Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 169 of 325
Found at i:52148356 original size:71 final size:70
Alignment explanation
Indices: 52148155--52148352 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
52148145 CGATTTGTCT
* * * *
52148155 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
52148220 CTTTCA
65 CTTTCA
* * * *
52148226 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
52148291 CTTTCA
65 CTTTCA
* *
52148297 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
52148353 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:52149650 original size:28 final size:28
Alignment explanation
Indices: 52149610--52149663 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
52149600 GGGTTGTCAC
52149610 AGTACAAGATATGGGAAAGAATATATAG
1 AGTACAAGATATGGGAAAGAATATATAG
52149638 AGTACAAGATATGGGAAAGAATATAT
1 AGTACAAGATATGGGAAAGAATATAT
52149664 TAAACGTGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.50, C:0.04, G:0.24, T:0.22
Consensus pattern (28 bp):
AGTACAAGATATGGGAAAGAATATATAG
Found at i:52152856 original size:67 final size:64
Alignment explanation
Indices: 52152732--52152990 Score: 218
Period size: 67 Copynumber: 4.0 Consensus size: 64
52152722 TGGATGATAC
* ** ** * * *
52152732 AGATAGTATGTAGCTAGATCACATGTATGGTGTTGAGTGCACATCATGT-GTACAAGAGAGCTAC
1 AGATA-TATGTAGCTAGGTCACATGGGTGGTACTAAGTGTACACCATGTAG-ACAAGAGAGCTAC
52152796 AAG
64 --G
* * * * *
52152799 ACATTATATGTAGCTAGGTCGCATGGGTGATTCTATGTGTACACCATGTAGACAAGAGAGCTACG
1 AGA-TATATGTAGCTAGGTCACATGGGTGGTACTAAGTGTACACCATGTAGACAAGAGAGCTACG
* * * * * *
52152864 GGATATATGTAGCTAGGTCACATGCGTGGTCCCAGGTGAAAGACACCATGTAGACAAGAGAGCTA
1 AGATATATGTAGCTAGGTCACATGGGTGGTACTAAGTG---TACACCATGTAGACAAGAGAGCTA
52152929 CG
63 CG
* * *
52152931 AGATAAAT-TGGCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGCT
1 AGATATATGTAGCTAGGTCACATGGGTGGTACTAAGTGTACACCATGTAG-ACAAGAGAGCT
52152991 GAACTATATG
Statistics
Matches: 156, Mismatches: 30, Indels: 16
0.77 0.15 0.08
Matches are distributed among these distances:
62 1 0.01
63 19 0.12
64 29 0.19
65 2 0.01
66 24 0.15
67 78 0.50
68 3 0.02
ACGTcount: A:0.31, C:0.16, G:0.28, T:0.25
Consensus pattern (64 bp):
AGATATATGTAGCTAGGTCACATGGGTGGTACTAAGTGTACACCATGTAGACAAGAGAGCTACG
Found at i:52156865 original size:10 final size:10
Alignment explanation
Indices: 52156850--52156876 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
52156840 TAAGTTGAAG
52156850 TTGAGCTGAT
1 TTGAGCTGAT
52156860 TTGAGCTGAT
1 TTGAGCTGAT
52156870 TTGAGCT
1 TTGAGCT
52156877 TGAAGGAGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.19, C:0.11, G:0.30, T:0.41
Consensus pattern (10 bp):
TTGAGCTGAT
Found at i:52162217 original size:67 final size:67
Alignment explanation
Indices: 52162140--52162275 Score: 200
Period size: 67 Copynumber: 2.0 Consensus size: 67
52162130 GCAAATTTAA
*
52162140 TTTGTCCAGCCGCATGACATAAATTACATTGGTTTGAATGCTGCCGAATTTAATGTGTCTTAACC
1 TTTGTCCAGCCGCATGACATAAATTAAATTGGTTTGAATGCTGCCGAATTTAATGTGTCTTAACC
52162205 CT
66 CT
* ** * * * *
52162207 TTTGTCCAGCCGCATGACATGAATTAAATTGGTTTGTTTTCTGCTGATTTTAATGTGTTTTAACC
1 TTTGTCCAGCCGCATGACATAAATTAAATTGGTTTGAATGCTGCCGAATTTAATGTGTCTTAACC
52162272 CT
66 CT
52162274 TT
1 TT
52162276 AATTGTTGTT
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
67 61 1.00
ACGTcount: A:0.23, C:0.18, G:0.18, T:0.41
Consensus pattern (67 bp):
TTTGTCCAGCCGCATGACATAAATTAAATTGGTTTGAATGCTGCCGAATTTAATGTGTCTTAACC
CT
Found at i:52163940 original size:8 final size:9
Alignment explanation
Indices: 52163916--52163951 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
52163906 TTAAGACACC
*
52163916 ATTTAATTA
1 ATTTAACTA
52163925 ATTTAACTA
1 ATTTAACTA
52163934 A-TTAACTA
1 ATTTAACTA
52163942 ATTTAACTA
1 ATTTAACTA
52163951 A
1 A
52163952 ATAAGTTTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
8 8 0.32
9 17 0.68
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.44
Consensus pattern (9 bp):
ATTTAACTA
Found at i:52163943 original size:17 final size:17
Alignment explanation
Indices: 52163918--52163951 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
52163908 AAGACACCAT
*
52163918 TTAATTAATTTAACTAA
1 TTAACTAATTTAACTAA
52163935 TTAACTAATTTAACTAA
1 TTAACTAATTTAACTAA
52163952 ATAAGTTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.44
Consensus pattern (17 bp):
TTAACTAATTTAACTAA
Found at i:52165734 original size:15 final size:16
Alignment explanation
Indices: 52165714--52165754 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
52165704 TTTCGTTTTC
52165714 CTTTTTCTCA-TTCTT
1 CTTTTTCTCATTTCTT
52165729 CTTTTTCTTTCATTTCTT
1 CTTTTTC--TCATTTCTT
52165747 -TTTTTCTC
1 CTTTTTCTC
52165755 TCAAATTCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
15 9 0.39
17 9 0.39
18 5 0.22
ACGTcount: A:0.05, C:0.24, G:0.00, T:0.71
Consensus pattern (16 bp):
CTTTTTCTCATTTCTT
Found at i:52165763 original size:18 final size:17
Alignment explanation
Indices: 52165715--52165765 Score: 52
Period size: 17 Copynumber: 3.0 Consensus size: 17
52165705 TTCGTTTTCC
52165715 TTTT-TCTC-ATTCTTCT
1 TTTTCTCTCAATTCTT-T
* *
52165731 TTTTCTTTCATTTCTTT
1 TTTTCTCTCAATTCTTT
52165748 TTTTCTCTCAAATTCTTT
1 TTTTCTCTC-AATTCTTT
52165766 CTCACATGTC
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
16 4 0.14
17 12 0.43
18 12 0.43
ACGTcount: A:0.10, C:0.22, G:0.00, T:0.69
Consensus pattern (17 bp):
TTTTCTCTCAATTCTTT
Found at i:52166893 original size:10 final size:11
Alignment explanation
Indices: 52166877--52166909 Score: 50
Period size: 10 Copynumber: 3.1 Consensus size: 11
52166867 TTTTTCTTCA
52166877 CGAATTTTTTT
1 CGAATTTTTTT
52166888 -GAATTTTTTT
1 CGAATTTTTTT
*
52166898 CAAATTTTTTT
1 CGAATTTTTTT
52166909 C
1 C
52166910 TAAAGATACG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.21, C:0.09, G:0.06, T:0.64
Consensus pattern (11 bp):
CGAATTTTTTT
Found at i:52170319 original size:5 final size:5
Alignment explanation
Indices: 52170309--52170369 Score: 56
Period size: 5 Copynumber: 12.0 Consensus size: 5
52170299 AATAGAAAAC
*
52170309 AAAGA AAAGA AAA-A AAAGCA AAAGCA AAAGA AGA-A AAAGA AAATGA
1 AAAGA AAAGA AAAGA AAAG-A AAAG-A AAAGA AAAGA AAAGA AAA-GA
52170355 AATA-A AAAGA AAAGA
1 AA-AGA AAAGA AAAGA
52170370 GAGGCAAGAG
Statistics
Matches: 48, Mismatches: 2, Indels: 12
0.77 0.03 0.19
Matches are distributed among these distances:
4 8 0.17
5 24 0.50
6 15 0.31
7 1 0.02
ACGTcount: A:0.77, C:0.03, G:0.16, T:0.03
Consensus pattern (5 bp):
AAAGA
Found at i:52170331 original size:15 final size:14
Alignment explanation
Indices: 52170302--52170369 Score: 57
Period size: 15 Copynumber: 4.6 Consensus size: 14
52170292 TCTTGTAAAT
* *
52170302 AGAAAACAAAGAAA
1 AGAAAAGAAAAAAA
52170316 AGAAAA-AAAAGCAAA
1 AGAAAAGAAAA--AAA
*
52170331 AGCAAAAGAAGAAAA
1 AG-AAAAGAAAAAAA
52170346 AGAAAATGAAATAAAA
1 AGAAAA-GAAA-AAAA
52170362 AGAAAAGA
1 AGAAAAGA
52170370 GAGGCAAGAG
Statistics
Matches: 45, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
13 3 0.07
14 10 0.22
15 15 0.33
16 14 0.31
17 3 0.07
ACGTcount: A:0.76, C:0.04, G:0.16, T:0.03
Consensus pattern (14 bp):
AGAAAAGAAAAAAA
Found at i:52170337 original size:21 final size:19
Alignment explanation
Indices: 52170309--52170369 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 19
52170299 AATAGAAAAC
52170309 AAAGAAAAGAAAAAAAAGCA
1 AAAGAAAAGAAAAAAAAG-A
*
52170329 AAAGCAAAAGAAGAAAAAGA
1 AAAG-AAAAGAAAAAAAAGA
52170349 AAATGAAATA-AAAAGAAAAGA
1 AAA-GAAA-AGAAAA-AAAAGA
52170370 GAGGCAAGAG
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
20 14 0.40
21 21 0.60
ACGTcount: A:0.77, C:0.03, G:0.16, T:0.03
Consensus pattern (19 bp):
AAAGAAAAGAAAAAAAAGA
Found at i:52170449 original size:11 final size:12
Alignment explanation
Indices: 52170417--52170447 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
52170407 TTGAGAGAAC
52170417 TTGAAAAAGCCT
1 TTGAAAAAGCCT
52170429 TTGAAAAAGCCT
1 TTGAAAAAGCCT
52170441 TTGAAAA
1 TTGAAAA
52170448 GCAAAAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.26
Consensus pattern (12 bp):
TTGAAAAAGCCT
Found at i:52170482 original size:12 final size:12
Alignment explanation
Indices: 52170467--52170500 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
52170457 AAAAGAAAAA
*
52170467 GAAAATGAGATT
1 GAAAAAGAGATT
*
52170479 GAAAAAAAGATT
1 GAAAAAGAGATT
52170491 GAAAAAGAGA
1 GAAAAAGAGA
52170501 ACGAAAAGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.24, T:0.15
Consensus pattern (12 bp):
GAAAAAGAGATT
Found at i:52170496 original size:42 final size:42
Alignment explanation
Indices: 52170450--52170542 Score: 118
Period size: 42 Copynumber: 2.2 Consensus size: 42
52170440 TTTGAAAAGC
*
52170450 AAAAAGAAAAAGAAAAAGAAA-ATGAGATTG-AAAAAAAGATTG
1 AAAAAGAAAAAG-AAAAGAAATATGAGAGTGAAAAAAAAGA-TG
* * *
52170492 AAAAAGAGAACGAAAAGAAATTTGAGAGTGAAAAAAAAGATG
1 AAAAAGAAAAAGAAAAGAAATATGAGAGTGAAAAAAAAGATG
52170534 AAAAAGAAA
1 AAAAAGAAA
52170543 TTGAAACAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
41 8 0.18
42 27 0.61
43 9 0.20
ACGTcount: A:0.68, C:0.01, G:0.20, T:0.11
Consensus pattern (42 bp):
AAAAAGAAAAAGAAAAGAAATATGAGAGTGAAAAAAAAGATG
Found at i:52172902 original size:26 final size:26
Alignment explanation
Indices: 52172866--52173027 Score: 249
Period size: 26 Copynumber: 6.2 Consensus size: 26
52172856 TGATACAAAT
52172866 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
52172892 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
52172918 TGATAATGGGTTAGGTAAATGCTT-CA
1 TGATAATAGGTTAGGTAAATG-TTCCA
52172944 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
52172970 TGATAAT-GAGTTAGGTAAATGTTTCA
1 TGATAATAG-GTTAGGTAAATGTTCCA
*
52172996 TGATAAT-GAGTTAGGTAAATGTTTCA
1 TGATAATAG-GTTAGGTAAATGTTCCA
52173022 TGATAA
1 TGATAA
52173028 GAATTTCATG
Statistics
Matches: 130, Mismatches: 3, Indels: 6
0.94 0.02 0.04
Matches are distributed among these distances:
25 3 0.02
26 125 0.96
27 2 0.02
ACGTcount: A:0.35, C:0.06, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:52172960 original size:78 final size:78
Alignment explanation
Indices: 52172866--52173027 Score: 281
Period size: 78 Copynumber: 2.1 Consensus size: 78
52172856 TGATACAAAT
*
52172866 TGATAATAGGTTAGGTAAATGTTCCATGATAAT-AGGTTAGGTAAATGTTCCATGATAATGGGTT
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATGA-GTTAGGTAAATGTTCCATGATAATGAGTT
52172930 AGGTAAATGCTTCA
65 AGGTAAATGCTTCA
*
52172944 TGATAATAGGTTAGGTAAATGTTCCATGATAATGAGTTAGGTAAATGTTTCATGATAATGAGTTA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATGAGTTAGGTAAATGTTCCATGATAATGAGTTA
*
52173009 GGTAAATGTTTCA
66 GGTAAATGCTTCA
52173022 TGATAA
1 TGATAA
52173028 GAATTTCATG
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
78 79 0.99
79 1 0.01
ACGTcount: A:0.35, C:0.06, G:0.23, T:0.36
Consensus pattern (78 bp):
TGATAATAGGTTAGGTAAATGTTCCATGATAATGAGTTAGGTAAATGTTCCATGATAATGAGTTA
GGTAAATGCTTCA
Found at i:52175864 original size:14 final size:14
Alignment explanation
Indices: 52175845--52175889 Score: 65
Period size: 14 Copynumber: 3.3 Consensus size: 14
52175835 AACTCATCTT
*
52175845 AGTTTAATTAAATG
1 AGTTTAATTTAATG
52175859 AGTTT-ATTTAATG
1 AGTTTAATTTAATG
*
52175872 AATTTAATTTAATG
1 AGTTTAATTTAATG
52175886 AGTT
1 AGTT
52175890 GCTTCTTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
13 11 0.41
14 16 0.59
ACGTcount: A:0.38, C:0.00, G:0.13, T:0.49
