Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 185 of 362
Found at i:61483449 original size:15 final size:15
Alignment explanation
Indices: 61483431--61483461 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
61483421 TAATTATAAC
61483431 AAAGCTTATTAACAT
1 AAAGCTTATTAACAT
61483446 AAAGCTTATTAACAT
1 AAAGCTTATTAACAT
61483461 A
1 A
61483462 CGAACTTACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.48, C:0.13, G:0.06, T:0.32
Consensus pattern (15 bp):
AAAGCTTATTAACAT
Found at i:61493445 original size:43 final size:43
Alignment explanation
Indices: 61493397--61493637 Score: 428
Period size: 43 Copynumber: 5.6 Consensus size: 43
61493387 CCGGCATTAC
61493397 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* *
61493440 GCCTGCTAGGCACAAAGGCCCGAATACACATCACCGACACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
61493483 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
61493526 GCCTGCTAGGCACAAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
61493569 GCCTGCTAGGCACGAAGGCCCAAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* *
61493612 TCCTACTAGGCACGAAGGCCCGAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
61493638 TAATACCAGC
Statistics
Matches: 188, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 188 1.00
ACGTcount: A:0.32, C:0.34, G:0.24, T:0.10
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
Found at i:61493737 original size:38 final size:38
Alignment explanation
Indices: 61493630--61493714 Score: 134
Period size: 38 Copynumber: 2.2 Consensus size: 38
61493620 GGCACGAAGG
* * * *
61493630 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAT
1 CCCGGATATAATACCAGCACAAAGCCTGCGGGATTTAA
61493668 CCCGGATATAATACCAGCACAAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACAAAGCCTGCGGGATTTAA
61493706 CCCGGATAT
1 CCCGGATAT
61493715 TTTACTAGCA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 43 1.00
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.21
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACAAAGCCTGCGGGATTTAA
Found at i:61496726 original size:44 final size:45
Alignment explanation
Indices: 61496673--61496774 Score: 134
Period size: 44 Copynumber: 2.3 Consensus size: 45
61496663 TGTCTTTGAC
* * *
61496673 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATA-TATAAT
1 ATGGACTTACATGAATCAATCCTGTCTCCAAAGCCATATTATAAT
** *
61496717 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGAATCAATCCTGTCTCCAAAGCCATA-TTATAAT
61496763 ATGGACTTACAT
1 ATGGACTTACAT
61496775 AGCTCATTTC
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
44 33 0.66
46 17 0.34
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.34
Consensus pattern (45 bp):
ATGGACTTACATGAATCAATCCTGTCTCCAAAGCCATATTATAAT
Found at i:61496780 original size:46 final size:44
Alignment explanation
Indices: 61496692--61496780 Score: 133
Period size: 46 Copynumber: 2.0 Consensus size: 44
61496682 CATGAATTAT
* *
61496692 TCCTGTCTCCAATGCCATATATAATATGGACTTACATGGCTCAA
1 TCCTGTCTCCAAAGCCATATATAATATGGACTTACATAGCTCAA
*
61496736 TCCTGTCTCCAAAGCCATATTTCTAATATGGACTTACATAGCTCA
1 TCCTGTCTCCAAAGCCATA--TATAATATGGACTTACATAGCTCA
61496781 TTTCTGTTCT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
44 18 0.45
46 22 0.55
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (44 bp):
TCCTGTCTCCAAAGCCATATATAATATGGACTTACATAGCTCAA
Found at i:61499955 original size:48 final size:48
Alignment explanation
Indices: 61499895--61499998 Score: 122
Period size: 48 Copynumber: 2.2 Consensus size: 48
61499885 GTCCAACTAT
* * * *
61499895 GGTCTTATACTAGCTCT-ACTCTGCTCGTGCTGATGCCTATTCCC-GATA
1 GGTCTTACACTAGCACTCACTCGGCT-GTGCCGATGCCTA-TCCCAGATA
*
61499943 GGTCTTACACTAGCACTCACTGGGCTGTGCCGATGCCTATCCCAGATA
1 GGTCTTACACTAGCACTCACTCGGCTGTGCCGATGCCTATCCCAGATA
