Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 167 of 362
Found at i:54883845 original size:29 final size:29
Alignment explanation
Indices: 54883806--54883879 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
54883796 GTTGTGAGAT
* *
54883806 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
* *
54883835 TGGTACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
54883864 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
54883880 TGGTTGATTA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
28 5 0.13
29 34 0.87
ACGTcount: A:0.26, C:0.15, G:0.32, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:54884238 original size:40 final size:40
Alignment explanation
Indices: 54884190--54884372 Score: 251
Period size: 40 Copynumber: 4.6 Consensus size: 40
54884180 TCGAATGATG
*
54884190 TCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
*
54884230 TCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
54884270 TCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
*** * * *
54884310 TCCGTG-CTAAACCCCAAAGAGCATTCGTGCTGGTGTTATA
1 TCCG-GACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
* * *
54884350 TCCGGGCTAGGTCCCGAAGAGCA
1 TCCGGACTAAGTTCCGAAGAGCA
54884373 ATCATTCGGC
Statistics
Matches: 130, Mismatches: 11, Indels: 4
0.90 0.08 0.03
Matches are distributed among these distances:
39 1 0.01
40 128 0.98
41 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
Found at i:54887057 original size:42 final size:42
Alignment explanation
Indices: 54886947--54887106 Score: 164
Period size: 42 Copynumber: 3.8 Consensus size: 42
54886937 TATACCAATT
* ** *
54886947 CCATAT-CCAGATATGG-CTTTACATGTGATCTCGTATCGATG
1 CCATATCCCAGATATGGTC-TTACACGAAATCTCATATCGATG
* *
54886988 CCA-ATCGCCTAGTTATGGTCTTACACGAAGTCTCATATCGATG
1 CCATATC-CC-AGATATGGTCTTACACGAAATCTCATATCGATG
* **
54887031 CCATATCCCAGATATCGTCTTACACGAAATCTCATATAAATG
1 CCATATCCCAGATATGGTCTTACACGAAATCTCATATCGATG
* * *
54887073 CCATATCCTAGATATGGTTTTACATGAAATCTCA
1 CCATATCCCAGATATGGTCTTACACGAAATCTCA
54887107 GTAACCTTAA
Statistics
Matches: 99, Mismatches: 15, Indels: 9
0.80 0.12 0.07
Matches are distributed among these distances:
40 2 0.02
41 3 0.03
42 60 0.61
43 30 0.30
44 4 0.04
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (42 bp):
CCATATCCCAGATATGGTCTTACACGAAATCTCATATCGATG
Found at i:54893577 original size:42 final size:42
Alignment explanation
Indices: 54893498--54893617 Score: 132
Period size: 42 Copynumber: 2.8 Consensus size: 42
54893488 TCTAGTATCA
* * * * *
54893498 ATGCCAATAGCCCAGCTATGGTTTTACACGAAGTCTCACATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGAAATCTCACATAG
* * * *
54893541 ATGGCATATCCTAGATATGGTCTTAAACGAAATCTCATATAG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCACATAG
* *
54893583 ATGCCATATCCCAGATGTGGTCTTACACGTAATCT
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCT
54893618 TAGTAACCCT
Statistics
Matches: 63, Mismatches: 14, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
42 59 0.94
43 4 0.06
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.29
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAATCTCACATAG
Found at i:54899192 original size:24 final size:24
Alignment explanation
Indices: 54899160--54899206 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
54899150 TGGTACCAAG
54899160 GTAAGTTCATGTGTAAATAATGTT
1 GTAAGTTCATGTGTAAATAATGTT
54899184 GTAAGTTCATGTGTAAATAATGT
1 GTAAGTTCATGTGTAAATAATGT
54899207 AGCATAATTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.34, C:0.04, G:0.21, T:0.40
Consensus pattern (24 bp):
GTAAGTTCATGTGTAAATAATGTT
Found at i:54902829 original size:12 final size:11
Alignment explanation
Indices: 54902798--54902831 Score: 59
Period size: 11 Copynumber: 3.0 Consensus size: 11
54902788 TAATTAATAC
54902798 AAGAAGTTGAA
1 AAGAAGTTGAA
54902809 AAGAAGTTGAA
1 AAGAAGTTGAA
54902820 AAGAAAGTTGAA
1 AAG-AAGTTGAA
54902832 TCAGTGCCGG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 14 0.64
12 8 0.36
ACGTcount: A:0.56, C:0.00, G:0.26, T:0.18
Consensus pattern (11 bp):
AAGAAGTTGAA
Found at i:54906594 original size:45 final size:46
Alignment explanation
Indices: 54906535--54906705 Score: 190
Period size: 45 Copynumber: 3.7 Consensus size: 46
54906525 TGGTTGAGCA
*
54906535 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
54906581 TCCG-ACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
54906627 TCCGAACTCGTTGAGTTGA-TCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
54906672 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
54906706 GGGCGGTTAC
Statistics
Matches: 103, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 6 0.06
44 3 0.03
45 42 0.41
46 30 0.29
47 17 0.17
49 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:54906689 original size:92 final size:92
Alignment explanation
Indices: 54906532--54906700 Score: 286
Period size: 92 Copynumber: 1.8 Consensus size: 92
54906522 GGATGGTTGA
* *
54906532 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGACTCGTTGAGTT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGACTCGTTGAGTT
54906597 GAGTCCGAGTTCGTGAGATGTAACTAG
66 GAGTCCGAGTTCGTGAGATGTAACTAG
* *
54906624 GCATCCGAACTCGTTGAGTTGA-TCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGA-CTCGTTGAGT
54906688 TGAGTCCGAGTTC
65 TGAGTCCGAGTTC
54906701 ACTTAGGGCG
Statistics
Matches: 72, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
91 27 0.38
92 45 0.62
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.29
Consensus pattern (92 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGACTCGTTGAGTT
GAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:54987942 original size:30 final size:31
Alignment explanation
Indices: 54987896--54987956 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
54987886 ATCCCGAGCC
54987896 TAGGGGCAAAAATGTAAATATG-CAAAATTT
1 TAGGGGCAAAAATGTAAATATGCCAAAATTT
* * * *
54987926 TAGGGGTAAAATTGTAATTTTGCCAAAATTT
1 TAGGGGCAAAAATGTAAATATGCCAAAATTT
54987957 GAGTTAAGGA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 18 0.69
31 8 0.31
ACGTcount: A:0.41, C:0.07, G:0.20, T:0.33
Consensus pattern (31 bp):
TAGGGGCAAAAATGTAAATATGCCAAAATTT
Found at i:54988425 original size:46 final size:45
Alignment explanation
Indices: 54988375--54988643 Score: 271
Period size: 46 Copynumber: 5.8 Consensus size: 45
54988365 TGGTTGAGCA
54988375 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* * *
54988421 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAA-T--G
54988466 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* * * *
54988514 TCCGAACTCGTTGAGTTGAGTCCTAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAA-T--G
* *
54988559 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATTGATGTGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* * *
54988607 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
54988644 GCGGGTTACA
Statistics
Matches: 186, Mismatches: 19, Indels: 36
0.77 0.08 0.15
Matches are distributed among these distances:
42 4 0.02
43 10 0.05
45 6 0.03
46 90 0.48
47 57 0.31
48 6 0.03
50 9 0.05
51 4 0.02
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAATG
Found at i:54988531 original size:93 final size:93
Alignment explanation
Indices: 54988372--54988636 Score: 476
Period size: 93 Copynumber: 2.8 Consensus size: 93
54988362 GGATGGTTGA
54988372 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
54988437 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
54988465 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
*
54988530 TGAGTCCTAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * * *
54988558 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATTGATGTGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
54988623 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
54988637 CTTATGGGCG
Statistics
Matches: 165, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 165 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:54991241 original size:16 final size:16
Alignment explanation
Indices: 54991222--54991253 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
54991212 AATTGTTTTA
54991222 TTACAAAATTTCACTT
1 TTACAAAATTTCACTT
*
54991238 TTACATAATTTCACTT
1 TTACAAAATTTCACTT
54991254 ACGCCACTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.19, G:0.00, T:0.47
Consensus pattern (16 bp):
TTACAAAATTTCACTT
Found at i:54991658 original size:22 final size:22
Alignment explanation
Indices: 54991612--54991663 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
54991602 ATCTGCAAAA
*
54991612 TTTCTGTGAATTAATTTGCCTG
1 TTTCTGTGAATTAATTTGCCAG
* *
54991634 TTTCTGTGATTTAATTTGTCAG
1 TTTCTGTGAATTAATTTGCCAG
*
54991656 TTTTTGTG
1 TTTCTGTG
54991664 CTTAATTATG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.15, C:0.10, G:0.19, T:0.56
Consensus pattern (22 bp):
TTTCTGTGAATTAATTTGCCAG
Found at i:54992840 original size:42 final size:43
Alignment explanation
Indices: 54992765--54992874 Score: 118
Period size: 42 Copynumber: 2.6 Consensus size: 43
54992755 CGATTGAGAT
* *
54992765 TTACATATAAGACCATGTCTGGGACATCAGCATC-GTATCTG-A
1 TTACGTATAAGACCATGTCTGGGACATCAGCATCAATAT-TGAA
* * *
54992807 TTCCGTATAAGACCTTGTCTGGGACA-GAGGCATCAATATTGAA
1 TTACGTATAAGACCATGTCTGGGACATCA-GCATCAATATTGAA
* *
54992850 TTACGTATAAGACCACGTTTGGGAC
1 TTACGTATAAGACCATGTCTGGGAC
54992875 GTCGGTATTG
Statistics
Matches: 56, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
41 1 0.02
42 30 0.54
43 25 0.45
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (43 bp):
TTACGTATAAGACCATGTCTGGGACATCAGCATCAATATTGAA
Found at i:54995223 original size:39 final size:39
Alignment explanation
Indices: 54995137--54995315 Score: 123
Period size: 39 Copynumber: 4.6 Consensus size: 39
54995127 ACTTGAAACC
* * * *
54995137 AATTACCAGCAC-AAGCCTGTGGGAATTTAAACCCGG-TAT
1 AATT-CCAGCACGAAGCCTG-CGGAACTTAAGCCCGGACAT
* * * *
54995176 AATACCAGCTCGAAGCCTGTGGAACTTTAGCCCGGACAT
1 AATTCCAGCACGAAGCCTGCGGAACTTAAGCCCGGACAT
* * * * *
54995215 ATTTCCAGCACGTAGCCTGCGGACCTTAAGTCCGGATAT
1 AATTCCAGCACGAAGCCTGCGGAACTTAAGCCCGGACAT
* * * * *
54995254 AATTCCAGCAC-ATAGCTTGCGGACCCTAAGTCCGGATAT
1 AATTCCAGCACGA-AGCCTGCGGAACTTAAGCCCGGACAT
*
54995293 AATTCTAGCAC-ATAGCCTGCGGA
1 AATTCCAGCACGA-AGCCTGCGGA
54995316 CCCTAAGTCC
Statistics
Matches: 115, Mismatches: 22, Indels: 6
0.80 0.15 0.04
Matches are distributed among these distances:
38 18 0.16
39 97 0.84
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (39 bp):
AATTCCAGCACGAAGCCTGCGGAACTTAAGCCCGGACAT
Found at i:54995262 original size:78 final size:78
Alignment explanation
Indices: 54995169--54995332 Score: 188
Period size: 78 Copynumber: 2.1 Consensus size: 78
54995159 GAATTTAAAC
* * * * * *
54995169 CCGG-TATAATACCAGCTCGA-AGCCTGTGGAACTTTAGCCCGGACATATTTCCAGCACGTAGCC
1 CCGGATATAATACCAGCAC-ATAGCCTGCGGAACCTAAGCCCGGACATAATTCCAGCACATAGCC
*
54995232 TGCGGACCTTAAGT
65 TGCGGACCCTAAGT
* * * * * *
54995246 CCGGATATAATTCCAGCACATAGCTTGCGGACCCTAAGTCCGGATATAATTCTAGCACATAGCCT
1 CCGGATATAATACCAGCACATAGCCTGCGGAACCTAAGCCCGGACATAATTCCAGCACATAGCCT
