Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D08
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: 65987480
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 223646 characters in sequence are not A, C, G, or T
File 63 of 211
Found at i:19295804 original size:20 final size:20
Alignment explanation
Indices: 19295779--19295827 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
19295769 AAGTTTATGT
19295779 TAAGTAAATGGAATCA-AAAG
1 TAAGTAAATGGAAT-AGAAAG
19295799 TAAGTAAATGGAATAGAAAG
1 TAAGTAAATGGAATAGAAAG
19295819 TAAGTAAAT
1 TAAGTAAAT
19295828 AGAGTGGTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 1 0.04
20 27 0.96
ACGTcount: A:0.55, C:0.02, G:0.20, T:0.22
Consensus pattern (20 bp):
TAAGTAAATGGAATAGAAAG
Found at i:19300124 original size:12 final size:12
Alignment explanation
Indices: 19300098--19300136 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
19300088 CGCTGCTTCT
* *
19300098 TTACTTACTTTC
1 TTACTTGCTTAC
*
19300110 TTACTTGGTTAC
1 TTACTTGCTTAC
19300122 TTACTTGCTTAC
1 TTACTTGCTTAC
19300134 TTA
1 TTA
19300137 AATAACTCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.18, C:0.21, G:0.08, T:0.54
Consensus pattern (12 bp):
TTACTTGCTTAC
Found at i:19300448 original size:50 final size:50
Alignment explanation
Indices: 19300328--19300561 Score: 183
Period size: 50 Copynumber: 4.6 Consensus size: 50
19300318 CATGCCAAAA
*
19300328 CCATGTCCCAGACATGGTCTTACATGGGA--TGT--T-TTCGGTACTGCCAATG
1 CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATT-GG---TGCCAATG
* * * ** *
19300377 CCATATCTCAGATATGGTCTTACATGGGAGTTCTCATATTGGTGCCCATG
1 CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATTGGTGCCAATG
** * *
19300427 CCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTGCCAATG
1 CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATTGGTGCCAATG
* * **
19300477 CCATGTCCAAGACAAT-GTCTTACGTGGGACCTCTCATAACCTCAATAATGCCAATG
1 CCATGTCCCAGAC-ATGGTCTTACATGGGACCTCTCAT-A--T---TGGTGCCAATG
*
19300533 CCATGTCCCAGACATGGTCTTATATGGGA
1 CCATGTCCCAGACATGGTCTTACATGGGA
19300562 TCTCATTCCT
Statistics
Matches: 148, Mismatches: 24, Indels: 19
0.77 0.13 0.10
Matches are distributed among these distances:
49 26 0.18
50 79 0.53
51 4 0.03
53 4 0.03
54 2 0.01
55 2 0.01
56 31 0.21
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.28
Consensus pattern (50 bp):
CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATTGGTGCCAATG
Found at i:19307687 original size:12 final size:12
Alignment explanation
Indices: 19307661--19307699 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
19307651 CGCTGCTTCT
* *
19307661 TTACTTACTTTC
1 TTACTTGCTTAC
*
19307673 TTACTTGGTTAC
1 TTACTTGCTTAC
19307685 TTACTTGCTTAC
1 TTACTTGCTTAC
19307697 TTA
1 TTA
19307700 AAGAACTCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.18, C:0.21, G:0.08, T:0.54
Consensus pattern (12 bp):
TTACTTGCTTAC
Found at i:19315475 original size:24 final size:24
Alignment explanation
Indices: 19315445--19315493 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
19315435 AATACTAAAA
19315445 TTTGATGACATAATTGTGTTAGAT
1 TTTGATGACATAATTGTGTTAGAT
19315469 TTTGATGACATAATTGTGTTAGAT
1 TTTGATGACATAATTGTGTTAGAT
19315493 T
1 T
19315494 AATTACATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.29, C:0.04, G:0.20, T:0.47
Consensus pattern (24 bp):
TTTGATGACATAATTGTGTTAGAT
Found at i:19318407 original size:12 final size:12
Alignment explanation
Indices: 19318390--19318415 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
19318380 CTCTGTGGGA
19318390 TCTTTTTCTTCT
1 TCTTTTTCTTCT
19318402 TCTTTTTCTTCT
1 TCTTTTTCTTCT
19318414 TC
1 TC
19318416 GGGATCTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (12 bp):
TCTTTTTCTTCT
Found at i:19335031 original size:6 final size:6
Alignment explanation
Indices: 19335020--19335046 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
19335010 GAGTGATTAA
19335020 AAAAAT AAAAAT AAAAAT AAAAAT AAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAA
19335047 GTAGGGACAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:19343400 original size:23 final size:23
Alignment explanation
Indices: 19343371--19343427 Score: 107
Period size: 23 Copynumber: 2.5 Consensus size: 23
19343361 CTATTCTCAT
19343371 TTCTTCATATTTTTATAGTTTCC
1 TTCTTCATATTTTTATAGTTTCC
19343394 TTCTTCATATTTTTATAGTTTCC
1 TTCTTCATATTTTTATAGTTTCC
19343417 TTCTTC-TATTT
1 TTCTTCATATTT
19343428 CAGATTCATA
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 5 0.15
23 29 0.85
ACGTcount: A:0.16, C:0.18, G:0.04, T:0.63
Consensus pattern (23 bp):
TTCTTCATATTTTTATAGTTTCC
Found at i:19345887 original size:28 final size:28
Alignment explanation
Indices: 19345847--19345904 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
19345837 AGTTTTAAAT
*
19345847 GATAGAAAGACTACTGAATCAATACCGA
1 GATAGAAAGACTACTGAATCAACACCGA
19345875 GATAGAAAGACTACTGAATCAACACCGA
1 GATAGAAAGACTACTGAATCAACACCGA
19345903 GA
1 GA
19345905 AAATGTGCCT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.47, C:0.19, G:0.19, T:0.16
Consensus pattern (28 bp):
GATAGAAAGACTACTGAATCAACACCGA
Found at i:19347851 original size:23 final size:23
Alignment explanation
Indices: 19347825--19347943 Score: 161
Period size: 23 Copynumber: 5.2 Consensus size: 23
19347815 ATAAGTGCCA
*
19347825 CACTGAAATGTAGCTGAAGCTAC
1 CACTGAAATGTAGCCGAAGCTAC
*
19347848 CACTGATATGTAGCCGTAA-CTAC
1 CACTGAAATGTAGCCG-AAGCTAC
*
19347871 CACTAAAATGTAGCC-ATAGCTAC
1 CACTGAAATGTAGCCGA-AGCTAC
*
19347894 CACTAAAATGTAGCCGAAGCTAC
1 CACTGAAATGTAGCCGAAGCTAC
*
19347917 CGCTGAAATGTAGCCGAAGCTAC
1 CACTGAAATGTAGCCGAAGCTAC
19347940 CACT
1 CACT
19347944 AATCAATAAC
Statistics
Matches: 85, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
21 1 0.01
22 1 0.01
23 80 0.94
24 3 0.04
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.21
Consensus pattern (23 bp):
CACTGAAATGTAGCCGAAGCTAC
Found at i:19363241 original size:47 final size:48
Alignment explanation
Indices: 19363130--19364185 Score: 1584
Period size: 47 Copynumber: 21.9 Consensus size: 48
19363120 ATATGAAATG
19363130 ATAG-TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
* *
19363177 ATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 AT-AGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
19363226 -TAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
*
19363273 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 AT-AGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
* *
19363322 ATATGTGATAAGGCCTAATGGCTGATGTGATGAATGTGAAAGTGTATATAC
1 ATA---GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
*
19363373 GT-GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
* *
19363420 -GAGATAAGGCCTAATGGCCGATGTGATGAAAGTGAAAGTGTATATAT
1 ATAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
*
19363467 ATGTGAT-AGGACCTAATGGCCGATGTGATGAATGTGAAA--GTATATAT
1 AT-AGATAAGG-CCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
19363514 ATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 AT-AGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
*
19363563 -GAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
* *
19363610 ATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 AT-AGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
*
19363659 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 AT-AGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
19363708 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATA---GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
*
19363759 GT-GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
*
19363806 -GAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
*
19363853 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAC
1 ATA---GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
*
19363904 GT-GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
*
19363951 -GAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
19363998 AT-GTATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATAG-ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
*
19364046 -GAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
* *
19364093 ATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 AT-AGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
* * * * * * * *
19364142 GT-GACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA
1 ATAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
19364186 AATGTGATAA
Statistics
Matches: 937, Mismatches: 42, Indels: 60
0.90 0.04 0.06
Matches are distributed among these distances:
47 481 0.51
48 55 0.06
49 266 0.28
51 135 0.14
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (48 bp):
ATAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
Found at i:19363298 original size:96 final size:94
Alignment explanation
Indices: 19363134--19364185 Score: 1624
Period size: 96 Copynumber: 10.9 Consensus size: 94
19363124 GAAATGATAG
*
19363134 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
19363199 ATGTGATGAATGTGAAAGTGTATATATTAGA
64 ATGTGATGAATGTGAAAGTGTATATATTAGA
19363230 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
19363295 ATGTGATGAATGTGAAAGTGTATATATATATGTGA
64 ATGTGATGAATGTGAAAGTGTATATAT-TA---GA
* *
19363330 TAAGGCCTAATGGCTGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
*
19363395 GTGATGAATGTGAAAGTGTATATATGAGA
66 GTGATGAATGTGAAAGTGTATATATTAGA
*
19363424 TAAGGCCTAATGGCCGATGTGATGAAAGTGAAAGTGTATATATATGTGAT-AGGACCTAATGGCC
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGG-CCTAATGGCC
* *
19363488 GATGTGATGAATGTGAAAGTATATATATGAGA
63 GATGTGATGAATGTGAAAGTGTATATATTAGA
*
19363520 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGAGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
*
19363585 GTGATGAATGTGAAAGTGTATATATATGTGA
66 GTGATGAATGTGAAAGTGTATATAT-T-AGA
*
19363616 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
19363681 ATGTGATGAATGTGAAAGTGTATATATATATGTGA
64 ATGTGATGAATGTGAAAGTGTATATAT-TA---GA
19363716 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
*
19363781 GTGATGAATGTGAAAGTGTATATATGAGA
66 GTGATGAATGTGAAAGTGTATATATTAGA
19363810 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGATAAGGCCTAATGGC
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG----TATATATGTGATAAGGCCTAATGGC
*
19363875 CGATGTGATGAATGTGAAAGTGTATATACGT-GA
62 CGATGTGATGAATGTGAAAGTGTATATA-TTAGA
*
19363908 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGAGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
19363973 GTGATGAATGTGAAAGTGTATATA-TATGTA
66 GTGATGAATGTGAAAGTGTATATATTA-G-A
*
19364003 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGAGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
*
19364068 GTGATGAATGTGAAAGTGTATATATATGTGA
66 GTGATGAATGTGAAAGTGTATATAT-T-AGA
* * * * * * *
19364099 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAAC
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
