Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D03
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: 53248092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1300000 characters in sequence are not A, C, G, or T
File 171 of 175
Found at i:51471602 original size:7 final size:7
Alignment explanation
Indices: 51471585--51471613 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
51471575 CACTTTGAAA
51471585 AAAAATG
1 AAAAATG
51471592 -AAAATG
1 AAAAATG
51471598 AAAAATG
1 AAAAATG
51471605 AAAAATG
1 AAAAATG
51471612 AA
1 AA
51471614 GAGGCTAAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
6 6 0.29
7 15 0.71
ACGTcount: A:0.72, C:0.00, G:0.14, T:0.14
Consensus pattern (7 bp):
AAAAATG
Found at i:51473017 original size:88 final size:88
Alignment explanation
Indices: 51472834--51473345 Score: 739
Period size: 88 Copynumber: 5.9 Consensus size: 88
51472824 AACAGATCAA
* * *
51472834 TGAAGACATCAGATCTTGCCTCCCTGCGTTGACAGCGAAGCAGATCGAAG--ACAAACCTTGCCT
1 TGAAGACAACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCT
51472897 CTCTCGGTTGTAGTGGAGCTGGT
66 CTCTCGGTTGTAGTGGAGCTGGT
* *
51472920 TGAAGACAACAGATCTTGCCTTCCTGCTTTGACAGCGAAGCAGATCAAAGACACAAACCTTGCCT
1 TGAAGACAACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCT
51472985 CTCTCGGTTGTAGTGGAGCTGGT
66 CTCTCGGTTGTAGTGGAGCTGGT
* * *
51473008 TGAAGACAACAGATATTGCCTTCCTGCATTGACAGTGAAGCAGATCAAAGACACAAACCTTGCCT
1 TGAAGACAACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCT
51473073 CTCTCGGTTGTAGTGGAGCTGGT
66 CTCTCGGTTGTAGTGGAGCTGGT
* * *
51473096 TGAAGACAACAGATCTTGCCTTCCTACATTGACAGCGAAGCAGATTGAAGACACAAGCCTTGCCT
1 TGAAGACAACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCT
*
51473161 CTCTCGGTTGTAGTGGAGCAGGT
66 CTCTCGGTTGTAGTGGAGCTGGT
** * * *
51473184 CAAAGATAGCAAATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAG--ACAAACCTTGCCT
1 TGAAGACAACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCT
*
51473247 CTCTCAGTTGTAGTGGAG-TAGGT
66 CTCTCGGTTGTAGTGGAGCT-GGT
** * ** * *
51473270 CAAAGATAGTAGATCTTGCCTTCCTGCATTGACAGCGAAGCATATCGAAGACACAAACCTTGTCT
1 TGAAGACAACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCT
51473335 -TCCTCGGTTGT
66 CT-CTCGGTTGT
51473346 GAGCAGGTTG
Statistics
Matches: 391, Mismatches: 29, Indels: 10
0.91 0.07 0.02
Matches are distributed among these distances:
86 125 0.32
87 1 0.00
88 265 0.68
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.25
Consensus pattern (88 bp):
TGAAGACAACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCT
CTCTCGGTTGTAGTGGAGCTGGT
Found at i:51473299 original size:262 final size:261
Alignment explanation
Indices: 51472834--51473345 Score: 742
Period size: 262 Copynumber: 2.0 Consensus size: 261
51472824 AACAGATCAA
* * *
51472834 TGAAGACATCAGATCTTGCCTCCCTGCGTTGACAGCGAAGCAGATCGAAGACAAACCTTGCCTCT
1 TGAAGACAACAGATCTTGCCTCCCTACATTGACAGCGAAGCAGATCGAAGACAAACCTTGCCTCT
* ** * *
51472899 CTCGGTTGTAGTGGAGCTGGTTGAAGACAACAGATCTTGCCTTCCTGCTTTGACAGCGAAGCAGA
66 CTCGGTTGTAGTGGAGCAGGTCAAAGACAACAAATCTTGCCTTCCTGCATTGACAGCGAAGCAGA
* **
51472964 TCAAAGACACAAACCTTGCCTCTCTCGGTTGTAGTGGAGCTGGTTGAAGACAACAGATATTGCCT
131 TCAAAGA-ACAAACCTTGCCTCTCTCAGTTGTAGTGGAGCTGGTCAAAGACAACAGATATTGCCT
*
51473029 TCCTGCATTGACAGTGAAGCAGATCAAAGACACAAACCTTGCC-TCTCTCGGTTGTAGTGGAGCT
195 TCCTGCATTGACAGCGAAGCAGATCAAAGACACAAACCTTGCCTTC-CTCGGTTGTAGTGGAGCT
51473093 GGT
259 GGT
* *
51473096 TGAAGACAACAGATCTTGCCTTCCTACATTGACAGCGAAGCAGATTGAAGACACAAGCCTTGCCT
1 TGAAGACAACAGATCTTGCCTCCCTACATTGACAGCGAAGCAGATCGAAGACA-AA-CCTTGCCT
* *
51473161 CTCTCGGTTGTAGTGGAGCAGGTCAAAGATAGCAAATCTTGCCTTCCTGCATTGACAGCGAAGCA
64 CTCTCGGTTGTAGTGGAGCAGGTCAAAGACAACAAATCTTGCCTTCCTGCATTGACAGCGAAGCA
* * ** *
51473226 GATCGAAG-ACAAACCTTGCCTCTCTCAGTTGTAGTGGAG-TAGGTCAAAGATAGTAGATCTTGC
129 GATCAAAGAACAAACCTTGCCTCTCTCAGTTGTAGTGGAGCT-GGTCAAAGACAACAGATATTGC
* * *
51473289 CTTCCTGCATTGACAGCGAAGCATATCGAAGACACAAACCTTGTCTTCCTCGGTTGT
193 CTTCCTGCATTGACAGCGAAGCAGATCAAAGACACAAACCTTGCCTTCCTCGGTTGT
51473346 GAGCAGGTTG
Statistics
Matches: 222, Mismatches: 24, Indels: 8
0.87 0.09 0.03
Matches are distributed among these distances:
261 1 0.00
262 144 0.65
263 4 0.02
264 73 0.33
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.25
Consensus pattern (261 bp):
TGAAGACAACAGATCTTGCCTCCCTACATTGACAGCGAAGCAGATCGAAGACAAACCTTGCCTCT
CTCGGTTGTAGTGGAGCAGGTCAAAGACAACAAATCTTGCCTTCCTGCATTGACAGCGAAGCAGA
TCAAAGAACAAACCTTGCCTCTCTCAGTTGTAGTGGAGCTGGTCAAAGACAACAGATATTGCCTT
CCTGCATTGACAGCGAAGCAGATCAAAGACACAAACCTTGCCTTCCTCGGTTGTAGTGGAGCTGG
T
Found at i:51473432 original size:44 final size:43
Alignment explanation
Indices: 51473382--51473522 Score: 126
Period size: 44 Copynumber: 3.3 Consensus size: 43
51473372 CTCCTTGAGA
* *
51473382 TTACAGTGGAGTGGATTAAAATAAAGGATATTATCTCTCTAAAG
1 TTACAGTAGAGTGGATTAAAATAAAGGATCTTATCTCTCT-AAG
* *** * * *
51473426 TTACAGTAGAGTAGA-TCGCAT-CAGG-TCTTATCTCCCTGAG
1 TTACAGTAGAGTGGATTAAAATAAAGGATCTTATCTCTCTAAG
* *
51473466 ATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAG
1 -TTACAGTAGAGTGGATTAAAATAAAGGATCTTATCTCTCT-AAG
*
51473511 CTACAGTAGAGT
1 TTACAGTAGAGT
51473523 AGATCGTATC
Statistics
Matches: 71, Mismatches: 21, Indels: 10
0.70 0.21 0.10
Matches are distributed among these distances:
40 2 0.03
41 22 0.31
42 6 0.08
43 6 0.08
44 33 0.46
45 2 0.03
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.30
Consensus pattern (43 bp):
TTACAGTAGAGTGGATTAAAATAAAGGATCTTATCTCTCTAAG
Found at i:51473471 original size:41 final size:41
Alignment explanation
Indices: 51473426--51473558 Score: 124
Period size: 41 Copynumber: 3.2 Consensus size: 41
51473416 CTCTCTAAAG
*
51473426 TTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGA
1 TTACAGTAGAGTAGATCGAATCAGGTCTTATCTCCCTGAGA
* ** ** * *
51473467 TTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGA-A
1 TTACAGTAGAGTAGA-TCGAAT-CAGG-TCTTATCTCCCTGAGA
* * *
51473510 GCTACAGTAGAGTAGATCGTATCAGGTCTTATCTCCTTGAGA
1 -TTACAGTAGAGTAGATCGAATCAGGTCTTATCTCCCTGAGA
51473552 TTACAGT
1 TTACAGT
51473559 GGAACAGACC
Statistics
Matches: 68, Mismatches: 19, Indels: 10
0.70 0.20 0.10
Matches are distributed among these distances:
41 30 0.44
42 7 0.10
43 7 0.10
44 24 0.35
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (41 bp):
TTACAGTAGAGTAGATCGAATCAGGTCTTATCTCCCTGAGA
Found at i:51473516 original size:85 final size:85
Alignment explanation
Indices: 51473369--51473561 Score: 332
Period size: 85 Copynumber: 2.3 Consensus size: 85
51473359 ACAGTAATCC
* *
51473369 TATCTCCTTGAGATTACAGTGGAGTGGATTAAAATAAAGGATATTATCTCTCTAAAGTTACAGTA
1 TATCTCCTTGAGATTACAGTGGAGCGGATTAAAATAAAGGATATTATCTCTCTAAAGCTACAGTA
51473434 GAGTAGATCGCATCAGGTCT
66 GAGTAGATCGCATCAGGTCT
* * *
51473454 TATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGCTACAGTA
1 TATCTCCTTGAGATTACAGTGGAGCGGATTAAAATAAAGGATATTATCTCTCTAAAGCTACAGTA
*
51473519 GAGTAGATCGTATCAGGTCT
66 GAGTAGATCGCATCAGGTCT
51473539 TATCTCCTTGAGATTACAGTGGA
1 TATCTCCTTGAGATTACAGTGGA
51473562 ACAGACCGAG
Statistics
Matches: 101, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
85 101 1.00
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (85 bp):
TATCTCCTTGAGATTACAGTGGAGCGGATTAAAATAAAGGATATTATCTCTCTAAAGCTACAGTA
GAGTAGATCGCATCAGGTCT
Found at i:51473693 original size:44 final size:44
Alignment explanation
Indices: 51473625--51473839 Score: 116
Period size: 44 Copynumber: 4.9 Consensus size: 44
51473615 GAAGCCGATA
* ** * *
51473625 ATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTGCAG
1 ATTCTATCACCCTAAGCAGTAGTGGAGTAGATTGAAGATTGCAG
* * * **
51473669 ATTCTGTCACCCTAAGCAGTAGTGGAGCAGATCGAAGA-TGGTG
1 ATTCTATCACCCTAAGCAGTAGTGGAGTAGATTGAAGATTGCAG
* ** * * * * ** *
51473712 AATCTTATCTTTCC-AATACAGTGGAGAAACAGATTTAAGCCATT--AG
1 ATTC-TATC-ACCCTAA-GCAGTAGTGGAGTAGATTGAAG--ATTGCAG
* * * *
51473758 -TCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTAAAGATTGCAG
1 ATTCTATCACCCTAAGCAGTAGTGGAGTAGATTGAAGATTGCAG
* *
51473801 ATTCTGTCACCCTAAGCAGTAGTGGAGTAGATCGAAGAT
1 ATTCTATCACCCTAAGCAGTAGTGGAGTAGATTGAAGAT
51473840 GATGAATCTT
Statistics
Matches: 122, Mismatches: 39, Indels: 20
0.67 0.22 0.11
Matches are distributed among these distances:
41 3 0.02
43 25 0.20
44 73 0.60
45 18 0.15
46 1 0.01
47 1 0.01
48 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (44 bp):
ATTCTATCACCCTAAGCAGTAGTGGAGTAGATTGAAGATTGCAG
Found at i:51473853 original size:132 final size:131
Alignment explanation
Indices: 51473628--51473926 Score: 427
Period size: 132 Copynumber: 2.3 Consensus size: 131
51473618 GCCGATAATT
* *
51473628 CTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTG
1 CTATCTCCCTGAGCAGCAGTGGAATAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTG
* * * * **
51473693 GAGCAGATCGAAGATGGTGAATCTTATCTTTCCAATACAGTGGAGAAACAGATTTAAGCCATTAG
66 GAGCAGATCGAAGATGATGAATCTTATCTTCCCAAGACAGTAG-GAAACAGATTTAAGCCACCAG
51473758 TC
130 TC
* * * *
51473760 CTATCTCCCTAAGCAGTAGTGGAGTAGGTTAAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTG
1 CTATCTCCCTGAGCAGCAGTGGAATAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTG
* * ** * *
51473825 GAGTAGATCGAAGATGATGAATCTTATCTTCCCAAGATAGTAGGAAGTATATTTAAGTCACCAGT
66 GAGCAGATCGAAGATGATGAATCTTATCTTCCCAAGACAGTAGGAAACAGATTTAAGCCACCAGT
51473890 C
131 C
51473891 CTATCTCCCTGAGCAGCAGTGGAATAGGTTGAAGAT
1 CTATCTCCCTGAGCAGCAGTGGAATAGGTTGAAGAT
51473927 CACAGATCTT
Statistics
Matches: 145, Mismatches: 22, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
131 49 0.34
132 96 0.66
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.27
Consensus pattern (131 bp):
CTATCTCCCTGAGCAGCAGTGGAATAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTG
GAGCAGATCGAAGATGATGAATCTTATCTTCCCAAGACAGTAGGAAACAGATTTAAGCCACCAGT
C
Found at i:51475440 original size:13 final size:13
Alignment explanation
Indices: 51475422--51475446 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
51475412 AATATTTCTA
51475422 TTATTATTATTAC
1 TTATTATTATTAC
51475435 TTATTATTATTA
1 TTATTATTATTA
51475447 GCTTTCGTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (13 bp):
TTATTATTATTAC
Found at i:51475753 original size:29 final size:27
Alignment explanation
Indices: 51475721--51475776 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
51475711 ATATTTTAAA
51475721 TTTATATACGTGTACATATTTATATATAT
1 TTTATATAC-TGTACA-ATTTATATATAT
* *
51475750 TTTATATACTTTATAATTTATATATAT
1 TTTATATACTGTACAATTTATATATAT
51475777 ATATTCATAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 12 0.48
28 4 0.16
29 9 0.36
ACGTcount: A:0.36, C:0.05, G:0.04, T:0.55
Consensus pattern (27 bp):
TTTATATACTGTACAATTTATATATAT
Found at i:51475757 original size:9 final size:10
Alignment explanation
Indices: 51475736--51475792 Score: 53
Period size: 10 Copynumber: 5.6 Consensus size: 10
51475726 ATACGTGTAC
51475736 ATATTTATAT
1 ATATTTATAT
51475746 ATATTT-TAT
1 ATATTTATAT
51475755 ATACTTTATAAT
1 ATA-TTTAT-AT
* *
51475767 TTATATATAT
1 ATATTTATAT
* *
51475777 ATATTCATAC
1 ATATTTATAT
51475787 ATATTT
1 ATATTT
51475793 TTTTAAATAT
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
9 6 0.16
10 22 0.59
11 5 0.14
12 4 0.11
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.56
Consensus pattern (10 bp):
ATATTTATAT
Found at i:51477738 original size:16 final size:17
Alignment explanation
Indices: 51477717--51477756 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
51477707 GCAATTATAA
*
51477717 TTAAAATA-AATCTAAT
1 TTAAAATACAATCGAAT
51477733 TTAAAATACAATCGAAT
1 TTAAAATACAATCGAAT
51477750 TTAAAAT
1 TTAAAAT
51477757 CAAAGTATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 8 0.36
17 14 0.64
ACGTcount: A:0.55, C:0.07, G:0.03, T:0.35
Consensus pattern (17 bp):
TTAAAATACAATCGAAT
Found at i:51484808 original size:20 final size:20
Alignment explanation
Indices: 51484783--51484822 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
51484773 AATATTTTCT
*
51484783 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
51484803 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
51484823 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:51484825 original size:34 final size:35
Alignment explanation
Indices: 51484771--51484837 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
51484761 CAAATAGCAG
* *
51484771 AAAATATTTTCTAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
51484806 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
51484838 CATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.33
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:51484829 original size:14 final size:14
Alignment explanation
Indices: 51484806--51484845 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
51484796 ACAGAAAAGT
*
51484806 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
51484820 AAATCATTTTACGG
1 AAAACATTTTACAG
51484834 AAAACATTTTAC
1 AAAACATTTTAC
51484846 TGGCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:51489674 original size:18 final size:18
Alignment explanation
Indices: 51489643--51489681 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
51489633 GATATATAAA
51489643 AAATAAATACATACATAT
1 AAATAAATACATACATAT
* * *
51489661 AAATATATATATACTTAT
1 AAATAAATACATACATAT
51489679 AAA
1 AAA
51489682 AATAAAAATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.59, C:0.08, G:0.00, T:0.33
