTCTCTAGGCGTTAACCTCTGTTAGTTTGTTCGCGTGGCGTGCTGGTAAAAGGGTTT
310 AAGATATGGTCTCTAGGCGTTAACCTCTGTTAGTTTGATCACATGGCATGCTAGTAAAAGGGTTT
*
784705 AATTTTTATTTTAACCCCTAAAATTTAGATAAAATACTAATTAAGGACCTTTTTATAAATTCGAA
375 AATTTTTATTTTAACCCCTAAAATTTAGATAAAATACTAATTAAGGACCTTTTTATAAATTCAAA
* * *
784770 GTAGTTTAGAAACAAAGTTCTAATTCACCCTTCTTAATATATATTTCTTCCCCTGGCTTCCCTAG
440 GTAGTTTAGAAACAAAGTTCTAATTCACCCTTCTTAATATATATTTCTTCCCCTGACTTCCCCAA
* * * *
784835 TTGCACCTTTGAATAACCTTTTTGTCGTTCATCTTCTTCGATGCACAAGACATCTAATTGAGTGA
505 TTGCACCTTTGAAAAACCTTTTCGTCGTTCATCTTCTTCGATGCACAAGACATCCAATCGAGTGA
* ** * *
784900 ATATGAGTAGGATGGTTGTGGTTCTTTGATGTAGGGTAATCTACCCTTTAATTGTGGATTTAGTG
570 ATAAGAGTAGGATGGCGGTGGTTCTTTGATGTAGGGTAATCTACACTTTAATTGTGGATATAGTG
* ** * *
784965 AAAGCGTAAGTACCTGCAAGAAGATTGGCACAAATGGAAGGTTAGATAGTTTCTGTAAGGGTGAA
635 AAAGAGTAAGTACCTGCAAGAAGATAAGCACAAATGGAAAGTTAGATAGTTTATGTAAGGGTGAA
* *
785030 ATCGTGGGCTGAATGTGATGAATGATATAAAGATTGGATACGGAAGTATTTTGGCTTGATAATGG
700 ATCATGGACTGAATGTGATGAATGATATAAAGATTGGATACGGAAGTATTTTGGCTTGATAATGG
*
785095 GCTTATGAATGAAATGGATAAGGGT
765 GATTATGAATGAAATGGATAAGGGT
785120 GGATAGTATC
Statistics
Matches: 731, Mismatches: 55, Indels: 23
0.90 0.07 0.03
Matches are distributed among these distances:
849 33 0.05
850 56 0.08
859 1 0.00
861 1 0.00
862 2 0.00
863 246 0.34
864 31 0.04
865 271 0.37
866 90 0.12
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.35
Consensus pattern (848 bp):
TGACAGTCTCGCCCATATTAATTTCAAGTTTTTCATAAAAAACATAAAAATTTATGACTAGATAT
GCAAATTTATTACCACGAAATTATACCACCAACACAAATCATTAACGACTATCCAGCACAACATA
AAACATTACCATAGCATATATCAATGACATATAAAGATATTATATCTTACTTACAAAATTTACTT
AGCACAAAATAATAGGGTAAACTACACAAATTGTCACTTTCATTTGAGTTTTATAAACTTATGGT
CACTAGATTAAAAAACATAACATATGATCACTTTCATTTTGTTTTAATTAAGATATGGTCTCTAG
GCGTTAACCTCTGTTAGTTTGATCACATGGCATGCTAGTAAAAGGGTTTAATTTTTATTTTAACC
CCTAAAATTTAGATAAAATACTAATTAAGGACCTTTTTATAAATTCAAAGTAGTTTAGAAACAAA
GTTCTAATTCACCCTTCTTAATATATATTTCTTCCCCTGACTTCCCCAATTGCACCTTTGAAAAA
CCTTTTCGTCGTTCATCTTCTTCGATGCACAAGACATCCAATCGAGTGAATAAGAGTAGGATGGC
GGTGGTTCTTTGATGTAGGGTAATCTACACTTTAATTGTGGATATAGTGAAAGAGTAAGTACCTG
CAAGAAGATAAGCACAAATGGAAAGTTAGATAGTTTATGTAAGGGTGAAATCATGGACTGAATGT
GATGAATGATATAAAGATTGGATACGGAAGTATTTTGGCTTGATAATGGGATTATGAATGAAATG
GATAAGGGTCACTGGAATTATTGTAAATAGTACTTAAAATGCATTTTTCAATGCTAAATGCATGT
ACA
Found at i:788958 original size:84 final size:87
Alignment explanation
Indices: 788855--789022 Score: 243
Period size: 90 Copynumber: 1.9 Consensus size: 87
788845 TGAATATTTA
*
788855 ATTCCAATTAATTAAATATAGATTTACTTAA-TT-T-ATAAAATCCCTAATATGATTAGGGTAAC
1 ATTCCAATTAATTAAATATAGATTTAATTAATTTATAATAAAATCCCTAATATGATTAGGGTAAC
* *
788917 TTGTATATAAAAGGATTATTAT
66 TCGGATATAAAAGGATTATTAT
* *
788939 ATTCTAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAATCCCTAATGTGATTAGGGT
1 ATTCCAATTAATTAAATATAGATTTAATTAATTT---ATAATAAAATCCCTAATATGATTAGGGT
789004 AACTCGGATATAAAAGGAT
63 AACTCGGATATAAAAGGAT
789023 GTGTTAGGTC
Statistics
Matches: 73, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
84 29 0.40
85 2 0.03
89 1 0.01
90 41 0.56
ACGTcount: A:0.43, C:0.08, G:0.11, T:0.38
Consensus pattern (87 bp):
ATTCCAATTAATTAAATATAGATTTAATTAATTTATAATAAAATCCCTAATATGATTAGGGTAAC
TCGGATATAAAAGGATTATTAT
Found at i:796881 original size:11 final size:12
Alignment explanation
Indices: 796851--796885 Score: 54
Period size: 13 Copynumber: 2.9 Consensus size: 12
796841 TCTATGATGC
796851 GCATTTATGACA
1 GCATTTATGACA
796863 TGCATTTATGACA
1 -GCATTTATGACA
796876 -CATTTATGAC
1 GCATTTATGAC
796886 GCGCATTGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 10 0.45
13 12 0.55
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.37
Consensus pattern (12 bp):
GCATTTATGACA
Found at i:796892 original size:13 final size:13
Alignment explanation
Indices: 796843--796892 Score: 50
Period size: 13 Copynumber: 4.0 Consensus size: 13
796833 GTCATAAATC
*
796843 TATGATGCGCATT
1 TATGACGCGCATT
**
796856 TATGACATGCATT
1 TATGACGCGCATT
*
796869 TATGA--CACATT
1 TATGACGCGCATT
796880 TATGACGCGCATT
1 TATGACGCGCATT
796893 GAGCGTCATT
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
11 9 0.31
13 20 0.69
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (13 bp):
TATGACGCGCATT
Found at i:802159 original size:8 final size:8
Alignment explanation
Indices: 802148--802191 Score: 70
Period size: 8 Copynumber: 5.5 Consensus size: 8
802138 GGACTAATGC
802148 AAAGAGAA
1 AAAGAGAA
*
802156 AAAGGGAA
1 AAAGAGAA
802164 AAAGAGAA
1 AAAGAGAA
*
802172 AAAGGGAA
1 AAAGAGAA
802180 AAAGAGAA
1 AAAGAGAA
802188 AAAG
1 AAAG
802192 GGGGGAAGCA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
8 32 1.00
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (8 bp):
AAAGAGAA
Found at i:802169 original size:16 final size:16
Alignment explanation
Indices: 802148--802193 Score: 92
Period size: 16 Copynumber: 2.9 Consensus size: 16
802138 GGACTAATGC
802148 AAAGAGAAAAAGGGAA
1 AAAGAGAAAAAGGGAA
802164 AAAGAGAAAAAGGGAA
1 AAAGAGAAAAAGGGAA
802180 AAAGAGAAAAAGGG
1 AAAGAGAAAAAGGG
802194 GGGAAGCATG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (16 bp):
AAAGAGAAAAAGGGAA
Found at i:803377 original size:35 final size:35
Alignment explanation
Indices: 803331--803401 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
803321 AATTACATCC
* *
803331 ACTTTAGCTTAGGTAAAAGCTTCAACGTAATATGA
1 ACTTTAGCTTAGGTAAAAGCTTAAACATAATATGA
803366 ACTTTAGCTTAGGTAAAAGCTTAAACATAATATGA
1 ACTTTAGCTTAGGTAAAAGCTTAAACATAATATGA
803401 A
1 A
803402 TCTAGTTTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.41, C:0.13, G:0.15, T:0.31
Consensus pattern (35 bp):
ACTTTAGCTTAGGTAAAAGCTTAAACATAATATGA
Found at i:817571 original size:5 final size:5
Alignment explanation
Indices: 817561--817625 Score: 59
Period size: 5 Copynumber: 13.4 Consensus size: 5
817551 TTAGTCACTG
*
817561 TTATT TTATT TTATGT TTA-T TT-TT TTATT TTA-T GT-TT TTATT TTATTGT
1 TTATT TTATT TTAT-T TTATT TTATT TTATT TTATT TTATT TTATT TTA-T-T
817610 TTATT TTATT TT-TT TT
1 TTATT TTATT TTATT TT
817626 GATATTTTAA
Statistics
Matches: 51, Mismatches: 2, Indels: 15
0.75 0.03 0.22
Matches are distributed among these distances:
4 14 0.27
5 27 0.53
6 6 0.12
7 4 0.08
ACGTcount: A:0.15, C:0.00, G:0.05, T:0.80
Consensus pattern (5 bp):
TTATT
Found at i:817588 original size:19 final size:19
Alignment explanation
Indices: 817564--817624 Score: 81
Period size: 19 Copynumber: 3.2 Consensus size: 19
817554 GTCACTGTTA
817564 TTTTATTTTATGTTTATTT
1 TTTTATTTTATGTTTATTT
*
817583 TTTTATTTTATGTTT-TTA