*
19364164 GTGATGGATGTGAAAGTGTATA
66 GTGATGAATGTGAAAGTGTATA
19364186 AATGTGATAA
Statistics
Matches: 899, Mismatches: 31, Indels: 52
0.92 0.03 0.05
Matches are distributed among these distances:
92 1 0.00
94 175 0.19
95 96 0.11
96 294 0.33
97 6 0.01
98 253 0.28
100 74 0.08
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (94 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
GTGATGAATGTGAAAGTGTATATATTAGA
Found at i:19363426 original size:145 final size:143
Alignment explanation
Indices: 19363134--19364196 Score: 1687
Period size: 145 Copynumber: 7.4 Consensus size: 143
19363124 GAAATGATAG
*
19363134 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
19363199 ATGTGATGAATGTGAAAGTGTATATAT-TAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
66 ATGTGATGAATGTGAAAGTGTATATATGT-GATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
19363263 GTGTATATATATGTGA
130 GTG--TATATATGTGA
19363279 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGATAAGGCCTAATGGC
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATATGTGATAAGGCCTAATGGC
* *
19363344 TGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
64 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
19363409 AGTGTATATATGAGA
129 AGTGTATATATGTGA
*
19363424 TAAGGCCTAATGGCCGATGTGATGAAAGTGAAAGTGTATATATATGTGAT-AGGACCTAATGGCC
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGG-CCTAATGGCC
* *
19363488 GATGTGATGAATGTGAAAGTATATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
65 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
*
19363553 GTGTATATATGAGA
130 GTGTATATATGTGA
*
19363567 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
19363632 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
66 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
19363697 AGTGTATATATATATGTGA
129 AGTG----TATATATGTGA
19363716 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
*
19363779 ATGTGATGAATGTGAAAGTGTATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
66 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
19363844 TGTATATATATATGTGA
131 TG----TATATATGTGA
*
19363861 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATACGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
*
19363924 ATGTGATGAATGTGAAAGTGTATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
66 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
*
19363989 TGTATATATATGTA
131 TGTATATATGTG-A
*
19364003 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGAGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
*
19364066 ATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAA
66 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
19364131 AGTGTATATATGTGA
129 AGTGTATATATGTGA
* * * * * * *
19364146 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGATAAG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
19364197 TCCCGAAGGG
Statistics
Matches: 871, Mismatches: 31, Indels: 34
0.93 0.03 0.04
Matches are distributed among these distances:
141 9 0.01
142 85 0.10
143 217 0.25
144 57 0.07
145 319 0.37
147 137 0.16
148 1 0.00
149 46 0.05
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (143 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
TGTATATATGTGA
Found at i:19364384 original size:37 final size:37
Alignment explanation
Indices: 19364315--19364393 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
19364305 CCGAGCTCTA
* * * *
19364315 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTCTGGAGATTATGTCCGGGT
*
19364352 AAGACCCGATAACTTCGTCTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTCTGGAGATTATGTCCGGGT
19364389 AAGAC
1 AAGAC
19364394 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.24, C:0.20, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTCTGGAGATTATGTCCGGGT
Found at i:19365847 original size:22 final size:22
Alignment explanation
Indices: 19365819--19365865 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
19365809 ACAAATCCTA
19365819 TCTCAATTTCCTTCCAAAATCC
1 TCTCAATTTCCTTCCAAAATCC
*
19365841 TCTCAATTTCCTTCCAAAATTC
1 TCTCAATTTCCTTCCAAAATCC
19365863 TCT
1 TCT
19365866 TAAACTCTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.26, C:0.34, G:0.00, T:0.40
Consensus pattern (22 bp):
TCTCAATTTCCTTCCAAAATCC
Found at i:19365897 original size:52 final size:52
Alignment explanation
Indices: 19365819--19365917 Score: 180
Period size: 52 Copynumber: 1.9 Consensus size: 52
19365809 ACAAATCCTA
* *
19365819 TCTCAATTTCCTTCCAAAATCCTCTCAATTTCCTTCCAAAATTCTCTTAAAC
1 TCTCAATTTCCTTCCAAAATCCTCTCAATTTCATTCCAAAAATCTCTTAAAC
19365871 TCTCAATTTCCTTCCAAAATCCTCTCAATTTCATTCCAAAAATCTCT
1 TCTCAATTTCCTTCCAAAATCCTCTCAATTTCATTCCAAAAATCTCT
19365918 CAAATCCATA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 45 1.00
ACGTcount: A:0.29, C:0.32, G:0.00, T:0.38
Consensus pattern (52 bp):
TCTCAATTTCCTTCCAAAATCCTCTCAATTTCATTCCAAAAATCTCTTAAAC
Found at i:19365898 original size:22 final size:22
Alignment explanation
Indices: 19365870--19365920 Score: 77
Period size: 22 Copynumber: 2.3 Consensus size: 22
19365860 TTCTCTTAAA
*
19365870 CTCTCAATTTCCTTCC-AAAAT
1 CTCTCAATTTCATTCCAAAAAT
19365891 CCTCTCAATTTCATTCCAAAAAT
1 -CTCTCAATTTCATTCCAAAAAT
19365914 CTCTCAA
1 CTCTCAA
19365921 ATCCATATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 22 0.81
23 5 0.19
ACGTcount: A:0.31, C:0.33, G:0.00, T:0.35
Consensus pattern (22 bp):
CTCTCAATTTCATTCCAAAAAT
Found at i:19365988 original size:30 final size:30
Alignment explanation
Indices: 19365954--19366018 Score: 112
Period size: 30 Copynumber: 2.2 Consensus size: 30
19365944 CCTCAATTTC
* *
19365954 ATTTTTTTGAAATAATTTCAATTTTTTTAT
1 ATTTTTTTAAAATAATTTAAATTTTTTTAT
19365984 ATTTTTTTAAAATAATTTAAATTTTTTTAT
1 ATTTTTTTAAAATAATTTAAATTTTTTTAT
19366014 ATTTT
1 ATTTT
19366019 CATCAATGGC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.65
Consensus pattern (30 bp):
ATTTTTTTAAAATAATTTAAATTTTTTTAT
Found at i:19368722 original size:18 final size:20
Alignment explanation
Indices: 19368676--19368718 Score: 59
Period size: 23 Copynumber: 2.0 Consensus size: 20
19368666 CCTGACCCTA
19368676 ACCTAATTTAATTAAAAACCC
1 ACCTAATTTAATTAAAAA-CC
19368697 TAACCTAATTTAATTAAAAACC
1 --ACCTAATTTAATTAAAAACC
19368719 CTAACCCTAC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 2 0.10
23 18 0.90
ACGTcount: A:0.49, C:0.21, G:0.00, T:0.30
Consensus pattern (20 bp):
ACCTAATTTAATTAAAAACC
Found at i:19369440 original size:18 final size:18
Alignment explanation
Indices: 19369419--19369475 Score: 60
Period size: 23 Copynumber: 2.9 Consensus size: 18
19369409 CAACCTAATT
19369419 TAATTAAAAACCCTAACC
1 TAATTAAAAACCCTAACC
19369437 TAATTTATTTAAAAACCCTAACC
1 T-A---A-TTAAAAACCCTAACC
*
19369460 TAATTTAAAACCCTAA
1 TAATTAAAAACCCTAA
19369476 ACCCTAACCT
Statistics
Matches: 33, Mismatches: 1, Indels: 10
0.75 0.02 0.23
Matches are distributed among these distances:
18 13 0.39
19 2 0.06
22 2 0.06
23 16 0.48
ACGTcount: A:0.47, C:0.23, G:0.00, T:0.30
Consensus pattern (18 bp):
TAATTAAAAACCCTAACC
Found at i:19369565 original size:29 final size:29
Alignment explanation
Indices: 19368346--19369540 Score: 1712
Period size: 29 Copynumber: 42.2 Consensus size: 29
19368336 TTTATTTCAT
*
19368346 ACCCTAACCCTAACCTAATTTAATTAACA
1 ACCCTAACCCTAACCTAATTTAATTAAAA
*
19368375 ACCCTAACCCTAACCTAATTTAATTAACA
1 ACCCTAACCCTAACCTAATTTAATTAAAA
*
19368404 ACCCTAACCTTAACCTAATTTAATTAAAA
1 ACCCTAACCCTAACCTAATTTAATTAAAA
19368433 ACCCTAACCCTAACCTAATTTAATT-AAA
1 ACCCTAACCCTAACCTAATTTAATTAAAA
*
19368461 ACCCTAACCTTAACCTAATTTAATTAAAA
1 ACCCTAACCCTAACCTAATTTAATTAAAA
* *
19368490 ACCCTAACCTTAACCTAATTTATTTAAAA
1 ACCCTAACCCTAACCTAATTTAATTAAAA
19368519 ACCCTAACCCTAACCTAATTTAATTAAAA
1 ACCCTAACCCTAACCTAATTTAATTAAAA
*
19368548 ACCCTAACCCTACCCTAATTTAATTAAAA
1 ACCCTAACCCTAACCTAATTTAATTAAAA
* *
19368577 ACCCTAACCTTAACCTAATTTATTTAAAA
1 ACCCTAACCCTAACCTAATTTAATTAAAA
*
19368606 ACCCTAACCCTAACCTAATTTATTTAAAA
1 ACCCTAACCCTAACCTAATTTAATTAAAA
* *
19368635 ACACTAACCCTAACCTAATTTATTTAAAA
1 ACCCTAACCCTAACCTAATTTAATTAAAA
*
19368664 ACCCTGACCCTAACCTAATTTAATT--AA
1 ACCCTAACCCTAACCTAATTTAATTAAAA
19368691 A----AACCCTAACCTAATTTAATTAAAA
1 ACCCTAACCCTAACCTAATTTAATTAAAA
*
19368716 ACCCTAACCCTACCCTAATTTAATTAAAA
1 ACCCTAACCCTAACCTAATTTAATTAAAA
**
19368745 ACCCTAACATTAACCTAATTTAATTAAAA
1 ACCCTAACCCTAACCTAATTTAATTAAAA
*
19368774 ACCCTAACCCTACCCTAATTTAATTAAAA
1 ACCCTAACCCTAACCTAATTTAATTAAAA
*
19368803 ACCCTAACCTTAACCTAATTTAATTAAAA
1 ACCCTAACCCTAACCTAATTTAATTAAAA
*
19368832 ACCCTAACCTTAACCTAATTTAATTAAAA
1 ACCCTAACCCTAACCTAATTTAATTAAAA
19368861 ACCCTAACCCTAACCTAATTTAATTAAAA
1 ACCCTAACCCTAACCTAATTTAATTAAAA
19368890 ACCCTAACCCTAACCTAATTTAATTAAAA
1 ACCCTAACCCTAACCTAATTTAATTAAAA
* *
19368919 CCCCTAACCTTAACCTAATTTAATTAAAA
1 ACCCTAACCCTAACCTAATTTAATTAAAA
*
19368948 ACCTTAACCCTAACCTAATTTAATT-AAA
1 ACCCTAACCCTAACCTAATTTAATTAAAA
*
19368976 ACCCTAACCTTAACCTAATTTAATTAAAA
1 ACCCTAACCCTAACCTAATTTAATTAAAA
*
19369005 ACCCTAATCCTAACCTAATTTAATTAAAA
1 ACCCTAACCCTAACCTAATTTAATTAAAA
* *
19369034 ACCCTAACCGTACCCTAATTTAATTAAAA
1 ACCCTAACCCTAACCTAATTTAATTAAAA
** *
19369063 ACCCTAACATTAACCTAATTTATTTAAAA
1 ACCCTAACCCTAACCTAATTTAATTAAAA
* *
19369092 ACCTTAACCCTAACCTAATTTATTTAAAA
1 ACCCTAACCCTAACCTAATTTAATTAAAA
19369121 ACCCTAACCCTAACCTAATTTAATTAAAA
1 ACCCTAACCCTAACCTAATTTAATTAAAA
*
19369150 ACCCTAACCCTACCCTAATTTAATTAAAA
1 ACCCTAACCCTAACCTAATTTAATTAAAA
* *
19369179 ACCTTAACCTTAACCTAATTTAATTAAAA
1 ACCCTAACCCTAACCTAATTTAATTAAAA
* *
19369208 ACTCTAACCCTACCCTAATTTAATTAAAA
1 ACCCTAACCCTAACCTAATTTAATTAAAA
* *
19369237 ACCCTAACCTTAACCTAGTTTAATTAAAA
1 ACCCTAACCCTAACCTAATTTAATTAAAA
*
19369266 ACCCTAACCTTAACCTAATTTAATTAAAA
1 ACCCTAACCCTAACCTAATTTAATTAAAA
* * *
19369295 TCCTTAACCCTACCCTAATTTAATTAAAA
1 ACCCTAACCCTAACCTAATTTAATTAAAA
*
19369324 ACCCTAACCTTAACCTAATTTAATTAAAA
1 ACCCTAACCCTAACCTAATTTAATTAAAA
19369353 ACCCTAACCCTAACCTAATTTAATTAAAA
1 ACCCTAACCCTAACCTAATTTAATTAAAA
19369382 ACCCTAA---T---CTAATTTAATTAAAA
1 ACCCTAACCCTAACCTAATTTAATTAAAA
19369405 A-CC----CC-AACCTAATTTAATTAAAA
1 ACCCTAACCCTAACCTAATTTAATTAAAA
*
19369428 A-CC-----CTAACCTAATTTATTTAAAA
1 ACCCTAACCCTAACCTAATTTAATTAAAA
** ****
19369451 ACCCTAA-CCTAATTTAA---AACCCTAA
1 ACCCTAACCCTAACCTAATTTAATTAAAA
*
19369476 ACCCTAACCTTAACCTAATTTAATTAAAA
1 ACCCTAACCCTAACCTAATTTAATTAAAA
*
19369505 ACCCTAACCCTACCCTAATTTAATTAAAA
1 ACCCTAACCCTAACCTAATTTAATTAAAA
19369534 ACCCTAA
1 ACCCTAA
19369541 AATAATTTAT
Statistics
Matches: 1056, Mismatches: 87, Indels: 46
0.89 0.07 0.04
Matches are distributed among these distances:
22 3 0.00
23 71 0.07
24 2 0.00
25 13 0.01
26 8 0.01
27 3 0.00
28 60 0.06
29 896 0.85
ACGTcount: A:0.43, C:0.26, G:0.00, T:0.30
Consensus pattern (29 bp):
ACCCTAACCCTAACCTAATTTAATTAAAA
Found at i:19369648 original size:56 final size:56
Alignment explanation
Indices: 19369588--19369712 Score: 180