Consensus pattern (18 bp):
AAATAAATACATACATAT
Found at i:51489884 original size:3 final size:3
Alignment explanation
Indices: 51489873--51489925 Score: 63
Period size: 3 Copynumber: 17.7 Consensus size: 3
51489863 CAATAATACC
* * *
51489873 AAT ACT AAT AAT AGT AA- AGAT AAT AGT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
51489918 AAT AAT AA
1 AAT AAT AA
51489926 GACTAGATTA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
2 1 0.02
3 40 0.95
4 1 0.02
ACGTcount: A:0.62, C:0.02, G:0.06, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:51491544 original size:175 final size:175
Alignment explanation
Indices: 51491253--51491764 Score: 753
Period size: 175 Copynumber: 2.9 Consensus size: 175
51491243 GTGGTTTTAG
* * * * **
51491253 TCTGCTCCACTGCAA-CGTTAGGGAGACAAAATCTGAAATTCCGCGGTCTGTTCCACTGTAATCT
1 TCTGCTCCACTGTAATC-TCAGGGAGATAAGATCTGAAATTCTTCGGTCTGTTCCACTGTAATCT
* *
51491317 CAGGAAAATAAGACCTGGTGCGATCTACTCTACTGTAAATTCAGAGAGATAAGATCCTTTATTTT
65 CAGGGAAATAAGACCTGGTGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTT
51491382 AATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAA
130 AATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAA
51491428 TCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTGTTCCACTGTAATCTC
1 TCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTGTTCCACTGTAATCTC
**
51491493 AGGGAAATAAGACCTGGTGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTGGTTTTA
66 AGGGAAATAAGACCTGGTGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTA
*
51491558 ATCCGCTCCACTGTAATATCAGGGAGATAGGATTACTAGCTTCAA
131 ATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAA
** * * * ** * *
51491603 TCTGCTCTGCTATAATCTCAGGGAGATAAGATCT---CTGGCTTCAATCTGCTCCACTGTAACCT
1 TCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAAT-TCTTCGGTCTGTTCCACTGTAATCT
* * * * *
51491665 CAGGGAGATAAGATCTGATGCGATCCACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTT
65 CAGGGAAATAAGACCTGGTGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTT
51491730 AATCCGCTCCACTGTAATCTCAGGGAGATAGGATT
130 AATCCGCTCCACTGTAATCTCAGGGAGATAGGATT
51491765 TGAAATTTCC
Statistics
Matches: 307, Mismatches: 28, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
172 1 0.00
173 112 0.36
175 193 0.63
176 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (175 bp):
TCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTGTTCCACTGTAATCTC
AGGGAAATAAGACCTGGTGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTA
ATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAA
Found at i:51491679 original size:44 final size:45
Alignment explanation
Indices: 51491382--51491680 Score: 269
Period size: 44 Copynumber: 6.8 Consensus size: 45
51491372 CCTTTATTTT
* * *
51491382 AATCCGCTCCACTGTAATCTCAGGGAGATAGGAT-TACTAGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTACTGGCTTC
* *
51491426 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAAT-TCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATCT--ACTGGCTTC
** * * *
51491472 GGTCTGTTCCACTGTAATCTCAGGGAAATAAGA-C--CTGG-TGC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTACTGGCTTC
* * * * * *
51491513 GATCTACTCTACTGTAA-CTTCAGAGAGATAAGATC--CTTGGTTTT
1 AATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCTAC-TGGCTTC
* * * *
51491557 AATCCGCTCCACTGTAATATCAGGGAGATAGGAT-TACTAGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTACTGGCTTC
** *
51491601 AATCTGCTCTGCTATAATCTCAGGGAGATAAGATCT-CTGGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTACTGGCTTC
*
51491645 AATCTGCTCCACTGTAACCTCAGGGAGATAAGATCT
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATCT
51491681 GATGCGATCC
Statistics
Matches: 203, Mismatches: 40, Indels: 24
0.76 0.15 0.09
Matches are distributed among these distances:
40 1 0.00
41 28 0.14
42 2 0.01
43 3 0.01
44 130 0.64
45 4 0.02
46 33 0.16
47 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.29
Consensus pattern (45 bp):
AATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTACTGGCTTC
Found at i:51491758 original size:44 final size:43
Alignment explanation
Indices: 51491339--51491759 Score: 230
Period size: 44 Copynumber: 9.7 Consensus size: 43
51491329 ACCTGGTGCG
* * * *
51491339 ATCTACTCTACTGTAAAT-TCAGAGAGATAAGATCCTTTATTTTA
1 ATCTGCTCCACTGT-AATCTCAGGGAGATAAGAT-CTTTATTTCA
* * * *
51491383 ATCCGCTCCACTGTAATCTCAGGGAGATAGGAT-TACTAGCTTCA
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCT-TTA-TTTCA
** *
51491427 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCG
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCT-TTA-T-TTCA
* * * * ** * *
51491473 GTCTGTTCCACTGTAATCTCAGGGAAATAAGA-C-CTGGTGCG
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTTTATTTCA
* * * ** *
51491514 ATCTACTCTACTGTAA-CTTCAGAGAGATAAGATCCTTGGTTTTA
1 ATCTGCTCCACTGTAATC-TCAGGGAGATAAGAT-CTTTATTTCA
* * * * *
51491558 ATCCGCTCCACTGTAATATCAGGGAGATAGGAT-TACTAGCTTCA
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCT-TTA-TTTCA
** * ***
51491602 ATCTGCTCTGCTATAATCTCAGGGAGATAAGATCTCTGGCTTCA
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCT-TTATTTCA
* * * *
51491646 ATCTGCTCCACTGTAACCTCAGGGAGATAAGATC-TGA-TGCG
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTTTATTTCA
** ** * *
51491687 ATCCACTCTGCTGTAA-CTTCAGAGAGATAAGATCCTTTATTTTA
1 ATCTGCTCCACTGTAATC-TCAGGGAGATAAGAT-CTTTATTTCA
*
51491731 ATCCGCTCCACTGTAATCTCAGGGAGATA
1 ATCTGCTCCACTGTAATCTCAGGGAGATA
51491760 GGATTTGAAA
Statistics
Matches: 282, Mismatches: 77, Indels: 36
0.71 0.19 0.09
Matches are distributed among these distances:
40 2 0.01
41 55 0.20
42 5 0.02
43 8 0.03
44 175 0.62
45 5 0.02
46 32 0.11
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (43 bp):
ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTTTATTTCA
Found at i:51492044 original size:86 final size:87
Alignment explanation
Indices: 51491882--51492769 Score: 923
Period size: 88 Copynumber: 10.2 Consensus size: 87
51491872 GCTAGTGCTT
* * *
51491882 AGGAAGGCAATATCTGCTTCTTTAACTAGCTCCACTACAACCGAAGAGGCAAGGCTTTGT-T-TT
1 AGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTACAACCGAGGAGGCAAGGCTTTGTGTCTT
51491945 CGATCTGCTTCGCTGTTAATGC
66 CGATCTGCTTCGCTGTTAATGC
* * * *
51491967 AAGAAGGTAAGATCTGCTTCTTTAACCAGCTCCACTGCAACTGATGGAGGCAAGGCTTTGT-T-T
1 AGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTACAACCGA-GGAGGCAAGGCTTTGTGTCT
* * *
51492030 TTGGTCTGCTTCGCTGTTAATGT
65 TCGATCTGCTTCGCTGTTAATGC
* *
51492053 AAGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGT-T-T
1 AGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTACAACCGA-GGAGGCAAGGCTTTGTGTCT
* * * *
51492116 TTGGTCTGCTTCACTGTTAATGT
65 TCGATCTGCTTCGCTGTTAATGC
* * * *
51492139 AGGAAAGTAAGACCTGCTTCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGT-T-T
1 AGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTACAACCGA-GGAGGCAAGGCTTTGTGTCT
* * *
51492202 TTGGTCTGCTTCGCTGTTAATGT
65 TCGATCTGCTTCGCTGTTAATGC
* * *
51492225 AGGAAGGCAAGACCTGCTTCTTTAATCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTGTCT
1 AGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTACAACCGA-GGAGGCAAGGCTTTGTGTCT
* *
51492290 TCGACCTGCTTCGCTGTCAATGC
65 TCGATCTGCTTCGCTGTTAATGC
* ** * *
51492313 AGGAAGGCAAGATATTTTATCTTCAACCAGCTTCA-TCACAACCGAGAGAGGCAAGG-TTTGTGT
1 AGGAAGGCAAGATCTGCT-TCTTTAACCAGCTCCACT-ACAACCGAG-GAGGCAAGGCTTTGTGT
* * *
51492376 CTTCGACCTGCTTCGCTGTCAATAC
63 CTTCGATCTGCTTCGCTGTTAATGC
** *
51492401 AGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCA-TCACAACCGAGAGAGGCAAGG-TTTGTGT
1 AGGAAGGCAAGATCTGCT-TCTTTAACCAGCTCCACT-ACAACCGAG-GAGGCAAGGCTTTGTGT
*
51492464 CTTCGATCTACTTCGCTGTTAATGC
63 CTTCGATCTGCTTCGCTGTTAATGC
** *
51492489 AGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCA-TCACAACCGAGAGAGGCAAGG-TTTGTGT
1 AGGAAGGCAAGATCTGCT-TCTTTAACCAGCTCCACT-ACAACCGAG-GAGGCAAGGCTTTGTGT
51492552 CTTCGATCTGCTTCGCTGTTAATGC
63 CTTCGATCTGCTTCGCTGTTAATGC
** *
51492577 AGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCA-TCACAACCGAGAGAGGCAAGG-TTTGTGT
1 AGGAAGGCAAGATCTGCT-TCTTTAACCAGCTCCACT-ACAACCGAG-GAGGCAAGGCTTTGTGT
* * * ** *
51492640 CCTCGACCTGCTTCGCTCTCGATAC
63 CTTCGATCTGCTTCGCTGTTAATGC
** * * *
51492665 AGGAAGGCAAGATCTTTTGTCTTCAACCAGTTCCA-TCACAACCGAGAGAGGCAAGG-TTTATGT
1 AGGAAGGCAAGATCTGCT-TCTTTAACCAGCTCCACT-ACAACCGAG-GAGGCAAGGCTTTGTGT
* * *
51492728 CTGT-GACCTACTTCGCTGTCAATGC
63 CT-TCGATCTGCTTCGCTGTTAATGC
51492753 AGGAAGGCAAGATCTGC
1 AGGAAGGCAAGATCTGC
51492770 AACTTCATTG
Statistics
Matches: 738, Mismatches: 58, Indels: 11
0.91 0.07 0.01
Matches are distributed among these distances:
85 38 0.05
86 259 0.35
87 1 0.00
88 410 0.56
89 30 0.04
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.29
Consensus pattern (87 bp):
AGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTACAACCGAGGAGGCAAGGCTTTGTGTCTT
CGATCTGCTTCGCTGTTAATGC
Found at i:51492104 original size:43 final size:43
Alignment explanation
Indices: 51492057--51492278 Score: 109
Period size: 43 Copynumber: 5.2 Consensus size: 43
51492047 TAATGTAAGA
*
51492057 AGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGG
1 AGGCAAGATCTGCTTCTTTAATCAGCTCCACTGCAACCGATGG
* * ** * * * *
51492100 AGGCAAGGCTTTG-TT-TTTGGTCTGCTTCACTGTTAA-TG-TAGG
1 AGGCAA-GATCTGCTTCTTTAATCAGCTCCACTG-CAACCGAT-GG
* * * *
51492142 AAAGTAAGACCTGCTTCTTTAACCAGCTCCACTGCAACCGATGG
1 -AGGCAAGATCTGCTTCTTTAATCAGCTCCACTGCAACCGATGG
* * ** * * * * *
51492186 AGGCAAGGCTTTG-TT-TTTGGTCTGCTTCGCTGTTAA-TG-TAGG
1 AGGCAA-GATCTGCTTCTTTAATCAGCTCCACTG-CAACCGAT-GG
*
51492228 AAGGCAAGACCTGCTTCTTTAATCAGCTCCACTGCAACCGATGG
1 -AGGCAAGATCTGCTTCTTTAATCAGCTCCACTGCAACCGATGG
51492272 AGGCAAG
1 AGGCAAG
51492279 GCTTTGTGTC
Statistics
Matches: 119, Mismatches: 44, Indels: 32
0.61 0.23 0.16
Matches are distributed among these distances:
41 2 0.02
42 35 0.29
43 43 0.36
44 37 0.31
45 2 0.02
ACGTcount: A:0.23, C:0.23, G:0.24, T:0.29
Consensus pattern (43 bp):
AGGCAAGATCTGCTTCTTTAATCAGCTCCACTGCAACCGATGG
Found at i:51498999 original size:3 final size:3
Alignment explanation
Indices: 51498988--51499064 Score: 111
Period size: 3 Copynumber: 25.7 Consensus size: 3
51498978 CAATAATACC
* * *
51498988 AAT ACT AAT AAT AGT AA- AGAT AAT AGT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
51499033 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
51499065 GACTAGATTA
Statistics
Matches: 66, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
2 1 0.02
3 64 0.97
4 1 0.02
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:51504299 original size:21 final size:21
Alignment explanation
Indices: 51504267--51504307 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
51504257 AAGCTCGAGG
51504267 GGCCTGTTTTAGGCC-ATACAA
1 GGCCTGTTTTA-GCCTATACAA
51504288 GGCCT-TTCTTAGCCTATACA
1 GGCCTGTT-TTAGCCTATACA
51504308 CCAAATGTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.32
Consensus pattern (21 bp):
GGCCTGTTTTAGCCTATACAA
Found at i:51519091 original size:3 final size:3
Alignment explanation
Indices: 51519083--51519146 Score: 92
Period size: 3 Copynumber: 21.0 Consensus size: 3
51519073 AAATAAAGCC
* * *
51519083 AAT AAT AATT AAT AAT AGT AGT AAT GAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
51519129 AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT
51519147 GACACTAAAA
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
3 53 0.95
4 3 0.05
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:51520458 original size:50 final size:50
Alignment explanation
Indices: 51520381--51520558 Score: 161
Period size: 50 Copynumber: 3.6 Consensus size: 50
51520371 TAAGATCCGA
* *
51520381 TGTTGTAGCTTCAATCT-TTTTAATTGCAATGTTAGGGGAGTAAGA-TACGC
1 TGTTGTAGCTTCAATCTATTCT-GTTGCAATGTTAGGGGAGTAAGACT-CGC
* ** ** *
51520431 TGTTGTAGCTTCAATCTATTCCGTTGC-ATCGCCA-ATGATGTGAGACTCGC
1 TGTTGTAGCTTCAATCTATTCTGTTGCAAT-GTTAGGGGA-GTAAGACTCGC
* *
51520481 TGTTGTAGCTTCAATCTATT-TGACTGCAATGTT-GGGGAAGTGAGACTCGC
1 TGTTGTAGCTTCAATCTATTCTG-TTGCAATGTTAGGGG-AGTAAGACTCGC
*
51520531 TGTTGTAGCTTCAATCTGTTCTGTTGCA
1 TGTTGTAGCTTCAATCTATTCTGTTGCA
51520559 TCGCCTGGAA
Statistics
Matches: 103, Mismatches: 16, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
49 5 0.05
50 90 0.87
51 8 0.08
ACGTcount: A:0.21, C:0.17, G:0.24, T:0.37
Consensus pattern (50 bp):
TGTTGTAGCTTCAATCTATTCTGTTGCAATGTTAGGGGAGTAAGACTCGC
Found at i:51520640 original size:96 final size:96
Alignment explanation
Indices: 51520359--51521377 Score: 1504
Period size: 96 Copynumber: 10.5 Consensus size: 96
51520349 GTCCATTGTG
* * ** * * * * *
51520359 TCGCCTGGGAAGTAAGATCCGATGTTGTAGCTTCAATCTTTTTAATTGCAATGTTAGGGGAGTAA
1 TCGCCT-GAAAGTAAGATTCGCCGTTGTGGCTTCGATCTTTTAAATTGCAATG---GGGAAGTGA
* * *
51520424 GA-TACGCTGTTGTAGCTTCAATCTATTCCGTTGCA
62 GACT-CGCCGTTGTAGCTTCAATCTGTTCCGCTGCA
* * * * * * * *
51520459 TCGCCAATG-ATGTGAGACTCGCTGTTGTAGCTTCAATCTATTT-GACTGCAATGTTGGGGAAGT
1 TCGCC--TGAAAGTAAGATTCGCCGTTGTGGCTTCGATCT-TTTAAATTGCAA---TGGGGAAGT
* * *
51520522 GAGACTCGCTGTTGTAGCTTCAATCTGTTCTGTTGCA
60 GAGACTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCA
* *
51520559 TCGCCTGGAAGTAAGATTCGCCGTTGTGGCTTTGATCTTTTAAATTGCAATGGGGAAGTGAGACT
1 TCGCCTGAAAGTAAGATTCGCCGTTGTGGCTTCGATCTTTTAAATTGCAATGGGGAAGTGAGACT
51520624 CGCCGTTGTAGCTTCAATCTGTTCCGCTGCA
66 CGCCGTTGTAGCTTCAATCTGTTCCGCTGCA
*
51520655 TCGCCTGAAAGTAAGATTTGCCGTTGTGGCTTCGATCTTTTAAATTGCAATGGGGAAGTGAGACT
