Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 159 of 343
Found at i:52680877 original size:26 final size:26
Alignment explanation
Indices: 52680842--52680892 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
52680832 AATGTGAAAG
*
52680842 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
52680868 GGGGTTGCTAAGTGCTGATTCCCCG
1 GGGGTTGCTAAGTGCTGATTCCCCG
52680893 GTTCATTGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.12, C:0.24, G:0.35, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:52680904 original size:103 final size:103
Alignment explanation
Indices: 52680764--52680985 Score: 374
Period size: 103 Copynumber: 2.2 Consensus size: 103
52680754 TGTATATAAA
** * *
52680764 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCG-TGATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
52680828 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
65 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
* *
52680867 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGATATCCACCATATCTT
52680932 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
52680970 AGGGGTTGCTAAGTGC
1 AGGGGTTGCTAAGTGC
52680986 GATATCCATT
Statistics
Matches: 112, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
103 111 0.99
104 1 0.01
ACGTcount: A:0.18, C:0.18, G:0.32, T:0.32
Consensus pattern (103 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGATATCCACCATATCTT
TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
Found at i:52681037 original size:70 final size:72
Alignment explanation
Indices: 52680905--52681055 Score: 243
Period size: 71 Copynumber: 2.1 Consensus size: 72
52680895 TCATTGGTGG
* *
52680905 TGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATT-CCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
52680969 GAGGGGT
66 GAGGGGT
***
52680976 TGCTAAGTGCGATATCCATTGTATATTTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
52681040 GAGGGGT
66 GAGGGGT
52681047 TGCTAAGTG
1 TGCTAAGTG
52681056 ATGATTCCCC
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
70 24 0.32
71 50 0.68
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (72 bp):
TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
GAGGGGT
Found at i:52688430 original size:26 final size:26
Alignment explanation
Indices: 52688395--52688445 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
52688385 AATGTGAAAG
*
52688395 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
52688421 GGGGTTGCTAAGTGCTGATTCCCCG
1 GGGGTTGCTAAGTGCTGATTCCCCG
52688446 GTTCATTGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.12, C:0.24, G:0.35, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:52688457 original size:103 final size:104
Alignment explanation
Indices: 52688317--52688539 Score: 369
Period size: 103 Copynumber: 2.2 Consensus size: 104
52688307 TGTATATAAA
** * *
52688317 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCG-TGATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
52688381 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATT-CCCCG
65 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* *
52688420 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGATATCCACCATATCTT
52688485 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
52688524 AGGGGTTGCTAAGTGC
1 AGGGGTTGCTAAGTGC
52688540 GATATCCATT
Statistics
Matches: 112, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
103 90 0.80
104 22 0.20
ACGTcount: A:0.18, C:0.19, G:0.32, T:0.31
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGATATCCACCATATCTT
TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:52688591 original size:71 final size:72
Alignment explanation
Indices: 52688458--52688609 Score: 252
Period size: 71 Copynumber: 2.1 Consensus size: 72
52688448 TCATTGGTGG
* *
52688458 TGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
52688523 GAGGGGT
66 GAGGGGT
***
52688530 TGCTAAGTGCGATATCCATTGTATATTTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
52688594 GAGGGGT
66 GAGGGGT
52688601 TGCTAAGTG
1 TGCTAAGTG
52688610 ATGATTCCCC
Statistics
Matches: 75, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
71 45 0.60
72 30 0.40
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (72 bp):
TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
GAGGGGT
Found at i:52689928 original size:46 final size:46
Alignment explanation
Indices: 52689860--52690065 Score: 149
Period size: 46 Copynumber: 4.5 Consensus size: 46
52689850 GGGTGTTACA
*
52689860 AGACAGGTCTTACACTGACACAT-GTAACCAT-GCCGATGCATGTCCC
1 AGACATGTCTTACACTG-CACATCGTAA-CATAGCCGATGCATGTCCC
* *
52689906 AGACATGTCTTACACTAGCACATC-T--CGTAGCCGACGCATGTCCC
1 AGACATGTCTTACACT-GCACATCGTAACATAGCCGATGCATGTCCC
* * * ** * *
52689950 AGATATGTCTTACACTGTCTC-TCATAATGTGGCTGATGCATGTCCC
1 AGACATGTCTTACACTG-CACATCGTAACATAGCCGATGCATGTCCC
* * **
52689996 AGACATGTCTTACATTAGC-CTTCGTCTCA-ATGCCGATGCCATGTCCC
1 AGACATGTCTTACACT-GCACATCGTAACATA-GCCGATG-CATGTCCC
52690043 AGACATGGTCTTACACTGGCACA
1 AGACAT-GTCTTACACT-GCACA
52690066 CAAATCTCAT
Statistics
Matches: 126, Mismatches: 21, Indels: 23
0.74 0.12 0.14
Matches are distributed among these distances:
43 5 0.04
44 32 0.25
45 1 0.01
46 60 0.48
47 16 0.13
48 11 0.09
49 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.27
Consensus pattern (46 bp):
AGACATGTCTTACACTGCACATCGTAACATAGCCGATGCATGTCCC
Found at i:52697953 original size:10 final size:10
Alignment explanation
Indices: 52697940--52697999 Score: 57
Period size: 10 Copynumber: 5.9 Consensus size: 10
52697930 AATTTAGGAT
*
52697940 TTATTTTTAT
1 TTATTTTTAA
*
52697950 TTATCTTTAA
1 TTATTTTTAA
*
52697960 TTATATTTAA
1 TTATTTTTAA
*
52697970 TTATCTTTAA
1 TTATTTTTAA
* *
52697980 TTATTTGTAT
1 TTATTTTTAA
52697990 TTATCTTTTA
1 TTAT-TTTTA
52698000 GAATTTAATT
Statistics
Matches: 41, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
10 37 0.90
11 4 0.10
ACGTcount: A:0.27, C:0.05, G:0.02, T:0.67
Consensus pattern (10 bp):
TTATTTTTAA
Found at i:52697968 original size:20 final size:19
Alignment explanation
Indices: 52697944--52697997 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 19
52697934 TAGGATTTAT
52697944 TTTTATTTATCTTTAATTA
1 TTTTATTTATCTTTAATTA
*
52697963 TATTTAATTATCTTTAATTA
1 T-TTTATTTATCTTTAATTA
52697983 TTTGTATTTATCTTT
1 TTT-TATTTATCTTT
52697998 TAGAATTTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
19 3 0.10
20 28 0.90
ACGTcount: A:0.26, C:0.06, G:0.02, T:0.67
Consensus pattern (19 bp):
TTTTATTTATCTTTAATTA
Found at i:52699357 original size:49 final size:48
Alignment explanation
Indices: 52699294--52699513 Score: 195
Period size: 49 Copynumber: 4.6 Consensus size: 48
52699284 ACATCAAAGT
*
52699294 TGATGCCATGTCCCAGACAGGTCTTACATTGACTTTCATATATCGAGGC
1 TGATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATC-AGGC
* * *
52699343 TGATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCATCTATCAGTG-
1 TGATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCAG-GC
* * * *
52699391 TCGATGCCATGTCCCAGAAAGGTCTTACACTGA----CATACAACAAGC
1 T-GATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCAGGC
* * * *
52699436 TGACGCCATGTACCAGACAGGTCTTACACT-AGCTTGT-ACATCTCGAGGC
1 TGATGCCATGTCCCAGACAGGTCTTACACTGA-CTT-TCATATATC-AGGC
* * *
52699485 CGATG-CATGTCCAAGACATGTCTTACACT
1 TGATGCCATGTCCCAGACAGGTCTTACACT
52699514 AGCTCTCATT
Statistics
Matches: 138, Mismatches: 23, Indels: 21
0.76 0.13 0.12
Matches are distributed among these distances:
43 1 0.01
44 27 0.20
45 7 0.05
48 27 0.20
49 76 0.55
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (48 bp):
TGATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCAGGC
Found at i:52699415 original size:98 final size:91
Alignment explanation
Indices: 52699248--52699465 Score: 238
Period size: 98 Copynumber: 2.3 Consensus size: 91
52699238 TAAGATGCCA
* * * *
52699248 ACGCCATGTCCCAGACATGGTCTTATATTGGCTAGCACATCAAAGTTGATGCCATGTCCCAGACA
1 ACGCCATGTCCCAGACA-GGTCTTACACTGGCTAGCACATCAAAGTCGATGCCATGTCCCAGAAA
* * * *
52699313 GGTCTTACATTGACTTTCATATATCGAGGCTG
65 GGTCTTACACTGA----CATACAAC-AAGCTG
* ** **
52699345 ATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCATCTATCAGTGTCGATGCCATGTCCCAGAA
1 ACGCCATGTCCCAGACAGGTCTTACACTGGCTAGCA-C-ATCAAAGTCGATGCCATGTCCCAGAA
52699410 AGGTCTTACACTGACATACAACAAGCTG
64 AGGTCTTACACTGACATACAACAAGCTG
*
52699438 ACGCCATGTACCAGACAGGTCTTACACT
1 ACGCCATGTCCCAGACAGGTCTTACACT
52699466 AGCTTGTACA
Statistics
Matches: 104, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
93 31 0.30
94 6 0.06
96 15 0.14
97 17 0.16
98 35 0.34
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.26
Consensus pattern (91 bp):
ACGCCATGTCCCAGACAGGTCTTACACTGGCTAGCACATCAAAGTCGATGCCATGTCCCAGAAAG
GTCTTACACTGACATACAACAAGCTG
Found at i:52699489 original size:93 final size:94
Alignment explanation
Indices: 52699295--52699513 Score: 232
Period size: 93 Copynumber: 2.3 Consensus size: 94
52699285 CATCAAAGTT
* * * * * *
52699295 GATGCCATGTCCCAGACAGGTCTTACATTGACTTTCATATATCGAGGCTGATGCCATGTCCCAGA
1 GATGCCATGTCCCAGACAGGTCTTACACTGA---TCATACAACGAAGCTGACGCCATGTACCAGA
* *
52699360 CAGGTCTTACACTGGCTCTCATCTATCAGTGTC
63 CAGGTCTTACACTAGCTCTCATC-ATCAGTGCC
*
52699393 GATGCCATGTCCCAGAAAGGTCTTACACTGA-CATACAAC-AAGCTGACGCCATGTACCAGACAG
1 GATGCCATGTCCCAGACAGGTCTTACACTGATCATACAACGAAGCTGACGCCATGTACCAGACAG
*
52699456 GTCTTACACTAGCTTGTACATC-TCGAG-GCC
66 GTCTTACACTAGC-TCT-CATCATC-AGTGCC
* *
52699486 GATG-CATGTCCAAGACATGTCTTACACT
1 GATGCCATGTCCCAGACAGGTCTTACACT
52699514 AGCTCTCATT
Statistics
Matches: 105, Mismatches: 13, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
92 21 0.20
93 41 0.39
94 10 0.10
95 4 0.04
98 29 0.28
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (94 bp):
GATGCCATGTCCCAGACAGGTCTTACACTGATCATACAACGAAGCTGACGCCATGTACCAGACAG
GTCTTACACTAGCTCTCATCATCAGTGCC
Found at i:52700949 original size:49 final size:49
Alignment explanation
Indices: 52700861--52700975 Score: 119
Period size: 49 Copynumber: 2.3 Consensus size: 49
52700851 TGTTGTGTGT
* * * * *
52700861 CAGTGTAAGACTTGTCTGGGACTTGGCATTGACACCGATAGT-TGAGAGC
1 CAGTGTAAGACCTGTCTGGAACATGGCATAGACACCGATA-TATGAAAGC
*
52700910 CAGTGTAAGACCTGTCTGGAACATGGCATCAG-C-CTCGATATATGAAAGT
1 CAGTGTAAGACCTGTCTGGAACATGGCAT-AGACAC-CGATATATGAAAGC
*
52700959 CAATGTAAGACCTGTCT
1 CAGTGTAAGACCTGTCT
52700976 AAGACACGAC
Statistics
Matches: 56, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
48 2 0.04
49 53 0.95
50 1 0.02
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (49 bp):
CAGTGTAAGACCTGTCTGGAACATGGCATAGACACCGATATATGAAAGC
Found at i:52702575 original size:46 final size:47