Consensus pattern (14 bp):
AGTTTAATTTAATG
Found at i:52176902 original size:29 final size:29
Alignment explanation
Indices: 52176869--52176928 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
52176859 ATAACCAAAC
*
52176869 CTACAAAAACTTTATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
*
52176898 CTACATAAACTTCATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
52176927 CT
1 CT
52176929 TTGAATCCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.42, C:0.30, G:0.00, T:0.28
Consensus pattern (29 bp):
CTACAAAAACTTCATATCCATAAACCCAT
Found at i:52176921 original size:15 final size:15
Alignment explanation
Indices: 52176875--52176922 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
52176865 AAACCTACAA
*
52176875 AAACTTTATATCCAT
1 AAACTTCATATCCAT
* * *
52176890 AAAC-CCATCTACAT
1 AAACTTCATATCCAT
52176904 AAACTTCATATCCAT
1 AAACTTCATATCCAT
52176919 AAAC
1 AAAC
52176923 CCATCTTTGA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.44, C:0.27, G:0.00, T:0.29
Consensus pattern (15 bp):
AAACTTCATATCCAT
Found at i:52177330 original size:30 final size:31
Alignment explanation
Indices: 52177285--52177391 Score: 105
Period size: 30 Copynumber: 3.6 Consensus size: 31
52177275 CATCTTGCCT
* *
52177285 GAGCTAAACC-GAGCTC-ACTTTCAACTCAC
1 GAGCTAAACCTTAGCTCAACTTTCAGCTCAC
* *
52177314 GAGCTAAACCTTAGCTCAAC-TTCAGCTTAG
1 GAGCTAAACCTTAGCTCAACTTTCAGCTCAC
* * * *
52177344 GAGTTTAGCCTCAGCTCAACTTT-AGCTCAC
1 GAGCTAAACCTTAGCTCAACTTTCAGCTCAC
*
52177374 GAGCTAAAGCTTAGCTCA
1 GAGCTAAACCTTAGCTCA
52177392 TTTTAGTTTA
Statistics
Matches: 60, Mismatches: 15, Indels: 5
0.75 0.19 0.06
Matches are distributed among these distances:
29 10 0.17
30 46 0.77
31 4 0.07
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (31 bp):
GAGCTAAACCTTAGCTCAACTTTCAGCTCAC
Found at i:52183316 original size:40 final size:40
Alignment explanation
Indices: 52183237--52183394 Score: 151
Period size: 40 Copynumber: 4.0 Consensus size: 40
52183227 TTCGAATGAT
* * * *
52183237 ATCCGGGCTAAG-TCCCGAAGGC-TTTGTGCTAAGTGACTAA
1 ATCCGGACTAAGAT-CCGAAGGCATTCGTGC-GAGTTACTAA
* *
52183277 ATCCGGACTAAGATCCGACGGCATACGTGCGAGTTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
* * * *
52183317 ATCCGGACTAAGATCCGAAGGCTTTCGAGCAAGCTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
** *
52183357 ATCCGGGTTGAG-TCCCGAAGGCATTCGTGCGAGTTACT
1 ATCCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTACT
52183395 GTAACCGGGC
Statistics
Matches: 96, Mismatches: 19, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
39 1 0.01
40 89 0.93
41 6 0.06
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
Found at i:52183415 original size:80 final size:80
Alignment explanation
Indices: 52183237--52183424 Score: 206
Period size: 80 Copynumber: 2.3 Consensus size: 80
52183227 TTCGAATGAT
* *
52183237 ATCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGACGGCATA
1 ATCCGGGCTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATA
52183302 CGTGCGAGTTACTAA
66 CGTGCGAGTTACTAA
* ** *
52183317 ATCCGGACTAAGAT-CCGAAGGCTTTCGAGC-AAGCT-ACTAAATCCGGGTTGAG-TCCCGAAGG
1 ATCCGGGCTAAG-TCCCGAAGGCTTT-GAGCTAAG-TGACTAAATCCGGACTAAGAT-CCGAAGG
* *
52183378 CATTCGTGCGAGTTACTGTA
62 CATACGTGCGAGTTACT-AA
*
52183398 A-CCGGGCTATGTCCCGAAGGCATTTGA
1 ATCCGGGCTAAGTCCCGAAGGC-TTTGA
52183425 ATGTGTAGCC
Statistics
Matches: 91, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
79 2 0.02
80 79 0.87
81 10 0.11
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (80 bp):
ATCCGGGCTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATA
CGTGCGAGTTACTAA
Found at i:52191368 original size:40 final size:40
Alignment explanation
Indices: 52191289--52191446 Score: 151
Period size: 40 Copynumber: 4.0 Consensus size: 40
52191279 TTCGAATGAT
* * * *
52191289 ATCCGGGCTAAG-TCCCGAAGGC-TTTGTGCTAAGTGACTAA
1 ATCCGGACTAAGAT-CCGAAGGCATTCGTGC-GAGTTACTAA
* *
52191329 ATCCGGACTAAGATCCGACGGCATACGTGCGAGTTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
* * * *
52191369 ATCCGGACTAAGATCCGAAGGCTTTCGAGCAAGCTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
** *
52191409 ATCCGGGTTGAG-TCCCGAAGGCATTCGTGCGAGTTACT
1 ATCCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTACT
52191447 GTAACCGGGC
Statistics
Matches: 96, Mismatches: 19, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
39 1 0.01
40 89 0.93
41 6 0.06
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
Found at i:52191467 original size:80 final size:80
Alignment explanation
Indices: 52191289--52191476 Score: 206
Period size: 80 Copynumber: 2.3 Consensus size: 80
52191279 TTCGAATGAT
* *
52191289 ATCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGACGGCATA
1 ATCCGGGCTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATA
52191354 CGTGCGAGTTACTAA
66 CGTGCGAGTTACTAA
* ** *
52191369 ATCCGGACTAAGAT-CCGAAGGCTTTCGAGC-AAGCT-ACTAAATCCGGGTTGAG-TCCCGAAGG
1 ATCCGGGCTAAG-TCCCGAAGGCTTT-GAGCTAAG-TGACTAAATCCGGACTAAGAT-CCGAAGG
* *
52191430 CATTCGTGCGAGTTACTGTA
62 CATACGTGCGAGTTACT-AA
*
52191450 A-CCGGGCTATGTCCCGAAGGCATTTGA
1 ATCCGGGCTAAGTCCCGAAGGC-TTTGA
52191477 ATGTGTAGCC
Statistics
Matches: 91, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
79 2 0.02
80 79 0.87
81 10 0.11
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (80 bp):
ATCCGGGCTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATA
CGTGCGAGTTACTAA
Found at i:52199439 original size:40 final size:40
Alignment explanation
Indices: 52199360--52199517 Score: 151
Period size: 40 Copynumber: 4.0 Consensus size: 40
52199350 TTCGAATGAT
* * * *
52199360 ATCCGGGCTAAG-TCCCGAAGGC-TTTGTGCTAAGTGACTAA
1 ATCCGGACTAAGAT-CCGAAGGCATTCGTGC-GAGTTACTAA
* *
52199400 ATCCGGACTAAGATCCGACGGCATACGTGCGAGTTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
* * * *
52199440 ATCCGGACTAAGATCCGAAGGCTTTCGAGCAAGCTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
** *
52199480 ATCCGGGTTGAG-TCCCGAAGGCATTCGTGCGAGTTACT
1 ATCCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTACT
52199518 GTAACCGGGC
Statistics
Matches: 96, Mismatches: 19, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
39 1 0.01
40 89 0.93
41 6 0.06
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
Found at i:52199538 original size:80 final size:80
Alignment explanation
Indices: 52199360--52199547 Score: 206
Period size: 80 Copynumber: 2.3 Consensus size: 80
52199350 TTCGAATGAT
* *
52199360 ATCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGACGGCATA
1 ATCCGGGCTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATA
52199425 CGTGCGAGTTACTAA
66 CGTGCGAGTTACTAA
* ** *
52199440 ATCCGGACTAAGAT-CCGAAGGCTTTCGAGC-AAGCT-ACTAAATCCGGGTTGAG-TCCCGAAGG
1 ATCCGGGCTAAG-TCCCGAAGGCTTT-GAGCTAAG-TGACTAAATCCGGACTAAGAT-CCGAAGG
* *
52199501 CATTCGTGCGAGTTACTGTA
62 CATACGTGCGAGTTACT-AA
*
52199521 A-CCGGGCTATGTCCCGAAGGCATTTGA
1 ATCCGGGCTAAGTCCCGAAGGC-TTTGA
52199548 ATGTGTAGCC
Statistics
Matches: 91, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
79 2 0.02
80 79 0.87
81 10 0.11
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (80 bp):
ATCCGGGCTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATA
CGTGCGAGTTACTAA
Found at i:52206150 original size:27 final size:27
Alignment explanation
Indices: 52206114--52206277 Score: 165
Period size: 27 Copynumber: 6.1 Consensus size: 27
52206104 ATACCCCTAG
*
52206114 TTGTAAAATTA-CCAAAGTACCCTCGGT
1 TTGTAAAATTATCCAAA-TACCCTCGAT
* * *
52206141 TTATAAAATTACCCAAATATCCTCGAT
1 TTGTAAAATTATCCAAATACCCTCGAT
52206168 TTGTAAAATTA-CCGAAATACCCTC-AGT
1 TTGTAAAATTATCC-AAATACCCTCGA-T
* **
52206195 TTGCAAAATTATTGAAATACCCTCGAT
1 TTGTAAAATTATCCAAATACCCTCGAT
** *
52206222 TTGTAAAATTATTGAAATACCCTCGAC
1 TTGTAAAATTATCCAAATACCCTCGAT
*
52206249 TTGTAAAATTAT-CAAAGTACCCCCGAT
1 TTGTAAAATTATCCAAA-TACCCTCGAT
52206276 TT
1 TT
52206278 ACAGAATTAT
Statistics
Matches: 118, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
26 6 0.05
27 106 0.90
28 6 0.05
ACGTcount: A:0.37, C:0.21, G:0.10, T:0.32
Consensus pattern (27 bp):
TTGTAAAATTATCCAAATACCCTCGAT
Found at i:52206270 original size:81 final size:81
Alignment explanation
Indices: 52206118--52206324 Score: 204
Period size: 81 Copynumber: 2.6 Consensus size: 81
52206108 CCCTAGTTGT
* * *** * *
52206118 AAAATTA-CCAAAGTACCCTCGGTTTATAAAATTACCCAAATATCCTCGATTTGTAAAATTACCG
1 AAAATTATCGAAA-TACCCTCGATTTATAAAATTATTAAAATACCCTCGACTTGTAAAATTACCG
*
52206182 AAATACCCTCAG-TTTGC
65 AAATACCC-CAGATTTAC
* * * *
52206199 AAAATTATTGAAATACCCTCGATTTGTAAAATTATTGAAATACCCTCGACTTGTAAAATTATC-A
1 AAAATTATCGAAATACCCTCGATTTATAAAATTATTAAAATACCCTCGACTTGTAAAATTACCGA
*
52206263 AAGTACCCCCGATTTAC
66 AA-TACCCCAGATTTAC
* *** *
52206280 AGAATTATCGTTTTACCCTCGATTTACAAAATTATTAAAATACCC
1 AAAATTATCGAAATACCCTCGATTTATAAAATTATTAAAATACCC
52206325 CTGTAGGGTA
Statistics
Matches: 103, Mismatches: 20, Indels: 6
0.80 0.16 0.05
Matches are distributed among these distances:
80 5 0.05
81 95 0.92
82 3 0.03
ACGTcount: A:0.38, C:0.21, G:0.09, T:0.32
Consensus pattern (81 bp):
AAAATTATCGAAATACCCTCGATTTATAAAATTATTAAAATACCCTCGACTTGTAAAATTACCGA
AATACCCCAGATTTAC
Found at i:52206285 original size:27 final size:27
Alignment explanation
Indices: 52206118--52206325 Score: 94
Period size: 27 Copynumber: 7.7 Consensus size: 27
52206108 CCCTAGTTGT
* * * * *
52206118 AAAATTACCAAAGTACCCTCGGTTTAT
1 AAAATTATCAAAATACCCCCGATTTAC
* * * * **
52206145 AAAATTACCCAAATATCCTCGATTTGT
1 AAAATTATCAAAATACCCCCGATTTAC
* * * *
52206172 AAAATTACCGAAATACCCTC-AGTTTGC
1 AAAATTATCAAAATACCCCCGA-TTTAC
** * **
52206199 AAAATTATTGAAATACCCTCGATTTGT
1 AAAATTATCAAAATACCCCCGATTTAC
** * * **
52206226 AAAATTATTGAAATACCCTCGACTTGT
1 AAAATTATCAAAATACCCCCGATTTAC
*
52206253 AAAATTATCAAAGTACCCCCGATTTAC
1 AAAATTATCAAAATACCCCCGATTTAC
* **** *
52206280 AGAATTATCGTTTTACCCTCGATTTAC
1 AAAATTATCAAAATACCCCCGATTTAC
*
52206307 AAAATTATTAAAATACCCC
1 AAAATTATCAAAATACCCC
52206326 TGTAGGGTAG
Statistics
Matches: 147, Mismatches: 32, Indels: 4
0.80 0.17 0.02
Matches are distributed among these distances:
26 1 0.01
27 145 0.99
28 1 0.01
ACGTcount: A:0.38, C:0.22, G:0.09, T:0.32
Consensus pattern (27 bp):
AAAATTATCAAAATACCCCCGATTTAC
Found at i:52206339 original size:27 final size:27
Alignment explanation
Indices: 52206317--52206800 Score: 646
Period size: 27 Copynumber: 18.0 Consensus size: 27
52206307 AAAATTATTA
52206317 AAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * *
52206344 AAATACCCTTTTAGGGTAGAAATACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
*
52206371 AAATACCCCTGTA-GGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACCG
52206397 AAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
** *
52206424 AAATACCGTTGTAGGGTAGAAATACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
52206451 AAATACCCTTGTAGGGTAGAAATACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
**
52206478 AAATACCCCTGTAGGGTAGAATTACTA
1 AAATACCCCTGTAGGGTAGAATTACCG
52206505 AAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
52206532 AAATACCCTTGTAGGGTAGAAATACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
52206559 AAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
52206586 AAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * *
52206613 AAATACCCTTGTAGGGTAGAAATACTG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * * *
52206640 AAATACCCTTGTAGGGTAGAAATATCA