54995311 GCGGACCCTAAGT
66 GCGGACCCTAAGT
54995324 CCGGATATA
1 CCGGATATA
54995333 CATCACTGAA
Statistics
Matches: 72, Mismatches: 13, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
77 5 0.07
78 67 0.93
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (78 bp):
CCGGATATAATACCAGCACATAGCCTGCGGAACCTAAGCCCGGACATAATTCCAGCACATAGCCT
GCGGACCCTAAGT
Found at i:54995316 original size:39 final size:39
Alignment explanation
Indices: 54995207--54995332 Score: 198
Period size: 39 Copynumber: 3.2 Consensus size: 39
54995197 GAACTTTAGC
* * * *
54995207 CCGGACATATTTCCAGCACGTAGCCTGCGGACCTTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
*
54995246 CCGGATATAATTCCAGCACATAGCTTGCGGACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
*
54995285 CCGGATATAATTCTAGCACATAGCCTGCGGACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
54995324 CCGGATATA
1 CCGGATATA
54995333 CATCACTGAA
Statistics
Matches: 80, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 80 1.00
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (39 bp):
CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
Found at i:55011681 original size:47 final size:47
Alignment explanation
Indices: 55011628--55011866 Score: 397
Period size: 47 Copynumber: 5.1 Consensus size: 47
55011618 TTAGGATTTT
55011628 AATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCC
55011675 AATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCC
*
55011722 AATGTGATGAATGTGAACATGCGTATGTGCGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCC
* * *
55011769 AATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCC
** * * *
55011816 AATGTGATGAATGTGAACATGTATATATGTGGTAAGGCCGAATGGCT
1 AATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCC
55011863 AATG
1 AATG
55011867 CGAAATGTGT
Statistics
Matches: 184, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 184 1.00
ACGTcount: A:0.32, C:0.12, G:0.31, T:0.26
Consensus pattern (47 bp):
AATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCC
Found at i:55011905 original size:94 final size:93
Alignment explanation
Indices: 55011628--55011913 Score: 315
Period size: 94 Copynumber: 3.0 Consensus size: 93
55011618 TTAGGATTTT
* * * *
55011628 AATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAC
1 AATGTGATGAATGTGAACATGCATATATGCGATAAGGCCGAATGGCCAATGCGA-GAATGTGAAC
* * *
55011693 ATGC-GTATGTGTGATAAGGCCGAATGGCC
65 ATGCAG-ATATGAGATAAAGCCGAATGGCC
* * *
55011722 AATGTGATGAATGTGAACATGCGTATGTGCGATAAGGCCGAATGGCCAATGTGATGAATGTGAAC
1 AATGTGATGAATGTGAACATGCATATATGCGATAAGGCCGAATGGCCAATGCGA-GAATGTGAAC
* *
55011787 ATGCATATATGAGATAAGGCCGAATGGCC
65 ATGCAGATATGAGATAAAGCCGAATGGCC
* * * * **
55011816 AATGTGATGAATGTGAACATGTATATATGTGGTAAGGCCGAATGGCTAATGCGA-AATGTGTATG
1 AATGTGATGAATGTGAACATGCATATATGCGATAAGGCCGAATGGCCAATGCGAGAATGTG-AAC
** * *
55011880 ATTTTAGATATGAGATAAAGTCGAATGGCT
65 A-TGCAGATATGAGATAAAGCCGAATGGCC
55011910 AATG
1 AATG
55011914 CGAAACGTGT
Statistics
Matches: 170, Mismatches: 19, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
92 6 0.04
93 2 0.01
94 162 0.95
ACGTcount: A:0.33, C:0.11, G:0.30, T:0.27
Consensus pattern (93 bp):
AATGTGATGAATGTGAACATGCATATATGCGATAAGGCCGAATGGCCAATGCGAGAATGTGAACA
TGCAGATATGAGATAAAGCCGAATGGCC
Found at i:55011955 original size:46 final size:46
Alignment explanation
Indices: 55011840--55011977 Score: 150
Period size: 46 Copynumber: 3.0 Consensus size: 46
55011830 GAACATGTAT
* ** *
55011840 ATATGTGGTAAGGCCGAATGGCTAATGCGAAATGTGTATGATTTTAG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGA-GATGG
* * * *
55011887 ATATGAGATAAAGTCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* * * * *
55011933 ATATGTGGTAAACCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATG
55011978 TGTATATATA
Statistics
Matches: 74, Mismatches: 17, Indels: 1
0.80 0.18 0.01
Matches are distributed among these distances:
46 38 0.51
47 36 0.49
ACGTcount: A:0.34, C:0.09, G:0.29, T:0.28
Consensus pattern (46 bp):
ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
Found at i:55013519 original size:40 final size:40
Alignment explanation
Indices: 55013464--55013791 Score: 494
Period size: 40 Copynumber: 8.2 Consensus size: 40
55013454 GAGAATTGAG
* * *
55013464 AGTGATATACCCGGGCTAAGTCCCGAAGAGCATTCATGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
55013504 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
55013544 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
55013584 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
55013624 AGTGATGTATTCGGGCTAAGTCCCAAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
55013664 AGTGAAGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * **
55013704 AGTGATATATCCGTGCTAAACCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * * * *
55013744 GGTGTTATATCCGGGCTAGGTCCCGAAGAGCAATCATGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
55013784 GGTGATGT
1 AGTGATGT
55013792 GTATTCGGGC
Statistics
Matches: 263, Mismatches: 25, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 263 1.00
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:55017951 original size:47 final size:47
Alignment explanation
Indices: 55017898--55018042 Score: 245
Period size: 47 Copynumber: 3.1 Consensus size: 47
55017888 TTAGGATTTT
55017898 AATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCC
55017945 AATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCC
** * * *
55017992 AATGTGATGAATGTGAACATGTATATATGTGGTAAGGCCGAATGGCT
1 AATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCC
55018039 AATG
1 AATG
55018043 CGAAATGTGT
Statistics
Matches: 93, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 93 1.00
ACGTcount: A:0.31, C:0.11, G:0.31, T:0.27
Consensus pattern (47 bp):
AATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCC
Found at i:55018152 original size:46 final size:46
Alignment explanation
Indices: 55018016--55018152 Score: 175
Period size: 46 Copynumber: 3.0 Consensus size: 46
55018006 GAACATGTAT
* * ** *
55018016 ATATGTGGTAAGGCCGAATGGCTAATGCGAAATGTGTATGATTTAG
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATGG
* * *
55018062 ATATGAGATAAAGCCGAATGGCTAATGTGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATGG
* * *
55018108 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATG
55018153 TGTATATATA
Statistics
Matches: 77, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
46 77 1.00
ACGTcount: A:0.34, C:0.08, G:0.30, T:0.28
Consensus pattern (46 bp):
ATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATGG
Found at i:55021137 original size:39 final size:39
Alignment explanation
Indices: 55021054--55021147 Score: 102
Period size: 39 Copynumber: 2.4 Consensus size: 39
55021044 TGAAACCAAT
*
55021054 TACCAGCAC-AAGCCTGTGGGAATTTAAACCCGGTATAA
1 TACCAGCACGAAGCCTGTGGGAATTTAAACCCGGCATAA
* * * *
55021092 TACCAGCTCGAAGCCTGTGGGACTTT-AGCCCGGACATAT
1 TACCAGCACGAAGCCTGTGGGAATTTAAACCCGG-CATAA
* *
55021131 TTCCAGCACGTAGCCTG
1 TACCAGCACGAAGCCTG
55021148 CAGACCTTAA
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
38 14 0.30
39 32 0.70
ACGTcount: A:0.27, C:0.28, G:0.23, T:0.22
Consensus pattern (39 bp):
TACCAGCACGAAGCCTGTGGGAATTTAAACCCGGCATAA
Found at i:55021174 original size:39 final size:39
Alignment explanation
Indices: 55021121--55021246 Score: 189
Period size: 39 Copynumber: 3.2 Consensus size: 39
55021111 GGACTTTAGC
* * * * *
55021121 CCGGACATATTTCCAGCACGTAGCCTGCAGACCTTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
*
55021160 CCGAATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
*
55021199 CCGGATATAATTCCAGTACATAGCCTGCGGACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
55021238 CCGGATATA
1 CCGGATATA
55021247 CATCACTGAA
Statistics
Matches: 79, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 79 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (39 bp):
CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
Found at i:55029200 original size:50 final size:50
Alignment explanation
Indices: 55029136--55029368 Score: 208
Period size: 50 Copynumber: 4.7 Consensus size: 50
55029126 ATCAATCTGG
* * *
55029136 TACATATAGTAGCCTACACATAGTACTACACACGTGACTTAACCATCTAA
1 TACACATAGTAGCCTGCACTTAGTACTACACACGTGACTTAACCATCTAA
* *
55029186 TACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-TCAA--AGT-TAA
1 TACACATAGTAGCCTGCACTTAGTACTACACACGTGACTTAACCA-TCTAA
* * * * ** * * *
55029233 CGGGTACGCATAGTAGCCTGCAGTTCA--ACTACCCATGTGACCGATCAATCTAG
1 ----TACACATAGTAGCCTGCACTT-AGTACTACACACGTGACTTAACCATCTAA
* *
55029286 TACACATAGTAGCCTGCACTTAGTACTATACACGTGACTTAACCATCTGA
1 TACACATAGTAGCCTGCACTTAGTACTACACACGTGACTTAACCATCTAA
* *
55029336 TACACGTAGTAGCCTACACTTAGTACTACACAC
1 TACACATAGTAGCCTGCACTTAGTACTACACAC
55029369 ACGATCGAAG
Statistics
Matches: 143, Mismatches: 28, Indels: 24
0.73 0.14 0.12
Matches are distributed among these distances:
47 4 0.03
48 2 0.01
49 22 0.15
50 91 0.64
51 19 0.13
52 2 0.01
53 3 0.02
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.25
Consensus pattern (50 bp):
TACACATAGTAGCCTGCACTTAGTACTACACACGTGACTTAACCATCTAA
Found at i:55029364 original size:100 final size:101
Alignment explanation
Indices: 55029136--55029418 Score: 234
Period size: 100 Copynumber: 2.8 Consensus size: 101
55029126 ATCAATCTGG
* * ** * *
55029136 TACATATAGTAGCCTACACATAGTACTACACACGTGACTTAACCATCTAATACACGTAGTAGCCT
1 TACACATAGTAGCCTACACTTAGTACTACACACGTGACCGAACAATCTAATACACATAGTAGCCT
** *
55029201 GCACTTAGTACTACACACGTGATCAAAGTTAACGGG
66 GCACTTAGTACTACACACGTGATCAAAGCCAACGGA
* * * * * * *
55029237 TACGCATAGTAGCCTGCAGTTCA--ACTACCCATGTGACCGATCAATCTAGTACACATAGTAGCC
1 TACACATAGTAGCCTACACTT-AGTACTACACACGTGACCGAACAATCTAATACACATAGTAGCC
* * * *
55029300 TGCACTTAGTACTATACACGTGA-CTTAA-CCATCTGA
65 TGCACTTAGTACTACACACGTGATC-AAAGCCAACGGA
* ** * * *** *
55029336 TACACGTAGTAGCCTACACTTAGTACTACACACACGATCGAAGTTAA-CGGGTACGCATAGTAGC
1 TACACATAGTAGCCTACACTTAGTACTACACACGTGACCGAA--CAATCTAATACACATAGTAGC
55029400 CTGCACTTAGTACTACACA
64 CTGCACTTAGTACTACACA
55029419 TGCGACCTAT
Statistics
Matches: 141, Mismatches: 35, Indels: 12
0.75 0.19 0.06
Matches are distributed among these distances:
98 1 0.01
99 21 0.15
100 68 0.48
101 48 0.34
102 3 0.02
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.25
Consensus pattern (101 bp):
TACACATAGTAGCCTACACTTAGTACTACACACGTGACCGAACAATCTAATACACATAGTAGCCT
GCACTTAGTACTACACACGTGATCAAAGCCAACGGA
Found at i:55029397 original size:150 final size:150
Alignment explanation
Indices: 55029112--55029475 Score: 525
Period size: 150 Copynumber: 2.4 Consensus size: 150
55029102 ATAGGTGTGT
* * *
55029112 TACACATGCGACCTATCAATCTGGTACATATAGTAGCCTACACATAGTACTACACACGTGACTTA
1 TACACATGCGACCTATCAATCTAGTACACATAGTAGCCTACACTTAGTACTACACACGTGACTTA
* **
55029177 ACCATCTAATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCAAAGTTAACGGGTACGC
66 ACCATCTAATACACGTAGTAGCCTACACTTAGTACTACACACACGATCAAAGTTAACGGGTACGC
*
55029242 ATAGTAGCCTGCAGTTCA-AC
131 ATAGTAGCCTGCACTT-AGAC
* * * * *
55029262 TACCCATGTGACCGATCAATCTAGTACACATAGTAGCCTGCACTTAGTACTATACACGTGACTTA