Alignment explanation
Indices: 52702459--52702579 Score: 149
Period size: 48 Copynumber: 2.6 Consensus size: 47
52702449 TCGTCTCAAT
*
52702459 GTCGATGCATGTCTCAGACATGTCTTACATTGGCTTGTATATCTCGA
1 GTCGATGCATGTCCCAGACATGTCTTACATTGGCTTGTATATCTCGA
* * * *
52702506 GGCTGATGCTTGTCCCAAACATGTCTTACATTGGCTCTAGTA-ATGT-G-
1 GTC-GATGCATGTCCCAGACATGTCTTACATTGGCT-T-GTATATCTCGA
52702553 GTCGATGCATGTCCCAGACATGTCTTA
1 GTCGATGCATGTCCCAGACATGTCTTA
52702580 TACTAGCACA
Statistics
Matches: 63, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
46 22 0.35
47 4 0.06
48 30 0.48
49 4 0.06
50 3 0.05
ACGTcount: A:0.21, C:0.22, G:0.22, T:0.34
Consensus pattern (47 bp):
GTCGATGCATGTCCCAGACATGTCTTACATTGGCTTGTATATCTCGA
Found at i:52705783 original size:26 final size:26
Alignment explanation
Indices: 52705753--52705802 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
52705743 CTATTGGAGG
*
52705753 GCTTAGAATCCTTTTTATTTCTGCTC
1 GCTTAGAATCCCTTTTATTTCTGCTC
52705779 GCTTAGAATCCCTTTTATTTCTGC
1 GCTTAGAATCCCTTTTATTTCTGC
52705803 CCCTTTCTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.16, C:0.24, G:0.12, T:0.48
Consensus pattern (26 bp):
GCTTAGAATCCCTTTTATTTCTGCTC
Found at i:52713986 original size:27 final size:27
Alignment explanation
Indices: 52713947--52714025 Score: 95
Period size: 27 Copynumber: 2.9 Consensus size: 27
52713937 GTCTCGGTGA
* *
52713947 ACTATCTCTTGTTTAACGTCCCATTAG
1 ACTATCCCGTGTTTAACGTCCCATTAG
* **
52713974 ACTATCCCGTGTTTAGCGTCCCACCAG
1 ACTATCCCGTGTTTAACGTCCCATTAG
* *
52714001 ACTATCCCGTGTTTAATGTCTCATT
1 ACTATCCCGTGTTTAACGTCCCATT
52714026 GAACTTTCTA
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.20, C:0.29, G:0.14, T:0.37
Consensus pattern (27 bp):
ACTATCCCGTGTTTAACGTCCCATTAG
Found at i:52714189 original size:45 final size:43
Alignment explanation
Indices: 52714102--52714268 Score: 162
Period size: 45 Copynumber: 3.8 Consensus size: 43
52714092 CAAAGTATAC
* * *
52714102 CATAGCCTTTTTCAGCTATGGTCTTAGC-CTTGTTTA-CTATGATG
1 CATAGCATCTTTCAGCTATGGTCTTA-CTCAT-TTTATC-ATGATG
** *
52714146 CCATAGCATCTTTCAGCCGTGGTCTTACTTATTTATATCATGATG
1 -CATAGCATCTTTCAGCTATGGTCTTACTCATTT-TATCATGATG
* * *
52714191 C-GA-CGTCTTTCAGCTATGGTCTTACTCATCGTTATCATGATG
1 CATAGCATCTTTCAGCTATGGTCTTACTCAT-TTTATCATGATG
52714233 TCATAGCATCTTTCAGCTATGGTCTTACTCATTTTA
1 -CATAGCATCTTTCAGCTATGGTCTTACTCATTTTA
52714269 GGTGTATAAC
Statistics
Matches: 100, Mismatches: 15, Indels: 15
0.77 0.12 0.12
Matches are distributed among these distances:
42 32 0.32
43 3 0.03
44 8 0.08
45 56 0.56
46 1 0.01
ACGTcount: A:0.20, C:0.22, G:0.16, T:0.41
Consensus pattern (43 bp):
CATAGCATCTTTCAGCTATGGTCTTACTCATTTTATCATGATG
Found at i:52719063 original size:22 final size:22
Alignment explanation
Indices: 52719026--52719070 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
52719016 TTGATGTTCT
52719026 AGTTGGAATCGTAATGTGTCTAA
1 AGTTGGAATCGTAATGTGT-TAA
*
52719049 AGTTGGTAT-GTAATGTGTTAA
1 AGTTGGAATCGTAATGTGTTAA
52719070 A
1 A
52719071 CTTAATTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 4 0.19
22 9 0.43
23 8 0.38
ACGTcount: A:0.31, C:0.04, G:0.27, T:0.38
Consensus pattern (22 bp):
AGTTGGAATCGTAATGTGTTAA
Found at i:52722506 original size:20 final size:20
Alignment explanation
Indices: 52722481--52722527 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
52722471 GCACATGTCT
52722481 CAAGTTCGATATTTTAGTTA
1 CAAGTTCGATATTTTAGTTA
52722501 CAAGTTCGATATTTTAGTTA
1 CAAGTTCGATATTTTAGTTA
*
52722521 CTAGTTC
1 CAAGTTC
52722528 TACCACTTCG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.28, C:0.13, G:0.15, T:0.45
Consensus pattern (20 bp):
CAAGTTCGATATTTTAGTTA
Found at i:52726865 original size:47 final size:47
Alignment explanation
Indices: 52726787--52727335 Score: 873
Period size: 47 Copynumber: 11.6 Consensus size: 47
52726777 CCCTTCGGGA
* * * * * *
52726787 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
52726834 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
52726881 CTCATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
52726928 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
52726975 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
52727024 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
52727073 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
52727120 CTTATCACATATATACACTTTCACATTCGTCACATCGGCGATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
52727167 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
52727214 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
52727263 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
52727310 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
52727336 CACAATTATC
Statistics
Matches: 470, Mismatches: 28, Indels: 8
0.93 0.06 0.02
Matches are distributed among these distances:
47 331 0.70
49 139 0.30
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:52727217 original size:239 final size:239
Alignment explanation
Indices: 52726787--52727335 Score: 926
Period size: 239 Copynumber: 2.3 Consensus size: 239
52726777 CCCTTCGGGA
* * * * *
52726787 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
52726850 ACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACA
52726915 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
131 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
52726980 CACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
196 CACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
52727024 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
* * *
52727089 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCGTCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACA
*
52727154 TCGGCGATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
131 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
* *
52727219 CACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
196 CACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
52727263 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
*
52727326 ACATTCACAT
66 ACTTTCACAT
52727336 CACAATTATC
Statistics
Matches: 294, Mismatches: 16, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
237 70 0.24
238 1 0.00
239 223 0.76
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (239 bp):
CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
CACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:52727371 original size:96 final size:95
Alignment explanation
Indices: 52726787--52727335 Score: 811
Period size: 96 Copynumber: 5.8 Consensus size: 95
52726777 CCCTTCGGGA
* * * * * * * * *
52726787 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
* *
52726852 TTTCACATTCATCACATCGGCCATTA-GGC
66 ATTCACATTCATCACATTGGCCATTACGGC
* *
52726881 CTCATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
* *
52726946 TTTCACATTCATCACATCGGCCATTA-GGC
66 ATTCACATTCATCACATTGGCCATTACGGC
52726975 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
52727040 ACACTTTCACATTCATCACATTGGCCATT-CGGC
64 ACA--TTCACATTCATCACATTGGCCATTACGGC
* *
52727073 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
* * * *
52727138 TTTCACATTCGTCACATCGGCGATTA-GGC
66 ATTCACATTCATCACATTGGCCATTACGGC
52727167 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
52727232 ACTTTCACATTCATCACATTGGCCATT-CGGC
66 A--TTCACATTCATCACATTGGCCATTACGGC
*
52727263 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
52727328 ATTCACAT
66 ATTCACAT
52727336 CACAATTATC
Statistics
Matches: 420, Mismatches: 26, Indels: 18
0.91 0.06 0.04
Matches are distributed among these distances:
94 186 0.44
96 200 0.48
98 34 0.08
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (95 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ATTCACATTCATCACATTGGCCATTACGGC
Found at i:52732035 original size:48 final size:47
Alignment explanation
Indices: 52731912--52732077 Score: 196
Period size: 46 Copynumber: 3.6 Consensus size: 47
52731902 GCCCTTCGGA
* * * * * *
52731912 CTTATCACATTTATA-ACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
52731958 CCTGTTACATATATACAC-TTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
52732004 CTTATCACAATATATACACTTTCACATTCATCACATCGGCCATTAGG-
1 CTTATCAC-ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
52732051 CTTAATCA-ATATATACAATTTCACATT
1 CTT-ATCACATATATACACTTTCACATT
52732078 ACCAACCCTT
Statistics
Matches: 103, Mismatches: 13, Indels: 8
0.83 0.10 0.06
Matches are distributed among these distances:
46 57 0.55
47 15 0.15
48 31 0.30
ACGTcount: A:0.30, C:0.28, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:52732364 original size:39 final size:39
Alignment explanation
Indices: 52732295--52732433 Score: 124
Period size: 39 Copynumber: 3.6 Consensus size: 39
52732285 GCTACTCGTT
** *
52732295 CAAATGCCTTC-GGAATAGCCCGGTTATAGTAACTTGCA
1 CAAATGCCTTCGGGCTTAGCCCGGATATAGTAACTTGCA
* * *
52732333 CAAATGCCTTCGGGCTTAGCCCGGA-ATTAGTATCTCGCG
1 CAAATGCCTTCGGGCTTAGCCCGGATA-TAGTAACTTGCA
* * * *
52732372 C-AATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGG-GCTTAGCCCGGATATAGTAACTT-GCA
52732412 CAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGG-CTTAGCCC
52732434 AGACATCATT
Statistics
Matches: 79, Mismatches: 15, Indels: 12
0.75 0.14 0.11
Matches are distributed among these distances:
38 23 0.29
39 35 0.44
40 19 0.24
41 2 0.03
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGATATAGTAACTTGCA
Found at i:52742852 original size:28 final size:28
Alignment explanation
Indices: 52742775--52742880 Score: 142
Period size: 28 Copynumber: 3.8 Consensus size: 28
52742765 ACAATCAAAT
* * *
52742775 ATGGTACTTAATGTACGAAATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
*
52742803 AT-GCACTTAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
*
52742830 ATGGCACTTAGTGTGCGAGATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
* *
52742858 ATGACACTTAGTGTGCAAAATAT
1 ATGGCACTTAGTGTGCGAAATAT
52742881 CGAATGATTC
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
27 25 0.36
28 45 0.64
ACGTcount: A:0.36, C:0.10, G:0.24, T:0.30
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCGAAATATTGAGA
Found at i:52742854 original size:55 final size:56
Alignment explanation
Indices: 52742775--52742880 Score: 151
Period size: 55 Copynumber: 1.9 Consensus size: 56
52742765 ACAATCAAAT
* *
52742775 ATGGTACTTAATGTACGAAATATTGAGAATG-CACTTAGTGTACGAAATATTGAGA
1 ATGGCACTTAATGTACGAAATATTGAGAATGACACTTAGTGTACAAAATATTGAGA
* * * *
52742830 ATGGCACTTAGTGTGCGAGATATTGAGAATGACACTTAGTGTGCAAAATAT
1 ATGGCACTTAATGTACGAAATATTGAGAATGACACTTAGTGTACAAAATAT
52742881 CGAATGATTC
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
