Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 673 of 770
Found at i:211772059 original size:40 final size:39
Alignment explanation
Indices: 211771891--211772061 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
211771881 AGAAATTGAA
* *
211771891 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
211771931 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
211771971 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
211772011 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
211772051 TGATATCCGGG
1 TGATATCCGGG
211772062 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:211772204 original size:27 final size:28
Alignment explanation
Indices: 211772174--211772233 Score: 106
Period size: 28 Copynumber: 2.2 Consensus size: 28
211772164 GAAAATTATG
211772174 AGCTTGCTGG-AAAATTTCAGCTAATGC
1 AGCTTGCTGGAAAAATTTCAGCTAATGC
211772201 AGCTTGCTGGAAAAATTTCAGCTAATGC
1 AGCTTGCTGGAAAAATTTCAGCTAATGC
211772229 A-CTTG
1 AGCTTG
211772234 TGAAATTTCC
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
27 14 0.44
28 18 0.56
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (28 bp):
AGCTTGCTGGAAAAATTTCAGCTAATGC
Found at i:211782400 original size:40 final size:40
Alignment explanation
Indices: 211782318--211782534 Score: 257
Period size: 40 Copynumber: 5.5 Consensus size: 40
211782308 AAGCCAAGTA
* * * *
211782318 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCACACAAATG
* *
211782356 CCTTCGGGACATAGCCCGGATATAGTAACTCACACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
*
211782396 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
*
211782436 CCTTCGGGACTTAGCCCGGATATAATAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
* * *
211782476 CCTTCGGGA-TTAGTCCGGA-ACTAGTCACT-AGCGCAAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCA-CAC-AAATG
211782516 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
211782535 TTATCATCCA
Statistics
Matches: 157, Mismatches: 15, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
38 14 0.09
39 33 0.21
40 102 0.65
41 8 0.05
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
Found at i:211791530 original size:49 final size:48
Alignment explanation
Indices: 211791281--211791592 Score: 256
Period size: 49 Copynumber: 6.6 Consensus size: 48
211791271 TTTGTGTGCT
* *
211791281 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCAC-ATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGA-TATGATAGCC
* * *
211791327 AGTGTAAGACCACGTCTGGGACATGGCATCGGCCTCAAGATG-TAAGCCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATATGAT-AG-CC
* * * *
211791376 A-TGTAAGA-CTTGTTTGGGACAT-GCATCGG-CTACGAGATG-T-GTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCT-CGATATGATAGCC
* * *
211791419 AGTGTAAGACCATGTCTGGGACATGGCATC-G-CACGAATATAGGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCG-ATAT--GATAGCC
* * * * *
211791468 AGTGCAAGTCCATGTCTGGGACATGGCGTCGGCCTCGATTTTGATAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGA-TATGATAGCC
* * *
211791517 AGTGTAAGACCATGTCTGGGACATGGCATC-GACTTGAT-GGATGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATATGAT-AGCC
*
211791564 AGTGTAAGACCATGTTTGGGACATGGCAT
1 AGTGTAAGACCATGTCTGGGACATGGCAT
211791593 TGACATTAAA
Statistics
Matches: 216, Mismatches: 32, Indels: 35
0.76 0.11 0.12
Matches are distributed among these distances:
43 2 0.01
44 10 0.05
45 19 0.09
46 31 0.14
47 57 0.26
48 27 0.12
49 63 0.29
50 2 0.01
51 5 0.02
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATATGATAGCC
Found at i:211794451 original size:40 final size:40
Alignment explanation
Indices: 211794406--211794535 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
211794396 CGGAATACAA
211794406 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
211794446 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * * *
211794486 CCTGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
211794526 CCGGATATAA
1 CCGGATATAA
211794536 TTTCCAGCAT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.04
40 73 0.96
ACGTcount: A:0.24, C:0.29, G:0.24, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:211802533 original size:40 final size:40
Alignment explanation
Indices: 211802488--211802617 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
211802478 CGGAATACAA
211802488 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
211802528 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
211802568 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
211802608 CCGGATATAA
1 CCGGATATAA
211802618 TTTCCAGCAT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.04
40 73 0.96
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:211807107 original size:29 final size:29
Alignment explanation
Indices: 211807072--211807208 Score: 127
Period size: 29 Copynumber: 4.7 Consensus size: 29
211807062 CTACTCGATT
* *
211807072 TCGCACACTTAGTGCCACGTAATTT-AAGC
1 TCGCACACTTAGTGCCA-ATAATTTCCAGC
** **
211807101 TCGCACACACAGTGCCATATTTTTTTCCAGC
1 TCGCACACTTAGTGCCA-A-TAATTTCCAGC
*
211807132 TTGCACACTTAGTGCCAA-ATATTTCCAGC
1 TCGCACACTTAGTGCCAATA-ATTTCCAGC
*
211807161 ACGCACACTTAGTGCC-ATATATTTCCAGC
1 TCGCACACTTAGTGCCAATA-ATTTCCAGC
*
211807190 ACGCACACTTAGTGCCAAT
1 TCGCACACTTAGTGCCAAT
211807209 CTCGACACCA
Statistics
Matches: 89, Mismatches: 14, Indels: 9
0.79 0.12 0.08
Matches are distributed among these distances:
28 1 0.01
29 64 0.72
30 7 0.08
31 17 0.19
ACGTcount: A:0.27, C:0.30, G:0.15, T:0.28
Consensus pattern (29 bp):
TCGCACACTTAGTGCCAATAATTTCCAGC
Found at i:211807148 original size:60 final size:58
Alignment explanation
Indices: 211807073--211807207 Score: 155
Period size: 60 Copynumber: 2.3 Consensus size: 58
211807063 TACTCGATTT
** * * *
211807073 CGCACACTTAGTGCCACGTAATTT-AAGCTCGCACACACAGTGCCATATTTTTTTCCAGCT
1 CGCACACTTAGTGCCAAAT-ATTTCAAGCACGCACACACAGTGCCATA--TATTTCCAGCA
* * **
211807133 TGCACACTTAGTGCCAAATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCAAATATTTCAAGCACGCACACACAGTGCCATATATTTCCAGCA
211807191 CGCACACTTAGTGCCAA
1 CGCACACTTAGTGCCAA
211807208 TCTCGACACC
Statistics
Matches: 64, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
58 25 0.39
59 4 0.06
60 35 0.55
ACGTcount: A:0.27, C:0.30, G:0.15, T:0.27
Consensus pattern (58 bp):
CGCACACTTAGTGCCAAATATTTCAAGCACGCACACACAGTGCCATATATTTCCAGCA
Found at i:211815164 original size:29 final size:29
Alignment explanation
Indices: 211815129--211815265 Score: 127
Period size: 29 Copynumber: 4.7 Consensus size: 29
211815119 CTACTCGATT
* *
211815129 TCGCACACTTAGTGCCACGTAATTT-AAGC
1 TCGCACACTTAGTGCCA-ATAATTTCCAGC
** **
211815158 TCGCACACACAGTGCCATATTTTTTTCCAGC
1 TCGCACACTTAGTGCCA-A-TAATTTCCAGC
*
211815189 TTGCACACTTAGTGCCAA-ATATTTCCAGC
1 TCGCACACTTAGTGCCAATA-ATTTCCAGC
*
211815218 ACGCACACTTAGTGCC-ATATATTTCCAGC
1 TCGCACACTTAGTGCCAATA-ATTTCCAGC
*
211815247 ACGCACACTTAGTGCCAAT
1 TCGCACACTTAGTGCCAAT
211815266 CTCGACACCA
Statistics
Matches: 89, Mismatches: 14, Indels: 9
0.79 0.12 0.08
Matches are distributed among these distances:
28 1 0.01
29 64 0.72
30 7 0.08
31 17 0.19
ACGTcount: A:0.27, C:0.30, G:0.15, T:0.28
Consensus pattern (29 bp):
TCGCACACTTAGTGCCAATAATTTCCAGC
Found at i:211815205 original size:60 final size:58
Alignment explanation
Indices: 211815130--211815264 Score: 155
Period size: 60 Copynumber: 2.3 Consensus size: 58
211815120 TACTCGATTT
** * * *
211815130 CGCACACTTAGTGCCACGTAATTT-AAGCTCGCACACACAGTGCCATATTTTTTTCCAGCT
1 CGCACACTTAGTGCCAAAT-ATTTCAAGCACGCACACACAGTGCCATA--TATTTCCAGCA
* * **
211815190 TGCACACTTAGTGCCAAATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCAAATATTTCAAGCACGCACACACAGTGCCATATATTTCCAGCA
211815248 CGCACACTTAGTGCCAA
1 CGCACACTTAGTGCCAA
211815265 TCTCGACACC
Statistics
Matches: 64, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
58 25 0.39
59 4 0.06
60 35 0.55
ACGTcount: A:0.27, C:0.30, G:0.15, T:0.27
Consensus pattern (58 bp):
CGCACACTTAGTGCCAAATATTTCAAGCACGCACACACAGTGCCATATATTTCCAGCA
Found at i:211816613 original size:15 final size:15
Alignment explanation
Indices: 211816593--211816623 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
211816583 AGGATGAGCA
*
211816593 TTCTTTTTTTTTCTT
1 TTCTTTTTCTTTCTT
211816608 TTCTTTTTCTTTCTT
1 TTCTTTTTCTTTCTT
211816623 T
1 T
211816624 ACTAACATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (15 bp):
TTCTTTTTCTTTCTT
Found at i:211818479 original size:46 final size:46
Alignment explanation
Indices: 211818426--211818598 Score: 206
Period size: 46 Copynumber: 3.7 Consensus size: 46
211818416 TGGTTGAGCA
*
211818426 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
* * * * * * * *
211818472 TCCGAACTCGTTGAATTGAGTCCAAGTTC-GTGAGATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT--TATGGATACGA-ACG
211818519 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
* *
211818565 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
211818599 GGGGCGGGTT
Statistics
Matches: 103, Mismatches: 19, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
45 1 0.01
46 67 0.65
47 34 0.33
48 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
Found at i:211818560 original size:93 final size:93
Alignment explanation
Indices: 211818423--211818593 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
211818413 GGATGGTTGA
* *
211818423 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAATGTCCGAACTCGTTGAAT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAAT
211818488 TGAGTCCAAGTTCGTGAGATGTAACTAG
66 TGAGTCCAAGTTCGTGAGATGTAACTAG
* *
211818516 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAAT
*
211818581 TGAGTCCGAGTTC
66 TGAGTCCAAGTTC
211818594 ACTTAGGGGC
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:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAAT
TGAGTCCAAGTTCGTGAGATGTAACTAG
Found at i:211821816 original size:38 final size:39
Alignment explanation
Indices: 211821734--211821915 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
211821724 AATGTTCGAG
211821734 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
211821773 TGATATCCGGGCTAAGCCCGAAGGCAATTG-GCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
211821811 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* ** *
211821850 TGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
211821890 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
211821916 GTTTGAACGA
Statistics
Matches: 126, Mismatches: 15, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
38 38 0.30
39 50 0.40
40 38 0.30
ACGTcount: A:0.24, C:0.23, G:0.30, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:211829209 original size:39 final size:39
Alignment explanation