1 TACACATGCGACCTATCAATCTAGTACACATAGTAGCCTACACTTAGTACTACACACGTGACTTA
* *
55029327 ACCATCTGATACACGTAGTAGCCTACACTTAGTACTACACACACGATCGAAGTTAACGGGTACGC
66 ACCATCTAATACACGTAGTAGCCTACACTTAGTACTACACACACGATCAAAGTTAACGGGTACGC
55029392 ATAGTAGCCTGCACTTAGTAC
131 ATAGTAGCCTGCACTTAG-AC
* * * *
55029413 TACACATGCGACCTATCAAT-TTGGAGCACGTAGTAGCCTTCACTTAGTACTACACACGTGACT
1 TACACATGCGACCTATCAATCTAGTA-CACATAGTAGCCTACACTTAGTACTACACACGTGACT
55029476 CACAATGGAT
Statistics
Matches: 189, Mismatches: 22, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
149 1 0.01
150 135 0.71
151 53 0.28
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.25
Consensus pattern (150 bp):
TACACATGCGACCTATCAATCTAGTACACATAGTAGCCTACACTTAGTACTACACACGTGACTTA
ACCATCTAATACACGTAGTAGCCTACACTTAGTACTACACACACGATCAAAGTTAACGGGTACGC
ATAGTAGCCTGCACTTAGAC
Found at i:55029413 original size:101 final size:101
Alignment explanation
Indices: 55029285--55029469 Score: 264
Period size: 101 Copynumber: 1.8 Consensus size: 101
55029275 GATCAATCTA
* * * *
55029285 GTACACATAGTAGCCTGCACTTAGTACTATACACGTGACTTAACCATCT-GATACACGTAGTAGC
1 GTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCTAACAATCTGGA-ACACGTAGTAGC
55029349 CTACACTTAGTACTACACACACGATCGAAGTTAACGG
65 CTACACTTAGTACTACACACACGATCGAAGTTAACGG
* * * * *
55029386 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATTTGGAGCACGTAGTAGCC
1 GTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCTAACAATCTGGAACACGTAGTAGCC
*
55029451 TTCACTTAGTACTACACAC
66 TACACTTAGTACTACACAC
55029470 GTGACTCACA
Statistics
Matches: 73, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
101 71 0.97
102 2 0.03
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.25
Consensus pattern (101 bp):
GTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCTAACAATCTGGAACACGTAGTAGCC
TACACTTAGTACTACACACACGATCGAAGTTAACGG
Found at i:55030132 original size:30 final size:30
Alignment explanation
Indices: 55030088--55030146 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
55030078 CAAAAATCAT
* * *
55030088 ACTTTTACAAATTTGCACTTTGACTCCTAA
1 ACTTTCACAAATTTGCACTATGACCCCTAA
*
55030118 ACTTTCACATATTTGCACTATGACCCCTA
1 ACTTTCACAAATTTGCACTATGACCCCTA
55030147 GGCTCGAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.29, C:0.27, G:0.07, T:0.37
Consensus pattern (30 bp):
ACTTTCACAAATTTGCACTATGACCCCTAA
Found at i:55032459 original size:15 final size:15
Alignment explanation
Indices: 55032439--55032476 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
55032429 TATTAAGAAG
55032439 TCCAAGAT-AGTGAAA
1 TCCAAGATAAG-GAAA
55032454 TCCAAGATAAGGAAA
1 TCCAAGATAAGGAAA
*
55032469 CCCAAGAT
1 TCCAAGAT
55032477 GCAATATCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 19 0.90
16 2 0.10
ACGTcount: A:0.47, C:0.18, G:0.18, T:0.16
Consensus pattern (15 bp):
TCCAAGATAAGGAAA
Found at i:55034472 original size:39 final size:40
Alignment explanation
Indices: 55034395--55034501 Score: 119
Period size: 40 Copynumber: 2.7 Consensus size: 40
55034385 TAGCTCCTCG
* * *
55034395 TTCAAGTGCCTTCGGGACATAGCCCGG-TTATAGTAACTCA
1 TTCAA-TGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
* *
55034435 TTCAATGCCTTCGGGACTTAACCCGGATTTTA-AAACTCG
1 TTCAATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
**
55034474 CACGAATGCCTTCGGGACTTAACCCGGA
1 TTC-AATGCCTTCGGGACTTAACCCGGA
55034502 ATTGGTATCT
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
39 25 0.43
40 33 0.57
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
TTCAATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
Found at i:55034541 original size:39 final size:40
Alignment explanation
Indices: 55034438--55034620 Score: 178
Period size: 40 Copynumber: 4.6 Consensus size: 40
55034428 TAACTCATTC
* *
55034438 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
** *
55034478 AATGCCTTCGGGACTTAACCCGGAATTGGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
55034518 AAGGCCTTC-GGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
* ** * * *
55034557 AATACCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
55034598 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
55034621 CAGCATTCAA
Statistics
Matches: 119, Mismatches: 18, Indels: 11
0.80 0.12 0.07
Matches are distributed among these distances:
39 41 0.34
40 67 0.56
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:55034604 original size:79 final size:80
Alignment explanation
Indices: 55034441--55034620 Score: 201
Period size: 79 Copynumber: 2.3 Consensus size: 80
55034431 CTCATTCAAT
* * * *
55034441 GCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGACTTAACCCGGAATTG
1 GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTCGGGACTTAACCCGGAATTA
*
55034506 GTATCTCGCACAAAG
66 GTATCTAGCACAAAG
**
55034521 GCCTTC-GGACTTAACCCGGA-ATTAATAACTCGCACAAATACCTTC-GGATCTTAGTCCGG-AT
1 GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATACCTTCGGGA-CTTAACCCGGAAT
55034582 ATAGTCA-CTTAGCACAAA-
64 -TAGT-ATC-TAGCACAAAG
*
55034600 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
55034621 CAGCATTCAA
Statistics
Matches: 86, Mismatches: 8, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
78 9 0.10
79 49 0.57
80 28 0.33
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTCGGGACTTAACCCGGAATTA
GTATCTAGCACAAAG
Found at i:55042350 original size:39 final size:40
Alignment explanation
Indices: 55042273--55042379 Score: 119
Period size: 40 Copynumber: 2.7 Consensus size: 40
55042263 TAGCTCCTCG
* * *
55042273 TTCAAGTGCCTTCGGGACATAGCCCGG-TTATAGTAACTCA
1 TTCAA-TGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
* *
55042313 TTCAATGCCTTCGGGACTTAACCCGGATTTTA-AAACTCG
1 TTCAATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
**
55042352 CACGAATGCCTTCGGGACTTAACCCGGA
1 TTC-AATGCCTTCGGGACTTAACCCGGA
55042380 ATTGTATCTC
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
39 25 0.43
40 33 0.57
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
TTCAATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
Found at i:55042378 original size:79 final size:78
Alignment explanation
Indices: 55042279--55042498 Score: 228
Period size: 79 Copynumber: 2.8 Consensus size: 78
55042269 CTCGTTCAAG
* ** * *
55042279 TGCCTTCGGGACATAGCCCGGTTATAGTAACTCATTCAATGCCTTCGGGACTTAACCCGGATTTT
1 TGCCTTCGGGACTTAGCCCGG-TATAGTAACTCACACAAAGCCTTCGGGACTTAACCCGGA-ATT
*
55042344 AA-AACTCGCACGAA
64 AATAACTCGCACAAA
* * * * *
55042358 TGCCTTCGGGACTTAACCCGGAATTGTATCTCGCACAAAGGCCTTCGGGACTTAACCCGGAATTA
1 TGCCTTCGGGACTTAGCCCGGTATAGTAACTCACACAAA-GCCTTCGGGACTTAACCCGGAATTA
55042423 ATAACTCGCACAAA
65 ATAACTCGCACAAA
* * * * *
55042437 TACCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 TGCCTTCGGGA-CTTAGCCCGG-TATAGTAACTCA-CACAAAGCCTTCGGGACTTAACCCGGA
55042499 CAGCATTCAA
Statistics
Matches: 115, Mismatches: 21, Indels: 9
0.79 0.14 0.06
Matches are distributed among these distances:
78 18 0.16
79 65 0.57
80 26 0.23
81 6 0.05
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (78 bp):
TGCCTTCGGGACTTAGCCCGGTATAGTAACTCACACAAAGCCTTCGGGACTTAACCCGGAATTAA
TAACTCGCACAAA
Found at i:55042458 original size:40 final size:40
Alignment explanation
Indices: 55042316--55042498 Score: 187
Period size: 40 Copynumber: 4.6 Consensus size: 40
55042306 TAACTCATTC
* *
55042316 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
55042356 AATGCCTTCGGGACTTAACCCGGAATT-GTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
55042395 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
* ** * * *
55042435 AATACCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
55042476 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
55042499 CAGCATTCAA
Statistics
Matches: 120, Mismatches: 16, Indels: 13
0.81 0.11 0.09
Matches are distributed among these distances:
39 41 0.34
40 68 0.57
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:55047079 original size:50 final size:50
Alignment explanation
Indices: 55046976--55047321 Score: 315
Period size: 50 Copynumber: 6.9 Consensus size: 50
55046966 ACCGAAGCTC
* * * * * * *
55046976 TCTGCTACGCATATTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACTTAACAA
* *
55047026 TCTGGTACACATAGTAGCCTGCAATTAGTACTACACACGTGACTTAACCA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACTTAACAA
* * * * * *
55047076 TCTGATACACGTAGTAGCCTGCACCTAGTACTACATACGTGA-TCAAAGTTAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACT-TAA--CAA
* * *
55047128 T-GGGTACGA-ATAATAGCCTGCACTTAGTACTACACACGTGACTTAACCA
1 TCTGGTAC-ACATAGTAGCCTGCACTTAGTACTACACACGTGACTTAACAA
* * ** * * *
55047177 TATGATACATGTAGTAGCCTGCACTTAGTACTACACACGCGA-TCGAAGTTAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACT-TAA--CAA
* * * * *
55047229 -CTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACTTAACAA
*
55047278 TCTCGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACT
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACT
55047322 CACAACGAAT
Statistics
Matches: 235, Mismatches: 49, Indels: 24
0.76 0.16 0.08
Matches are distributed among these distances:
49 7 0.03
50 153 0.65
51 70 0.30
52 5 0.02
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (50 bp):
TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACTTAACAA
Found at i:55047164 original size:101 final size:101
Alignment explanation
Indices: 55046990--55047319 Score: 400
Period size: 101 Copynumber: 3.3 Consensus size: 101
55046980 CTACGCATAT
* * ** * * *
55046990 TAGCCTGCACTTAGTACTACACATGCGA-CCTA-TCAATCTGGTAC-ACATAGTAGCCTGCAATT
1 TAGCCTGCACTTAGTACTACACACGTGATCAAAGTTAA-CTGGTACGA-ATAATAGCCTGCACTT
55047052 AGTACTACACACGTGACTTAACCATCTGATACACGTAG
64 AGTACTACACACGTGACTTAACCATCTGATACACGTAG
* *
55047090 TAGCCTGCACCTAGTACTACATACGTGATCAAAGTTAA-TGGGTACGAATAATAGCCTGCACTTA
1 TAGCCTGCACTTAGTACTACACACGTGATCAAAGTTAACT-GGTACGAATAATAGCCTGCACTTA
* *
55047154 GTACTACACACGTGACTTAACCATATGATACATGTAG
65 GTACTACACACGTGACTTAACCATCTGATACACGTAG
* * * *
55047191 TAGCCTGCACTTAGTACTACACACGCGATCGAAGTTAACTGGTACGCATAGTAGCCTGCACTTAG
1 TAGCCTGCACTTAGTACTACACACGTGATCAAAGTTAACTGGTACGAATAATAGCCTGCACTTAG
* * * * * *
55047256 TACTACACATGCGACCTATCAATCTCG-TACACATAG
66 TACTACACACGTGACTTAACCATCT-GATACACGTAG
55047292 TAGCCTGCACTTAGTACTACACACGTGA
1 TAGCCTGCACTTAGTACTACACACGTGA
55047320 CTCACAACGA
Statistics
Matches: 198, Mismatches: 26, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
100 25 0.13
101 167 0.84
102 6 0.03
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (101 bp):
TAGCCTGCACTTAGTACTACACACGTGATCAAAGTTAACTGGTACGAATAATAGCCTGCACTTAG
TACTACACACGTGACTTAACCATCTGATACACGTAG
Found at i:55047709 original size:19 final size:20
Alignment explanation
Indices: 55047669--55047715 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
55047659 AAGAACATGT
55047669 TATATCATCAAAATAATCACA
1 TATAT-ATCAAAATAATCACA
* *
55047690 TA-ATATCAAAATATTTACA
1 TATATATCAAAATAATCACA
55047709 TATATAT
1 TATATAT
55047716 ACTTACAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.51, C:0.13, G:0.00, T:0.36
Consensus pattern (20 bp):
TATATATCAAAATAATCACA
Found at i:55047980 original size:30 final size:30
Alignment explanation