1 AAATACCCCTGTAGGGTAGAATTACCG
* **
52206667 AAATACCCCTATAGGGTAGAATTACTA
1 AAATACCCCTGTAGGGTAGAATTACCG
* * *
52206694 AAATACCCCTGTAAGATAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * *
52206721 AAATACCCTTGTAGGGTAGAAATATCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
52206748 AAATGCCCCTGTAGGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * * *
52206775 AGATACCCTTGTGGGGTAAAATTACC
1 AAATACCCCTGTAGGGTAGAATTACC
52206801 ATTTTGCCCC
Statistics
Matches: 402, Mismatches: 54, Indels: 2
0.88 0.12 0.00
Matches are distributed among these distances:
26 24 0.06
27 378 0.94
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (27 bp):
AAATACCCCTGTAGGGTAGAATTACCG
Found at i:52207478 original size:26 final size:26
Alignment explanation
Indices: 52207441--52207519 Score: 104
Period size: 26 Copynumber: 3.0 Consensus size: 26
52207431 TATTCTGTTA
* *
52207441 AGTGGCTTTGCCACATTATCTGTTCT
1 AGTGGCTCTGCCACAATATCTGTTCT
52207467 AGTGGCTCTGCCACAATATCTGTATCT
1 AGTGGCTCTGCCACAATATCTGT-TCT
* * *
52207494 GGTGACTCTGTCACAATATCTGTTCT
1 AGTGGCTCTGCCACAATATCTGTTCT
52207520 GGCAGCCATG
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
26 24 0.51
27 23 0.49
ACGTcount: A:0.19, C:0.24, G:0.19, T:0.38
Consensus pattern (26 bp):
AGTGGCTCTGCCACAATATCTGTTCT
Found at i:52207508 original size:27 final size:26
Alignment explanation
Indices: 52207449--52207521 Score: 101
Period size: 27 Copynumber: 2.8 Consensus size: 26
52207439 TAAGTGGCTT
* * *
52207449 TGCCACATTATCTGTTCTAGTGGCTC
1 TGCCACAATATCTGTTCTGGTGACTC
52207475 TGCCACAATATCTGTATCTGGTGACTC
1 TGCCACAATATCTGT-TCTGGTGACTC
*
52207502 TGTCACAATATCTGTTCTGG
1 TGCCACAATATCTGTTCTGG
52207522 CAGCCATGCT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 19 0.45
27 23 0.55
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.37
Consensus pattern (26 bp):
TGCCACAATATCTGTTCTGGTGACTC
Found at i:52209715 original size:24 final size:24
Alignment explanation
Indices: 52209695--52209779 Score: 127
Period size: 24 Copynumber: 3.5 Consensus size: 24
52209685 TCCAATCCCT
52209695 ACACATAGTGCCATACAAA-TCTGC
1 ACACATAGTGCCATACAAATTC-GC
52209719 ACACATAGTGCCATACAAATTCGC
1 ACACATAGTGCCATACAAATTCGC
* *
52209743 ACACATAGTGCCATTCAAATTCAC
1 ACACATAGTGCCATACAAATTCGC
*
52209767 ACACATAATGCCA
1 ACACATAGTGCCA
52209780 AAATCATTTC
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
24 55 0.96
25 2 0.04
ACGTcount: A:0.39, C:0.29, G:0.11, T:0.21
Consensus pattern (24 bp):
ACACATAGTGCCATACAAATTCGC
Found at i:52209771 original size:72 final size:72
Alignment explanation
Indices: 52209643--52209779 Score: 161
Period size: 72 Copynumber: 1.9 Consensus size: 72
52209633 CCATGTTAAC
* ** * * * *
52209643 CTGCACACATAGTGCCTTAGTAATTCACATACATATGGACATTCCAATCCCTACACATAGTGCCA
1 CTGCACACATAGTGCCATACAAATTCACACACATATGGACATTCAAATCACTACACATAATGCCA
52209708 TACAAAT
66 TACAAAT
* *
52209715 CTGCACACATAGTGCCATACAAATTCGCACACATA-GTGCCATTCAAATTCAC-ACACATAATGC
1 CTGCACACATAGTGCCATACAAATTCACACACATATG-GACATTCAAA-TCACTACACATAATGC
52209778 CA
64 CA
52209780 AAATCATTTC
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
71 1 0.02
72 50 0.93
73 3 0.06
ACGTcount: A:0.36, C:0.29, G:0.11, T:0.24
Consensus pattern (72 bp):
CTGCACACATAGTGCCATACAAATTCACACACATATGGACATTCAAATCACTACACATAATGCCA
TACAAAT
Found at i:52212024 original size:40 final size:40
Alignment explanation
Indices: 52211979--52212145 Score: 167
Period size: 40 Copynumber: 4.2 Consensus size: 40
52211969 CGGAATATAA
52211979 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
52212019 CCGGATAGAATGA-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
52212058 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
52212098 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
52212138 CCGGATAT
1 CCGGATAT
52212146 CATTCAATTT
Statistics
Matches: 103, Mismatches: 22, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
38 1 0.01
39 31 0.30
40 71 0.69
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:52220063 original size:40 final size:39
Alignment explanation
Indices: 52219972--52220122 Score: 126
Period size: 40 Copynumber: 3.8 Consensus size: 39
52219962 ATAACCACGT
* * *
52219972 GCACAAATGCCTTCAGGTCTTAGCCCGGATAGAATGTCTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
*
52220012 GCACGAATGCCTTCGGGTCTTAGCCCGGAT-GTA-GCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAATG--ACTA
* * ** *
52220052 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
* * *
52220092 GCATAATTGTCTTCGGGGCTTAGCCCGGATA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATA
52220123 TCATTCAATT
Statistics
Matches: 91, Mismatches: 15, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
38 1 0.01
39 4 0.04
40 85 0.93
41 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
Found at i:52220106 original size:80 final size:80
Alignment explanation
Indices: 52219972--52220121 Score: 196
Period size: 80 Copynumber: 1.9 Consensus size: 80
52219962 ATAACCACGT
* *
52219972 GCACAAATGCCTTCAGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCAGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
52220037 CGGATGTAGCCACTA
66 CGGATGTAGCCACTA
* * * * * *
52220052 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCAGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGGCTTAG
52220115 CCCGGAT
64 CCCGGAT
52220122 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
79 3 0.05
80 57 0.95
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCAGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATGTAGCCACTA
Found at i:52222135 original size:17 final size:17
Alignment explanation
Indices: 52222113--52222146 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
52222103 CCCCACTTAA
*
52222113 TATATTATAACTTATTT
1 TATATTATAACATATTT
52222130 TATATTATAACATATTT
1 TATATTATAACATATTT
52222147 CAATTATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (17 bp):
TATATTATAACATATTT
Found at i:52225919 original size:6 final size:6
Alignment explanation
Indices: 52225874--52225952 Score: 54
Period size: 6 Copynumber: 12.8 Consensus size: 6
52225864 TATTAGAACT
* * * * *
52225874 AGAATC AAAATG AGAATT AGAATC ATAATC AG-GTGAC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
*
52225923 AGTATC AGGTAA-C AGAATC AGAATC AGAAT
1 AGAATC A-G-AATC AGAATC AGAATC AGAAT
52225953 GTGAATGCAA
Statistics
Matches: 56, Mismatches: 11, Indels: 12
0.71 0.14 0.15
Matches are distributed among these distances:
5 3 0.05
6 45 0.80
7 6 0.11
8 2 0.04
ACGTcount: A:0.48, C:0.13, G:0.19, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:52225920 original size:25 final size:25
Alignment explanation
Indices: 52225886--52225949 Score: 94
Period size: 25 Copynumber: 2.6 Consensus size: 25
52225876 AATCAAAATG
* *
52225886 AGAATTAGAATCA-TAATCAGGTGAC
1 AGAATCAGAATCAGT-ATCAGGTAAC
52225911 AGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGTATCAGGTAAC
52225936 AGAATCAGAATCAG
1 AGAATCAGAATCAG
52225950 AATGTGAATG
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
25 35 0.97
26 1 0.03
ACGTcount: A:0.45, C:0.14, G:0.20, T:0.20
Consensus pattern (25 bp):
AGAATCAGAATCAGTATCAGGTAAC
Found at i:52226107 original size:27 final size:26
Alignment explanation
Indices: 52226069--52226119 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
52226059 CAGCATGGCT
*
52226069 ACCAGAACAGATATTGTGACAGAGTC
1 ACCAGAACAGATAATGTGACAGAGTC
*
52226095 ACCAGATACAGATAATGTGGCAGAG
1 ACCAGA-ACAGATAATGTGACAGAG
52226120 CCACTTAACA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 6 0.27
27 16 0.73
ACGTcount: A:0.39, C:0.18, G:0.25, T:0.18
Consensus pattern (26 bp):
ACCAGAACAGATAATGTGACAGAGTC
Found at i:52226310 original size:22 final size:22
Alignment explanation
Indices: 52226282--52226346 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
52226272 GCAAATATGT
*
52226282 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
52226304 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
52226326 TTGGCGCAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
52226347 AATAATTGGC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 2 0.06
22 32 0.89
23 2 0.06
ACGTcount: A:0.31, C:0.23, G:0.26, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:52226764 original size:27 final size:27
Alignment explanation
Indices: 52226734--52227228 Score: 452
Period size: 27 Copynumber: 18.4 Consensus size: 27
52226724 GGGGAAAAAT
* *
52226734 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* *
52226761 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
*
52226788 GGT-ATTTCTACCTTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
* * * *
52226815 GGTAATTCTATCCTACAGGGGTATTTT
1 GGTAATTTTACCCTACAAGGGTATTTC
* * * * *
52226842 AGTAATTCTACCCTACAGGGGAATTTT
1 GGTAATTTTACCCTACAAGGGTATTTC
* *
52226869 GAT-ATTTCTACCCTATAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
* * *
52226896 GGT-ATTTCTATCCTATAGGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
** * *
52226923 AATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
52226950 GGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
*
52226977 AGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
* * *
52227004 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTTTACCCTACAAGGGTATTTC
* * *
52227031 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
52227058 GGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
*
52227085 GGT-ATTTCTACCCTACAAGGGTATTTG
1 GGTAATTT-TACCCTACAAGGGTATTTC
* * *
52227112 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
** * *
52227139 AATAA-TTTACCCTATAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
*
52227165 GGT-ATTTCTACCCTAAAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
* *
52227192 GG-CATTTCTACCCTACAGGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
**
52227219 AATAATTTTA
1 GGTAATTTTA
52227229 TAAATCGAGG
Statistics
Matches: 395, Mismatches: 61, Indels: 24
0.82 0.13 0.05
Matches are distributed among these distances:
25 1 0.00
26 35 0.09
27 343 0.87
28 16 0.04
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.37
Consensus pattern (27 bp):
GGTAATTTTACCCTACAAGGGTATTTC
Found at i:52226806 original size:54 final size:54
Alignment explanation
Indices: 52226738--52227218 Score: 606
Period size: 54 Copynumber: 8.9 Consensus size: 54
52226728 AAAAATGGTA
* *
52226738 ATTT-TACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCGGT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGT
* * **
52226791 ATTTCTACCTTACAAGGGTATTTCGGTAATTCTATCCTACAGGGGTATTTTAGT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGT
* * * * * * * *
52226845 AATTCTACCCTACAGGGGAATTTTGATATTTCTACCCTATAAGGGTATTTCGGT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGT
* * * **
52226899 ATTTCTATCCTATAGGGGTATTTCAATAATTCTACCCTACAGGGGTATTTCGGT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGT
* * *
52226953 ATTTCTACCCTACAAGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCGGT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGT
* * **
52227007 AATTCTACCCTACAGGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCGGT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGT
* * *
52227061 ATTTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTGGGT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGT
* * * ** *