1 TTTTATTTTATGTTTATTT
817601 TTTTATTGTTTAT-TTTATTT
1 TTTTA-T-TTTATGTTTATTT
817621 TTTT
1 TTTT
817625 TGATATTTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
18 7 0.19
19 19 0.51
20 11 0.30
ACGTcount: A:0.15, C:0.00, G:0.05, T:0.80
Consensus pattern (19 bp):
TTTTATTTTATGTTTATTT
Found at i:817592 original size:13 final size:13
Alignment explanation
Indices: 817569--817624 Score: 78
Period size: 13 Copynumber: 4.3 Consensus size: 13
817559 TGTTATTTTA
817569 TTTTATGTTTATTT
1 TTTTAT-TTTATTT
*
817583 TTTTATTTTATGT
1 TTTTATTTTATTT
817596 TTTTATTTTA-TT
1 TTTTATTTTATTT
*
817608 GTTTATTTTATTT
1 TTTTATTTTATTT
817621 TTTT
1 TTTT
817625 TGATATTTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
12 10 0.27
13 21 0.57
14 6 0.16
ACGTcount: A:0.14, C:0.00, G:0.05, T:0.80
Consensus pattern (13 bp):
TTTTATTTTATTT
Found at i:817623 original size:25 final size:27
Alignment explanation
Indices: 817569--817624 Score: 80
Period size: 25 Copynumber: 2.1 Consensus size: 27
817559 TGTTATTTTA
*
817569 TTTTATGTTTATTTTTTTATTTTATGT
1 TTTTATGTTTATTTGTTTATTTTATGT
*
817596 TTTTAT-TTTA-TTGTTTATTTTATTT
1 TTTTATGTTTATTTGTTTATTTTATGT
817621 TTTT
1 TTTT
817625 TGATATTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
25 17 0.63
26 4 0.15
27 6 0.22
ACGTcount: A:0.14, C:0.00, G:0.05, T:0.80
Consensus pattern (27 bp):
TTTTATGTTTATTTGTTTATTTTATGT
Found at i:820036 original size:13 final size:14
Alignment explanation
Indices: 820009--820042 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
819999 CCTTATTGTA
*
820009 TTTGCATCACGCAT
1 TTTGCATCACCCAT
820023 TTTGCA-CACCCAT
1 TTTGCATCACCCAT
820036 TTTGCAT
1 TTTGCAT
820043 TTGCATGTGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.21, C:0.29, G:0.12, T:0.38
Consensus pattern (14 bp):
TTTGCATCACCCAT
Found at i:820980 original size:40 final size:40
Alignment explanation
Indices: 820925--821045 Score: 179
Period size: 40 Copynumber: 3.0 Consensus size: 40
820915 CCGTCGTGCC
* *
820925 ACACATAAGGTCGTGCCTACCATATACACTGAAGTGTATT
1 ACACATAAGGTCGTGCCCACCATATACACCGAAGTGTATT
*
820965 ACACATAAGGTCGTGCCCACCATATACACCGAATTGTATT
1 ACACATAAGGTCGTGCCCACCATATACACCGAAGTGTATT
** * *
821005 ACACATAAGGTCGTGCCCTTCTTATACACCAAAGTGTATT
1 ACACATAAGGTCGTGCCCACCATATACACCGAAGTGTATT
821045 A
1 A
821046 TAAACCTGCA
Statistics
Matches: 73, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 73 1.00
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (40 bp):
ACACATAAGGTCGTGCCCACCATATACACCGAAGTGTATT
Found at i:823824 original size:20 final size:20
Alignment explanation
Indices: 823785--823821 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
823775 TGATTCAATC
*
823785 AGTATCTATACCTAAAGGAA
1 AGTATCGATACCTAAAGGAA
823805 AGTATCGATACC-AAAGG
1 AGTATCGATACCTAAAGG
823822 GAAGGCATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.43, C:0.16, G:0.19, T:0.22
Consensus pattern (20 bp):
AGTATCGATACCTAAAGGAA
Found at i:824325 original size:58 final size:58
Alignment explanation
Indices: 824262--824481 Score: 341
Period size: 58 Copynumber: 3.8 Consensus size: 58
824252 AAGGCACTAA
* * * *
824262 GTGTGCAAAAAGTTAAGAAACTCATAATAGGTGTATGAATTTCCGTATTGGGCACTTT
1 GTGTGCAAAAAGATAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
*
824320 GTGTGCAAAAAGATAAGAAATTCATACTAAGTGTATGAATTTTCGTATTGGGCACTTT
1 GTGTGCAAAAAGATAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
* *
824378 GTGTGTAAAAAGATAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCTCTTT
1 GTGTGCAAAAAGATAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
* * * *
824436 GTGTGCAAAGAGTTAAGAGATTCATAGTAAGTGTATGAATTTCCGT
1 GTGTGCAAAAAGATAAGAAATTCATACTAAGTGTATGAATTTCCGT
824482 GTGGGAAATA
Statistics
Matches: 149, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
58 149 1.00
ACGTcount: A:0.33, C:0.10, G:0.22, T:0.34
Consensus pattern (58 bp):
GTGTGCAAAAAGATAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
Found at i:829819 original size:19 final size:19
Alignment explanation
Indices: 829795--829866 Score: 63
Period size: 19 Copynumber: 3.6 Consensus size: 19
829785 ATACAAAAAT
829795 GGTATCGATACCATGGTAG
1 GGTATCGATACCATGGTAG
* *
829814 GGTATCGGTACCATAGTATAG
1 GGTATCGATACCAT-G-GTAG
* *
829835 TAGTATCTATACCATGGTAGG
1 -GGTATCGATACCATGGTA-G
*
829856 GGTATCAATAC
1 GGTATCGATAC
829867 TGAGGAGCCA
Statistics
Matches: 41, Mismatches: 8, Indels: 7
0.73 0.14 0.12
Matches are distributed among these distances:
19 13 0.32
20 12 0.29
21 5 0.12
22 11 0.27
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.29
Consensus pattern (19 bp):
GGTATCGATACCATGGTAG
Found at i:830253 original size:58 final size:58
Alignment explanation
Indices: 830191--830433 Score: 353
Period size: 58 Copynumber: 4.2 Consensus size: 58
830181 ATTACCAAAA
* * *
830191 GGCACTAAGTGTGCAAAAAGTTAAGAAATTCATACTAGGTGTATGAATTTTCGTATTG
1 GGCACTATGTGTGCAAAAAGATAAGAAATTCATACTAAGTGTATGAATTTTCGTATTG
*
830249 GGCACTATGTGTGCAAAAAGATAAGAAATTCATACTAAGTGTATGAATTTTCGCATTG
1 GGCACTATGTGTGCAAAAAGATAAGAAATTCATACTAAGTGTATGAATTTTCGTATTG
* * *
830307 GACACTTTGTGTGCAAAAAGATAAGAAATTCATACTAAGTGTATGAATTTCCGTATTG
1 GGCACTATGTGTGCAAAAAGATAAGAAATTCATACTAAGTGTATGAATTTTCGTATTG
* * * * *
830365 GGCACTTTGTGTGCAAAACGTTAAGAGATTCATAGTAAGTGTATGAATTTTCGTA-TG
1 GGCACTATGTGTGCAAAAAGATAAGAAATTCATACTAAGTGTATGAATTTTCGTATTG
* *
830422 GGAAATATGTGT
1 GGCACTATGTGT
830434 ATAGACATAA
Statistics
Matches: 168, Mismatches: 17, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
57 11 0.07
58 157 0.93
ACGTcount: A:0.34, C:0.11, G:0.22, T:0.33
Consensus pattern (58 bp):
GGCACTATGTGTGCAAAAAGATAAGAAATTCATACTAAGTGTATGAATTTTCGTATTG
Found at i:836716 original size:20 final size:20
Alignment explanation
Indices: 836649--836720 Score: 74
Period size: 20 Copynumber: 3.5 Consensus size: 20
836639 AATGAAAAAT
*
836649 GGTATCGATACGATGGTA-G
1 GGTATCGATACCATGGTAGG
* * *
836668 GGTATCGGTACCATCTGATAGT
1 GGTATCGATACCA--TGGTAGG
*
836690 AGTATCGATACCATGGTAGG
1 GGTATCGATACCATGGTAGG
836710 GGTATCGATAC
1 GGTATCGATAC
836721 TGAGGAGCTA
Statistics
Matches: 41, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
19 11 0.27
20 15 0.37
21 4 0.10
22 11 0.27
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (20 bp):
GGTATCGATACCATGGTAGG
Found at i:837129 original size:58 final size:58
Alignment explanation
Indices: 837062--837442 Score: 595
Period size: 58 Copynumber: 6.6 Consensus size: 58
837052 TGGAAAAAGT
*
837062 TAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGTACTTTGTGTGCAAAAGGA
1 TAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTTGTGTGCAAAAGGA
837120 TAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTTGTGTGCAAAAGGA
1 TAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTTGTGTGCAAAAGGA
*
837178 TAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTTGTGTGCAAAAGGG
1 TAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTTGTGTGCAAAAGGA
* *
837236 TAAGAAATT-ATACTAAGTGTATGAATTTTCGTATTGGGCACTTTGTGTGCAAAA-TA
1 TAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTTGTGTGCAAAAGGA
* * * * * **
837292 TAAGAAATTCATACTAAGTGTATAAATTTCTGTATTGGGTACTTTGTGCGAAAAAATA
1 TAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTTGTGTGCAAAAGGA
* * *
837350 TAAGAAATTCATACTAAGTGTATGAATTTTCGTATTGGGCACTTTGTGTGCAAAATGT
1 TAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTTGTGTGCAAAAGGA
* * *
837408 TAAGAGATTCATAGTATGTGTATGAATTTCCGTAT
1 TAAGAAATTCATACTAAGTGTATGAATTTCCGTAT
837443 GGGAAATATG
Statistics
Matches: 297, Mismatches: 24, Indels: 4
0.91 0.07 0.01
Matches are distributed among these distances:
56 9 0.03
57 83 0.28
58 205 0.69
ACGTcount: A:0.33, C:0.10, G:0.21, T:0.36
Consensus pattern (58 bp):
TAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTTGTGTGCAAAAGGA
Found at i:837358 original size:172 final size:174
Alignment explanation
Indices: 837062--837442 Score: 604
Period size: 172 Copynumber: 2.2 Consensus size: 174
837052 TGGAAAAAGT
*
837062 TAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGTACTTTGTGTGCAAAAGGATAAGAAA
1 TAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTTGTGTGCAAAAGGATAAGAAA
* * * *
837127 TTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTTGTGTGCAAAAGGATAAGAAATTCATAC
66 TTCATACTAAGTGTATAAATTTCCGTATTGGGCACTTTGTGCGAAAAAAGATAAGAAATTCATAC
837192 TAAGTGTATGAATTTCCGTATTGGGCACTTTGTGTGCAAAAGGG
131 TAAGTGTATGAATTTCCGTATTGGGCACTTTGTGTGCAAAAGGG
* *
837236 TAAGAAATT-ATACTAAGTGTATGAATTTTCGTATTGGGCACTTTGTGTGCAAAA-TATAAGAAA
1 TAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTTGTGTGCAAAAGGATAAGAAA
* * *
837299 TTCATACTAAGTGTATAAATTTCTGTATTGGGTACTTTGTGCGAAAAAATATAAGAAATTCATAC
66 TTCATACTAAGTGTATAAATTTCCGTATTGGGCACTTTGTGCGAAAAAAGATAAGAAATTCATAC
* * *
837364 TAAGTGTATGAATTTTCGTATTGGGCACTTTGTGTGCAAAATGT
131 TAAGTGTATGAATTTCCGTATTGGGCACTTTGTGTGCAAAAGGG
* * *
837408 TAAGAGATTCATAGTATGTGTATGAATTTCCGTAT
1 TAAGAAATTCATACTAAGTGTATGAATTTCCGTAT
837443 GGGAAATATG
Statistics
Matches: 189, Mismatches: 17, Indels: 3
0.90 0.08 0.01
Matches are distributed among these distances:
172 115 0.61
173 65 0.34
174 9 0.05
ACGTcount: A:0.33, C:0.10, G:0.21, T:0.36
Consensus pattern (174 bp):
TAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTTGTGTGCAAAAGGATAAGAAA
TTCATACTAAGTGTATAAATTTCCGTATTGGGCACTTTGTGCGAAAAAAGATAAGAAATTCATAC
TAAGTGTATGAATTTCCGTATTGGGCACTTTGTGTGCAAAAGGG
Found at i:838566 original size:16 final size:16
Alignment explanation
Indices: 838545--838577 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
838535 GTCCTTCGGA
838545 CCATCAGTAAGTCTTT
1 CCATCAGTAAGTCTTT
838561 CCATCAGTAAGTCTTT
1 CCATCAGTAAGTCTTT
838577 C
1 C
838578 GAGCATGATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.27, G:0.12, T:0.36
Consensus pattern (16 bp):
CCATCAGTAAGTCTTT
Found at i:839085 original size:39 final size:39
Alignment explanation
Indices: 839042--839372 Score: 407
Period size: 39 Copynumber: 8.5 Consensus size: 39
839032 AGTGATCAAC
* *
839042 ATCTCGCTGGAGATAGTTTCACTCAAAATAGAAGATTTT
1 ATCTCGCTTGAGATAGTTTCACTCAAAACAGAAGATTTT
* *
839081 ATCTCGCTTGAGATAGTTTCACTCGAAATAGAAGATTTT
1 ATCTCGCTTGAGATAGTTTCACTCAAAACAGAAGATTTT
* * * *
839120 ATCTCGCTTGAGATAGCTTCACTCGAAACAAAAGACTTT
1 ATCTCGCTTGAGATAGTTTCACTCAAAACAGAAGATTTT
* * * *
839159 ATCTCGCTTGAGATAGTTTAACAT-GAAACAAAATATTTT
1 ATCTCGCTTGAGATAGTTTCAC-TCAAAACAGAAGATTTT
*
839198 ATCTCGCTTAAGATAGTTTCACT-AGAAACAGAAGATTTT
1 ATCTCGCTTGAGATAGTTTCACTCA-AAACAGAAGATTTT
* *
839237 ATCTCACTTGAGATAGTTTCACTCGAAACAGAAGATTTT
1 ATCTCGCTTGAGATAGTTTCACTCAAAACAGAAGATTTT
* *
839276 ATCTCGTTTAAGATAGTTTCACTCAAAACAGAAGAGTTTT
1 ATCTCGCTTGAGATAGTTTCACTCAAAACAGAAGA-TTTT
* * * *
839316 ATCTCACTTAAGATAGTTTCACTCGAAACAGAA-AATTT
1 ATCTCGCTTGAGATAGTTTCACTCAAAACAGAAGATTTT
* *
839354 ATCTCACTTGAGATTGTTT
1 ATCTCGCTTGAGATAGTTT
839373 TTCTTAAAAC
Statistics
Matches: 260, Mismatches: 28, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
38 21 0.08
39 204 0.78
40 35 0.13
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (39 bp):
ATCTCGCTTGAGATAGTTTCACTCAAAACAGAAGATTTT
Found at i:839383 original size:117 final size:117
Alignment explanation
Indices: 839042--839372 Score: 459
Period size: 117 Copynumber: 2.8 Consensus size: 117
839032 AGTGATCAAC
** * *
839042 ATCTCGCTGGAGATAGTTTCACTCAAAATAGAAGATTTTATCTCGCTTGAGATAGTTTCACTCGA
1 ATCTCGCTTAAGATAGTTTCACTCAAAACAGAAGATTTTATCTCGCTTAAGATAGTTTCACTCGA
* * *
839107 AATAGAAGATTTTATCTCGCTTGAGATAGCTTCACTCGAAACAAAAGACTTT
66 AACAGAAGATTTTATCTCACTTGAGATAGTTTCACTCGAAACAAAAGACTTT
* * * * * *
839159 ATCTCGCTTGAGATAGTTTAACAT-GAAACAAAATATTTTATCTCGCTTAAGATAGTTTCACTAG
1 ATCTCGCTTAAGATAGTTTCAC-TCAAAACAGAAGATTTTATCTCGCTTAAGATAGTTTCACTCG
* *
839223 AAACAGAAGATTTTATCTCACTTGAGATAGTTTCACTCGAAACAGAAGATTTT
65 AAACAGAAGATTTTATCTCACTTGAGATAGTTTCACTCGAAACAAAAGACTTT
* *
839276 ATCTCGTTTAAGATAGTTTCACTCAAAACAGAAGAGTTTTATCTCACTTAAGATAGTTTCACTCG
1 ATCTCGCTTAAGATAGTTTCACTCAAAACAGAAGA-TTTTATCTCGCTTAAGATAGTTTCACTCG
* *
839341 AAACAGAA-AATTTATCTCACTTGAGATTGTTT
65 AAACAGAAGATTTTATCTCACTTGAGATAGTTT
839373 TTCTTAAAAC
Statistics
Matches: 188, Mismatches: 23, Indels: 6
0.87 0.11 0.03
Matches are distributed among these distances:
116 1 0.01
117 151 0.80
118 36 0.19
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (117 bp):
ATCTCGCTTAAGATAGTTTCACTCAAAACAGAAGATTTTATCTCGCTTAAGATAGTTTCACTCGA
AACAGAAGATTTTATCTCACTTGAGATAGTTTCACTCGAAACAAAAGACTTT
Found at i:839647 original size:93 final size:92
Alignment explanation
Indices: 839424--839660 Score: 244
Period size: 93 Copynumber: 2.6 Consensus size: 92
839414 TCTTTGCCAT
* * *
839424 ATTCACGACA-TTTCCAATCAACGACGGCTCACTCGAGGGAGCAAAATTTCCAGTAGAGAATTCA
1 ATTCACGACATTTTAC-ATCAGCGACGCCTCACTCGAGGGAGCAAAATTTCCAGTAGAGAATTCA
* * *
839488 TGAGAAGAAATTATTCACCCTTGGCTCG
65 TAAAAAGAAATTATTCAACCTTGGCTCG
* * * * * *
839516 ATTCATGACATTTCAAATCAGCGATGCCTTACTCGAGGGA-CTAACATTTCCAGTAGAGAATTCA
1 ATTCACGACATTTTACATCAGCGACGCCTCACTCGAGGGAGC-AAAATTTCCAGTAGAGAATTCA
** * ** *
839580 TAATAAAGAGCTTGTTCAACCTTTTCTTG
65 TAA-AAAGAAATTATTCAACCTTGGCTCG
* * *
839609 ATTCACGACATTTTGCATCAGCGACGCCTCACTCGAGGGATCAATATTTCCA