Indices: 55047936--55047994 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
55047926 CAAAAGTCAT
* *
55047936 ACTTTTACAAATTTGCATTTTGACCCCTAA
1 ACTTTCACAAATTTGCACTTTGACCCCTAA
* *
55047966 ACTTTCACATATTTGCACTTTGCCCCCTA
1 ACTTTCACAAATTTGCACTTTGACCCCTA
55047995 GGCTCGAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.25, C:0.29, G:0.07, T:0.39
Consensus pattern (30 bp):
ACTTTCACAAATTTGCACTTTGACCCCTAA
Found at i:55050317 original size:15 final size:15
Alignment explanation
Indices: 55050306--55050342 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
55050296 TTAAGAAGTG
55050306 CAAGATAGAGAAATC
1 CAAGATAGAGAAATC
55050321 CAAGATA-AGGAAATC
1 CAAGATAGA-GAAATC
55050336 CAAGATA
1 CAAGATA
55050343 CAATATCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 1 0.05
15 20 0.95
ACGTcount: A:0.54, C:0.14, G:0.19, T:0.14
Consensus pattern (15 bp):
CAAGATAGAGAAATC
Found at i:55053985 original size:51 final size:50
Alignment explanation
Indices: 55053818--55054005 Score: 143
Period size: 51 Copynumber: 3.7 Consensus size: 50
55053808 AAAGCTTTCT
* * **
55053818 GGTACGCATAGTAGACTGCACTTAGTACT-ACACAAGTTATTGAAGTTAACG
1 GGTACGCATAGTAGCCTGCACTTAGTACTAACAC-A-TGATCAAAGTTAACG
* * ** * *
55053869 GGTATGCATAGTAGCCTGCACTTAGAACT-ACACATGCGA-CCTA-TCAATCT
1 GGTACGCATAGTAGCCTGCACTTAGTACTAACACAT--GATCAAAGTTAA-CG
* * * *
55053919 GATACACGTAGTAGCCAGCACTTAGTACTAGACACATGATCAAAGTTAACG
1 GGTACGCATAGTAGCCTGCACTTAGTACTA-ACACATGATCAAAGTTAACG
* *
55053970 GGTACGCATAGTAGCCTGCAGTTATTACT-ACACATG
1 GGTACGCATAGTAGCCTGCACTTAGTACTAACACATG
55054006 CTACCTATCA
Statistics
Matches: 105, Mismatches: 25, Indels: 16
0.72 0.17 0.11
Matches are distributed among these distances:
49 11 0.10
50 28 0.27
51 57 0.54
52 9 0.09
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (50 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTAACACATGATCAAAGTTAACG
Found at i:55054001 original size:101 final size:101
Alignment explanation
Indices: 55053860--55054047 Score: 295
Period size: 101 Copynumber: 1.9 Consensus size: 101
55053850 CAAGTTATTG
* *
55053860 AAGTTAACGGGTATGCATAGTAGCCTGCACTTAGAACTACACATGCGACCTATCAATCTGATACA
1 AAGTTAACGGGTACGCATAGTAGCCTGCACTTAGAACTACACATGCGACCTATCAATCAGATACA
*
55053925 CGTAGTAGCCAGCACTTAGTACTAGACACATGATCA
66 CGTAGTAACCAGCACTTAGTACTAGACACATGATCA
* ** * *
55053961 AAGTTAACGGGTACGCATAGTAGCCTGCAGTTATTACTACACATGCTACCTATCAATCAGGTACA
1 AAGTTAACGGGTACGCATAGTAGCCTGCACTTAGAACTACACATGCGACCTATCAATCAGATACA
*
55054026 CGTAGTAACCTGCACTTAGTAC
66 CGTAGTAACCAGCACTTAGTAC
55054048 CGCACACGTG
Statistics
Matches: 78, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
101 78 1.00
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.25
Consensus pattern (101 bp):
AAGTTAACGGGTACGCATAGTAGCCTGCACTTAGAACTACACATGCGACCTATCAATCAGATACA
CGTAGTAACCAGCACTTAGTACTAGACACATGATCA
Found at i:55054436 original size:19 final size:20
Alignment explanation
Indices: 55054408--55054454 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
55054398 AAGAACATGT
55054408 TATATCATCAAAATAATCACA
1 TATAT-ATCAAAATAATCACA
* *
55054429 TA-ATATCAAATTATTCACA
1 TATATATCAAAATAATCACA
55054448 TATATAT
1 TATATAT
55054455 ACTTACAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.36
Consensus pattern (20 bp):
TATATATCAAAATAATCACA
Found at i:55063944 original size:42 final size:43
Alignment explanation
Indices: 55063835--55063946 Score: 111
Period size: 43 Copynumber: 2.6 Consensus size: 43
55063825 TTAAGAAATT
* * * *
55063835 TGAGCTCGTTGAGCGGTCCTATTTCATGATATATGTGAGAATC
1 TGAGCTCGTTGAGTGGTCCAAGTTCATGATATATGAGAGAATC
** * * *
55063878 CAAACAT-GTTGAGTGGTACAAGTTCATGATATATGAG-GCATC
1 TGAGC-TCGTTGAGTGGTCCAAGTTCATGATATATGAGAGAATC
*
55063920 TGAGCTCGTTGAGTGGTCCGAGTTCAT
1 TGAGCTCGTTGAGTGGTCCAAGTTCAT
55063947 AATAGATGTG
Statistics
Matches: 53, Mismatches: 14, Indels: 5
0.74 0.19 0.07
Matches are distributed among these distances:
41 1 0.02
42 24 0.45
43 27 0.51
44 1 0.02
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.32
Consensus pattern (43 bp):
TGAGCTCGTTGAGTGGTCCAAGTTCATGATATATGAGAGAATC
Found at i:55063982 original size:51 final size:51
Alignment explanation
Indices: 55063916--55064015 Score: 137
Period size: 51 Copynumber: 2.0 Consensus size: 51
55063906 ATATATGAGG
* *
55063916 CATCTGAGCTCGTTGAGTGGTCCGAGTTCATAATAGATGTGATACATGTAA
1 CATCCGAGCTCGTTGAGAGGTCCGAGTTCATAATAGATGTGATACATGTAA
* * * * *
55063967 CATCCGAGCTTGTTGAGAGGTCCGATTTCATTATGGATGTGTTACATGT
1 CATCCGAGCTCGTTGAGAGGTCCGAGTTCATAATAGATGTGATACATGT
55064016 TATAAGGTAG
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
51 42 1.00
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.34
Consensus pattern (51 bp):
CATCCGAGCTCGTTGAGAGGTCCGAGTTCATAATAGATGTGATACATGTAA
Found at i:55065509 original size:42 final size:43
Alignment explanation
Indices: 55065397--55065497 Score: 132
Period size: 42 Copynumber: 2.4 Consensus size: 43
55065387 ATGTGATTAG
* * * ***
55065397 ATGTAAGACCATGTCTGGGACATTGGCATCGTTATATGATTTC
1 ATGTAAGACCATATCTGGGACAGTGGCATCGATATATGACAAC
*
55065440 ATGTAAGACC-TATCTGGGACAGTGGCATCGATATGTGACAAC
1 ATGTAAGACCATATCTGGGACAGTGGCATCGATATATGACAAC
55065482 ATGTAAGACCATATCT
1 ATGTAAGACCATATCT
55065498 AGGATATGGC
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
42 35 0.70
43 15 0.30
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.30
Consensus pattern (43 bp):
ATGTAAGACCATATCTGGGACAGTGGCATCGATATATGACAAC
Found at i:55066834 original size:23 final size:23
Alignment explanation
Indices: 55066805--55066851 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
55066795 TTTACTAAAG
55066805 TTTTTAAATGTTATCAGTTTAGT
1 TTTTTAAATGTTATCAGTTTAGT
55066828 TTTTTAAATGTTATCAGTTTAGT
1 TTTTTAAATGTTATCAGTTTAGT
55066851 T
1 T
55066852 CCGAGCCTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.26, C:0.04, G:0.13, T:0.57
Consensus pattern (23 bp):
TTTTTAAATGTTATCAGTTTAGT
Found at i:55068585 original size:43 final size:43
Alignment explanation
Indices: 55068537--55068642 Score: 133
Period size: 43 Copynumber: 2.5 Consensus size: 43
55068527 TTAACGAGTA
* * *
55068537 GTGATTATGTATAAGACCATGTTTGGGACATTGGCATCATTAT
1 GTGATTACGTATAAGACCATGTCTAGGACATTGGCATCATTAT
* *
55068580 GTGATTACGTGTAAGACCATGTCTAGGACATTGGCATCGTTAT
1 GTGATTACGTATAAGACCATGTCTAGGACATTGGCATCATTAT
* *
55068623 TTGATTTCG-AGTAAGACCAT
1 GTGATTACGTA-TAAGACCAT
55068643 AGCTGGGCTA
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
43 54 1.00
ACGTcount: A:0.27, C:0.14, G:0.24, T:0.35
Consensus pattern (43 bp):
GTGATTACGTATAAGACCATGTCTAGGACATTGGCATCATTAT
Found at i:55071895 original size:40 final size:40
Alignment explanation
Indices: 55071839--55072003 Score: 206
Period size: 40 Copynumber: 4.1 Consensus size: 40
55071829 TTGAATGATG
* * * * *
55071839 TCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTGATTTTA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
* *
55071879 TCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
*
55071919 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
* * **
55071959 ACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATA
55071999 TCCGG
1 TCCGG
55072004 TTAAATTAAG
Statistics
Matches: 108, Mismatches: 16, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
39 2 0.02
40 106 0.98
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
Found at i:55079874 original size:42 final size:42
Alignment explanation
Indices: 55079826--55079934 Score: 139
Period size: 43 Copynumber: 2.6 Consensus size: 42
55079816 GACTATGTGG
* * *
55079826 AAGACCATATCTGGGATATGGCATCTATATGAGA-CTTCGTGT
1 AAGACCATATCTGGGATATGGCATCGATATGAGATC-CCATGT
* *
55079868 AAGACCATAGCTGGGCTATTGGCATCGATATGAGATCCCATGT
1 AAGACCATATCTGGGATA-TGGCATCGATATGAGATCCCATGT
*
55079911 AAGACCATATTTGGGATATGGCAT
1 AAGACCATATCTGGGATATGGCAT
55079935 TGGTATGGTA
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
42 22 0.39
43 34 0.60
44 1 0.02
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.28
Consensus pattern (42 bp):
AAGACCATATCTGGGATATGGCATCGATATGAGATCCCATGT
Found at i:55084010 original size:43 final size:43
Alignment explanation
Indices: 55083945--55084027 Score: 139
Period size: 43 Copynumber: 1.9 Consensus size: 43
55083935 ACATGTAACA
** *
55083945 CATCCATAATGAACTCGGACCTCTCAACGAGCTCGGATGCTCG
1 CATCCATAATGAACTCAAACCTCTCAACGAGCTCAGATGCTCG
55083988 CATCCATAATGAACTCAAACCTCTCAACGAGCTCAGATGC
1 CATCCATAATGAACTCAAACCTCTCAACGAGCTCAGATGC
55084028 CACATATCTC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.30, C:0.33, G:0.17, T:0.20
Consensus pattern (43 bp):
CATCCATAATGAACTCAAACCTCTCAACGAGCTCAGATGCTCG
Found at i:55091637 original size:47 final size:47
Alignment explanation
Indices: 55091583--55091776 Score: 298
Period size: 47 Copynumber: 4.1 Consensus size: 47
55091573 TTAGGATTTT
** *
55091583 ATGTGATGAATGTGAATGTGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
55091630 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
55091677 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
55091724 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
55091771 ATGTGA
1 ATGTGA
55091777 AATATGTATG
Statistics
Matches: 134, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 134 1.00
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:55091683 original size:22 final size:22
Alignment explanation
Indices: 55091612--55091683 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
55091602 GCATATATGA
55091612 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
55091634 GATGAATG-TGAACAT-GCATATATGT
1 GAT-AAGGCCG-A-ATGGC-CA-ATGT
55091659 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
55091681 GAT
1 GAT
55091684 GAATGTGAGC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 11 0.30
23 9 0.24
24 9 0.24
25 8 0.22
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.24
Consensus pattern (22 bp):
GATAAGGCCGAATGGCCAATGT
Found at i:55091732 original size:25 final size:25
Alignment explanation
Indices: 55091657--55091732 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
55091647 ATGCATATAT
55091657 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
55091682 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
55091704 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
55091729 GTGA
1 GTGA
55091733 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:55091911 original size:98 final size:96
Alignment explanation
Indices: 55091747--55091930 Score: 287
Period size: 98 Copynumber: 1.9 Consensus size: 96
55091737 GAACATGCAT
* *
55091747 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAAATGTATATGTGGTAAAGTCGA
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGAAATGTATATGTGGTAAAGCCGA
55091812 ATGGCTAATGGGAAATATGTATGAGATATGC
66 ATGGCTAATGGGAAATATGTATGAGATATGC
* * *
55091843 ATATGTGGTAAAGCTGAATGGTTAATGTGAAATATATATATGAGATATGTATATGTGGTAAAGCC
1 ATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATATATGAGAAATGTATATGTGGTAAAGCC
* *
55091908 GAATGGCTAGTGTGAAATATGTA
64 GAATGGCTAATGGGAAATATGTA
55091931 GGCGATGTGC
Statistics
Matches: 79, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