52227115 AATTCTACCCTATAGGGGTATTTCAATAATT-TACCCTATAGGGGTATTTCGGT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGT
* * *
52227168 ATTTCTACCCTAAAAGGGTATTTCGGCATTTCTACCCTACAGGGGTATTTC
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
52227219 AATAATTTTA
Statistics
Matches: 364, Mismatches: 62, Indels: 3
0.85 0.14 0.01
Matches are distributed among these distances:
53 47 0.13
54 317 0.87
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (54 bp):
ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGT
Found at i:52226875 original size:81 final size:81
Alignment explanation
Indices: 52226738--52227218 Score: 606
Period size: 81 Copynumber: 6.0 Consensus size: 81
52226728 AAAAATGGTA
* * * *
52226738 ATTT-TACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCTT
1 ATTTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCT
52226802 ACAAGGGTATTTCGGT
66 ACAAGGGTATTTCGGT
* * ** * * *
52226818 AATTCTATCCTACAGGGGTATTTTAGTAATTCTACCCTACAGGGGAATTTTGATATTTCTACCCT
1 ATTTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCT
*
52226883 ATAAGGGTATTTCGGT
66 ACAAGGGTATTTCGGT
* * **
52226899 ATTTCTATCCTATAGGGGTATTTCAATAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCT
1 ATTTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCT
*
52226964 ACAAGGGTATTTCAGT
66 ACAAGGGTATTTCGGT
* ** *
52226980 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTAGTAATTCTACCCT
1 ATTTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCT
*
52227045 ACAGGGGTATTTCGGT
66 ACAAGGGTATTTCGGT
* * * * *
52227061 ATTTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTGGGTAATTCTACCCT
1 ATTTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCT
* * **
52227126 ATAGGGGTATTTCAAT
66 ACAAGGGTATTTCGGT
* * * * * *
52227142 AATT-TACCCTATAGGGGTATTTCGGTATTTCTACCCTAAAAGGGTATTTCGGCATTTCTACCCT
1 ATTTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCT
*
52227206 ACAGGGGTATTTC
66 ACAAGGGTATTTC
52227219 AATAATTTTA
Statistics
Matches: 354, Mismatches: 46, Indels: 2
0.88 0.11 0.00
Matches are distributed among these distances:
80 69 0.19
81 285 0.81
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (81 bp):
ATTTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCT
ACAAGGGTATTTCGGT
Found at i:52227240 original size:27 final size:26
Alignment explanation
Indices: 52227210--52227387 Score: 128
Period size: 27 Copynumber: 6.6 Consensus size: 26
52227200 TACCCTACAG
* *
52227210 GGGTATTTCAATAATTTTATAAATCGA
1 GGGTATTT-AGTAATTTTACAAATCGA
** * * **
52227237 GGGTAAAATGGTAATTCTGTAAATCGA
1 GGGT-ATTTAGTAATTTTACAAATCGA
*
52227264 GGGTACTTT-GATAATTTTACAAGTCGA
1 GGGTA-TTTAG-TAATTTTACAAATCGA
*
52227291 GGGTATTTTAGTAATTTTACAAATTGA
1 GGGTA-TTTAGTAATTTTACAAATCGA
*
52227318 GGGTATTTTAGTAATTTTACAAA-CTGG
1 GGGTA-TTTAGTAATTTTACAAATC-GA
* * *
52227345 GGGTACTTTGGTAATTTTACAACT-GG
1 GGGTA-TTTAGTAATTTTACAAATCGA
52227371 GGGTATTTTAGTAATTT
1 GGGTA-TTTAGTAATTT
52227388 GGTAAACTAA
Statistics
Matches: 123, Mismatches: 22, Indels: 13
0.78 0.14 0.08
Matches are distributed among these distances:
26 19 0.15
27 101 0.82
28 3 0.02
ACGTcount: A:0.31, C:0.07, G:0.22, T:0.40
Consensus pattern (26 bp):
GGGTATTTAGTAATTTTACAAATCGA
Found at i:52227332 original size:81 final size:80
Alignment explanation
Indices: 52227210--52227387 Score: 198
Period size: 81 Copynumber: 2.2 Consensus size: 80
52227200 TACCCTACAG
* * * * *
52227210 GGGTATTTCAATAATTTTATAAATCGAGGGTAAAATGGTAATTCTGTA-AATC-GAGGGTACTTT
1 GGGTATTTTAGTAATTTTACAAATCGAGGGTAAAATAGTAATT-T-TACAAACTGAGGGTACTTT
*
52227273 GATAATTTTACAAGTCGA
64 GATAATTTTACAACT-GA
* *** * *
52227291 GGGTATTTTAGTAATTTTACAAATTGAGGGTATTTTAGTAATTTTACAAACTGGGGGTACTTTGG
1 GGGTATTTTAGTAATTTTACAAATCGAGGGTAAAATAGTAATTTTACAAACTGAGGGTACTTTGA
*
52227356 TAATTTTACAACTGG
66 TAATTTTACAACTGA
52227371 GGGTATTTTAGTAATTT
1 GGGTATTTTAGTAATTT
52227388 GGTAAACTAA
Statistics
Matches: 82, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
79 2 0.02
80 22 0.27
81 58 0.71
ACGTcount: A:0.31, C:0.07, G:0.22, T:0.40
Consensus pattern (80 bp):
GGGTATTTTAGTAATTTTACAAATCGAGGGTAAAATAGTAATTTTACAAACTGAGGGTACTTTGA
TAATTTTACAACTGA
Found at i:52227375 original size:26 final size:27
Alignment explanation
Indices: 52227262--52227387 Score: 150
Period size: 27 Copynumber: 4.7 Consensus size: 27
52227252 TCTGTAAATC
* *
52227262 GAGGGTACTTT-GATAATTTTAC-AAGT
1 GAGGGTATTTTAG-TAATTTTACAAACT
*
52227288 CGAGGGTATTTTAGTAATTTTACAAATT
1 -GAGGGTATTTTAGTAATTTTACAAACT
52227316 GAGGGTATTTTAGTAATTTTACAAACT
1 GAGGGTATTTTAGTAATTTTACAAACT
* * *
52227343 GGGGGTACTTTGGTAATTTTAC-AACT
1 GAGGGTATTTTAGTAATTTTACAAACT
*
52227369 GGGGGTATTTTAGTAATTT
1 GAGGGTATTTTAGTAATTT
52227388 GGTAAACTAA
Statistics
Matches: 89, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
26 21 0.24
27 64 0.72
28 4 0.04
ACGTcount: A:0.29, C:0.07, G:0.23, T:0.41
Consensus pattern (27 bp):
GAGGGTATTTTAGTAATTTTACAAACT
Found at i:52227395 original size:27 final size:27
Alignment explanation
Indices: 52227291--52227387 Score: 151
Period size: 27 Copynumber: 3.6 Consensus size: 27
52227281 TACAAGTCGA
* *
52227291 GGGTATTTTAGTAATTTTACAAATTGA
1 GGGTATTTTAGTAATTTTACAAACTGG
52227318 GGGTATTTTAGTAATTTTACAAACTGG
1 GGGTATTTTAGTAATTTTACAAACTGG
* *
52227345 GGGTACTTTGGTAATTTTAC-AACTGG
1 GGGTATTTTAGTAATTTTACAAACTGG
52227371 GGGTATTTTAGTAATTT
1 GGGTATTTTAGTAATTT
52227388 GGTAAACTAA
Statistics
Matches: 64, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
26 21 0.33
27 43 0.67
ACGTcount: A:0.28, C:0.06, G:0.23, T:0.43
Consensus pattern (27 bp):
GGGTATTTTAGTAATTTTACAAACTGG
Found at i:52235822 original size:45 final size:45
Alignment explanation
Indices: 52235757--52235887 Score: 210
Period size: 45 Copynumber: 2.9 Consensus size: 45
52235747 TATTGTACGG
* *
52235757 TACTATTCGGGCCTTGGAGCCTAGCAGGCTATAATGCCTGTGAGA
1 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGA
* *
52235802 TACTATTCGGGCCTTTGAGCCTAGTAGGCTATAATGCCGGTGAGA
1 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGA
*
52235847 TACTATTCGGGCCTTCGAGCCTAGCAGGCGA-AATGCCGGTG
1 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTG
52235888 GATGAATTCG
Statistics
Matches: 80, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
44 10 0.12
45 70 0.88
ACGTcount: A:0.21, C:0.23, G:0.30, T:0.26
Consensus pattern (45 bp):
TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGA
Found at i:52241256 original size:23 final size:23
Alignment explanation
Indices: 52241230--52241277 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
52241220 CCATCAGAGA
52241230 TAGAAATTCAGTCTGATTTGAGT
1 TAGAAATTCAGTCTGATTTGAGT
52241253 TAGAAATTCAGTCTGATTTGAGT
1 TAGAAATTCAGTCTGATTTGAGT
52241276 TA
1 TA
52241278 TGAAGAGGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40
Consensus pattern (23 bp):
TAGAAATTCAGTCTGATTTGAGT
Found at i:52243834 original size:45 final size:45
Alignment explanation
Indices: 52243770--52243988 Score: 320
Period size: 45 Copynumber: 4.9 Consensus size: 45
52243760 TATTGTACGG
*
52243770 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
*
52243815 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
52243860 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* * * *
52243905 TACTATTCGGGTCTTCGAGCCTAGTAGGCTATAATGCCGGTGAAA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* * *
52243950 TGA-TA-TCGAG-CTTCGAGCCTAGCAGGCGA-AATGCCGGTG
1 T-ACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTG
52243989 GATGAATTCG
Statistics
Matches: 165, Mismatches: 8, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
42 10 0.06
43 17 0.10
44 4 0.02
45 133 0.81
46 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.26
Consensus pattern (45 bp):
TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
Found at i:52247674 original size:26 final size:26
Alignment explanation
Indices: 52247626--52247679 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 26
52247616 AATCTTATAT
* ** *
52247626 CTGTAGGCTAGCATTACTGAAATGCC
1 CTGTAGGCTAGAATTACCAAAATACC
*
52247652 CTGTAGGGTAGAATTACCAAAATACC
1 CTGTAGGCTAGAATTACCAAAATACC
52247678 CT
1 CT
52247680 TGGTTTATAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.26
Consensus pattern (26 bp):
CTGTAGGCTAGAATTACCAAAATACC
Found at i:52247697 original size:27 final size:27
Alignment explanation
Indices: 52247663--52247858 Score: 214
Period size: 27 Copynumber: 7.3 Consensus size: 27
52247653 TGTAGGGTAG
* *
52247663 AATTACCAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCCTTGATTTGTAA
* *
52247690 AATTACCAAAATACCCCTAATTTGTAA
1 AATTACCAAAATACCCTTGATTTGTAA
* *
52247717 AATTACCAAAATACCCCTAATTTGTAA
1 AATTACCAAAATACCCTTGATTTGTAA
*
52247744 AATTACCAAAATA-CCTCTGATTTGTGA
1 AATTACCAAAATACCCT-TGATTTGTAA
** * *
52247771 AATTACTGAAATACCCTCGACTTGTAA
1 AATTACCAAAATACCCTTGATTTGTAA
** *
52247798 AATTACTGAAATACCCTTGACTTGTAA
1 AATTACCAAAATACCCTTGATTTGTAA
* * **
52247825 AATTACCAAAGTACCCTCGATTTACAA
1 AATTACCAAAATACCCTTGATTTGTAA
52247852 AATTACC
1 AATTACC
52247859 GTTTTACCCT
Statistics
Matches: 147, Mismatches: 20, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
26 2 0.01
27 142 0.97
28 3 0.02
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (27 bp):
AATTACCAAAATACCCTTGATTTGTAA
Found at i:52247866 original size:27 final size:27
Alignment explanation
Indices: 52247836--52247944 Score: 173
Period size: 27 Copynumber: 4.0 Consensus size: 27
52247826 ATTACCAAAG
*
52247836 TACCCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCATTT
* **
52247863 TACCCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACCATTT
52247890 TACCCTCGATTTACAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACCATTT
*
52247917 TACCCTCGATTTATAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACCATTT
52247944 T
1 T
52247945 GCCCCTAGGG
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 76 1.00
ACGTcount: A:0.30, C:0.24, G:0.06, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACCATTT
Found at i:52247867 original size:54 final size:52
Alignment explanation
Indices: 52247822--52247940 Score: 148
Period size: 54 Copynumber: 2.2 Consensus size: 52
52247812 CCTTGACTTG
*
52247822 TAAAATTACCAAAGTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATT
1 TAAAATTACCAAAGTACCCTCGATTTACAAAATTACCATTTTACCCTCGATT
*****
52247874 TACAGAATTACTGTTTTACCCTCGATTTACAAAATTACCATTTTACCCTCGATTT
1 TA-A-AATTACCAAAGTACCCTCGATTTACAAAATTACCATTTTACCCTCGA-TT
52247929 ATAAAATTACCA
1 -TAAAATTACCA
52247941 TTTTGCCCCT
Statistics
Matches: 55, Mismatches: 8, Indels: 6
0.80 0.12 0.09
Matches are distributed among these distances:
52 2 0.04
53 1 0.02
54 47 0.85
55 3 0.05
56 2 0.04
ACGTcount: A:0.34, C:0.24, G:0.07, T:0.35
Consensus pattern (52 bp):
TAAAATTACCAAAGTACCCTCGATTTACAAAATTACCATTTTACCCTCGATT
Found at i:52247867 original size:81 final size:80
Alignment explanation
Indices: 52247663--52247944 Score: 219
Period size: 81 Copynumber: 3.5 Consensus size: 80
52247653 TGTAGGGTAG
* * **** * **
52247663 AATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCC-CTAATTTGTAAAATTACCAAA
1 AATTACCAAAATACCCTCGATTTATAAAATTACCGTTTTACCCTC-GA-TTGTAAAATTACTGAA
* *
52247727 ATACCCCTAATTTGTAA
64 ATACCCTTGATTTGTAA
* * * ***
52247744 AATTACCAAAATA-CCTCTGATTTGTGAAATTACTGAAATACCCTCGACTTGTAAAATTACTGAA
1 AATTACCAAAATACCCTC-GATTTATAAAATTACCGTTTTACCCTCGA-TTGTAAAATTACTGAA
*