Indices: 211829162--211829344 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
211829152 AATGTTCGAG
211829162 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
211829201 TGATATCCGGGCTAAGCCCGAAGGCAATTGGGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
211829240 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* ** *
211829279 TGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
211829319 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
211829345 GTTTGAACGA
Statistics
Matches: 126, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 88 0.70
40 38 0.30
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:211837842 original size:44 final size:44
Alignment explanation
Indices: 211837692--211837858 Score: 194
Period size: 44 Copynumber: 3.7 Consensus size: 44
211837682 TATTTGGGCA
* *
211837692 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGACGC-AATGTCCGAA
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA--TCCGAG
*** * *
211837737 CTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCATCCGAG
1 CTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAATCCGAG
*
211837784 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACCCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATCCGAG
211837828 CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
211837859 GCGGGTTACA
Statistics
Matches: 103, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
43 1 0.01
44 39 0.38
45 24 0.23
46 8 0.08
47 29 0.28
49 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (44 bp):
CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATCCGAG
Found at i:211839486 original size:24 final size:25
Alignment explanation
Indices: 211839454--211839503 Score: 84
Period size: 24 Copynumber: 2.0 Consensus size: 25
211839444 AAGTCCTGCT
211839454 CCTTGATCAGCTCCTAAATCCTCTC
1 CCTTGATCAGCTCCTAAATCCTCTC
*
211839479 CCTT-ATCAGCTCCTAAATCTTCTC
1 CCTTGATCAGCTCCTAAATCCTCTC
211839503 C
1 C
211839504 TGACAGCCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 20 0.83
25 4 0.17
ACGTcount: A:0.20, C:0.40, G:0.06, T:0.34
Consensus pattern (25 bp):
CCTTGATCAGCTCCTAAATCCTCTC
Found at i:211847043 original size:24 final size:23
Alignment explanation
Indices: 211847010--211847111 Score: 123
Period size: 24 Copynumber: 4.3 Consensus size: 23
211847000 GCCGGCCAAC
*
211847010 TCTTGCTCCTTGATGAGCTCCTAAA
1 TCTT-CTCCTT-ATCAGCTCCTAAA
211847035 TCTTCTCCTTTATCAGCTCCTAAA
1 TCTTCTCC-TTATCAGCTCCTAAA
* *
211847059 TCCTCTCCCTTACCAGCTCCTAAA
1 TCTTCT-CCTTATCAGCTCCTAAA
* *
211847083 TCCTCTCCTTATCAACTCCTAAA
1 TCTTCTCCTTATCAGCTCCTAAA
211847106 TCTTCT
1 TCTTCT
211847112 TCTGACAGCC
Statistics
Matches: 69, Mismatches: 6, Indels: 6
0.85 0.07 0.07
Matches are distributed among these distances:
23 20 0.29
24 41 0.59
25 8 0.12
ACGTcount: A:0.21, C:0.36, G:0.06, T:0.37
Consensus pattern (23 bp):
TCTTCTCCTTATCAGCTCCTAAA
Found at i:211849566 original size:39 final size:40
Alignment explanation
Indices: 211849479--211849702 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
211849469 GCTACTCGTT
* * *
211849479 CAAATGCCTTCGGGACAT-AGCCTGATTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
211849519 CAAATGCCTTCGGGACTTAACCCGGATTTAGT-ACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
211849558 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
211849598 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * *
211849637 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
211849678 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
211849703 CATCATTCGA
Statistics
Matches: 165, Mismatches: 13, Indels: 12
0.87 0.07 0.06
Matches are distributed among these distances:
38 2 0.01
39 72 0.44
40 73 0.44
41 18 0.11
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:211849604 original size:79 final size:79
Alignment explanation
Indices: 211849460--211849702 Score: 278
Period size: 79 Copynumber: 3.1 Consensus size: 79
211849450 TCGAATTTAT
* ** * * * *
211849460 CCGGATATAGCTACTCGTTCAAATGCCTTCGGGACAT-AGCCTGATTATAGTAACTCGCACAAAT
1 CCGGATTTAG-TACTCGCACAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCACCAAT
*
211849524 GCCTTCGGGACTTAAC
64 GCCTTCGGGACTTAGC
211849540 CCGGATTTAGTACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAATGC
1 CCGGATTTAGTACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAATGC
211849605 CTTCGGG-CTTAGC
66 CTTCGGGACTTAGC
* ** * * *
211849618 CCGGAATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA-CAA
1 CCGGATTTAGT-ACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCACCAA
*
211849681 AGCCTTCGGGACTTAGC
63 TGCCTTCGGGACTTAGC
211849698 CCGGA
1 CCGGA
211849703 CATCATTCGA
Statistics
Matches: 143, Mismatches: 15, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
78 18 0.13
79 94 0.66
80 31 0.22
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CCGGATTTAGTACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAATGC
CTTCGGGACTTAGC
Found at i:211852369 original size:40 final size:40
Alignment explanation
Indices: 211852321--211852465 Score: 222
Period size: 40 Copynumber: 3.6 Consensus size: 40
211852311 CGGATGATAA
* *
211852321 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGGA-TA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT-TACTATA-T
211852361 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
211852401 CCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
211852441 CCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
211852466 AGCAAGTAGT
Statistics
Matches: 99, Mismatches: 4, Indels: 4
0.93 0.04 0.04
Matches are distributed among these distances:
39 1 0.01
40 97 0.98
41 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:211852480 original size:80 final size:80
Alignment explanation
Indices: 211852321--211852497 Score: 218
Period size: 80 Copynumber: 2.2 Consensus size: 80
211852311 CGGATGATAA
* * *
211852321 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGGATAATTCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTACGAGTGGATAATACCGGGCTAAGTCCCGAAGGCATTTG
* *
211852386 TGCGAGTTACTATAT
66 AGCAAGTTACTATAT
*
211852401 CCGGGCTAAGTCCCGAAGGCATTTGTACGAGT-TACT-ATAACCGGGCTAAGTCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTACGAGTGGA-TAAT-ACCGGGCTAAGTCCCGAAGGCATT
*
211852464 TGAGCAAG-TAGTTATAT
64 TGAGCAAGTTA-CTATAT
* *
211852481 TC-GGCTAAATCCCGAAG
1 CCGGGCTAAGTCCCGAAG
211852498 ATGCTTGGGT
Statistics
Matches: 85, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
79 19 0.22
80 66 0.78
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTACGAGTGGATAATACCGGGCTAAGTCCCGAAGGCATTTG
AGCAAGTTACTATAT
Found at i:211852764 original size:22 final size:21
Alignment explanation
Indices: 211852723--211852766 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
211852713 GAATGTGCAT
211852723 ATATGAAGTTATCCATTTAGCC
1 ATATGAAGTTATCCA-TTAGCC
211852745 ATATGAATGTTATACC-TTAGCC
1 ATATGAA-GTTAT-CCATTAGCC
211852767 GAAACTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 13 0.65
23 5 0.25
24 2 0.10
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (21 bp):
ATATGAAGTTATCCATTAGCC
Found at i:211860363 original size:38 final size:40
Alignment explanation
Indices: 211860257--211860396 Score: 214
Period size: 40 Copynumber: 3.5 Consensus size: 40
211860247 GATGATAACC
* *
211860257 GGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCCG
211860297 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
* *
211860337 GGCTAAGT-CC-AAGGCATTTGTACGAGTTACTATAACCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
211860375 GGCTAAGTCCCGAAGGCATTTG
1 GGCTAAGTCCCGAAGGCATTTG
211860397 AGCAAGTAGT
Statistics
Matches: 93, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
38 34 0.37
39 4 0.04
40 54 0.58
41 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
Found at i:211860411 original size:78 final size:79
Alignment explanation
Indices: 211860255--211860428 Score: 212
Period size: 78 Copynumber: 2.2 Consensus size: 79
211860245 CGGATGATAA
* * * *
211860255 CCGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGT
1 CCGGCTAAGTCCCGAAGGCATTTGTACGAGTGACTAATACCGGGCTAAGTCCCGAAGGCATTTGA
*
211860320 GCGAGTTACTATAT
66 GCAAGTTACTATAT
*
211860334 CCGGGCTAAGT-CC-AAGGCATTTGTACGAGTTACT-ATAACCGGGCTAAGTCCCGAAGGCATTT
1 CC-GGCTAAGTCCCGAAGGCATTTGTACGAGTGACTAAT-ACCGGGCTAAGTCCCGAAGGCATTT
*
211860396 GAGCAAG-TAGTTATAT
64 GAGCAAGTTA-CTATAT
* *
211860412 TCGGCTAAATCCCGAAG
1 CCGGCTAAGTCCCGAAG
211860429 ATGCTTGGGT
Statistics
Matches: 81, Mismatches: 9, Indels: 10
0.81 0.09 0.10
Matches are distributed among these distances:
77 11 0.14
78 55 0.68
79 7 0.09
80 8 0.10
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (79 bp):
CCGGCTAAGTCCCGAAGGCATTTGTACGAGTGACTAATACCGGGCTAAGTCCCGAAGGCATTTGA
GCAAGTTACTATAT
Found at i:211860696 original size:22 final size:21
Alignment explanation
Indices: 211860655--211860698 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
211860645 GAATGTGCAT
211860655 ATATGAAGTTATCCATTTAGCC
1 ATATGAAGTTATCCA-TTAGCC
211860677 ATATGAATGTTATACC-TTAGCC
1 ATATGAA-GTTAT-CCATTAGCC
211860699 GAAACTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 13 0.65
23 5 0.25
24 2 0.10
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (21 bp):
ATATGAAGTTATCCATTAGCC
Found at i:211864065 original size:29 final size:29
Alignment explanation
Indices: 211864032--211864163 Score: 201
Period size: 29 Copynumber: 4.6 Consensus size: 29
211864022 CCTCCGAACT
** * * *
211864032 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
* *
211864061 TGCACACTTAGTGCCAAATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
211864090 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
211864119 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
211864148 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
211864164 ATCTCGTCAC
Statistics
Matches: 94, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 94 1.00
ACGTcount: A:0.26, C:0.33, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:211872127 original size:29 final size:29
Alignment explanation
Indices: 211872094--211872196 Score: 143
Period size: 29 Copynumber: 3.6 Consensus size: 29
211872084 CCTCCGAACT
** * * *
211872094 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
* *
211872123 TGCACACTTAGTGCCAAATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
211872152 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
211872181 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
211872197 ATCTCGTCAC
Statistics
Matches: 65, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 65 1.00