1 ATTCACGACATTTTACATCAGCGACGCCTCACTCGAGGGAGCAAAATTTCCA
839661 AAGAAAATAT
Statistics
Matches: 116, Mismatches: 25, Indels: 7
0.78 0.17 0.05
Matches are distributed among these distances:
91 1 0.01
92 52 0.45
93 62 0.53
94 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.28
Consensus pattern (92 bp):
ATTCACGACATTTTACATCAGCGACGCCTCACTCGAGGGAGCAAAATTTCCAGTAGAGAATTCAT
AAAAAGAAATTATTCAACCTTGGCTCG
Found at i:841082 original size:22 final size:20
Alignment explanation
Indices: 841057--841096 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
841047 GGTCTTCATA
841057 TTTATGTTTACTTTATTTTTAT
1 TTTATGTTT--TTTATTTTTAT
841079 TTTATGTTTTTTATTTTT
1 TTTATGTTTTTTATTTTT
841097 TGATATTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 9 0.50
22 9 0.50
ACGTcount: A:0.15, C:0.03, G:0.05, T:0.78
Consensus pattern (20 bp):
TTTATGTTTTTTATTTTTAT
Found at i:841091 original size:14 final size:16
Alignment explanation
Indices: 841070--841111 Score: 61
Period size: 14 Copynumber: 2.8 Consensus size: 16
841060 ATGTTTACTT
841070 TATTTTTATTTTATG-
1 TATTTTTATTTTATGA
*
841085 T-TTTTTATTTTTTGA
1 TATTTTTATTTTATGA
841100 TATTTTTATTTT
1 TATTTTTATTTT
841112 TTAAATTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 12 0.50
15 2 0.08
16 10 0.42
ACGTcount: A:0.17, C:0.00, G:0.05, T:0.79
Consensus pattern (16 bp):
TATTTTTATTTTATGA
Found at i:841097 original size:16 final size:15
Alignment explanation
Indices: 841070--841114 Score: 56
Period size: 16 Copynumber: 3.0 Consensus size: 15
841060 ATGTTTACTT
* *
841070 TATTTTTATTTTATG
1 TATTTTTATTTTTTA
841085 T-TTTTTATTTTTTGA
1 TATTTTTATTTTTT-A
841100 TATTTTTATTTTTTA
1 TATTTTTATTTTTTA
841115 AATTAAATTG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
14 11 0.42
15 3 0.12
16 12 0.46
ACGTcount: A:0.18, C:0.00, G:0.04, T:0.78
Consensus pattern (15 bp):
TATTTTTATTTTTTA
Found at i:845582 original size:23 final size:23
Alignment explanation
Indices: 845542--845602 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
845532 GAGGTATCGA
*
845542 TTCCCCTTC-A-GGGGGAACCTG
1 TTCCCCTTCAAGGGGGGAACCGG
845563 TTCCCCTTCAAGGGGGGAACCGG
1 TTCCCCTTCAAGGGGGGAACCGG
845586 TTCCCCTTCAAGGGGGG
1 TTCCCCTTCAAGGGGGG
845603 TATCGATTCT
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
21 9 0.24
22 1 0.03
23 27 0.73
ACGTcount: A:0.15, C:0.31, G:0.33, T:0.21
Consensus pattern (23 bp):
TTCCCCTTCAAGGGGGGAACCGG
Found at i:857571 original size:26 final size:26
Alignment explanation
Indices: 857537--857597 Score: 99
Period size: 25 Copynumber: 2.4 Consensus size: 26
857527 GAAGATTTCA
857537 GTAA-CATTTTCTTATCTTTTTCACC
1 GTAACCATTTTCTTATCTTTTTCACC
857562 GTAACCA-TTTCTTATCTTTTTCACC
1 GTAACCATTTTCTTATCTTTTTCACC
*
857587 TTAACCATTTT
1 GTAACCATTTT
857598 TCTACCTTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
25 28 0.85
26 5 0.15
ACGTcount: A:0.21, C:0.25, G:0.03, T:0.51
Consensus pattern (26 bp):
GTAACCATTTTCTTATCTTTTTCACC
Found at i:865430 original size:14 final size:14
Alignment explanation
Indices: 865413--865445 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
865403 GGCTAAGGAA
865413 ATATATATATGTAT
1 ATATATATATGTAT
865427 ATATATATATGTAT
1 ATATATATATGTAT
865441 ATATA
1 ATATA
865446 ATAATCCAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.48
Consensus pattern (14 bp):
ATATATATATGTAT
Found at i:865529 original size:22 final size:22
Alignment explanation
Indices: 865503--865548 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
865493 CGTACACATT
*
865503 AAGTTAAATTATGATGGACTAA
1 AAGTTAAACTATGATGGACTAA
865525 AAGTTAAACTATGATGGACTAA
1 AAGTTAAACTATGATGGACTAA
865547 AA
1 AA
865549 CATATATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.48, C:0.07, G:0.17, T:0.28
Consensus pattern (22 bp):
AAGTTAAACTATGATGGACTAA
Found at i:867086 original size:3 final size:3
Alignment explanation
Indices: 867068--867112 Score: 56
Period size: 3 Copynumber: 15.0 Consensus size: 3
867058 GCAAATGTAA
* *
867068 AAT AAT AAAT ATT AAT AAT AAT AAT AAT AAT AAT AAC AAT -AT AAT
1 AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
867113 TAATGTTTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
2 2 0.06
3 31 0.86
4 3 0.08
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:867526 original size:55 final size:55
Alignment explanation
Indices: 867307--867779 Score: 404
Period size: 55 Copynumber: 8.8 Consensus size: 55
867297 CCATTGGGTT
* ** ** **
867307 TGCTCCCT-TTTGCTTCAGGGAGTATAAAACTCAAACAATCTTCATA-AAACAAGTC
1 TGCTCCCTATTT-CTTCAGAGAGTATAGGACTTGAACAATCTTCA-ACAAACGTGTC
* * * * *
867362 CGTTCTCTATTCCTTCAGAGAGTATAGGAC-T--A-AATCTTCAACAAATGTGTC
1 TGCTCCCTATTTCTTCAGAGAGTATAGGACTTGAACAATCTTCAACAAACGTGTC
* * *
867413 CGCTCCCCATTCCTTCAGAGAGTATAGGAC-T---CAATCTTCAATCAAACGTGTC
1 TGCTCCCTATTTCTTCAGAGAGTATAGGACTTGAACAATCTTCAA-CAAACGTGTC
* * *
867465 CGCTCCCTATTTCTTCAGAGAGTATATGACTTGAACAACCTTCAACAAACGTGTCC
1 TGCTCCCTATTTCTTCAGAGAGTATAGGACTTGAACAATCTTCAACAAACGTGT-C
* * *
867521 T-CTCCCTATTCCTTCAGAAAGTATAGGAC-T---CAATCTTCAACAAATGTGTC
1 TGCTCCCTATTTCTTCAGAGAGTATAGGACTTGAACAATCTTCAACAAACGTGTC
* * * * * **
867571 TGCTCCCTATTTGTTCAGAGAGTATAAGACTCGAATAATTTTCAACATTCGTGTC
1 TGCTCCCTATTTCTTCAGAGAGTATAGGACTTGAACAATCTTCAACAAACGTGTC
* * * ** *
867626 TGCTCCCTATTTCTTCAGAGAGTATTA-GACTCGAACAATTTTCAATATTCATGTC
1 TGCTCCCTATTTCTTCAGAGAGTA-TAGGACTTGAACAATCTTCAACAAACGTGTC
* * *
867681 TGCTCCCTATTGCTTAAGAGAGTAT-GAGACTTGAACAATCTTCAACAATCGTGTC
1 TGCTCCCTATTTCTTCAGAGAGTATAG-GACTTGAACAATCTTCAACAAACGTGTC
* * * *
867736 TGCTCTCTATTTGTTCAGAGAGTATAAGACTCGAACAATCTTCA
1 TGCTCCCTATTTCTTCAGAGAGTATAGGACTTGAACAATCTTCA
867780 TTTGCTTCAC
Statistics
Matches: 348, Mismatches: 52, Indels: 36
0.80 0.12 0.08
Matches are distributed among these distances:
50 3 0.01
51 92 0.26
52 37 0.11
53 1 0.00
54 2 0.01
55 199 0.57
56 14 0.04
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (55 bp):
TGCTCCCTATTTCTTCAGAGAGTATAGGACTTGAACAATCTTCAACAAACGTGTC
Found at i:867725 original size:110 final size:109
Alignment explanation
Indices: 867282--867779 Score: 397
Period size: 106 Copynumber: 4.6 Consensus size: 109
867272 TCCCTCTTCT
* * * * * * * * *
867282 TTGAACAATCTTCGACCATTGGGTTTGCTCCCT-TTTGCTTCAGGGAGTATAAAACTCAAACAAT
1 TTGAACAATCTTCAACAATCGTGTCTGCTCCCTATTT-CTTCAGAGAGTATTAGACTCGAACAAT
* * * * * *
867346 CTTCATA-AAACAAGTCCGTTCTCTATTCCTTCAGAGAGTATAGGAC
65 CTTCA-ACAAATATGTCTGCTCCCTATTGCTTCAGAGAGTATA-GAC
* * *
867392 -T--A-AATCTTCAACAAAT-GTGTCCGCTCCCCATTCCTTCAGAGAGTA-TAGGACT----CAA