52247808 ATACCCTTGACTTGTAA
64 ATACCCTTGATTTGTAA
* * **
52247825 AATTACCAAAGTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATT-TACAGAATTACTGTT
1 AATTACCAAAATACCCTCGATTTATAAAATTACCGTTTTACCCTCGATTGTA-A-AATTACTGAA
* * **
52247889 TTACCCTCGATTTACAA
64 ATACCCTTGATTTGTAA
*** *
52247906 AATTACCATTTTACCCTCGATTTATAAAATTACCATTTT
1 AATTACCAAAATACCCTCGATTTATAAAATTACCGTTTT
52247945 GCCCCTAGGG
Statistics
Matches: 163, Mismatches: 33, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
79 2 0.01
80 6 0.04
81 150 0.92
82 5 0.03
ACGTcount: A:0.37, C:0.22, G:0.07, T:0.34
Consensus pattern (80 bp):
AATTACCAAAATACCCTCGATTTATAAAATTACCGTTTTACCCTCGATTGTAAAATTACTGAAAT
ACCCTTGATTTGTAA
Found at i:52248321 original size:22 final size:22
Alignment explanation
Indices: 52248296--52248345 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
52248286 GATGGCTCTA
52248296 TGCCAACCTAAATATGGCTTCG
1 TGCCAACCTAAATATGGCTTCG
* * * *
52248318 TGCCATCTTGACTATGGCTTCG
1 TGCCAACCTAAATATGGCTTCG
52248340 TGCCAA
1 TGCCAA
52248346 ACGTATTTAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (22 bp):
TGCCAACCTAAATATGGCTTCG
Found at i:52248535 original size:27 final size:27
Alignment explanation
Indices: 52248505--52248567 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 27
52248495 TCTGTTAAGT
* *
52248505 GGCTTTGCCAC-ATTATCTGATTCTGGC
1 GGCTTTGCCACAAATATCTG-TTCTGGA
*
52248532 GGCTATGCCACAAATATCTGTTCTGGA
1 GGCTTTGCCACAAATATCTGTTCTGGA
52248559 GGCTTTGCC
1 GGCTTTGCC
52248568 TCAACTTATT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 24 0.77
28 7 0.23
ACGTcount: A:0.17, C:0.25, G:0.24, T:0.33
Consensus pattern (27 bp):
GGCTTTGCCACAAATATCTGTTCTGGA
Found at i:52251782 original size:56 final size:56
Alignment explanation
Indices: 52251696--52251815 Score: 170
Period size: 56 Copynumber: 2.1 Consensus size: 56
52251686 TTACATGTAA
* *
52251696 TCACATGTCAATGCCACTGTCCCGGATAGGGTCTTACTCGCACAT-ATATATCGGAG
1 TCACATATCAATGCCACTGTCCCAGATAGGGTCTTACTCGCAC-TCATATATCGGAG
* * * *
52251752 TCACATATCGATGCCATTGTCCTAGATAGGGTCTTACTCGTACTCATATATCGGAG
1 TCACATATCAATGCCACTGTCCCAGATAGGGTCTTACTCGCACTCATATATCGGAG
52251808 TCACATAT
1 TCACATAT
52251816 TGATACCAAC
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
55 1 0.02
56 56 0.98
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (56 bp):
TCACATATCAATGCCACTGTCCCAGATAGGGTCTTACTCGCACTCATATATCGGAG
Found at i:52254077 original size:26 final size:26
Alignment explanation
Indices: 52254029--52254082 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 26
52254019 AATCTTATAT
* ** *
52254029 CTGTAGGCTAGCATTACTGAAATGCC
1 CTGTAGGCTAGAATTACCAAAATACC
*
52254055 CTGTAGGGTAGAATTACCAAAATACC
1 CTGTAGGCTAGAATTACCAAAATACC
52254081 CT
1 CT
52254083 TGGTTTATAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.26
Consensus pattern (26 bp):
CTGTAGGCTAGAATTACCAAAATACC
Found at i:52254100 original size:27 final size:27
Alignment explanation
Indices: 52254066--52254261 Score: 214
Period size: 27 Copynumber: 7.3 Consensus size: 27
52254056 TGTAGGGTAG
* *
52254066 AATTACCAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCCTTGATTTGTAA
* *
52254093 AATTACCAAAATACCCCTAATTTGTAA
1 AATTACCAAAATACCCTTGATTTGTAA
* *
52254120 AATTACCAAAATACCCCTAATTTGTAA
1 AATTACCAAAATACCCTTGATTTGTAA
*
52254147 AATTACCAAAATA-CCTCTGATTTGTGA
1 AATTACCAAAATACCCT-TGATTTGTAA
** * *
52254174 AATTACTGAAATACCCTCGACTTGTAA
1 AATTACCAAAATACCCTTGATTTGTAA
** *
52254201 AATTACTGAAATACCCTTGACTTGTAA
1 AATTACCAAAATACCCTTGATTTGTAA
* * **
52254228 AATTACCAAAGTACCCTCGATTTACAA
1 AATTACCAAAATACCCTTGATTTGTAA
52254255 AATTACC
1 AATTACC
52254262 GTTTTACCCT
Statistics
Matches: 147, Mismatches: 20, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
26 2 0.01
27 142 0.97
28 3 0.02
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (27 bp):
AATTACCAAAATACCCTTGATTTGTAA
Found at i:52254269 original size:27 final size:27
Alignment explanation
Indices: 52254239--52254347 Score: 173
Period size: 27 Copynumber: 4.0 Consensus size: 27
52254229 ATTACCAAAG
*
52254239 TACCCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCATTT
* **
52254266 TACCCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACCATTT
52254293 TACCCTCGATTTACAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACCATTT
*
52254320 TACCCTCGATTTATAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACCATTT
52254347 T
1 T
52254348 GCCCCTAGGG
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 76 1.00
ACGTcount: A:0.30, C:0.24, G:0.06, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACCATTT
Found at i:52254270 original size:54 final size:52
Alignment explanation
Indices: 52254225--52254343 Score: 148
Period size: 54 Copynumber: 2.2 Consensus size: 52
52254215 CCTTGACTTG
*
52254225 TAAAATTACCAAAGTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATT
1 TAAAATTACCAAAGTACCCTCGATTTACAAAATTACCATTTTACCCTCGATT
*****
52254277 TACAGAATTACTGTTTTACCCTCGATTTACAAAATTACCATTTTACCCTCGATTT
1 TA-A-AATTACCAAAGTACCCTCGATTTACAAAATTACCATTTTACCCTCGA-TT
52254332 ATAAAATTACCA
1 -TAAAATTACCA
52254344 TTTTGCCCCT
Statistics
Matches: 55, Mismatches: 8, Indels: 6
0.80 0.12 0.09
Matches are distributed among these distances:
52 2 0.04
53 1 0.02
54 47 0.85
55 3 0.05
56 2 0.04
ACGTcount: A:0.34, C:0.24, G:0.07, T:0.35
Consensus pattern (52 bp):
TAAAATTACCAAAGTACCCTCGATTTACAAAATTACCATTTTACCCTCGATT
Found at i:52254270 original size:81 final size:80
Alignment explanation
Indices: 52254066--52254347 Score: 219
Period size: 81 Copynumber: 3.5 Consensus size: 80
52254056 TGTAGGGTAG
* * **** * **
52254066 AATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCC-CTAATTTGTAAAATTACCAAA
1 AATTACCAAAATACCCTCGATTTATAAAATTACCGTTTTACCCTC-GA-TTGTAAAATTACTGAA
* *
52254130 ATACCCCTAATTTGTAA
64 ATACCCTTGATTTGTAA
* * * ***
52254147 AATTACCAAAATA-CCTCTGATTTGTGAAATTACTGAAATACCCTCGACTTGTAAAATTACTGAA
1 AATTACCAAAATACCCTC-GATTTATAAAATTACCGTTTTACCCTCGA-TTGTAAAATTACTGAA
*
52254211 ATACCCTTGACTTGTAA
64 ATACCCTTGATTTGTAA
* * **
52254228 AATTACCAAAGTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATT-TACAGAATTACTGTT
1 AATTACCAAAATACCCTCGATTTATAAAATTACCGTTTTACCCTCGATTGTA-A-AATTACTGAA
* * **
52254292 TTACCCTCGATTTACAA
64 ATACCCTTGATTTGTAA
*** *
52254309 AATTACCATTTTACCCTCGATTTATAAAATTACCATTTT
1 AATTACCAAAATACCCTCGATTTATAAAATTACCGTTTT
52254348 GCCCCTAGGG
Statistics
Matches: 163, Mismatches: 33, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
79 2 0.01
80 6 0.04
81 150 0.92
82 5 0.03
ACGTcount: A:0.37, C:0.22, G:0.07, T:0.34
Consensus pattern (80 bp):
AATTACCAAAATACCCTCGATTTATAAAATTACCGTTTTACCCTCGATTGTAAAATTACTGAAAT
ACCCTTGATTTGTAA
Found at i:52254724 original size:22 final size:22
Alignment explanation
Indices: 52254699--52254748 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
52254689 GATGGCTCTA
52254699 TGCCAACCTAAATATGGCTTCG
1 TGCCAACCTAAATATGGCTTCG
* * * *
52254721 TGCCATCTTGACTATGGCTTCG
1 TGCCAACCTAAATATGGCTTCG
52254743 TGCCAA
1 TGCCAA
52254749 ACGTATTTAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (22 bp):
TGCCAACCTAAATATGGCTTCG
Found at i:52254938 original size:27 final size:27
Alignment explanation
Indices: 52254908--52254970 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 27
52254898 TCTGTTAAGT
* *
52254908 GGCTTTGCCAC-ATTATCTGATTCTGGC
1 GGCTTTGCCACAAATATCTG-TTCTGGA
*
52254935 GGCTATGCCACAAATATCTGTTCTGGA
1 GGCTTTGCCACAAATATCTGTTCTGGA
52254962 GGCTTTGCC
1 GGCTTTGCC
52254971 TCAACTTATT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 24 0.77
28 7 0.23
ACGTcount: A:0.17, C:0.25, G:0.24, T:0.33
Consensus pattern (27 bp):
GGCTTTGCCACAAATATCTGTTCTGGA
Found at i:52258185 original size:56 final size:56
Alignment explanation
Indices: 52258099--52258218 Score: 170
Period size: 56 Copynumber: 2.1 Consensus size: 56
52258089 TTACATGTAA
* *
52258099 TCACATGTCAATGCCACTGTCCCGGATAGGGTCTTACTCGCACAT-ATATATCGGAG
1 TCACATATCAATGCCACTGTCCCAGATAGGGTCTTACTCGCAC-TCATATATCGGAG
* * * *
52258155 TCACATATCGATGCCATTGTCCTAGATAGGGTCTTACTCGTACTCATATATCGGAG
1 TCACATATCAATGCCACTGTCCCAGATAGGGTCTTACTCGCACTCATATATCGGAG
52258211 TCACATAT
1 TCACATAT
52258219 TGATACCAAC
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
55 1 0.02
56 56 0.98
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (56 bp):
TCACATATCAATGCCACTGTCCCAGATAGGGTCTTACTCGCACTCATATATCGGAG
Found at i:52260481 original size:26 final size:26
Alignment explanation
Indices: 52260433--52260486 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 26
52260423 AATCTTATAT
* ** *
52260433 CTGTAGGCTAGCATTACTGAAATGCC
1 CTGTAGGCTAGAATTACCAAAATACC
*
52260459 CTGTAGGGTAGAATTACCAAAATACC
1 CTGTAGGCTAGAATTACCAAAATACC
52260485 CT
1 CT
52260487 TGGTTTATAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.26
Consensus pattern (26 bp):
CTGTAGGCTAGAATTACCAAAATACC
Found at i:52260504 original size:27 final size:27
Alignment explanation
Indices: 52260470--52260665 Score: 214
Period size: 27 Copynumber: 7.3 Consensus size: 27
52260460 TGTAGGGTAG
* *
52260470 AATTACCAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCCTTGATTTGTAA
* *
52260497 AATTACCAAAATACCCCTAATTTGTAA
1 AATTACCAAAATACCCTTGATTTGTAA
* *
52260524 AATTACCAAAATACCCCTAATTTGTAA
1 AATTACCAAAATACCCTTGATTTGTAA
*
52260551 AATTACCAAAATA-CCTCTGATTTGTGA
1 AATTACCAAAATACCCT-TGATTTGTAA
** * *
52260578 AATTACTGAAATACCCTCGACTTGTAA
1 AATTACCAAAATACCCTTGATTTGTAA
** *
52260605 AATTACTGAAATACCCTTGACTTGTAA
1 AATTACCAAAATACCCTTGATTTGTAA
* * **
52260632 AATTACCAAAGTACCCTCGATTTACAA
1 AATTACCAAAATACCCTTGATTTGTAA
52260659 AATTACC
1 AATTACC
52260666 GTTTTACCCT
Statistics
Matches: 147, Mismatches: 20, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
26 2 0.01
27 142 0.97
28 3 0.02
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (27 bp):
AATTACCAAAATACCCTTGATTTGTAA
Found at i:52260673 original size:27 final size:27
Alignment explanation
Indices: 52260643--52260751 Score: 173
Period size: 27 Copynumber: 4.0 Consensus size: 27
52260633 ATTACCAAAG
*
52260643 TACCCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCATTT
* **
52260670 TACCCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACCATTT
52260697 TACCCTCGATTTACAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACCATTT
*
52260724 TACCCTCGATTTATAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACCATTT
52260751 T
1 T
52260752 GCCCCTAGGG
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 76 1.00
ACGTcount: A:0.30, C:0.24, G:0.06, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACCATTT
Found at i:52260674 original size:54 final size:52
Alignment explanation
Indices: 52260629--52260747 Score: 148
Period size: 54 Copynumber: 2.2 Consensus size: 52
52260619 CCTTGACTTG
*
52260629 TAAAATTACCAAAGTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATT
1 TAAAATTACCAAAGTACCCTCGATTTACAAAATTACCATTTTACCCTCGATT
*****
52260681 TACAGAATTACTGTTTTACCCTCGATTTACAAAATTACCATTTTACCCTCGATTT
1 TA-A-AATTACCAAAGTACCCTCGATTTACAAAATTACCATTTTACCCTCGA-TT
52260736 ATAAAATTACCA
1 -TAAAATTACCA
52260748 TTTTGCCCCT
Statistics
Matches: 55, Mismatches: 8, Indels: 6
0.80 0.12 0.09
Matches are distributed among these distances:
52 2 0.04
53 1 0.02
54 47 0.85
55 3 0.05
56 2 0.04
ACGTcount: A:0.34, C:0.24, G:0.07, T:0.35
Consensus pattern (52 bp):