55 27 0.61
56 17 0.39
ACGTcount: A:0.36, C:0.10, G:0.24, T:0.30
Consensus pattern (56 bp):
ATGGCACTTAATGTACGAAATATTGAGAATGACACTTAGTGTACAAAATATTGAGA
Found at i:52744946 original size:28 final size:28
Alignment explanation
Indices: 52744852--52745004 Score: 130
Period size: 29 Copynumber: 5.5 Consensus size: 28
52744842 GTGAACATAG
*
52744852 GCACTGTGTGTGTGAGTT-CGTAACC-A
1 GCACTGTGTGTGCGAGTTCCGTAACCGA
* * * ****
52744878 GCACTGTGTGTGTGAGATCGGTTGTTGA
1 GCACTGTGTGTGCGAGTTCCGTAACCGA
*
52744906 GGCACTGTATGTGCGAGTTCCGTAACCGA
1 -GCACTGTGTGTGCGAGTTCCGTAACCGA
* * ****
52744935 GCACTGTGTGTGCGAGATCGGTTGTTGA
1 GCACTGTGTGTGCGAGTTCCGTAACCGA
*
52744963 GGCACTGTGTGTGCGAGTTCCGTAACCAA
1 -GCACTGTGTGTGCGAGTTCCGTAACCGA
52744992 GCACTGTGTGTGC
1 GCACTGTGTGTGC
52745005 AAGATCGGTT
Statistics
Matches: 95, Mismatches: 28, Indels: 6
0.74 0.22 0.05
Matches are distributed among these distances:
26 17 0.18
27 2 0.02
28 35 0.37
29 41 0.43
ACGTcount: A:0.17, C:0.19, G:0.35, T:0.29
Consensus pattern (28 bp):
GCACTGTGTGTGCGAGTTCCGTAACCGA
Found at i:52744957 original size:57 final size:56
Alignment explanation
Indices: 52744850--52745034 Score: 282
Period size: 57 Copynumber: 3.2 Consensus size: 56
52744840 AAGTGAACAT
* *
52744850 AGGCACTGTGTGTGTGAGTT-CGTAACCAGCACTGTGTGTGTGAGATCGGTTGTTG
1 AGGCACTGTGTGTGCGAGTTCCGTAACCAGCACTGTGTGTGCGAGATCGGTTGTTG
*
52744905 AGGCACTGTATGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATCGGTTGTTG
1 AGGCACTGTGTGTGCGAGTTCCGTAACC-AGCACTGTGTGTGCGAGATCGGTTGTTG
*
52744962 AGGCACTGTGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTGCAAGATCGGTTGTTG
1 AGGCACTGTGTGTGCGAGTTCCGTAACC-AGCACTGTGTGTGCGAGATCGGTTGTTG
*
52745019 GGGCACTAAGTGTGTG
1 AGGCACT--GTGTGTG
52745035 AAATGAGATC
Statistics
Matches: 119, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
55 18 0.15
56 7 0.06
57 87 0.73
59 7 0.06
ACGTcount: A:0.18, C:0.17, G:0.36, T:0.29
Consensus pattern (56 bp):
AGGCACTGTGTGTGCGAGTTCCGTAACCAGCACTGTGTGTGCGAGATCGGTTGTTG
Found at i:52744971 original size:29 final size:29
Alignment explanation
Indices: 52744878--52745034 Score: 129
Period size: 29 Copynumber: 5.4 Consensus size: 29
52744868 TTCGTAACCA
*
52744878 GCACTGTGTGTGTGAGATCGGTTGTTGAG
1 GCACTGTGTGTGCGAGATCGGTTGTTGAG
* * * ****
52744907 GCACTGTATGTGCGAGTTCCGTAACCGA-
1 GCACTGTGTGTGCGAGATCGGTTGTTGAG
52744935 GCACTGTGTGTGCGAGATCGGTTGTTGAG
1 GCACTGTGTGTGCGAGATCGGTTGTTGAG
* * **** *
52744964 GCACTGTGTGTGCGAGTTCCG-TAACCAA
1 GCACTGTGTGTGCGAGATCGGTTGTTGAG
* *
52744992 GCACTGTGTGTGCAAGATCGGTTGTTGGG
1 GCACTGTGTGTGCGAGATCGGTTGTTGAG
52745021 GCACTAAGTGTGTG
1 GCACT--GTGTGTG
52745035 AAATGAGATC
Statistics
Matches: 93, Mismatches: 31, Indels: 6
0.72 0.24 0.05
Matches are distributed among these distances:
28 41 0.44
29 45 0.48
31 7 0.08
ACGTcount: A:0.17, C:0.17, G:0.36, T:0.29
Consensus pattern (29 bp):
GCACTGTGTGTGCGAGATCGGTTGTTGAG
Found at i:52749382 original size:28 final size:28
Alignment explanation
Indices: 52749351--52749452 Score: 150
Period size: 28 Copynumber: 3.6 Consensus size: 28
52749341 CAAATATGGT
* *
52749351 ACTTAATGTACGAAATATTGAGAATGGC
1 ACTTAGTGTACGAAATATTGAGAATGAC
52749379 ACTTAGTGTACGAAATATTGAGAATGAC
1 ACTTAGTGTACGAAATATTGAGAATGAC
* *
52749407 ACTTAGTGTGCGAGATATTGAGAATGAC
1 ACTTAGTGTACGAAATATTGAGAATGAC
* *
52749435 ACTTAGTGTGCAAAATAT
1 ACTTAGTGTACGAAATAT
52749453 CGAATGATTC
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 68 1.00
ACGTcount: A:0.37, C:0.11, G:0.23, T:0.29
Consensus pattern (28 bp):
ACTTAGTGTACGAAATATTGAGAATGAC
Found at i:52751514 original size:57 final size:57
Alignment explanation
Indices: 52751424--52751608 Score: 273
Period size: 57 Copynumber: 3.2 Consensus size: 57
52751414 AAGTGAACAT
*
52751424 AGGCACTATGTGTGTGAGTTCCGTAACCAAGCACTGTGTGTGAGAGATCGGTTGTTG
1 AGGCACTATGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTGAGAGATCGGTTGTTG
* * * *
52751481 AGGCACTATATGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATCAGTTGTTG
1 AGGCACTATGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTGAGAGATCGGTTGTTG
* *
52751538 AGGCACTGTGTGTGCGAGTTCCGTAACCAAGCACCGTGTGTGCA-AGATCGGTTGTTG
1 AGGCACTATGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTG-AGAGATCGGTTGTTG
* *
52751595 GGGCACTAAGTGTG
1 AGGCACTATGTGTG
52751609 TGAAATGAGA
Statistics
Matches: 113, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
57 113 1.00
ACGTcount: A:0.21, C:0.18, G:0.34, T:0.28
Consensus pattern (57 bp):
AGGCACTATGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTGAGAGATCGGTTGTTG
Found at i:52751522 original size:28 final size:28
Alignment explanation
Indices: 52751426--52751580 Score: 112
Period size: 28 Copynumber: 5.5 Consensus size: 28
52751416 GTGAACATAG
* * *
52751426 GCACTATGTGTGTGAGTTCCGTAACCAA
1 GCACTGTGTGTGCGAGTTCCGTAACCGA
* * * ****
52751454 GCACTGTGTGTGAGAGATCGGTTGTTGA
1 GCACTGTGTGTGCGAGTTCCGTAACCGA
* *
52751482 GGCACTATATGTGCGAGTTCCGTAACCGA
1 -GCACTGTGTGTGCGAGTTCCGTAACCGA
* * ****
52751511 GCACTGTGTGTGCGAGATCAGTTGTTGA
1 GCACTGTGTGTGCGAGTTCCGTAACCGA
*
52751539 GGCACTGTGTGTGCGAGTTCCGTAACCAA
1 -GCACTGTGTGTGCGAGTTCCGTAACCGA
*
52751568 GCACCGTGTGTGC
1 GCACTGTGTGTGC
52751581 AAGATCGGTT
Statistics
Matches: 91, Mismatches: 34, Indels: 4
0.71 0.26 0.03
Matches are distributed among these distances:
28 51 0.56
29 40 0.44
ACGTcount: A:0.20, C:0.20, G:0.32, T:0.28
Consensus pattern (28 bp):
GCACTGTGTGTGCGAGTTCCGTAACCGA
Found at i:52751547 original size:29 final size:29
Alignment explanation
Indices: 52751454--52751555 Score: 107
Period size: 29 Copynumber: 3.6 Consensus size: 29
52751444 CCGTAACCAA
* *
52751454 GCACTGTGTGTGAGAGATCGGTTGTTGAG
1 GCACTGTGTGTGCGAGATCAGTTGTTGAG
* * * * ****
52751483 GCACTATATGTGCGAGTTCCGTAACCGA-
1 GCACTGTGTGTGCGAGATCAGTTGTTGAG
52751511 GCACTGTGTGTGCGAGATCAGTTGTTGAG
1 GCACTGTGTGTGCGAGATCAGTTGTTGAG
52751540 GCACTGTGTGTGCGAG
1 GCACTGTGTGTGCGAG
52751556 TTCCGTAACC
Statistics
Matches: 55, Mismatches: 17, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
28 20 0.36
29 35 0.64
ACGTcount: A:0.19, C:0.17, G:0.36, T:0.28
Consensus pattern (29 bp):
GCACTGTGTGTGCGAGATCAGTTGTTGAG
Found at i:52751837 original size:46 final size:46
Alignment explanation
Indices: 52751784--52751920 Score: 202
Period size: 46 Copynumber: 3.0 Consensus size: 46
52751774 TATATATACA
* * * *
52751784 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* *
52751830 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* *
52751876 TATCTCATACACATTTCGCATTAGCCATTCGGCCTTACCACATAT
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATAT
52751921 ATACATGTTC
Statistics
Matches: 81, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 81 1.00
ACGTcount: A:0.26, C:0.31, G:0.09, T:0.34
Consensus pattern (46 bp):
CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
Found at i:52751955 original size:47 final size:47
Alignment explanation
Indices: 52751894--52752178 Score: 399
Period size: 47 Copynumber: 6.0 Consensus size: 47
52751884 ACACATTTCG
* * *
52751894 CATTAGCCATTCGGCCTTACCACATATATACATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
52751941 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* *
52751988 CATTGGCCATTCGGCCTTATAACACATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* * *
52752035 CATTGGCCATTTGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* *
52752082 CATTGGCCATTCGGCCTTATCACGCATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCA--C--ATATATGCATGTTCACATTCATCA
* * **
52752133 CATTTGCCATTCGGCCTTATCTCATATATGCACATTCACATTCATC
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATC
52752179 CCATAAAATC
Statistics
Matches: 214, Mismatches: 20, Indels: 8
0.88 0.08 0.03
Matches are distributed among these distances:
47 172 0.80
49 2 0.01
51 40 0.19
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.33
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
Found at i:52752037 original size:23 final size:23
Alignment explanation
Indices: 52752010--52752084 Score: 59
Period size: 23 Copynumber: 3.2 Consensus size: 23
52752000 GGCCTTATAA
52752010 CACATATGCATGTTCACATTCAT
1 CACATATGCATGTTCACATTCAT
*
52752033 CACAT-TGGCCAT-TTGGC-CTTATCA-
1 CACATAT-G-CATGTT--CACAT-TCAT
*
52752057 CACATACGCATGTTCACATTCAT
1 CACATATGCATGTTCACATTCAT
52752080 CACAT
1 CACAT
52752085 TGGCCATTCG
Statistics
Matches: 40, Mismatches: 3, Indels: 18
0.66 0.05 0.30
Matches are distributed among these distances:
22 5 0.12
23 18 0.45
24 13 0.32
25 4 0.10
ACGTcount: A:0.28, C:0.29, G:0.11, T:0.32
Consensus pattern (23 bp):
CACATATGCATGTTCACATTCAT
Found at i:52758903 original size:34 final size:34
Alignment explanation
Indices: 52758818--52758905 Score: 113
Period size: 34 Copynumber: 2.6 Consensus size: 34
52758808 TAAGCCCTTT
* * *
52758818 CAGTAACAGTTAGGGCCTTAGCCCATTTTAGTAA
1 CAGTAGCAGTTTGGGCCTGAGCCCATTTTAGTAA
* * * *
52758852 TAGTAGCAATCTAGGCCTGAGCCCATTTTAGTAA
1 CAGTAGCAGTTTGGGCCTGAGCCCATTTTAGTAA
52758886 CAGTAGCAGTTTGGGCCTGA
1 CAGTAGCAGTTTGGGCCTGA
52758906 ACCCGTTAAC
Statistics
Matches: 43, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
34 43 1.00
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.28
Consensus pattern (34 bp):
CAGTAGCAGTTTGGGCCTGAGCCCATTTTAGTAA
Found at i:52767677 original size:30 final size:32
Alignment explanation
Indices: 52767641--52767705 Score: 80
Period size: 35 Copynumber: 2.0 Consensus size: 32
52767631 GACGAGTACC
*
52767641 ATTTACCTTGA-A-CGTGCCAAATTTGGAGTG
1 ATTTACCTCGACACCGTGCCAAATTTGGAGTG
52767671 ATTTACCTCGACCGTACCGTGCCAAATTTGGAGTG
1 ATTTACCTCGA-C--ACCGTGCCAAATTTGGAGTG
52767706 CTATCATTTG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
30 10 0.34
34 1 0.03
35 18 0.62
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.31
Consensus pattern (32 bp):
ATTTACCTCGACACCGTGCCAAATTTGGAGTG
Found at i:52776491 original size:32 final size:32
Alignment explanation
Indices: 52776455--52776518 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
52776445 TTAAGTGTTA
52776455 GTGCAACGTTTCTTGAAACCCAAGTTCAAATT
1 GTGCAACGTTTCTTGAAACCCAAGTTCAAATT
52776487 GTGCAACGTTTCTTGAAACCCAAGTTCAAATT
1 GTGCAACGTTTCTTGAAACCCAAGTTCAAATT
52776519 CCTTCTTTCG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (32 bp):
GTGCAACGTTTCTTGAAACCCAAGTTCAAATT
Found at i:52779773 original size:13 final size:13
Alignment explanation
Indices: 52779755--52779781 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
52779745 TTGGCACACG
52779755 CCCGTGTCCATGA
1 CCCGTGTCCATGA
52779768 CCCGTGTCCATGA
1 CCCGTGTCCATGA
52779781 C
1 C
52779782 ATGGCCATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.41, G:0.22, T:0.22