Period size: 56 Copynumber: 2.2 Consensus size: 56
19369578 AAACCATAAC
* * * ** *
19369588 ATAATTTTTCCTAATTTGAT-AATCTTACTAACCATTAACACACTTTTTTGGGCTTA
1 ATAATTTTACATAATTTGATAAAT-TTACTAACCATTAACAAAAGTTATTGGGCTTA
19369644 ATAATTTTACATAATTTGATAAATTTACTAACCATTAACAAAAGTTATTGGGCTTA
1 ATAATTTTACATAATTTGATAAATTTACTAACCATTAACAAAAGTTATTGGGCTTA
19369700 ATAATTTTACATA
1 ATAATTTTACATA
19369713 GTTTTACATA
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
56 59 0.95
57 3 0.05
ACGTcount: A:0.37, C:0.14, G:0.07, T:0.42
Consensus pattern (56 bp):
ATAATTTTACATAATTTGATAAATTTACTAACCATTAACAAAAGTTATTGGGCTTA
Found at i:19376389 original size:27 final size:27
Alignment explanation
Indices: 19376359--19376536 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
19376349 ATATTGAGTC
* * * *
19376359 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
19376386 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
19376413 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
19376441 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
19376468 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
19376495 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
19376522 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
19376537 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:19376498 original size:82 final size:81
Alignment explanation
Indices: 19376380--19376535 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
19376370 TGCTATATAA
* *
19376380 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
19376445 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
19376462 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
19376526 CACTTAGTGC
65 CACTTAGTGC
19376536 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:19378552 original size:3 final size:3
Alignment explanation
Indices: 19378544--19378595 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
19378534 GTTTTATTGG
19378544 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
19378592 TCA T
1 TCA T
19378596 TATTATTATT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.35
Consensus pattern (3 bp):
TCA
Found at i:19378600 original size:3 final size:3
Alignment explanation
Indices: 19378594--19378618 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
19378584 CATCATCATC
19378594 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
19378619 GTCTTTTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:19379057 original size:7 final size:8
Alignment explanation
Indices: 19379029--19379055 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
19379019 AGTTATTCAC
19379029 TTTTATTT
1 TTTTATTT
19379037 TTTTATTT
1 TTTTATTT
19379045 TTTTATTT
1 TTTTATTT
19379053 TTT
1 TTT
19379056 ATATAAATCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (8 bp):
TTTTATTT
Found at i:19383720 original size:6 final size:6
Alignment explanation
Indices: 19383709--19383736 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
19383699 TTCAATCGAA
19383709 AAAATC AAAATC AAAATC AAAATC AAAA
1 AAAATC AAAATC AAAATC AAAATC AAAA
19383737 AAGAAGAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.71, C:0.14, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAATC
Found at i:19383738 original size:27 final size:25
Alignment explanation
Indices: 19383715--19383793 Score: 70
Period size: 28 Copynumber: 3.0 Consensus size: 25
19383705 CGAAAAAATC
19383715 AAAATCAAAATCAAAATCAAAAAAGAA
1 AAAATCAAAATCAAAATC-AAAAA-AA
** *
19383742 GAAAAAGAAAAGTCAAAAGCAAAAGAAA
1 -AAAATCAAAA-TCAAAATCAAAA-AAA
19383770 AAAATCAAAAATCAAAAT-AAAAAA
1 AAAATC-AAAATCAAAATCAAAAAA
19383794 TGAAAATAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 9
0.74 0.11 0.16
Matches are distributed among these distances:
25 2 0.05
26 4 0.10
27 10 0.24
28 18 0.43
29 8 0.19
ACGTcount: A:0.75, C:0.09, G:0.08, T:0.09
Consensus pattern (25 bp):
AAAATCAAAATCAAAATCAAAAAAA
Found at i:19383773 original size:21 final size:21
Alignment explanation
Indices: 19383727--19383793 Score: 59
Period size: 21 Copynumber: 3.1 Consensus size: 21
19383717 AATCAAAATC
19383727 AAAATCAAAAAAG-AAGAA-AAA
1 AAAATC-AAAAAGCAA-AAGAAA
19383748 GAAAAGTC-AAAAGCAAAAGAAA
1 -AAAA-TCAAAAAGCAAAAGAAA
* *
19383770 AAAATCAAAAATCAAAATAAA
1 AAAATCAAAAAGCAAAAGAAA
19383791 AAA
1 AAA
19383794 TGAAAATAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
20 2 0.05
21 26 0.67
22 9 0.23
23 2 0.05
ACGTcount: A:0.76, C:0.07, G:0.09, T:0.07
Consensus pattern (21 bp):
AAAATCAAAAAGCAAAAGAAA
Found at i:19383801 original size:13 final size:13
Alignment explanation
Indices: 19383707--19383803 Score: 56
Period size: 13 Copynumber: 7.2 Consensus size: 13
19383697 GATTCAATCG
19383707 AAAAAATCAAAAT
1 AAAAAATCAAAAT
*
19383720 -CAAAATCAAAAT
1 AAAAAATCAAAAT
* *
19383732 CAAAAAA-GAAGAAA
1 -AAAAAATCAA-AAT
*
19383746 AAGAAAAGTCAAAAGC
1 AA-AAAA-TCAAAA-T
*
19383762 AAAAGAA-AAAAAT
1 AAAA-AATCAAAAT
*
19383775 CAAAAATCAAAAT
1 AAAAAATCAAAAT
*
19383788 AAAAAATGAAAAT
1 AAAAAATCAAAAT
19383801 AAA
1 AAA
19383804 GAAAAAAGAA
Statistics
Matches: 63, Mismatches: 12, Indels: 18
0.68 0.13 0.19
Matches are distributed among these distances:
12 13 0.21
13 26 0.41
14 14 0.22
15 4 0.06
16 6 0.10
ACGTcount: A:0.74, C:0.08, G:0.07, T:0.10
Consensus pattern (13 bp):
AAAAAATCAAAAT
Found at i:19386034 original size:45 final size:45
Alignment explanation
Indices: 19385975--19386126 Score: 116
Period size: 45 Copynumber: 3.4 Consensus size: 45
19385965 AGACACTAGC
*
19385975 CTTGCCTTCTTGTACTGACAGCGGAGCAGACTGAAGATAGTAGAT
1 CTTGCCTTCCTGTACTGACAGCGGAGCAGACTGAAGATAGTAGAT
* * * * ** *
19386020 CTTGCCTTCCTGTACTTACGGCGAAGCAGA-TCGAAGACACAAG-C
1 CTTGCCTTCCTGTACTGACAGCGGAGCAGACT-GAAGATAGTAGAT
* * * * * *
19386064 CATGCCTCCCTCGGT--TG-TAGTGGAGTAGGCTGAAGATAGTAGAT
1 CTTGCCTTCCT--GTACTGACAGCGGAGCAGACTGAAGATAGTAGAT
19386108 CTTGCCTTCCTGTACTGAC
1 CTTGCCTTCCTGTACTGAC
19386127 GGTGAAGCAG
Statistics
Matches: 75, Mismatches: 24, Indels: 16
0.65 0.21 0.14
Matches are distributed among these distances:
42 2 0.03
43 14 0.19
44 23 0.31
45 34 0.45
46 2 0.03
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (45 bp):
CTTGCCTTCCTGTACTGACAGCGGAGCAGACTGAAGATAGTAGAT
Found at i:19386070 original size:89 final size:88
Alignment explanation
Indices: 19385917--19386355 Score: 373
Period size: 88 Copynumber: 5.0 Consensus size: 88
19385907 AACAAATCAA
* * ** * * * *
19385917 TGAAGATAGCAGAACTTGTTTTCCTGTACTAACAGTGAAACAGATCGAAGACACTAGCCTTGCCT
1 TGAAGATAGTAGATCTTGCCTTCCTGTACTAACGGTGAAGCAGATCGAAGACACAAGCCATGCCT
* *
19385982 -TCT-TGTACTGACAGCGGAGCAGAC
66 CCCTCGGT--TG-CAGCGGAGCAGAC
* *
19386006 TGAAGATAGTAGATCTTGCCTTCCTGTACTTACGGCGAAGCAGATCGAAGACACAAGCCATGCCT
1 TGAAGATAGTAGATCTTGCCTTCCTGTACTAACGGTGAAGCAGATCGAAGACACAAGCCATGCCT
* * * *
19386071 CCCTCGGTTGTAGTGGAGTAGGC
66 CCCTCGGTTGCAGCGGAGCAGAC
* * * * * *
19386094 TGAAGATAGTAGATCTTGCCTTCCTGTACTGACGGTGAAGCAGATCGAAGACATAAGTCTTGTCA
1 TGAAGATAGTAGATCTTGCCTTCCTGTACTAACGGTGAAGCAGATCGAAGACACAAGCCATGCCT
* * ** **
19386159 CCCTCAGTTGTAATGGAGCAGGT
66 CCCTCGGTTGCAGCGGAGCAGAC
* * * * * * *
19386182 TGAAGATAGCAGGTCTTGCCTTCCTGCA-TCGACAGTGAAGCAGATCGAAGACACAAGCCTTTCC
1 TGAAGATAGTAGATCTTGCCTTCCTGTACT-AACGGTGAAGCAGATCGAAGACACAAGCCATGCC
* * **
19386246 TCCCTCGGTTGTAGTGGAGCAGGT
65 TCCCTCGGTTGCAGCGGAGCAGAC
* * * * * * *
19386270 TCAAGATAGCAGATCTTGCCTTCCTGGA-TCGACGGCGAAGCAGATCAAAGACACAAGCCTTGCC
1 TGAAGATAGTAGATCTTGCCTTCCTGTACT-AACGGTGAAGCAGATCGAAGACACAAGCCATGCC
* *
19386334 TCCCTCGGTTGTAGTGGAGCAG
65 TCCCTCGGTTGCAGCGGAGCAG
19386356 GTCTTGCCTT
Statistics
Matches: 302, Mismatches: 45, Indels: 7
0.85 0.13 0.02
Matches are distributed among these distances:
87 1 0.00
88 240 0.79
89 57 0.19
90 2 0.01
91 2 0.01
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.24
Consensus pattern (88 bp):
TGAAGATAGTAGATCTTGCCTTCCTGTACTAACGGTGAAGCAGATCGAAGACACAAGCCATGCCT
CCCTCGGTTGCAGCGGAGCAGAC
Found at i:19386155 original size:44 final size:44
Alignment explanation
Indices: 19385937--19386155 Score: 135
Period size: 44 Copynumber: 5.0 Consensus size: 44
19385927 AGAACTTGTT
* * * *
19385937 TTCCTGTACTAACAGTGAAACAGATCGAAGACACTAGCCTTGCC
1 TTCCTGTACTGACAGTGAAGCAGATCGAAGACAGTAGTCTTGCC
* * * *
19385981 TTCTTGTACTGACAGCGGAGCAGA-CTGAAGATAGTAGATCTTGCC
1 TTCCTGTACTGACAGTGAAGCAGATC-GAAGACAGTAG-TCTTGCC
* * * ** * *
19386026 TTCCTGTACTTACGGCGAAGCAGATCGAAGACACAAGCCATGCC
1 TTCCTGTACTGACAGTGAAGCAGATCGAAGACAGTAGTCTTGCC
* * * * * *
19386070 TCCCTCGGT--TG-TAGTGGAGTAG-GCTGAAGATAGTAGATCTTGCC
1 TTCCT--GTACTGACAGTGAAGCAGATC-GAAGACAGTAG-TCTTGCC
*
19386114 TTCCTGTACTGACGGTGAAGCAGATCGAAGACA-TAAGTCTTG
1 TTCCTGTACTGACAGTGAAGCAGATCGAAGACAGT-AGTCTTG
19386156 TCACCCTCAG
Statistics
Matches: 126, Mismatches: 37, Indels: 24
0.67 0.20 0.13
Matches are distributed among these distances:
42 3 0.02
43 15 0.12
44 55 0.44
45 49 0.39
46 4 0.03
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.25
Consensus pattern (44 bp):
TTCCTGTACTGACAGTGAAGCAGATCGAAGACAGTAGTCTTGCC
Found at i:19386357 original size:88 final size:88
Alignment explanation
Indices: 19385997--19386357 Score: 483
Period size: 88 Copynumber: 4.1 Consensus size: 88
19385987 TACTGACAGC
** * *
19385997 GGAGCAGACTGAAGATAGTAGATCTTGCCTTCCTGTA-CTTACGGCGAAGCAGATCGAAGACACA
1 GGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTATC-GACGGCGAAGCAGATCGAAGACACA
*
19386061 AGCCATGCCTCCCTCGGTTGTAGT
65 AGCCTTGCCTCCCTCGGTTGTAGT
* * * * *
19386085 GGAGTAGGCTGAAGATAGTAGATCTTGCCTTCCTGTA-CTGACGGTGAAGCAGATCGAAGACATA
1 GGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTATC-GACGGCGAAGCAGATCGAAGACACA
* * * * *
19386149 AGTCTTGTCACCCTCAGTTGTAAT
65 AGCCTTGCCTCCCTCGGTTGTAGT
* * * *
19386173 GGAGCAGGTTGAAGATAGCAGGTCTTGCCTTCCTGCATCGACAGTGAAGCAGATCGAAGACACAA
1 GGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTATCGACGGCGAAGCAGATCGAAGACACAA
*
19386238 GCCTTTCCTCCCTCGGTTGTAGT
66 GCCTTGCCTCCCTCGGTTGTAGT
* * *
19386261 GGAGCAGGTTCAAGATAGCAGATCTTGCCTTCCTGGATCGACGGCGAAGCAGATCAAAGACACAA
1 GGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTATCGACGGCGAAGCAGATCGAAGACACAA
19386326 GCCTTGCCTCCCTCGGTTGTAGT
66 GCCTTGCCTCCCTCGGTTGTAGT
19386349 GGAGCAGGT
1 GGAGCAGGT
19386358 CTTGCCTTCC
Statistics
Matches: 241, Mismatches: 31, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
88 240 1.00
89 1 0.00
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (88 bp):
GGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTATCGACGGCGAAGCAGATCGAAGACACAA
GCCTTGCCTCCCTCGGTTGTAGT
Found at i:19386366 original size:74 final size:74
Alignment explanation
Indices: 19386277--19386431 Score: 256
Period size: 74 Copynumber: 2.1 Consensus size: 74
19386267 GGTTCAAGAT
* * *
19386277 AGCAGATCTTGCCTTCCTGGATCGACGGCGAAGCAGATCAAAGACACAAGCCTTGCCTCCCTCGG
1 AGCAGGTCTTGCCTTCCTGCATCGACAGCGAAGCAGATCAAAGACACAAGCCTTGCCTCCCTCGG
19386342 TTGTAGTGG
66 TTGTAGTGG
* *