96 27 0.34
97 2 0.03
98 50 0.63
ACGTcount: A:0.36, C:0.05, G:0.27, T:0.31
Consensus pattern (96 bp):
ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGAAATGTATATGTGGTAAAGCCGA
ATGGCTAATGGGAAATATGTATGAGATATGC
Found at i:55091946 original size:50 final size:48
Alignment explanation
Indices: 55091746--55091930 Score: 280
Period size: 48 Copynumber: 3.8 Consensus size: 48
55091736 TGAACATGCA
*
55091746 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAAATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* *
55091794 TATATGTGGTAAAGTCGAATGGCTAATGGGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* * * *
55091842 CATATGTGGTAAAGCTGAATGGTTAATGTGAAATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATGTATGAGATATG
*
55091892 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
55091931 GGCGATGTGC
Statistics
Matches: 121, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
48 76 0.63
49 4 0.03
50 41 0.34
ACGTcount: A:0.36, C:0.05, G:0.27, T:0.31
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
Found at i:55092221 original size:37 final size:37
Alignment explanation
Indices: 55092076--55092220 Score: 254
Period size: 37 Copynumber: 3.9 Consensus size: 37
55092066 GGAAATATAT
55092076 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
55092113 TCCGGGTTAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
55092150 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
55092187 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
55092221 TCGTCTGAGC
Statistics
Matches: 103, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 103 1.00
ACGTcount: A:0.23, C:0.19, G:0.32, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:55093774 original size:40 final size:40
Alignment explanation
Indices: 55093491--55093762 Score: 436
Period size: 40 Copynumber: 6.8 Consensus size: 40
55093481 GAGAATTGAG
*
55093491 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
55093531 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
55093571 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
55093611 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
55093651 AGTGATGTATCCGGACTAAGTCCCGAAGAGCACTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
55093691 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * * *
55093731 GGTGTTATATCTGGGCTAGGTCCCGAAGAGCA
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCA
55093763 ATCATGCTGG
Statistics
Matches: 218, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 218 1.00
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:55097763 original size:27 final size:27
Alignment explanation
Indices: 55097733--55097909 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
55097723 ATATTGAGTC
* * *
55097733 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
* *
55097760 CGCACACTTAGTGCTACGTAATCAA-T
1 CGCACACTTAGTGCTACATAGTCAACT
55097786 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
** * *
55097814 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
* **
55097841 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAACT
* *
55097868 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAACT
55097895 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
55097910 GTACAATTTA
Statistics
Matches: 129, Mismatches: 17, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
26 22 0.17
27 85 0.66
28 22 0.17
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:55097898 original size:81 final size:81
Alignment explanation
Indices: 55097754--55097908 Score: 233
Period size: 81 Copynumber: 1.9 Consensus size: 81
55097744 TGCTATATAA
* *
55097754 TCAACTCGCACACTTAGTGCTACGTAATCAATCGCACACTTAGTGCTACATAGTCAAACTCGCAC
1 TCAACTCGCACACTTAGTGCTACATAATCAATCGCACACTTAGTGCAACATAGTCAAACTCGCAC
55097819 ACTTAGTGCCGCATGG
66 ACTTAGTGCCGCATGG
* * *
55097835 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAA-TCGC
1 TCAACTCGCACACTTAGTGCTA-CATAATCA-ATCGCACACTTAGTGCAACATAGTCAAACTCGC
55097898 ACACTTAGTGC
64 ACACTTAGTGC
55097909 TGTACAATTT
Statistics
Matches: 67, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
80 1 0.01
81 40 0.60
82 26 0.39
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAATCGCACACTTAGTGCAACATAGTCAAACTCGCAC
ACTTAGTGCCGCATGG
Found at i:55105728 original size:27 final size:27
Alignment explanation
Indices: 55105698--55105875 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
55105688 ATATTGAGTC
* * * *
55105698 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
55105725 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
55105752 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
55105780 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
55105807 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
55105834 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
55105861 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
55105876 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:55105837 original size:82 final size:81
Alignment explanation
Indices: 55105719--55105874 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
55105709 TGCTATATAA
* *
55105719 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
55105784 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
55105801 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
55105865 CACTTAGTGC
65 CACTTAGTGC
55105875 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:55108839 original size:47 final size:47
Alignment explanation
Indices: 55108780--55108973 Score: 262
Period size: 47 Copynumber: 4.1 Consensus size: 47
55108770 TTAGGATTTT
** *
55108780 ATGTGATGAATGTGAATGTGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
55108827 ATGTAATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * **
55108874 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCTTATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * * *
55108921 ATGTGGTGATTATGAACATGCATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
55108968 ATGTGA
1 ATGTGA
55108974 AATATGTATG
Statistics
Matches: 127, Mismatches: 20, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
47 127 1.00
ACGTcount: A:0.32, C:0.11, G:0.28, T:0.28
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:55109001 original size:48 final size:52
Alignment explanation
Indices: 55108943--55109081 Score: 198
Period size: 52 Copynumber: 2.8 Consensus size: 52
55108933 TGAACATGCA
55108943 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTAT-GA-GA-A-ATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATAGATGATATATG
* * *
55108991 TATATGTGGTAAAGCTGAATGG-TCAATGTGAAATATATATATATGATATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTGAAATATGTATAGATGATATATG
*
55109043 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
55109082 GGCGATGTGC
Statistics
Matches: 79, Mismatches: 6, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
47 1 0.01
48 36 0.46
49 1 0.01
50 2 0.03
51 1 0.01
52 37 0.47
53 1 0.01
ACGTcount: A:0.37, C:0.06, G:0.25, T:0.32
Consensus pattern (52 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATAGATGATATATG
Found at i:55109053 original size:52 final size:48
Alignment explanation
Indices: 55108943--55109078 Score: 184
Period size: 48 Copynumber: 2.8 Consensus size: 48
55108933 TGAACATGCA
*
55108943 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAAATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGAAATG
* *
55108991 TATATGTGGTAAAGCTGAATGG-TCAATGTGAAATATATATATATGATATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTGAAATATATAT-GA-GA-A-ATG
*
55109043 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATAT
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATAT
55109079 GTAGGCGATG
Statistics
Matches: 77, Mismatches: 5, Indels: 8
0.86 0.06 0.09
Matches are distributed among these distances:
47 1 0.01
48 36 0.47
49 1 0.01
50 2 0.03
51 1 0.01
52 35 0.45
53 1 0.01
ACGTcount: A:0.37, C:0.06, G:0.25, T:0.32
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGAAATG
Found at i:55109280 original size:37 final size:36
Alignment explanation
Indices: 55109230--55109341 Score: 170
Period size: 37 Copynumber: 3.0 Consensus size: 36
55109220 AATATATTCC
55109230 GGGTAAGACCCGATGACTACGTGTGGAGATTATGTCT
1 GGGTAAGACCCGATGACTACGTGTGGAGATT-TGTCT
*
55109267 GGGTAAGACCCGATGACTACGTGTGGAGATTTTGTCC
1 GGGTAAGACCCGATGACTACGTGTGGAGA-TTTGTCT
* *
55109304 GGGTAAGACCCGATAACTTCGTGTGGAGAGTTTGTCT
1 GGGTAAGACCCGATGACTACGTGTGGAGA-TTTGTCT
55109341 G
1 G
55109342 AGCTAAAGGT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
37 67 0.97
38 2 0.03
ACGTcount: A:0.22, C:0.17, G:0.33, T:0.28
Consensus pattern (36 bp):
GGGTAAGACCCGATGACTACGTGTGGAGATTTGTCT
Found at i:55111072 original size:8 final size:8
Alignment explanation
Indices: 55111059--55111083 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
55111049 AAACAAAGTA
55111059 AGCTTTAT
1 AGCTTTAT
55111067 AGCTTTAT
1 AGCTTTAT
55111075 AGCTTTAT
1 AGCTTTAT
55111083 A
1 A
55111084 TCAACATGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.48
Consensus pattern (8 bp):
AGCTTTAT
Found at i:55123348 original size:29 final size:30
Alignment explanation
Indices: 55123292--55123350 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
55123282 TTCCCGAGCC
*
55123292 TAGGGGAAAAAGTTTAATTATGCAAAAGTT
1 TAGGGGAAAAAGTGTAATTATGCAAAAGTT
* * *
55123322 TAGGGGCAAAA-TGTAATTTTGCCAAAGTT
1 TAGGGGAAAAAGTGTAATTATGCAAAAGTT
55123351 CGTATTAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 15 0.60
30 10 0.40
ACGTcount: A:0.39, C:0.07, G:0.24, T:0.31
Consensus pattern (30 bp):
TAGGGGAAAAAGTGTAATTATGCAAAAGTT
Found at i:55126760 original size:17 final size:17
Alignment explanation
Indices: 55126734--55126766 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
55126724 TTTAGGATAA
55126734 ATTTTAATTGATATATG
1 ATTTTAATTGATATATG
*
55126751 ATTTTGATTGATATAT
1 ATTTTAATTGATATAT
55126767 CTTGAATTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.55
Consensus pattern (17 bp):
ATTTTAATTGATATATG
Found at i:55138297 original size:17 final size:17
Alignment explanation
Indices: 55138275--55138315 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
55138265 TTGTGAGCGC
55138275 CCACGCTACTGCCCACT
1 CCACGCTACTGCCCACT
* *
55138292 CCACGCTGCTGCCTACT
1 CCACGCTACTGCCCACT
55138309 CACACGC
1 C-CACGC
55138316 ACATCTGCGC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 16 0.76
18 5 0.24
ACGTcount: A:0.17, C:0.51, G:0.15, T:0.17
Consensus pattern (17 bp):
CCACGCTACTGCCCACT
Found at i:55138474 original size:8 final size:8
Alignment explanation
Indices: 55138450--55138489 Score: 53
Period size: 8 Copynumber: 4.8 Consensus size: 8
55138440 TCCCCTACAA
55138450 TTTTAATTT
1 TTTTAA-TT
55138459 TATTTAATT
1 T-TTTAATT
55138468 TTTTAATT
1 TTTTAATT
55138476 TTTTAATT
1 TTTTAATT
*
55138484 TATTAA
1 TTTTAA
55138490 ATTATTAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
8 20 0.69
9 4 0.14
10 5 0.17
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (8 bp):
TTTTAATT
Found at i:55140557 original size:12 final size:12