Consensus pattern (13 bp):
CCCGTGTCCATGA
Found at i:52780927 original size:48 final size:48
Alignment explanation
Indices: 52780827--52781052 Score: 228
Period size: 48 Copynumber: 4.7 Consensus size: 48
52780817 GGTAAATTGT
* * * ** * *
52780827 CGATGCCATGTCTCAGACATGGTATTACACTGGCTCACATGTCGA-GG
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTTATCTCAATGG
* *
52780874 CCGATGCCATGTCCCAGACATTGTCTTACGCTAGCTCTTATCTCAATGG
1 -CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTTATCTCAATGG
**
52780923 CGATGCCATGT-CCAGTACATGGTCTTACACTAGCT-TTCATCTCAATAC
1 CGATGCCATGTCCCAG-ACATGGTCTTACACTAGCTCTT-ATCTCAATGG
* * * *
52780971 CGATTCCATGTCCCAGACATGGTCTTACACTGGCTCTCA--TAATATGG
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTTATCTCA-ATGG
*
52781018 CTGATGTCATGTCCCAGACATGGTCTTACACTAGC
1 C-GATGCCATGTCCCAGACATGGTCTTACACTAGC
52781053 ACACATATCA
Statistics
Matches: 149, Mismatches: 22, Indels: 14
0.81 0.12 0.08
Matches are distributed among these distances:
46 2 0.01
47 9 0.06
48 131 0.88
49 7 0.05
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.29
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTTATCTCAATGG
Found at i:52780996 original size:96 final size:94
Alignment explanation
Indices: 52780827--52781058 Score: 259
Period size: 96 Copynumber: 2.4 Consensus size: 94
52780817 GGTAAATTGT
* * * * *
52780827 CGATGCCATGTCTCAGACATGGTATTACACTGGCTCACATGTCGAGGCCGATGCCATGTCCCAGA
1 CGATGCCATGTC-CAGACATGGTCTTACACTAGCTCACATCTCAAGACCGATGCCATGTCCCAGA
* * * *
52780892 CATTGTCTTACGCTAGCTCTTAT-CTCAATGG
65 CATGGTCTTACACTAGCTCTCATAAT--ATGG
** * *
52780923 CGATGCCATGTCCAGTACATGGTCTTACACTAGCTTTCATCTCAATACCGATTCCATGTCCCAGA
1 CGATGCCATGTCCAG-ACATGGTCTTACACTAGCTCACATCTCAAGACCGATGCCATGTCCCAGA
*
52780988 CATGGTCTTACACTGGCTCTCATAATATGG
65 CATGGTCTTACACTAGCTCTCATAATATGG
* *
52781018 CTGATGTCATGTCCCAGACATGGTCTTACACTAGCACACAT
1 C-GATGCCATGT-CCAGACATGGTCTTACACTAGCTCACAT
52781059 ATCACCCAAA
Statistics
Matches: 114, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
95 8 0.07
96 101 0.89
97 5 0.04
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (94 bp):
CGATGCCATGTCCAGACATGGTCTTACACTAGCTCACATCTCAAGACCGATGCCATGTCCCAGAC
ATGGTCTTACACTAGCTCTCATAATATGG
Found at i:52784807 original size:45 final size:44
Alignment explanation
Indices: 52784728--52784890 Score: 146
Period size: 45 Copynumber: 3.6 Consensus size: 44
52784718 TGCCATAGTG
* * * * *
52784728 TCTTTCAGCTATGGTTTTATTCCTATTTACCATGATGCCATAACG
1 TCTTTCAGCTATGGTCTTACTCAT-TTTATCATGATGCCATAACA
* * * * *
52784773 TCTTTCAGCCATGGTTTTACTCATTTATATCATGACGTCACAACA
1 TCTTTCAGCTATGGTCTTACTCATTT-TATCATGATGCCATAACA
* * * * *
52784818 TGTTTTAGCTATGGTCTTACTTACTTTTATCATGATGTCATAGCA
1 TCTTTCAGCTATGGTCTTACTCA-TTTTATCATGATGCCATAACA
* *
52784863 TCTTTCAGTTATGGTCTTACTGATTTTA
1 TCTTTCAGCTATGGTCTTACTCATTTTA
52784891 AGCGTATAGC
Statistics
Matches: 96, Mismatches: 20, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
44 7 0.07
45 86 0.90
46 3 0.03
ACGTcount: A:0.23, C:0.20, G:0.13, T:0.44
Consensus pattern (44 bp):
TCTTTCAGCTATGGTCTTACTCATTTTATCATGATGCCATAACA
Found at i:52788482 original size:49 final size:47
Alignment explanation
Indices: 52788124--52788669 Score: 846
Period size: 47 Copynumber: 11.6 Consensus size: 47
52788114 CCCTTCGGGA
* * * * * *
52788124 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
52788171 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
52788218 CTCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
52788265 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
52788312 CTCATCACATA-ATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
52788358 C-TATCACATAAATACACTTTCACATTCATCACATCGG-CATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
52788403 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
52788450 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
52788499 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
52788548 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
52788595 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
52788644 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
52788670 CACAATTATC
Statistics
Matches: 468, Mismatches: 24, Indels: 14
0.92 0.05 0.03
Matches are distributed among these distances:
45 17 0.04
46 96 0.21
47 214 0.46
49 141 0.30
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:52788569 original size:96 final size:94
Alignment explanation
Indices: 52788124--52788669 Score: 864
Period size: 96 Copynumber: 5.8 Consensus size: 94
52788114 CCCTTCGGGA
* * * * * * *
52788124 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACAC
52788189 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
* * *
52788218 CTCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACAC
52788283 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
* * *
52788312 CTCATCACATA-ATACACTTTCACATTCATCACATCGGCCATTAGGCC-TATCACATAAATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACAC
52788375 TTTCACATTCATCACATCGG-CATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
52788403 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCAC--ATATATAC
*
52788468 ACTTTCACATTCATCACATTGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
*
52788499 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATAC
52788564 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
*
52788595 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATAT
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATAC
*
52788660 ACATTCACAT
64 ACTTTCACAT
52788670 CACAATTATC
Statistics
Matches: 424, Mismatches: 21, Indels: 12
0.93 0.05 0.03
Matches are distributed among these distances:
91 18 0.04
92 70 0.17
93 41 0.10
94 95 0.22
95 28 0.07
96 126 0.30
98 46 0.11
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.32
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:52793683 original size:40 final size:40
Alignment explanation
Indices: 52793639--52793869 Score: 367
Period size: 40 Copynumber: 5.8 Consensus size: 40
52793629 GGATATAGCT
* * * *
52793639 ACTCGCTCGAATGCCTTCGGGGCATAGCCCGG-TTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT-TAGTA
* *
52793679 ACTCGCACCAATGCCTTC-GGACTTAGCCCGGATTTGGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
*
52793718 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTGGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
52793758 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
52793798 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
*
52793838 GCTCGCACAAATGCCTTCGGGACTTAGCCCGG
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
52793870 TTATCATCGG
Statistics
Matches: 181, Mismatches: 8, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
39 32 0.18
40 149 0.82
ACGTcount: A:0.22, C:0.29, G:0.25, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
Found at i:52801772 original size:40 final size:40
Alignment explanation
Indices: 52801728--52801949 Score: 365
Period size: 40 Copynumber: 5.5 Consensus size: 40
52801718 TACTCACTCG
* * *
52801728 AATGCCTTCGGGGCATAGCCCGG-TTATAGTAACTCGCACC
1 AATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACA
*
52801768 AATGCCTTCGGGACTTAGCCCGGATTTGGTAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACA
*
52801808 AATGCCTTCGGGACTTAGCCCGGATTTGGTAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACA
*
52801848 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAGA
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACA
*
52801888 AATGCCTTCGGGACTTAGCCCGGATTTAGTAGCTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACA
52801928 AATGCCTTCGGGACTTAGCCCG
1 AATGCCTTCGGGACTTAGCCCG
52801950 ATTATCATCC
Statistics
Matches: 173, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
40 171 0.99
41 2 0.01
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACA
Found at i:52802812 original size:46 final size:46
Alignment explanation
Indices: 52802759--52802851 Score: 177
Period size: 46 Copynumber: 2.0 Consensus size: 46
52802749 CTTACTACCA
52802759 TTTCTCATCTAAATAACGTGAACAACAACCACATTTCTCTTCTACT
1 TTTCTCATCTAAATAACGTGAACAACAACCACATTTCTCTTCTACT
*
52802805 TTTCTCATCTAAATAACGTGAACAACAACGACATTTCTCTTCTACT
1 TTTCTCATCTAAATAACGTGAACAACAACCACATTTCTCTTCTACT
52802851 T
1 T
52802852 CCTACCATTG
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.32, C:0.27, G:0.05, T:0.35
Consensus pattern (46 bp):
TTTCTCATCTAAATAACGTGAACAACAACCACATTTCTCTTCTACT
Found at i:52806380 original size:15 final size:16
Alignment explanation
Indices: 52806341--52806383 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
52806331 CAAGTAAAAA
* *
52806341 CATTTAATATACTATT
1 CATTTAACATACTAAT
*
52806357 CATTCAACAT-CTAAT
1 CATTTAACATACTAAT
52806372 CATTTAACATAC
1 CATTTAACATAC
52806384 CACATTTCCA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
15 13 0.59
16 9 0.41
ACGTcount: A:0.40, C:0.21, G:0.00, T:0.40
Consensus pattern (16 bp):
CATTTAACATACTAAT
Found at i:52806490 original size:13 final size:13
Alignment explanation
Indices: 52806474--52806516 Score: 77
Period size: 13 Copynumber: 3.3 Consensus size: 13
52806464 ATAAAACTGA
52806474 TTCATATAGCCAT
1 TTCATATAGCCAT
*
52806487 TTCATATAACCAT
1 TTCATATAGCCAT
52806500 TTCATATAGCCAT
1 TTCATATAGCCAT
52806513 TTCA
1 TTCA
52806517 AAGTTTTAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.33, C:0.23, G:0.05, T:0.40
Consensus pattern (13 bp):
TTCATATAGCCAT
Found at i:52810556 original size:11 final size:11
Alignment explanation
Indices: 52810520--52810575 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
52810510 CATGGTATGT
52810520 ATGATATGCAC
1 ATGATATGCAC
* *
52810531 ATGACATG--T
1 ATGATATGCAC
52810540 ATGATATGCAC
1 ATGATATGCAC
*
52810551 ATGATATG--T
1 ATGATATGCAC
52810560 ATGATATGCAC
1 ATGATATGCAC
52810571 ATGAT
1 ATGAT
52810576 GTATTCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:52810575 original size:20 final size:20
Alignment explanation
Indices: 52810509--52810575 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
52810499 ATTTTGATAA
*
52810509 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
52810529 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
52810549 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
52810569 ACATGAT
1 ACATGAT
52810576 GTATTCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:52810656 original size:23 final size:23
Alignment explanation
Indices: 52810626--52810745 Score: 195
Period size: 23 Copynumber: 5.1 Consensus size: 23
52810616 AGGAAGTGAA