19386351 AGCAGGTCTTGCCTTCCTGCATGGACAGTGAAGCAGATCAAAGACACAAGCCTTGCCTCCCTCGG
1 AGCAGGTCTTGCCTTCCTGCATCGACAGCGAAGCAGATCAAAGACACAAGCCTTGCCTCCCTCGG
19386416 TTGTAGTGG
66 TTGTAGTGG
*
19386425 AGTAGGT
1 AGCAGGT
19386432 TGAAGATAGC
Statistics
Matches: 75, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
74 75 1.00
ACGTcount: A:0.23, C:0.26, G:0.28, T:0.23
Consensus pattern (74 bp):
AGCAGGTCTTGCCTTCCTGCATCGACAGCGAAGCAGATCAAAGACACAAGCCTTGCCTCCCTCGG
TTGTAGTGG
Found at i:19386443 original size:88 final size:88
Alignment explanation
Indices: 19386351--19386564 Score: 329
Period size: 88 Copynumber: 2.4 Consensus size: 88
19386341 GTTGTAGTGG
*
19386351 AGCAGGTCTTGCCTTCCTGCATGGACAGTGAAGCAGATCAAAGACACAAGCCTTGCCTCCCTCGG
1 AGCAGGTCTTGCCTTCCTGCATCGACAGTGAAGCAGATCAAAGACACAAGCCTTGCCTCCCTCGG
* *
19386416 TTGTAGTGGAGTAGGTTGAAGAT
66 TTGTAGCGGAGCAGGTTGAAGAT
* * * * *
19386439 AGCAGGTCTTGCCTTCCTGTATTGATAGTGAAGCAGATCGAAGACACAAGCCTTTCCTCCCTCGG
1 AGCAGGTCTTGCCTTCCTGCATCGACAGTGAAGCAGATCAAAGACACAAGCCTTGCCTCCCTCGG
19386504 TTGTAGCGGAGCAGGTTGAAGAT
66 TTGTAGCGGAGCAGGTTGAAGAT
* * *
19386527 AGCAGATCTTGCCTTCCTGCATCGACGGCGAAGCAGAT
1 AGCAGGTCTTGCCTTCCTGCATCGACAGTGAAGCAGAT
19386565 TGAAGCGAAT
Statistics
Matches: 113, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
88 113 1.00
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (88 bp):
AGCAGGTCTTGCCTTCCTGCATCGACAGTGAAGCAGATCAAAGACACAAGCCTTGCCTCCCTCGG
TTGTAGCGGAGCAGGTTGAAGAT
Found at i:19386450 original size:44 final size:44
Alignment explanation
Indices: 19386402--19386540 Score: 138
Period size: 44 Copynumber: 3.2 Consensus size: 44
19386392 AGACACAAGC
*
19386402 CTTGCCTCCCTCGGTTGTAGTGGAGTAGGTTGAAGATAGCAGGT
1 CTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGGT
* * * * * * * *
19386446 CTTGCCTTCCT-GTATTGATAGTGAAGCAGATCGAAGACA-CAAGC
1 CTTGCCTCCCTCG-GTTG-TAGTGGAGCAGGTTGAAGATAGCAGGT
* * *
19386490 CTTTCCTCCCTCGGTTGTAGCGGAGCAGGTTGAAGATAGCAGAT
1 CTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGGT
19386534 CTTGCCT
1 CTTGCCT
19386541 TCCTGCATCG
Statistics
Matches: 70, Mismatches: 21, Indels: 8
0.71 0.21 0.08
Matches are distributed among these distances:
43 17 0.24
44 36 0.51
45 17 0.24
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (44 bp):
CTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGGT
Found at i:19386456 original size:162 final size:162
Alignment explanation
Indices: 19386189--19386519 Score: 536
Period size: 162 Copynumber: 2.0 Consensus size: 162
19386179 GGTTGAAGAT
* *
19386189 AGCAGGTCTTGCCTTCCTGCATCGACAGTGAAGCAGATCGAAGACACAAGCCTTTCCTCCCTCGG
1 AGCAGGTCTTGCCTTCCTGCATCGACAGTGAAGCAGATCAAAGACACAAGCCTTGCCTCCCTCGG
*
19386254 TTGTAGTGGAGCAGGTTCAAGATAGCAGATCTTGCCTTCCTGGATCGACGGCGAAGCAGATCAAA
66 TTGTAGTGGAGCAGGTTCAAGATAGCAGATCTTGCCTTCCTGGATCGACAGCGAAGCAGATCAAA
*
19386319 GACACAAGCCTTGCCTCCCTCGGTTGTAGTGG
131 GACACAAGCCTTGCCTCCCTCGGTTGTAGCGG
*
19386351 AGCAGGTCTTGCCTTCCTGCATGGACAGTGAAGCAGATCAAAGACACAAGCCTTGCCTCCCTCGG
1 AGCAGGTCTTGCCTTCCTGCATCGACAGTGAAGCAGATCAAAGACACAAGCCTTGCCTCCCTCGG
* * * * * * * *
19386416 TTGTAGTGGAGTAGGTTGAAGATAGCAGGTCTTGCCTTCCTGTATTGATAGTGAAGCAGATCGAA
66 TTGTAGTGGAGCAGGTTCAAGATAGCAGATCTTGCCTTCCTGGATCGACAGCGAAGCAGATCAAA
*
19386481 GACACAAGCCTTTCCTCCCTCGGTTGTAGCGG
131 GACACAAGCCTTGCCTCCCTCGGTTGTAGCGG
19386513 AGCAGGT
1 AGCAGGT
19386520 TGAAGATAGC
Statistics
Matches: 155, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
162 155 1.00
ACGTcount: A:0.24, C:0.25, G:0.27, T:0.24
Consensus pattern (162 bp):
AGCAGGTCTTGCCTTCCTGCATCGACAGTGAAGCAGATCAAAGACACAAGCCTTGCCTCCCTCGG
TTGTAGTGGAGCAGGTTCAAGATAGCAGATCTTGCCTTCCTGGATCGACAGCGAAGCAGATCAAA
GACACAAGCCTTGCCTCCCTCGGTTGTAGCGG
Found at i:19386553 original size:250 final size:250
Alignment explanation
Indices: 19386107--19386564 Score: 756
Period size: 250 Copynumber: 1.8 Consensus size: 250
19386097 AGATAGTAGA
* * * * * *
19386107 TCTTGCCTTCCTGTACTGACGGTGAAGCAGATCGAAGACATAAGTCTTGTCACCCTCAGTTGTAA
1 TCTTGCCTTCCTGCACTGACAGTGAAGCAGATCAAAGACACAAGCCTTGCCACCCTCAGTTGTAA
19386172 TGGAGCAGGTTGAAGATAGCAGGTCTTGCCTTCCTGCATCGACAGTGAAGCAGATCGAAGACACA
66 TGGAGCAGGTTGAAGATAGCAGGTCTTGCCTTCCTGCATCGACAGTGAAGCAGATCGAAGACACA
* *
19386237 AGCCTTTCCTCCCTCGGTTGTAGTGGAGCAGGTTCAAGATAGCAGATCTTGCCTTCCTGGATCGA
131 AGCCTTTCCTCCCTCGGTTGTAGCGGAGCAGGTTCAAGATAGCAGATCTTGCCTTCCTGCATCGA
19386302 CGGCGAAGCAGATCAAAGACACAAGCCTTGCCTCCCTCGGTTGTAGTGGAGCAGG
196 CGGCGAAGCAGATCAAAGACACAAGCCTTGCCTCCCTCGGTTGTAGTGGAGCAGG
* *
19386357 TCTTGCCTTCCTGCA-TGGACAGTGAAGCAGATCAAAGACACAAGCCTTGCCTCCCTCGGTTGTA
1 TCTTGCCTTCCTGCACT-GACAGTGAAGCAGATCAAAGACACAAGCCTTGCCACCCTCAGTTGTA
* * * * *
19386421 GTGGAGTAGGTTGAAGATAGCAGGTCTTGCCTTCCTGTATTGATAGTGAAGCAGATCGAAGACAC
65 ATGGAGCAGGTTGAAGATAGCAGGTCTTGCCTTCCTGCATCGACAGTGAAGCAGATCGAAGACAC
*
19386486 AAGCCTTTCCTCCCTCGGTTGTAGCGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCG
130 AAGCCTTTCCTCCCTCGGTTGTAGCGGAGCAGGTTCAAGATAGCAGATCTTGCCTTCCTGCATCG
19386551 ACGGCGAAGCAGAT
195 ACGGCGAAGCAGAT
19386565 TGAAGCGAAT
Statistics
Matches: 191, Mismatches: 16, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
249 1 0.01
250 190 0.99
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.24
Consensus pattern (250 bp):
TCTTGCCTTCCTGCACTGACAGTGAAGCAGATCAAAGACACAAGCCTTGCCACCCTCAGTTGTAA
TGGAGCAGGTTGAAGATAGCAGGTCTTGCCTTCCTGCATCGACAGTGAAGCAGATCGAAGACACA
AGCCTTTCCTCCCTCGGTTGTAGCGGAGCAGGTTCAAGATAGCAGATCTTGCCTTCCTGCATCGA
CGGCGAAGCAGATCAAAGACACAAGCCTTGCCTCCCTCGGTTGTAGTGGAGCAGG
Found at i:19388017 original size:3 final size:3
Alignment explanation
Indices: 19387987--19388035 Score: 53
Period size: 3 Copynumber: 16.0 Consensus size: 3
19387977 ATTAATTGAT
* * * *
19387987 TTA TTG TTA TTA TTT TTA TTGG TCA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA
19388033 TTA
1 TTA
19388036 GTCTTTTATT
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
3 36 0.97
4 1 0.03
ACGTcount: A:0.27, C:0.02, G:0.06, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:19388080 original size:22 final size:21
Alignment explanation
Indices: 19388048--19388088 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
19388038 CTTTTATTTT
19388048 TTTTATCTTATTATATAGATCC
1 TTTTATCTTATTATA-AGATCC
*
19388070 TTTTATTTTATTATAAGAT
1 TTTTATCTTATTATAAGAT
19388089 ATTATTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.29, C:0.07, G:0.05, T:0.59
Consensus pattern (21 bp):
TTTTATCTTATTATAAGATCC
Found at i:19388468 original size:14 final size:16
Alignment explanation
Indices: 19388439--19388470 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
19388429 TTCTAAGGTA
19388439 TTCACTTTTATTTTAT
1 TTCACTTTTATTTTAT
19388455 TTCA-TTTT-TTTTAT
1 TTCACTTTTATTTTAT
19388469 TT
1 TT
19388471 TTTATATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 4 0.25
16 4 0.25
ACGTcount: A:0.16, C:0.09, G:0.00, T:0.75
Consensus pattern (16 bp):
TTCACTTTTATTTTAT
Found at i:19391451 original size:2 final size:2
Alignment explanation
Indices: 19391444--19391503 Score: 111
Period size: 2 Copynumber: 30.0 Consensus size: 2
19391434 CTCACCGCCT
*
19391444 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TT
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
19391486 TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC
19391504 CATGTAGGAA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:19395382 original size:29 final size:28
Alignment explanation
Indices: 19395346--19395423 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
19395336 TCATGAGATT
19395346 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
19395376 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
19395403 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
19395424 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:19395697 original size:173 final size:174
Alignment explanation
Indices: 19395376--19395702 Score: 566
Period size: 173 Copynumber: 1.9 Consensus size: 174
19395366 AAATTGTACA
* *
19395376 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
* *
19395441 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
19395506 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* * * *
19395550 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGTGGTTGATTACTAAACATTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
*
19395615 TGTGC-AACCCAGTATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
19395679 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
19395703 ACCTTGAGTT
Statistics
Matches: 144, Mismatches: 9, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
173 80 0.56
174 64 0.44
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:19403544 original size:29 final size:28
Alignment explanation
Indices: 19403508--19403585 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
19403498 TCATGATATT
19403508 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
19403538 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
19403565 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
19403586 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:19403854 original size:173 final size:174
Alignment explanation
Indices: 19403538--19403860 Score: 540
Period size: 173 Copynumber: 1.9 Consensus size: 174
19403528 AAATTGTACA
* ** *
19403538 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACAAGGCACTAAGTGTGCGCGGTTGATTACAAAACACTATG
* *
19403603 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
19403668 TTTTGGACAGCGGAAAAGGTCAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTCAGTGTGCGAACTTGAAATGCATG
* * * *
19403712 GCACTAAGTGTGTGAGTTTAAAGTGCAAGGCACTAAGTGTGCGTGGTTGATTACAAAACATTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACAAGGCACTAAGTGTGCGCGGTTGATTACAAAACACTATG
*
19403777 TGTGC-AACCCAGTATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
19403841 TTTTGGACAGCGGAAAAGGT
131 TTTTGGACAGCGGAAAAGGT
19403861 AAGTACCTTG
Statistics
Matches: 138, Mismatches: 11, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
173 76 0.55
174 62 0.45
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACAAGGCACTAAGTGTGCGCGGTTGATTACAAAACACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTCAGTGTGCGAACTTGAAATGCATG
Found at i:19407753 original size:16 final size:16
Alignment explanation
Indices: 19407732--19407762 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
19407722 CACCCAAGAC
19407732 ACACCTCAACCTTATA
1 ACACCTCAACCTTATA
*
19407748 ACACCTCAATCTTAT
1 ACACCTCAACCTTAT
19407763 CTGATTAGCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.35, G:0.00, T:0.29
Consensus pattern (16 bp):
ACACCTCAACCTTATA
Found at i:19416392 original size:28 final size:28
Alignment explanation
Indices: 19416361--19416415 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
19416351 TAAACTCCTG
19416361 AAAAGAAATTACA-AAAAATAAAGAATAA
1 AAAAGAAATTACATAAAAATAAA-AATAA
** *
19416389 AAAATTAATTAGATAAAAATAAAAATA
1 AAAAGAAATTACATAAAAATAAAAATA