ACGTcount: A:0.25, C:0.33, G:0.16, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:211880167 original size:29 final size:29
Alignment explanation
Indices: 211880139--211880241 Score: 143
Period size: 29 Copynumber: 3.6 Consensus size: 29
211880129 CCTCCGAGCT
** * * *
211880139 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
* *
211880168 TGCACACTTAGTGCCAAATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
211880197 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
211880226 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
211880242 ATCTCGTCAC
Statistics
Matches: 65, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 65 1.00
ACGTcount: A:0.25, C:0.33, G:0.16, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:211881899 original size:36 final size:36
Alignment explanation
Indices: 211881852--211881926 Score: 150
Period size: 36 Copynumber: 2.1 Consensus size: 36
211881842 ATGACTCGGT
211881852 TTTGTGGTCCCGAAACCACTTTCCGACTAGGGTCAA
1 TTTGTGGTCCCGAAACCACTTTCCGACTAGGGTCAA
211881888 TTTGTGGTCCCGAAACCACTTTCCGACTAGGGTCAA
1 TTTGTGGTCCCGAAACCACTTTCCGACTAGGGTCAA
211881924 TTT
1 TTT
211881927 TGGGCTGTCA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.21, C:0.27, G:0.21, T:0.31
Consensus pattern (36 bp):
TTTGTGGTCCCGAAACCACTTTCCGACTAGGGTCAA
Found at i:211888923 original size:29 final size:29
Alignment explanation
Indices: 211888890--211889021 Score: 156
Period size: 29 Copynumber: 4.6 Consensus size: 29
211888880 GTGACGAGAT
211888890 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
211888919 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * *
211888948 TGGCACTAAATGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* ** * * ***
211888977 CGGCACTGGGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
211889006 TGGCACTATGTGTGCG
1 TGGCACTAAGTGTGCG
211889022 GGCTTAAATT
Statistics
Matches: 87, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 87 1.00
ACGTcount: A:0.26, C:0.16, G:0.33, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:211893658 original size:17 final size:18
Alignment explanation
Indices: 211893616--211893664 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
211893606 AGTTGAAAAG
211893616 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
211893635 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
211893652 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
211893665 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:211894553 original size:40 final size:39
Alignment explanation
Indices: 211894487--211894652 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 39
211894477 AAATTGAATG
* * *
211894487 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGG-TATT
* * **
211894526 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTATT
*
211894565 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-G-TATT
* * **
211894605 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGT-ATT
211894645 ATATCCGG
1 ATATCCGG
211894653 TTATATTCCG
Statistics
Matches: 103, Mismatches: 17, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
38 3 0.03
39 42 0.41
40 56 0.54
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTATT
Found at i:211901654 original size:17 final size:18
Alignment explanation
Indices: 211901612--211901660 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
211901602 AGTTGAAAAG
211901612 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
211901631 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
211901648 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
211901661 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:211902548 original size:40 final size:39
Alignment explanation
Indices: 211902482--211902647 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 39
211902472 AAATTGAATG
* * *
211902482 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGG-TATT
* * **
211902521 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTATT
*
211902560 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-G-TATT
* * **
211902600 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGT-ATT
211902640 ATATCCGG
1 ATATCCGG
211902648 TTATATTCCG
Statistics
Matches: 103, Mismatches: 17, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
38 3 0.03
39 42 0.41
40 56 0.54
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTATT
Found at i:211907323 original size:42 final size:42
Alignment explanation
Indices: 211907218--211907355 Score: 136
Period size: 44 Copynumber: 3.2 Consensus size: 42
211907208 TGTGTTTTTG
* *
211907218 TGTAAGACCAC-GTCTAGGACATTGGCATCG-ACTTATAATTTACA
1 TGTAAGACC-CTGTCTGGGACATTGGCATCGTA-TT-TGATTT-CA
* * * *
211907262 TGTAAAACCATGTTTGGGACATTGGCATCGTATTTGATTTCG
1 TGTAAGACCCTGTCTGGGACATTGGCATCGTATTTGATTTCA
* * *
211907304 TGTAAGACCCTGTCTGGGACAATGGCATCTATATTTGATTACA
1 TGTAAGACCCTGTCTGGGACATTGGCATC-GTATTTGATTTCA
211907347 TGTAAGACC
1 TGTAAGACC
211907356 ACATCTGGGA
Statistics
Matches: 78, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
42 26 0.33
43 24 0.31
44 27 0.35
45 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (42 bp):
TGTAAGACCCTGTCTGGGACATTGGCATCGTATTTGATTTCA
Found at i:211907351 original size:43 final size:42
Alignment explanation
Indices: 211907257--211907365 Score: 128
Period size: 42 Copynumber: 2.6 Consensus size: 42
211907247 GACTTATAAT
* * * *
211907257 TTACATGTAAAACCATGTTTGGGACATTGGCATCGTATTTGA
1 TTACATGTAAGACCATGTCTGGGACAATGGCATCATATTTGA
* * *
211907299 TTTCGTGTAAGACCCTGTCTGGGACAATGGCATCTATATTTGA
1 TTACATGTAAGACCATGTCTGGGACAATGGCATC-ATATTTGA
**
211907342 TTACATGTAAGACCACATCTGGGA
1 TTACATGTAAGACCATGTCTGGGA
211907366 GGTTGGCATT
Statistics
Matches: 54, Mismatches: 12, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
42 28 0.52
43 26 0.48
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (42 bp):
TTACATGTAAGACCATGTCTGGGACAATGGCATCATATTTGA
Found at i:211907373 original size:43 final size:42
Alignment explanation
Indices: 211907257--211907374 Score: 112
Period size: 43 Copynumber: 2.8 Consensus size: 42
211907247 GACTTATAAT
* * * * *
211907257 TTACATGTAAAACCATGTTTGGGACATTGGCATCGTATTTGA
1 TTACATGTAAGACCCTATCTGGGACATTGGCATCATATTTGA
* * * *
211907299 TTTCGTGTAAGACCCTGTCTGGGACAATGGCATCTATATTTGA
1 TTACATGTAAGACCCTATCTGGGACATTGGCATC-ATATTTGA
**
211907342 TTACATGTAAGACCAC-ATCTGGGAGGTTGGCAT
1 TTACATGTAAGACC-CTATCTGGGACATTGGCAT
211907375 TGTACGAGCT
Statistics
Matches: 61, Mismatches: 13, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
42 28 0.46
43 32 0.52
44 1 0.02
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (42 bp):
TTACATGTAAGACCCTATCTGGGACATTGGCATCATATTTGA
Found at i:211910247 original size:30 final size:29
Alignment explanation
Indices: 211910159--211910259 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 29
211910149 ATAGTGAATC
* * *
211910159 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATAAATTTTAAACT
*
211910188 CGCACACTTAGTGCTATAGAA--TCAAACT
1 CGCACACTTAGTGCTATA-AATTTTAAACT
211910216 CGCACACTTAGTGCTGA-ACAATTTTAAACT
1 CGCACACTTAGTGCT-ATA-AATTTTAAACT
211910246 CGCACACTTAGTGC
1 CGCACACTTAGTGC
211910260 CAATCTTGTC
Statistics
Matches: 62, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
28 22 0.35
29 19 0.31
30 21 0.34
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.30
Consensus pattern (29 bp):
CGCACACTTAGTGCTATAAATTTTAAACT
Found at i:211918088 original size:28 final size:28
Alignment explanation
Indices: 211918021--211918120 Score: 114
Period size: 29 Copynumber: 3.5 Consensus size: 28
211918011 ATAGTGAATC
*
211918021 CGCACACTTAGTGCTATATATTTTC-AGCT
1 CGCACACTTAGTGCTATA-A-TTTCAAACT
*
211918050 CGCACACTTAGTGCTATAGA-ATCAAACT
1 CGCACACTTAGTGCTATA-ATTTCAAACT
* *
211918078 CGCACACTTAGTGCTGACAATTTTAAACT
1 CGCACACTTAGTGCT-ATAATTTCAAACT
211918107 CGCACACTTAGTGC
1 CGCACACTTAGTGC
211918121 CAATCTTGTC
Statistics
Matches: 62, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
27 2 0.03
28 19 0.31
29 41 0.66
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATAATTTCAAACT
Found at i:211922364 original size:27 final size:28
Alignment explanation
Indices: 211922307--211922376 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
211922297 AAATTTGTAC
**
211922307 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
211922335 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
211922362 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
211922377 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:211922385 original size:27 final size:27
Alignment explanation
Indices: 211922307--211922388 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
211922297 AAATTTGTAC
* *
211922307 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
211922335 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
211922362 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
211922389 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:211930271 original size:27 final size:28
Alignment explanation
Indices: 211930214--211930283 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
211930204 AAATTTGTAC
**
211930214 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
211930242 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
211930269 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
211930284 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:211930292 original size:27 final size:27
Alignment explanation
Indices: 211930214--211930295 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
211930204 AAATTTGTAC
* *
211930214 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
211930242 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
211930269 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
211930296 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:211935916 original size:30 final size:30
Alignment explanation
Indices: 211935881--211935941 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
211935871 TCCTTAACTA
211935881 AAACTTTGGCAAAATTAAAATTTTGCCCCT
1 AAACTTTGGCAAAATTAAAATTTTGCCCCT
* * * * *
211935911 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGCAAAATTAAAATTTTGCCCCT
211935941 A
1 A
211935942 GGCTTGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGCAAAATTAAAATTTTGCCCCT
Found at i:211938729 original size:40 final size:40
Alignment explanation
Indices: 211938674--211938837 Score: 195
Period size: 40 Copynumber: 4.1 Consensus size: 40
211938664 TGAATGATAC
* *
211938674 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* *
211938714 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATAT
* * ** *
211938754 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * * *
211938794 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
211938834 CCGG
1 CCGG
211938838 TTAAATTCGA
Statistics
Matches: 103, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
39 1 0.01
40 100 0.97
41 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
Found at i:211946760 original size:40 final size:40
Alignment explanation
Indices: 211946705--211946868 Score: 195
Period size: 40 Copynumber: 4.1 Consensus size: 40
211946695 TGAATGATAC
* *
211946705 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* *
211946745 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATAT
* * ** *
211946785 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * * *
211946825 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
211946865 CCGG
1 CCGG
211946869 TTAAATTCCG
Statistics
Matches: 103, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
39 1 0.01
40 100 0.97
41 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
Found at i:211952202 original size:39 final size:39
Alignment explanation
Indices: 211952133--211952413 Score: 409
Period size: 39 Copynumber: 7.2 Consensus size: 39
211952123 GAAATGTGTA
211952133 TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTTGTGC
1 TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTTGTGC
* * * * *
211952172 TGGAAATATATCCAGGCCAAATACCTGCAGGCTTCGTGC
1 TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTTGTGC
* *
211952211 TGGAAATGTATCCAGGCTAAAGACCCGCAGGCTTTGTGC
1 TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTTGTGC
* *
211952250 TGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTTGTGC
1 TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTTGTGC
* *
211952289 TGGAAATATATCCGGGCCAAAGACCCGCAGGCTTCGTGC
1 TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTTGTGC
* * *
211952328 TGGAAATGTATCTGGGCTAAAGACTCGCAGGCTTTGTGC
1 TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTTGTGC
* * *
211952367 TGGAAATGTATCCAGGCTAAAGTCCCGCAGGCTTTGTGC
1 TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTTGTGC
211952406 TGGAAATA
1 TGGAAATA
211952414 AAATTTCAGG
Statistics
Matches: 216, Mismatches: 26, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 216 1.00
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (39 bp):
TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTTGTGC
Found at i:211952339 original size:117 final size:117
Alignment explanation
Indices: 211952133--211952413 Score: 481
Period size: 117 Copynumber: 2.4 Consensus size: 117
211952123 GAAATGTGTA
* * * *
211952133 TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTTGTGCTGGAAATATATCCAGGCCAAATACCT
1 TGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTTGTGCTGGAAATATATCCAGGCCAAAGACCC
211952198 GCAGGCTTCGTGCTGGAAATGTATCCAGGCTAAAGACCCGCAGGCTTTGTGC
66 GCAGGCTTCGTGCTGGAAATGTATCCAGGCTAAAGACCCGCAGGCTTTGTGC
*
211952250 TGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTTGTGCTGGAAATATATCCGGGCCAAAGACCC
1 TGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTTGTGCTGGAAATATATCCAGGCCAAAGACCC
** *
211952315 GCAGGCTTCGTGCTGGAAATGTATCTGGGCTAAAGACTCGCAGGCTTTGTGC
66 GCAGGCTTCGTGCTGGAAATGTATCCAGGCTAAAGACCCGCAGGCTTTGTGC
*
211952367 TGGAAATGTATCCAGGCTAAAGTCCCGCAGGCTTTGTGCTGGAAATA
1 TGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTTGTGCTGGAAATA
211952414 AAATTTCAGG
Statistics
Matches: 155, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
117 155 1.00
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (117 bp):
TGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTTGTGCTGGAAATATATCCAGGCCAAAGACCC
GCAGGCTTCGTGCTGGAAATGTATCCAGGCTAAAGACCCGCAGGCTTTGTGC
Found at i:211955343 original size:71 final size:71
Alignment explanation
Indices: 211955257--211955420 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
211955247 CGATTTGTCT
211955257 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
211955322 CTTTCA
66 CTTTCA
211955328 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
211955393 CTTTCA
66 CTTTCA
211955399 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
211955421 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:211955458 original size:71 final size:70
Alignment explanation
Indices: 211955257--211955454 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
211955247 CGATTTGTCT
* * * *
211955257 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
211955322 CTTTCA
65 CTTTCA
* * * *
211955328 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
211955393 CTTTCA
65 CTTTCA
* *
211955399 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
211955455 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:211962884 original size:66 final size:68
Alignment explanation
Indices: 211962806--211962992 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
211962796 TAGTACCACT
*
211962806 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
211962868 CACG
65 CACG
211962872 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
211962937 ATCACG
63 ATCACG
211962943 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
211962993 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:211962917 original size:71 final size:71
Alignment explanation
Indices: 211962829--211962992 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
211962819 CGATTTGTCT
211962829 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
211962894 CTTTCA
66 CTTTCA
211962900 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
211962965 CTTTCA
66 CTTTCA
211962971 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
211962993 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:211963030 original size:71 final size:70
Alignment explanation
Indices: 211962829--211963026 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
211962819 CGATTTGTCT
* * * *
211962829 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
211962894 CTTTCA
65 CTTTCA
* * * *
211962900 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
211962965 CTTTCA
65 CTTTCA
* *
211962971 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
211963027 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:211982782 original size:45 final size:45
Alignment explanation
Indices: 211982726--211982816 Score: 146
Period size: 45 Copynumber: 2.0 Consensus size: 45
211982716 GAATTATGTG
211982726 ATTTAAACTCATTCAGTTGTGGTCTGAGTTCATGACATATGTGAC
1 ATTTAAACTCATTCAGTTGTGGTCTGAGTTCATGACATATGTGAC
* * **
211982771 ATTTGAACTCATTGAGTTGTGGTCTGAGTTCATGATGTATGTGAC
1 ATTTAAACTCATTCAGTTGTGGTCTGAGTTCATGACATATGTGAC
211982816 A
1 A
211982817 CATGTTTTGG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.25, C:0.13, G:0.23, T:0.38
Consensus pattern (45 bp):
ATTTAAACTCATTCAGTTGTGGTCTGAGTTCATGACATATGTGAC
Found at i:211989832 original size:20 final size:21
Alignment explanation
Indices: 211989807--211989845 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
211989797 CTAAATGTAC
211989807 TTTTCATATACA-CATATAAT
1 TTTTCATATACATCATATAAT
*
211989827 TTTTCATTTACATCATATA
1 TTTTCATATACATCATATA
211989846 TGATTTGCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.49
Consensus pattern (21 bp):
TTTTCATATACATCATATAAT
Found at i:211990124 original size:41 final size:43
Alignment explanation
Indices: 211990017--211990128 Score: 115
Period size: 41 Copynumber: 2.7 Consensus size: 43
211990007 ATATCGTACA
* * *
211990017 ATGCCAAC-GTCCCAGACGTGGTCTTACATGCTATCACATATCG
1 ATGCC-ACTGTCCCAGACATGGTCTTACATGCAATCAAATATCG
* * * *
211990060 ATGCCACTGTCCCAAATAGGGTCTTACATG-AATTAAATA-CG
1 ATGCCACTGTCCCAGACATGGTCTTACATGCAATCAAATATCG
211990101 ATGCCGA-TGTCCCAGACATGGTCTTACA
1 ATGCC-ACTGTCCCAGACATGGTCTTACA
211990129 AGAGAACACA
Statistics
Matches: 57, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
41 25 0.44
42 9 0.16
43 23 0.40
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.26
Consensus pattern (43 bp):
ATGCCACTGTCCCAGACATGGTCTTACATGCAATCAAATATCG
Found at i:211991286 original size:15 final size:15
Alignment explanation
Indices: 211991253--211991282 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
211991243 AATAAATCAC
211991253 ATAAATTTCACACAT
1 ATAAATTTCACACAT
211991268 ATAAA-TTCACACAT
1 ATAAATTTCACACAT
211991282 A
1 A
211991283 ATAAGAACTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (15 bp):
ATAAATTTCACACAT
Found at i:211998725 original size:24 final size:24
Alignment explanation
Indices: 211998693--211998804 Score: 113
Period size: 24 Copynumber: 4.7 Consensus size: 24
211998683 GGCTATCTCA
*
211998693 AATGCACTATGTGTGCAATTTATT
1 AATGCACTATGTGTGCAATTTACT
*
211998717 AATGCACTATGTGTGCGATTTACT
1 AATGCACTATGTGTGCAATTTACT
* *
211998741 -ATGGCACTATGTGTGCGATTTGCT
1 AAT-GCACTATGTGTGCAATTTACT
** *
211998765 -ATGGCACTATGTGTGCGAACATAAT
1 AAT-GCACTATGTGTGC-AATTTACT
211998790 AA-GCACTATGTGTGC
1 AATGCACTATGTGTGC
211998805 CACATTCGGT
Statistics
Matches: 77, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
23 2 0.03
24 71 0.92
25 3 0.04
26 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.35
Consensus pattern (24 bp):
AATGCACTATGTGTGCAATTTACT
Found at i:212005915 original size:24 final size:24
Alignment explanation
Indices: 212005883--212005994 Score: 113
Period size: 24 Copynumber: 4.7 Consensus size: 24
212005873 GGCTATCTCA
*
212005883 AATGCACTATGTGTGCAATTTATT
1 AATGCACTATGTGTGCAATTTACT
*
212005907 AATGCACTATGTGTGCGATTTACT
1 AATGCACTATGTGTGCAATTTACT
* *
212005931 -ATGGCACTATGTGTGCGATTTGCT
1 AAT-GCACTATGTGTGCAATTTACT
** *
212005955 -ATGGCACTATGTGTGCGAACATAAT
1 AAT-GCACTATGTGTGC-AATTTACT
212005980 AA-GCACTATGTGTGC
1 AATGCACTATGTGTGC
212005995 CACATTCGGT
Statistics
Matches: 77, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
23 2 0.03
24 71 0.92
25 3 0.04
26 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.35
Consensus pattern (24 bp):
AATGCACTATGTGTGCAATTTACT
Found at i:212009637 original size:40 final size:39
Alignment explanation
Indices: 212009592--212009799 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 39
212009582 CGGAATACAA
*
212009592 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
212009632 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
212009672 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
212009712 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * * *
212009752 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
212009792 CCGGATAT
1 CCGGATAT
212009800 CATTCAATTG
Statistics
Matches: 142, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
39 1 0.01
40 141 0.99