1 TCGCCTGAAAGTAAGATTCGCCGTTGTGGCTTCGATCTTTTAAATTGCAATGGGGAAGTGAGACT
*
51520720 CGCCATTGTAGCTTCAATCTGTTCCGCTGCA
66 CGCCGTTGTAGCTTCAATCTGTTCCGCTGCA
51520751 TCGCCTGAAAGTAAGATTCGCCGTTGTGGCTTCGATCTTTTAAATTGCAATGGGGAAGTGAGACT
1 TCGCCTGAAAGTAAGATTCGCCGTTGTGGCTTCGATCTTTTAAATTGCAATGGGGAAGTGAGACT
* *
51520816 CGCTGTTGTAGCTTTAATCTGTTCCGCTGCA
66 CGCCGTTGTAGCTTCAATCTGTTCCGCTGCA
*
51520847 TCGCCTGAAAGTAAGATTCGCCGTTGTGGCTTCGATATTTTAAATTGCAATGGGGAAGTGAGACT
1 TCGCCTGAAAGTAAGATTCGCCGTTGTGGCTTCGATCTTTTAAATTGCAATGGGGAAGTGAGACT
* *
51520912 CACCATTGTAGCTTCAATCTGTTCCGCTGCA
66 CGCCGTTGTAGCTTCAATCTGTTCCGCTGCA
* *
51520943 TTGCCTGAAAGTAAGATTTGCCGTTGTGGCTTCGATCTTTTAAATTGCAATGGGGAAGTGAGACT
1 TCGCCTGAAAGTAAGATTCGCCGTTGTGGCTTCGATCTTTTAAATTGCAATGGGGAAGTGAGACT
* *
51521008 CGCCATTGTAGCTTCAATCTATTCCGCTGCA
66 CGCCGTTGTAGCTTCAATCTGTTCCGCTGCA
*
51521039 TCGCCTGAAAGTAAGATTCGCCGTTGTGGCTTGGATCTTTTAAATTGCAATGGGGAAGTGAGACT
1 TCGCCTGAAAGTAAGATTCGCCGTTGTGGCTTCGATCTTTTAAATTGCAATGGGGAAGTGAGACT
* *
51521104 CGCCGTTGTAGCTTCAATCTGTTCCACTACA
66 CGCCGTTGTAGCTTCAATCTGTTCCGCTGCA
* * *
51521135 TCGCCTGAAAGTAAGATTTGCCGTTGTGGCTTCAATATTTTAAATTGCAATGGGGAAGTGAGACT
1 TCGCCTGAAAGTAAGATTCGCCGTTGTGGCTTCGATCTTTTAAATTGCAATGGGGAAGTGAGACT
51521200 CGCCGTTGTAGCTTCAATCTGTTCCGCTGCA
66 CGCCGTTGTAGCTTCAATCTGTTCCGCTGCA
* *
51521231 TCGCCTGAAAGTAAGATTTGCCGTTGTGGCTTCGATCTTTTAAATTACAATGGGGAAGTGAGACT
1 TCGCCTGAAAGTAAGATTCGCCGTTGTGGCTTCGATCTTTTAAATTGCAATGGGGAAGTGAGACT
* *
51521296 TGCCGTTGTAGCTTCAATCTGTTCCGCTGTA
66 CGCCGTTGTAGCTTCAATCTGTTCCGCTGCA
51521327 TCGCCTGAAAGTAAGATTCGCCGTTGTGGCTTCGATCTTTTAAATTGCAAT
1 TCGCCTGAAAGTAAGATTCGCCGTTGTGGCTTCGATCTTTTAAATTGCAAT
51521378 CTATGGTTAC
Statistics
Matches: 849, Mismatches: 61, Indels: 22
0.91 0.07 0.02
Matches are distributed among these distances:
96 728 0.86
98 5 0.01
99 29 0.03
100 79 0.09
101 5 0.01
102 1 0.00
103 2 0.00
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.33
Consensus pattern (96 bp):
TCGCCTGAAAGTAAGATTCGCCGTTGTGGCTTCGATCTTTTAAATTGCAATGGGGAAGTGAGACT
CGCCGTTGTAGCTTCAATCTGTTCCGCTGCA
Found at i:51529730 original size:12 final size:12
Alignment explanation
Indices: 51529689--51529722 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
51529679 GCTAGTTTTT
51529689 CTTGCATCTGAG
1 CTTGCATCTGAG
51529701 CTTGCATCTGAG
1 CTTGCATCTGAG
51529713 CTTGCATCTG
1 CTTGCATCTG
51529723 TTCTTGCAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.15, C:0.26, G:0.24, T:0.35
Consensus pattern (12 bp):
CTTGCATCTGAG
Found at i:51534145 original size:3 final size:3
Alignment explanation
Indices: 51534137--51534185 Score: 62
Period size: 3 Copynumber: 16.0 Consensus size: 3
51534127 AAATAAAGCC
* * *
51534137 AAT AAT AATT AAT AAT AGT AGT AAT GAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
51534183 AAT
1 AAT
51534186 GACACTAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
3 38 0.93
4 3 0.07
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:51538094 original size:17 final size:18
Alignment explanation
Indices: 51538064--51538109 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
51538054 ATTTAAATTG
51538064 CGGTCGCGGTCGCGTTTT
1 CGGTCGCGGTCGCGTTTT
51538082 CGGTCGC-GTCGCG-TTT
1 CGGTCGCGGTCGCGTTTT
51538098 --GTCGCGGTCGCG
1 CGGTCGCGGTCGCG
51538110 GACATAACGG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 5 0.19
15 6 0.22
16 3 0.11
17 6 0.22
18 7 0.26
ACGTcount: A:0.00, C:0.30, G:0.41, T:0.28
Consensus pattern (18 bp):
CGGTCGCGGTCGCGTTTT
Found at i:51543260 original size:21 final size:21
Alignment explanation
Indices: 51543228--51543268 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
51543218 GAACATTTGG
51543228 TGTATAGGCTAAGAA-AGGCCT
1 TGTATAGGCTAA-AACAGGCCT
51543249 TGTAT-GGCCTAAAACAGGCC
1 TGTATAGG-CTAAAACAGGCC
51543269 CCTCGAGCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.32, C:0.20, G:0.27, T:0.22
Consensus pattern (21 bp):
TGTATAGGCTAAAACAGGCCT
Found at i:51546381 original size:13 final size:13
Alignment explanation
Indices: 51546363--51546395 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
51546353 GGACATTACC
51546363 CCCCAACACAATA
1 CCCCAACACAATA
51546376 CCCCAACACAATA
1 CCCCAACACAATA
51546389 CACCCAA
1 C-CCCAA
51546396 ATAAAGAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.45, C:0.48, G:0.00, T:0.06
Consensus pattern (13 bp):
CCCCAACACAATA
Found at i:51549730 original size:33 final size:33
Alignment explanation
Indices: 51549689--51549758 Score: 131
Period size: 33 Copynumber: 2.1 Consensus size: 33
51549679 TCTCGTGATT
*
51549689 ATTTTTTTCAATAATATTATCTTTAAAATTTAA
1 ATTTTTTTCAATAATATCATCTTTAAAATTTAA
51549722 ATTTTTTTCAATAATATCATCTTTAAAATTTAA
1 ATTTTTTTCAATAATATCATCTTTAAAATTTAA
51549755 ATTT
1 ATTT
51549759 ATATTTTTTA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.54
Consensus pattern (33 bp):
ATTTTTTTCAATAATATCATCTTTAAAATTTAA
Found at i:51551168 original size:55 final size:55
Alignment explanation
Indices: 51551097--51551315 Score: 276
Period size: 55 Copynumber: 4.0 Consensus size: 55
51551087 CAATTATCAT
* * * * * ** **
51551097 GTTGGAATAGTGCTTCTTTTGAGTCGATTCTTTATATCTTTAAATCGATTGCCAA
1 GTTGGAATACTACTTCTTTTGAATCGATTGTGTATATGATTAAATCGATTGTTAA
* *
51551152 GTTGGAACACTACTTCTTTTGAATCGATTGTGTATATGATTAAATTGATTGTTAA
1 GTTGGAATACTACTTCTTTTGAATCGATTGTGTATATGATTAAATCGATTGTTAA
* * * *
51551207 GTTGGAATACTGCTTCTTTTTAATTGATTGTGTATATGATTAAATCGATTGTTAT
1 GTTGGAATACTACTTCTTTTGAATCGATTGTGTATATGATTAAATCGATTGTTAA
* * *
51551262 GTTGGAATACTACTTCTTCTGAATCGATTGTTTATATGTTTAAATCGATTGTTA
1 GTTGGAATACTACTTCTTTTGAATCGATTGTGTATATGATTAAATCGATTGTTA
51551316 CATAACACAT
Statistics
Matches: 141, Mismatches: 23, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
55 141 1.00
ACGTcount: A:0.26, C:0.11, G:0.18, T:0.46
Consensus pattern (55 bp):
GTTGGAATACTACTTCTTTTGAATCGATTGTGTATATGATTAAATCGATTGTTAA
Found at i:51552648 original size:55 final size:55
Alignment explanation
Indices: 51552555--51552706 Score: 198
Period size: 55 Copynumber: 2.8 Consensus size: 55
51552545 ACTTCTTCTT
* **
51552555 CTTCTTTTGAATCGATTGTTTATATGTTTAAATCGATTGTTATGTTGGAATACT-
1 CTTCTTTTGAATCGATTGTTTATATGTTCAAATCGATTGTTATGTTAAAATACTA
* * * *
51552609 GTTGCTTTTGAATCAACTGTTTATATGTTCAAATTGATTGTTATGTTAAAATACTA
1 CTT-CTTTTGAATCGATTGTTTATATGTTCAAATCGATTGTTATGTTAAAATACTA
* * *
51552665 CTTCTTTTGAATCGATTGTTTATATGTTTAGATCAATTGTTA
1 CTTCTTTTGAATCGATTGTTTATATGTTCAAATCGATTGTTA
51552707 CGTAGCACAT
Statistics
Matches: 82, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
54 2 0.02
55 78 0.95
56 2 0.02
ACGTcount: A:0.26, C:0.09, G:0.15, T:0.49
Consensus pattern (55 bp):
CTTCTTTTGAATCGATTGTTTATATGTTCAAATCGATTGTTATGTTAAAATACTA
Found at i:51554018 original size:21 final size:21
Alignment explanation
Indices: 51553994--51554035 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
51553984 TATAAATTAT
* *
51553994 TAAATAGTATTAAAAATAATA
1 TAAATAATATTAAAAAAAATA
*
51554015 TAAATAATTTTAAAAAAAATA
1 TAAATAATATTAAAAAAAATA
51554036 ATATGGGTGG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (21 bp):
TAAATAATATTAAAAAAAATA
Found at i:51554822 original size:76 final size:74
Alignment explanation
Indices: 51554722--51554930 Score: 283
Period size: 74 Copynumber: 2.8 Consensus size: 74
51554712 CCAGAAAAGT
* *
51554722 CAAACACAAATACAGTCTGTATCTTCAGTTCATAAACATCCCAATAAACCATTGGGATTCAAACA
1 CAAACAC--ATACTGTCTGTATCTTCAGTTCATAAACATCCCAATAAACCATTGAGATTCAAACA
51554787 CAAAACCATCACA
64 C--AACCATCACA
* * *
51554800 CAAACACATATTGTCTGCATCTTCAGTTCATAAACATCCCAATAAACCATTGACATTCAAACACA
1 CAAACACATACTGTCTGTATCTTCAGTTCATAAACATCCCAATAAACCATTGAGATTCAAACACA
51554865 ACCATCACA
66 ACCATCACA
** * * * *
51554874 CAAATGCATACTGGCAGTATCTTCAGTTTATAAGCATCCCAATAAACCATTGAGATT
1 CAAACACATACTGTCTGTATCTTCAGTTCATAAACATCCCAATAAACCATTGAGATT
51554931 GTATTTCAAA
Statistics
Matches: 117, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
74 58 0.50
76 52 0.44
78 7 0.06
ACGTcount: A:0.40, C:0.26, G:0.09, T:0.25
Consensus pattern (74 bp):
CAAACACATACTGTCTGTATCTTCAGTTCATAAACATCCCAATAAACCATTGAGATTCAAACACA
ACCATCACA
Found at i:51555044 original size:42 final size:42
Alignment explanation
Indices: 51554983--51555103 Score: 188
Period size: 42 Copynumber: 2.9 Consensus size: 42
51554973 CAACCTGGCT
** * *
51554983 AGCTTCAGTTGGTTTTCTTTTAACTCAGCTTCGTCCTGATCC
1 AGCTTCAGTTTCTTCTCTTTTAAGTCAGCTTCGTCCTGATCC
51555025 AGCTTCAGTTTCTTCTCTTTTAAGTCAGCTTCGTCCTGATCC
1 AGCTTCAGTTTCTTCTCTTTTAAGTCAGCTTCGTCCTGATCC
* *
51555067 AGCTTCAATTTCTTCTCTTTTAAGTCAGCTTCATCCT
1 AGCTTCAGTTTCTTCTCTTTTAAGTCAGCTTCGTCCT
51555104 TGTTGGAACA
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 73 1.00
ACGTcount: A:0.16, C:0.27, G:0.13, T:0.44
Consensus pattern (42 bp):
AGCTTCAGTTTCTTCTCTTTTAAGTCAGCTTCGTCCTGATCC
Found at i:51562287 original size:21 final size:21
Alignment explanation
Indices: 51562261--51562303 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
51562251 TAGCTAGGAG
*
51562261 AACTGATTGGGTAAGAATGAC
1 AACTGATTGGGCAAGAATGAC
*
51562282 AACTGATTGGGCAAGAGTGAC
1 AACTGATTGGGCAAGAATGAC
51562303 A
1 A
51562304 TGTCCCACAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.37, C:0.12, G:0.30, T:0.21
Consensus pattern (21 bp):
AACTGATTGGGCAAGAATGAC
Found at i:51562468 original size:12 final size:11
Alignment explanation
Indices: 51562452--51562492 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
51562442 GATAATTCTA
51562452 AAAAAATTATC
1 AAAAAATTATC
51562463 AAAAAATTAT-
1 AAAAAATTATC
**
51562473 -TTAAATTATC
1 AAAAAATTATC
51562483 AAAAAATTAT
1 AAAAAATTAT
51562493 TTAAATTTTC
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
9 7 0.29
11 17 0.71
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (11 bp):
AAAAAATTATC
Found at i:51562480 original size:20 final size:20
Alignment explanation
Indices: 51562455--51562515 Score: 113
Period size: 20 Copynumber: 3.0 Consensus size: 20
51562445 AATTCTAAAA
51562455 AAATTATCAAAAAATTATTT
1 AAATTATCAAAAAATTATTT
51562475 AAATTATCAAAAAATTATTT
1 AAATTATCAAAAAATTATTT
*
51562495 AAATTTTCAAAAAATTATTT
1 AAATTATCAAAAAATTATTT
51562515 A
1 A
51562516 TTTTCTAAAT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (20 bp):
AAATTATCAAAAAATTATTT
Found at i:51569068 original size:6 final size:6
Alignment explanation
Indices: 51569020--51569070 Score: 50
Period size: 6 Copynumber: 8.2 Consensus size: 6
51569010 AAAAAATTCC
* *
51569020 TATTAT TATTATT TATTTT TACTATTT TA-TTT TATTTT CATTTT TATTTT
1 TATTTT TATT-TT TATTTT TA-T-TTT TATTTT TATTTT TATTTT TATTTT
51569070 T
1 T
51569071 GCAGAAAACA
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
5 5 0.13
6 22 0.58
7 6 0.16
8 5 0.13
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.75
Consensus pattern (6 bp):
TATTTT
Found at i:51588489 original size:48 final size:48
Alignment explanation
Indices: 51588418--51588514 Score: 167
Period size: 48 Copynumber: 2.0 Consensus size: 48
51588408 TGCCAAATAC
*
51588418 TTTATCAGTCTTAAACAAATTATTCTTTGCATCAACAAACCTTTTCCA
1 TTTATCAGTCTTAAACAAATTATTCTTCGCATCAACAAACCTTTTCCA
**
51588466 TTTATCAGTCTTAAACAAATTATTCTTCGCATCAACAAATTTTTTCCA
1 TTTATCAGTCTTAAACAAATTATTCTTCGCATCAACAAACCTTTTCCA
51588514 T
1 T
51588515 GACATTCCAC
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.33, C:0.22, G:0.04, T:0.41
Consensus pattern (48 bp):
TTTATCAGTCTTAAACAAATTATTCTTCGCATCAACAAACCTTTTCCA
Found at i:51589023 original size:17 final size:17
Alignment explanation
Indices: 51589001--51589034 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
51588991 ATCCACTAAT
*
51589001 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
51589018 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
51589035 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:51593662 original size:17 final size:17
Alignment explanation
Indices: 51593640--51593673 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
51593630 ATCCACTAAT
*
51593640 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
51593657 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
51593674 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:51594156 original size:42 final size:42
Alignment explanation
Indices: 51594097--51594177 Score: 144
Period size: 42 Copynumber: 1.9 Consensus size: 42
51594087 TTGCAAGCAT
51594097 CGACACCATAGAATCATATAAGAAAATCTACAAACTACGATG
1 CGACACCATAGAATCATATAAGAAAATCTACAAACTACGATG
* *
51594139 CGACACCATAGAATCATATAAGAACATCTATAAACTACG
1 CGACACCATAGAATCATATAAGAAAATCTACAAACTACG
51594178 TAGACGACTT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.47, C:0.22, G:0.11, T:0.20
Consensus pattern (42 bp):
CGACACCATAGAATCATATAAGAAAATCTACAAACTACGATG
Found at i:51595374 original size:14 final size:14
Alignment explanation
Indices: 51595355--51595386 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
51595345 TTTAACTGTG
51595355 AACAAAATATGTTT
1 AACAAAATATGTTT
51595369 AACAAAATATGTTT
1 AACAAAATATGTTT
51595383 AACA
1 AACA
51595387 TGCATTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.53, C:0.09, G:0.06, T:0.31
Consensus pattern (14 bp):
AACAAAATATGTTT
Found at i:51601455 original size:110 final size:110
Alignment explanation
Indices: 51601219--51601536 Score: 455
Period size: 110 Copynumber: 2.9 Consensus size: 110
51601209 TAAATTCAAT
* * * *