19416416 CATAAATCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 14 0.61
29 9 0.39
ACGTcount: A:0.73, C:0.02, G:0.05, T:0.20
Consensus pattern (28 bp):
AAAAGAAATTACATAAAAATAAAAATAA
Found at i:19421089 original size:19 final size:19
Alignment explanation
Indices: 19421065--19421139 Score: 123
Period size: 19 Copynumber: 3.8 Consensus size: 19
19421055 AATCTTCAAG
19421065 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
19421084 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
19421103 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
*
19421124 GATATGTAATCTTAGA
1 GATATGCAATCTTAGA
19421140 AGATATGATT
Statistics
Matches: 53, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
19 34 0.64
21 19 0.36
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:19421111 original size:21 final size:21
Alignment explanation
Indices: 19421066--19421128 Score: 112
Period size: 21 Copynumber: 3.1 Consensus size: 21
19421056 ATCTTCAAGG
19421066 ATATGCAATCTTAGATATG--
1 ATATGCAATCTTAGATATGAT
19421085 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
19421106 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
19421127 AT
1 AT
19421129 GTAATCTTAG
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
19 19 0.45
21 23 0.55
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.38
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:19421158 original size:23 final size:22
Alignment explanation
Indices: 19421078--19421162 Score: 81
Period size: 21 Copynumber: 4.0 Consensus size: 22
19421068 ATGCAATCTT
*
19421078 AGATATGATATGCAATCTTAG-
1 AGATATGATATGTAATCTTAGA
* *
19421099 ATATGAT-ATATGCAATCTT---
1 AGAT-ATGATATGTAATCTTAGA
19421118 AGATATGATATGTAATCTTAGA
1 AGATATGATATGTAATCTTAGA
*
19421140 AGATATGATTTTGTAATCTTAGA
1 AGATATGA-TATGTAATCTTAGA
19421163 GATTTAATTT
Statistics
Matches: 54, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
18 2 0.04
19 14 0.26
21 15 0.28
22 10 0.19
23 13 0.24
ACGTcount: A:0.38, C:0.07, G:0.16, T:0.39
Consensus pattern (22 bp):
AGATATGATATGTAATCTTAGA
Found at i:19421172 original size:22 final size:23
Alignment explanation
Indices: 19421128--19421172 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
19421118 AGATATGATA
*
19421128 TGTAATCTTAGAAGATATGATTT
1 TGTAATCTTAGAAGATATAATTT
*
19421151 TGTAATCTTAG-AGATTTAATTT
1 TGTAATCTTAGAAGATATAATTT
19421173 GTAGATACCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.33, C:0.04, G:0.16, T:0.47
Consensus pattern (23 bp):
TGTAATCTTAGAAGATATAATTT
Found at i:19421409 original size:23 final size:23
Alignment explanation
Indices: 19421361--19421409 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
19421351 TTGTTCTTAT
* *
19421361 TTTGTTGATTTGTGTATAATTTA
1 TTTGTTGATTTGTATATAATTGA
**
19421384 TTTGTTGATTTGTATATTGTTGA
1 TTTGTTGATTTGTATATAATTGA
19421407 TTT
1 TTT
19421410 CAAATCTCTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.18, C:0.00, G:0.18, T:0.63
Consensus pattern (23 bp):
TTTGTTGATTTGTATATAATTGA
Found at i:19421773 original size:38 final size:39
Alignment explanation
Indices: 19421696--19421773 Score: 97
Period size: 38 Copynumber: 2.0 Consensus size: 39
19421686 CATACATATG
* *
19421696 TTTTATAATATATACATATACGTACACATTTTTTAATTT
1 TTTTATAATATATACATATACGCACACATTTTATAATTT
* *
19421735 TTTTATAA-ATATATATATACGCATAC-TTTTATATATTT
1 TTTTATAATATATACATATACGCACACATTTTATA-ATTT
19421773 T
1 T
19421774 CTATGTTTCA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
37 6 0.18
38 20 0.59
39 8 0.24
ACGTcount: A:0.36, C:0.09, G:0.03, T:0.53
Consensus pattern (39 bp):
TTTTATAATATATACATATACGCACACATTTTATAATTT
Found at i:19421876 original size:25 final size:23
Alignment explanation
Indices: 19421848--19421900 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 23
19421838 TTTTTTTTAT
19421848 TTTTTATAATTCACGTACATATATA
1 TTTTTATAA-T-ACGTACATATATA
* * *
19421873 TTTTTCTTATATGTACATATATA
1 TTTTTATAATACGTACATATATA
19421896 TTTTT
1 TTTTT
19421901 TATATTTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 17 0.68
24 1 0.04
25 7 0.28
ACGTcount: A:0.30, C:0.09, G:0.04, T:0.57
Consensus pattern (23 bp):
TTTTTATAATACGTACATATATA
Found at i:19422101 original size:5 final size:6
Alignment explanation
Indices: 19422083--19422108 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
19422073 TATCTTTTCA
19422083 TTATTT TTATTT TTATTT TTATTT TT
1 TTATTT TTATTT TTATTT TTATTT TT
19422109 GTTCTTGATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTATTT
Found at i:19431428 original size:2 final size:2
Alignment explanation
Indices: 19431421--19431480 Score: 120
Period size: 2 Copynumber: 30.0 Consensus size: 2
19431411 AACTAGGATT
19431421 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
19431463 TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC
19431481 AATGTACAGT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:19433851 original size:24 final size:24
Alignment explanation
Indices: 19433815--19433861 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
19433805 AGTTGAATCA
*
19433815 TCTTTTTATTTTTGTATTTTTCTC
1 TCTTTTTATTTTTATATTTTTCTC
19433839 TCTTGTTTA-TTTTATATTTTTCT
1 TCTT-TTTATTTTTATATTTTTCT
19433862 TTGTTTTGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 17 0.81
25 4 0.19
ACGTcount: A:0.11, C:0.11, G:0.04, T:0.74
Consensus pattern (24 bp):
TCTTTTTATTTTTATATTTTTCTC
Found at i:19437559 original size:22 final size:22
Alignment explanation
Indices: 19437540--19437582 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
19437530 AAATAATATA
*
19437540 TACATATAGATAAAAAAATAAT
1 TACATATAAATAAAAAAATAAT
*
19437562 TACATATAAATAAATAAATAA
1 TACATATAAATAAAAAAATAA
19437583 ATAAATAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.65, C:0.05, G:0.02, T:0.28
Consensus pattern (22 bp):
TACATATAAATAAAAAAATAAT
Found at i:19437649 original size:21 final size:21
Alignment explanation
Indices: 19437610--19437650 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
19437600 ATTATACTAC
* *
19437610 AAAAATAAATATGCGTATATG
1 AAAAATAAATATACATATATG
*
19437631 AAAAATATATATACATATAT
1 AAAAATAAATATACATATAT
19437651 TTTTTAAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.56, C:0.05, G:0.07, T:0.32
Consensus pattern (21 bp):
AAAAATAAATATACATATATG
Found at i:19438265 original size:19 final size:19
Alignment explanation
Indices: 19438218--19438294 Score: 82
Period size: 19 Copynumber: 3.8 Consensus size: 19
19438208 AAATTAAATC
*
19438218 TCTAAGATTACAAAATCATA
1 TCTAAGATTAC-ATATCATA
*
19438238 TCTTCTAAGATTATATATCATA
1 ---TCTAAGATTACATATCATA
*
19438260 TCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATA
*
19438279 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
19438295 CTCAAAAATT
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
19 33 0.66
22 7 0.14
23 10 0.20
ACGTcount: A:0.39, C:0.16, G:0.08, T:0.38
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:19438792 original size:44 final size:44
Alignment explanation
Indices: 19438740--19438846 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
19438730 CTACTCTCTA
* * *
19438740 CAACTTCAGAGAGATAAGATT-TGAGGTTTTAATCCGCTCTACTG
1 CAACTTCAGGGAGATAAGATTAT-AGGCTTTAATCCGCTCCACTG
* * *
19438784 CAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCACTG
1 CAACTTCAGGGAGATAAGATTATAGGCTTTAATCCGCTCCACTG
19438828 CAACTTCAGGGAGATAAGA
1 CAACTTCAGGGAGATAAGA
19438847 CTTGCCATAT
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 54 0.98
45 1 0.02
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (44 bp):
CAACTTCAGGGAGATAAGATTATAGGCTTTAATCCGCTCCACTG
Found at i:19451278 original size:21 final size:21
Alignment explanation
Indices: 19451239--19451279 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
19451229 TATACTACAA
* *
19451239 AAAAATAGATATGCGTATATG
1 AAAAATAGATATACATATATG
*
19451260 AAAAATATATATACATATAT
1 AAAAATAGATATACATATAT
19451280 TTTTTTAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.54, C:0.05, G:0.10, T:0.32
Consensus pattern (21 bp):
AAAAATAGATATACATATATG
Found at i:19451882 original size:19 final size:19
Alignment explanation
Indices: 19451835--19451911 Score: 82
Period size: 19 Copynumber: 3.8 Consensus size: 19
19451825 AAATTAAATC
*
19451835 TCTAAGATTACAAAATCATA
1 TCTAAGATTAC-ATATCATA
*
19451855 TCTTCTAAGATTATATATCATA
1 ---TCTAAGATTACATATCATA
*
19451877 TCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATA
*
19451896 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
19451912 CTCGAAGATT
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
19 33 0.66
22 7 0.14
23 10 0.20
ACGTcount: A:0.39, C:0.16, G:0.08, T:0.38
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:19451921 original size:17 final size:18
Alignment explanation
Indices: 19451869--19451921 Score: 54
Period size: 19 Copynumber: 2.9 Consensus size: 18
19451859 CTAAGATTAT
*
19451869 ATATCATATCTAAGATTGC
1 ATATCA-ATCGAAGATTGC
*
19451888 ATATCATATCTAAGATTGC
1 ATATCA-ATCGAAGATTGC
*
19451907 ATATC-CTCGAAGATT
1 ATATCAATCGAAGATT
19451922 ATGTTTCCAT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.25
19 24 0.75
ACGTcount: A:0.36, C:0.17, G:0.11, T:0.36
Consensus pattern (18 bp):
ATATCAATCGAAGATTGC
Found at i:19454414 original size:37 final size:37
Alignment explanation
Indices: 19454364--19454439 Score: 143
Period size: 37 Copynumber: 2.1 Consensus size: 37
19454354 CTCCAAAACC
*
19454364 ATCTCCACTCCAATTCCCCATAACACGCCGAATTACA
1 ATCTCCACTCCAATTCCCCATAACACGCCAAATTACA
19454401 ATCTCCACTCCAATTCCCCATAACACGCCAAATTACA
1 ATCTCCACTCCAATTCCCCATAACACGCCAAATTACA
19454438 AT
1 AT
19454440 TGTACTCTAT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.34, C:0.39, G:0.04, T:0.22
Consensus pattern (37 bp):
ATCTCCACTCCAATTCCCCATAACACGCCAAATTACA
Found at i:19459628 original size:20 final size:21
Alignment explanation
Indices: 19459603--19459649 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
19459593 AAATCTGCCA
* * *
19459603 TCAAATCT-CCTTCCAGCTTC
1 TCAAATCTGCCATCCAACTCC
19459623 TCAAATCTGCCATCCAACTCC
1 TCAAATCTGCCATCCAACTCC
19459644 TCAAAT
1 TCAAAT
19459650 AGCTACTCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 8 0.35
21 15 0.65
ACGTcount: A:0.28, C:0.38, G:0.04, T:0.30
Consensus pattern (21 bp):
TCAAATCTGCCATCCAACTCC
Found at i:19459634 original size:32 final size:33
Alignment explanation
Indices: 19459569--19459644 Score: 102
Period size: 32 Copynumber: 2.3 Consensus size: 33
19459559 ATCTATTTCC
19459569 TCAAATCTCCCTTCCAACTTTCTAAAATCTGCCA
1 TCAAATCT-CCTTCCAACTTTCTAAAATCTGCCA
* *
19459603 TCAAATCTCCTTCCAGC-TTCTCAAATCTGCCA
1 TCAAATCTCCTTCCAACTTTCTAAAATCTGCCA
*
19459635 TCCAA-CTCCT
1 TCAAATCTCCT
19459645 CAAATAGCTA
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
31 5 0.13
32 18 0.46
33 8 0.21
34 8 0.21
ACGTcount: A:0.26, C:0.38, G:0.04, T:0.32
Consensus pattern (33 bp):
TCAAATCTCCTTCCAACTTTCTAAAATCTGCCA