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:212009732 original size:80 final size:81
Alignment explanation
Indices: 212009592--212009797 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 81
212009582 CGGAATACAA
* * *
212009592 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGA-TAGAACGACTTGCACAAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
*
212009656 GCCTTCGGGTATTAGC
66 GCCTTCGGGTATTAAC
* * *
212009672 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAG-TC-ACTAGCACAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-TAGAACGACTAGCACAAA
*
212009735 TGCCTTCGGGTCTTAAC
65 TGCCTTCGGGTATTAAC
** * ** * *
212009752 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT
212009798 ATCATTCAAT
Statistics
Matches: 108, Mismatches: 16, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
80 104 0.96
81 1 0.01
82 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (81 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
GCCTTCGGGTATTAAC
Found at i:212017608 original size:40 final size:39
Alignment explanation
Indices: 212017563--212017769 Score: 200
Period size: 40 Copynumber: 5.2 Consensus size: 39
212017553 CGGAATACGA
*
212017563 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
212017603 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
212017643 CCGGATTTAACAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
* ** * *
212017683 CCGGATGTAGTCACTAGCACAATTG-CTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * * * *
212017722 CCGGATATAATTACCAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCA-CTGCACAAATGCCTTCGGGTCTTAGC
212017762 CCGGATAT
1 CCGGATAT
212017770 CATTCAATTG
Statistics
Matches: 138, Mismatches: 26, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
39 31 0.22
40 107 0.78
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:212026585 original size:28 final size:28
Alignment explanation
Indices: 212026516--212026616 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
212026506 GACAAGATTG
* * * *
212026516 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
212026546 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
212026574 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
212026603 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
212026617 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:212034530 original size:28 final size:28
Alignment explanation
Indices: 212034461--212034561 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
212034451 GACAAGATTG
* * * *
212034461 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
212034491 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
212034519 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
212034548 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
212034562 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:212038828 original size:28 final size:28
Alignment explanation
Indices: 212038763--212038863 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
212038753 ATAGTGAATC
*
212038763 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
212038792 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
212038820 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
212038850 CGCACACTTAGTGC
1 CGCACACTTAGTGC
212038864 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:212049440 original size:28 final size:28
Alignment explanation
Indices: 212049375--212049475 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
212049365 ATAGTGAATC
*
212049375 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
212049404 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
212049432 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
212049462 CGCACACTTAGTGC
1 CGCACACTTAGTGC
212049476 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:212052779 original size:80 final size:80
Alignment explanation
Indices: 212052644--212052857 Score: 245
Period size: 80 Copynumber: 2.7 Consensus size: 80
212052634 TGATAACGGG
* *
212052644 GCTAAGTCCTGAAGGCATTTGTGCTAGTGACTA-ATTCCAGGCTAAGTCCCAAAGGCATTTGTGC
1 GCTAAGTCCTGAAGGCATTTGTGCGAGTTACTATA-TCCAGGCTAAGTCCCAAAGGCATTTGTGC
** * *
212052708 GAGTTACTATTTCTGA
65 GAACTACTATATCCGA
* ** * * *
212052724 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCTGGGCTAAGTCTCGAAGGCCTTTGTGCG
1 GCTAAGTCCTGAAGGCATTTGTGCGAGTTACTATATCCAGGCTAAGTCCCAAAGGCATTTGTGCG
*
212052789 AACTACTATATCCGG
66 AACTACTATATCCGA
* * *
212052804 GCTAAGTCCTGAAGGCATTTGAGCGAG-TAGCTATATCC-GGTTAAATCCCAAAGG
1 GCTAAGTCCTGAAGGCATTTGTGCGAGTTA-CTATATCCAGGCTAAGTCCCAAAGG
212052858 TACTTGGTTT
Statistics
Matches: 112, Mismatches: 20, Indels: 5
0.82 0.15 0.04
Matches are distributed among these distances:
79 14 0.12
80 97 0.87
81 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (80 bp):
GCTAAGTCCTGAAGGCATTTGTGCGAGTTACTATATCCAGGCTAAGTCCCAAAGGCATTTGTGCG
AACTACTATATCCGA
Found at i:212052838 original size:40 final size:39
Alignment explanation
Indices: 212052642--212052843 Score: 219
Period size: 40 Copynumber: 5.1 Consensus size: 39
212052632 GATGATAACG
*
212052642 GGGCTAAGTCCTGAAGGCATTTGTGCTAGTGACTA-ATTCC
1 GGGCTAAGTCCTGAAGGCATTTGTGCGAGT-ACTATA-TCC
* ** * *
212052682 AGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTATTTCT
1 GGGCTAAGTCCTGAAGGCATTTGTGCGAG-TACTATATCC
* * *
212052722 GAGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCT
1 GGGCTAAGTCCTGAAGGCATTTGTGCGAG-TACTATATCC
* *
212052762 GGGCTAAGT-CTCGAAGGCCTTTGTGCGAACTACTATATCC
1 GGGCTAAGTCCT-GAAGGCATTTGTGCG-AGTACTATATCC
*
212052802 GGGCTAAGTCCTGAAGGCATTTGAGCGAGTAGCTATATCC
1 GGGCTAAGTCCTGAAGGCATTTGTGCGAGTA-CTATATCC
212052842 GG
1 GG
212052844 TTAAATCCCA
Statistics
Matches: 138, Mismatches: 18, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
39 4 0.03
40 130 0.94
41 4 0.03
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.29
Consensus pattern (39 bp):
GGGCTAAGTCCTGAAGGCATTTGTGCGAGTACTATATCC
Found at i:212060657 original size:40 final size:40
Alignment explanation
Indices: 212060602--212060818 Score: 316
Period size: 40 Copynumber: 5.5 Consensus size: 40
212060592 CGGATGATAA
* *
212060602 CGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TC
212060642 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-ATTC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TC
212060682 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
**
212060722 CGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
*
212060762 CGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATC
* *
212060802 C-GGTTAAATCCCGAAGG
1 CGGGCTAAGTCCCGAAGG
212060819 TACTTGGTTT
Statistics
Matches: 167, Mismatches: 8, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
39 16 0.10
40 150 0.90
41 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
Found at i:212063917 original size:55 final size:52
Alignment explanation
Indices: 212063830--212064082 Score: 186
Period size: 55 Copynumber: 4.8 Consensus size: 52
212063820 ATTAGGGTTT
* *
212063830 AAGGATACCATGTAAGACCATGCTAAGGCATGGAAATTGGTAAGGTTTCTAAGGC
1 AAGGATATCATGTAAGACCATGC-AAGACATGG-AATTGGTAA-GTTTCTAAGGC
* * * * *
212063885 AAGGAAATCATGTAATACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGC
1 AAGGATATCATGTAAGACCATG-CAAGACATGGAATTGGTAAGTT--TCTAAGGC
* * * *
212063940 AAAGG-T-CCTATGTAAGACCATGCTAAGGCATGGCATTGGTGAG-TTCATAAGGC
1 -AAGGATATC-ATGTAAGACCATGC-AAGACATGGAATTGGTAAGTTTC-TAAGGC
212063993 AAGGATA-CATGTAAGACCATGTCAAGA-ATGGCAA-TGGTAAGTTTC-AA---
1 AAGGATATCATGTAAGACCATG-CAAGACATGG-AATTGGTAAGTTTCTAAGGC
* *
212064040 AAGGATACCATGTAAGACCATGACAAGTCATGGCAA-TGGTAAG
1 AAGGATATCATGTAAGACCATG-CAAGACATGG-AATTGGTAAG
212064083 GTACCTGCGT
Statistics
Matches: 165, Mismatches: 19, Indels: 34
0.76 0.09 0.16
Matches are distributed among these distances:
47 7 0.04
48 18 0.11
49 14 0.08
50 2 0.01
51 10 0.06
52 25 0.15
53 12 0.07
54 10 0.06
55 62 0.38
56 5 0.03
ACGTcount: A:0.37, C:0.15, G:0.25, T:0.23
Consensus pattern (52 bp):
AAGGATATCATGTAAGACCATGCAAGACATGGAATTGGTAAGTTTCTAAGGC
Found at i:212074145 original size:40 final size:40
Alignment explanation
Indices: 212074092--212074242 Score: 139
Period size: 40 Copynumber: 3.8 Consensus size: 40
212074082 ATAACCACGT
* *
212074092 GCACAAATACCTTCGGGTCTTAGCCCGGATAGAATGTCTC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC
* * *
212074132 GCACGAA-TGCCTTCGGGTCTTAGCCCGGAT-GTA-GCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATAGAATG--TCTC
* * *
212074172 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-C
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC
* * *
212074211 AGCATAATTGTCTTCGGGGCTTAGCCCGGATA
1 -GCACAATTGCCTTCGGGTCTTAGCCCGGATA
212074243 TCATTCAATT
Statistics
Matches: 90, Mismatches: 14, Indels: 14
0.76 0.12 0.12
Matches are distributed among these distances:
38 1 0.01
39 4 0.04
40 82 0.91
41 3 0.03
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC
Found at i:212074226 original size:80 final size:80
Alignment explanation
Indices: 212074092--212074241 Score: 196
Period size: 80 Copynumber: 1.9 Consensus size: 80
212074082 ATAACCACGT
* *
212074092 GCACAAATACCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATACCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
212074157 CGGATGTAGCCACTA
66 CGGATGTAGCCACTA
* * * * * *
212074172 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATACCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGGCTTAG
212074235 CCCGGAT
64 CCCGGAT
212074242 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
79 3 0.05
80 57 0.95
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATACCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATGTAGCCACTA
Found at i:212078206 original size:28 final size:28
Alignment explanation
Indices: 212078161--212078229 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
212078151 ATTTAAACCC
*
212078161 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
212078188 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
212078216 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
212078230 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:212082617 original size:123 final size:123
Alignment explanation
Indices: 212082398--212082736 Score: 606
Period size: 123 Copynumber: 2.8 Consensus size: 123
212082388 GAATTATGTG
212082398 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
*
212082463 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCGAGCCTTAGTAACGA
212082521 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
212082586 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCGAGCCTTAGTAACGA
* * * * *