Alignment explanation
Indices: 55140540--55140565 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
55140530 ACATAATGAA
55140540 TTATAATTAATT
1 TTATAATTAATT
55140552 TTATAATTAATT
1 TTATAATTAATT
55140564 TT
1 TT
55140566 GGTTAATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
TTATAATTAATT
Found at i:55140557 original size:22 final size:23
Alignment explanation
Indices: 55140532--55140581 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 23
55140522 AATTATTAAC
55140532 ATAATGAATTATAATTAA-TTTT
1 ATAATGAATTATAATTAATTTTT
* * **
55140554 ATAATTAATTTTGGTTAATTTTT
1 ATAATGAATTATAATTAATTTTT
55140577 ATAAT
1 ATAAT
55140582 TTTTGACAGA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
22 14 0.61
23 9 0.39
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (23 bp):
ATAATGAATTATAATTAATTTTT
Found at i:55144377 original size:42 final size:40
Alignment explanation
Indices: 55144317--55144446 Score: 102
Period size: 39 Copynumber: 3.2 Consensus size: 40
55144307 AGGCCATGAG
* ** ** *
55144317 CCTAGCAGGCATAATGCCGGTGAATGAGTTTCAGACTTAATG
1 CCTAGCAGGCCTCGTGCCGGTGAAT-AAATTCAG-CTTAATA
* * * *
55144359 TCTAGCAGGCCTCGTGCCGATG-ATAAATTCAGGTTTATA
1 CCTAGCAGGCCTCGTGCCGGTGAATAAATTCAGCTTAATA
* * * *
55144398 CCTAGCAGGCCTCGTGCCGGTG-ATAAGTTTAGGTTATTA
1 CCTAGCAGGCCTCGTGCCGGTGAATAAATTCAGCTTAATA
55144437 CCTAGCAGGC
1 CCTAGCAGGC
55144447 TAATTGCCGG
Statistics
Matches: 72, Mismatches: 16, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
39 47 0.65
40 6 0.08
41 2 0.03
42 17 0.24
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.28
Consensus pattern (40 bp):
CCTAGCAGGCCTCGTGCCGGTGAATAAATTCAGCTTAATA
Found at i:55144410 original size:39 final size:39
Alignment explanation
Indices: 55144360--55144446 Score: 131
Period size: 39 Copynumber: 2.2 Consensus size: 39
55144350 GACTTAATGT
55144360 CTAGCAGGCCTCGTGCCGATGATAAATTCAGGTT-TATAC
1 CTAGCAGGCCTCGTGCCGATGATAAATTCAGGTTAT-TAC
* * *
55144399 CTAGCAGGCCTCGTGCCGGTGATAAGTTTAGGTTATTAC
1 CTAGCAGGCCTCGTGCCGATGATAAATTCAGGTTATTAC
55144438 CTAGCAGGC
1 CTAGCAGGC
55144447 TAATTGCCGG
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
39 43 0.98
40 1 0.02
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.28
Consensus pattern (39 bp):
CTAGCAGGCCTCGTGCCGATGATAAATTCAGGTTATTAC
Found at i:55144455 original size:39 final size:39
Alignment explanation
Indices: 55144360--55144459 Score: 114
Period size: 39 Copynumber: 2.6 Consensus size: 39
55144350 GACTTAATGT
* *
55144360 CTAGCAGGCCTCGTGCCGATGATAAATTCAGGTTTATAC
1 CTAGCAGGCCTAGTGCCGGTGATAAATTCAGGTTTATAC
* * *
55144399 CTAGCAGGCCTCGTGCCGGTGATAAGTTTAGG-TTATTAC
1 CTAGCAGGCCTAGTGCCGGTGATAAATTCAGGTTTA-TAC
*
55144438 CTAGCAGG-CTAATTGCCGGTGA
1 CTAGCAGGCCT-AGTGCCGGTGA
55144460 AATAATAAAA
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
38 5 0.09
39 49 0.91
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (39 bp):
CTAGCAGGCCTAGTGCCGGTGATAAATTCAGGTTTATAC
Found at i:55147403 original size:39 final size:40
Alignment explanation
Indices: 55147302--55147486 Score: 184
Period size: 40 Copynumber: 4.7 Consensus size: 40
55147292 TTGAATGATG
* * *
55147302 TCCGGGCTAAGTCCGCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCC-CGAAGGCATTTGTGC-GAGTTACTAAT
* * *
55147342 ATCCAGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
*
55147383 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AAT
*
55147423 TCCGGGTTAAGTCCC-AAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
** *
55147461 AACGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
55147487 AACGAGTAGC
Statistics
Matches: 121, Mismatches: 16, Indels: 16
0.79 0.10 0.10
Matches are distributed among these distances:
38 12 0.10
39 33 0.27
40 53 0.44
41 22 0.18
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:55161837 original size:28 final size:27
Alignment explanation
Indices: 55161774--55161925 Score: 241
Period size: 27 Copynumber: 5.6 Consensus size: 27
55161764 ATATTAAGTC
* * *
55161774 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
55161801 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
55161829 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
55161856 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
*
55161884 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
55161911 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
55161926 GCACAATTTA
Statistics
Matches: 119, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
27 66 0.55
28 53 0.45
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:55161858 original size:55 final size:55
Alignment explanation
Indices: 55161774--55161925 Score: 259
Period size: 55 Copynumber: 2.8 Consensus size: 55
55161764 ATATTAAGTC
* * *
55161774 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
*
55161829 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
*
55161884 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCT
55161926 GCACAATTTA
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 92 1.00
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:55163438 original size:28 final size:27
Alignment explanation
Indices: 55163375--55163526 Score: 241
Period size: 27 Copynumber: 5.6 Consensus size: 27
55163365 ATATTAAGTC
* * *
55163375 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
55163402 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
55163430 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
55163457 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
*
55163485 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
55163512 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
55163527 GCACAATTTA
Statistics
Matches: 119, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
27 66 0.55
28 53 0.45
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:55163459 original size:55 final size:55
Alignment explanation
Indices: 55163375--55163526 Score: 259
Period size: 55 Copynumber: 2.8 Consensus size: 55
55163365 ATATTAAGTC
* * *
55163375 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
*
55163430 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
*
55163485 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCT
55163527 GCACAATTTA
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 92 1.00
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:55171485 original size:28 final size:27
Alignment explanation
Indices: 55171422--55171573 Score: 241
Period size: 27 Copynumber: 5.6 Consensus size: 27
55171412 ATATTAAGTC
* * *
55171422 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
55171449 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
55171477 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
55171504 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
*
55171532 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
55171559 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
55171574 GCACAATTTA
Statistics
Matches: 119, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
27 66 0.55
28 53 0.45
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:55171506 original size:55 final size:55
Alignment explanation
Indices: 55171422--55171573 Score: 259
Period size: 55 Copynumber: 2.8 Consensus size: 55
55171412 ATATTAAGTC
* * *
55171422 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
*
55171477 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
*
55171532 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCT
55171574 GCACAATTTA
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 92 1.00
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:55181662 original size:20 final size:22
Alignment explanation
Indices: 55181637--55181676 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
55181627 TTGAAAAATA
55181637 ATAAAAAA-TT-TAGTATATGT
1 ATAAAAAAGTTCTAGTATATGT
55181657 ATAAAAAAGTTCTAGTATAT
1 ATAAAAAAGTTCTAGTATAT
55181677 AATTTTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 8 0.44
21 2 0.11
22 8 0.44
ACGTcount: A:0.50, C:0.03, G:0.10, T:0.38
Consensus pattern (22 bp):
ATAAAAAAGTTCTAGTATATGT
Found at i:55187964 original size:43 final size:43
Alignment explanation
Indices: 55187917--55188088 Score: 138
Period size: 43 Copynumber: 4.0 Consensus size: 43
55187907 TGGGATTACA
*
55187917 TGTAAGACCATGTCTGGGACATTGGCATTGTATTGAGATTATG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTATTGAGATTATG
* * *
55187960 TGTAAGACCATGTCTGAGACATTGGCATCGTTAAT-CGATT-TCG
1 TGTAAGACCATGTCTGGGACATTGGCATCG-TATTGAGATTAT-G
* * * * * **
55188003 TGTAAAACCCTGTCTGGGACAGTGGCATCG-ATATGTGATAACA
1 TGTAAGACCATGTCTGGGACATTGGCATCGTAT-TGAGATTATG
* * * * *
55188046 TGTAAGACCATATCTAGGATA-TGGCATTGTA-TGAGCTTATG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTATTGAGATTATG
55188087 TG
1 TG
55188089 ATTTTCGAGT
Statistics
Matches: 99, Mismatches: 24, Indels: 14
0.72 0.18 0.10
Matches are distributed among these distances:
41 8 0.08
42 9 0.09
43 79 0.80
44 3 0.03
ACGTcount: A:0.27, C:0.15, G:0.26, T:0.32
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGTATTGAGATTATG
Found at i:55206316 original size:43 final size:43
Alignment explanation
Indices: 55206268--55206422 Score: 161
Period size: 43 Copynumber: 3.6 Consensus size: 43
55206258 ACTGAGATGC
* * *
55206268 GATTACATGTAAGACCGTGTCTGGGACATTGGAATTGTATTGA
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATTGA
* * *
55206311 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTTAATCA
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCG-TATTGA
* * * * *
55206355 -ATTTCGTGTAAGACCTTGTCTGGGACAGTGGCATCG-ATATGT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT-TGA
* *
55206397 GATAACATGTAAGACCATATCTGGGA
1 GATTACATGTAAGACCATGTCTGGGA
55206423 TATGACATTG
Statistics
Matches: 92, Mismatches: 17, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
41 1 0.01
42 1 0.01
43 86 0.93
44 4 0.04
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.30
Consensus pattern (43 bp):
GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATTGA
Found at i:55208044 original size:16 final size:17
Alignment explanation
Indices: 55208025--55208059 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
55208015 GCGTAAAGTG
*
55208025 TAAAAGT-TCTATTAGC
1 TAAAAGTGTCTAATAGC
55208041 TAAAAGTGTCTAATAGC
1 TAAAAGTGTCTAATAGC
55208058 TA
1 TA
55208060 TAGAACCTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.40, C:0.11, G:0.14, T:0.34
Consensus pattern (17 bp):
TAAAAGTGTCTAATAGC
Found at i:55214183 original size:43 final size:43
Alignment explanation
Indices: 55214126--55214207 Score: 110
Period size: 43 Copynumber: 1.9 Consensus size: 43
55214116 GATATACATG
** *
55214126 GCATCCAAGATCGTTGAGAGGTTTGAGTTCATTATGGATGTGA
1 GCATCCAAGATCGTTGAGAGGTCCGAGTTCATAATGGATGTGA
* * *
55214169 GCATCCGAGCTCGTTGAGTGGTCCGAGTTCATAATGGAT
1 GCATCCAAGATCGTTGAGAGGTCCGAGTTCATAATGGAT
55214208 ACGGTACATG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 33 1.00
ACGTcount: A:0.23, C:0.16, G:0.30, T:0.30
Consensus pattern (43 bp):
GCATCCAAGATCGTTGAGAGGTCCGAGTTCATAATGGATGTGA