Found at i:19460889 original size:22 final size:22
Alignment explanation
Indices: 19460841--19460891 Score: 72
Period size: 20 Copynumber: 2.5 Consensus size: 22
19460831 ATTTAATATA
*
19460841 AATATAATT-ATATATATAATT
1 AATATAATTAACATATATAATT
19460862 -AT-TAATTAACATATATAATT
1 AATATAATTAACATATATAATT
19460882 AATATAATTA
1 AATATAATTA
19460892 TTTTTTATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 5 0.19
20 13 0.50
21 2 0.08
22 6 0.23
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (22 bp):
AATATAATTAACATATATAATT
Found at i:19460904 original size:29 final size:32
Alignment explanation
Indices: 19460833--19460905 Score: 77
Period size: 29 Copynumber: 2.4 Consensus size: 32
19460823 GGTTAGTGAT
19460833 TTAA-TATAA-ATATAATTATATATATAATTA
1 TTAATTATAATATATAATTATATATATAATTA
19460863 TTAATTA-ACATATATAA-T-TA-ATATAATTA
1 TTAATTATA-ATATATAATTATATATATAATTA
**
19460892 TTTTTTATAATATA
1 TTAATTATAATATA
19460906 ATATATTCGG
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
29 19 0.51
30 8 0.22
31 4 0.11
32 6 0.16
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (32 bp):
TTAATTATAATATATAATTATATATATAATTA
Found at i:19464968 original size:3 final size:3
Alignment explanation
Indices: 19464960--19464984 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
19464950 ATATCATACT
19464960 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
19464985 AACAGAGGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:19468134 original size:10 final size:10
Alignment explanation
Indices: 19468121--19468152 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
19468111 GAATTTTTAT
19468121 TTATAAAAAA
1 TTATAAAAAA
19468131 TTATAAAAAA
1 TTATAAAAAA
*
19468141 TAATAAAAAA
1 TTATAAAAAA
19468151 TT
1 TT
19468153 TCTTTATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (10 bp):
TTATAAAAAA
Found at i:19471689 original size:37 final size:37
Alignment explanation
Indices: 19471633--19471707 Score: 105
Period size: 37 Copynumber: 2.0 Consensus size: 37
19471623 GAGACTCAAA
*
19471633 TGATTTATAATAAAGTTTTGACTTTTCACCTATTAAT
1 TGATTTATAATAAAGTTTTGAATTTTCACCTATTAAT
* * **
19471670 TGATTTATAATTAATTTTTGAATTTTCGTCTATTAAT
1 TGATTTATAATAAAGTTTTGAATTTTCACCTATTAAT
19471707 T
1 T
19471708 ATAAACCCAG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.31, C:0.08, G:0.08, T:0.53
Consensus pattern (37 bp):
TGATTTATAATAAAGTTTTGAATTTTCACCTATTAAT
Found at i:19474966 original size:22 final size:23
Alignment explanation
Indices: 19474936--19474985 Score: 57
Period size: 24 Copynumber: 2.2 Consensus size: 23
19474926 GTGCCTTTTG
*
19474936 AGGGCTTAT-GTATATGTACAAA
1 AGGGATTATAGTATATGTACAAA
**
19474958 AGGGATTATAGGTATATGTTGAAA
1 AGGGATTATA-GTATATGTACAAA
19474982 AGGG
1 AGGG
19474986 TGAGAAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 8 0.35
24 15 0.65
ACGTcount: A:0.36, C:0.04, G:0.30, T:0.30
Consensus pattern (23 bp):
AGGGATTATAGTATATGTACAAA
Found at i:19477328 original size:33 final size:33
Alignment explanation
Indices: 19477286--19477357 Score: 99
Period size: 33 Copynumber: 2.2 Consensus size: 33
19477276 ACGTACCTCG
* *
19477286 TGTTTATTATCCTAACAGATTATCTCTGTTTTA
1 TGTTTATTATCCTAACAGACTATCTCTGTTTCA
** *
19477319 TGTTTATTATCCTGGCAGACTATCTTTGTTTCA
1 TGTTTATTATCCTAACAGACTATCTCTGTTTCA
19477352 TGTTTA
1 TGTTTA
19477358 CTGTCTCGAT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.21, C:0.15, G:0.12, T:0.51
Consensus pattern (33 bp):
TGTTTATTATCCTAACAGACTATCTCTGTTTCA
Found at i:19481484 original size:2 final size:2
Alignment explanation
Indices: 19481477--19481528 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
19481467 TATAACCATC
19481477 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
19481519 CA CA CA CA CA
1 CA CA CA CA CA
19481529 TAAGCAATAA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:19503866 original size:25 final size:25
Alignment explanation
Indices: 19503838--19503918 Score: 92
Period size: 25 Copynumber: 3.2 Consensus size: 25
19503828 ATTTTGTGAT
*
19503838 TTAAATTGGTCTTGGTTTAGACAAA
1 TTAAATTGGTCTTAGTTTAGACAAA
*
19503863 TTAAATTGGTCTTAGTTTAGAC-AC
1 TTAAATTGGTCTTAGTTTAGACAAA
* * *
19503887 TTTAATTGTGTCTATTGTTTGGACAAA
1 TTAAATTG-GTCT-TAGTTTAGACAAA
19503914 TTAAA
1 TTAAA
19503919 GTGTGTCTAA
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
24 8 0.17
25 25 0.54
26 8 0.17
27 5 0.11
ACGTcount: A:0.31, C:0.09, G:0.17, T:0.43
Consensus pattern (25 bp):
TTAAATTGGTCTTAGTTTAGACAAA
Found at i:19512287 original size:128 final size:128
Alignment explanation
Indices: 19512155--19512500 Score: 471
Period size: 128 Copynumber: 2.7 Consensus size: 128
19512145 TATCGGCTTC
19512155 AATCTGCTTCCTTACACTTGAAGATAAGATTCGCTGTCTTCGATCTGCTCCGCTACTGCTTAGGG
1 AATCTGCTTCCTTACACTTGAAGATAAGATTCGCTGTCTTCGATCTGCTCCGCTACTGCTTAGGG
* * *
19512220 AGACAAGATCTGTAATTTCCAACCTATTCCACTACTGAC-CAGGGACATAGGACTTGTGCCTTG
66 AGACAAGATCTGTAATTTCCAACCTATTCCACTACT-ACTCAGAGAAATAGGACTTGTGCCTTA
* *
19512283 AATCTGCTTCCTTACACTTGAAGATAAGATTTGCCGTCTTCGATCTGCTCCGCTACTGCTTAGGG
1 AATCTGCTTCCTTACACTTGAAGATAAGATTCGCTGTCTTCGATCTGCTCCGCTACTGCTTAGGG
* * * *
19512348 AGACAAGATATGTAATTTCCTACCTATTCCACTACTACTCAGAGAAATATGACTTGTGGCTTA
66 AGACAAGATCTGTAATTTCCAACCTATTCCACTACTACTCAGAGAAATAGGACTTGTGCCTTA
* * * * * * * *
19512411 AATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCG-TCGTCTTCGATCTACTCCACTATTTCTT
1 AATCTGCTTCCTTAC-ACT--TGAAGATAAGATTCGCT-GTCTTCGATCTGCTCCGCTACTGCTT
*
19512475 AGGGAGATAAGATCTGTAATTTCCAA
62 AGGGAGACAAGATCTGTAATTTCCAA
19512501 TCTTCAACCT
Statistics
Matches: 191, Mismatches: 22, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
127 2 0.01
128 129 0.68
129 2 0.01
131 58 0.30
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.32
Consensus pattern (128 bp):
AATCTGCTTCCTTACACTTGAAGATAAGATTCGCTGTCTTCGATCTGCTCCGCTACTGCTTAGGG
AGACAAGATCTGTAATTTCCAACCTATTCCACTACTACTCAGAGAAATAGGACTTGTGCCTTA
Found at i:19513893 original size:7 final size:7
Alignment explanation
Indices: 19513873--19513949 Score: 86
Period size: 7 Copynumber: 11.0 Consensus size: 7
19513863 CCTTCGCCTC
19513873 TTCATTT
1 TTCATTT
19513880 TT-AGTTT
1 TTCA-TTT
*
19513887 TTCGTTT
1 TTCATTT
*
19513894 TTCGTTT
1 TTCATTT
19513901 TTCATTT
1 TTCATTT
19513908 TTCATTT
1 TTCATTT
19513915 TTCATTT
1 TTCATTT
*
19513922 TTCA-AT
1 TTCATTT
19513928 TTCATTTT
1 TTCA-TTT
19513936 TTCATTT
1 TTCATTT
*
19513943 TTTATTT
1 TTCATTT
19513950 CTTTTATTTT
Statistics
Matches: 61, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
6 6 0.10
7 50 0.82
8 5 0.08
ACGTcount: A:0.13, C:0.12, G:0.04, T:0.71
Consensus pattern (7 bp):
TTCATTT
Found at i:19520139 original size:25 final size:25
Alignment explanation
Indices: 19520077--19520175 Score: 103
Period size: 25 Copynumber: 4.0 Consensus size: 25
19520067 CTACAGATCA
* *
19520077 TGAGAGCATACCAATTTATAGCTTG
1 TGAGAGCATACCGATTTATAGCTCG
*
19520102 TGAGATCATACCGATTTATAGCTCG
1 TGAGAGCATACCGATTTATAGCTCG
* *
19520127 TGAGAGCATACCGATCTAGAGCTCAAG
1 TGAGAGCATACCGATTTATAGCTC--G
* *
19520154 TGA-A-CATTCCGATTTACAGCTC
1 TGAGAGCATACCGATTTATAGCTC
19520176 ATATGAGCAT
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
25 58 0.92
26 1 0.02
27 4 0.06
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.28
Consensus pattern (25 bp):
TGAGAGCATACCGATTTATAGCTCG
Found at i:19523965 original size:41 final size:41
Alignment explanation
Indices: 19523858--19523969 Score: 134
Period size: 42 Copynumber: 2.7 Consensus size: 41
19523848 AAAGTACATC
* * * *
19523858 TAGGGGTACCGAAGAACAAATAGGGGCATGCATGTCCAATG
1 TAGGGGTACCGAAGTACAAACAGGGGCACGCATATCCAATG
* * * * *
19523899 CAGGGGTACTTGAAGTACAAACAGGGGCACGTATATGCAATT
1 TAGGGGTAC-CGAAGTACAAACAGGGGCACGCATATCCAATG
19523941 TAGGGGTACCGAAGTACAAACAGGGGCAC
1 TAGGGGTACCGAAGTACAAACAGGGGCAC
19523970 ACATGTGCAA
Statistics
Matches: 59, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
41 27 0.46
42 32 0.54
ACGTcount: A:0.34, C:0.18, G:0.31, T:0.17
Consensus pattern (41 bp):
TAGGGGTACCGAAGTACAAACAGGGGCACGCATATCCAATG
Found at i:19523979 original size:41 final size:41
Alignment explanation
Indices: 19523858--19523980 Score: 147
Period size: 41 Copynumber: 3.0 Consensus size: 41
19523848 AAAGTACATC
* * * *
19523858 TAGGGGTACCGAAGAACAAATAGGGGCATGCATGTCCAATG
1 TAGGGGTACCGAAGTACAAACAGGGGCACGCATGTGCAATG
* * * * *
19523899 CAGGGGTACTTGAAGTACAAACAGGGGCACGTATATGCAATT
1 TAGGGGTAC-CGAAGTACAAACAGGGGCACGCATGTGCAATG
*
19523941 TAGGGGTACCGAAGTACAAACAGGGGCACACATGTGCAAT
1 TAGGGGTACCGAAGTACAAACAGGGGCACGCATGTGCAAT
19523981 CCATTATTAT
Statistics
Matches: 67, Mismatches: 14, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
41 35 0.52
42 32 0.48
ACGTcount: A:0.34, C:0.18, G:0.30, T:0.18
Consensus pattern (41 bp):
TAGGGGTACCGAAGTACAAACAGGGGCACGCATGTGCAATG
Found at i:19533659 original size:25 final size:25
Alignment explanation
Indices: 19533631--19533782 Score: 87
Period size: 25 Copynumber: 6.2 Consensus size: 25
19533621 CTTATGAGCA
* **
19533631 TCCCGATATATT-GCTCTCTTGGGCT
1 TCCCGATAT-TTGGCTCTCATAAGCT
*
19533656 TCCCGTTATTTGGCTCTCATAAGCT
1 TCCCGATATTTGGCTCTCATAAGCT
* **
19533681 TCCCGAT-TAATGGCTCTCCGAAGCT
1 TCCCGATAT-TTGGCTCTCATAAGCT
* * *
19533706 TCCCGATA-TTGGCTCGCATGAGTT
1 TCCCGATATTTGGCTCTCATAAGCT
** * *
19533730 TCCCGAT-TACGGCTCTTATGAGCT
1 TCCCGATATTTGGCTCTCATAAGCT
* ** * *
19533754 TCCCGTTACATGGCTCACATGAGCT
1 TCCCGATATTTGGCTCTCATAAGCT
19533779 TCCC
1 TCCC
19533783 ATTTACATAC
Statistics
Matches: 98, Mismatches: 24, Indels: 10
0.74 0.18 0.08
Matches are distributed among these distances:
24 37 0.38
25 61 0.62
ACGTcount: A:0.16, C:0.30, G:0.20, T:0.34
Consensus pattern (25 bp):
TCCCGATATTTGGCTCTCATAAGCT
Found at i:19533743 original size:24 final size:24
Alignment explanation
Indices: 19533702--19533782 Score: 74
Period size: 24 Copynumber: 3.3 Consensus size: 24
19533692 GGCTCTCCGA
* ** *
19533702 AGCTTCCCGATATTGGCTCGCATG
1 AGCTTCCCGTTACAGGCTCACATG
* **
19533726 AGTTTCCCGATTAC-GGCTCTTATG
1 AGCTTCCCG-TTACAGGCTCACATG
19533750 AGCTTCCCGTTACATGGCTCACATG
1 AGCTTCCCGTTACA-GGCTCACATG
19533775 AGCTTCCC
1 AGCTTCCC
19533783 ATTTACATAC
Statistics
Matches: 46, Mismatches: 8, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
23 4 0.09
24 24 0.52
25 18 0.39
ACGTcount: A:0.17, C:0.31, G:0.21, T:0.31
Consensus pattern (24 bp):
AGCTTCCCGTTACAGGCTCACATG
Found at i:19533768 original size:49 final size:49
Alignment explanation
Indices: 19533653--19533782 Score: 138
Period size: 49 Copynumber: 2.6 Consensus size: 49
19533643 GCTCTCTTGG
* * * *
19533653 GCTTCCCGTTATTTGGCTCTCATAAGCTTCCCGATTAATGGCTCTCCGAA
1 GCTTCCCGTTA-TTGGCTCACATGAGCTTCCCGATTAACGGCTCTACGAA
* * * *
19533703 GCTTCCCGATATTGGCTCGCATGAGTTTCCCGATT-ACGGCTCTTATG-A
1 GCTTCCCGTTATTGGCTCACATGAGCTTCCCGATTAACGGCTC-TACGAA
*
19533751 GCTTCCCGTTACATGGCTCACATGAGCTTCCC
1 GCTTCCCGTTA-TTGGCTCACATGAGCTTCCC
19533783 ATTTACATAC
Statistics