212082644 AAATGAAATATGGATGTGTAATGATTATTGATTTATGTGTGCATGAGCAATTGAATGATACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
* *
212082709 GCTAAGTCCCGAAGACATTTATGCTAGT
66 GCTAAGTCCCGAAGGCAATTATGCTAGT
212082737 AATTATATCC
Statistics
Matches: 208, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
123 208 1.00
ACGTcount: A:0.30, C:0.11, G:0.25, T:0.34
Consensus pattern (123 bp):
AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCGAGCCTTAGTAACGA
Found at i:212082760 original size:40 final size:40
Alignment explanation
Indices: 212082705--212082948 Score: 301
Period size: 40 Copynumber: 6.1 Consensus size: 40
212082695 TGAATGATAC
* * * * **
212082705 CCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
* * * *
212082745 CCGGGTTAAGACCCGAAGGCAATTGTGCTAG-TGACTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTG-TTATAT
*
212082785 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
*
212082825 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
* *
212082865 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
* * ** *
212082905 CCGGGCTAAGACCCGAGGGCATTCGTGCGTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
212082945 CCGG
1 CCGG
212082949 TTGTATTCCG
Statistics
Matches: 182, Mismatches: 20, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
40 180 0.99
41 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
Found at i:212088117 original size:40 final size:40
Alignment explanation
Indices: 212087990--212088119 Score: 174
Period size: 40 Copynumber: 3.2 Consensus size: 40
212087980 ATGCTGGAAA
* *
212087990 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * *
212088030 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
212088070 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
212088110 TTATATCCGG
1 TTATATCCGG
212088120 TTGTATTCCG
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 4 0.05
40 74 0.95
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:212103585 original size:40 final size:40
Alignment explanation
Indices: 212103429--212103590 Score: 175
Period size: 40 Copynumber: 4.1 Consensus size: 40
212103419 GGGATTTAAT
* * *
212103429 CGGATATAAC-ACGAGCACAATTGCCTTCGGGTCTTAACC
1 CGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAGCC
* * *** * *
212103468 CAGATTTGGTAACTTGCACAATTGCCTTCGGGTCTTAGCC
1 CGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAGCC
* *
212103508 CGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGCC
1 CGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAGCC
* *
212103548 CGGATATAATC-ACTAGCATAAATGCCTTCGGGACTTAGCC
1 CGGATATAA-CAACTAGCACAAATGCCTTCGGGTCTTAGCC
212103588 CGG
1 CGG
212103591 GTATCATTCA
Statistics
Matches: 101, Mismatches: 20, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 5 0.05
40 95 0.94
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAGCC
Found at i:212113855 original size:42 final size:39
Alignment explanation
Indices: 212113777--212113857 Score: 101
Period size: 42 Copynumber: 2.0 Consensus size: 39
212113767 AAGATGTTTA
*
212113777 AAAACATTTATTTATTATTTTATGTTTTAAATTTTTATT
1 AAAACATTTATTTATTATTTTATGTTTTAAAATTTTATT
*
212113816 AAAACTATTTTTTTATT-TTTTATTAGATTTTAAAATTTTATT
1 AAAAC-ATTTATTTATTATTTTA-T-G-TTTTAAAATTTTATT
212113858 TTATAGTTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
39 10 0.28
40 11 0.31
41 1 0.03
42 14 0.39
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (39 bp):
AAAACATTTATTTATTATTTTATGTTTTAAAATTTTATT
Found at i:212119701 original size:40 final size:39
Alignment explanation
Indices: 212119637--212119804 Score: 167
Period size: 40 Copynumber: 4.2 Consensus size: 39
212119627 CCTTTGGGAT
** *
212119637 TTAA-CCGGATATAACCACAAGCACAACTGCCTTCGGGTC
1 TTAACCCGGATATAATAACTAGCACAA-TGCCTTCGGGTC
* * * *
212119676 TTAACCCGGATTTAGTAACTTGCACAATTGCTTTCGGGTC
1 TTAACCCGGATATAATAACTAGCACAA-TGCCTTCGGGTC
* *
212119716 TTAACCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAACCCGGATATAATAACTAGCAC-AATGCCTTCGGGTC
* * * *
212119756 TTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGAC
1 TTAACCCGGATATAATAACTAGCA-CAATGCCTTCGGGTC
*
212119796 TTAGCCCGG
1 TTAACCCGG
212119805 GTATCATTCA
Statistics
Matches: 107, Mismatches: 19, Indels: 5
0.82 0.15 0.04
Matches are distributed among these distances:
39 4 0.04
40 101 0.94
41 2 0.02
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (39 bp):
TTAACCCGGATATAATAACTAGCACAATGCCTTCGGGTC
Found at i:212119792 original size:80 final size:80
Alignment explanation
Indices: 212119627--212119804 Score: 198
Period size: 80 Copynumber: 2.2 Consensus size: 80
212119617 GAGTCACGTA
* * * * *
212119627 CCTTTGGGATTTAA-CCGGATATAACCACAAGCACAACTGCCTTCGGGTCTTAACCCGGATTTAG
1 CCTTCGGGACTTAACCCGGATATAACAACAAGCACAACTGCCTTCGGGTCTTAACCCGGATATAA
* *
212119691 TAACTTGCACAATTG
66 TAACTAGCACAAATG
* * ** *
212119706 CTTTCGGGTCTTAACCCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGCCCGGATATA
1 CCTTCGGGACTTAACCCGGATATAACAACAAGCAC-AACTGCCTTCGGGTCTTAACCCGGATATA
* *
212119770 ATCACTAGCATAAATG
65 ATAACTAGCACAAATG
*
212119786 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAACCCGG
212119805 GTATCATTCA
Statistics
Matches: 80, Mismatches: 17, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
79 10 0.12
80 68 0.85
81 2 0.03
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (80 bp):
CCTTCGGGACTTAACCCGGATATAACAACAAGCACAACTGCCTTCGGGTCTTAACCCGGATATAA
TAACTAGCACAAATG
Found at i:212129477 original size:40 final size:39
Alignment explanation
Indices: 212129432--212129561 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
212129422 CGGAATATAA
212129432 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
212129472 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
212129512 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
212129552 CCGGATATAA
1 CCGGATATAA
212129562 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:212129576 original size:40 final size:40
Alignment explanation
Indices: 212129448--212129598 Score: 146
Period size: 40 Copynumber: 3.8 Consensus size: 40
212129438 ATAACCATGT
* * *
212129448 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
212129488 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
212129528 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* * *
212129568 GCATAATTGTCTTCGGG-ATTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
212129599 CATTCAATTT
Statistics
Matches: 90, Mismatches: 18, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
39 14 0.16
40 74 0.82
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.27
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:212129582 original size:80 final size:79
Alignment explanation
Indices: 212129448--212129596 Score: 194
Period size: 80 Copynumber: 1.9 Consensus size: 79
212129438 ATAACCATGT
* *
212129448 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-ATTAGCC
212129513 CGGATGTAGCCACTA
65 CGGATGTAGCCACTA
* * * * *
212129528 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTAGC
212129591 CCGGAT
64 CCGGAT
212129597 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
79 14 0.23
80 46 0.77
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTAGCCC
GGATGTAGCCACTA
Found at i:212137466 original size:40 final size:39
Alignment explanation
Indices: 212137421--212137550 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
212137411 CGGAATATAA
212137421 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
212137461 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
212137501 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
212137541 CCGGATATAA
1 CCGGATATAA
212137551 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:212137565 original size:40 final size:40
Alignment explanation
Indices: 212137437--212137587 Score: 146
Period size: 40 Copynumber: 3.8 Consensus size: 40
212137427 ATAACCATGT
* * *
212137437 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
212137477 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
212137517 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* * *
212137557 GCATAATTGTCTTCGGG-ATTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
212137588 CATTCAATTT
Statistics
Matches: 90, Mismatches: 18, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
39 14 0.16
40 74 0.82
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.27
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:212137571 original size:80 final size:79
Alignment explanation
Indices: 212137437--212137585 Score: 194
Period size: 80 Copynumber: 1.9 Consensus size: 79
212137427 ATAACCATGT
* *
212137437 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-ATTAGCC
212137502 CGGATGTAGCCACTA
65 CGGATGTAGCCACTA
* * * * *
212137517 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTAGC
212137580 CCGGAT
64 CCGGAT
212137586 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
79 14 0.23
80 46 0.77
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTAGCCC
GGATGTAGCCACTA
Found at i:212145460 original size:40 final size:39
Alignment explanation
Indices: 212145415--212145544 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
212145405 CGGAATATAA
212145415 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
212145455 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
212145495 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
212145535 CCGGATATAA
1 CCGGATATAA
212145545 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:212145559 original size:40 final size:40
Alignment explanation
Indices: 212145431--212145582 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
212145421 ATAACCATGT
* * *
212145431 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
212145471 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
212145511 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
212145551 GCATAATTGTCTTCGGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
212145583 CATTCAATTT
Statistics
Matches: 91, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
39 2 0.02
40 86 0.95
41 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:212145565 original size:80 final size:80
Alignment explanation
Indices: 212145431--212145580 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
212145421 ATAACCATGT
*
212145431 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
212145495 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
212145511 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
212145574 CCCGGAT
64 CCCGGAT
212145581 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:212152801 original size:12 final size:12
Alignment explanation