51601219 AGGATATTTGGCAATTTGGTTAAACGAG--AAATTGAAACCCAGCACCTTAGGGCACG-TTCCTC
1 AGGATATTTAGCAATTTGGTTGAACGAGAAAAATCGAAACCCAGCACCTTAGGGCACGTTTTCTC
* *
51601281 GAATTCCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTAAGA
66 GAATTTCTAAACGCAAAACATTGCCTTATTTTGAAATTTTTAAGA
* * * *
51601326 AGGATATTAAGCCATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTC
1 AGGATATTTAGCAATTTGGTTGAACGAGAAAAATCGAAACCCAGCACCTTAGGGCACGTTTTCTC
*
51601391 GAATTTCTAAACGGCAAAACATTGCCTTATTTTGAAATTTTTGA-A
66 GAATTTCTAAAC-GCAAAACATTGCCTTATTTTGAAATTTTTAAGA
* *
51601436 AGGATATTTAGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTC
1 AGGATATTTAGCAATTTGGTTGAACGAGAAAAATCGAAACCCAGCACCTTAGGGCACGTTTTCTC
* * *
51601501 GAATTTCTAAAAGCTAAACATTGCCTTATTTAGAAA
66 GAATTTCTAAACGCAAAACATTGCCTTATTTTGAAA
51601537 AATTTTCCTT
Statistics
Matches: 188, Mismatches: 19, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
107 24 0.13
109 47 0.25
110 87 0.46
111 30 0.16
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (110 bp):
AGGATATTTAGCAATTTGGTTGAACGAGAAAAATCGAAACCCAGCACCTTAGGGCACGTTTTCTC
GAATTTCTAAACGCAAAACATTGCCTTATTTTGAAATTTTTAAGA
Found at i:51604619 original size:125 final size:125
Alignment explanation
Indices: 51604410--51604937 Score: 930
Period size: 125 Copynumber: 4.2 Consensus size: 125
51604400 GATTCGCCAT
51604410 TGTGGCTTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTA
1 TGTGGCTTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTA
* * *
51604475 TTCCACTGCACCGCTTGGGGCGTAATATTCGCTGTTGTAGCTTTAATTAAGATTCACCGA
66 TTCCACTGCATCGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAGATTCACCGA
* *
51604535 TGTGGCTTTAATCTTTTTAACTGCAATGTTGGAGAAATAAGATTCACCAATTTGGCTTTAATCTA
1 TGTGGCTTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTA
* *
51604600 TTCCACTGCATCGCTTGGGGCGTAAGATTCGCTGTTGTTGCTTTAATGAAGATTCACCGA
66 TTCCACTGCATCGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAGATTCACCGA
*
51604660 TGTGGCTTTAATCTTTTTAACTGCAATGTTGGAGAAACAAGATTCACCAATTTGGCTTTAATCTA
1 TGTGGCTTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTA
51604725 TTCCACTGCATCGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAGATTCACCGA
66 TTCCACTGCATCGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAGATTCACCGA
*
51604785 TGTGGCTTTAATCTTTTTAACTGCAATATCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTA
1 TGTGGCTTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTA
* *
51604850 TTCCACTGCATCACTTGGGGCGTAAAATTCGCTGTTGTAGCTTTAATCAAGATTCACCGA
66 TTCCACTGCATCGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAGATTCACCGA
* * *
51604910 TGTGGCTTCAATCTTTTAAATTGCAATG
1 TGTGGCTTTAATCTTTTTAACTGCAATG
51604938 GGGAAGTGAG
Statistics
Matches: 386, Mismatches: 17, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
125 386 1.00
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (125 bp):
TGTGGCTTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTA
TTCCACTGCATCGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAGATTCACCGA
Found at i:51605014 original size:49 final size:49
Alignment explanation
Indices: 51604941--51605097 Score: 148
Period size: 49 Copynumber: 3.3 Consensus size: 49
51604931 TGCAATGGGG
*
51604941 AAGTGAGACTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCACCTGA
1 AAGTAAGACTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCACCTGA
* * * * *** *
51604990 AAGTAAGATTCGCCATTGTGGCTTCGATCT-TT----TGCA--ATGGGG
1 AAGTAAGACTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCACCTGA
* *
51605032 AAGTGAGACTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCTGA
1 AAGTAAGACTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCACCTGA
* *
51605081 AAGTAAGATTCACCGTT
1 AAGTAAGACTCGCCGTT
51605098 ATGGCTTCGA
Statistics
Matches: 79, Mismatches: 22, Indels: 14
0.69 0.19 0.12
Matches are distributed among these distances:
42 27 0.34
43 2 0.03
44 4 0.05
47 4 0.05
48 2 0.03
49 40 0.51
ACGTcount: A:0.22, C:0.24, G:0.24, T:0.30
Consensus pattern (49 bp):
AAGTAAGACTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCACCTGA
Found at i:51605048 original size:91 final size:91
Alignment explanation
Indices: 51604930--51605113 Score: 332
Period size: 91 Copynumber: 2.0 Consensus size: 91
51604920 ATCTTTTAAA
51604930 TTGCAATGGGGAAGTGAGACTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCACCTGAAAGTA
1 TTGCAATGGGGAAGTGAGACTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCACCTGAAAGTA
* *
51604995 AGATTCGCCATTGTGGCTTCGATCTT
66 AGATTCACCATTATGGCTTCGATCTT
*
51605021 TTGCAATGGGGAAGTGAGACTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCTGAAAGTA
1 TTGCAATGGGGAAGTGAGACTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCACCTGAAAGTA
*
51605086 AGATTCACCGTTATGGCTTCGATCTT
66 AGATTCACCATTATGGCTTCGATCTT
51605112 TT
1 TT
51605114 AAATTGCAAT
Statistics
Matches: 89, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
91 89 1.00
ACGTcount: A:0.21, C:0.23, G:0.25, T:0.32
Consensus pattern (91 bp):
TTGCAATGGGGAAGTGAGACTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCACCTGAAAGTA
AGATTCACCATTATGGCTTCGATCTT
Found at i:51606278 original size:21 final size:21
Alignment explanation
Indices: 51606252--51606297 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
51606242 GGTAAAGCAA
51606252 GATCACTACATGCCCCAATCT
1 GATCACTACATGCCCCAATCT
* *
51606273 GATCACTTCATGCCCCAATTT
1 GATCACTACATGCCCCAATCT
51606294 GATC
1 GATC
51606298 CAAAACTTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.26, C:0.35, G:0.11, T:0.28
Consensus pattern (21 bp):
GATCACTACATGCCCCAATCT
Found at i:51610777 original size:17 final size:17
Alignment explanation
Indices: 51610751--51610784 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
51610741 CCCGAAAAGT
*
51610751 GGTTGTTTTTAATAAAA
1 GGTTGATTTTAATAAAA
*
51610768 GGTTGATTTTATTAAAA
1 GGTTGATTTTAATAAAA
51610785 CAACAAGTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.18, T:0.47
Consensus pattern (17 bp):
GGTTGATTTTAATAAAA
Found at i:51611209 original size:109 final size:109
Alignment explanation
Indices: 51610977--51611291 Score: 435
Period size: 109 Copynumber: 2.9 Consensus size: 109
51610967 TAAATTCAAT
* * *
51610977 AGGATATTTGGCAATTTGGTTAAACGAG--AAAT-GAAACCCAGCACCTTAGGGCACG-TTCCTC
1 AGGATATTTAGCAATTTGGTTGAACGAGAAAAATCGAAACCCAGCACCTTAGGGCACGTTTTCTC
*
51611038 GAATTCCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTAAGA
66 GAATT-TCAAACGCAAAACATTGCCTTATTTTGAAATTTTTAAGA
* * * *
51611083 AGGATATTAAGCCATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTC
1 AGGATATTTAGCAATTTGGTTGAACGAGAAAAATCGAAACCCAGCACCTTAGGGCACGTTTTCTC
*
51611148 GAATTTCTAAACGGCAAAACATTGCCTTATTTTGAAA-TTTTGA-A
66 GAATTTC-AAAC-GCAAAACATTGCCTTATTTTGAAATTTTTAAGA
* *
51611192 AGGATATTTAGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTC
1 AGGATATTTAGCAATTTGGTTGAACGAGAAAAATCGAAACCCAGCACCTTAGGGCACGTTTTCTC
* * *
51611257 GAATTTCAAAAGCTAAACATTGCCTTATTTAGAAA
66 GAATTTCAAACGCAAAACATTGCCTTATTTTGAAA
51611292 AATTTTCCTT
Statistics
Matches: 186, Mismatches: 17, Indels: 11
0.87 0.08 0.05
Matches are distributed among these distances:
106 24 0.13
107 22 0.12
108 7 0.04
109 90 0.48
110 19 0.10
111 24 0.13
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.29
Consensus pattern (109 bp):
AGGATATTTAGCAATTTGGTTGAACGAGAAAAATCGAAACCCAGCACCTTAGGGCACGTTTTCTC
GAATTTCAAACGCAAAACATTGCCTTATTTTGAAATTTTTAAGA
Found at i:51614345 original size:125 final size:125
Alignment explanation
Indices: 51614136--51614663 Score: 930
Period size: 125 Copynumber: 4.2 Consensus size: 125
51614126 GATTCGCCAT
51614136 TGTGGCTTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTA
1 TGTGGCTTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTA
* * *
51614201 TTCCACTGCACCGCTTGGGGCGTAATATTCGCTGTTGTAGCTTTAATTAAGATTCACCGA
66 TTCCACTGCATCGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAGATTCACCGA
* *
51614261 TGTGGCTTTAATCTTTTTAACTGCAATGTTGGAGAAATAAGATTCACCAATTTGGCTTTAATCTA
1 TGTGGCTTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTA
* *
51614326 TTCCACTGCATCGCTTGGGGCGTAAGATTCGCTGTTGTTGCTTTAATGAAGATTCACCGA
66 TTCCACTGCATCGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAGATTCACCGA
*
51614386 TGTGGCTTTAATCTTTTTAACTGCAATGTTGGAGAAACAAGATTCACCAATTTGGCTTTAATCTA
1 TGTGGCTTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTA
51614451 TTCCACTGCATCGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAGATTCACCGA
66 TTCCACTGCATCGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAGATTCACCGA
*
51614511 TGTGGCTTTAATCTTTTTAACTGCAATATCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTA
1 TGTGGCTTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTA
* *
51614576 TTCCACTGCATCACTTGGGGCGTAAAATTCGCTGTTGTAGCTTTAATCAAGATTCACCGA
66 TTCCACTGCATCGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAGATTCACCGA
* * *
51614636 TGTGGCTTCAATCTTTTAAATTGCAATG
1 TGTGGCTTTAATCTTTTTAACTGCAATG
51614664 GGGAAGTGAG
Statistics
Matches: 386, Mismatches: 17, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
125 386 1.00
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (125 bp):
TGTGGCTTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTA
TTCCACTGCATCGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAGATTCACCGA
Found at i:51614740 original size:49 final size:49
Alignment explanation
Indices: 51614667--51614823 Score: 148
Period size: 49 Copynumber: 3.3 Consensus size: 49
51614657 TGCAATGGGG
*
51614667 AAGTGAGACTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCACCTGA
1 AAGTAAGACTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCACCTGA
* * * * *** *
51614716 AAGTAAGATTCGCCATTGTGGCTTCGATCT-TT----TGCA--ATGGGG
1 AAGTAAGACTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCACCTGA
* *
51614758 AAGTGAGACTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCTGA
1 AAGTAAGACTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCACCTGA
* *
51614807 AAGTAAGATTCACCGTT
1 AAGTAAGACTCGCCGTT
51614824 ATGGCTTCGA
Statistics
Matches: 79, Mismatches: 22, Indels: 14
0.69 0.19 0.12
Matches are distributed among these distances:
42 27 0.34
43 2 0.03
44 4 0.05
47 4 0.05
48 2 0.03
49 40 0.51
ACGTcount: A:0.22, C:0.24, G:0.24, T:0.30
Consensus pattern (49 bp):
AAGTAAGACTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCACCTGA
Found at i:51614774 original size:91 final size:91
Alignment explanation
Indices: 51614656--51614839 Score: 332
Period size: 91 Copynumber: 2.0 Consensus size: 91
51614646 ATCTTTTAAA
51614656 TTGCAATGGGGAAGTGAGACTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCACCTGAAAGTA
1 TTGCAATGGGGAAGTGAGACTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCACCTGAAAGTA
* *
51614721 AGATTCGCCATTGTGGCTTCGATCTT
66 AGATTCACCATTATGGCTTCGATCTT
*
51614747 TTGCAATGGGGAAGTGAGACTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCTGAAAGTA
1 TTGCAATGGGGAAGTGAGACTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCACCTGAAAGTA
*
51614812 AGATTCACCGTTATGGCTTCGATCTT
66 AGATTCACCATTATGGCTTCGATCTT
51614838 TT
1 TT
51614840 AAATTGCAAT
Statistics
Matches: 89, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
91 89 1.00
ACGTcount: A:0.21, C:0.23, G:0.25, T:0.32
Consensus pattern (91 bp):
TTGCAATGGGGAAGTGAGACTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCACCTGAAAGTA
AGATTCACCATTATGGCTTCGATCTT
Found at i:51616007 original size:21 final size:21
Alignment explanation
Indices: 51615981--51616026 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
51615971 GGTAAAGCAA
51615981 GATCACTACATGCCCCAATCT
1 GATCACTACATGCCCCAATCT
* *
51616002 GATCACTTCATGCCCCAATTT
1 GATCACTACATGCCCCAATCT
51616023 GATC
1 GATC
51616027 CAAAACTTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.26, C:0.35, G:0.11, T:0.28
Consensus pattern (21 bp):
GATCACTACATGCCCCAATCT
Found at i:51621168 original size:110 final size:109
Alignment explanation
Indices: 51620934--51621251 Score: 446
Period size: 110 Copynumber: 2.9 Consensus size: 109
51620924 TAAATTCAAT
* * *
51620934 AGGATATTTGGCAATTTGGTTAAACGAG--AAATCGAAACCCAGCACCTTAGGGCACG-TTCCTC
1 AGGATATTTAGCAATTTGGTTGAACGAGAAAAATCGAAACCCAGCACCTTAGGGCACGTTTTCTC
*
51620996 GAATTCCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTAAGA
66 GAATT-CCAAACGCAAAACATTGCCTTATTTTGAAACTTTTAAGA
* * * *
51621041 AGGATATTAAGCCATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTC
1 AGGATATTTAGCAATTTGGTTGAACGAGAAAAATCGAAACCCAGCACCTTAGGGCACGTTTTCTC
*
51621106 GAATTCCTAAACGGCAAAACATTGCCTTATTTTGAAACTTTTGA-A
66 GAATTCC-AAAC-GCAAAACATTGCCTTATTTTGAAACTTTTAAGA
* *
51621151 AGGATATTTAGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTC
1 AGGATATTTAGCAATTTGGTTGAACGAGAAAAATCGAAACCCAGCACCTTAGGGCACGTTTTCTC
* * *
51621216 GAATTTCCAAAAGCTAAACATTGCCTTATTTAGAAA
66 GAA-TTCCAAACGCAAAACATTGCCTTATTTTGAAA
51621252 AATTTTCCTT
Statistics
Matches: 188, Mismatches: 17, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
107 24 0.13
109 50 0.27
110 81 0.43
111 33 0.18
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (109 bp):
AGGATATTTAGCAATTTGGTTGAACGAGAAAAATCGAAACCCAGCACCTTAGGGCACGTTTTCTC
GAATTCCAAACGCAAAACATTGCCTTATTTTGAAACTTTTAAGA
Found at i:51645392 original size:15 final size:16
Alignment explanation
Indices: 51645367--51645396 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