Found at i:55222507 original size:43 final size:43
Alignment explanation
Indices: 55222436--55222646 Score: 309
Period size: 43 Copynumber: 4.9 Consensus size: 43
55222426 CGTACGGTAC
55222436 TATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGTTAA
1 TATT-GGG-CTTCGAGCCTAGCAGGCTATAATGCCGGTGAGTTAA
* * * *
55222481 TATCAGGG-TTCGAGCCTAGTAGGCTATAATGCCGATGAGTTCA
1 TAT-TGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGTTAA
* *
55222524 TATCGGGCTTCGAGCCTAGCAGGCTATAATGCCAGTGAGTTAA
1 TATTGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGTTAA
*
55222567 TATTGGGCTTCTAGCCTAGCAGGCTATAATGCCGGTGAGTTAA
1 TATTGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGTTAA
*
55222610 TATTGGGCTTCGAGCCTAGCAGGC-GTAATGCCGGTGA
1 TATTGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGA
55222647 ATGAGTTTAG
Statistics
Matches: 150, Mismatches: 14, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
42 15 0.10
43 129 0.86
45 6 0.04
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.27
Consensus pattern (43 bp):
TATTGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGTTAA
Found at i:55223241 original size:16 final size:18
Alignment explanation
Indices: 55223210--55223242 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
55223200 AACTCATCAC
55223210 ACTATCTATCGTTTTGGT
1 ACTATCTATCGTTTTGGT
55223228 ACTAT-TAT-GTTTTGG
1 ACTATCTATCGTTTTGG
55223243 AATTCGTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.18, C:0.12, G:0.18, T:0.52
Consensus pattern (18 bp):
ACTATCTATCGTTTTGGT
Found at i:55229672 original size:43 final size:43
Alignment explanation
Indices: 55229611--55229855 Score: 359
Period size: 43 Copynumber: 5.7 Consensus size: 43
55229601 CTATTCAGGC
* *
55229611 CTTCGAGCCTAGAAGGCTATAATGCCGATGAGTTAATATCGGG
1 CTTCGAGCCTAGCAGGCTATAATGCCGGTGAGTTAATATCGGG
** * *
55229654 CTTCGAGTGTAGTAGGCTATAATGCCGGTGAGTTAATATTGGG
1 CTTCGAGCCTAGCAGGCTATAATGCCGGTGAGTTAATATCGGG
*
55229697 CTTCGAGCCTAGCAGGCTATAATACCGGTGAGTTAATATCGGG
1 CTTCGAGCCTAGCAGGCTATAATGCCGGTGAGTTAATATCGGG
*
55229740 CTTCGAGCGTAGCAGGCTATAATGCCGGTGAGTTAATATCGGG
1 CTTCGAGCCTAGCAGGCTATAATGCCGGTGAGTTAATATCGGG
* * *
55229783 CTTCGAGCCTAGCAAGCTATAATACCAGTGAGTTAATATCGGG
1 CTTCGAGCCTAGCAGGCTATAATGCCGGTGAGTTAATATCGGG
*
55229826 AGTT-GAGCCTAGCAGGC-ATAATGCCGGTGA
1 -CTTCGAGCCTAGCAGGCTATAATGCCGGTGA
55229856 ATGAGTTCAG
Statistics
Matches: 181, Mismatches: 20, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
42 11 0.06
43 168 0.93
44 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.26
Consensus pattern (43 bp):
CTTCGAGCCTAGCAGGCTATAATGCCGGTGAGTTAATATCGGG
Found at i:55230153 original size:28 final size:28
Alignment explanation
Indices: 55230113--55230170 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
55230103 TATATGATCC
55230113 TGATACATTCGGCCAAAATGTGAAGTTA
1 TGATACATTCGGCCAAAATGTGAAGTTA
55230141 TGATACATTCGGCCAAAATGTGAAGTTA
1 TGATACATTCGGCCAAAATGTGAAGTTA
55230169 TG
1 TG
55230171 TAAAAATATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.29
Consensus pattern (28 bp):
TGATACATTCGGCCAAAATGTGAAGTTA
Found at i:55234954 original size:22 final size:22
Alignment explanation
Indices: 55234915--55234957 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
55234905 ATCACTCTTC
* *
55234915 CTCTCCTTTTATTTTTCTTTTT
1 CTCTCCATTTATTATTCTTTTT
*
55234937 CTCTCCATTTGTTATTCTTTT
1 CTCTCCATTTATTATTCTTTT
55234958 CTTCTTCTAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.07, C:0.23, G:0.02, T:0.67
Consensus pattern (22 bp):
CTCTCCATTTATTATTCTTTTT
Found at i:55237507 original size:44 final size:45
Alignment explanation
Indices: 55237457--55237673 Score: 250
Period size: 44 Copynumber: 4.8 Consensus size: 45
55237447 TATTTGGGCA
55237457 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA-G
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGG
*
55237501 TCCGAACTCGTTGAGTTGAGTCCGAGTTAACTTATGGAT-CGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAG-G
* * *
55237546 T-CGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGAGG
* *
55237590 CATCCGAGCTCGTTGAGTTGAGT-CGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCG-AGG
* *
55237637 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
55237674 GCGGGTTACA
Statistics
Matches: 148, Mismatches: 11, Indels: 26
0.80 0.06 0.14
Matches are distributed among these distances:
41 3 0.02
43 5 0.03
44 65 0.44
45 25 0.17
46 24 0.16
47 22 0.15
49 4 0.03
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGG
Found at i:55240638 original size:14 final size:15
Alignment explanation
Indices: 55240589--55240638 Score: 66
Period size: 15 Copynumber: 3.4 Consensus size: 15
55240579 TCATCTTGGG
*
55240589 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
55240604 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
55240619 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
55240633 TTTCTT
1 TTTCTT
55240639 GTTATCTTTG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
14 8 0.26
15 23 0.74
ACGTcount: A:0.10, C:0.18, G:0.12, T:0.60
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:55243064 original size:46 final size:46
Alignment explanation
Indices: 55243011--55243173 Score: 170
Period size: 46 Copynumber: 3.8 Consensus size: 46
55243001 TATTTGGGCA
55243011 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
*
55243057 TCCGAACTCGTTGAGTTGAGTCTGAG--------T---T-CGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
55243091 TCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGTATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * *
55243137 CCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
55243174 GCGGGTTACA
Statistics
Matches: 98, Mismatches: 7, Indels: 24
0.76 0.05 0.19
Matches are distributed among these distances:
34 31 0.32
35 1 0.01
38 1 0.01
42 1 0.01
45 1 0.01
46 63 0.64
ACGTcount: A:0.19, C:0.21, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:55243089 original size:34 final size:34
Alignment explanation
Indices: 55243051--55243119 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
55243041 CTTATGGATG
55243051 CGAGCGTCCGAACTCGTTGAGTTGAGTCTGAGTT
1 CGAGCGTCCGAACTCGTTGAGTTGAGTCTGAGTT
*
55243085 CGAGCGTCCGAGCTCGTTGAGTTGAGTCTGAGTT
1 CGAGCGTCCGAACTCGTTGAGTTGAGTCTGAGTT
55243119 C
1 C
55243120 ACTTATGTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.16, C:0.22, G:0.33, T:0.29
Consensus pattern (34 bp):
CGAGCGTCCGAACTCGTTGAGTTGAGTCTGAGTT
Found at i:55243151 original size:80 final size:80
Alignment explanation
Indices: 55243011--55243165 Score: 238
Period size: 80 Copynumber: 1.9 Consensus size: 80
55243001 TATTTGGGCA
* * *
55243011 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAGTTGA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGTTGA
*
55243076 GTCTGAGTTCGAGCG
66 GTCCGAGTTCGAGCG
* * * *
55243091 TCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGTATGCGAACGCCCGAGCTCATTGAGTTGA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGTTGA
55243156 GTCCGAGTTC
66 GTCCGAGTTC
55243166 ACTTATGGGC
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
80 67 1.00
ACGTcount: A:0.19, C:0.22, G:0.30, T:0.30
Consensus pattern (80 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGTTGA
GTCCGAGTTCGAGCG
Found at i:55244545 original size:27 final size:27
Alignment explanation
Indices: 55244507--55244615 Score: 105
Period size: 27 Copynumber: 4.0 Consensus size: 27
55244497 AAGCGTCCTA
*
55244507 GTGGCTATGCCACAATTATCTGATCTG
1 GTGGCTCTGCCACAATTATCTGATCTG
* * *
55244534 GTGGCTCTGCCACATATT-TATGTTCTA
1 GTGGCTCTGCCACA-ATTATCTGATCTG
*
55244561 GTGGCTCTGCCACGATTATCTGTATCTG
1 GTGGCTCTGCCACAATTATCTG-ATCTG
** * *
55244589 GTGATTCTGTCAC-ATTATCTGTTCTG
1 GTGGCTCTGCCACAATTATCTGATCTG
55244615 G
1 G
55244616 CAGCCATGCT
Statistics
Matches: 67, Mismatches: 12, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
26 8 0.12
27 43 0.64
28 16 0.24
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.39
Consensus pattern (27 bp):
GTGGCTCTGCCACAATTATCTGATCTG
Found at i:55244612 original size:54 final size:54
Alignment explanation
Indices: 55244504--55244613 Score: 141
Period size: 54 Copynumber: 2.0 Consensus size: 54
55244494 AGGAAGCGTC
* *
55244504 CTAGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATTTATGTT
1 CTAGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATATGTT
* * * * *
55244558 CTAGTGGCTCTGCCACGATTATCTGTATCTGGTGATTCTGTCACAT-TATCTGTT
1 CTAGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATATGTT
55244612 CT
1 CT
55244614 GGCAGCCATG
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
54 31 0.65
55 17 0.35
ACGTcount: A:0.18, C:0.23, G:0.20, T:0.39
Consensus pattern (54 bp):
CTAGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATATGTT
Found at i:55250932 original size:22 final size:22
Alignment explanation
Indices: 55250893--55250935 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
55250883 ATCACTCTTC
* *
55250893 CTCTCCTTTTATTTTTCTTTTT
1 CTCTCCATTTATTATTCTTTTT
*
55250915 CTCTCCATTTGTTATTCTTTT
1 CTCTCCATTTATTATTCTTTT
55250936 CTTCTTCTAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.07, C:0.23, G:0.02, T:0.67
Consensus pattern (22 bp):
CTCTCCATTTATTATTCTTTTT
Found at i:55252185 original size:27 final size:27
Alignment explanation
Indices: 55252155--55252255 Score: 125
Period size: 27 Copynumber: 3.7 Consensus size: 27
55252145 TGGAGGCTAA
55252155 GCCACAATTATCTGATCTGGTGGCTCT
1 GCCACAATTATCTGATCTGGTGGCTCT
*
55252182 GCCACATATT-TCTGTTCTGGTGGCTCT
1 GCCACA-ATTATCTGATCTGGTGGCTCT
* *
55252209 GCCACGATTATCTGTATCTGGTGACTCT
1 GCCACAATTATCTG-ATCTGGTGGCTCT
* *
55252237 GTCAC-ATTATCTGTTCTGG
1 GCCACAATTATCTGATCTGG
55252256 CAGCCATGTT
Statistics
Matches: 65, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
26 8 0.12
27 39 0.60
28 18 0.28
ACGTcount: A:0.16, C:0.25, G:0.22, T:0.38
Consensus pattern (27 bp):
GCCACAATTATCTGATCTGGTGGCTCT
Found at i:55254039 original size:28 final size:28
Alignment explanation
Indices: 55253985--55254039 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 28
55253975 CGTTGAATAC
* * **
55253985 TCAATGTCTCGCAAACTAAGTGTCATAT
1 TCAATATCTCACAAACTAAGTACCATAT
*
55254013 TCAATATCTCACACACTAAGTACCATA
1 TCAATATCTCACAAACTAAGTACCATA
55254040 CATAGCCGAC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.36, C:0.25, G:0.09, T:0.29
Consensus pattern (28 bp):
TCAATATCTCACAAACTAAGTACCATAT
Found at i:55254149 original size:40 final size:40
Alignment explanation
Indices: 55254024--55254161 Score: 152
Period size: 40 Copynumber: 3.4 Consensus size: 40
55254014 CAATATCTCA
* * * * **
55254024 CACACTAAGTACCATACATAGCCGACGCTATCTCAAGTCG
1 CACACTAAGTGCCATATATAGCCGAAGCTATGTTGAGTCG
* *
55254064 TACACTAAGTGCCATATATATTTAGCCGAAGCTATGTAGAGTCG
1 CACACTAAGTGCC--ATATA--TAGCCGAAGCTATGTTGAGTCG
55254108 CACACTAAGTGCCATATATAGCCGAAGCTATGTTGTA-TCG
1 CACACTAAGTGCCATATATAGCCGAAGCTATGTTG-AGTCG
55254148 CACACTAAGTGCCA
1 CACACTAAGTGCCA
55254162 CAAATAATCG
Statistics
Matches: 84, Mismatches: 9, Indels: 10
0.82 0.09 0.10
Matches are distributed among these distances:
40 44 0.52
41 1 0.01
42 9 0.11
44 30 0.36
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (40 bp):
CACACTAAGTGCCATATATAGCCGAAGCTATGTTGAGTCG
Found at i:55256608 original size:43 final size:43
Alignment explanation
Indices: 55256542--55256626 Score: 161
Period size: 43 Copynumber: 2.0 Consensus size: 43
55256532 CATAACCACC
*
55256542 ACCAACTCAATAAGCACAGATGTCACATATATCATGAACTCAG
1 ACCAACTCAATAAGCACAAATGTCACATATATCATGAACTCAG
55256585 ACCAACTCAATAAGCACAAATGTCACATATATCATGAACTCA
1 ACCAACTCAATAAGCACAAATGTCACATATATCATGAACTCA
55256627 ATGAGCTTAG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.44, C:0.26, G:0.09, T:0.21
Consensus pattern (43 bp):
ACCAACTCAATAAGCACAAATGTCACATATATCATGAACTCAG
Found at i:55271746 original size:18 final size:18
Alignment explanation
Indices: 55271723--55271759 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
55271713 TAACCATATC
55271723 ATATGATCATTTACACAA
1 ATATGATCATTTACACAA
*
55271741 ATATGATCATTTACTCAA
1 ATATGATCATTTACACAA
55271759 A
1 A
55271760 GTGAGTATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.43, C:0.16, G:0.05, T:0.35
Consensus pattern (18 bp):
ATATGATCATTTACACAA
Found at i:55278407 original size:39 final size:38
Alignment explanation
Indices: 55278360--55278491 Score: 165
Period size: 39 Copynumber: 3.4 Consensus size: 38
55278350 TATATGAGAT
55278360 TGGAAATATATCCGGACATGAGGTCCGAATGCTATATGC
1 TGGAAATATATCCGGACATGAGGTCCGAA-GCTATATGC
* * *
55278399 TGGAAATATATTCGGACATGAGGTCCGCAGGCTATATGT
1 TGGAAATATATCCGGACATGAGGTCCG-AAGCTATATGC
* * **
55278438 TGGAAATATATCCGGACTTGATGTCCGCAAGCTACGTGC
1 TGGAAATATATCCGGACATGAGGTCCG-AAGCTATATGC
*
55278477 TGGAAAAATATCCGG
1 TGGAAATATATCCGG
55278492 GTTAAAGACC
Statistics
Matches: 81, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
39 80 0.99
40 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.26
Consensus pattern (38 bp):
TGGAAATATATCCGGACATGAGGTCCGAAGCTATATGC
Found at i:55287960 original size:40 final size:40
Alignment explanation
Indices: 55287901--55288045 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
55287891 CATTTGAATG
* *
55287901 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGA-T
* *
55287941 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGAT
* *
55287981 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGAT
* * *
55288021 ATACCCGTGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCA
55288046 ATTGTGCTTG
Statistics
Matches: 95, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
40 92 0.97
41 3 0.03
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGAT
Found at i:55288064 original size:80 final size:80
Alignment explanation
Indices: 55287901--55288072 Score: 204
Period size: 80 Copynumber: 2.2 Consensus size: 80
55287891 CATTTGAATG
* * * * *
55287901 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTGACTATACCCGGGCTAAGACCCGAAGGCA
* *
55287966 TTTGTGCGAGTTGAT
66 ATTGTGCGAGTGGAT
* * *
55287981 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATACCCGTGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAG-TGACTATACCCGGGCTAAGACCCGAAGGC
** *
55288045 AATTGTGCTTGTGGTT
65 AATTGTGCGAGTGGAT
55288061 ATATCC-GGCTAA
1 ATATCCGGGCTAA
55288073 ATTCCGAAGA
Statistics
Matches: 78, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
79 6 0.08
80 70 0.90
81 2 0.03
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTGACTATACCCGGGCTAAGACCCGAAGGCA
ATTGTGCGAGTGGAT
Found at i:55296032 original size:40 final size:40
Alignment explanation
Indices: 55295953--55296097 Score: 172
Period size: 40 Copynumber: 3.7 Consensus size: 40
55295943 TTGAATGATA
* * * *
55295953 CCGGGCTAAGTCCC--AGGCATTTATGCTAG-TGATTTTAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-TATAT
55295991 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATATAT
* *
55296031 CC-GGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAA
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATATAT
* * *
55296070 CCCGGTTAAGACCCGAAGGCAATTGTGC
1 CCGGGCTAAGACCCGAAGGCATTTGTGC
55296098 TTGTGGTTAT
Statistics
Matches: 95, Mismatches: 8, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
38 13 0.14
39 37 0.39
40 42 0.44
41 3 0.03
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATATAT
Found at i:55296047 original size:39 final size:39
Alignment explanation
Indices: 55295988--55296097 Score: 166
Period size: 39 Copynumber: 2.8 Consensus size: 39
55295978 CTAGTGATTT
55295988 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATA
1 TATCC-GGCTAAGACCCGAAGGCATTTGTGCGAGTTGATA
*
55296028 TATCCGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTA
1 TATCCGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATA
* * *
55296067 TAACCCGGTTAAGACCCGAAGGCAATTGTGC
1 T-ATCCGGCTAAGACCCGAAGGCATTTGTGC
55296098 TTGTGGTTAT
Statistics
Matches: 65, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
39 34 0.52
40 31 0.48
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (39 bp):
TATCCGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATA
Found at i:55301020 original size:41 final size:41
Alignment explanation
Indices: 55300931--55301115 Score: 193
Period size: 40 Copynumber: 4.6 Consensus size: 41
55300921 TAACTCATTC
** * * *
55300931 AATGCCTTCGGGACTTAACCCGGATTTTA-AAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGAAATTAGTATCTCGCACA
55300971 AATGCCTTCGGGACTTAACCCGGAAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAAATTAGTATCTCGCACA
*
55301012 AAGGCCTTCGGGACTTAACCCGG-AATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAAATTAGTATCTCGCACA
* ** * *
55301052 AATACCTTC-GGATCTTAGTCCGGATA-TAGTCA-CTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAATTAGT-ATC-TCGCACA
*
55301093 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
55301116 CAGCATTCAA
Statistics
Matches: 125, Mismatches: 14, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
39 3 0.02
40 79 0.63
41 43 0.34
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (41 bp):
AATGCCTTCGGGACTTAACCCGGAAATTAGTATCTCGCACA
Found at i:55301048 original size:81 final size:80
Alignment explanation
Indices: 55300934--55301115 Score: 201
Period size: 81 Copynumber: 2.3 Consensus size: 80
55300924 CTCATTCAAT
* * *
55300934 GCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCGGAAAT
1 GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTC-GGATCTTAACCCGGAAA-
*
55300998 TAGT-A-TCTCGCACAAA
64 TAGTCACT-TAGCACAAA
* * ** *
55301014 GGCCTTCGGGACTTAACCCGGA-ATTAGTATCTCGCACAAATACCTTCGGATCTTAGTCCGGATA
1 -GCCTTCGGGACTTAACCCGGATATTA-AAACTCGCACAAATACCTTCGGATCTTAACCCGGAAA
55301078 TAGTCACTTAGCACAAA
64 TAGTCACTTAGCACAAA
*
55301095 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
55301116 CAGCATTCAA
Statistics
Matches: 87, Mismatches: 10, Indels: 9
0.82 0.09 0.08
Matches are distributed among these distances:
80 30 0.34
81 56 0.64
82 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTCGGATCTTAACCCGGAAATA
GTCACTTAGCACAAA
Found at i:55303084 original size:42 final size:42
Alignment explanation
Indices: 55302979--55303092 Score: 192
Period size: 43 Copynumber: 2.7 Consensus size: 42
55302969 TCGTTTTCTC
55302979 GATGCCATAGTTCAACTATGGTCTTACACATCTTCACGTAAT
1 GATGCCATAGTTCAACTATGGTCTTACACATCTTCACGTAAT
55303021 GATGGCCATAGTTCAACTATGGTCTTACACATCTTCACGTAAT
1 GAT-GCCATAGTTCAACTATGGTCTTACACATCTTCACGTAAT
** *
55303064 GATGCCATAGCCCAGCTATGGTCTTACAC
1 GATGCCATAGTTCAACTATGGTCTTACAC
55303093 GAATCACATA
Statistics
Matches: 68, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
42 26 0.38
43 42 0.62
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (42 bp):
GATGCCATAGTTCAACTATGGTCTTACACATCTTCACGTAAT
Found at i:55303351 original size:31 final size:31
Alignment explanation
Indices: 55303209--55303357 Score: 160
Period size: 30 Copynumber: 4.8 Consensus size: 31
55303199 CCTGTCACTT
* *
55303209 GTAGCCGAAGCTACCACTATTCACTAATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* * *
55303240 GTAGCCCGGAGCTACCATTTTTCA-TGTGTCAAG
1 GTAG-CCGAAGCTACCACTTTTCACTG-ATC-AG
* * *
55303273 TTAGCCGGAGCTACTAC-TTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
55303303 GTAGCAGAAG-TACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
55303333 GTAGCTGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
55303358 TGTCTTTTGT
Statistics
Matches: 98, Mismatches: 14, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
29 5 0.05
30 31 0.32
31 26 0.27
32 31 0.32
33 5 0.05
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.28
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:55303401 original size:50 final size:47
Alignment explanation
Indices: 55303333--55303461 Score: 125
Period size: 50 Copynumber: 2.6 Consensus size: 47
55303323 CACTGATCAG
*
55303333 GTAGCTGAAGCTACCACTTTTCACTTGTCTTTTGTCATTGATCAGATAAGT
1 GTAGC-GAAGCTATCACTTTTCACTTGTC-TTT-TCATTGATCAGAT-AGT
* ** *
55303384 GTAGCGAAGCTATCACTTATCACTTCACTTTTCCTTGATCAGATAGT
1 GTAGCGAAGCTATCACTTTTCACTTGTCTTTTCATTGATCAGATAGT
55303431 GTAGCCGAAACAGCTATCA-TTTATCACTTGT
1 GTAG-CG--A-AGCTATCACTTT-TCACTTGT
55303462 TGCCATGGTC
Statistics
Matches: 65, Mismatches: 8, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
47 7 0.11
48 14 0.22
49 3 0.05
50 22 0.34
51 19 0.29
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (47 bp):
GTAGCGAAGCTATCACTTTTCACTTGTCTTTTCATTGATCAGATAGT
Found at i:55311523 original size:40 final size:40
Alignment explanation
Indices: 55311439--55311622 Score: 198
Period size: 40 Copynumber: 4.6 Consensus size: 40
55311429 TTGAATGCTG
* *
55311439 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
** *
55311478 ATCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGATACTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
*
55311519 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* ** *
55311559 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAG-TTTTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACT-AAT
55311599 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
55311623 GAATGAGTTA
Statistics
Matches: 126, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
39 3 0.02
40 110 0.87
41 12 0.10
42 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:55311643 original size:39 final size:38
Alignment explanation
Indices: 55311520--55311669 Score: 131
Period size: 40 Copynumber: 3.8 Consensus size: 38
55311510 GATACTAATT
* ** * *
55311520 CCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAATT
1 CCGGGTTAAGTCCCGAAGG-CATTGAACGAGTTACTAA-A
** *
55311560 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 CCGGGTTAAGTCCCGAAGGCATT-GAACGAGTTACT-AAA
*
55311599 TCCGGGTTAAGTCCCGAAGGCATTGAATGAGTTACTATAA
1 -CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTA-AA
* *
55311639 CCGGGCTATGTCCCGAAGGCACTTGAACGAG
1 CCGGGTTAAGTCCCGAAGGCA-TTGAACGAG
55311670 GAGCTAAATC
Statistics
Matches: 93, Mismatches: 11, Indels: 12
0.80 0.09 0.10
Matches are distributed among these distances:
39 30 0.32
40 63 0.68
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (38 bp):
CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTAAA
Done.