Indices: 212152786--212152810 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
212152776 TATACATATA
212152786 TATATATATTAT
1 TATATATATTAT
212152798 TATATATATTAT
1 TATATATATTAT
212152810 T
1 T
212152811 CGGCCATTAA
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:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TATATATATTAT
Found at i:212155385 original size:40 final size:40
Alignment explanation
Indices: 212155340--212155506 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
212155330 CGGAATATAA
212155340 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
212155380 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
212155420 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
212155460 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
212155499 CCGGATAT
1 CCGGATAT
212155507 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:212155490 original size:80 final size:79
Alignment explanation
Indices: 212155340--212155506 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
212155330 CGGAATATAA
* *
212155340 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
212155405 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
212155420 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
212155482 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
212155499 CCGGATAT
1 CCGGATAT
212155507 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:212156354 original size:17 final size:19
Alignment explanation
Indices: 212156331--212156376 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
212156321 AAGAAGCATG
212156331 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
212156349 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
212156367 AATCATGCTC
1 AATCATGCTC
212156377 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:212163375 original size:40 final size:40
Alignment explanation
Indices: 212163330--212163495 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
212163320 CGGAATATAA
212163330 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
212163370 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
212163410 CCGGATAT-ACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
212163449 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
212163488 CCGGATAT
1 CCGGATAT
212163496 CATTCAATTT
Statistics
Matches: 105, Mismatches: 19, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
39 46 0.44
40 59 0.56
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:212163452 original size:39 final size:38
Alignment explanation
Indices: 212163346--212163457 Score: 134
Period size: 39 Copynumber: 2.8 Consensus size: 38
212163336 ATAATCACGT
* * *
212163346 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATA-TACAACTA
* *
212163386 GCACGAATGCCTTCGGGCCTTAGCCCGGATATACCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATACAACTA
*
212163425 GCACAATTGCCTTCGGGTCTTAACCCGGATATA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATATA
212163458 ATTTCCAGCA
Statistics
Matches: 63, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
38 2 0.03
39 32 0.51
40 29 0.46
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATATACAACTA
Found at i:212163479 original size:79 final size:78
Alignment explanation
Indices: 212163346--212163495 Score: 196
Period size: 79 Copynumber: 1.9 Consensus size: 78
212163336 ATAATCACGT
*
212163346 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
212163411 CGGATATACCACTA
65 CGGATATACCACTA
* * ** * *
212163425 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
212163488 CCGGATAT
64 CCGGATAT
212163496 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
78 17 0.27
79 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (78 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATACCACTA
Found at i:212164344 original size:17 final size:19
Alignment explanation
Indices: 212164321--212164366 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
212164311 AAGAAGCATG
212164321 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
212164339 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
212164357 AATCATGCTC
1 AATCATGCTC
212164367 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:212170224 original size:30 final size:30
Alignment explanation
Indices: 212170169--212170299 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
212170159 ATAGTGAATC
*
212170169 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
*
212170198 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
212170228 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AACT
* * * *
212170256 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAACT
212170286 CGCACACTTAGTGC
1 CGCACACTTAGTGC
212170300 CAATCTTGTC
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 19 0.21
30 48 0.52
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAACT
Found at i:212170279 original size:58 final size:58
Alignment explanation
Indices: 212170168--212170299 Score: 176
Period size: 58 Copynumber: 2.3 Consensus size: 58
212170158 TATAGTGAAT
* * * * *
212170168 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGC
1 CCGCACACTTAGTGCTATATA-TATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
* *
212170227 TCGCACACTTAGTGCTATATA-ATCAAACTCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATATATATC-AACTCGCACACTTAGTGCTATACAATTTTAAAC
212170285 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
212170300 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
57 2 0.03
58 42 0.66
59 20 0.31
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.32
Consensus pattern (58 bp):
CCGCACACTTAGTGCTATATATATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
Found at i:212172759 original size:46 final size:46
Alignment explanation
Indices: 212172709--212172881 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
212172699 TGGTTGAGCA
*
212172709 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
212172755 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* * * *
212172802 TCCGAACTCGTTGAGTTGAGTCCAAGTTCATTTATGGATGCGAACA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
212172848 CCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
212172882 GGGGCGGGTT
Statistics
Matches: 106, Mismatches: 14, Indels: 14
0.79 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 61 0.58
47 28 0.26
48 3 0.03
50 5 0.05
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:212172865 original size:93 final size:93
Alignment explanation
Indices: 212172706--212172876 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
212172696 GGATGGTTGA
* ***
212172706 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAACACCCGAACTCGTTGAGT
212172771 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
212172799 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCATTTATGGATGCGAACACCCGAACTTGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAACACCCGAACTCGTTGAGT
212172864 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
212172877 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAACACCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:212180216 original size:46 final size:46
Alignment explanation
Indices: 212180166--212180336 Score: 215
Period size: 46 Copynumber: 3.7 Consensus size: 46
212180156 TGGTTGAGCA
212180166 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * * *
212180212 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAT-G
* * *
212180256 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
*
212180304 CCCGAACTCGTT-AGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
212180337 GGGCGGGTTA
Statistics
Matches: 107, Mismatches: 12, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
43 7 0.07
44 1 0.01
45 22 0.21
46 69 0.64
47 2 0.02
48 1 0.01
49 5 0.05
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:212181999 original size:25 final size:24
Alignment explanation
Indices: 212181930--212181999 Score: 59
Period size: 25 Copynumber: 2.8 Consensus size: 24
212181920 AAAGAAAATA
212181930 AAATAAAAAGTACTTTAAGAAATAAT
1 AAATAAAAAGT-CTTTAA-AAATAAT
* * ***
212181956 AAAGATAAAGTGAAATAAAAATAAT
1 AAATAAAAAGT-CTTTAAAAATAAT
212181981 AAATAAAAAGTCTCTTAAA
1 AAATAAAAAGTCT-TTAAA
212182000 CATCGTCATC
Statistics
Matches: 32, Mismatches: 11, Indels: 3
0.70 0.24 0.07
Matches are distributed among these distances:
25 20 0.62
26 12 0.38
ACGTcount: A:0.63, C:0.04, G:0.09, T:0.24
Consensus pattern (24 bp):
AAATAAAAAGTCTTTAAAAATAAT
Found at i:212184616 original size:40 final size:40
Alignment explanation
Indices: 212184561--212184699 Score: 278
Period size: 40 Copynumber: 3.5 Consensus size: 40
212184551 GGTCTTGGTC
212184561 GGTCTTAGCCCGGATATATCAACTCGCACGAATGCCTTCG
1 GGTCTTAGCCCGGATATATCAACTCGCACGAATGCCTTCG
212184601 GGTCTTAGCCCGGATATATCAACTCGCACGAATGCCTTCG
1 GGTCTTAGCCCGGATATATCAACTCGCACGAATGCCTTCG
212184641 GGTCTTAGCCCGGATATATCAACTCGCACGAATGCCTTCG
1 GGTCTTAGCCCGGATATATCAACTCGCACGAATGCCTTCG
212184681 GGTCTTAGCCCGGATATAT
1 GGTCTTAGCCCGGATATAT
212184700 TTCCAATGTT
Statistics
Matches: 99, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 99 1.00
ACGTcount: A:0.22, C:0.29, G:0.23, T:0.26
Consensus pattern (40 bp):
GGTCTTAGCCCGGATATATCAACTCGCACGAATGCCTTCG
Found at i:212192730 original size:40 final size:40
Alignment explanation
Indices: 212192622--212192871 Score: 385
Period size: 40 Copynumber: 6.2 Consensus size: 40
212192612 CGGGATTTAA
* * * * *
212192622 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
212192662 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
212192702 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
212192742 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
212192782 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
212192822 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
212192862 CCGGATATAT
1 CCGGATATAT
212192872 TTCCAATGTT
Statistics
Matches: 193, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
39 1 0.01
40 192 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:212204439 original size:28 final size:28
Alignment explanation
Indices: 212204374--212204474 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
212204364 ATAGTGAATC
*
212204374 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
212204403 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
212204431 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
212204461 CGCACACTTAGTGC
1 CGCACACTTAGTGC
212204475 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:212209907 original size:24 final size:24
Alignment explanation
Indices: 212209663--212209905 Score: 423