51645357 AATGGATACT
51645367 TAATAAAAAAACTTGG
1 TAATAAAAAAACTTGG
51645383 TAAT-AAAAAACTTG
1 TAATAAAAAAACTTG
51645397 ATTAATGACT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.57, C:0.07, G:0.10, T:0.27
Consensus pattern (16 bp):
TAATAAAAAAACTTGG
Found at i:51646299 original size:13 final size:13
Alignment explanation
Indices: 51646278--51646316 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
51646268 TTTATTCATT
*
51646278 TCTTCTTTTTTTC
1 TCTTTTTTTTTTC
*
51646291 TCTTTTTTTTCTC
1 TCTTTTTTTTTTC
51646304 TCTTTGTTTTTTT
1 TCTTT-TTTTTTT
51646317 TAAGAAGAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
13 16 0.73
14 6 0.27
ACGTcount: A:0.00, C:0.18, G:0.03, T:0.79
Consensus pattern (13 bp):
TCTTTTTTTTTTC
Found at i:51660649 original size:55 final size:55
Alignment explanation
Indices: 51660565--51660785 Score: 262
Period size: 55 Copynumber: 4.0 Consensus size: 55
51660555 ATTGATTATC
* * * * * * * *
51660565 ATGTTGGAATAGTGCTTCTTTTGAGTCGATTCTTTGTATGTTTAAATCGATTGTC
1 ATGTTGGAATACTACTTCTTTTGAATCGATTGTGTATATGATTAAATCGATTGTT
** * * *
51660620 AAATTAGAACACTACTTCTTTTGAATCGATTGTGTATATGATTAAATTGATTGTT
1 ATGTTGGAATACTACTTCTTTTGAATCGATTGTGTATATGATTAAATCGATTGTT
* * * *
51660675 ATGTTGGAATACTGCTTCTTTTTAATTGATTGTGTATATGATTAAATTGATTGTT
1 ATGTTGGAATACTACTTCTTTTGAATCGATTGTGTATATGATTAAATCGATTGTT
* * *
51660730 ATGTTGGAATACTACTTCTCTTGAATCGATTGTTTATATGTTTAAATCGATTGTT
1 ATGTTGGAATACTACTTCTTTTGAATCGATTGTGTATATGATTAAATCGATTGTT
51660785 A
1 A
51660786 CATAACACAT
Statistics
Matches: 139, Mismatches: 27, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
55 139 1.00
ACGTcount: A:0.26, C:0.09, G:0.18, T:0.47
Consensus pattern (55 bp):
ATGTTGGAATACTACTTCTTTTGAATCGATTGTGTATATGATTAAATCGATTGTT
Found at i:51662041 original size:55 final size:55
Alignment explanation
Indices: 51661977--51662116 Score: 201
Period size: 55 Copynumber: 2.5 Consensus size: 55
51661967 ACTACTTTTT
* *
51661977 CTTCTTTTGAATCGATTGTTTATATGTTTAAATCGGTTGTTGTGTTGGAATACT-
1 CTTCTTTTGAATCGATTGTTTATATGTTTAAATCGATTGTTATGTTGGAATACTA
* * * * *
51662031 GTTGCTTTTGAATCCATTGTTAATATGTTCAAATTGATTGTTATGTTGGAATACTA
1 CTT-CTTTTGAATCGATTGTTTATATGTTTAAATCGATTGTTATGTTGGAATACTA
51662087 CTTCTTTTGAATCGATTGTTTATATGTTTA
1 CTTCTTTTGAATCGATTGTTTATATGTTTA
51662117 GATCATTTGT
Statistics
Matches: 73, Mismatches: 11, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
54 2 0.03
55 69 0.95
56 2 0.03
ACGTcount: A:0.23, C:0.09, G:0.18, T:0.50
Consensus pattern (55 bp):
CTTCTTTTGAATCGATTGTTTATATGTTTAAATCGATTGTTATGTTGGAATACTA
Found at i:51663375 original size:123 final size:123
Alignment explanation
Indices: 51663149--51663523 Score: 588
Period size: 123 Copynumber: 3.0 Consensus size: 123
51663139 TTAGGGTTTT
* ** * *
51663149 TAGGTCTTGGAAGAAATAATTTCGAGTTGACGTTTCTGATCAAATAGTATAAAATCGCTTCTAAC
1 TAGGTCATGGAAGAAATAATTT--TTTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGC
*
51663214 AGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
64 AGGATGCTATTTGAGAAGAATTTGTAAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
* * *
51663274 TAGGTCATGGAAGAAATAATTTTTTTGACGTTTCTAAGCAAATAATATAAAATCGCTTATAGCAG
1 TAGGTCATGGAAGAAATAATTTTTTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAG
*
51663339 GATGCTATTTGAGAAGAATTTGTAAAATCGCACCCTCGTGGACGCGCTTTTGCTACAG
66 GATGCTATTTGAGAAGAATTTGTAAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
* *
51663397 TCGGTCATGGAAGAAATAATTTTTTTGATGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAG
1 TAGGTCATGGAAGAAATAATTTTTTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAG
* * *
51663462 GATGCTATTTGAGAAGGATTTGTGAAAATCGCGCCCTCGTGGACGCGCTTTTTCTATAG
66 GATGCTATTTGAGAAGAATTTGT-AAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
51663521 TAG
1 TAG
51663524 TATGTTTAGG
Statistics
Matches: 229, Mismatches: 20, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
123 174 0.76
124 34 0.15
125 21 0.09
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.32
Consensus pattern (123 bp):
TAGGTCATGGAAGAAATAATTTTTTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAG
GATGCTATTTGAGAAGAATTTGTAAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
Found at i:51665731 original size:46 final size:46
Alignment explanation
Indices: 51665659--51665794 Score: 263
Period size: 46 Copynumber: 3.0 Consensus size: 46
51665649 ACATTGCTAT
*
51665659 AACTCAGTATGGTTTTCTTCATTGAAACACCATACCTACTTTTCGC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCGC
51665705 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCGC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCGC
51665751 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTC
51665795 ACATTTTGCC
Statistics
Matches: 89, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
46 89 1.00
ACGTcount: A:0.26, C:0.27, G:0.10, T:0.36
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCGC
Found at i:51673391 original size:46 final size:46
Alignment explanation
Indices: 51673319--51673500 Score: 328
Period size: 46 Copynumber: 4.0 Consensus size: 46
51673309 ACATTGCTAT
*
51673319 AACTCAGTATGGTTTTCTTCATTGAAACACCATACCTACTTTTCGC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCGC
**
51673365 AACTCAGTATGGTTTTCTTCACTGAAACACTGTACCTACTTTTCGC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCGC
*
51673411 AACTCAGTATGGTTTTCTTCACTGAAACACCGTACCTACTTTTCGC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCGC
51673457 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTC
51673501 ACATTTTGCC
Statistics
Matches: 131, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 131 1.00
ACGTcount: A:0.25, C:0.27, G:0.12, T:0.36
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCGC
Found at i:51678281 original size:16 final size:17
Alignment explanation
Indices: 51678255--51678288 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
51678245 TATATATATG
*
51678255 AAATAAAAATAAAGCTA
1 AAATAAAAATAAAACTA
51678272 AAAT-AAAATAAAACTA
1 AAATAAAAATAAAACTA
51678288 A
1 A
51678289 TTAATATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.74, C:0.06, G:0.03, T:0.18
Consensus pattern (17 bp):
AAATAAAAATAAAACTA
Found at i:51678345 original size:3 final size:3
Alignment explanation
Indices: 51678337--51678405 Score: 61
Period size: 3 Copynumber: 22.0 Consensus size: 3
51678327 AAAATAAAAC
* *
51678337 TAA TAA TAA TTAA TAA TAA TAA TGA TAA TAA TAA TGAA -AA CAA TAA
1 TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA
51678383 TAA -AA TAA TTAA CTAAA TAA TAA
1 TAA TAA TAA -TAA -T-AA TAA TAA
51678406 AATTGCTAAA
Statistics
Matches: 56, Mismatches: 4, Indels: 12
0.78 0.06 0.17
Matches are distributed among these distances:
2 4 0.07
3 40 0.71
4 10 0.18
5 2 0.04
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:51679696 original size:23 final size:23
Alignment explanation
Indices: 51679671--51680497 Score: 977
Period size: 23 Copynumber: 37.2 Consensus size: 23
51679661 AGTAAAATTA
*
51679671 TTAACTTAGTTTAGGGTTTTTAA-
1 TTAA-TTAGGTTAGGGTTTTTAAT
* *
51679694 TTAACTTAGTTTAGGGTTTTTAAG
1 TTAA-TTAGGTTAGGGTTTTTAAT
* *
51679718 TTAA--GGGTTAGGGTTTTTAAG
1 TTAATTAGGTTAGGGTTTTTAAT
* *
51679739 TTCA--GGGTTTAGGGTTTTTAAT
1 TTAATTAGG-TTAGGGTTTTTAAT
51679761 TTAATTAGGTTAGGGTTTTTAAT
1 TTAATTAGGTTAGGGTTTTTAAT
51679784 TTAATT--GTTAGGGTTTTTAAT
1 TTAATTAGGTTAGGGTTTTTAAT
51679805 TTAATT--GTTAGGGTTTTTAAT
1 TTAATTAGGTTAGGGTTTTTAAT
*
51679826 TTAATTAGGTTAGGGGTTTTAAT
1 TTAATTAGGTTAGGGTTTTTAAT
*
51679849 TTAATTAGGTTAGGGTTTTTAAG
1 TTAATTAGGTTAGGGTTTTTAAT
*
51679872 TTAA--GGGTTAGGGTTTTTAAT
1 TTAATTAGGTTAGGGTTTTTAAT
51679893 TTAATTAGGTTAGGGTTTTTAAT
1 TTAATTAGGTTAGGGTTTTTAAT
*
51679916 TTAATTAGGTTAGGGTTTTTAAG
1 TTAATTAGGTTAGGGTTTTTAAT
*
51679939 TTAA--GGGTTAGGGTTTTTAAT
1 TTAATTAGGTTAGGGTTTTTAAT
*
51679960 TTAATT--GTTAAGGTTTTTAAT
1 TTAATTAGGTTAGGGTTTTTAAT
*
51679981 TTAATTAGGTTAGGGTTTTTAAG
1 TTAATTAGGTTAGGGTTTTTAAT
* *
51680004 TTAA--GGGTTAGGGTTTTAAAT
1 TTAATTAGGTTAGGGTTTTTAAT
51680025 TTAATTAGGTTAGGGTTTTTAAT
1 TTAATTAGGTTAGGGTTTTTAAT
*
51680048 TTAATT--GTTAGGGTTTTTAAG
1 TTAATTAGGTTAGGGTTTTTAAT
* * *
51680069 CTAA--GGGTTAGGATTTTTAAT
1 TTAATTAGGTTAGGGTTTTTAAT
*
51680090 TTAATTAGGTTAGAGTTTTTAAT
1 TTAATTAGGTTAGGGTTTTTAAT
51680113 TTAATTAGGTTAGGGTTTTTAAT
1 TTAATTAGGTTAGGGTTTTTAAT
51680136 TTAATT--GTTAGGGTTTTTAAT
1 TTAATTAGGTTAGGGTTTTTAAT
*
51680157 TTAATTAGGTTAGGGTTCTTAAT
1 TTAATTAGGTTAGGGTTTTTAAT
**
51680180 TTAATTAGGTTAGGGTTTTTACG
1 TTAATTAGGTTAGGGTTTTTAAT
* *
51680203 TTAA--GGGTTAGGGTTTTTAAG
1 TTAATTAGGTTAGGGTTTTTAAT
* * *
51680224 CTAA--GGGTTAGAGTTTTTAA-
1 TTAATTAGGTTAGGGTTTTTAAT
* **
51680244 GTAA-CGGGTTAGGGTTTTTAAT
1 TTAATTAGGTTAGGGTTTTTAAT
* *
51680266 TTAATTAAGTTAGGGTTCTTAAT
1 TTAATTAGGTTAGGGTTTTTAAT
*
51680289 TTAATTAGGTTAGGGTTTTTAAG
1 TTAATTAGGTTAGGGTTTTTAAT
* *
51680312 TTAA--GGGTTAGGGTTTTGAAT
1 TTAATTAGGTTAGGGTTTTTAAT
51680333 TTAATTAGGTTAGGGTTTTTAAT
1 TTAATTAGGTTAGGGTTTTTAAT
*
51680356 TTAATT--GTTAGTGTTTTTAAT
1 TTAATTAGGTTAGGGTTTTTAAT
51680377 TTAATTAGGTTAGGGTTTTTAATTAAT
1 TTAATTAGGTTAGGG--TTT--TTAAT
51680404 TTAATTAGGTTAGGGTTTTTAAT
1 TTAATTAGGTTAGGGTTTTTAAT
*
51680427 TTAATTAGGTTAGGGTTTTTAAG
1 TTAATTAGGTTAGGGTTTTTAAT
*
51680450 TTAA--GGGTTAGGGTTTTTAAT
1 TTAATTAGGTTAGGGTTTTTAAT
*
51680471 TTAATTAGGTTAGGGTTTTTAAG
1 TTAATTAGGTTAGGGTTTTTAAT
51680494 TTAA
1 TTAA
51680498 GGGTATTAAT
Statistics
Matches: 709, Mismatches: 62, Indels: 66
0.85 0.07 0.08
Matches are distributed among these distances:
20 3 0.00
21 298 0.42
22 19 0.03
23 357 0.50
24 6 0.01
25 6 0.01
27 20 0.03
ACGTcount: A:0.26, C:0.01, G:0.24, T:0.49
Consensus pattern (23 bp):
TTAATTAGGTTAGGGTTTTTAAT
Found at i:51679805 original size:44 final size:44
Alignment explanation
Indices: 51679671--51680497 Score: 969
Period size: 44 Copynumber: 18.6 Consensus size: 44
51679661 AGTAAAATTA
* *
51679671 TTAACTTAGTTTAGGGTTTTTAA-TTAACTTAGTTTAGGGTTTTTAAG
1 TTAA-TTAGGTTAGGGTTTTTAATTTAA-TT-G-TTAGGGTTTTTAAT
* * * **
51679718 TTAA--GGGTTAGGGTTTTTAAGTTCAGGGTTTAGGGTTTTTAAT
1 TTAATTAGGTTAGGGTTTTTAATTTAATTG-TTAGGGTTTTTAAT
51679761 TTAATTAGGTTAGGGTTTTTAATTTAATTGTTAGGGTTTTTAAT
1 TTAATTAGGTTAGGGTTTTTAATTTAATTGTTAGGGTTTTTAAT
*
51679805 TTAATT--GTTAGGGTTTTTAATTTAATTAGGTTAGGGGTTTTAAT
1 TTAATTAGGTTAGGGTTTTTAATTTAATT--GTTAGGGTTTTTAAT
* **
51679849 TTAATTAGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAT
1 TTAATTAGGTTAGGGTTTTTAATTTAATTGTTAGGGTTTTTAAT
*
51679893 TTAATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAG
1 TTAATTAGGTTAGGGTTTTTAATTTAATT--GTTAGGGTTTTTAAT
* *
51679939 TTAA--GGGTTAGGGTTTTTAATTTAATTGTTAAGGTTTTTAAT
1 TTAATTAGGTTAGGGTTTTTAATTTAATTGTTAGGGTTTTTAAT
* ** *
51679981 TTAATTAGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTAAAT
1 TTAATTAGGTTAGGGTTTTTAATTTAATTGTTAGGGTTTTTAAT
*
51680025 TTAATTAGGTTAGGGTTTTTAATTTAATTGTTAGGGTTTTTAAG
1 TTAATTAGGTTAGGGTTTTTAATTTAATTGTTAGGGTTTTTAAT
* * * *
51680069 CTAA--GGGTTAGGATTTTTAATTTAATTAGGTTAGAGTTTTTAAT
1 TTAATTAGGTTAGGGTTTTTAATTTAATT--GTTAGGGTTTTTAAT
51680113 TTAATTAGGTTAGGGTTTTTAATTTAATTGTTAGGGTTTTTAAT
1 TTAATTAGGTTAGGGTTTTTAATTTAATTGTTAGGGTTTTTAAT
* **
51680157 TTAATTAGGTTAGGGTTCTTAATTTAATTAGGTTAGGGTTTTTACG
1 TTAATTAGGTTAGGGTTTTTAATTTAATT--GTTAGGGTTTTTAAT
* ** ** *
51680203 TTAA--GGGTTAGGGTTTTTAAGCTAAGGGTTAGAGTTTTTAA-
1 TTAATTAGGTTAGGGTTTTTAATTTAATTGTTAGGGTTTTTAAT
* ** *
51680244 GTAA-CGGGTTAGGGTTTTTAATTTAATTAAGTTAGGGTTCTTAAT
1 TTAATTAGGTTAGGGTTTTTAATTTAATT--GTTAGGGTTTTTAAT
* ** *
51680289 TTAATTAGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTGAAT
1 TTAATTAGGTTAGGGTTTTTAATTTAATTGTTAGGGTTTTTAAT
*
51680333 TTAATTAGGTTAGGGTTTTTAATTTAATTGTTAGTGTTTTTAAT
1 TTAATTAGGTTAGGGTTTTTAATTTAATTGTTAGGGTTTTTAAT
51680377 TTAATTAGGTTAGGGTTTTTAATTAATTTAATTAGGTTAGGGTTTTTAAT
1 TTAATTAGGTTAGGG--TTT--TTAATTTAATT--GTTAGGGTTTTTAAT
* **
51680427 TTAATTAGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAT
1 TTAATTAGGTTAGGGTTTTTAATTTAATTGTTAGGGTTTTTAAT
*
51680471 TTAATTAGGTTAGGGTTTTTAAGTTAA
1 TTAATTAGGTTAGGGTTTTTAATTTAA
51680498 GGGTATTAAT
Statistics
Matches: 674, Mismatches: 78, Indels: 59
0.83 0.10 0.07
Matches are distributed among these distances:
41 3 0.00
42 90 0.13
43 19 0.03
44 386 0.57
45 25 0.04
46 104 0.15
47 4 0.01
48 14 0.02
50 29 0.04
ACGTcount: A:0.26, C:0.01, G:0.24, T:0.49
Consensus pattern (44 bp):
TTAATTAGGTTAGGGTTTTTAATTTAATTGTTAGGGTTTTTAAT
Found at i:51680578 original size:25 final size:25
Alignment explanation
Indices: 51680549--51680596 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
51680539 ATTCAAAAAT
51680549 TTCTATTTTATTACATCAAATAAAC
1 TTCTATTTTATTACATCAAATAAAC
51680574 TTCTATTTTATTACATCAAATAA
1 TTCTATTTTATTACATCAAATAA
51680597 TATCAAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.40, C:0.15, G:0.00, T:0.46
Consensus pattern (25 bp):
TTCTATTTTATTACATCAAATAAAC
Found at i:51681063 original size:18 final size:18
Alignment explanation
Indices: 51681023--51681057 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
51681013 GGACTCGGAA
51681023 AAGGATACATATAAGGGT
1 AAGGATACATATAAGGGT
51681041 AAGGATACATATAAGGG
1 AAGGATACATATAAGGG
51681058 CTAGGAAACG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.46, C:0.06, G:0.29, T:0.20
Consensus pattern (18 bp):
AAGGATACATATAAGGGT
Found at i:51681946 original size:20 final size:20
Alignment explanation