TAAAATTACCAAAGTACCCTCGATTTACAAAATTACCATTTTACCCTCGATT
Found at i:52260674 original size:81 final size:80
Alignment explanation
Indices: 52260470--52260751 Score: 219
Period size: 81 Copynumber: 3.5 Consensus size: 80
52260460 TGTAGGGTAG
* * **** * **
52260470 AATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCC-CTAATTTGTAAAATTACCAAA
1 AATTACCAAAATACCCTCGATTTATAAAATTACCGTTTTACCCTC-GA-TTGTAAAATTACTGAA
* *
52260534 ATACCCCTAATTTGTAA
64 ATACCCTTGATTTGTAA
* * * ***
52260551 AATTACCAAAATA-CCTCTGATTTGTGAAATTACTGAAATACCCTCGACTTGTAAAATTACTGAA
1 AATTACCAAAATACCCTC-GATTTATAAAATTACCGTTTTACCCTCGA-TTGTAAAATTACTGAA
*
52260615 ATACCCTTGACTTGTAA
64 ATACCCTTGATTTGTAA
* * **
52260632 AATTACCAAAGTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATT-TACAGAATTACTGTT
1 AATTACCAAAATACCCTCGATTTATAAAATTACCGTTTTACCCTCGATTGTA-A-AATTACTGAA
* * **
52260696 TTACCCTCGATTTACAA
64 ATACCCTTGATTTGTAA
*** *
52260713 AATTACCATTTTACCCTCGATTTATAAAATTACCATTTT
1 AATTACCAAAATACCCTCGATTTATAAAATTACCGTTTT
52260752 GCCCCTAGGG
Statistics
Matches: 163, Mismatches: 33, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
79 2 0.01
80 6 0.04
81 150 0.92
82 5 0.03
ACGTcount: A:0.37, C:0.22, G:0.07, T:0.34
Consensus pattern (80 bp):
AATTACCAAAATACCCTCGATTTATAAAATTACCGTTTTACCCTCGATTGTAAAATTACTGAAAT
ACCCTTGATTTGTAA
Found at i:52261128 original size:22 final size:22
Alignment explanation
Indices: 52261103--52261152 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
52261093 GATGGCTCTA
52261103 TGCCAACCTAAATATGGCTTCG
1 TGCCAACCTAAATATGGCTTCG
* * * *
52261125 TGCCATCTTGACTATGGCTTCG
1 TGCCAACCTAAATATGGCTTCG
52261147 TGCCAA
1 TGCCAA
52261153 ACGTATTTAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (22 bp):
TGCCAACCTAAATATGGCTTCG
Found at i:52261342 original size:27 final size:27
Alignment explanation
Indices: 52261312--52261374 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 27
52261302 TCTGTTAAGT
* *
52261312 GGCTTTGCCAC-ATTATCTGATTCTGGC
1 GGCTTTGCCACAAATATCTG-TTCTGGA
*
52261339 GGCTATGCCACAAATATCTGTTCTGGA
1 GGCTTTGCCACAAATATCTGTTCTGGA
52261366 GGCTTTGCC
1 GGCTTTGCC
52261375 TCAACTTATT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 24 0.77
28 7 0.23
ACGTcount: A:0.17, C:0.25, G:0.24, T:0.33
Consensus pattern (27 bp):
GGCTTTGCCACAAATATCTGTTCTGGA
Found at i:52264589 original size:56 final size:56
Alignment explanation
Indices: 52264503--52264622 Score: 170
Period size: 56 Copynumber: 2.1 Consensus size: 56
52264493 TTACATGTAA
* *
52264503 TCACATGTCAATGCCACTGTCCCGGATAGGGTCTTACTCGCACAT-ATATATCGGAG
1 TCACATATCAATGCCACTGTCCCAGATAGGGTCTTACTCGCAC-TCATATATCGGAG
* * * *
52264559 TCACATATCGATGCCATTGTCCTAGATAGGGTCTTACTCGTACTCATATATCGGAG
1 TCACATATCAATGCCACTGTCCCAGATAGGGTCTTACTCGCACTCATATATCGGAG
52264615 TCACATAT
1 TCACATAT
52264623 TGATACCAAC
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
55 1 0.02
56 56 0.98
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (56 bp):
TCACATATCAATGCCACTGTCCCAGATAGGGTCTTACTCGCACTCATATATCGGAG
Found at i:52268226 original size:52 final size:51
Alignment explanation
Indices: 52268097--52268228 Score: 185
Period size: 50 Copynumber: 2.6 Consensus size: 51
52268087 ATGTCTTTTG
* * * *
52268097 CATTTAATAAAGTCATGCATTATGCAACTCTCATGTTAGTTAAGTTTGCAT
1 CATTAAATTAAGTCATGCATTATGTAACTCCCATGTTAGTTAAGTTTGCAT
* *
52268148 CA-TAAATTATGACATGCATTATGTAACTCCCATGTTAGTTAAAGTTTGCAT
1 CATTAAATTAAGTCATGCATTATGTAACTCCCATGTTAGTT-AAGTTTGCAT
*
52268199 CATTAAATTAAGTCATGCATTAAGTAACTC
1 CATTAAATTAAGTCATGCATTATGTAACTC
52268229 ATTTTTTCAT
Statistics
Matches: 70, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
50 32 0.46
51 14 0.20
52 24 0.34
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.37
Consensus pattern (51 bp):
CATTAAATTAAGTCATGCATTATGTAACTCCCATGTTAGTTAAGTTTGCAT
Found at i:52274944 original size:42 final size:42
Alignment explanation
Indices: 52274842--52275003 Score: 109
Period size: 43 Copynumber: 3.8 Consensus size: 42
52274832 AGCTCGTACA
* * *
52274842 ATGCCAACGTCCCAGAC-GTGGTCTTACATGTAATCA-AATATCA
1 ATGCCAACGTCCCAGACAG-GGTCTTACACGAAAT-ATAA-ATCG
*** *
52274885 ATGCC-ACTGTTATAGACAGGGTTTTACACGAAAT-TAAATACG
1 ATGCCAAC-GTCCCAGACAGGGTCTTACACGAAATATAAAT-CG
* * * * *
52274927 ATGCCGATGTCCCAGACATGGTCATACACGTAAATCATAAATTG
1 ATGCCAACGTCCCAGACAGGGTCTTACACG-AAAT-ATAAATCG
52274971 ATGCCAACGTCCCAGAC-GTGGTCTTACACGAAA
1 ATGCCAACGTCCCAGACAG-GGTCTTACACGAAA
52275004 ACACATATCG
Statistics
Matches: 91, Mismatches: 19, Indels: 18
0.71 0.15 0.14
Matches are distributed among these distances:
41 2 0.02
42 26 0.29
43 31 0.34
44 27 0.30
45 5 0.05
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.25
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACAGGGTCTTACACGAAATATAAATCG
Found at i:52282669 original size:67 final size:64
Alignment explanation
Indices: 52282471--52282721 Score: 215
Period size: 66 Copynumber: 3.9 Consensus size: 64
52282461 ATATAGTTCG
* * *
52282471 GCTCTCTTGTAC-ACATGGTGAACACTTAGTACCACCCATGTGACCTAGC--CAGTTTATCTCGT
1 GCTCTCTTGT-CTACATGGTGTACACTTAGTACCACCCATGCGACCTAGCTACA-TATATCTCGT
52282533 A
64 A
* * * * *
52282534 GCTCTCTTGTCTACATGGTGTCCTTCACTTGGAACCACGCATGCGACCTAGCTACATATATCCCG
1 GCTCTCTTGTCTACATGGTG---TACACTTAGTACCACCCATGCGACCTAGCTACATATATCTCG
52282599 TA
63 TA
* * *
52282601 GCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACATCATAATTCTTG
1 GCTCTCTTGTCTACATGGTGTACACTTAGTACCACCCATGCGACCTAGCTACAT-AT-A-TCTCG
52282666 TA
63 TA
* * * * * ** *
52282668 GCTCT-TTGTAC-ACATGATGTGCACTCAGCACTATACATGTGACCTAGCTACATA
1 GCTCTCTTGT-CTACATGGTGTACACTTAGTACCACCCATGCGACCTAGCTACATA
52282722 CCATCTGTAT
Statistics
Matches: 152, Mismatches: 26, Indels: 18
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 18 0.12
64 28 0.18
65 3 0.02
66 60 0.39
67 40 0.26
68 2 0.01
ACGTcount: A:0.24, C:0.28, G:0.17, T:0.31
Consensus pattern (64 bp):
GCTCTCTTGTCTACATGGTGTACACTTAGTACCACCCATGCGACCTAGCTACATATATCTCGTA
Found at i:52283417 original size:30 final size:30
Alignment explanation
Indices: 52283383--52283443 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
52283373 TCCTTAACTC
52283383 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
52283413 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
52283443 A
1 A
52283444 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:52287100 original size:58 final size:58
Alignment explanation
Indices: 52286984--52287112 Score: 197
Period size: 58 Copynumber: 2.2 Consensus size: 58
52286974 GACGAGATTA
* *
52286984 GCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAATATATG
1 GCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTCGAAAGATATG
* *
52287042 GCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCGA-GCTCGAAGGGTATG
1 GCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGC-ATGCTCGAAAGATATG
*
52287100 GCACTATGTGTGC
1 GCACTAAGTGTGC
52287113 GGGCTTAAAT
Statistics
Matches: 65, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
58 64 0.98
59 1 0.02
ACGTcount: A:0.28, C:0.16, G:0.30, T:0.26
Consensus pattern (58 bp):
GCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTCGAAAGATATG
Found at i:52287105 original size:29 final size:29
Alignment explanation
Indices: 52286984--52287083 Score: 200
Period size: 29 Copynumber: 3.4 Consensus size: 29
52286974 GACGAGATTA
52286984 GCACTAAGTGTGCATGCTGGAAATATATG
1 GCACTAAGTGTGCATGCTGGAAATATATG
52287013 GCACTAAGTGTGCATGCTGGAAATATATG
1 GCACTAAGTGTGCATGCTGGAAATATATG
52287042 GCACTAAGTGTGCATGCTGGAAATATATG
1 GCACTAAGTGTGCATGCTGGAAATATATG
52287071 GCACTAAGTGTGC
1 GCACTAAGTGTGC
52287084 GAGCTCGAAG
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 71 1.00
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.27
Consensus pattern (29 bp):
GCACTAAGTGTGCATGCTGGAAATATATG
Found at i:52295063 original size:58 final size:58
Alignment explanation
Indices: 52294947--52295075 Score: 197
Period size: 58 Copynumber: 2.2 Consensus size: 58
52294937 GACGAGATTA
* *
52294947 GCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAATATATG
1 GCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTCGAAAGATATG
* *
52295005 GCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCGA-GCTCGAAGGGTATG
1 GCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGC-ATGCTCGAAAGATATG
*
52295063 GCACTATGTGTGC
1 GCACTAAGTGTGC
52295076 GGGCTTAAAT
Statistics
Matches: 65, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
58 64 0.98
59 1 0.02
ACGTcount: A:0.28, C:0.16, G:0.30, T:0.26
Consensus pattern (58 bp):
GCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTCGAAAGATATG
Found at i:52295068 original size:29 final size:29
Alignment explanation
Indices: 52294947--52295046 Score: 200
Period size: 29 Copynumber: 3.4 Consensus size: 29
52294937 GACGAGATTA
52294947 GCACTAAGTGTGCATGCTGGAAATATATG
1 GCACTAAGTGTGCATGCTGGAAATATATG
52294976 GCACTAAGTGTGCATGCTGGAAATATATG
1 GCACTAAGTGTGCATGCTGGAAATATATG
52295005 GCACTAAGTGTGCATGCTGGAAATATATG
1 GCACTAAGTGTGCATGCTGGAAATATATG
52295034 GCACTAAGTGTGC
1 GCACTAAGTGTGC
52295047 GAGCTCGAAG
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 71 1.00
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.27
Consensus pattern (29 bp):
GCACTAAGTGTGCATGCTGGAAATATATG
Found at i:52300189 original size:46 final size:46
Alignment explanation
Indices: 52299997--52300238 Score: 156
Period size: 46 Copynumber: 5.2 Consensus size: 46
52299987 TGTGTGAGCT
* * * *
52299997 AGTGTAAGACGTGTCTGGGACATGCATCGGC-C-ACATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGACTCGAGATGAT-A-AGCC
* * * * **
52300043 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGA-CA-AGGGTT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGAC-TCGAGATGATA-AGCC
* * * *
52300091 AGAGTAAGACATGTCTGGGACATGCGTCAGCCTCGAGACG-TAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATC-GACTCGAGATGATAAGCC
* * *
52300137 AATGTAAGACAAGTCTGGGACATGCATCGACTGCGAGATGAT-AGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGACT-CGAGATGATAAGCC
** * *
52300183 AGTGTAAGACCATGTCTAAGACATGGCATCGACTTGAGAT-ATGAGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGACTCGAGATGATAAGCC
52300230 AGTGTAAGA
1 AGTGTAAGA
52300239 TCGTGTCTAT
Statistics
Matches: 155, Mismatches: 28, Indels: 25
0.75 0.13 0.12
Matches are distributed among these distances:
45 3 0.02
46 62 0.40
47 59 0.38
48 28 0.18
50 1 0.01
51 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.30, T:0.21
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGACTCGAGATGATAAGCC
Found at i:52300222 original size:47 final size:48
Alignment explanation
Indices: 52300133--52300259 Score: 127
Period size: 47 Copynumber: 2.7 Consensus size: 48
52300123 TCGAGACGTA
* * **
52300133 AGCCAATGTAAGA-CAAGTCTGGGACAT-GCATCGACTGCGAGATGAT-
1 AGCCAGTGTAAGACCATGTCTAAGACATGGCATCGACTGCGAGAT-ATG
* *
52300179 AGTCAGTGTAAGACCATGTCTAAGACATGGCATCGACT-TGAGATATG
1 AGCCAGTGTAAGACCATGTCTAAGACATGGCATCGACTGCGAGATATG
* * * *
52300226 AGCCAGTGTAAGATCGTGTCTATGGCATGGCATC
1 AGCCAGTGTAAGACCATGTCTAAGACATGGCATC
52300260 AACAACTTAC
Statistics
Matches: 67, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
46 13 0.19
47 45 0.67
48 9 0.13
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.24
Consensus pattern (48 bp):
AGCCAGTGTAAGACCATGTCTAAGACATGGCATCGACTGCGAGATATG
Found at i:52301852 original size:14 final size:14
Alignment explanation