Period size: 24 Copynumber: 10.1 Consensus size: 24
212209653 GCAAAGACCA
212209663 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
212209687 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
*
212209711 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
212209735 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
212209759 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
*
212209783 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
212209807 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
212209831 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
212209855 TATGGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
* *
212209879 TATAGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
212209903 TAT
1 TAT
212209906 AGTCACATTC
Statistics
Matches: 213, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 213 1.00
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.36
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTTAC
Found at i:212213734 original size:40 final size:40
Alignment explanation
Indices: 212213679--212213768 Score: 153
Period size: 40 Copynumber: 2.2 Consensus size: 40
212213669 TATTCGAATG
*
212213679 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
212213719 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
212213759 ATATCTGGGC
1 ATATCCGGGC
212213769 AGTTGTGCTA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 47 1.00
ACGTcount: A:0.21, C:0.22, G:0.27, T:0.30
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:212213776 original size:26 final size:26
Alignment explanation
Indices: 212213740--212213789 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
212213730 AAGTCCCGAA
*
212213740 GGCATTTGTGCTATTGACTATATCTG
1 GGCAGTTGTGCTATTGACTATATCTG
212213766 GGCAGTTGTGCTATTGACTATATC
1 GGCAGTTGTGCTATTGACTATATC
212213790 CAGGCTAAGT
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:0.20, C:0.16, G:0.24, T:0.40
Consensus pattern (26 bp):
GGCAGTTGTGCTATTGACTATATCTG
Found at i:212213814 original size:66 final size:66
Alignment explanation
Indices: 212213705--212213834 Score: 224
Period size: 66 Copynumber: 2.0 Consensus size: 66
212213695 CCGAAGGCTT
* *
212213705 TTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTATATCTGGGCA
1 TTGTGCTAGTGACTATATCCAGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTATATCCGGGCA
212213770 G
66 G
* *
212213771 TTGTGCTATTGACTATATCCAGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACTATATCCGGGC
1 TTGTGCTAGTGACTATATCCAGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTATATCCGGGC
212213835 TAAGACCCGA
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
66 60 1.00
ACGTcount: A:0.21, C:0.21, G:0.25, T:0.33
Consensus pattern (66 bp):
TTGTGCTAGTGACTATATCCAGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTATATCCGGGCA
G
Found at i:212213826 original size:40 final size:39
Alignment explanation
Indices: 212213766--212213886 Score: 154
Period size: 40 Copynumber: 3.1 Consensus size: 39
212213756 ACTATATCTG
*
212213766 GGCAGTTGTGCTATTGACTATATCCAGGCTAAGTCCCGAA
1 GGCATTTGTGCTATTGACTATATCC-GGCTAAGTCCCGAA
* *
212213806 GGCTTTTGTGCTATTGACTATATCCGGGCTAAGACCCGAA
1 GGCATTTGTGCTATTGACTATATCC-GGCTAAGTCCCGAA
* * *
212213846 GGCATTTGTGCGAGTTG-CTATATCCGGCTAAATCTCGAA
1 GGCATTTGTGCTA-TTGACTATATCCGGCTAAGTCCCGAA
212213885 GG
1 GG
212213887 TACTTGGGTT
Statistics
Matches: 71, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
39 13 0.18
40 55 0.77
41 3 0.04
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.29
Consensus pattern (39 bp):
GGCATTTGTGCTATTGACTATATCCGGCTAAGTCCCGAA
Found at i:212213867 original size:106 final size:106
Alignment explanation
Indices: 212213679--212213869 Score: 330
Period size: 106 Copynumber: 1.8 Consensus size: 106
212213669 TATTCGAATG
* *
212213679 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCAGGCTAAGTCCCGAAGGCTTTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
*
212213744 TTTGTGCTATTGACTATATCTGGGCAGTTGTGCTATTGACT
66 TTTGTGCGATTGACTATATCTGGGCAGTTGTGCTATTGACT
*
212213785 ATATCCAGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACTATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCAGGCTAAGTCCCGAAGGCTTTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
212213850 TTTGTGCGAGTTG-CTATATC
66 TTTGTGCGA-TTGACTATATC
212213870 CGGCTAAATC
Statistics
Matches: 80, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
106 77 0.96
107 3 0.04
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.31
Consensus pattern (106 bp):
ATATCCAGGCTAAGTCCCGAAGGCTTTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
TTTGTGCGATTGACTATATCTGGGCAGTTGTGCTATTGACT
Found at i:212214138 original size:22 final size:22
Alignment explanation
Indices: 212214113--212214156 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
212214103 GAATATGCGT
*
212214113 ATATGAA-GCTATTCATTTAGTC
1 ATATGAACGCTATAC-TTTAGTC
212214135 ATATGAACGCTATACTTTAGTC
1 ATATGAACGCTATACTTTAGTC
212214157 GTAAATAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.39
Consensus pattern (22 bp):
ATATGAACGCTATACTTTAGTC
Found at i:212218895 original size:49 final size:48
Alignment explanation
Indices: 212218823--212219046 Score: 200
Period size: 49 Copynumber: 4.5 Consensus size: 48
212218813 CTGATACTCA
*
212218823 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCCAGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAACAAT-CAGTACACG
* * * *
212218872 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC-AACAATCAG-TACACG
* * * * * * *
212218922 TAGTAGCCTGCACTTAGTACTACATACGTGATCGAAGTCATTGAGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA--CAATCAGTACACG
* * * * *
212218973 TAGTAGCCTGCACTTAGTACTATACATGCGACTTAATAGTAT-GGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGAC-CAACA--ATCAGTACACG
212219023 TAG-AGCCTGCACTTAGTACTACAC
1 TAGTAGCCTGCACTTAGTACTACAC
212219047 GCGTGTACTC
Statistics
Matches: 142, Mismatches: 25, Indels: 16
0.78 0.14 0.09
Matches are distributed among these distances:
49 54 0.38
50 50 0.35
51 35 0.25
52 3 0.02
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.25
Consensus pattern (48 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAACAATCAGTACACG
Found at i:212226406 original size:51 final size:50
Alignment explanation
Indices: 212226219--212226410 Score: 199
Period size: 50 Copynumber: 3.8 Consensus size: 50
212226209 AGCCGAAGCT
* * * * * *
212226219 ATCTGATACGCATAGTAGCTTGCACTTAGTACTACACATGCGACC-AACA
1 ATCTAATACACATAGTAGCCTGCACTTAGTACTACACACGTGACCGAACC
*** * **
212226268 ATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTCACC
1 ATCTAATACACATAGTAGCCTGCACTTAGTACTACACACGTGACCGAACC
* * * *
212226318 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTC
1 ATCTAATACACATAGTAGCCTGCACTTAGTACTACACACGTGACCGAA-CC
*
212226369 AT-TAAGTACGCATAGTAGCCTGCACTTAGTACTACACACGTG
1 ATCTAA-TACACATAGTAGCCTGCACTTAGTACTACACACGTG
212226411 TACTCACAAT
Statistics
Matches: 122, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
49 38 0.31
50 47 0.39
51 37 0.30
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (50 bp):
ATCTAATACACATAGTAGCCTGCACTTAGTACTACACACGTGACCGAACC
Found at i:212233679 original size:49 final size:47
Alignment explanation
Indices: 212233607--212233877 Score: 243
Period size: 49 Copynumber: 5.6 Consensus size: 47
212233597 CTGATACGCA
* * *
212233607 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAAC-AT-TGGTACACG
* *
212233656 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCATCT-ATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAACAT-TGGTACACG
**
212233705 TAGTAGCCTGCACTTAGTACT--ACACGTGACTC-ACATCTAATACA-G
1 TAGTAGCCTGCACTTAGTACTACACACGTGAC-CAACAT-TGGTACACG
* * *
212233750 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTCATTGAGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA--CATTG-GTACACG
* * *
212233801 TAGTAGCCTGCACTTAGTACTACACATGCGACTTAACAGTATGGTACAC-
1 TAGTAGCCTGCACTTAGTACTACACACGTGAC-CAACA-T-TGGTACACG
212233850 --GTAGCCTGCACTTAGTACTACACACGTG
1 TAGTAGCCTGCACTTAGTACTACACACGTG
212233878 TACTCACAAT
Statistics
Matches: 191, Mismatches: 17, Indels: 30
0.80 0.07 0.13
Matches are distributed among these distances:
45 27 0.14
46 8 0.04
47 42 0.22
48 2 0.01
49 59 0.31
50 17 0.09
51 36 0.19
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.25
Consensus pattern (47 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAACATTGGTACACG
Found at i:212233874 original size:98 final size:94
Alignment explanation
Indices: 212233595--212233877 Score: 311
Period size: 98 Copynumber: 2.9 Consensus size: 94
212233585 AGCCGAAGCT
* *
212233595 ATCTGATACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCCGGTACACGTAGT
1 ATCT-ATACGCATAGTAGCCTGCACTTAGTACTACACATGCGACTAAC-ATCTGGTACAC---GT
**
212233660 AGCCTGCACTTAGTACTACACACGTGACCTCACC
61 AGCCTGCACTTAGTACTACACACGTGACCGAACC
* * * * ** *
212233694 ATCTATACACGTAGTAGCCTGCACTTAGTACTACAC--GTGACTCACATCTAATACAGTAGTAGC
1 ATCTATACGCATAGTAGCCTGCACTTAGTACTACACATGCGACTAACATCTGGTACA--CGTAGC
* *
212233757 CTGCACTTAGTACTACACACGTGATCGAAGTC
64 CTGCACTTAGTACTACACACGTGACCGAA-CC
*
212233789 AT-TGAGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACTTAACAGTATGGTACACGTA
1 ATCT-A-TACGCATAGTAGCCTGCACTTAGTACTACACATGCGAC-TAACA-TCTGGTACACGTA
212233853 GCCTGCACTTAGTACTACACACGTG
62 GCCTGCACTTAGTACTACACACGTG
212233878 TACTCACAAT
Statistics
Matches: 154, Mismatches: 21, Indels: 19
0.79 0.11 0.10
Matches are distributed among these distances:
94 32 0.21
95 11 0.07
96 35 0.23
98 62 0.40
99 8 0.05
100 6 0.04
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.25
Consensus pattern (94 bp):
ATCTATACGCATAGTAGCCTGCACTTAGTACTACACATGCGACTAACATCTGGTACACGTAGCCT
GCACTTAGTACTACACACGTGACCGAACC
Found at i:212235694 original size:28 final size:28
Alignment explanation
Indices: 212235653--212235721 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
212235643 TTTAAAACCC
*
212235653 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
212235680 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
212235708 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
212235722 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:212237548 original size:19 final size:18
Alignment explanation
Indices: 212237511--212237554 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
212237501 ATACATACAG
212237511 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
212237528 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
212237547 TACTAATT
1 TAATAATT
212237555 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Done.