Indices: 51681909--51681946 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
51681899 TTTATTTTTA
*
51681909 AAAATCTACATAATAATTGT
1 AAAATCTACATAAAAATTGT
51681929 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
51681947 TACGTCGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTGT
Found at i:51682866 original size:12 final size:11
Alignment explanation
Indices: 51682845--51682869 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
51682835 AAAAAATATA
51682845 AAATTATTTTT
1 AAATTATTTTT
51682856 AAATTATTTTT
1 AAATTATTTTT
51682867 AAA
1 AAA
51682870 AAGGAAATTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
AAATTATTTTT
Found at i:51682926 original size:51 final size:51
Alignment explanation
Indices: 51682870--51682990 Score: 206
Period size: 51 Copynumber: 2.4 Consensus size: 51
51682860 TATTTTTAAA
* *
51682870 AAGGAAATTGAGAGCAAATTGAAATTAAATATGGATTTGAGAGAATTTTGG
1 AAGGAAATTGAGAGAAAATTGAAATTAAATATGGATTTGAAAGAATTTTGG
*
51682921 AAGGAAATTAAGAGAAAATTGAAATTAAATATGGATTTGAAAGAATTTTGG
1 AAGGAAATTGAGAGAAAATTGAAATTAAATATGGATTTGAAAGAATTTTGG
*
51682972 AAGGAAATTGAGAGGAAAT
1 AAGGAAATTGAGAGAAAAT
51682991 ACGAGAGAGC
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 65 1.00
ACGTcount: A:0.47, C:0.01, G:0.25, T:0.27
Consensus pattern (51 bp):
AAGGAAATTGAGAGAAAATTGAAATTAAATATGGATTTGAAAGAATTTTGG
Found at i:51683885 original size:21 final size:20
Alignment explanation
Indices: 51683861--51683901 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
51683851 TATAAATTAT
*
51683861 TAAATAGTATTAAAAATAATA
1 TAAATAATATTAAAAA-AATA
*
51683882 TAAATAATTTTAAAAAAATA
1 TAAATAATATTAAAAAAATA
51683902 ATTATATGGG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.34
Consensus pattern (20 bp):
TAAATAATATTAAAAAAATA
Found at i:51684727 original size:76 final size:74
Alignment explanation
Indices: 51684641--51684831 Score: 310
Period size: 74 Copynumber: 2.6 Consensus size: 74
51684631 AACACAGTCT
*
51684641 GTATCTTCAGTTCATAAACATCCCAATAAACCATTGGGATTCAAACACAAAACCATCACACAAAC
1 GTATCTTCAGTTCATAAACATCCCAATAAACCATTGAGATTCAAACAC--AACCATCACACAAAC
* *
51684706 ACATATTGTCA
64 ACATACTGACA
* **
51684717 GTATCTTCAGTTCATAAACATCCCAATAAACCATTGACATTCAAACACAACCATCACACAAATGC
1 GTATCTTCAGTTCATAAACATCCCAATAAACCATTGAGATTCAAACACAACCATCACACAAACAC
51684782 ATACTGACA
66 ATACTGACA
51684791 GTATCTTCAGTTCATAAACATCCCAATAAACCATTGAGATT
1 GTATCTTCAGTTCATAAACATCCCAATAAACCATTGAGATT
51684832 GTATTTCAAA
Statistics
Matches: 108, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
74 62 0.57
76 46 0.43
ACGTcount: A:0.41, C:0.26, G:0.08, T:0.25
Consensus pattern (74 bp):
GTATCTTCAGTTCATAAACATCCCAATAAACCATTGAGATTCAAACACAACCATCACACAAACAC
ATACTGACA
Found at i:51684946 original size:42 final size:42
Alignment explanation
Indices: 51684887--51684990 Score: 154
Period size: 42 Copynumber: 2.5 Consensus size: 42
51684877 ACTGGCTAGA
**
51684887 TTCAGTTGGTTTTCTTTTAACCCAGCTTCGTCCTGATCCAGC
1 TTCAGTTTCTTTTCTTTTAACCCAGCTTCGTCCTGATCCAGC
**
51684929 TTCAGTTTCTTTTCTTTTAAGTCAGCTTCGTCCTGATCCAGC
1 TTCAGTTTCTTTTCTTTTAACCCAGCTTCGTCCTGATCCAGC
* *
51684971 TTTAGTTTCTTCTCTTTTAA
1 TTCAGTTTCTTTTCTTTTAA
51684991 GTCAGCTCCA
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 56 1.00
ACGTcount: A:0.14, C:0.25, G:0.13, T:0.47
Consensus pattern (42 bp):
TTCAGTTTCTTTTCTTTTAACCCAGCTTCGTCCTGATCCAGC
Found at i:51684991 original size:42 final size:42
Alignment explanation
Indices: 51684899--51684997 Score: 162
Period size: 42 Copynumber: 2.4 Consensus size: 42
51684889 CAGTTGGTTT
** *
51684899 TCTTTTAACCCAGCTTCGTCCTGATCCAGCTTCAGTTTCTTT
1 TCTTTTAAGTCAGCTTCGTCCTGATCCAGCTTCAGTTTCTTC
*
51684941 TCTTTTAAGTCAGCTTCGTCCTGATCCAGCTTTAGTTTCTTC
1 TCTTTTAAGTCAGCTTCGTCCTGATCCAGCTTCAGTTTCTTC
51684983 TCTTTTAAGTCAGCT
1 TCTTTTAAGTCAGCT
51684998 CCATCCTTCT
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 53 1.00
ACGTcount: A:0.15, C:0.27, G:0.13, T:0.44
Consensus pattern (42 bp):
TCTTTTAAGTCAGCTTCGTCCTGATCCAGCTTCAGTTTCTTC
Found at i:51685014 original size:42 final size:42
Alignment explanation
Indices: 51684899--51685018 Score: 141
Period size: 42 Copynumber: 2.9 Consensus size: 42
51684889 CAGTTGGTTT
** * * *
51684899 TCTTTTAACCCAGCTTCGTCCTGATCCAGCTTCAGTTTCTTT
1 TCTTTTAAGTCAGCTCCATCCTGATCCAGCTTCAGTTTCTTC
* * *
51684941 TCTTTTAAGTCAGCTTCGTCCTGATCCAGCTTTAGTTTCTTC
1 TCTTTTAAGTCAGCTCCATCCTGATCCAGCTTCAGTTTCTTC
** *
51684983 TCTTTTAAGTCAGCTCCATCCTTCTCTAGCTTCAGT
1 TCTTTTAAGTCAGCTCCATCCTGATCCAGCTTCAGT
51685019 CTGTCTTTTC
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 68 1.00
ACGTcount: A:0.15, C:0.29, G:0.12, T:0.43
Consensus pattern (42 bp):
TCTTTTAAGTCAGCTCCATCCTGATCCAGCTTCAGTTTCTTC
Found at i:51685406 original size:43 final size:43
Alignment explanation
Indices: 51685241--51685843 Score: 673
Period size: 43 Copynumber: 14.1 Consensus size: 43
51685231 GTTTTTTTAC
* * *
51685241 AACGCCGCTATAGACCATGTTTTTTAGCGGCGCTTAA--ATAAA
1 AACGCCACTATAGACCATGGTCTTTAGCGGCGCTTAAGCA-AAA
* * * *
51685283 AACACCCCTATAGACCGTGATCTTTAGCGGCGCTTAA--AAAA
1 AACGCCACTATAGACCATGGTCTTTAGCGGCGCTTAAGCAAAA
* * * *
51685324 AACGCCACTATAGATCGTGGTCTTTAGCGACGCTT-ACCAAAA
1 AACGCCACTATAGACCATGGTCTTTAGCGGCGCTTAAGCAAAA
* * * *
51685366 AATGCCACTATAGACCATGGTCTTTAGCGGTGCTTAACCAACA
1 AACGCCACTATAGACCATGGTCTTTAGCGGCGCTTAAGCAAAA
** *
51685409 AACGCCACTACT-GACCATGGTCTTTAATGGCGCTTAACCAACAA
1 AACGCCACTA-TAGACCATGGTCTTTAGCGGCGCTTAAGCAA-AA
* * *
51685453 AA-GCCACTACAGACCATGGTCTTTAGCGGCGCTTAACCAACA
1 AACGCCACTATAGACCATGGTCTTTAGCGGCGCTTAAGCAAAA
* *
51685495 AACGCCACTATAGACCATGGTCTTTAGCGGCGCTTAGGCGAAA
1 AACGCCACTATAGACCATGGTCTTTAGCGGCGCTTAAGCAAAA
* * *
51685538 AACGCCACTATAGACCATGGTCTTTCGCGGCGCTTAGGCGAAA
1 AACGCCACTATAGACCATGGTCTTTAGCGGCGCTTAAGCAAAA
* * * * * * *
51685581 AACACCAATATAGACTATGGTTTTTCGCGGCGCTTAGGAAAAA
1 AACGCCACTATAGACCATGGTCTTTAGCGGCGCTTAAGCAAAA
** * *
51685624 AACGCCACTATAGACTGTGGTCTTTAGCGGCGC-TGACCAAAA
1 AACGCCACTATAGACCATGGTCTTTAGCGGCGCTTAAGCAAAA
* * *
51685666 AATGCCACTATAGACCATGGTCTTTAGCGGCGCTTAGGCGAAA
1 AACGCCACTATAGACCATGGTCTTTAGCGGCGCTTAAGCAAAA
* * *
51685709 AACGCCACTATAGACCATGGTCTTTCGCGGCGCTTAGGCGAAA
1 AACGCCACTATAGACCATGGTCTTTAGCGGCGCTTAAGCAAAA
* * * *
51685752 AACGCCACTATAGACCATTGTCTTTCGCGGCGCTTAGGAAAAA
1 AACGCCACTATAGACCATGGTCTTTAGCGGCGCTTAAGCAAAA
* * *
51685795 AATGCCACTATAGACCATGGTCTTTAGTGGCGCTTATGCAAAA
1 AACGCCACTATAGACCATGGTCTTTAGCGGCGCTTAAGCAAAA
51685838 AACGCC
1 AACGCC
51685844 GCTAATTTTG
Statistics
Matches: 488, Mismatches: 65, Indels: 15
0.86 0.11 0.03
Matches are distributed among these distances:
40 1 0.00
41 33 0.07
42 105 0.22
43 345 0.71
44 4 0.01
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (43 bp):
AACGCCACTATAGACCATGGTCTTTAGCGGCGCTTAAGCAAAA
Found at i:51685518 original size:171 final size:172
Alignment explanation
Indices: 51685241--51685843 Score: 756
Period size: 171 Copynumber: 3.5 Consensus size: 172
51685231 GTTTTTTTAC
* * * * * * * *
51685241 AACGCCGCTATAGACCATGTTTTTTAGCGGCGCTTA--AATAAAAACACCCCTATAGACCGTGAT
1 AACGCCACTATAGACCATGGTCTTTCGCGGCGCTTAGGAA-AAAAACGCCACTATAGACCATGGT
* * * * *
51685304 CTTTAGCGGCGCTTAA--AAAAAACGCCACTATAGATCGTGGTCTTTAGCGACGCTTA-CCAAAA
65 CTTTAGCGGCGCTTAACCAAAAAACGCCACTATAGACCATGGTCTTTAGCGGCGCTTAGGCGAAA
* * * * *
51685366 AATGCCACTATAGACCATGGTCTTTAGCGGTGCTTA-ACCAACA
130 AACGCCACTATAGACCATGGTCTTTCGCGGCGCTTAGGCGAA-A
*** ** * *
51685409 AACGCCACTACT-GACCATGGTCTTTAATGGCGCTTAACCAACAAAA-GCCACTACAGACCATGG
1 AACGCCACTA-TAGACCATGGTCTTTCGCGGCGCTT-AGGAAAAAAACGCCACTATAGACCATGG
*
51685472 TCTTTAGCGGCGCTTAACCAACAAACGCCACTATAGACCATGGTCTTTAGCGGCGCTTAGGCGAA
64 TCTTTAGCGGCGCTTAACCAAAAAACGCCACTATAGACCATGGTCTTTAGCGGCGCTTAGGCGAA
51685537 AAACGCCACTATAGACCATGGTCTTTCGCGGCGCTTAGGCGAAA
129 AAACGCCACTATAGACCATGGTCTTTCGCGGCGCTTAGGCGAAA
* * * * **
51685581 AACACCAATATAGACTATGGTTTTTCGCGGCGCTTAGGAAAAAAACGCCACTATAGACTGTGGTC
1 AACGCCACTATAGACCATGGTCTTTCGCGGCGCTTAGGAAAAAAACGCCACTATAGACCATGGTC
* *
51685646 TTTAGCGGCGC-TGACCAAAAAATGCCACTATAGACCATGGTCTTTAGCGGCGCTTAGGCGAAAA
66 TTTAGCGGCGCTTAACCAAAAAACGCCACTATAGACCATGGTCTTTAGCGGCGCTTAGGCGAAAA
51685710 ACGCCACTATAGACCATGGTCTTTCGCGGCGCTTAGGCGAAA
131 ACGCCACTATAGACCATGGTCTTTCGCGGCGCTTAGGCGAAA
* *
51685752 AACGCCACTATAGACCATTGTCTTTCGCGGCGCTTAGGAAAAAAATGCCACTATAGACCATGGTC
1 AACGCCACTATAGACCATGGTCTTTCGCGGCGCTTAGGAAAAAAACGCCACTATAGACCATGGTC
* **
51685817 TTTAGTGGCGCTTATGCAAAAAACGCC
66 TTTAGCGGCGCTTAACCAAAAAACGCC
51685844 GCTAATTTTG
Statistics
Matches: 373, Mismatches: 51, Indels: 18
0.84 0.12 0.04
Matches are distributed among these distances:
168 28 0.08
169 31 0.08
170 4 0.01
171 205 0.55
172 102 0.27
173 3 0.01
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (172 bp):
AACGCCACTATAGACCATGGTCTTTCGCGGCGCTTAGGAAAAAAACGCCACTATAGACCATGGTC
TTTAGCGGCGCTTAACCAAAAAACGCCACTATAGACCATGGTCTTTAGCGGCGCTTAGGCGAAAA
ACGCCACTATAGACCATGGTCTTTCGCGGCGCTTAGGCGAAA
Found at i:51686299 original size:21 final size:20
Alignment explanation
Indices: 51686258--51686302 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 20
51686248 TTGAACCTCA
* *
51686258 GCTTCTCTGCTGCTGCCTCT
1 GCTTCTCTGCTGCCGCATCT
51686278 GCTTCTCTCGCTGCCGCATCT
1 GCTTCTCT-GCTGCCGCATCT
51686299 GCTT
1 GCTT
51686303 TAAGTTGTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 8 0.36
21 14 0.64
ACGTcount: A:0.02, C:0.40, G:0.20, T:0.38
Consensus pattern (20 bp):
GCTTCTCTGCTGCCGCATCT
Found at i:51686338 original size:86 final size:86
Alignment explanation
Indices: 51686186--51686351 Score: 255
Period size: 86 Copynumber: 1.9 Consensus size: 86
51686176 ACTCGCTTTA
51686186 GCCTCTGCTTCTCTCACTGCCGCATCTGCTTTAAGCTGCTGCTGGAGTTCTTCATGCTTTCGTTG
1 GCCTCTGCTTCTCTCACTGCCGCATCTGCTTTAAGCTGCTGCTGGAGTTCTTCATGCTTTCGTTG
51686251 AACCTCAGCTTCTCTGCTGCT
66 AACCTCAGCTTCTCTGCTGCT
* * * *
51686272 GCCTCTGCTTCTCTCGCTGCCGCATCTGCTTTAAGTTG-TAGCTGGAGTTCTTCATATCTTT-TT
1 GCCTCTGCTTCTCTCACTGCCGCATCTGCTTTAAGCTGCT-GCTGGAGTTCTTCAT-GCTTTCGT
*
51686335 TGAACCTTAGCTTCTCT
64 TGAACCTCAGCTTCTCT
51686352 CGATGTTGCC
Statistics
Matches: 73, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
85 1 0.01
86 68 0.93
87 4 0.05
ACGTcount: A:0.11, C:0.30, G:0.19, T:0.40
Consensus pattern (86 bp):
GCCTCTGCTTCTCTCACTGCCGCATCTGCTTTAAGCTGCTGCTGGAGTTCTTCATGCTTTCGTTG
AACCTCAGCTTCTCTGCTGCT
Found at i:51691981 original size:9 final size:9
Alignment explanation
Indices: 51691967--51692404 Score: 147
Period size: 9 Copynumber: 47.6 Consensus size: 9
51691957 TGTCGTATTA
51691967 ATGTAAGTT
1 ATGTAAGTT
*
51691976 ATGTAATTT
1 ATGTAAGTT
*
51691985 ATGTATAATATT
1 ATG--TAA-GTT
51691997 AATGTAAGTT
1 -ATGTAAGTT
*
51692007 ATGTAATTT
1 ATGTAAGTT
*
51692016 ATGTATAATATT
1 ATG--TAA-GTT
51692028 AATGTAAGTT
1 -ATGTAAGTT
51692038 ATGTAAG-T
1 ATGTAAGTT
51692046 -TGTAAGTT
1 ATGTAAGTT
*
51692054 ATGT-A-TA
1 ATGTAAGTT
* *
51692061 ATATAAATT
1 ATGTAAGTT
51692070 AAT-TAAGTT
1 -ATGTAAGTT
*
51692079 ATGTAATTT
1 ATGTAAGTT
*
51692088 ATGTATAATATT
1 ATG--TAA-GTT
51692100 AATGTAAGTT
1 -ATGTAAGTT
*
51692110 ATGTAATTT
1 ATGTAAGTT
*
51692119 ATGTGTAATATT
1 A--TGTAA-GTT
51692131 AATGTAAGTT
1 -ATGTAAGTT
51692141 ATGTAAG-T
1 ATGTAAGTT
51692149 -TGTAAGTT
1 ATGTAAGTT
*
51692157 ATGTATA-AT
1 ATGTA-AGTT
51692166 AT-TAA-TT
1 ATGTAAGTT
51692173 AAT-TAAGTT
1 -ATGTAAGTT
*
51692182 AGGTAAGTT
1 ATGTAAGTT
*
51692191 ATGTATAATATT
1 ATG--TAA-GTT
51692203 AATGTAAGTT
1 -ATGTAAGTT
*
51692213 ATGTAATTT
1 ATGTAAGTT
*
51692222 ATGTGTAATATT
1 A--TGTAA-GTT
51692234 AATGTAAGTT
1 -ATGTAAGTT
51692244 ATGTAAG-T
1 ATGTAAGTT
51692252 -TGTAAGTT
1 ATGTAAGTT
*
51692260 ATGTATA-AT
1 ATGTA-AGTT
51692269 AT-TAA-TT
1 ATGTAAGTT
51692276 AAT-TAAGTT
1 -ATGTAAGTT
*
51692285 AGGTAAGTT
1 ATGTAAGTT
*
51692294 ATGTATA-AT
1 ATGTA-AGTT
51692303 AT-TAA-TT
1 ATGTAAGTT
51692310 AAT-TAAGTT
1 -ATGTAAGTT
*
51692319 ATGTAATTT
1 ATGTAAGTT
*
51692328 ATGTATAATATT
1 ATG--TAA-GTT
51692340 AATGTAAGTT
1 -ATGTAAGTT
51692350 ATGTAAG-T
1 ATGTAAGTT
51692358 -TGTAAGTT
1 ATGTAAGTT
*
51692366 ATGTATA-AT
1 ATGTA-AGTT
51692375 AT-TAA-TT
1 ATGTAAGTT
51692382 AAT-TAAGTT
1 -ATGTAAGTT
*
51692391 ATGTAATTT
1 ATGTAAGTT
51692400 ATGTA
1 ATGTA
51692405 TAATATTAAT
Statistics
Matches: 336, Mismatches: 37, Indels: 112
0.69 0.08 0.23
Matches are distributed among these distances:
7 36 0.11
8 46 0.14
9 153 0.46
10 20 0.06
11 50 0.15
12 14 0.04
13 17 0.05
ACGTcount: A:0.39, C:0.00, G:0.15, T:0.47
Consensus pattern (9 bp):
ATGTAAGTT
Found at i:51692005 original size:94 final size:94
Alignment explanation
Indices: 51691847--51692416 Score: 370
Period size: 103 Copynumber: 5.6 Consensus size: 94
51691837 ATCATATGAT
* *
51691847 ATATATTAATAAGTTATGTCGTATT-ATATAAGTTATGT-ATTAAAAATGTAAAAGTATTAA--T
1 ATATATTAATAAGTTATGTCGTATTAATATAAGTTATGTAATT---TATGTATAA-TATTAATGT
* *
51691908 AAGTTATGTAAGTTATGTATCAT-TT-ATCCATAA
62 AAGTTATGTAATTTATGTATAATATTAAT--ATAA
*
51691941 ATATATTAATAAGTTATGTCGTATTAATGTAAGTTATGTAATTTATGTATAATATTAATGTAAGT
1 ATATATTAATAAGTTATGTCGTATTAATATAAGTTATGTAATTTATGTATAATATTAATGTAAGT
*
51692006 TATGTAATTTATGTATAATATTAATGTAA
66 TATGTAATTTATGTATAATATTAATATAA
* *
51692035 GT-TATGTAAGTTGTAAGTTATGT-ATAATATAAATTAATTAAGTTATGTAATTTATGTATAATA
1 ATATAT-TAA----TAAGTTATGTCGT-AT-T-AA-T-A-TAAGTTATGTAATTTATGTATAATA
* *
51692098 TTAATGTAAGTTATGTAATTTATGTGTAATATTAATGTAA
55 TTAATGTAAGTTATGTAATTTATGTATAATATTAATATAA