Indices: 52301835--52301874 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
52301825 CGAATGGAAT
*
52301835 GGTAGGAACGAAAG
1 GGTAGGAACAAAAG
52301849 GGTAGGAACAAAAG
1 GGTAGGAACAAAAG
* *
52301863 GATATGAACAAA
1 GGTAGGAACAAA
52301875 TTGGTCGGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.50, C:0.07, G:0.33, T:0.10
Consensus pattern (14 bp):
GGTAGGAACAAAAG
Found at i:52306457 original size:27 final size:27
Alignment explanation
Indices: 52306390--52306477 Score: 86
Period size: 27 Copynumber: 3.3 Consensus size: 27
52306380 TAAGTTGTAA
* * *
52306390 AATTACTGAAATACCCCTATAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
52306417 AAATATCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
52306444 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
52306471 AATTACC
1 AATTACC
52306478 ATTTTGCCCC
Statistics
Matches: 48, Mismatches: 13, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 48 1.00
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:52310054 original size:49 final size:48
Alignment explanation
Indices: 52309982--52310174 Score: 208
Period size: 49 Copynumber: 3.9 Consensus size: 48
52309972 GCCGAAGCTA
* *
52309982 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAG
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC-ACAG
* * *
52310031 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTCCCA-
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGA-C-CACAG
** * * *
52310080 TCTAATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAG
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCACAG
* * *
52310128 TTTTTGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC
1 --TCT-GGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC
52310175 TCACAATAGA
Statistics
Matches: 121, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
47 3 0.02
49 78 0.64
50 5 0.04
51 35 0.29
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.25
Consensus pattern (48 bp):
TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCACAG
Found at i:52310061 original size:23 final size:23
Alignment explanation
Indices: 52310035--52310110 Score: 57
Period size: 24 Copynumber: 3.2 Consensus size: 23
52310025 CAACAGTCTG
52310035 GTACACGTAGTAGCCTGCACTTA
1 GTACACGTAGTAGCCTGCACTTA
** *
52310058 GTACTACACACGT-GACCT-CCCATCTA
1 GTAC-ACGTA-GTAG-CCTGCAC-T-TA
*
52310084 ATACACGTAGTAGCCTGCACTTA
1 GTACACGTAGTAGCCTGCACTTA
52310107 GTAC
1 GTAC
52310111 TACACACGTG
Statistics
Matches: 38, Mismatches: 8, Indels: 14
0.63 0.13 0.23
Matches are distributed among these distances:
23 9 0.24
24 12 0.32
25 12 0.32
26 5 0.13
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.25
Consensus pattern (23 bp):
GTACACGTAGTAGCCTGCACTTA
Found at i:52310164 original size:100 final size:98
Alignment explanation
Indices: 52309993--52310176 Score: 262
Period size: 100 Copynumber: 1.9 Consensus size: 98
52309983 CTGGTACGCA
* *
52309993 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAGTCTGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAACAGTCTGGTACACATAGTAGCCTGCACTTA
*
52310058 GTACTACACACGTGACCTCCCATCTAATACACG
66 GTACTACACACGCGACCTCCCATCTAATACACG
* * * *
52310091 TAGTAGCCTGCACTTAGTACTACACACGTGATC-ACAGTTTTTGGGTACGCATAGTAGCCTGCAC
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAACAG--TCT-GGTACACATAGTAGCCTGCAC
*
52310155 TTAGTACTACACATGCGACCTC
63 TTAGTACTACACACGCGACCTC
52310177 ACAATAGATC
Statistics
Matches: 75, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
97 4 0.05
98 30 0.40
99 2 0.03
100 39 0.52
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.26
Consensus pattern (98 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAACAGTCTGGTACACATAGTAGCCTGCACTTA
GTACTACACACGCGACCTCCCATCTAATACACG
Found at i:52311946 original size:2 final size:2
Alignment explanation
Indices: 52311939--52311982 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
52311929 GCTTCGCCAC
52311939 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
52311981 AT
1 AT
52311983 CTGTTCTGGT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:52328722 original size:43 final size:43
Alignment explanation
Indices: 52328658--52328754 Score: 149
Period size: 43 Copynumber: 2.3 Consensus size: 43
52328648 TTCAACGAAC
* * *
52328658 TCGCAAACTTAGTGCCGATTAATTAGCTGAAGCTATAATTGTA
1 TCGCACACTTAGTGCCAATTAATTAGCCGAAGCTATAATTGTA
*
52328701 TCGCACACTTAGTGCCAATTAATTAGCCGAGGCTATAATTGTA
1 TCGCACACTTAGTGCCAATTAATTAGCCGAAGCTATAATTGTA
*
52328744 TTGCACACTTA
1 TCGCACACTTA
52328755 TTACCAATAC
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 49 1.00
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.32
Consensus pattern (43 bp):
TCGCACACTTAGTGCCAATTAATTAGCCGAAGCTATAATTGTA
Found at i:52348566 original size:40 final size:40
Alignment explanation
Indices: 52348522--52348841 Score: 231
Period size: 40 Copynumber: 8.1 Consensus size: 40
52348512 GCGTTTGGAT
*
52348522 AAAAACGCCGCTATAGATCGAGCATTAGCGGCGGTTTTTG
1 AAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTTG
* * *
52348562 AAAAACACCGCTATAGATCGAGCATTAGCAGCACTTTTTG
1 AAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTTG
*** * *
52348602 AAAAACATAGCTATAGATCGAGCATTAGCGGCGCTTTCTA
1 AAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTTG
* * * * *
52348642 AAAAATGCCGCTATAGGTTGACCATTAGCGGTGCTTTTTG
1 AAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTTG
* * * * ** * * * * *
52348682 AAAAACGCCACAAAAAAATTAAGTA-CAACGCCGTCGTTTT-
1 AAAAACGCCGC-TATAGATCGAGCATTAGCGGCG-CTTTTTG
**** * *
52348722 -ATGTTG-AGCTTTAG-T-G-GCATTAGCGGCGCTTTTTG
1 AAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTTG
* * * * *
52348757 AAAAATGCAGCTATAGATTGAGCATTAGCGGCGGTTTTTA
1 AAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTTG
* *
52348797 AAAAACGCCGCTATAGATCGAGCATTAGTGGCGCTTTTTA
1 AAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTTG
52348837 AAAAA
1 AAAAA
52348842 TACCGCAAAA
Statistics
Matches: 210, Mismatches: 61, Indels: 18
0.73 0.21 0.06
Matches are distributed among these distances:
34 7 0.03
35 5 0.02
36 4 0.02
37 8 0.04
38 2 0.01
39 3 0.01
40 170 0.81
41 11 0.05
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (40 bp):
AAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTTG
Found at i:52349167 original size:7 final size:7
Alignment explanation
Indices: 52349146--52349254 Score: 110
Period size: 7 Copynumber: 15.4 Consensus size: 7
52349136 TTAATTATCA
*
52349146 TTATAGT
1 TTATGGT
*
52349153 TTAAGGT
1 TTATGGT
52349160 TTATGGT
1 TTATGGT
52349167 TTATGGT
1 TTATGGT
52349174 TTATGGT
1 TTATGGT
* *
52349181 ATATAGT
1 TTATGGT
*
52349188 TTAGGGT
1 TTATGGT
*
52349195 TTAAGGT
1 TTATGGT
*
52349202 TTATGGA
1 TTATGGT
*
52349209 TTATGGA
1 TTATGGT
52349216 TTATGGGT
1 TTAT-GGT
* *
52349224 TTAGGGA
1 TTATGGT
52349231 TTATGGT
1 TTATGGT
*
52349238 TTATGAT
1 TTATGGT
52349245 TTATGGT
1 TTATGGT
52349252 TTA
1 TTA
52349255 AGGGTTGGGG
Statistics
Matches: 83, Mismatches: 18, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
7 78 0.94
8 5 0.06
ACGTcount: A:0.23, C:0.00, G:0.28, T:0.50
Consensus pattern (7 bp):
TTATGGT
Found at i:52349168 original size:14 final size:14
Alignment explanation
Indices: 52349146--52349332 Score: 110
Period size: 14 Copynumber: 13.2 Consensus size: 14
52349136 TTAATTATCA
*
52349146 TTATAGTTTAAGGT
1 TTATGGTTTAAGGT
*
52349160 TTATGGTTTATGGT
1 TTATGGTTTAAGGT
*
52349174 TTATGGTATATA-GT
1 TTATGGTTTA-AGGT
*
52349188 TTAGGGTTTAAGGT
1 TTATGGTTTAAGGT
* * *
52349202 TTATGGATTATGGA
1 TTATGGTTTAAGGT
* *
52349216 TTATGGGTTTAGGGA
1 TTAT-GGTTTAAGGT
* *
52349231 TTATGGTTTATGAT
1 TTATGGTTTAAGGT
*
52349245 TTATGGTTTAAGGG
1 TTATGGTTTAAGGT
** *
52349259 TTGGGGTTTAAGGA
1 TTATGGTTTAAGGT
*
52349273 TTA-GGTGTTAGGGGT
1 TTATGGT-TTA-AGGT
* *
52349288 TAAAGG-TTAAGGGT
1 TTATGGTTTAA-GGT
* * *
52349302 TTAGGGTTTATGTT
1 TTATGGTTTAAGGT
*
52349316 TTATGATTTAAGGT
1 TTATGGTTTAAGGT
52349330 TTA
1 TTA
52349333 GGCGATAGGA
Statistics
Matches: 131, Mismatches: 34, Indels: 16
0.72 0.19 0.09
Matches are distributed among these distances:
13 4 0.03
14 106 0.81
15 19 0.15
16 2 0.02
ACGTcount: A:0.23, C:0.00, G:0.31, T:0.46
Consensus pattern (14 bp):
TTATGGTTTAAGGT
Found at i:52349231 original size:22 final size:22
Alignment explanation
Indices: 52349199--52349242 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
52349189 TAGGGTTTAA
*
52349199 GGTTTATGGATTATGGATTATG
1 GGTTTAGGGATTATGGATTATG
*
52349221 GGTTTAGGGATTATGGTTTATG
1 GGTTTAGGGATTATGGATTATG
52349243 ATTTATGGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.34, T:0.45
Consensus pattern (22 bp):
GGTTTAGGGATTATGGATTATG
Found at i:52349234 original size:29 final size:29
Alignment explanation
Indices: 52349187--52349257 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 29
52349177 TGGTATATAG
*
52349187 TTTA-GGGTTTAAGGTTTATGGATTATGGA
1 TTTATGGGTTTAAGGATTATGGATTAT-GA
* *
52349216 -TTATGGGTTTAGGGATTATGGTTTATGA
1 TTTATGGGTTTAAGGATTATGGATTATGA
52349244 TTTAT-GGTTTAAGG
1 TTTATGGGTTTAAGG
52349258 GTTGGGGTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
28 13 0.36
29 23 0.64
ACGTcount: A:0.23, C:0.00, G:0.31, T:0.46
Consensus pattern (29 bp):
TTTATGGGTTTAAGGATTATGGATTATGA
Found at i:52349305 original size:22 final size:23
Alignment explanation
Indices: 52349252--52349307 Score: 59
Period size: 22 Copynumber: 2.6 Consensus size: 23
52349242 GATTTATGGT
*
52349252 TTAAGGG-TT-GGGGTTTAAGGA
1 TTAAGGGTTTAGGGGTTAAAGGA
52349273 TT-A-GGTGTTAGGGGTTAAAGG-
1 TTAAGGGT-TTAGGGGTTAAAGGA
52349294 TTAAGGGTTTAGGG
1 TTAAGGGTTTAGGG
52349308 TTTATGTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 9
0.74 0.03 0.23
Matches are distributed among these distances:
19 2 0.07
20 1 0.03
21 6 0.21
22 17 0.59
23 3 0.10
ACGTcount: A:0.23, C:0.00, G:0.43, T:0.34
Consensus pattern (23 bp):
TTAAGGGTTTAGGGGTTAAAGGA
Found at i:52349307 original size:7 final size:7
Alignment explanation
Indices: 52349151--52349362 Score: 70
Period size: 7 Copynumber: 29.9 Consensus size: 7
52349141 TATCATTATA
*
52349151 GTTTAAG
1 GTTTAGG
*
52349158 GTTTATG
1 GTTTAGG
*
52349165 GTTTATG
1 GTTTAGG
*
52349172 GTTTATG
1 GTTTAGG
* **
52349179 GTATATA
1 GTTTAGG
52349186 GTTTAGG
1 GTTTAGG
*
52349193 GTTTAAG
1 GTTTAGG
*
52349200 GTTTATG
1 GTTTAGG
* *
52349207 GATTATG
1 GTTTAGG
*
52349214 GATTATGG
1 GTTTA-GG
52349222 GTTTAGG
1 GTTTAGG
* *
52349229 GATTATG
1 GTTTAGG
*
52349236 GTTTATG
1 GTTTAGG
* *
52349243 ATTTATG
1 GTTTAGG
52349250 GTTTAAGG
1 GTTT-AGG
*
52349258 G-TTGGG
1 GTTTAGG
*
52349264 GTTTAAG
1 GTTTAGG
*
52349271 GATTA-G
1 GTTTAGG
52349277 GTGTTAGGG
1 GT-TTA-GG
* *
52349286 GTTAAAG
1 GTTTAGG
*
52349293 GTTAAGG
1 GTTTAGG
52349300 GTTTAGG
1 GTTTAGG
*
52349307 GTTTATG
1 GTTTAGG
* *
52349314 TTTTATG
1 GTTTAGG
* *
52349321 ATTTAAG
1 GTTTAGG
52349328 GTTTAGG
1 GTTTAGG
*
52349335 CG-ATAGG
1 -GTTTAGG
*
52349342 AGTTAAGG
1 -GTTTAGG
*
52349350 GTTTATG
1 GTTTAGG
52349357 GTTTAG
1 GTTTAG
52349363 ATTAATTAGT
Statistics
Matches: 158, Mismatches: 39, Indels: 16
0.74 0.18 0.08
Matches are distributed among these distances:
6 5 0.03
7 136 0.86
8 14 0.09
9 3 0.02
ACGTcount: A:0.23, C:0.00, G:0.33, T:0.44
Consensus pattern (7 bp):
GTTTAGG
Found at i:52349998 original size:19 final size:18
Alignment explanation
Indices: 52349982--52350033 Score: 68