Matches: 67, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
48 17 0.25
49 40 0.60
50 10 0.15
ACGTcount: A:0.17, C:0.31, G:0.20, T:0.32
Consensus pattern (49 bp):
GCTTCCCGTTATTGGCTCACATGAGCTTCCCGATTAACGGCTCTACGAA
Found at i:19533800 original size:25 final size:25
Alignment explanation
Indices: 19533746--19533802 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
19533736 TTACGGCTCT
*
19533746 TATGAGCTTCCCGTTACATGGCTCA
1 TATGAGCTTCCCGTTACATGACTCA
* * *
19533771 CATGAGCTTCCCATTTACAT-ACTCG
1 TATGAGCTTCCC-GTTACATGACTCA
19533796 TATGAGC
1 TATGAGC
19533803 ATACATGACT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
25 20 0.77
26 6 0.23
ACGTcount: A:0.23, C:0.28, G:0.18, T:0.32
Consensus pattern (25 bp):
TATGAGCTTCCCGTTACATGACTCA
Found at i:19537190 original size:3 final size:3
Alignment explanation
Indices: 19537182--19537214 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
19537172 AAATTGAACA
19537182 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
19537215 TGACTTTTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:19540569 original size:16 final size:16
Alignment explanation
Indices: 19540550--19540581 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
19540540 ATATTAATGT
*
19540550 TATTTAATTTTAAAAA
1 TATTTAATATTAAAAA
19540566 TATTTAATATTAAAAA
1 TATTTAATATTAAAAA
19540582 ATACAAAAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TATTTAATATTAAAAA
Found at i:19540583 original size:17 final size:16
Alignment explanation
Indices: 19540550--19540584 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
19540540 ATATTAATGT
*
19540550 TATTTAATTTTAAAAA
1 TATTTAATTTAAAAAA
19540566 TATTTAATATTAAAAAA
1 TATTTAAT-TTAAAAAA
19540583 TA
1 TA
19540585 CAAAAGAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
TATTTAATTTAAAAAA
Found at i:19540639 original size:28 final size:28
Alignment explanation
Indices: 19540603--19540686 Score: 77
Period size: 28 Copynumber: 3.1 Consensus size: 28
19540593 TCATGGTTTG
*
19540603 AATATTAATATTAATATATTATAATTTA
1 AATAATAATATTAATATATTATAATTTA
*
19540631 AATAATAATATTAA-ATTATTAT-ATAT-
1 AATAATAATATTAATA-TATTATAATTTA
* * *
19540657 ATTAATAA-ATTAATTTATTTTAATGTTA
1 AATAATAATATTAATATATTATAAT-TTA
19540685 AA
1 AA
19540687 ATTGTTAAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 10
0.72 0.11 0.16
Matches are distributed among these distances:
25 10 0.23
26 9 0.20
27 5 0.11
28 20 0.45
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (28 bp):
AATAATAATATTAATATATTATAATTTA
Found at i:19543257 original size:32 final size:32
Alignment explanation
Indices: 19543193--19543263 Score: 81
Period size: 32 Copynumber: 2.2 Consensus size: 32
19543183 CTATTCTGAA
* *
19543193 AATAGTTATTTTGGACATAACTATTCTCAAAC
1 AATAGTTATTTTGAACACAACTATTCTCAAAC
* *
19543225 AATAGTTATTTTGAACAACAATTGTTCT-AAAC
1 AATAGTTATTTTGAAC-ACAACTATTCTCAAAC
*
19543257 AAGAGTT
1 AATAGTT
19543264 GTTATTCTTG
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
32 25 0.76
33 8 0.24
ACGTcount: A:0.39, C:0.13, G:0.11, T:0.37
Consensus pattern (32 bp):
AATAGTTATTTTGAACACAACTATTCTCAAAC
Found at i:19547604 original size:73 final size:73
Alignment explanation
Indices: 19547485--19547629 Score: 281
Period size: 73 Copynumber: 2.0 Consensus size: 73
19547475 GACTTGTTGT
*
19547485 CACGTTCCATTTTCATAATCTATACAATGTAAGTGGGAGGATACCTTTCACTCTCTATTTAAGCT
1 CACGTTCCATTTTCATAATCTATACAATGTAAGTGAGAGGATACCTTTCACTCTCTATTTAAGCT
19547550 ATGAATTA
66 ATGAATTA
19547558 CACGTTCCATTTTCATAATCTATACAATGTAAGTGAGAGGATACCTTTCACTCTCTATTTAAGCT
1 CACGTTCCATTTTCATAATCTATACAATGTAAGTGAGAGGATACCTTTCACTCTCTATTTAAGCT
19547623 ATGAATT
66 ATGAATT
19547630 CCACTAGTGT
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 71 1.00
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.37
Consensus pattern (73 bp):
CACGTTCCATTTTCATAATCTATACAATGTAAGTGAGAGGATACCTTTCACTCTCTATTTAAGCT
ATGAATTA
Found at i:19551228 original size:29 final size:28
Alignment explanation
Indices: 19551195--19551249 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 28
19551185 TTCATACGGG
** *
19551195 CGTGTAGGTCACACGGGCATGTGTTAGAT
1 CGTGTAGACCACACGGGC-TGCGTTAGAT
19551224 CGTGTAGACCACACGGGCTGCGTTAG
1 CGTGTAGACCACACGGGCTGCGTTAG
19551250 TTGGGCCATG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 7 0.30
29 16 0.70
ACGTcount: A:0.20, C:0.22, G:0.35, T:0.24
Consensus pattern (28 bp):
CGTGTAGACCACACGGGCTGCGTTAGAT
Found at i:19551857 original size:24 final size:24
Alignment explanation
Indices: 19551830--19551883 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
19551820 TAGGGGTAGG
**
19551830 ATCTGTGGCTGCATTTGTATATGA
1 ATCTGTGGCTGCATTTACATATGA
* *
19551854 ATCTGTGTCTGCATTTACATCTGA
1 ATCTGTGGCTGCATTTACATATGA
19551878 ATCTGT
1 ATCTGT
19551884 ATAAGCATCT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.43
Consensus pattern (24 bp):
ATCTGTGGCTGCATTTACATATGA
Found at i:19557800 original size:43 final size:44
Alignment explanation
Indices: 19557695--19557802 Score: 143
Period size: 44 Copynumber: 2.5 Consensus size: 44
19557685 TGTGTTGTCG
* *
19557695 TGTAAGACCACGTCTGGGACGTTGGTATCGACTTGTGATTTACG
1 TGTAAGACCACGTCTGGGACGTTGGCATCGACTTGTGATTTACA
19557739 TGTAAGACC-CTGTCTGGGACAG-TGGCATCGA-TATGTGA-TTACA
1 TGTAAGACCAC-GTCTGGGAC-GTTGGCATCGACT-TGTGATTTACA
19557782 TGTAAGACCACGTCTGGGACG
1 TGTAAGACCACGTCTGGGACG
19557803 ATGACATTGT
Statistics
Matches: 58, Mismatches: 2, Indels: 10
0.83 0.03 0.14
Matches are distributed among these distances:
42 1 0.02
43 24 0.41
44 32 0.55
45 1 0.02
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.28
Consensus pattern (44 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGACTTGTGATTTACA
Found at i:19558620 original size:23 final size:23
Alignment explanation
Indices: 19558590--19558933 Score: 319
Period size: 23 Copynumber: 14.7 Consensus size: 23
19558580 TTCGATTCAA
* * *
19558590 GTCCAATTCGATGTCTATATGCT
1 GTCCAATTTGGTGTATATATGCT
* * **
19558613 GTCCAATTTTGGTGTAAAAATATT
1 GTCCAA-TTTGGTGTATATATGCT
*
19558637 GTCCAATTTGGTATATATATGCT
1 GTCCAATTTGGTGTATATATGCT
* *
19558660 GCCCAATTTGGTGTCTATATGCT
1 GTCCAATTTGGTGTATATATGCT
* * *
19558683 GTCCAATTTTGGTGTAAAAATGTT
1 GTCCAA-TTTGGTGTATATATGCT
*
19558707 GTCCAATTTGGTATATATATGCT
1 GTCCAATTTGGTGTATATATGCT
** *
19558730 ACCCAATTTGGTGTCTATATGCT
1 GTCCAATTTGGTGTATATATGCT
* *
19558753 GTCCAATTTTGGTGTAAAAATGCT
1 GTCCAA-TTTGGTGTATATATGCT
* ** *
19558777 GTCCTATTTAATATATATATGCT
1 GTCCAATTTGGTGTATATATGCT
* *
19558800 GCCCAATTTGGTGTCTATATGCT
1 GTCCAATTTGGTGTATATATGCT
* *
19558823 GTCCAATTTTGGTGTAAAAATGCT
1 GTCCAA-TTTGGTGTATATATGCT
** *
19558847 GTCCAATTTTATATATATATGCT
1 GTCCAATTTGGTGTATATATGCT
* * * *
19558870 GCCCATTTTGGTGTATAAATGTT
1 GTCCAATTTGGTGTATATATGCT
*
19558893 GTCCAATTTTGGTGTATAAATGCT
1 GTCCAA-TTTGGTGTATATATGCT
*
19558917 GTCCAATTTGATGTATA
1 GTCCAATTTGGTGTATA
19558934 AGAGCTGTCC
Statistics
Matches: 251, Mismatches: 65, Indels: 10
0.77 0.20 0.03
Matches are distributed among these distances:
23 155 0.62
24 96 0.38
ACGTcount: A:0.26, C:0.15, G:0.18, T:0.42
Consensus pattern (23 bp):
GTCCAATTTGGTGTATATATGCT
Found at i:19558659 original size:47 final size:47
Alignment explanation
Indices: 19558590--19558933 Score: 327
Period size: 47 Copynumber: 7.4 Consensus size: 47
19558580 TTCGATTCAA
* * * * * **
19558590 GTCCAATTCGATGTCTATATGCTGTCCAATTTTGGTGTAAAAATATT
1 GTCCAATTTGGTGTATATATGCTGTCCAATTTTGGTGTATATATGCT
* * *
19558637 GTCCAATTTGGTATATATATGCTGCCCAA-TTTGGTGTCTATATGCT
1 GTCCAATTTGGTGTATATATGCTGTCCAATTTTGGTGTATATATGCT
* * * *
19558683 GTCCAATTTTGGTGTAAAAATGTTGTCCAA-TTTGGTATATATATGCT
1 GTCCAA-TTTGGTGTATATATGCTGTCCAATTTTGGTGTATATATGCT
** * * *
19558730 ACCCAATTTGGTGTCTATATGCTGTCCAATTTTGGTGTAAAAATGCT
1 GTCCAATTTGGTGTATATATGCTGTCCAATTTTGGTGTATATATGCT
* ** * * *
19558777 GTCCTATTTAATATATATATGCTGCCCAA-TTTGGTGTCTATATGCT
1 GTCCAATTTGGTGTATATATGCTGTCCAATTTTGGTGTATATATGCT
* * * *
19558823 GTCCAATTTTGGTGTAAAAATGCTGTCCAATTTT-ATATATATATGCT
1 GTCCAA-TTTGGTGTATATATGCTGTCCAATTTTGGTGTATATATGCT
* * * * *
19558870 GCCCATTTTGGTGTATAAATGTTGTCCAATTTTGGTGTATAAATGCT
1 GTCCAATTTGGTGTATATATGCTGTCCAATTTTGGTGTATATATGCT
*
19558917 GTCCAATTTGATGTATA
1 GTCCAATTTGGTGTATA
19558934 AGAGCTGTCC
Statistics
Matches: 235, Mismatches: 57, Indels: 10
0.78 0.19 0.03
Matches are distributed among these distances:
46 81 0.34
47 151 0.64
48 3 0.01
ACGTcount: A:0.26, C:0.15, G:0.18, T:0.42
Consensus pattern (47 bp):
GTCCAATTTGGTGTATATATGCTGTCCAATTTTGGTGTATATATGCT
Found at i:19558709 original size:70 final size:70
Alignment explanation
Indices: 19558592--19558933 Score: 531
Period size: 70 Copynumber: 4.9 Consensus size: 70
19558582 CGATTCAAGT
* * ** *
19558592 CCAATTCGATGTCTATATGCTGTCCAATTTTGGTGTAAAAATATTGTCCAATTTGGTATATATAT
1 CCAATTTGGTGTCTATATGCTGTCCAATTTTGGTGTAAAAATGCTGTCCAATTTGATATATATAT
19558657 GCTGC
66 GCTGC
* *
19558662 CCAATTTGGTGTCTATATGCTGTCCAATTTTGGTGTAAAAATGTTGTCCAATTTGGTATATATAT
1 CCAATTTGGTGTCTATATGCTGTCCAATTTTGGTGTAAAAATGCTGTCCAATTTGATATATATAT
*
19558727 GCTAC
66 GCTGC
* *
19558732 CCAATTTGGTGTCTATATGCTGTCCAATTTTGGTGTAAAAATGCTGTCCTATTTAATATATATAT
1 CCAATTTGGTGTCTATATGCTGTCCAATTTTGGTGTAAAAATGCTGTCCAATTTGATATATATAT
19558797 GCTGC
66 GCTGC
*
19558802 CCAATTTGGTGTCTATATGCTGTCCAATTTTGGTGTAAAAATGCTGTCCAATTTTATATATATAT
1 CCAATTTGGTGTCTATATGCTGTCCAATTTTGGTGTAAAAATGCTGTCCAATTTGATATATATAT
19558867 GCTGC
66 GCTGC
* * * * * *
19558872 CCATTTTGGTGTATAAATGTTGTCCAATTTTGGTGTATAAATGCTGTCCAATTTGATGTATA
1 CCAATTTGGTGTCTATATGCTGTCCAATTTTGGTGTAAAAATGCTGTCCAATTTGATATATA
19558934 AGAGCTGTCC
Statistics
Matches: 254, Mismatches: 18, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
70 254 1.00
ACGTcount: A:0.26, C:0.15, G:0.18, T:0.42
Consensus pattern (70 bp):
CCAATTTGGTGTCTATATGCTGTCCAATTTTGGTGTAAAAATGCTGTCCAATTTGATATATATAT
GCTGC
Found at i:19561246 original size:13 final size:13
Alignment explanation
Indices: 19561230--19561254 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19561220 ATTAGACTCG
19561230 TAAATATTTATAT
1 TAAATATTTATAT
19561243 TAAATATTTATA
1 TAAATATTTATA
19561255 GAGTTATTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
TAAATATTTATAT
Found at i:19562684 original size:18 final size:19
Alignment explanation
Indices: 19562661--19562703 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
19562651 GATTTTTGAT
19562661 ATGGAAATAG-AATGGGAA
1 ATGGAAATAGAAATGGGAA
*
19562679 ATGG-AATTGAAATGGGAA
1 ATGGAAATAGAAATGGGAA
19562697 AT-GAAAT
1 ATGGAAAT
19562704 GTGAAATTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 5 0.23
18 17 0.77
ACGTcount: A:0.49, C:0.00, G:0.30, T:0.21
Consensus pattern (19 bp):
ATGGAAATAGAAATGGGAA
Found at i:19563537 original size:29 final size:29
Alignment explanation
Indices: 19563492--19563558 Score: 109
Period size: 29 Copynumber: 2.3 Consensus size: 29
19563482 GTTTAGTGAA
*
19563492 TTGGTG-TTTGGATGTAATTAATATGGAT
1 TTGGTGTTTTTGATGTAATTAATATGGAT