1 TTGAACAATCTTCAAC-AATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATTA-GACTCGAACAA
** * *
867447 TCTTCAATCAAACGTGTCCGCTCCCTATTTCTTCAGAGAGTATATGAC
64 TCTTCAA-CAAATATGTCTGCTCCCTATTGCTTCAGAGAGTATA-GAC
* * * *
867495 TTGAACAACCTTCAACAAACGTGTCCT-CTCCCTATTCCTTCAGAAAGTA-TAGGACT----CAA
1 TTGAACAATCTTCAACAATCGTGT-CTGCTCCCTATTTCTTCAGAGAGTATTA-GACTCGAACAA
*
867554 TCTTCAACAAATGTGTCTGCTCCCTATTTG-TTCAGAGAGTATAAGAC
64 TCTTCAACAAATATGTCTGCTCCCTA-TTGCTTCAGAGAGTAT-AGAC
* * * * *
867601 TCGAATAATTTTCAACATTCGTGTCTGCTCCCTATTTCTTCAGAGAGTATTAGACTCGAACAATT
1 TTGAACAATCTTCAACAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATTAGACTCGAACAATC
* * *
867666 TTCAA-TATTCATGTCTGCTCCCTATTGCTTAAGAGAGTATGAGAC
66 TTCAACAAAT-ATGTCTGCTCCCTATTGCTTCAGAGAGTAT-AGAC
* * *
867711 TTGAACAATCTTCAACAATCGTGTCTGCTCTCTATTTGTTCAGAGAGTATAAGACTCGAACAATC
1 TTGAACAATCTTCAACAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATTAGACTCGAACAATC
867776 TTCA
66 TTCA
867780 TTTGCTTCAC
Statistics
Matches: 321, Mismatches: 46, Indels: 42
0.78 0.11 0.10
Matches are distributed among these distances:
101 1 0.00
102 9 0.03
103 33 0.10
104 1 0.00
105 3 0.01
106 109 0.34
107 60 0.19
108 1 0.00
109 6 0.02
110 98 0.31
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (109 bp):
TTGAACAATCTTCAACAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATTAGACTCGAACAATC
TTCAACAAATATGTCTGCTCCCTATTGCTTCAGAGAGTATAGAC
Found at i:868951 original size:9 final size:9
Alignment explanation
Indices: 868923--868993 Score: 79
Period size: 9 Copynumber: 7.6 Consensus size: 9
868913 GAACCCTCCC
868923 TTTTTCTTT
1 TTTTTCTTT
*
868932 TTCTTCATTT
1 TTTTTC-TTT
*
868942 TTTTTGTTTT
1 TTTTT-CTTT
868952 TTTTTCTTAT
1 TTTTTCTT-T
*
868962 TTTTTCCTT
1 TTTTTCTTT
*
868971 TTTTCCTTT
1 TTTTTCTTT
868980 TTTTTCTTT
1 TTTTTCTTT
868989 TTTTT
1 TTTTT
868994 AAGCAAAATA
Statistics
Matches: 51, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
9 28 0.55
10 23 0.45
ACGTcount: A:0.03, C:0.13, G:0.01, T:0.83
Consensus pattern (9 bp):
TTTTTCTTT
Found at i:868952 original size:10 final size:10
Alignment explanation
Indices: 868923--868993 Score: 67
Period size: 10 Copynumber: 7.4 Consensus size: 10
868913 GAACCCTCCC
868923 TTTTTC-TTT
1 TTTTTCTTTT
* *
868932 TTCTTCATTT
1 TTTTTCTTTT
*
868942 TTTTTGTTTT
1 TTTTTCTTTT
*
868952 TTTTTCTTAT
1 TTTTTCTTTT
*
868962 TTTTTC--CT
1 TTTTTCTTTT
*
868970 TTTTTCCTTT
1 TTTTTCTTTT
868980 TTTTTCTTTT
1 TTTTTCTTTT
868990 TTTT
1 TTTT
868994 AAGCAAAATA
Statistics
Matches: 50, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
8 7 0.14
9 5 0.10
10 38 0.76
ACGTcount: A:0.03, C:0.13, G:0.01, T:0.83
Consensus pattern (10 bp):
TTTTTCTTTT
Found at i:871126 original size:17 final size:17
Alignment explanation
Indices: 871104--871137 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
871094 AATAGATAGC
871104 CCTCTCCCTCTTCTCAG
1 CCTCTCCCTCTTCTCAG
871121 CCTCTCCCTCTTCTCAG
1 CCTCTCCCTCTTCTCAG
871138 TTTGATCATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.06, C:0.53, G:0.06, T:0.35
Consensus pattern (17 bp):
CCTCTCCCTCTTCTCAG
Found at i:880272 original size:2 final size:2
Alignment explanation
Indices: 880265--880300 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
880255 GGCTAAGGAA
* *
880265 AT AT AT AT AT GT AT AT AT AT AT AT AT AT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
880301 GATAATCCAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (2 bp):
AT
Found at i:880386 original size:22 final size:22
Alignment explanation
Indices: 880359--880404 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
880349 CGTACACATT
*
880359 AAGTTAAATTATGATGGACTAA
1 AAGTTAAACTATGATGGACTAA
880381 AAGTTAAACTATGATGGACTAA
1 AAGTTAAACTATGATGGACTAA
880403 AA
1 AA
880405 CATATATATC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.48, C:0.07, G:0.17, T:0.28
Consensus pattern (22 bp):
AAGTTAAACTATGATGGACTAA
Found at i:881941 original size:3 final size:3
Alignment explanation
Indices: 881923--881969 Score: 51
Period size: 3 Copynumber: 15.3 Consensus size: 3
881913 GCAAATGTAA
* *
881923 AAT AAT AAAT ATT AAT AAT AAT AAT AAT AAT AAC AAT -AT AATT AAT
1 AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT
881969 A
1 A
881970 TTTATAATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
2 2 0.05
3 29 0.78
4 6 0.16
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:883793 original size:13 final size:13
Alignment explanation
Indices: 883775--883799 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
883765 TTTCTTTTTG
883775 TTTTGTTTTCTTA
1 TTTTGTTTTCTTA
883788 TTTTGTTTTCTT
1 TTTTGTTTTCTT
883800 TCTTTTAGGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.04, C:0.08, G:0.08, T:0.80
Consensus pattern (13 bp):
TTTTGTTTTCTTA
Found at i:887318 original size:19 final size:21
Alignment explanation
Indices: 887275--887318 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 21
887265 TTGGAAATAT
* *
887275 ATGTGTATGGCATAAGAATTA
1 ATGTGTATGGCATAACAAGTA
887296 ATGTGTATGG-A-AACAAGTA
1 ATGTGTATGGCATAACAAGTA
887315 ATGT
1 ATGT
887319 TGAAAAATTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 10 0.48
20 1 0.05
21 10 0.48
ACGTcount: A:0.39, C:0.05, G:0.25, T:0.32
Consensus pattern (21 bp):
ATGTGTATGGCATAACAAGTA
Found at i:888559 original size:65 final size:64
Alignment explanation
Indices: 888434--888586 Score: 227
Period size: 65 Copynumber: 2.4 Consensus size: 64
888424 CCCCATTTCG
* *
888434 AATGCATTTTATGCATCGATGCACTGCCATGCATCGATGCACTCAGAATTTTATGGAAACATCA
1 AATGCATTTTATGCATCGATGCACAGCCATGCATCGATGCACTCAGAATTTTATGAAAACATCA
* * *
888498 AATGCTTTTTATGCATCGATGCACAGACCATGCATCGATGCACTCCAGGATTTT-TTAAAACATC
1 AATGCATTTTATGCATCGATGCACAG-CCATGCATCGATGCACT-CAGAATTTTATGAAAACATC
*
888562 G
64 A
888563 AATGCATTTTATGCATCGATGCAC
1 AATGCATTTTATGCATCGATGCAC
888587 CCTTATTGCA
Statistics
Matches: 80, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
64 24 0.30
65 48 0.60
66 8 0.10
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (64 bp):
AATGCATTTTATGCATCGATGCACAGCCATGCATCGATGCACTCAGAATTTTATGAAAACATCA
Found at i:890537 original size:21 final size:21
Alignment explanation
Indices: 890512--890551 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
890502 AAGACTTTAT
890512 TTTCAAAATACAAAAATGATA
1 TTTCAAAATACAAAAATGATA
**
890533 TTTCAAAATTGAAAAATGA
1 TTTCAAAATACAAAAATGA
890552 AAATAGTCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.55, C:0.07, G:0.07, T:0.30
Consensus pattern (21 bp):
TTTCAAAATACAAAAATGATA
Found at i:894407 original size:23 final size:23