* ** * *
51692138 GT-TATGTAAGTTGTAAGTTATGTATAATATTAATTAATTAAGTTAGGTAAGTTATGTATAATAT
1 ATATAT-TAA----TAAGTTATG--TCGTATTAA-T-A-TAAGTTATGTAATTTATGTATAATAT
* *
51692202 TAATGTAAGTTATGTAATTTATGTGTAATATTAATGTAA
56 TAATGTAAGTTATGTAATTTATGTATAATATTAATATAA
* ** * *
51692241 GT-TATGTAAGTTGTAAGTTATGTATAATATTAATTAATTAAGTTAGGTAAGTTATGTATAATAT
1 ATATAT-TAA----TAAGTTATG--TCGTATTAA-T-A-TAAGTTATGTAATTTATGTATAATAT
* *
51692305 TAATTAATTAAGTTATGTAATTTATGTATAATATTAATGTAA
56 TAA-T--GTAAGTTATGTAATTTATGTATAATATTAATATAA
* **
51692347 GT-TATGTAAGTTGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATAT
1 ATATAT-TAA----TAAGTTATG--TCGTATTAA-T-A-TAAGTTATGTAATTTATGTATAATAT
51692411 TAATGT
56 TAATGT
51692417 GGCTTCTACG
Statistics
Matches: 436, Mismatches: 17, Indels: 37
0.89 0.03 0.08
Matches are distributed among these distances:
92 6 0.01
93 10 0.02
94 54 0.12
95 14 0.03
96 5 0.01
97 1 0.00
98 12 0.03
99 1 0.00
100 2 0.00
101 1 0.00
103 224 0.51
104 2 0.00
105 4 0.01
106 100 0.23
ACGTcount: A:0.39, C:0.01, G:0.14, T:0.46
Consensus pattern (94 bp):
ATATATTAATAAGTTATGTCGTATTAATATAAGTTATGTAATTTATGTATAATATTAATGTAAGT
TATGTAATTTATGTATAATATTAATATAA
Found at i:51692079 original size:103 final size:103
Alignment explanation
Indices: 51691963--51692416 Score: 800
Period size: 103 Copynumber: 4.4 Consensus size: 103
51691953 GTTATGTCGT
51691963 ATTAATGTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTAATTTATGTATAATATT
1 ATTAAT-TAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTAATTTATGTATAATATT
*
51692028 AATGTAAGTTATGTAAGTTGTAAGTTATGTATAATATAA
65 AATGTAAGTTATGTAAGTTGTAAGTTATGTATAATATTA
*
51692067 ATTAATTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTAATTTATGTGTAATATTA
1 ATTAATTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTAATTTATGTATAATATTA
51692132 ATGTAAGTTATGTAAGTTGTAAGTTATGTATAATATTA
66 ATGTAAGTTATGTAAGTTGTAAGTTATGTATAATATTA
* * *
51692170 ATTAATTAAGTTAGGTAAGTTATGTATAATATTAATGTAAGTTATGTAATTTATGTGTAATATTA
1 ATTAATTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTAATTTATGTATAATATTA
51692235 ATGTAAGTTATGTAAGTTGTAAGTTATGTATAATATTA
66 ATGTAAGTTATGTAAGTTGTAAGTTATGTATAATATTA
* * *
51692273 ATTAATTAAGTTAGGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATA
1 ATTAATTAAGTTATGTAATTTATGTATAATATTAA-T--GTAAGTTATGTAATTTATGTATAATA
51692338 TTAATGTAAGTTATGTAAGTTGTAAGTTATGTATAATATTA
63 TTAATGTAAGTTATGTAAGTTGTAAGTTATGTATAATATTA
51692379 ATTAATTAAGTTATGTAATTTATGTATAATATTAATGT
1 ATTAATTAAGTTATGTAATTTATGTATAATATTAATGT
51692417 GGCTTCTACG
Statistics
Matches: 338, Mismatches: 9, Indels: 7
0.95 0.03 0.02
Matches are distributed among these distances:
103 232 0.69
104 7 0.02
105 1 0.00
106 98 0.29
ACGTcount: A:0.39, C:0.00, G:0.15, T:0.47
Consensus pattern (103 bp):
ATTAATTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTAATTTATGTATAATATTA
ATGTAAGTTATGTAAGTTGTAAGTTATGTATAATATTA
Found at i:51692411 original size:72 final size:71
Alignment explanation
Indices: 51691963--51692416 Score: 500
Period size: 72 Copynumber: 6.5 Consensus size: 71
51691953 GTTATGTCGT
*
51691963 ATTAATGTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTAA---T---TTATGTAT
1 ATTAAT-TAAGTTATGTAAGTTATGTATAATATTAATGTAAGTTATGTAAGTGTAAGTTATGTAT
51692022 AATATTA
65 AATATTA
* * * * * *
51692029 ATGTAAGTTATGTAAGTTGTAAGTTATGTATAATATAAAT-TAA-TTAAGTTA-TGTAATTTATG
1 AT-TAA-TTAAGTTA--TGTAAGTTATGTATAATATTAATGTAAGTTATGTAAGTGTAAGTTATG
51692091 TATAATATTA
62 TATAATATTA
* * *
51692101 A-T--GTAAGTTATGTAATTTATGTGTAATATTAATGTAAGTTATGTAAGTTGTAAGTTATGTAT
1 ATTAATTAAGTTATGTAAGTTATGTATAATATTAATGTAAGTTATGTAAG-TGTAAGTTATGTAT
51692163 AATATTA
65 AATATTA
* *
51692170 ATTAATTAAGTTAGGTAAGTTATGTATAATATTAATGTAAGTTATGTAA---T---TTATGTGTA
1 ATTAATTAAGTTATGTAAGTTATGTATAATATTAATGTAAGTTATGTAAGTGTAAGTTATGTATA
51692229 ATATTA
66 ATATTA
* * * *
51692235 ATGTAAGTTATGTAAGTTGTAAGTTATGTATAATATTAAT-TAA-TTAAGTTAG-GTAAGTTATG
1 AT-TAA-TTAAGTTA--TGTAAGTTATGTATAATATTAATGTAAGTTATGTAAGTGTAAGTTATG
51692297 TATAATATTA
62 TATAATATTA
*
51692307 ATTAATTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTAAGTTGTAAGTTATGTAT
1 ATTAATTAAGTTATGTAAGTTATGTATAATATTAATGTAAGTTATGTAAG-TGTAAGTTATGTAT
51692372 AATATTA
65 AATATTA
*
51692379 ATTAATTAAGTTATGTAATTTATGTATAATATTAATGT
1 ATTAATTAAGTTATGTAAGTTATGTATAATATTAATGT
51692417 GGCTTCTACG
Statistics
Matches: 328, Mismatches: 31, Indels: 52
0.80 0.08 0.13
Matches are distributed among these distances:
65 36 0.11
66 8 0.02
67 37 0.11
68 30 0.09
69 69 0.21
70 15 0.05
71 3 0.01
72 130 0.40
ACGTcount: A:0.39, C:0.00, G:0.15, T:0.47
Consensus pattern (71 bp):
ATTAATTAAGTTATGTAAGTTATGTATAATATTAATGTAAGTTATGTAAGTGTAAGTTATGTATA
ATATTA
Found at i:51692971 original size:47 final size:47
Alignment explanation
Indices: 51692896--51692989 Score: 143
Period size: 47 Copynumber: 2.0 Consensus size: 47
51692886 AACGCTAGAC
*
51692896 CACCTCCACATGCATTAATCAAATCCTAAATTATATTTTAGAAGGGG
1 CACCTCCACATGCATTAATCAAACCCTAAATTATATTTTAGAAGGGG
* * * *
51692943 CACCTCCATATGCATTAATCAAGCCCTAAATTATCTTTTGGAAGGGG
1 CACCTCCACATGCATTAATCAAACCCTAAATTATATTTTAGAAGGGG
51692990 AATCGAAGCA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 42 1.00
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.30
Consensus pattern (47 bp):
CACCTCCACATGCATTAATCAAACCCTAAATTATATTTTAGAAGGGG
Found at i:51695478 original size:13 final size:14
Alignment explanation
Indices: 51695443--51695483 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 14
51695433 GCCACCCCTA
*
51695443 AAGT-CTAAACCGT
1 AAGTCCTAAACCAT
*
51695456 AAGTCATAAACCAT
1 AAGTCCTAAACCAT
51695470 AA-TCCTAAACCAT
1 AAGTCCTAAACCAT
51695483 A
1 A
51695484 TCTTTGAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 15 0.62
14 9 0.38
ACGTcount: A:0.46, C:0.24, G:0.07, T:0.22
Consensus pattern (14 bp):
AAGTCCTAAACCAT
Found at i:51702750 original size:18 final size:19
Alignment explanation
Indices: 51702715--51702752 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
51702705 GATAATTCTA
51702715 AAAAAATTATTTAAATTTTC
1 AAAAAATTATTT-AATTTTC
51702735 AAAAAATTATTT-ATTTTC
1 AAAAAATTATTTAATTTTC
51702753 TAAATATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 6 0.33
20 12 0.67
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (19 bp):
AAAAAATTATTTAATTTTC
Found at i:51706460 original size:10 final size:10
Alignment explanation
Indices: 51706436--51706479 Score: 54
Period size: 10 Copynumber: 4.3 Consensus size: 10
51706426 AAGTAAAAAG
*
51706436 AAAATTAT-T
1 AAAATTATAA
51706445 AAAATTATAA
1 AAAATTATAA
51706455 AAAATTATAAA
1 AAAATTAT-AA
51706466 TAAAATTATAA
1 -AAAATTATAA
51706477 AAA
1 AAA
51706480 TGATTTAAGC
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
9 8 0.26
10 11 0.35
11 4 0.13
12 8 0.26
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (10 bp):
AAAATTATAA
Found at i:51706472 original size:12 final size:12
Alignment explanation
Indices: 51706444--51706477 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
51706434 AGAAAATTAT
51706444 TAAAATTAT-AA
1 TAAAATTATAAA
51706455 -AAAATTATAAA
1 TAAAATTATAAA
51706466 TAAAATTATAAA
1 TAAAATTATAAA
51706478 AATGATTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 8 0.38
11 2 0.10
12 11 0.52
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
TAAAATTATAAA
Found at i:51711780 original size:22 final size:22
Alignment explanation
Indices: 51711750--51711792 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
51711740 ACACCAAAAC
*
51711750 AGGCTTTTAGCGGCGCTTTTTT
1 AGGCCTTTAGCGGCGCTTTTTT
51711772 AGGCCTTTAGCGGCGCTTTTT
1 AGGCCTTTAGCGGCGCTTTTT
51711793 AGCGCCGCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.09, C:0.21, G:0.28, T:0.42
Consensus pattern (22 bp):
AGGCCTTTAGCGGCGCTTTTTT
Found at i:51711951 original size:43 final size:43
Alignment explanation
Indices: 51711901--51712045 Score: 177
Period size: 43 Copynumber: 3.4 Consensus size: 43
51711891 AGACTAAGAG
* *
51711901 CTTTAGCGGCGTTTTTAATATAACCGCCGCTATAGAT-TGGTGT
1 CTTTAGCGGCGTTTTTAATATAAGCGCCGCTATAGATCAGG-GT
**
51711944 CTTTAGCGGCGTTTTTGTTGA-AAGCGCCGCTATAGATCAGGGT
1 CTTTAGCGGCGTTTTTAAT-ATAAGCGCCGCTATAGATCAGGGT
* * * *
51711987 CTTTAGCGGCGTTTTTTATATAAGAGCCGCTATAGATCATGGC
1 CTTTAGCGGCGTTTTTAATATAAGCGCCGCTATAGATCAGGGT
*
51712030 CTTTAGCGGCGCTTTT
1 CTTTAGCGGCGTTTTT
51712046 CCCAAAAACG
Statistics
Matches: 89, Mismatches: 10, Indels: 6
0.85 0.10 0.06
Matches are distributed among these distances:
42 1 0.01
43 85 0.96
44 3 0.03
ACGTcount: A:0.19, C:0.19, G:0.26, T:0.36
Consensus pattern (43 bp):
CTTTAGCGGCGTTTTTAATATAAGCGCCGCTATAGATCAGGGT
Found at i:51712058 original size:86 final size:86
Alignment explanation
Indices: 51711901--51712065 Score: 199
Period size: 86 Copynumber: 1.9 Consensus size: 86
51711891 AGACTAAGAG
* * * ****
51711901 CTTTAGCGGCGTTTTTAATATAACCGCCGCTATAGATTGGTGTCTTTAGCGGCGTTTTTGTTGAA
1 CTTTAGCGGCGTTTTTAATATAACAGCCGCTATAGATTGGTGCCTTTAGCGGCGCTTTTCCCAAA
* *
51711966 AGCGCCGCTATAGATCAGGGT
66 AACGCCGCAATAGATCAGGGT
* *
51711987 CTTTAGCGGCGTTTTTTATATAAGAGCCGCTATAGATCAT-G-GCCTTTAGCGGCGCTTTTCCCA
1 CTTTAGCGGCGTTTTTAATATAACAGCCGCTATAGAT--TGGTGCCTTTAGCGGCGCTTTTCCCA
51712050 AAAACGCCGCAATAGA
64 AAAACGCCGCAATAGA
51712066 CCCTGATCTA
Statistics
Matches: 66, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
86 64 0.97
87 1 0.02
88 1 0.02
ACGTcount: A:0.22, C:0.21, G:0.24, T:0.32
Consensus pattern (86 bp):
CTTTAGCGGCGTTTTTAATATAACAGCCGCTATAGATTGGTGCCTTTAGCGGCGCTTTTCCCAAA
AACGCCGCAATAGATCAGGGT
Found at i:51712059 original size:43 final size:44
Alignment explanation
Indices: 51711901--51712065 Score: 110
Period size: 43 Copynumber: 3.8 Consensus size: 44
51711891 AGACTAAGAG
* * * *
51711901 CTTTAGCGGCG-TTTTTA-ATATAACCGCCGCTATAGAT-TGGTGT
1 CTTTAGCGGCGCTTTTCACATA-AAACGCCGCTATAGATCAGG-GC
*** * *
51711944 CTTTAGCGGCG-TTTT-TGTTGAAAGCGCCGCTATAGATCAGGGT
1 CTTTAGCGGCGCTTTTCACAT-AAAACGCCGCTATAGATCAGGGC
* * * * *
51711987 CTTTAGCGGCGTTTTTTATATAAGA-GCCGCTATAGATCATGGC
1 CTTTAGCGGCGCTTTTCACATAAAACGCCGCTATAGATCAGGGC
* *
51712030 CTTTAGCGGCGCTTTTCCCA-AAAACGCCGCAATAGA
1 CTTTAGCGGCGCTTTTCACATAAAACGCCGCTATAGA
51712066 CCCTGATCTA
Statistics
Matches: 99, Mismatches: 17, Indels: 12
0.77 0.13 0.09
Matches are distributed among these distances:
42 3 0.03
43 86 0.87
44 9 0.09
45 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.24, T:0.32
Consensus pattern (44 bp):
CTTTAGCGGCGCTTTTCACATAAAACGCCGCTATAGATCAGGGC
Found at i:51712080 original size:43 final size:43
Alignment explanation
Indices: 51712033--51712195 Score: 170
Period size: 43 Copynumber: 3.7 Consensus size: 43
51712023 TCATGGCCTT
51712033 TAGCGGCGCTTTTCCCAAAAACGCCGC-AATAGACCCTGATCTA
1 TAGCGGCGCTTTTCCCAAAAACGCCGCTAA-AGACCCTGATCTA
* * *
51712076 TAGCGGCGCTTAT-CCAGAAAATGCCGCTAAATACCCTTTG-TCTATA
1 TAGCGGCGCTTTTCCCA-AAAACGCCGCTAAAGACCC--TGATC--TA
* ** * *
51712122 TAGCGGCACTTCGCGCAAAAACGCCGCTAAAGACCCTAATCTA
1 TAGCGGCGCTTTTCCCAAAAACGCCGCTAAAGACCCTGATCTA
*
51712165 TAGCGGCGCTTTTACCAAAAACGCCGCTAAA
1 TAGCGGCGCTTTTCCCAAAAACGCCGCTAAA
51712196 TTTGGCAGAT
Statistics
Matches: 97, Mismatches: 15, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
42 3 0.03
43 54 0.56
44 5 0.05
45 4 0.04
46 29 0.30
47 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.21
Consensus pattern (43 bp):
TAGCGGCGCTTTTCCCAAAAACGCCGCTAAAGACCCTGATCTA
Found at i:51712526 original size:21 final size:21
Alignment explanation
Indices: 51712500--51712592 Score: 96
Period size: 21 Copynumber: 4.4 Consensus size: 21
51712490 TTTGACGCTG
51712500 CTCTGCTTCCCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
**
51712521 CTCTGCTTCCCTCGCTTTAGC
1 CTCTGCTTCCCTCGCTGCAGC
* * *
51712542 CTTTGCTTCCCTTGCTGTAGC
1 CTCTGCTTCCCTCGCTGCAGC
* * * * *
51712563 TTGTTCTTCTCTCGCTGCTGC
1 CTCTGCTTCCCTCGCTGCAGC
51712584 CTCTGCTTC
1 CTCTGCTTC
51712593 TCTTGCTACC
Statistics
Matches: 57, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 57 1.00
ACGTcount: A:0.03, C:0.40, G:0.17, T:0.40
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:51712591 original size:42 final size:42
Alignment explanation
Indices: 51712496--51712599 Score: 104
Period size: 42 Copynumber: 2.5 Consensus size: 42
51712486 AACTTTTGAC
*
51712496 GCTG-CTCTGCTTCCCTCGCTGCAGCCTCTGCTTCCCTCGCT
1 GCTGCCTCTGCTTCCCTTGCTGCAGCCTCTGCTTCCCTCGCT
* * * * * * *
51712537 -TTAGCCTTTGCTTCCCTTGCTGTAGCTTGTTCTTCTCTCGCT
1 GCT-GCCTCTGCTTCCCTTGCTGCAGCCTCTGCTTCCCTCGCT
*
51712579 GCTGCCTCTGCTTCTCTTGCT
1 GCTGCCTCTGCTTCCCTTGCT
51712600 ACCGTATCTG
Statistics
Matches: 49, Mismatches: 11, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
40 1 0.02
41 1 0.02
42 46 0.94
43 1 0.02
ACGTcount: A:0.03, C:0.38, G:0.18, T:0.40
Consensus pattern (42 bp):
GCTGCCTCTGCTTCCCTTGCTGCAGCCTCTGCTTCCCTCGCT
Found at i:51712660 original size:66 final size:66
Alignment explanation
Indices: 51712583--51712729 Score: 181
Period size: 66 Copynumber: 2.2 Consensus size: 66
51712573 CTCGCTGCTG
* * *
51712583 CCTCTGCTTCTCTTGCTACCGTATCTGCTCTAAGCTGCT-GCTGGAGTTCTTCATA-CTTTCGTT
1 CCTCAGCTTCTCTCGCTACCGCATCTGCTCTAAGCTG-TAGCTGGAGTTCTTCATATCTTT-GTT
51712646 GAA
64 GAA
* * * * *
51712649 CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAGTTGTAGCTGGAGTTCTTCATATCTTTTTTGA
1 CCTCAGCTTCTCTCGCTACCGCATCTGCTCTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTGA
51712714 A
66 A
*
51712715 CATCAGCTTCTCTCG
1 CCTCAGCTTCTCTCG
51712730 ATGTTGCCTC
Statistics
Matches: 70, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
65 1 0.01
66 65 0.93
67 4 0.06
ACGTcount: A:0.14, C:0.28, G:0.18, T:0.40
Consensus pattern (66 bp):
CCTCAGCTTCTCTCGCTACCGCATCTGCTCTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTGA
A
Found at i:51712742 original size:66 final size:66
Alignment explanation
Indices: 51712605--51712752 Score: 201
Period size: 66 Copynumber: 2.2 Consensus size: 66
51712595 TTGCTACCGT
* * * *
51712605 ATCTGCTCTAAGCTGCT-GCTGGAGTTCTTCATACTTTCGTTGAACCTCAGCTTCTCTCGCTGCT
1 ATCTGCTTTAAGTTG-TAGCTGGAGTTCTTCATACTTTCGTTGAACATCAGCTTCTCTCGATGCT
51712669 GC
65 GC
* *
51712671 ATCTGCTTTAAGTTGTAGCTGGAGTTCTTCATATCTTT-TTTGAACATCAGCTTCTCTCGATGTT
1 ATCTGCTTTAAGTTGTAGCTGGAGTTCTTCATA-CTTTCGTTGAACATCAGCTTCTCTCGATGCT
51712735 GC
65 GC
*
51712737 CTCTGCTTTAAGTTGT
1 ATCTGCTTTAAGTTGT
51712753 GTAATTTGCT
Statistics
Matches: 73, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
65 1 0.01
66 68 0.93
67 4 0.05
ACGTcount: A:0.16, C:0.24, G:0.19, T:0.41
Consensus pattern (66 bp):
ATCTGCTTTAAGTTGTAGCTGGAGTTCTTCATACTTTCGTTGAACATCAGCTTCTCTCGATGCTG
C
Found at i:51718178 original size:16 final size:16
Alignment explanation
Indices: 51718157--51718189 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
51718147 ATAGTTAAGC
51718157 TATGTAAGTTATGTAT
1 TATGTAAGTTATGTAT
*
51718173 TATGTAAGTTATTTAT
1 TATGTAAGTTATGTAT
51718189 T
1 T
51718190 CCCCAAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.30, C:0.00, G:0.15, T:0.55
Consensus pattern (16 bp):
TATGTAAGTTATGTAT
Found at i:51718240 original size:9 final size:9
Alignment explanation
Indices: 51718228--51718425 Score: 60
Period size: 9 Copynumber: 22.7 Consensus size: 9
51718218 AAAATTATGC
51718228 TATGTAAGT
1 TATGTAAGT
51718237 TATGTAAGT
1 TATGTAAGT
* **
51718246 CACATAAGT
1 TATGTAAGT
51718255 TATGTAAG-
1 TATGTAAGT
* * *
51718263 -AAGTTATT
1 TATGTAAGT
51718271 TATGTAAGT
1 TATGTAAGT
*
51718280 TAT-TTA-T
1 TATGTAAGT
* *
51718287 TATGAAAAT
1 TATGTAAGT
*
51718296 TAAGTAAGT
1 TATGTAAGT
*
51718305 TATGTAATT
1 TATGTAAGT
*
51718314 TACG-AA-T
1 TATGTAAGT
* **
51718321 AAT-TAAAAA
1 TATGT-AAGT
51718330 TATGTAAGT
1 TATGTAAGT
51718339 TATGTAAG-
1 TATGTAAGT
51718347 T-TGTAAGT
1 TATGTAAGT
*
51718355 TATGTATA-A
1 TATGTA-AGT
51718364 TAT-TAA-T
1 TATGTAAGT
**
51718371 TAACTAAGT
1 TATGTAAGT
* *
51718380 TATGTCATT
1 TATGTAAGT
*
51718389 TATGTATCATAT
1 TATGTA--A-GT
51718401 TAATGTAAGT
1 T-ATGTAAGT
*
51718411 TATGTAATT
1 TATGTAAGT
51718420 TATGTA
1 TATGTA
51718426 TATTAACTAA
Statistics
Matches: 134, Mismatches: 38, Indels: 34
0.65 0.18 0.17
Matches are distributed among these distances:
7 19 0.14
8 14 0.10
9 88 0.66
10 4 0.03
11 2 0.01
12 2 0.01
13 5 0.04
ACGTcount: A:0.39, C:0.03, G:0.15, T:0.43
Consensus pattern (9 bp):
TATGTAAGT
Found at i:51718308 original size:34 final size:34
Alignment explanation
Indices: 51718270--51718348 Score: 86
Period size: 34 Copynumber: 2.3 Consensus size: 34
51718260 AAGAAGTTAT
*** * *
51718270 TTATGTAAGTTATTTATTATGAAAATTAAGTAAG
1 TTATGTAAGTTACGAATAATGAAAAATAAGTAAG
* * *
51718304 TTATGTAATTTACGAATAATTAAAAATATGTAAG
1 TTATGTAAGTTACGAATAATGAAAAATAAGTAAG
51718338 TTATGTAAGTT
1 TTATGTAAGTT
51718349 GTAAGTTATG
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.42, C:0.01, G:0.14, T:0.43
Consensus pattern (34 bp):
TTATGTAAGTTACGAATAATGAAAAATAAGTAAG
Found at i:51718392 original size:34 final size:34
Alignment explanation
Indices: 51718348--51718500 Score: 183
Period size: 34 Copynumber: 4.7 Consensus size: 34
51718338 TTATGTAAGT
* *
51718348 TGTAAGTTATGTATAATATTAATTAACTAAGTTA
1 TGTAATTTATGTATAATATTAATTAATTAAGTTA
* * *
51718382 TGTCATTTATGTATCATATTAA-T--GTAAGTTA
1 TGTAATTTATGTATAATATTAATTAATTAAGTTA
* *
51718413 TGTAATTTATG--T-ATATTAACTAATTAATTTA
1 TGTAATTTATGTATAATATTAATTAATTAAGTTA
*
51718444 TGTAAGTTATGTATAATATTAATTAATTAAGTTA
1 TGTAATTTATGTATAATATTAATTAATTAAGTTA
*
51718478 TGTCATTTATGTATAATATTAAT
1 TGTAATTTATGTATAATATTAAT
51718501 GTAAGTTATG
Statistics
Matches: 101, Mismatches: 12, Indels: 12
0.81 0.10 0.10
Matches are distributed among these distances:
28 7 0.07
29 2 0.02
31 33 0.33
33 2 0.02
34 57 0.56
ACGTcount: A:0.38, C:0.03, G:0.10, T:0.48
Consensus pattern (34 bp):
TGTAATTTATGTATAATATTAATTAATTAAGTTA
Found at i:51718413 original size:31 final size:31
Alignment explanation
Indices: 51718354--51718567 Score: 208
Period size: 31 Copynumber: 6.9 Consensus size: 31
51718344 AAGTTGTAAG
*
51718354 TTATGTATAATATTAATTAACTAAGTTATGTCAT
1 TTATGTATAATATTAA-T--GTAAGTTATGTCAT
* *
51718388 TTATGTATCATATTAATGTAAGTTATGTAAT
1 TTATGTATAATATTAATGTAAGTTATGTCAT
* * * * *
51718419 TTATGTATATTAACTAAT-TAATTTATGTAAG
1 TTATGTATAAT-ATTAATGTAAGTTATGTCAT
*
51718450 TTATGTATAATATTAATTAATTAAGTTATGTCAT
1 TTATGTATAATATTAA-T--GTAAGTTATGTCAT
51718484 TTATGTATAATATTAATGTAAGTTATGT-A-
1 TTATGTATAATATTAATGTAAGTTATGTCAT
* *
51718513 -TA-ATATTA-ATTAAT-TAAGTTATGTCAT
1 TTATGTATAATATTAATGTAAGTTATGTCAT
*
51718540 CTATGTATAATATTAATGTAAGTTATGT
1 TTATGTATAATATTAATGTAAGTTATGT
51718568 ATAATATTAA
Statistics
Matches: 151, Mismatches: 18, Indels: 25
0.78 0.09 0.13
Matches are distributed among these distances:
25 10 0.07
26 7 0.05
27 4 0.03
28 4 0.03
29 4 0.03
30 11 0.07
31 63 0.42
32 5 0.03
33 2 0.01
34 41 0.27
ACGTcount: A:0.38, C:0.03, G:0.11, T:0.48
Consensus pattern (31 bp):
TTATGTATAATATTAATGTAAGTTATGTCAT
Found at i:51718504 original size:56 final size:56
Alignment explanation
Indices: 51718443--51718593 Score: 293
Period size: 56 Copynumber: 2.7 Consensus size: 56
51718433 TAATTAATTT
*
51718443 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTCATTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTCATCTATGTATAATATTA
51718499 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTCATCTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTCATCTATGTATAATATTA
51718555 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTC
1 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTC
51718594 CCTTACAATA
Statistics
Matches: 94, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
56 94 1.00
ACGTcount: A:0.39, C:0.03, G:0.11, T:0.47
Consensus pattern (56 bp):
ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTCATCTATGTATAATATTA
Found at i:51718716 original size:24 final size:24
Alignment explanation
Indices: 51718684--51718736 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
51718674 AGTATTTTAT
51718684 AATATAATATTAATTTTAGATACA
1 AATATAATATTAATTTTAGATACA
*
51718708 AATATAATATTAATTTTAGTTACA
1 AATATAATATTAATTTTAGATACA
51718732 AATAT
1 AATAT
51718737 TATACAAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.43
Consensus pattern (24 bp):
AATATAATATTAATTTTAGATACA
Found at i:51720227 original size:17 final size:17
Alignment explanation
Indices: 51720207--51720244 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
51720197 TTAAAGTTCA
51720207 CAAGGAAGTAAAGGCTG
1 CAAGGAAGTAAAGGCTG
*
51720224 CAAGGAAGTAGAGGCTG
1 CAAGGAAGTAAAGGCTG
51720241 CAAG
1 CAAG
51720245 TTCCTGGGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.39, C:0.13, G:0.37, T:0.11
Consensus pattern (17 bp):
CAAGGAAGTAAAGGCTG
Found at i:51720532 original size:33 final size:33
Alignment explanation
Indices: 51720485--51720552 Score: 118
Period size: 33 Copynumber: 2.1 Consensus size: 33
51720475 AAATATATAT
*
51720485 ATTCATACCTAACACTAATCTCATTTAACTCGA
1 ATTCATACCCAACACTAATCTCATTTAACTCGA
*
51720518 ATTCATACCCAACACTCATCTCATTTAACTCGA
1 ATTCATACCCAACACTAATCTCATTTAACTCGA
51720551 AT
1 AT
51720553 AACATAGATG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.35, C:0.29, G:0.03, T:0.32
Consensus pattern (33 bp):
ATTCATACCCAACACTAATCTCATTTAACTCGA
Found at i:51720793 original size:14 final size:15
Alignment explanation
Indices: 51720774--51720812 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
51720764 AATTGGGAAA
51720774 TTGGGGAAAAT-ACT
1 TTGGGGAAAATAACT
51720788 TTGGGGAAGAATAACT
1 TTGGGGAA-AATAACT
*
51720804 TGGGGGAAA
1 TTGGGGAAA
51720813 TTGGGGGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 8 0.36
15 4 0.18
16 10 0.45
ACGTcount: A:0.36, C:0.05, G:0.36, T:0.23
Consensus pattern (15 bp):
TTGGGGAAAATAACT
Found at i:51720817 original size:25 final size:22
Alignment explanation
Indices: 51720788--51720844 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 22
51720778 GGAAAATACT
*
51720788 TTGGGGAAGAATAACTTGGGGGAAA
1 TTGGGGAA-AAGAACTT--GGGAAA
*
51720813 TTGGGGGAAAAGAAGTTGGGAAA
1 TT-GGGGAAAAGAACTTGGGAAA
51720836 TTGGGGAAA
1 TTGGGGAAA
51720845 TGAAATCGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
22 7 0.24
23 8 0.28
25 8 0.28
26 6 0.21
ACGTcount: A:0.37, C:0.02, G:0.42, T:0.19
Consensus pattern (22 bp):
TTGGGGAAAAGAACTTGGGAAA
Found at i:51720857 original size:23 final size:23
Alignment explanation
Indices: 51720807--51720860 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
51720797 AATAACTTGG
* *
51720807 GGGAAATTGGGGGAAAAGAAGTT
1 GGGAAATTGGGGGAAAAGAAATC
*
51720830 GGGAAATT-GGGGAAATGAAATC
1 GGGAAATTGGGGGAAAAGAAATC
51720852 GTGGAAATT
1 G-GGAAATT
51720861 TGACTTGGGG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
22 12 0.44
23 15 0.56
ACGTcount: A:0.39, C:0.02, G:0.39, T:0.20
Consensus pattern (23 bp):
GGGAAATTGGGGGAAAAGAAATC
Found at i:51722083 original size:16 final size:16
Alignment explanation
Indices: 51722058--51722088 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
51722048 AACCCCTTAG
*
51722058 CCCCTTACCCCTAAAT
1 CCCCTAACCCCTAAAT
51722074 CCCCTAACCCCTAAA
1 CCCCTAACCCCTAAA
51722089 GCATAACCCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.52, G:0.00, T:0.19
Consensus pattern (16 bp):
CCCCTAACCCCTAAAT
Found at i:51723075 original size:42 final size:41
Alignment explanation
Indices: 51722930--51723294 Score: 428
Period size: 42 Copynumber: 8.8 Consensus size: 41
51722920 AAGGTTAATA
* * * * **
51722930 CATTCGCGGCGCTTAGA-TACAAACGCCGCTGAATACAGGAG
1 CATTAGCGGCGCTTAGACGA-AAACGCCGCTAAAGACCCGAG
* * * ** * *
51722971 AATTAGCGGCGCATATATAAAAACACCGCTAAAAACCCGAG
1 CATTAGCGGCGCTTAGACGAAAACGCCGCTAAAGACCCGAG
* * *
51723012 CATTAGCGGCGCATAGGCGAAAACGCCGCTATAGACCCAGAG
1 CATTAGCGGCGCTTAGACGAAAACGCCGCTAAAGACCC-GAG
*
51723054 CATTAGCGGCGCTTAGACGAAAACGCCGCTAAAGACTCGGAG
1 CATTAGCGGCGCTTAGACGAAAACGCCGCTAAAGAC-CCGAG
* * * *
51723096 CATTACCGGCGCTTAGACGAAAGCGTCGCTAAAGACTCGGAG
1 CATTAGCGGCGCTTAGACGAAAACGCCGCTAAAGAC-CCGAG
* *
51723138 CATTAGCGGCGCTTAGACGAAAGCGCCGCTAAAGACTCGGAG
1 CATTAGCGGCGCTTAGACGAAAACGCCGCTAAAGAC-CCGAG
*
51723180 CATTAGCGGCGCTTAGACGAAAACGCCGCTATAGACCCGAG
1 CATTAGCGGCGCTTAGACGAAAACGCCGCTAAAGACCCGAG
*
51723221 CATTAGCGGCGCTTAGAC-AAAGACGCCGCTATAGACCCGAG
1 CATTAGCGGCGCTTAGACGAAA-ACGCCGCTAAAGACCCGAG
*
51723262 CATTAGCGGCGCTTAGACAAAAACGCCGCTAAA
1 CATTAGCGGCGCTTAGACGAAAACGCCGCTAAA
51723295 TGTTTAAAAA
Statistics
Matches: 288, Mismatches: 31, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
40 3 0.01
41 128 0.44
42 156 0.54
43 1 0.00
ACGTcount: A:0.32, C:0.27, G:0.26, T:0.15
Consensus pattern (41 bp):
CATTAGCGGCGCTTAGACGAAAACGCCGCTAAAGACCCGAG
Found at i:51723237 original size:23 final size:24
Alignment explanation
Indices: 51723206--51723279 Score: 67
Period size: 23 Copynumber: 3.4 Consensus size: 24
51723196 ACGAAAACGC
51723206 CGCTATAGACCCGAGCATTAGCGG
1 CGCTATAGACCCGAGCATTAGCGG
*
51723230 CGCT-TAGA--C-A--A--AGACGC
1 CGCTATAGACCCGAGCATTAG-CGG
51723247 CGCTATAGACCCGAGCATTAGCGG
1 CGCTATAGACCCGAGCATTAGCGG
51723271 CGCT-TAGAC
1 CGCTATAGAC
51723280 AAAAACGCCG
Statistics
Matches: 39, Mismatches: 2, Indels: 19
0.65 0.03 0.32
Matches are distributed among these distances:
16 2 0.05
17 6 0.15
18 5 0.13
20 2 0.05
21 2 0.05
23 10 0.26
24 10 0.26
25 2 0.05
ACGTcount: A:0.27, C:0.30, G:0.27, T:0.16
Consensus pattern (24 bp):
CGCTATAGACCCGAGCATTAGCGG
Found at i:51729545 original size:29 final size:29
Alignment explanation
Indices: 51729513--51729568 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
51729503 ATGAGTGGAA
51729513 ATATAATGATAATAATAATAACATTAATG
1 ATATAATGATAATAATAATAACATTAATG
* * * *
51729542 ATATGATGATAGTAGTAATAAGATTAA
1 ATATAATGATAATAATAATAACATTAA
51729569 AATAATTAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.52, C:0.02, G:0.12, T:0.34
Consensus pattern (29 bp):
ATATAATGATAATAATAATAACATTAATG
Found at i:51731291 original size:27 final size:26
Alignment explanation
Indices: 51731240--51731292 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 26
51731230 ACTCTCTCTT
*
51731240 TTTCTCTTTATTTTCCATTATCTTCTG
1 TTTCTCTTTATTTTCCA-TACCTTCTG
51731267 TTTCTCCTTCTATTTTCC-TACCTTCT
1 TTTCT-CTT-TATTTTCCATACCTTCT
51731293 CCATGTCTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
27 12 0.52
28 3 0.13
29 8 0.35
ACGTcount: A:0.09, C:0.28, G:0.02, T:0.60
Consensus pattern (26 bp):
TTTCTCTTTATTTTCCATACCTTCTG
Found at i:51742763 original size:19 final size:19
Alignment explanation
Indices: 51742728--51742764 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
51742718 ATATATTACC
**
51742728 TAAATATTTTAGTATTATG
1 TAAATATTTTAACATTATG
51742747 TAAATATTTTAACATTAT
1 TAAATATTTTAACATTAT
51742765 ATTATATATG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (19 bp):
TAAATATTTTAACATTATG
Done.