52810626 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
52810649 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
52810673 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
52810696 AAAGGGCTTATGCCCCAGTTATAA
1 AAAGGGCTTATGCCCCAGTTAT-T
*
52810720 AAAGGGCTTTTGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
52810743 AAA
1 AAA
52810746 AGAGGCTAGG
Statistics
Matches: 90, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
23 47 0.52
24 43 0.48
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:52810681 original size:24 final size:23
Alignment explanation
Indices: 52810625--52810752 Score: 193
Period size: 24 Copynumber: 5.4 Consensus size: 23
52810615 GAGGAAGTGA
52810625 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
52810648 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
52810671 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
52810695 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
52810718 AAAAAGGGCTTTTGCCCCAGTTATT
1 -AAAAGGGCTTATGCCCCAGTTA-T
52810743 AAAAGAGGCT
1 AAAAG-GGCT
52810753 AGGCCTCCAG
Statistics
Matches: 96, Mismatches: 5, Indels: 6
0.90 0.05 0.06
Matches are distributed among these distances:
23 44 0.46
24 47 0.49
25 5 0.05
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:52810694 original size:47 final size:47
Alignment explanation
Indices: 52810624--52810745 Score: 226
Period size: 47 Copynumber: 2.6 Consensus size: 47
52810614 GGAGGAAGTG
52810624 AAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 AAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
*
52810671 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 AAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
*
52810718 AAAAAGGGCTTTTGCCCCAGTTATTAAA
1 AAAAAGGGCTTATGCCCCAGTTATTAAA
52810746 AGAGGCTAGG
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 72 1.00
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.28
Consensus pattern (47 bp):
AAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
Found at i:52810995 original size:31 final size:31
Alignment explanation
Indices: 52810960--52811023 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
52810950 CGTCTACAGT
* *
52810960 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCAGCCCAGTAATATGAAATATGA
**
52810991 AAAGGCTTCAGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCAGCCCAGTAATATGAAATATGA
52811022 AA
1 AA
52811024 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCAGCCCAGTAATATGAAATATGA
Found at i:52811984 original size:46 final size:48
Alignment explanation
Indices: 52811848--52812070 Score: 195
Period size: 46 Copynumber: 4.7 Consensus size: 48
52811838 AGGGTATAAT
* *
52811848 ACCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATC-CATG
1 ACCGATGCCATGTCCCAGACATGGTCTTACACTAG--CT-ACATCTCGTA-G
* *
52811899 -CCGATGCCATGTCCAAAACATGGTCTTACACT-GAC-ACATCTCGTA-
1 ACCGATGCCATGTCCCAGACATGGTCTTACACTAG-CTACATCTCGTAG
*
52811944 ACCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACATCTCG-AG
1 ACCGATGCCATGTCCCAGACATGGTCTTACACTAGC-TACATCTCGTAG
* *
52811990 GCCGATG-CATGTCCCAAACAT-GTCTTACACTAGCT-C-TCGT-GTCA-
1 ACCGATGCCATGTCCCAGACATGGTCTTACACTAGCTACATC-TCGT-AG
52812034 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTAG
1 A--CCGATGCCATGTCCCAGACATGGTCTTACACTAG
52812071 TTCACAAATA
Statistics
Matches: 147, Mismatches: 12, Indels: 29
0.78 0.06 0.15
Matches are distributed among these distances:
43 3 0.02
44 13 0.09
45 16 0.11
46 57 0.39
47 14 0.10
48 13 0.09
49 1 0.01
50 30 0.20
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.26
Consensus pattern (48 bp):
ACCGATGCCATGTCCCAGACATGGTCTTACACTAGCTACATCTCGTAG
Found at i:52825616 original size:43 final size:43
Alignment explanation
Indices: 52825552--52825793 Score: 376
Period size: 43 Copynumber: 5.6 Consensus size: 43
52825542 GCTGGTATTA
* *
52825552 TATTCGAGCCTTCGTGCCTAGCAAGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* *
52825595 TATTCGGGCCTTCGTGTCTAGCAGGCTTAGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* *
52825638 TATTCGAGCCTTCGTGTCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* * *
52825681 TATTCAGGCCTTCGTACCTAGTAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* *
52825724 TATTTCGGGCCTTCGTACCTAGCAGGCTTCGTGCCAGTGATGTG
1 TA-TTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
52825768 TATTCGGGCCTTCGTGCCTAGCAGGC
1 TATTCGGGCCTTCGTGCCTAGCAGGC
52825794 GTAATTCCGG
Statistics
Matches: 183, Mismatches: 15, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
43 143 0.78
44 40 0.22
ACGTcount: A:0.13, C:0.24, G:0.31, T:0.31
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
Found at i:52830005 original size:27 final size:27
Alignment explanation
Indices: 52829988--52830165 Score: 133
Period size: 27 Copynumber: 6.6 Consensus size: 27
52829978 ATATTAAGTC
52829988 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* *
52830015 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * *
52830043 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* *** ** *
52830070 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTCAGTGCTATATAATCAACT
* * **
52830097 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTCAGTGCTAT-ATAATCAACT
* * * * *
52830124 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTCAGTGCTATATAATCAACT
*
52830151 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
52830166 GTACAATTTA
Statistics
Matches: 131, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
27 104 0.79
28 27 0.21
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:52830127 original size:54 final size:54
Alignment explanation
Indices: 52829988--52830164 Score: 214
Period size: 54 Copynumber: 3.3 Consensus size: 54
52829978 ATATTAAGTC
* * *
52829988 CGCACACTCAGTGCTAT-ATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGC-ATCATAATCAACTCGCACACTTAGTGCAACATAGTCAAA-T
* ** * *
52830043 CGCACACTTAGTGC-TACATAGTCAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCAT-CATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
* **
52830097 CGCACACTTAGTGCATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCATCATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
52830151 CGCACACTTAGTGC
1 CGCACACTTAGTGC
52830165 TGTACAATTT
Statistics
Matches: 105, Mismatches: 14, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
53 1 0.01
54 60 0.57
55 44 0.42
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.27
Consensus pattern (54 bp):
CGCACACTTAGTGCATCATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
Found at i:52830154 original size:81 final size:82
Alignment explanation
Indices: 52830009--52830164 Score: 235
Period size: 81 Copynumber: 1.9 Consensus size: 82
52829999 TGCTATATAA
* *
52830009 TCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTACATAGTCAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCAACATAGTCAAATCGCA
52830074 CACTTAGTGCCGCATGG
66 CACTTAGTGCCGCATGG
* * **
52830091 TCAATTCGCACACTTAGTGC-ATCATATTC-ATTTCGCACACTTAGTGCAACATAGTCAAATCGC
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAACTCGCACACTTAGTGCAACATAGTCAAATCGC
52830154 ACACTTAGTGC
65 ACACTTAGTGC
52830165 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 42 0.63
82 25 0.37
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (82 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCAACATAGTCAAATCGCA
CACTTAGTGCCGCATGG
Found at i:52837935 original size:27 final size:27
Alignment explanation
Indices: 52837905--52838081 Score: 203
Period size: 27 Copynumber: 6.6 Consensus size: 27
52837895 ATATTGAGTC
* * * *
52837905 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
52837932 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
52837959 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
** * *
52837986 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
52838013 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
52838040 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
52838067 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
52838082 GTACAATTTA
Statistics
Matches: 129, Mismatches: 19, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
27 128 0.99
28 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:52838043 original size:81 final size:81
Alignment explanation
Indices: 52837926--52838080 Score: 231
Period size: 81 Copynumber: 1.9 Consensus size: 81
52837916 TGCTATATAA
* * *
52837926 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAACTCGCAC
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
52837991 ACTTAGTGCCGCATGG
66 ACTTAGTGCCGCATGG
* * **
52838007 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
52838071 CACTTAGTGC
65 CACTTAGTGC
52838081 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
80 1 0.02
81 65 0.98
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:52839817 original size:148 final size:155
Alignment explanation
Indices: 52839544--52839824 Score: 343
Period size: 148 Copynumber: 1.9 Consensus size: 155
52839534 TATGCAAAAA
*
52839544 TAGCCTGCGCTTAAGTACTAGACACGTGATTGAAAGTTGTCGAGTACGCTAGTAAGCCTGCACTT
1 TAGCCTGCCCTTAAGTACTAGACACGTGATTGAAAGTTGTCGAGTACGCTAGTAAGCCTGCACTT
* * * * *
52839609 AGTACTACAAATGTGACCTAACTATCTTAGTACCACGATTAGCTGCTCTTAGTACTACACACATG
66 AGTACTACAAATGCGACCTAACTAGCTTAGTACCACGAGTACCTGCACTTAGTACTACACACATG
52839674 ACCTAACCATTTGATAACCAAGTAG
131 ACCTAACCATTTGATAACCAAGTAG
*
52839699 TAGCCT-CCCTTAAGTACTA-ACAACGTGATTG-AAGTTGT-G-GTATGCATAGT-AG-CTG-AC
1 TAGCCTGCCCTTAAGTACTAGAC-ACGTGATTGAAAGTTGTCGAGTACGC-TAGTAAGCCTGCAC
* *
52839756 TTA-TACTACACATGCGACCTAACTAGC-TGGTA-CACGTAGTACCTGCCACTT-GTACTAACAC
64 TTAGTACTACAAATGCGACCTAACTAGCTTAGTACCACG-AGTACCTG-CACTTAGTACT-ACAC
*
52839817 ACGTGACC
126 ACATGACC
52839825 ATAAAATTCA
Statistics
Matches: 111, Mismatches: 10, Indels: 17
0.80 0.07 0.12
Matches are distributed among these distances:
146 4 0.04
147 15 0.14
148 36 0.32
149 5 0.05
150 3 0.03
151 7 0.06
152 5 0.05
153 9 0.08
154 21 0.19
155 6 0.05
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (155 bp):
TAGCCTGCCCTTAAGTACTAGACACGTGATTGAAAGTTGTCGAGTACGCTAGTAAGCCTGCACTT
AGTACTACAAATGCGACCTAACTAGCTTAGTACCACGAGTACCTGCACTTAGTACTACACACATG
ACCTAACCATTTGATAACCAAGTAG
Found at i:52850935 original size:25 final size:26
Alignment explanation
Indices: 52850899--52851000 Score: 138
Period size: 25 Copynumber: 4.0 Consensus size: 26
52850889 GTACAAATTG
* *
52850899 TAATGGGTTAGGTAAATGTTACATGA
1 TAATGGATTAGGTAAATGTTCCATGA
*
52850925 TAAT-GATTAGGTAAATATT-CATGA
1 TAATGGATTAGGTAAATGTTCCATGA
*
52850949 TAATGGGTTAGGTAAATG-TCCATGA
1 TAATGGATTAGGTAAATGTTCCATGA
*