*
19563520 TTGGTTTTTTTGATGTAATTAATATGGAT
1 TTGGTGTTTTTGATGTAATTAATATGGAT
19563549 TTGGTGTTTT
1 TTGGTGTTTT
19563559 GAATGGAATG
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
28 5 0.14
29 30 0.86
ACGTcount: A:0.21, C:0.00, G:0.25, T:0.54
Consensus pattern (29 bp):
TTGGTGTTTTTGATGTAATTAATATGGAT
Found at i:19579702 original size:19 final size:20
Alignment explanation
Indices: 19579664--19579702 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
19579654 AATAGGTAGA
19579664 ATTCCTAGAAAATAGAATTT
1 ATTCCTAGAAAATAGAATTT
*
19579684 ATTCCTAGAATAT-GAATTT
1 ATTCCTAGAAAATAGAATTT
19579703 CCACTACTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.41, C:0.10, G:0.10, T:0.38
Consensus pattern (20 bp):
ATTCCTAGAAAATAGAATTT
Found at i:19582548 original size:29 final size:29
Alignment explanation
Indices: 19582492--19582549 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
19582482 TTTTACAAGC
*
19582492 CTAGGGGAAAATCGTAATTTTGTGAAACT
1 CTAGGGGAAAATCGTAATTTTGTCAAACT
19582521 CTAGGGGCAAAAT-GTAATTTT-TCCAAACT
1 CTAGGGG-AAAATCGTAATTTTGT-CAAACT
19582550 GTGATTTTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
28 1 0.04
29 20 0.77
30 5 0.19
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.31
Consensus pattern (29 bp):
CTAGGGGAAAATCGTAATTTTGTCAAACT
Found at i:19582890 original size:45 final size:45
Alignment explanation
Indices: 19582833--19582945 Score: 124
Period size: 45 Copynumber: 2.5 Consensus size: 45
19582823 ATCATTGATT
*
19582833 ATAAAGGTGGTTGCTATGAGCTGACTCCACCGGAA-ATTATTGAAA
1 ATAAAGGTGGTTGCTATGAGCTGACTCCACC-GAATATAATTGAAA
* * **
19582878 ATAAAGGTGGTTGCTAT-ATGTTGATTCCACCGAATATAATTGATT
1 ATAAAGGTGGTTGCTATGA-GCTGACTCCACCGAATATAATTGAAA
* *
19582923 ATAAGGGTGGTT-CTATGTGCTGA
1 ATAAAGGTGGTTGCTATGAGCTGA
19582946 TCTACCATGT
Statistics
Matches: 57, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
44 12 0.21
45 45 0.79
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (45 bp):
ATAAAGGTGGTTGCTATGAGCTGACTCCACCGAATATAATTGAAA
Found at i:19585523 original size:27 final size:28
Alignment explanation
Indices: 19585392--19585523 Score: 134
Period size: 27 Copynumber: 4.9 Consensus size: 28
19585382 TATAACGGTC
19585392 ATTTTACCCTAT--AGGGTTATTTC-AGTA
1 ATTTTACCC-ATCGAGGG-TATTTCGAGTA
* *
19585419 ATTTTACCCATCGAAGGTATTT-TAGTA
1 ATTTTACCCATCGAGGGTATTTCGAGTA
*
19585446 ATTTTACCCATCAAGGGTATTTC-AGTA
1 ATTTTACCCATCGAGGGTATTTCGAGTA
*
19585473 ATTTTACCCATTTG-GGGTATTTCGA-TA
1 ATTTTACCCA-TCGAGGGTATTTCGAGTA
* *
19585500 ATCTTACCCATCGAGGGTCTTTCG
1 ATTTTACCCATCGAGGGTATTTCG
19585524 GTCATTTAAT
Statistics
Matches: 90, Mismatches: 8, Indels: 14
0.80 0.07 0.12
Matches are distributed among these distances:
26 4 0.04
27 81 0.90
28 5 0.06
ACGTcount: A:0.25, C:0.18, G:0.17, T:0.40
Consensus pattern (28 bp):
ATTTTACCCATCGAGGGTATTTCGAGTA
Found at i:19586522 original size:25 final size:26
Alignment explanation
Indices: 19586493--19586544 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
19586483 AGAGGAGAGG
*
19586493 AGAGGAAAGAAG-TATTCGGCCAACA
1 AGAGGAAAGAAGAGATTCGGCCAACA
*
19586518 AGAGGAGAGAAGAGATTCGGCCAACA
1 AGAGGAAAGAAGAGATTCGGCCAACA
19586544 A
1 A
19586545 CCAAAAAGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 11 0.46
26 13 0.54
ACGTcount: A:0.44, C:0.15, G:0.31, T:0.10
Consensus pattern (26 bp):
AGAGGAAAGAAGAGATTCGGCCAACA
Found at i:19586999 original size:25 final size:25
Alignment explanation
Indices: 19586962--19587015 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
19586952 TTAACCTCTG
19586962 ACCTCATTACCACACCTGTGAT-GCC
1 ACCTCATTACCACACCTGTG-TCGCC
* *
19586987 ACCTCCTTGCCACACCTGTGTCGCC
1 ACCTCATTACCACACCTGTGTCGCC
19587012 ACCT
1 ACCT
19587016 TACCACTACA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
24 1 0.04
25 25 0.96
ACGTcount: A:0.19, C:0.44, G:0.13, T:0.24
Consensus pattern (25 bp):
ACCTCATTACCACACCTGTGTCGCC
Found at i:19587021 original size:22 final size:23
Alignment explanation
Indices: 19586968--19587021 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 23
19586958 TCTGACCTCA
19586968 TTACCACACCTGTGATGCCACCTCC
1 TTACCACACCTGTGATGCCA-C-CC
*
19586993 TTGCCACACCTGTG-TCGCCA-CC
1 TTACCACACCTGTGAT-GCCACCC
19587015 TTACCAC
1 TTACCAC
19587022 TACACCATAG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
22 8 0.31
24 1 0.04
25 17 0.65
ACGTcount: A:0.19, C:0.44, G:0.13, T:0.24
Consensus pattern (23 bp):
TTACCACACCTGTGATGCCACCC
Found at i:19587916 original size:36 final size:36
Alignment explanation
Indices: 19587869--19587941 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
19587859 TTTGTAACAT
19587869 AGTCAAAATAGGGAATATTTATGTTATAGTTTTACC
1 AGTCAAAATAGGGAATATTTATGTTATAGTTTTACC
19587905 AGTCAAAATAGGGAATATTTATGTTATAGTTTTACC
1 AGTCAAAATAGGGAATATTTATGTTATAGTTTTACC
19587941 A
1 A
19587942 TTTTTTAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.37, C:0.08, G:0.16, T:0.38
Consensus pattern (36 bp):
AGTCAAAATAGGGAATATTTATGTTATAGTTTTACC
Found at i:19591206 original size:16 final size:17
Alignment explanation
Indices: 19591175--19591207 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
19591165 ATACACATAA
19591175 ACCAAAACCTATTCAAG
1 ACCAAAACCTATTCAAG
*
19591192 ACCAAAATC-ATTCAAG
1 ACCAAAACCTATTCAAG
19591208 TATGACATCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.48, C:0.27, G:0.06, T:0.18
Consensus pattern (17 bp):
ACCAAAACCTATTCAAG
Found at i:19597088 original size:27 final size:27
Alignment explanation
Indices: 19597046--19597116 Score: 124
Period size: 27 Copynumber: 2.6 Consensus size: 27
19597036 GAAATCGTCA
*
19597046 AAAAGAGCCTTCGTGGCTGATTCTGTT
1 AAAAGGGCCTTCGTGGCTGATTCTGTT
*
19597073 AAAAGGGCCTTTGTGGCTGATTCTGTT
1 AAAAGGGCCTTCGTGGCTGATTCTGTT
19597100 AAAAGGGCCTTCGTGGC
1 AAAAGGGCCTTCGTGGC
19597117 AAAGTCTATT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.31
Consensus pattern (27 bp):
AAAAGGGCCTTCGTGGCTGATTCTGTT
Found at i:19600782 original size:17 final size:18
Alignment explanation
Indices: 19600762--19600800 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
19600752 AAAGGTAATT
19600762 AGGAATT-GAAG-GTCAAA
1 AGGAATTAGAAGAG-CAAA
19600779 AGGAATTAGAAGAGCAAA
1 AGGAATTAGAAGAGCAAA
19600797 AGGA
1 AGGA
19600801 GAGTAAAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 12 0.60
19 1 0.05
ACGTcount: A:0.51, C:0.05, G:0.31, T:0.13
Consensus pattern (18 bp):
AGGAATTAGAAGAGCAAA
Found at i:19601544 original size:19 final size:19
Alignment explanation
Indices: 19601522--19601563 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
19601512 CATATACCCG
*
19601522 ATATCATATAGCATAATTC
1 ATATCAAATAGCATAATTC
* *
19601541 ATATCAAATATCATATTTC
1 ATATCAAATAGCATAATTC
19601560 ATAT
1 ATAT
19601564 ATCAATAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.43, C:0.14, G:0.02, T:0.40
Consensus pattern (19 bp):
ATATCAAATAGCATAATTC
Found at i:19610589 original size:28 final size:27
Alignment explanation
Indices: 19610493--19610593 Score: 130
Period size: 27 Copynumber: 3.7 Consensus size: 27
19610483 ACGTGTCATA
* * *
19610493 AAAATGAAACCTTTGTGGCAATTTATG
1 AAAAGGAAGCCTTTGTGGCAATCTATG
* * *
19610520 AAAATGAAGCCTTGGTGGTAATCTATG
1 AAAAGGAAGCCTTTGTGGCAATCTATG
19610547 AAAAGGAAGCCTTTGTGGCAATCTATG
1 AAAAGGAAGCCTTTGTGGCAATCTATG
*
19610574 AAAAAGGAAGCTTTTGTGGC
1 -AAAAGGAAGCCTTTGTGGC
19610594 GATTTATCAT
Statistics
Matches: 65, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
27 47 0.72
28 18 0.28
ACGTcount: A:0.35, C:0.12, G:0.25, T:0.29
Consensus pattern (27 bp):
AAAAGGAAGCCTTTGTGGCAATCTATG
Found at i:19614911 original size:43 final size:42
Alignment explanation
Indices: 19614848--19614973 Score: 148
Period size: 43 Copynumber: 2.9 Consensus size: 42
19614838 AGGACTCCGA
19614848 TATGTGTTTTCGTGTAAGACCACGTCTGGGACGTAGGCATCGAC
1 TATGTGTTTTCGTGTAAGACCACGTCTGGGACGT-GGCATCG-C
*
19614892 T-TGTGTTTTCGTGTAAGACC-CTGTCTGGGACAGTGGCATCGG
1 TATGTGTTTTCGTGTAAGACCAC-GTCTGGGAC-GTGGCATCGC
* * * *
19614934 TATGTGATTACATGTAAGACCACGTCTAGGACGTTGGCAT
1 TATGTGTTTTCGTGTAAGACCACGTCTGGGACG-TGGCAT
19614974 TGTACTAGCT
Statistics
Matches: 72, Mismatches: 5, Indels: 11
0.82 0.06 0.12
Matches are distributed among these distances:
42 3 0.04
43 65 0.90
44 4 0.06
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.31
Consensus pattern (42 bp):
TATGTGTTTTCGTGTAAGACCACGTCTGGGACGTGGCATCGC
Found at i:19615641 original size:14 final size:15
Alignment explanation
Indices: 19615622--19615651 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
19615612 TTTAATCATG
19615622 GATTAGTATTT-TAT
1 GATTAGTATTTATAT
19615636 GATTAGTATTTATAT
1 GATTAGTATTTATAT
19615651 G
1 G
19615652 GTAATGTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.30, C:0.00, G:0.17, T:0.53
Consensus pattern (15 bp):
GATTAGTATTTATAT
Found at i:19615786 original size:11 final size:11
Alignment explanation
Indices: 19615770--19615795 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
19615760 GTGTCTAGGT
19615770 TATGTATTATA
1 TATGTATTATA
19615781 TATGTATTATA
1 TATGTATTATA
19615792 TATG
1 TATG
19615796 ATTTAGTTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.54
Consensus pattern (11 bp):
TATGTATTATA
Found at i:19615974 original size:47 final size:47
Alignment explanation
Indices: 19615905--19616321 Score: 753
Period size: 47 Copynumber: 8.9 Consensus size: 47
19615895 GAGTAAATGA
*
19615905 ATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAATTATAT
1 ATGTATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATAT
19615952 ATGTATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATAT
1 ATGTATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATAT
*
19615999 ATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAATTATAT
1 ATGTATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATAT
*
19616046 ATGTATATGCTGTCAAATTTTGATGTATAAATGGAGTCCAATTATAT
1 ATGTATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATAT
*
19616093 ATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAATTATAT
1 ATGTATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATAT
*
19616140 ATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAATTATAT
1 ATGTATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATAT
* *
19616187 ACGTATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATTT
1 ATGTATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATAT
*
19616234 ATTTATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATAT
1 ATGTATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATAT
*
19616281 ATGTATCTGCTGTCAAATTTTGATGTATAAATGCAGTCCAA
1 ATGTATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAA
19616322 ATTTTGCATA
Statistics
Matches: 356, Mismatches: 14, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 356 1.00
ACGTcount: A:0.34, C:0.12, G:0.15, T:0.39
Consensus pattern (47 bp):
ATGTATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATAT
Done.