Alignment explanation
Indices: 894377--894456 Score: 80
Period size: 23 Copynumber: 3.6 Consensus size: 23
894367 GCACTATCTA
894377 GTGCATCGATGCATCCTATGAAT
1 GTGCATCGATGCATCCTATGAAT
894400 GTGCATCGATAG-A-CC-ATGAA-
1 GTGCATCGAT-GCATCCTATGAAT
* *
894420 GCTGCACCGATGCACTCCT-TAAAT
1 G-TGCATCGATGCA-TCCTATGAAT
894444 GTGCATCGATGCA
1 GTGCATCGATGCA
894457 CTTAGCTGTG
Statistics
Matches: 47, Mismatches: 3, Indels: 14
0.73 0.05 0.22
Matches are distributed among these distances:
20 2 0.04
21 14 0.30
22 2 0.04
23 27 0.57
24 2 0.04
ACGTcount: A:0.28, C:0.25, G:0.23, T:0.25
Consensus pattern (23 bp):
GTGCATCGATGCATCCTATGAAT
Found at i:897151 original size:65 final size:65
Alignment explanation
Indices: 897079--897241 Score: 274
Period size: 65 Copynumber: 2.5 Consensus size: 65
897069 AAATTTTATG
897079 GAAACATCGAATGCATTTTATGCATCGATGCACAAACCATACA-CTGATGCACTCCAGGCTTGTT
1 GAAACATCGAATGCATTTTATGCATCGATGCACAAACCATACATC-GATGCACTCCAGGCTTGTT
897143 T
65 T
* *
897144 GAAACATCGAATGCATTTTATGCATCGATGCACAGACCATGCATCGATGCACTCCAGGCTTGTTT
1 GAAACATCGAATGCATTTTATGCATCGATGCACAAACCATACATCGATGCACTCCAGGCTTGTTT
* *
897209 GAAACATCAAATGCATTTTATGCATCGGTGCAC
1 GAAACATCGAATGCATTTTATGCATCGATGCAC
897242 CCTTAGTGCA
Statistics
Matches: 93, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
65 92 0.99
66 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (65 bp):
GAAACATCGAATGCATTTTATGCATCGATGCACAAACCATACATCGATGCACTCCAGGCTTGTTT
Found at i:897257 original size:65 final size:63
Alignment explanation
Indices: 897079--897261 Score: 251
Period size: 65 Copynumber: 2.8 Consensus size: 63
897069 AAATTTTATG
* *
897079 GAAACATCGAATGCATTTTATGCATCGATGCACAAACCATACACTGATGCACTCCAGGCTTGTTT
1 GAAACATCGAATGCATTTTATGCATCGATGCAC--ACCATGCACCGATGCACTCCAGGCTTGTTT
*
897144 GAAACATCGAATGCATTTTATGCATCGATGCACAGACCATGCATCGATGCACTCCAGGCTTGTTT
1 GAAACATCGAATGCATTTTATGCATCGATGCAC--ACCATGCACCGATGCACTCCAGGCTTGTTT
* *
897209 GAAACATCAAATGCATTTTATGCATCGGTGCAC-CCTTAGTGCACCGATGCACT
1 GAAACATCGAATGCATTTTATGCATCGATGCACACC--A-TGCACCGATGCACT
897262 AAGTGTTCCA
Statistics
Matches: 108, Mismatches: 7, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
62 2 0.02
64 1 0.01
65 105 0.97
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (63 bp):
GAAACATCGAATGCATTTTATGCATCGATGCACACCATGCACCGATGCACTCCAGGCTTGTTT
Found at i:898003 original size:6 final size:6
Alignment explanation
Indices: 897992--899062 Score: 1751
Period size: 6 Copynumber: 180.5 Consensus size: 6
897982 AAGTTGGAAG
897992 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
898040 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
898088 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
898136 ATACAT ATACAT ATACAT ATACAT ATACATAT ATACAT ATACAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATAC--AT ATACAT ATACAT ATACAT
898186 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
** ** ** ** ** **
898234 ATACAT AT--AT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
** ** ** * * * * * * * * *
898280 ATATGT ATATGT ATATGT ATATAT GTATAT GTATAT GTATAT GTATAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
898328 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
898376 ATACAT ATACAT ATACAT ATACAT ATACAT ATAC-- ATACAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
898422 ATACAT ATACAT ATACAT ATACAT ATAC-- ATACAT ATACAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
898468 ATACAT ATACAT ATACAT ATACAT ATAC-- ATACAT ATACAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
898514 ATAC-- ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
898560 ATAC-- ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
898606 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
898654 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
898702 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
898750 ATACAT ATACAT ATACAT ATACATAT ATACAT ATACAT ATACAT ATACAT
1 ATACAT ATACAT ATACAT ATAC--AT ATACAT ATACAT ATACAT ATACAT
898800 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
898848 ATACAT ATACAT ATAC-- ATACAT ATACAT ATACAT ATACAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
898894 ATACAT ATACAT ATACAT ATAC-- ATACAT ATACAT ATACAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
898940 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
898988 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
899036 ATACAT ATACAT ATACAT ATACAT ATA
1 ATACAT ATACAT ATACAT ATACAT ATA
899063 TACGCTACCA
Statistics
Matches: 1040, Mismatches: 5, Indels: 40
0.96 0.00 0.04
Matches are distributed among these distances:
4 32 0.03
6 996 0.96
8 12 0.01
ACGTcount: A:0.49, C:0.15, G:0.01, T:0.35
Consensus pattern (6 bp):
ATACAT
Found at i:905587 original size:13 final size:13
Alignment explanation
Indices: 905568--905598 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
905558 TTTTGGTTAA
905568 AGTCAAAGTCAAT
1 AGTCAAAGTCAAT
*
905581 GGTCAAAGTCAAT
1 AGTCAAAGTCAAT
905594 AGTCA
1 AGTCA
905599 TCTCTTTTCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.42, C:0.16, G:0.19, T:0.23
Consensus pattern (13 bp):
AGTCAAAGTCAAT
Found at i:905588 original size:19 final size:20
Alignment explanation
Indices: 905561--905598 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
905551 TTTAACTTTT
*
905561 TGGTTAAAGTCAA-AGTCAA
1 TGGTCAAAGTCAATAGTCAA
905580 TGGTCAAAGTCAATAGTCA
1 TGGTCAAAGTCAATAGTCA
905599 TCTCTTTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.39, C:0.13, G:0.21, T:0.26
Consensus pattern (20 bp):
TGGTCAAAGTCAATAGTCAA
Found at i:912461 original size:22 final size:22
Alignment explanation
Indices: 912406--912461 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
912396 GTCTGAGTGA
* * *
912406 ACCGATACGAGAAGGCTCCTGG
1 ACCGACACAAGAAGGCTCCTCG
* *
912428 ATCGATACAAGAAGGCTCCTCG
1 ACCGACACAAGAAGGCTCCTCG
*
912450 ACCGACAGAAGA
1 ACCGACACAAGA
912462 GCCCCACATG
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.34, C:0.27, G:0.27, T:0.12
Consensus pattern (22 bp):
ACCGACACAAGAAGGCTCCTCG
Found at i:913635 original size:4 final size:4
Alignment explanation
Indices: 913626--913682 Score: 53
Period size: 4 Copynumber: 13.8 Consensus size: 4
913616 ATACCCCTTC
* * *
913626 AAAT AAAT AAAT CAAA- AAAT AAAT AAAT AATT TATT CAAAAT AAAT AAAT
1 AAAT AAAT AAAT -AAAT AAAT AAAT AAAT AAAT AAAT --AAAT AAAT AAAT
913676 AAAT AAA
1 AAAT AAA
913683 AATTACCTTC
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
3 3 0.07
4 37 0.82
5 3 0.07
6 2 0.04