52850974 TAATGGTTTAGGTAAATGTTCCATGA
1 TAATGGATTAGGTAAATGTTCCATGA
52851000 T
1 T
52851001 GGGCATTTCA
Statistics
Matches: 68, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
24 10 0.15
25 46 0.68
26 12 0.18
ACGTcount: A:0.34, C:0.06, G:0.24, T:0.36
Consensus pattern (26 bp):
TAATGGATTAGGTAAATGTTCCATGA
Found at i:52850958 original size:50 final size:51
Alignment explanation
Indices: 52850899--52851000 Score: 154
Period size: 50 Copynumber: 2.0 Consensus size: 51
52850889 GTACAAATTG
52850899 TAATGGGTTAGGTAAATGTTACATGATAAT-GATTAGGTAAATATT-CATGA
1 TAATGGGTTAGGTAAATG-TACATGATAATGGATTAGGTAAATATTCCATGA
* * *
52850949 TAATGGGTTAGGTAAATGTCCATGATAATGGTTTAGGTAAATGTTCCATGA
1 TAATGGGTTAGGTAAATGTACATGATAATGGATTAGGTAAATATTCCATGA
52851000 T
1 T
52851001 GGGCATTTCA
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
49 10 0.21
50 31 0.66
51 6 0.13
ACGTcount: A:0.34, C:0.06, G:0.24, T:0.36
Consensus pattern (51 bp):
TAATGGGTTAGGTAAATGTACATGATAATGGATTAGGTAAATATTCCATGA
Found at i:52857866 original size:26 final size:26
Alignment explanation
Indices: 52857837--52857944 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
52857827 TGGTACAAAT
52857837 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
52857863 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
52857889 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
52857915 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
52857941 TGAT
1 TGAT
52857945 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:52859438 original size:25 final size:26
Alignment explanation
Indices: 52859410--52859461 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
52859400 TTTACAGTTT
52859410 TACCCCTAGAGATAAATT-ACCGAAA
1 TACCCCTAGAGATAAATTGACCGAAA
* * *
52859435 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGAGATAAATTGACCGAAA
52859461 T
1 T
52859462 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.38, C:0.23, G:0.13, T:0.25
Consensus pattern (26 bp):
TACCCCTAGAGATAAATTGACCGAAA
Found at i:52863794 original size:77 final size:77
Alignment explanation
Indices: 52863704--52863852 Score: 262
Period size: 77 Copynumber: 1.9 Consensus size: 77
52863694 TGTGAAAGTG
52863704 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
*
52863769 TAATGGCTTGTA
66 GAATGGCTTGTA
* * *
52863781 TATATATGTGATAAGGCCTAATGGCTGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGTC
1 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
52863846 GAATGGC
66 GAATGGC
52863853 CAATGTGATG
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
77 68 1.00
ACGTcount: A:0.32, C:0.08, G:0.28, T:0.32
Consensus pattern (77 bp):
TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
GAATGGCTTGTA
Found at i:52863836 original size:47 final size:47
Alignment explanation
Indices: 52863781--52863877 Score: 158
Period size: 47 Copynumber: 2.1 Consensus size: 47
52863771 ATGGCTTGTA
* **
52863781 TATATATGTGATAAGGCCTAATGGCTGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
*
52863828 TATATATGTGATAAGGTCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
52863875 TAT
1 TAT
52863878 TATCAGTTGC
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.33, C:0.06, G:0.29, T:0.32
Consensus pattern (47 bp):
TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
Found at i:52867639 original size:20 final size:20
Alignment explanation
Indices: 52867614--52867656 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
52867604 ACATTTATGT
52867614 ATGATAATTCAATGCACTTC
1 ATGATAATTCAATGCACTTC
52867634 ATGATAATTCAATGCACTTC
1 ATGATAATTCAATGCACTTC
52867654 ATG
1 ATG
52867657 TACCATAGAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.35
Consensus pattern (20 bp):
ATGATAATTCAATGCACTTC
Found at i:52870380 original size:45 final size:44
Alignment explanation
Indices: 52870215--52870373 Score: 117
Period size: 45 Copynumber: 3.6 Consensus size: 44
52870205 CATCCATTAT
* * * * * * *
52870215 GAACTCGGACCAACTCAATGAGCTCAGA-TGCTCGCATCTGTAAT
1 GAACTCGGACCAACTCAACGAGCTCAGATTTC-CACATATATCAC
* *
52870259 GAACTCGGACCAACTCAACGATCTC-GAATGCTT-CACATATACCAC
1 GAACTCGGACCAACTCAACGAGCTCAG-AT--TTCCACATATATCAC
* * * * *
52870304 TAACTTGGACCAACTAAACAAGTTCAGATTTCCCACATATATCAC
1 GAACTCGGACCAACTCAACGAGCTCAGATTT-CCACATATATCAC
*
52870349 GAACTCGGACCAACTCAATGAGCTC
1 GAACTCGGACCAACTCAACGAGCTC
52870374 GAATTTCTTA
Statistics
Matches: 86, Mismatches: 22, Indels: 13
0.71 0.18 0.11
Matches are distributed among these distances:
43 3 0.03
44 24 0.28
45 57 0.66
46 1 0.01
47 1 0.01
ACGTcount: A:0.33, C:0.30, G:0.15, T:0.22
Consensus pattern (44 bp):
GAACTCGGACCAACTCAACGAGCTCAGATTTCCACATATATCAC
Found at i:52870525 original size:24 final size:24
Alignment explanation
Indices: 52870493--52870540 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
52870483 GCGCTATCCA
*
52870493 TAGTACCAATTGCCCATTCATGGC
1 TAGTACCAATTGCCCACTCATGGC
52870517 TAGTACCAATTGCCCACTCATGGC
1 TAGTACCAATTGCCCACTCATGGC
52870541 ATAATAATGC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.25, C:0.31, G:0.17, T:0.27
Consensus pattern (24 bp):
TAGTACCAATTGCCCACTCATGGC
Found at i:52870622 original size:14 final size:16
Alignment explanation
Indices: 52870590--52870628 Score: 55
Period size: 14 Copynumber: 2.6 Consensus size: 16
52870580 ATTTGCATGA
*
52870590 CATATATCACATATTT
1 CATATATCACATATGT
52870606 CATATATCAC-T-TGT
1 CATATATCACATATGT
52870620 CATATATCA
1 CATATATCA
52870629 TCATTTTCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 11 0.50
15 1 0.05
16 10 0.45
ACGTcount: A:0.36, C:0.21, G:0.03, T:0.41
Consensus pattern (16 bp):
CATATATCACATATGT
Found at i:52871375 original size:12 final size:12
Alignment explanation
Indices: 52871358--52871382 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
52871348 AGAGATTGAT
52871358 AGTGAAAAAGAA
1 AGTGAAAAAGAA
52871370 AGTGAAAAAGAA
1 AGTGAAAAAGAA
52871382 A
1 A
52871383 AAAAAGAGTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.00, G:0.24, T:0.08
Consensus pattern (12 bp):
AGTGAAAAAGAA
Found at i:52872985 original size:46 final size:46
Alignment explanation
Indices: 52872935--52873103 Score: 200
Period size: 46 Copynumber: 3.7 Consensus size: 46
52872925 TGAGCATCCA
52872935 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCG
* * * *
52872981 AACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ATG--TCCG
* * *
52873028 AACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAATGCCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCG
* *
52873074 AGCTCGTTGAGTTGAGTCTGAGTTCACTTA
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTA
52873104 GGGGCGGGTT
Statistics
Matches: 103, Mismatches: 13, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
43 6 0.06
45 4 0.04
46 55 0.53
47 29 0.28
48 4 0.04
50 5 0.05
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCG
Found at i:52873087 original size:93 final size:93
Alignment explanation
Indices: 52872928--52873098 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
52872918 GGATGGTTGA
*
52872928 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCGTTGAGT
52872993 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
52873021 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAATGCCCGAGCTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCGTTGAGT
*
52873086 TGAGTCTGAGTTC
66 TGAGTCCGAGTTC
52873099 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (93 bp):
GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:52873365 original size:19 final size:20
Alignment explanation
Indices: 52873328--52873365 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
52873318 ATAAGGTGGT
52873328 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
52873348 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
52873366 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:52875777 original size:21 final size:21
Alignment explanation
Indices: 52875753--52875792 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
52875743 TCAACCCATC
*
52875753 TTTAATTTGCTGGAATAAACA
1 TTTAATTTCCTGGAATAAACA
52875774 TTTAATTTCCTGGAATAAA
1 TTTAATTTCCTGGAATAAA
52875793 ATTAAATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.10, G:0.12, T:0.40
Consensus pattern (21 bp):
TTTAATTTCCTGGAATAAACA
Found at i:52875898 original size:35 final size:35
Alignment explanation
Indices: 52875845--52875925 Score: 108
Period size: 35 Copynumber: 2.3 Consensus size: 35
52875835 TTTAGTTTAA
* * *
52875845 TTAATTAATTTTCGGGAATAAATTACTCATCTTAG
1 TTAATTAAGTTGCGGGAATAAATCACTCATCTTAG
* *
52875880 TTAATTAAGTTGCTGGAATAAATCACTCGTCTTAG
1 TTAATTAAGTTGCGGGAATAAATCACTCATCTTAG
*
52875915 TTCATTAAGTT
1 TTAATTAAGTT
52875926 CATCTTAGTT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
35 40 1.00
ACGTcount: A:0.32, C:0.12, G:0.14, T:0.42
Consensus pattern (35 bp):
TTAATTAAGTTGCGGGAATAAATCACTCATCTTAG
Found at i:52876031 original size:19 final size:19
Alignment explanation
Indices: 52876007--52876051 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
52875997 TAAGTCTAAT
*
52876007 ATGTGTTCAAATG-TTTTTA
1 ATGTGTT-AAATGAGTTTTA
*
52876026 ATGTGTTTAATGAGTTTTA
1 ATGTGTTAAATGAGTTTTA
52876045 ATGTGTT
1 ATGTGTT
52876052 TGTTTGTAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.24, C:0.02, G:0.20, T:0.53
Consensus pattern (19 bp):
ATGTGTTAAATGAGTTTTA
Found at i:52876046 original size:10 final size:10
Alignment explanation
Indices: 52876016--52876052 Score: 51
Period size: 9 Copynumber: 3.9 Consensus size: 10
52876006 TATGTGTTCA
52876016 AATGT-TTTT
1 AATGTGTTTT
52876025 AATGTG-TTT
1 AATGTGTTTT
*
52876034 AATGAGTTTT
1 AATGTGTTTT
52876044 AATGTGTTT
1 AATGTGTTT
52876053 GTTTGTAGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
9 13 0.54
10 11 0.46
ACGTcount: A:0.24, C:0.00, G:0.19, T:0.57
Consensus pattern (10 bp):
AATGTGTTTT
Found at i:52876759 original size:48 final size:48
Alignment explanation
Indices: 52876668--52876760 Score: 150
Period size: 48 Copynumber: 1.9 Consensus size: 48
52876658 TCGAGTGTGG
** *
52876668 CGTTCATATACCTTTGATTCCTATCATTTTTTATAGTGGGTCAAGGTT
1 CGTTCATATACCTTTGATTCCTATCATTTTTTATAACGAGTCAAGGTT
*
52876716 CGTTCATATACCTTTGGTTCCTATCATTTTTTATAACGAGTCAAG
1 CGTTCATATACCTTTGATTCCTATCATTTTTTATAACGAGTCAAG
52876761 CTCCTTTGCT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 41 1.00
ACGTcount: A:0.23, C:0.18, G:0.15, T:0.44
Consensus pattern (48 bp):
CGTTCATATACCTTTGATTCCTATCATTTTTTATAACGAGTCAAGGTT
Found at i:52877277 original size:28 final size:28
Alignment explanation
Indices: 52877237--52877294 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