Period size: 19 Copynumber: 2.8 Consensus size: 18
52349972 TCTCTCCCCC
*
52349982 ATTCCGTTTTCTTTCCCA
1 ATTCCCTTTTCTTTCCCA
* *
52350000 ATTTCCTTTTTCTTTCTCA
1 A-TTCCCTTTTCTTTCCCA
52350019 ATTCCCTTTTCTTTC
1 ATTCCCTTTTCTTTC
52350034 TCAGCCTTTC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
18 14 0.47
19 16 0.53
ACGTcount: A:0.10, C:0.31, G:0.02, T:0.58
Consensus pattern (18 bp):
ATTCCCTTTTCTTTCCCA
Found at i:52350023 original size:18 final size:18
Alignment explanation
Indices: 52349982--52350036 Score: 74
Period size: 18 Copynumber: 3.0 Consensus size: 18
52349972 TCTCTCCCCC
* *
52349982 ATTCCGTTTTCTTTCCCA
1 ATTCCCTTTTCTTTCTCA
*
52350000 ATTTCCTTTTTCTTTCTCA
1 A-TTCCCTTTTCTTTCTCA
52350019 ATTCCCTTTTCTTTCTCA
1 ATTCCCTTTTCTTTCTCA
52350037 GCCTTTCTCA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
18 17 0.52
19 16 0.48
ACGTcount: A:0.11, C:0.31, G:0.02, T:0.56
Consensus pattern (18 bp):
ATTCCCTTTTCTTTCTCA
Found at i:52352870 original size:15 final size:16
Alignment explanation
Indices: 52352850--52352880 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
52352840 GTTTTTGTCT
52352850 TATATATGAT-TAAAA
1 TATATATGATCTAAAA
52352865 TATATATGATCTAAAA
1 TATATATGATCTAAAA
52352881 GCAAGAGAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.52, C:0.03, G:0.06, T:0.39
Consensus pattern (16 bp):
TATATATGATCTAAAA
Found at i:52354710 original size:30 final size:30
Alignment explanation
Indices: 52354615--52354711 Score: 88
Period size: 30 Copynumber: 3.2 Consensus size: 30
52354605 AGCTCACTCC
* *
52354615 TAGCTC-ACTTTCAACTCACAAGCTAAACCT
1 TAGCTCAACTTT-AGCTCACGAGCTAAACCT
* * * * * *
52354645 TAGCTCAACTTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
* *
52354675 CAGCTCAACTTTAGCTCACGAGCTAAATCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
52354705 TAGCTCA
1 TAGCTCA
52354712 TTTTAGTTTA
Statistics
Matches: 49, Mismatches: 17, Indels: 2
0.72 0.25 0.03
Matches are distributed among these distances:
30 45 0.92
31 4 0.08
ACGTcount: A:0.29, C:0.29, G:0.13, T:0.29
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTCACGAGCTAAACCT
Found at i:52356399 original size:13 final size:13
Alignment explanation
Indices: 52356381--52356426 Score: 62
Period size: 13 Copynumber: 3.7 Consensus size: 13
52356371 TATACAAGTC
52356381 AAAAAAAAATTCG
1 AAAAAAAAATTCG
52356394 AAAAAAAAATTC-
1 AAAAAAAAATTCG
52356406 --AAAAAAATTCG
1 AAAAAAAAATTCG
52356417 AAAAGAAAAA
1 AAAA-AAAAA
52356427 AAATCTGAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
10 10 0.34
13 14 0.48
14 5 0.17
ACGTcount: A:0.74, C:0.07, G:0.07, T:0.13
Consensus pattern (13 bp):
AAAAAAAAATTCG
Found at i:52357335 original size:9 final size:10
Alignment explanation
Indices: 52357328--52357384 Score: 55
Period size: 11 Copynumber: 5.5 Consensus size: 10
52357318 AAGAGAAAAC
52357328 AAAGAAAAGA
1 AAAGAAAAGA
52357338 AAAGAAAAAGCA
1 AAAG-AAAAG-A
*
52357350 AAAGAAGA-A
1 AAAGAAAAGA
52357359 AAAGAAAATGA
1 AAAGAAAA-GA
52357370 AATA-AAAAGA
1 AA-AGAAAAGA
52357380 AAAGA
1 AAAGA
52357385 GAGGCAAGAG
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
9 9 0.23
10 9 0.23
11 15 0.38
12 6 0.15
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.04
Consensus pattern (10 bp):
AAAGAAAAGA
Found at i:52357351 original size:21 final size:20
Alignment explanation
Indices: 52357317--52357384 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 20
52357307 ACATTCTTGT
52357317 AAAGAGAAAA-CAAAGAAAAGA
1 AAAGA-AAAAGCAAA-AAAAGA
*
52357338 AAAGAAAAAGCAAAAGAAGAA
1 AAAGAAAAAGCAAAAAAAG-A
* *
52357359 AAAGAAAATGAAATAAAAAGA
1 AAAGAAAAAGCAA-AAAAAGA
52357380 AAAGA
1 AAAGA
52357385 GAGGCAAGAG
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
20 8 0.20
21 27 0.68
22 5 0.12
ACGTcount: A:0.76, C:0.03, G:0.18, T:0.03
Consensus pattern (20 bp):
AAAGAAAAAGCAAAAAAAGA
Found at i:52357352 original size:6 final size:5
Alignment explanation
Indices: 52357328--52357384 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
52357318 AAGAGAAAAC
*
52357328 AAAGA AAAGA AAAGAA AAAGCA AAAGA AGA-A AAAGA AAATGA AATA-A
1 AAAGA AAAGA AAAG-A AAAG-A AAAGA AAAGA AAAGA AAA-GA AA-AGA
52357375 AAAGA AAAGA
1 AAAGA AAAGA
52357385 GAGGCAAGAG
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
4 4 0.09
5 25 0.57
6 14 0.32
7 1 0.02
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.04
Consensus pattern (5 bp):
AAAGA
Found at i:52357359 original size:15 final size:14
Alignment explanation
Indices: 52357328--52357384 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 14
52357318 AAGAGAAAAC
52357328 AAAGAAAAGAAAAGAA
1 AAAGAAAAG--AAGAA
52357344 AAAGCAAAAGAAGAA
1 AAAG-AAAAGAAGAA
*
52357359 AAAGAAAATGAAATAA
1 AAAGAAAA-G-AAGAA
52357375 AAAGAAAAGA
1 AAAGAAAAGA
52357385 GAGGCAAGAG
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
14 5 0.14
15 11 0.30
16 16 0.43
17 5 0.14
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.04
Consensus pattern (14 bp):
AAAGAAAAGAAGAA
Found at i:52357503 original size:30 final size:31
Alignment explanation
Indices: 52357453--52357523 Score: 94
Period size: 30 Copynumber: 2.4 Consensus size: 31
52357443 TTTGAAAATC
* *
52357453 AAAAAGAAA-ATGAGATTGAAAAAG-AGAATG
1 AAAAAGAAATTTGAGAGTGAAAAAGAAG-ATG
52357483 -AAAAGAAATTTGAGAGTGAAAAAGAAGATG
1 AAAAAGAAATTTGAGAGTGAAAAAGAAGATG
52357513 AAAAAGAAATT
1 AAAAAGAAATT
52357524 GAAACAAAAG
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
29 8 0.22
30 16 0.44
31 12 0.33
ACGTcount: A:0.62, C:0.00, G:0.23, T:0.15
Consensus pattern (31 bp):
AAAAAGAAATTTGAGAGTGAAAAAGAAGATG
Found at i:52359790 original size:30 final size:31
Alignment explanation
Indices: 52359756--52359852 Score: 101
Period size: 30 Copynumber: 3.2 Consensus size: 31
52359746 AGCTCACTCC
*
52359756 TAGCTC-ACTTTCAACTCACGAGCTAAACCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
* * * * *
52359786 TAGCTCAAC-TTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
* *
52359816 CAGCTCAACTTT-AGCTCACGAGCTAAAGCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
52359846 TAGCTCA
1 TAGCTCA
52359853 TTTTAGTTTA
Statistics
Matches: 51, Mismatches: 14, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
30 47 0.92
31 4 0.08
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.28
Consensus pattern (31 bp):
TAGCTCAACTTTCAGCTCACGAGCTAAACCT
Found at i:52362795 original size:24 final size:25
Alignment explanation
Indices: 52362762--52362814 Score: 99
Period size: 24 Copynumber: 2.2 Consensus size: 25
52362752 ATCCATCAAC
52362762 AAGCATCATAATACACAAGTGGCAT
1 AAGCATCATAATACACAAGTGGCAT
52362787 AAGC-TCATAATACACAAGTGGCAT
1 AAGCATCATAATACACAAGTGGCAT
52362811 AAGC
1 AAGC
52362815 CAAACTTACT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
24 24 0.86
25 4 0.14
ACGTcount: A:0.43, C:0.21, G:0.17, T:0.19
Consensus pattern (25 bp):
AAGCATCATAATACACAAGTGGCAT
Found at i:52363107 original size:46 final size:49
Alignment explanation
Indices: 52362968--52363140 Score: 193
Period size: 46 Copynumber: 3.7 Consensus size: 49
52362958 TGGTGTAGGT
* ** * *
52362968 GCTGATGCCATGTCCCAGACATGGTCTTACACAAGCTCTAGCATATC-TAT
1 GCTGATGCCATGTCCCAAACATGGTCTTACACTGGCT-TA-CATCTCGTAG
* *
52363018 GCTGATGCCATGTCCCAGACATGGTCTTACACTGAC--ACATCTCGTA-
1 GCTGATGCCATGTCCCAAACATGGTCTTACACTGGCTTACATCTCGTAG
*
52363064 GCTGATG-CATGTCCCAAACAT-GTCTTACACTGGCTTACGTCTCG-AG
1 GCTGATGCCATGTCCCAAACATGGTCTTACACTGGCTTACATCTCGTAG
52363110 GCTGATG-CATGTCCCAAACAT-GTCTTACACT
1 GCTGATGCCATGTCCCAAACATGGTCTTACACT
52363141 AGCACTCATC
Statistics
Matches: 112, Mismatches: 7, Indels: 12
0.85 0.05 0.09
Matches are distributed among these distances:
44 12 0.11
45 14 0.12
46 50 0.45
47 3 0.03
50 33 0.29
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (49 bp):
GCTGATGCCATGTCCCAAACATGGTCTTACACTGGCTTACATCTCGTAG
Found at i:52364026 original size:6 final size:6
Alignment explanation
Indices: 52364001--52364075 Score: 60
Period size: 6 Copynumber: 11.8 Consensus size: 6
52363991 AGTGTGAAAG
* ** **
52364001 AAAGCAA AAAGAAA ATAAGAA AAAGAA AATTGAA ATTGAA AAAGAA AGTGAA
1 AAAG-AA AAAG-AA A-AAGAA AAAGAA AA-AGAA AAAGAA AAAGAA AAAGAA
*
52364053 AAAGAA AAAGAA AAGGAA AAAGA
1 AAAGAA AAAGAA AAAGAA AAAGA
52364076 GATCGAGATC
Statistics
Matches: 55, Mismatches: 11, Indels: 5
0.77 0.15 0.07
Matches are distributed among these distances:
6 38 0.69
7 14 0.25
8 3 0.05
ACGTcount: A:0.72, C:0.01, G:0.19, T:0.08
Consensus pattern (6 bp):
AAAGAA
Found at i:52364073 original size:19 final size:18
Alignment explanation
Indices: 52364007--52364075 Score: 68
Period size: 18 Copynumber: 3.7 Consensus size: 18
52363997 AAAGAAAGCA
*
52364007 AAAAGAAAATAAGAAAAAG
1 AAAAGGAAA-AAGAAAAAG
* **
52364026 AAAATTGAAATTGAAAAAG
1 AAAA-GGAAAAAGAAAAAG
52364045 -AAAGTGAAAAAGAAAAAG
1 AAAAG-GAAAAAGAAAAAG
52364063 AAAAGGAAAAAGA
1 AAAAGGAAAAAGA
52364076 GATCGAGATC
Statistics
Matches: 40, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
18 22 0.55
19 15 0.38
20 3 0.08
ACGTcount: A:0.72, C:0.00, G:0.19, T:0.09
Consensus pattern (18 bp):
AAAAGGAAAAAGAAAAAG
Found at i:52364163 original size:61 final size:61
Alignment explanation
Indices: 52364039--52364163 Score: 132
Period size: 61 Copynumber: 2.0 Consensus size: 61
52364029 ATTGAAATTG
** *
52364039 AAAAAGAAAGTGAAAAAGAAAAAGAAAAGGAAAAAGAGATCGAGATCAAGATCGAGAGTAA
1 AAAAAGAAAGTGAAAAAGAAAAAGAAAAGGAAAAAGAGATCGAGATCAAGAAAGAAAGTAA
* * *
52364100 AAAAAGAATGTG-AGAAGAAAAA-AAAAGTTGAAAAAGAGAGT-GAGTATGAAGAAAGAAAG-AA
1 AAAAAGAAAGTGAAAAAGAAAAAGAAAAG--GAAAAAGAGA-TCGAG-ATCAAGAAAGAAAGTAA
52364161 AAA
1 AAA
52364164 TGATCAAGAA
Statistics
Matches: 54, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
59 5 0.09
60 9 0.17
61 29 0.54
62 11 0.20
ACGTcount: A:0.63, C:0.02, G:0.25, T:0.10
Consensus pattern (61 bp):
AAAAAGAAAGTGAAAAAGAAAAAGAAAAGGAAAAAGAGATCGAGATCAAGAAAGAAAGTAA
Found at i:52385494 original size:37 final size:37
Alignment explanation
Indices: 52385444--52385529 Score: 163
Period size: 37 Copynumber: 2.3 Consensus size: 37
52385434 CCCGTACCAG
52385444 CCCTACACTCCATGTGGGGAATATCTCAACCCACCCA
1 CCCTACACTCCATGTGGGGAATATCTCAACCCACCCA
52385481 CCCTACACTCCATGTGGGGAATATCTCAACCCACCCA
1 CCCTACACTCCATGTGGGGAATATCTCAACCCACCCA
*
52385518 GCCTACACTCCA
1 CCCTACACTCCA
52385530 CAGTTGCAGC
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 48 1.00
ACGTcount: A:0.27, C:0.42, G:0.13, T:0.19
Consensus pattern (37 bp):
CCCTACACTCCATGTGGGGAATATCTCAACCCACCCA
Found at i:52387530 original size:55 final size:53
Alignment explanation
Indices: 52387464--52387617 Score: 161
Period size: 54 Copynumber: 2.8 Consensus size: 53
52387454 TTACTTTATG
* *
52387464 AACTCACCAATGGCATGCCTTGGCATGGTCTTACATAGGACCTTTTCCTT-A-TAGT-
1 AACTCATCAATGCCATGCCTTGGCATGGTCTTACAT--GA---TTTCCTTGACTAGTA
* * * *
52387519 AACTCATCAATGCCACGTCTTGACATGGTCTTACATGATTTCCTTGACTTGTAA
1 AACTCATCAATGCCATGCCTTGGCATGGTCTTACATGATTTCCTTGACTAGT-A
* *
52387573 AACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTT
1 AACTCATCAATGCCATGCCTTGGCATGGTCTTACATGATTTCCTT
52387618 ATCTTACCAA
Statistics
Matches: 84, Mismatches: 11, Indels: 9
0.81 0.11 0.09
Matches are distributed among these distances:
50 7 0.08
51 1 0.01
52 3 0.04
53 2 0.02
54 40 0.48
55 31 0.37
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.34
Consensus pattern (53 bp):
AACTCATCAATGCCATGCCTTGGCATGGTCTTACATGATTTCCTTGACTAGTA
Done.