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.26
Consensus pattern (4 bp):
AAAT
Found at i:913647 original size:12 final size:13
Alignment explanation
Indices: 913624--913682 Score: 61
Period size: 12 Copynumber: 4.7 Consensus size: 13
913614 TCATACCCCT
913624 TCAAATAAATAAA
1 TCAAATAAATAAA
913637 TCAAA-AAATAAA
1 TCAAATAAATAAA
* * *
913649 T-AAATAATTTAT
1 TCAAATAAATAAA
913661 TCAAAATAAATAAA
1 TC-AAATAAATAAA
913675 T-AAATAAA
1 TCAAATAAA
913683 AATTACCTTC
Statistics
Matches: 37, Mismatches: 6, Indels: 7
0.74 0.12 0.14
Matches are distributed among these distances:
11 3 0.08
12 20 0.54
13 5 0.14
14 9 0.24
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (13 bp):
TCAAATAAATAAA
Found at i:916051 original size:4 final size:4
Alignment explanation
Indices: 916042--916110 Score: 77
Period size: 4 Copynumber: 16.8 Consensus size: 4
916032 ATACCCCTTC
* * *
916042 AAAT AAAT AAAT AAAT AAAT AATT CAAA- AAAT AAAT AAAT ATAT AATT
1 AAAT AAAT AAAT AAAT AAAT AAAT -AAAT AAAT AAAT AAAT AAAT AAAT
916090 CAAAAT AAAT AAAT AAAT AAA
1 --AAAT AAAT AAAT AAAT AAA
916111 AATTTCCTTC
Statistics
Matches: 55, Mismatches: 6, Indels: 8
0.80 0.09 0.12
Matches are distributed among these distances:
3 3 0.05
4 47 0.85
5 2 0.04
6 3 0.05
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (4 bp):
AAAT
Found at i:916075 original size:24 final size:24
Alignment explanation
Indices: 916039--916109 Score: 110
Period size: 24 Copynumber: 3.0 Consensus size: 24
916029 TTTATACCCC
916039 TTCAAATAAATAAATAAATAAATAA
1 TTCAAA-AAATAAATAAATAAATAA
*
916064 TTCAAAAAATAAATAAATATATAA
1 TTCAAAAAATAAATAAATAAATAA
916088 TTC--AAAATAAATAAATAAATAA
1 TTCAAAAAATAAATAAATAAATAA
916110 AAATTTCCTT
Statistics
Matches: 44, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
22 18 0.41
24 20 0.45
25 6 0.14
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.28
Consensus pattern (24 bp):
TTCAAAAAATAAATAAATAAATAA
Found at i:918560 original size:4 final size:4
Alignment explanation
Indices: 918551--918653 Score: 71
Period size: 4 Copynumber: 24.2 Consensus size: 4
918541 ATACCCCTTC
* * * * **
918551 AAAT AAAT AAAT AATT CAAT AAAT AAAT AAAT AACT AATTT ATTT AAAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA-AT AAAT -AAAT
* * *
918601 AAAT AAAT TATT CAAAAT AAAT AAAT AATT AAAAGT AAAT AAAT AAAT
1 AAAT AAAT AAAT --AAAT AAAT AAAT AAAT -AAA-T AAAT AAAT AAAT
918649 AAAT A
1 AAAT A
918654 TTTCCTTCAG
Statistics
Matches: 78, Mismatches: 15, Indels: 12
0.74 0.14 0.11
Matches are distributed among these distances:
4 66 0.85
5 9 0.12
6 3 0.04
ACGTcount: A:0.65, C:0.03, G:0.01, T:0.31
Consensus pattern (4 bp):
AAAT
Found at i:918645 original size:18 final size:17
Alignment explanation
Indices: 918551--918651 Score: 86
Period size: 18 Copynumber: 6.1 Consensus size: 17
918541 ATACCCCTTC
918551 AAATAAATAAATAATT-
1 AAATAAATAAATAATTA
* *
918567 CAATAAATAAATAAAT-
1 AAATAAATAAATAATTA
* * *
918583 AACT-AAT--TTATTTA
1 AAATAAATAAATAATTA
*
918597 AAATAAATAAATTATTCA
1 AAATAAATAAATAATT-A
918615 AAATAAATAAATAATTA
1 AAATAAATAAATAATTA
*
918632 AAAGTAAATAAATAAATA
1 AAA-TAAATAAATAATTA
918650 AA
1 AA
918652 TATTTCCTTC
Statistics
Matches: 66, Mismatches: 13, Indels: 10
0.74 0.15 0.11
Matches are distributed among these distances:
13 3 0.05
14 3 0.05
15 6 0.09
16 16 0.24
17 7 0.11
18 31 0.47
ACGTcount: A:0.65, C:0.03, G:0.01, T:0.31
Consensus pattern (17 bp):
AAATAAATAAATAATTA
Found at i:920927 original size:22 final size:21
Alignment explanation
Indices: 920889--920930 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
920879 AAAAGCATAA
*
920889 AAAGAAAACAAACCATCCATT
1 AAAGAAAAAAAACCATCCATT
*
920910 AAAGAAAAAATAAGCATCCAT
1 AAAGAAAAAA-AACCATCCAT
920931 AGTGAACTCC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.60, C:0.19, G:0.07, T:0.14
Consensus pattern (21 bp):
AAAGAAAAAAAACCATCCATT
Found at i:921821 original size:17 final size:17
Alignment explanation
Indices: 921801--921837 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
921791 GTCATATAGG
921801 AGAGAATTTCATCCCTC
1 AGAGAATTTCATCCCTC
*
921818 AGAGAATTTTATCCCTC
1 AGAGAATTTCATCCCTC
921835 AGA
1 AGA
921838 ATAGTTGGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.30
Consensus pattern (17 bp):
AGAGAATTTCATCCCTC
Found at i:927985 original size:550 final size:550
Alignment explanation
Indices: 926935--928038 Score: 1816
Period size: 550 Copynumber: 2.0 Consensus size: 550
926925 AGCCAGCTGC
*
926935 ACCTCCAAAGAAAAGTCTTTTGGCTCCTCGATGCTTTCCTCTTCAATAAGCCTCTTATAATTTTC
1 ACCTCCAAAGAAAAGTCTTTTGGCTCCTCGATGCTTTCCTCCTCAATAAGCCTCTTATAATTTTC
* * *
927000 CAGCTGAATGAAATTTTTATGGAAAACTTGAATAGTTTCACCAACTAGTAATGAGTCTACTTCCA
66 CAGCTGAATGAAATTGTTATGGAAAACTTGAATAGCTTCACCAACTAGTAATGAGTATACTTCCA
* *
927065 GAATGCTTTGACATTCTTCATACTTATCCATATACTTGAGAGTACAGAAGATATTCAAGGTCGTA
131 GAATGCTTTGACATTCTTCATACTTATCCATATAATTGAGAGTACAGAAGACATTCAAGGTCGTA
* **
927130 CATTGGTTAACCACTCTCATGGTGAGCTCACCATTCTCACAATCAATAAGAAAATGTCTGATAGC
196 CATTGGTTAACCACTCTCATGGTGAGCTCACCATTCTCACAATCAATAAGAAAATGCCCAATAGC
* *
927195 TAGGAAGGGTCTCCCCAATTTATTGGTGTCATATCATTTGCCTCATAATCAAGTATAAGGAAGTC
261 TAGGAAGGGTCTCCCCAATTTATAGGTGTCATAGCATTTGCCTCATAATCAAGTATAAGGAAGTC
* *
927260 TAATGAGAACACAAATTTATCCACTCTGACGATGACATCTTCAACTAGCCCCTCAGAATGAACAT
326 TAATGAGAACACAAATTTATCCACCCTGACGATGACATCTTCAACTAGCCCCTCAGAACGAACAT
* *
927325 GGAAGTGGTCGGCTAGTTGCAAAATAATGGAGGTGGGTCTTGCATTTCCCATTGCATGCTTCATG
391 GGAAGTGGTCGGCTAGTTCCAAAATAATGGAGGTGGGTCTTGCATTTCCCATTCCATGCTTCATG
* *
927390 AAGATTAATTTTGGCATTAAGTTCACACTTGAGCCAAGTTCATATAGTGTTTTTGCAACATAATT
456 AAGATTAATTTTGGCATTAAGTTCACACTTGAGCCAAGGTCATATAGTGTTTTTACAACATAATT
927455 TTCTCATATAGAGCATAGAATAGTAAAGCT
521 TTCTCATATAGAGCATAGAATAGTAAAGCT
927485 ACCTCCAAAGAAAAGTCTTTTGGCTCCTCGATGCTTTCCTCCTCAATAAGCCTCTTATAATTTTC
1 ACCTCCAAAGAAAAGTCTTTTGGCTCCTCGATGCTTTCCTCCTCAATAAGCCTCTTATAATTTTC
* * * ** *
927550 TAGCTGAATGAAATTGTTATGGCAAACTTGAATAGCTTCTCCTGCTAGTAATGAGTATACTTCTA
66 CAGCTGAATGAAATTGTTATGGAAAACTTGAATAGCTTCACCAACTAGTAATGAGTATACTTCCA
* *
927615 GAATGCTTTGATATTCTTCGA-ACTTATCCATATAATTGAGAGTACGGAAGACATTCAAGGTCGT
131 GAATGCTTTGACATTCTTC-ATACTTATCCATATAATTGAGAGTACAGAAGACATTCAAGGTCGT
* ** * *
927679 ACATTGGTTAATCACTCTCATGGTGAGCTTGCCCTTCTCACAGTCAATAAGAAAATGCCCAATAG
195 ACATTGGTTAACCACTCTCATGGTGAGCTCACCATTCTCACAATCAATAAGAAAATGCCCAATAG
* *
927744 CTAGGAAGGGTCTCCCCAATTTATAGGTGTCGTAGCATTTGCCTCGTAATCAAGTATAAGGAAGT
260 CTAGGAAGGGTCTCCCCAATTTATAGGTGTCATAGCATTTGCCTCATAATCAAGTATAAGGAAGT
* * *