52877227 TAAAGTTGCA
52877237 AAGCTGAAAATGATTAAATGAGTGTATT
1 AAGCTGAAAATGATTAAATGAGTGTATT
52877265 AAGCTGAAAATGATTAAATGAGTGTATT
1 AAGCTGAAAATGATTAAATGAGTGTATT
52877293 AA
1 AA
52877295 CATATAGATC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.45, C:0.03, G:0.21, T:0.31
Consensus pattern (28 bp):
AAGCTGAAAATGATTAAATGAGTGTATT
Found at i:52890562 original size:27 final size:27
Alignment explanation
Indices: 52890298--52890544 Score: 359
Period size: 27 Copynumber: 9.1 Consensus size: 27
52890288 TGGATAAGTT
** *
52890298 GTAGAATTACTAAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
52890325 GTAGAATTACTGACATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
52890352 GTAGAATTACGGAAATACCCCTGTAAG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
52890379 GTAGAATTACCGAAATACTCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
52890406 ATAGAATTACCGAAATACCCTTGTAAG
1 GTAGAATTACCGAAATACCCCTGTAGG
52890433 GTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
52890460 GTAGAATTACTGAAATACCCCTGTAAG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
52890487 GTAGAATTACCGAAATACCCCTATAAG
1 GTAGAATTACCGAAATACCCCTGTAGG
52890514 GTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
52890541 GTAG
1 GTAG
52890545 GACTACTGAT
Statistics
Matches: 198, Mismatches: 22, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 198 1.00
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:52890589 original size:81 final size:81
Alignment explanation
Indices: 52890298--52890577 Score: 294
Period size: 81 Copynumber: 3.5 Consensus size: 81
52890288 TGGATAAGTT
* * * * * * * * * * *
52890298 GTAGAATTACTAAAATACCCTTGTAGGGTAGAATTACTGACATACCCCTGTAGGGTAGAATTACG
1 GTAGAACTACTGAAATACCCCTGTAAGGTAAAATGACCGAAATACCCCTATAAGGTAGAATTACC
*
52890363 GAAATACCCCTGTAAG
66 GAAATACCCCTGTAGG
* * * * * * *
52890379 GTAGAATTACCGAAATACTCCTGT-AGGATAGAATTACCGAAATACCCTTGTAAGGTAGAATTAC
1 GTAGAACTACTGAAATACCCCTGTAAGG-TAAAATGACCGAAATACCCCTATAAGGTAGAATTAC
52890443 CGAAATACCCCTGTAGG
65 CGAAATACCCCTGTAGG
* * *
52890460 GTAGAATTACTGAAATACCCCTGTAAGGTAGAATTACCGAAATACCCCTATAAGGTAGAATTACC
1 GTAGAACTACTGAAATACCCCTGTAAGGTAAAATGACCGAAATACCCCTATAAGGTAGAATTACC
52890525 GAAATACCCCTGTAGG
66 GAAATACCCCTGTAGG
* ** *
52890541 GTAGGACTACTGATTTACCCCTAG-AGGGTAAAATGAC
1 GTAGAACTACTGAAATACCCCT-GTAAGGTAAAATGAC
52890578 TATTTTGCCC
Statistics
Matches: 174, Mismatches: 22, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
80 2 0.01
81 168 0.97
82 4 0.02
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (81 bp):
GTAGAACTACTGAAATACCCCTGTAAGGTAAAATGACCGAAATACCCCTATAAGGTAGAATTACC
GAAATACCCCTGTAGG
Found at i:52890725 original size:10 final size:10
Alignment explanation
Indices: 52890710--52890738 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
52890700 CGTGGGAGAT
52890710 ATCGTCATCC
1 ATCGTCATCC
52890720 ATCGTCATCC
1 ATCGTCATCC
52890730 ATCGTCATC
1 ATCGTCATC
52890739 AACCAGGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.21, C:0.38, G:0.10, T:0.31
Consensus pattern (10 bp):
ATCGTCATCC
Found at i:52891256 original size:27 final size:26
Alignment explanation
Indices: 52891212--52891263 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
52891202 CTCGCTGCAA
*
52891212 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
52891239 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
52891264 GCAGTCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:52894387 original size:11 final size:11
Alignment explanation
Indices: 52894371--52894395 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
52894361 ATATGATATT
52894371 TTATTATTTTA
1 TTATTATTTTA
52894382 TTATTATTTTA
1 TTATTATTTTA
52894393 TTA
1 TTA
52894396 GTATATATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (11 bp):
TTATTATTTTA
Found at i:52899749 original size:26 final size:26
Alignment explanation
Indices: 52899719--52899773 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
52899709 CACATATCAC
52899719 TTTTACATATTTTGAAATTTAATCCT
1 TTTTACATATTTTGAAATTTAATCCT
52899745 TTTTACATATTTTGAAATTTAATCCT
1 TTTTACATATTTTGAAATTTAATCCT
52899771 TTT
1 TTT
52899774 CTTTCTCAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.29, C:0.11, G:0.04, T:0.56
Consensus pattern (26 bp):
TTTTACATATTTTGAAATTTAATCCT
Found at i:52899837 original size:17 final size:18
Alignment explanation
Indices: 52899815--52899855 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
52899805 CATTTCCTTA
*
52899815 TCATTTCCATATATC-CT
1 TCATTTACATATATCACT
*
52899832 TCATTTACATATTTCACT
1 TCATTTACATATATCACT
52899850 TCATTT
1 TCATTT
52899856 TCACATTCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 13 0.62
18 8 0.38
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.51
Consensus pattern (18 bp):
TCATTTACATATATCACT
Found at i:52903310 original size:42 final size:42
Alignment explanation
Indices: 52903234--52903347 Score: 106
Period size: 42 Copynumber: 2.7 Consensus size: 42
52903224 AGTACCGTGT
* * * * *
52903234 CAATGCCGTATCCCGGATATGGTCTT-TCATGAAAT-ATCATAT
1 CAATGCCATATCCCAGACATGGTCTTAT-ACGAAATCAT-ATAC
* * *
52903276 CGATGCCATGTCCCTGACATGGTCTTATACGAAATCATATAC
1 CAATGCCATATCCCAGACATGGTCTTATACGAAATCATATAC
* *
52903318 CAATTCCATATCCCAGATATGGTCTTATAC
1 CAATGCCATATCCCAGACATGGTCTTATAC
52903348 AGAATCTCGA
Statistics
Matches: 58, Mismatches: 12, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
42 55 0.95
43 3 0.05
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.32
Consensus pattern (42 bp):
CAATGCCATATCCCAGACATGGTCTTATACGAAATCATATAC
Found at i:52903896 original size:26 final size:25
Alignment explanation
Indices: 52903848--52903899 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 25
52903838 TAACTCATAA
52903848 ATTTCACATTTCACAAATTAGTCCCT
1 ATTTCACATTTCACAAA-TAGTCCCT
52903874 ATTTCACATTTTCATCAAA-AGTCCCT
1 ATTTCACA-TTTCA-CAAATAGTCCCT
52903900 TAATAAAAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 15 0.62
27 5 0.21
28 4 0.17
ACGTcount: A:0.31, C:0.27, G:0.04, T:0.38
Consensus pattern (25 bp):
ATTTCACATTTCACAAATAGTCCCT
Found at i:52910976 original size:24 final size:24
Alignment explanation
Indices: 52910926--52910979 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
52910916 AATCGAATTT
*
52910926 GCACACATAGTGCTCGTCACACTC
1 GCACACATAGTGCTAGTCACACTC
52910950 GCACACATAGTGCCATAGT-ACAC-C
1 GCACACATAGTG-C-TAGTCACACTC
52910974 GCACAC
1 GCACAC
52910980 TCAGTGCATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 19 0.70
25 5 0.19
26 3 0.11
ACGTcount: A:0.30, C:0.37, G:0.17, T:0.17
Consensus pattern (24 bp):
GCACACATAGTGCTAGTCACACTC
Found at i:52918914 original size:24 final size:24
Alignment explanation
Indices: 52918864--52918917 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
52918854 AATCGAATTT
*
52918864 GCACACATAGTGCTCGTCACACTC
1 GCACACATAGTGCTAGTCACACTC
52918888 GCACACATAGTGCCATAGT-ACAC-C
1 GCACACATAGTG-C-TAGTCACACTC
52918912 GCACAC
1 GCACAC
52918918 TCAGTGCATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 19 0.70
25 5 0.19
26 3 0.11
ACGTcount: A:0.30, C:0.37, G:0.17, T:0.17
Consensus pattern (24 bp):
GCACACATAGTGCTAGTCACACTC
Found at i:52925760 original size:33 final size:33
Alignment explanation
Indices: 52925697--52925761 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 33
52925687 AGTACATGTA
* **
52925697 GAATGGTCTGGGCCGTAGCCCTATTTAGTAACT
1 GAATAGTCTGGGCCGTAGCCCTATACAGTAACT
**
52925730 GAATAGTCTGGGCTTTAGCCCTATACAGTAAC
1 GAATAGTCTGGGCCGTAGCCCTATACAGTAAC
52925762 GGTGTAGGCC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.29
Consensus pattern (33 bp):
GAATAGTCTGGGCCGTAGCCCTATACAGTAACT
Found at i:52925964 original size:27 final size:26
Alignment explanation
Indices: 52925912--52925966 Score: 65
Period size: 27 Copynumber: 2.1 Consensus size: 26
52925902 GCGAAGCTGC
**
52925912 TAATAGTAACGCAGCAAAGCTGCTAA
1 TAATAGTAACGCAGCAAAGCCACTAA
**
52925938 TAATAGTAAACGTGGCAAAGCCACTAA
1 TAATAGT-AACGCAGCAAAGCCACTAA
52925965 TA
1 TA
52925967 CAGTACTTCC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 7 0.29
27 17 0.71
ACGTcount: A:0.44, C:0.18, G:0.18, T:0.20
Consensus pattern (26 bp):
TAATAGTAACGCAGCAAAGCCACTAA
Found at i:52929382 original size:17 final size:17
Alignment explanation
Indices: 52929360--52929393 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
52929350 GACATTAAAT
52929360 AAATATTAAAATACTAA
1 AAATATTAAAATACTAA
52929377 AAATATTAAAATACTAA
1 AAATATTAAAATACTAA
52929394 CTCACTTATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (17 bp):
AAATATTAAAATACTAA
Found at i:52943131 original size:55 final size:54
Alignment explanation
Indices: 52942972--52943178 Score: 236
Period size: 53 Copynumber: 3.8 Consensus size: 54
52942962 TTCCTTTTTA
* *
52942972 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-G
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTGTAG
* * * * * * *
52943025 AACTCACCATTGCCATGCCTTGGCATGGTCTTACATGGGATCTTTGTCTTGTAG
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTGTAG
* * * * * *
52943079 AAGTTTATCAATGCCATGTCTTAACATGATCTTACATGATTTCCTTGCCTTGTAG
1 AA-CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTGTAG
* * *
52943134 AACTTACCAATGCCATGCCTTGGCATGGTCTTACTTGGTATCCTT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTT
52943179 AAACCCTAAT
Statistics
Matches: 123, Mismatches: 29, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
53 45 0.37
54 37 0.30
55 41 0.33
ACGTcount: A:0.21, C:0.24, G:0.18, T:0.37
Consensus pattern (54 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTGTAG
Found at i:52946155 original size:81 final size:81
Alignment explanation
Indices: 52946019--52946180 Score: 297
Period size: 81 Copynumber: 2.0 Consensus size: 81
52946009 GAACCCAAAG
* *
52946019 GAACTTCGAGTACCAGTATTTACTTCCTTTTTATTATCTAGCCTAAAAATTAAGAGGTTTGGTTA
1 GAACTTCGACTACCAGTATTTACTTCCTTTTTATTATCTAGCCTAAAAATCAAGAGGTTTGGTTA
52946084 TCTAAACTAATTACTA
66 TCTAAACTAATTACTA
*
52946100 GAACTTCGACTACTAGTATTTACTTCCTTTTTATTATCTAGCCTAAAAATCAAGAGGTTTGGTTA
1 GAACTTCGACTACCAGTATTTACTTCCTTTTTATTATCTAGCCTAAAAATCAAGAGGTTTGGTTA
52946165 TCTAAACTAATTACTA
66 TCTAAACTAATTACTA
52946181 ACTAAGGATG
Statistics
Matches: 78, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
81 78 1.00
ACGTcount: A:0.32, C:0.17, G:0.12, T:0.40
Consensus pattern (81 bp):
GAACTTCGACTACCAGTATTTACTTCCTTTTTATTATCTAGCCTAAAAATCAAGAGGTTTGGTTA
TCTAAACTAATTACTA
Found at i:52951484 original size:28 final size:28
Alignment explanation
Indices: 52951444--52951522 Score: 86
Period size: 28 Copynumber: 2.8 Consensus size: 28
52951434 GCAATCAAAT
* *