927809 CTACTGGGAACACAAATTTATCCACCCTGACGATGACATCTTTAACTAGCCCCTCAGAACGAACA
325 CTAATGAGAACACAAATTTATCCACCCTGACGATGACATCTTCAACTAGCCCCTCAGAACGAACA
* *
927874 TGGGAGTGGTTGGCTAGTTCCAAAATAATGGAGGTGGGTCTTGCATTTCCCATTCCAAT-CTTCA
390 TGGAAGTGGTCGGCTAGTTCCAAAATAATGGAGGTGGGTCTTGCATTTCCCATTCC-ATGCTTCA
* *
927938 TGAAGATTAATTTTGGCATTAAGTTCACACTTGATCCAAGGTCATATAGTGTTTTTACAATATAA
454 TGAAGATTAATTTTGGCATTAAGTTCACACTTGAGCCAAGGTCATATAGTGTTTTTACAACATAA
*
928003 TTTTCTCTTATAGAGCATAGAATAGTAAAGCT
519 TTTTCTCATATAGAGCATAGAATAGTAAAGCT
928035 ACCT
1 ACCT
928039 TGACCGTTTC
Statistics
Matches: 512, Mismatches: 40, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
550 509 0.99
551 3 0.01
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (550 bp):
ACCTCCAAAGAAAAGTCTTTTGGCTCCTCGATGCTTTCCTCCTCAATAAGCCTCTTATAATTTTC
CAGCTGAATGAAATTGTTATGGAAAACTTGAATAGCTTCACCAACTAGTAATGAGTATACTTCCA
GAATGCTTTGACATTCTTCATACTTATCCATATAATTGAGAGTACAGAAGACATTCAAGGTCGTA
CATTGGTTAACCACTCTCATGGTGAGCTCACCATTCTCACAATCAATAAGAAAATGCCCAATAGC
TAGGAAGGGTCTCCCCAATTTATAGGTGTCATAGCATTTGCCTCATAATCAAGTATAAGGAAGTC
TAATGAGAACACAAATTTATCCACCCTGACGATGACATCTTCAACTAGCCCCTCAGAACGAACAT
GGAAGTGGTCGGCTAGTTCCAAAATAATGGAGGTGGGTCTTGCATTTCCCATTCCATGCTTCATG
AAGATTAATTTTGGCATTAAGTTCACACTTGAGCCAAGGTCATATAGTGTTTTTACAACATAATT
TTCTCATATAGAGCATAGAATAGTAAAGCT
Found at i:932128 original size:2 final size:2
Alignment explanation
Indices: 932121--932164 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
932111 CAAGTAAAAC
932121 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
932163 TA
1 TA
932165 ATGAAAAATG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:945489 original size:19 final size:19
Alignment explanation
Indices: 945465--945508 Score: 88
Period size: 19 Copynumber: 2.3 Consensus size: 19
945455 TGTCTATTTG
945465 TGTTTCCTCATTTATTCTA
1 TGTTTCCTCATTTATTCTA
945484 TGTTTCCTCATTTATTCTA
1 TGTTTCCTCATTTATTCTA
945503 TGTTTC
1 TGTTTC
945509 TTTAGTGGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.14, C:0.20, G:0.07, T:0.59
Consensus pattern (19 bp):
TGTTTCCTCATTTATTCTA
Found at i:948789 original size:19 final size:19
Alignment explanation
Indices: 948765--948808 Score: 56
Period size: 17 Copynumber: 2.4 Consensus size: 19
948755 AGTTTATCTA
948765 TCAACATCTCCAAAAAAAT
1 TCAACATCTCCAAAAAAAT
*
948784 TCAACA--TCCAAAAAATT
1 TCAACATCTCCAAAAAAAT
*
948801 TCACCATC
1 TCAACATC
948809 CAATAAATAC
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
17 15 0.71
19 6 0.29
ACGTcount: A:0.48, C:0.30, G:0.00, T:0.23
Consensus pattern (19 bp):
TCAACATCTCCAAAAAAAT
Found at i:948816 original size:17 final size:17
Alignment explanation
Indices: 948773--948816 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 17
948763 TATCAACATC
*
948773 TCCAAAAAAATTCAACA
1 TCCAAAAAATTTCAACA
*
948790 TCCAAAAAATTTCACCA
1 TCCAAAAAATTTCAACA
*
948807 TCCAATAAAT
1 TCCAAAAAAT
948817 ACATGAAACA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.52, C:0.25, G:0.00, T:0.23
Consensus pattern (17 bp):
TCCAAAAAATTTCAACA
Found at i:949419 original size:21 final size:23
Alignment explanation
Indices: 949375--949420 Score: 60
Period size: 21 Copynumber: 2.0 Consensus size: 23
949365 TTATTTATAT
949375 AAAATATAATATAATATAATATGA
1 AAAATATAATAT-ATATAATATGA
*
949399 AAAAT-TAATAT-TATGATATGA
1 AAAATATAATATATATAATATGA
949420 A
1 A
949421 GTGGACAAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 10 0.48
23 6 0.29
24 5 0.24
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.35
Consensus pattern (23 bp):
AAAATATAATATATATAATATGA
Found at i:950044 original size:131 final size:131
Alignment explanation
Indices: 949810--950078 Score: 502
Period size: 131 Copynumber: 2.1 Consensus size: 131
949800 ATTCAACAGT
949810 TGAAGAAGGCCAAGTTTTGCAAAGGGGAGCTAGGACTAGGAGGGCCCCAAAGGATCTAACTGATT
1 TGAAGAAGGCCAAGTTTTGCAAAGGGGAGCTAGGACTAGGAGGGCCCCAAAGGATCTAACTGATT
949875 TTGTCCTCTTAGAATCTAGTGGGTATAAAATAAAGAAATATGTACTATGTTGGAGTATGAAATAT
66 TTGTCCTCTTAGAATCTAGTGGGTATAAAATAAAGAAATATGTACTATGTTGGAGTATGAAATAT
949940 C
131 C
* *
949941 TGAAGAAGGCCAAGTTTTGCAAAGGGGAGCTAGGACTAGGAGGGCCCCAAAGGCTCTAATTGATT
1 TGAAGAAGGCCAAGTTTTGCAAAGGGGAGCTAGGACTAGGAGGGCCCCAAAGGATCTAACTGATT
* *
950006 TTGTCCTTTTAGAATCTAGTGGGTATACAATAAAGAAATATGTACTATGTTGGAGTATGAAATAT
66 TTGTCCTCTTAGAATCTAGTGGGTATAAAATAAAGAAATATGTACTATGTTGGAGTATGAAATAT
950071 C
131 C
950072 TGAAGAA
1 TGAAGAA
950079 TTTTCAATCT
Statistics
Matches: 134, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
131 134 1.00
ACGTcount: A:0.34, C:0.13, G:0.26, T:0.27
Consensus pattern (131 bp):
TGAAGAAGGCCAAGTTTTGCAAAGGGGAGCTAGGACTAGGAGGGCCCCAAAGGATCTAACTGATT
TTGTCCTCTTAGAATCTAGTGGGTATAAAATAAAGAAATATGTACTATGTTGGAGTATGAAATAT
C
Found at i:961849 original size:17 final size:17
Alignment explanation
Indices: 961827--961861 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
961817 ACAAGATTTA
961827 AAACTGATAAAATAAGG
1 AAACTGATAAAATAAGG
961844 AAACTGATAAAATAAGG
1 AAACTGATAAAATAAGG
961861 A
1 A
961862 CACTTGACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.60, C:0.06, G:0.17, T:0.17
Consensus pattern (17 bp):
AAACTGATAAAATAAGG
Found at i:966948 original size:17 final size:17
Alignment explanation
Indices: 966928--966972 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
966918 TTTTTTGAAT
966928 TTCTTCTTTTTATTTTC
1 TTCTTCTTTTTATTTTC
* *
966945 TTCTT-TTTTGAATTTTT
1 TTCTTCTTTT-TATTTTC
966962 TTCTTCTTTTT
1 TTCTTCTTTTT
966973 TGTCTTTTCT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
16 4 0.17
17 15 0.65
18 4 0.17
ACGTcount: A:0.07, C:0.13, G:0.02, T:0.78
Consensus pattern (17 bp):
TTCTTCTTTTTATTTTC
Found at i:966980 original size:17 final size:18
Alignment explanation
Indices: 966940--966990 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 18
966930 CTTCTTTTTA
*
966940 TTTTCTTCTTTTTTGAATTT
1 TTTTCTTCTTTTTTG-A-TC
966960 TTTTCTTCTTTTTTG-TC
1 TTTTCTTCTTTTTTGATC
966977 TTTTCTTTCTTTTT
1 TTTTC-TTCTTTTT
966991 GTACTCCAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
17 6 0.21
18 8 0.28
20 15 0.52
ACGTcount: A:0.04, C:0.14, G:0.04, T:0.78
Consensus pattern (18 bp):
TTTTCTTCTTTTTTGATC
Found at i:968570 original size:20 final size:18
Alignment explanation
Indices: 968534--968575 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 18
968524 TCAAAATAAC
968534 TATAGATAATATATATAT
1 TATAGATAATATATATAT
968552 ATATATGATAATA-ATTATAT
1 -TATA-GATAATATA-TATAT
968572 TATA
1 TATA
968576 ACATATGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (18 bp):
TATAGATAATATATATAT
Done.