52951444 ATGGCACTCAGTGTACAAAATATTAAGA
1 ATGGCACTTAGTGTGCAAAATATTAAGA
* * **
52951472 ATGGCACTTAGTGTGCGAGATATTGTGA
1 ATGGCACTTAGTGTGCAAAATATTAAGA
**
52951500 ATGAAACTTAGTGTGCAAAATAT
1 ATGGCACTTAGTGTGCAAAATAT
52951523 CGAATGATTC
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.37, C:0.11, G:0.23, T:0.29
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCAAAATATTAAGA
Found at i:52951963 original size:21 final size:22
Alignment explanation
Indices: 52951932--52951972 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
52951922 GAATGTATTG
*
52951932 TGATGTATGTGGAAATGAAATA
1 TGATGTATGTGCAAATGAAATA
*
52951954 TGAT-TATGTGCCAATGAAA
1 TGATGTATGTGCAAATGAAA
52951973 CATAAATGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.39, C:0.05, G:0.24, T:0.32
Consensus pattern (22 bp):
TGATGTATGTGCAAATGAAATA
Found at i:52954647 original size:55 final size:55
Alignment explanation
Indices: 52954513--52954655 Score: 137
Period size: 55 Copynumber: 2.6 Consensus size: 55
52954503 TACATAGGTC
* * * *
52954513 CACGCCCGTGTTCGTTTTGGCAGTGTCGACCACAGATGGATGGCACGGGCGTGTTG
1 CACGCCCGTGTT-GTTTTGGCAGTTTCAACCACAGATGCAAGGCACGGGCGTGTTG
** ** * * *
52954569 CACGCCCGTGTT-TCTTTCTCAGTTTCAACCATGGTTTCAAGGCACGGGGGTGTCT-
1 CACGCCCGTGTTGT-TTTGGCAGTTTCAACCACAGATGCAAGGCACGGGCGTGT-TG
*
52954624 CACGCCCGTGTTGTTTTGGCAGTTTCATCCAC
1 CACGCCCGTGTTGTTTTGGCAGTTTCAACCAC
52954656 GGCCATATCG
Statistics
Matches: 69, Mismatches: 15, Indels: 7
0.76 0.16 0.08
Matches are distributed among these distances:
54 1 0.01
55 54 0.78
56 14 0.20
ACGTcount: A:0.14, C:0.27, G:0.29, T:0.30
Consensus pattern (55 bp):
CACGCCCGTGTTGTTTTGGCAGTTTCAACCACAGATGCAAGGCACGGGCGTGTTG
Found at i:52970832 original size:28 final size:28
Alignment explanation
Indices: 52970801--52970878 Score: 86
Period size: 28 Copynumber: 2.8 Consensus size: 28
52970791 TCAAATATGG
* *
52970801 CACTCAGTGTACGAAATATTGAGAATGC
1 CACTCAGTGTGCGAAATATTGAGAATGA
*
52970829 CACTTAGTGTGC-AAGATATTGAGAATGA
1 CACTCAGTGTGCGAA-ATATTGAGAATGA
** *
52970857 CACTGGGTGTGTGAAATATTGA
1 CACTCAGTGTGCGAAATATTGA
52970879 ATGATTCAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
27 2 0.05
28 38 0.90
29 2 0.05
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (28 bp):
CACTCAGTGTGCGAAATATTGAGAATGA
Found at i:52985373 original size:43 final size:43
Alignment explanation
Indices: 52985290--52985375 Score: 106
Period size: 43 Copynumber: 2.0 Consensus size: 43
52985280 AAATCGTACA
* *
52985290 ATGCCAACGTCCCAGACGTGGTCTTACATGTAACCGCATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGTAAACACATATCG
52985333 ATGCC-ACTGTCCCAGACAG-GGTCTTAC-TCGTAAACACATATCG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACAT-GTAAACACATATCG
52985376 GAATCACATA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
42 3 0.08
43 34 0.89
44 1 0.03
ACGTcount: A:0.27, C:0.30, G:0.20, T:0.23
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACATGTAAACACATATCG
Found at i:52988300 original size:35 final size:35
Alignment explanation
Indices: 52988254--52988320 Score: 134
Period size: 35 Copynumber: 1.9 Consensus size: 35
52988244 TTAGTAAGTT
52988254 TGCATGTAAATAAATAACAACATTCTAAATGATAA
1 TGCATGTAAATAAATAACAACATTCTAAATGATAA
52988289 TGCATGTAAATAAATAACAACATTCTAAATGA
1 TGCATGTAAATAAATAACAACATTCTAAATGA
52988321 ATTATCAAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.51, C:0.12, G:0.09, T:0.28
Consensus pattern (35 bp):
TGCATGTAAATAAATAACAACATTCTAAATGATAA
Found at i:52988581 original size:55 final size:53
Alignment explanation
Indices: 52988455--52988586 Score: 140
Period size: 53 Copynumber: 2.5 Consensus size: 53
52988445 TTACCATTGT
* * **
52988455 CATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTATGAACTCACCATTGC
1 CATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAACTCACCAACGC
* * * * * *
52988508 CATGCCTTGGCATGGTCTTACATGGGA-CCTTTTCCTTATAGTAGCTTATCAACGC
1 CATGTCTTGACATGGTCTTACATGGGATCC-TTGCCTTAT-G-AACTCACCAACGC
52988563 CATGTCTTGACATGGTCTTACATG
1 CATGTCTTGACATGGTCTTACATG
52988587 ATTTACGTGC
Statistics
Matches: 64, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
52 2 0.03
53 31 0.48
54 1 0.02
55 30 0.47
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.36
Consensus pattern (53 bp):
CATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAACTCACCAACGC
Found at i:52994581 original size:22 final size:22
Alignment explanation
Indices: 52994556--52994600 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
52994546 GTGGTACATG
*
52994556 AAAAA-AAATATATATATATTTT
1 AAAAATAAAT-TATAAATATTTT
*
52994578 AAAAATAAATTTTAAATATTTT
1 AAAAATAAATTATAAATATTTT
52994600 A
1 A
52994601 TTTTTAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
AAAAATAAATTATAAATATTTT
Found at i:52996930 original size:19 final size:20
Alignment explanation
Indices: 52996906--52996943 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
52996896 GGTACCACCA
52996906 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
52996925 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
52996944 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:52997746 original size:30 final size:30
Alignment explanation
Indices: 52997712--52997771 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
52997702 ATTTAATACG
52997712 AACTTTAAAAAAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
*** *
52997742 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
52997772 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.37
Consensus pattern (30 bp):
AACTTTAAAAAAATTACACTTTTGCCCCTA
Found at i:53004454 original size:19 final size:20
Alignment explanation
Indices: 53004430--53004467 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
53004420 TGGTACACCA
53004430 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
53004449 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
53004468 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:53004807 original size:93 final size:93
Alignment explanation
Indices: 53004697--53004867 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
53004687 GCCCCTAAGT
* *
53004697 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
53004762 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
53004790 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
53004855 CGAGTTCGGATGC
66 CGAGTTCGGATGC
53004868 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:53004864 original size:46 final size:46
Alignment explanation
Indices: 53004692--53004864 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
53004682 AACCCGCCCC
* * * *
53004692 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * *
53004738 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
53004786 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
53004831 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
53004865 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 60 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:53007411 original size:96 final size:97
Alignment explanation
Indices: 53007240--53007425 Score: 284
Period size: 96 Copynumber: 1.9 Consensus size: 97
53007230 GTGTCTGAGG
* * * * * *
53007240 AAGTCTGTTATCGATGGGAATGATCGAGCAGATACGGAGCCCAAGAAGCTTGGTTCGAGCAAGGG
1 AAGTCTGTCATCGAAGGGAACGATCGACCAGACAAGGAGCCCAAGAAGCTTGGTTCGAGCAAGGG
*
53007305 AAAAGTCGAAGCCAAGAGG-GCAAAGAGGAGC
66 AAAAGCCGAAGCCAAGAGGAGCAAAGAGGAGC
*
53007336 AAGTCTGTCATCGAAGGGAACGATGGACCAGACAAGGAGCCCAAGAAGCTTGGTTCGAGCAAGGG
1 AAGTCTGTCATCGAAGGGAACGATCGACCAGACAAGGAGCCCAAGAAGCTTGGTTCGAGCAAGGG
*
53007401 TAAAGCCGAAGCCAAGAGGAGCAAA
66 AAAAGCCGAAGCCAAGAGGAGCAAA
53007426 AAGAAGCGAG
Statistics
Matches: 80, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
96 75 0.94
97 5 0.06
ACGTcount: A:0.35, C:0.18, G:0.33, T:0.13
Consensus pattern (97 bp):
AAGTCTGTCATCGAAGGGAACGATCGACCAGACAAGGAGCCCAAGAAGCTTGGTTCGAGCAAGGG
AAAAGCCGAAGCCAAGAGGAGCAAAGAGGAGC
Found at i:53008866 original size:19 final size:20
Alignment explanation
Indices: 53008844--53008882 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
53008834 TTTAAATAAT
53008844 TTTTTAT-TTTTTAAAACTA
1 TTTTTATATTTTTAAAACTA
53008863 TTTTTATAATTTTTAAAACT
1 TTTTTAT-ATTTTTAAAACT
53008883 TTTAAAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 7 0.39
21 11 0.61
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (20 bp):
TTTTTATATTTTTAAAACTA
Found at i:53008874 original size:9 final size:9
Alignment explanation
Indices: 53008862--53008898 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
53008852 TTTTAAAACT
*
53008862 ATTTTTATA
1 ATTTTTAAA
53008871 ATTTTTAAA
1 ATTTTTAAA
*
53008880 ACTTTTAAA
1 ATTTTTAAA
53008889 ATTTTTAAA
1 ATTTTTAAA
53008898 A
1 A
53008899 AATTAATTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (9 bp):
ATTTTTAAA
Found at i:53010260 original size:6 final size:6
Alignment explanation
Indices: 53010249--53010281 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
53010239 GAAGAGGTAG
53010249 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAA
53010282 TAAAATATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:53013390 original size:18 final size:18
Alignment explanation
Indices: 53013366--53013421 Score: 103
Period size: 18 Copynumber: 3.1 Consensus size: 18
53013356 ATGGGGTAAT
53013366 AGGCCTAGTGATTACTCC
1 AGGCCTAGTGATTACTCC
*
53013384 CGGCCTAGTGATTACTCC
1 AGGCCTAGTGATTACTCC
53013402 AGGCCTAGTGATTACTCC
1 AGGCCTAGTGATTACTCC
53013420 AG
1 AG
53013422 ATGGGGTTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.21, C:0.29, G:0.23, T:0.27
Consensus pattern (18 bp):
AGGCCTAGTGATTACTCC
Found at i:53018370 original size:20 final size:21
Alignment explanation
Indices: 53018347--53018396 Score: 63
Period size: 19 Copynumber: 2.5 Consensus size: 21
53018337 TCTATTTATT
53018347 TATTTATTTATTA-TT-TTAAA
1 TATTTATTT-TTAGTTCTTAAA
53018367 TATTTATTTTTAGTTCTT-AA
1 TATTTATTTTTAGTTCTTAAA
53018387 -ATTTATTTTT
1 TATTTATTTTT
53018397 TTAATTTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
19 13 0.46
20 13 0.46
21 2 0.07
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.68
Consensus pattern (21 bp):
TATTTATTTTTAGTTCTTAAA
Found at i:53019143 original size:26 final size:26
Alignment explanation
Indices: 53019113--53019165 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
53019103 AAATAAATTA
53019113 TGTAAACCTTTTTACAATAATAAGTC
1 TGTAAACCTTTTTACAATAATAAGTC
53019139 TGTAAACCTTTTTACAATAATAAGTC
1 TGTAAACCTTTTTACAATAATAAGTC
53019165 T
1 T
53019166 AAGTACTAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.40
Consensus pattern (26 bp):
TGTAAACCTTTTTACAATAATAAGTC
Done.