*
61499991 GATCTTAC
1 GGTCTTAC
61499999 GCTTAGCGCA
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
47 4 0.08
48 38 0.79
49 6 0.12
ACGTcount: A:0.19, C:0.30, G:0.20, T:0.31
Consensus pattern (48 bp):
GGTCTTACACTAGCACTCACTCGGCTGTGCCGATGCCTATCCCAGATA
Found at i:61501582 original size:27 final size:27
Alignment explanation
Indices: 61501540--61501591 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
61501530 CGTCTGCTAG
61501540 GCACGAAGGCCCGAATACACATCACCA
1 GCACGAAGGCCCGAATACACATCACCA
*
61501567 GCACGAAGGCCTGAATACACATCAC
1 GCACGAAGGCCCGAATACACATCAC
61501592 GCCTGAATAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.37, C:0.35, G:0.19, T:0.10
Consensus pattern (27 bp):
GCACGAAGGCCCGAATACACATCACCA
Found at i:61501597 original size:17 final size:17
Alignment explanation
Indices: 61501575--61501608 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
61501565 CAGCACGAAG
61501575 GCCTGAATACACATCAC
1 GCCTGAATACACATCAC
61501592 GCCTGAATACACATCAC
1 GCCTGAATACACATCAC
61501609 CGGCACGAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.35, G:0.12, T:0.18
Consensus pattern (17 bp):
GCCTGAATACACATCAC
Found at i:61501602 original size:44 final size:44
Alignment explanation
Indices: 61501552--61501635 Score: 150
Period size: 44 Copynumber: 1.9 Consensus size: 44
61501542 ACGAAGGCCC
*
61501552 GAATACACATCACCAGCACGAAGGCCTGAATACACATCACGCCT
1 GAATACACATCACCAGCACGAAGGCCCGAATACACATCACGCCT
*
61501596 GAATACACATCACCGGCACGAAGGCCCGAATACACATCAC
1 GAATACACATCACCAGCACGAAGGCCCGAATACACATCAC
61501636 TGGCACGAAG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.37, C:0.35, G:0.17, T:0.12
Consensus pattern (44 bp):
GAATACACATCACCAGCACGAAGGCCCGAATACACATCACGCCT
Found at i:61501670 original size:43 final size:43
Alignment explanation
Indices: 61501610--61501799 Score: 308
Period size: 43 Copynumber: 4.4 Consensus size: 43
61501600 ACACATCACC
*
61501610 GGCACGAAGGCCCGAATACACATCACTGGCACGAAGCCTGCTA
1 GGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTA
* * *
61501653 GGCACAAAGACCCGAATACACATCATCGGCACGAAGCCTGCTA
1 GGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTA
*
61501696 GGCACGAAGGCCCGAATACACATCACCGACACGAAGCCTGCTA
1 GGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTA
* *
61501739 GGCACGAAGGCCCGAGTACACATCACCGGCACAAAGCCTGCTA
1 GGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTA
*
61501782 GGCACGAAGGCGCGAATA
1 GGCACGAAGGCCCGAATA
61501800 TAATACCAGC
Statistics
Matches: 134, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 134 1.00
ACGTcount: A:0.32, C:0.33, G:0.25, T:0.10
Consensus pattern (43 bp):
GGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTA
Found at i:61501848 original size:38 final size:38
Alignment explanation
Indices: 61501797--61501899 Score: 125
Period size: 38 Copynumber: 2.7 Consensus size: 38
61501787 GAAGGCGCGA
* * * *
61501797 ATATAATACCAGCACTAGGCTTGCGGGATTTATCCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
61501835 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
* ** * *
61501873 TTATTTTACCAGTATGAAGCCTGCGGG
1 ATATAATACCAGCACGAAGCCTGCGGG
61501900 TCTTTAAGCT
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 56 1.00
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.25
Consensus pattern (38 bp):
ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
Found at i:61507387 original size:25 final size:24
Alignment explanation
Indices: 61507346--61507411 Score: 62
Period size: 24 Copynumber: 2.7 Consensus size: 24
61507336 TCCTATACAT
*
61507346 GTATGCTCATACAAGCTCTGAATTG
1 GTATGCTCATACAAGCTAT-AATTG
*
61507371 GTATGCTC-TAACGAGCTATAATTG
1 GTATGCTCAT-ACAAGCTATAATTG
* * *
61507395 GTAAGTTCATACGAGCT
1 GTATGCTCATACAAGCT
61507412 GAATATCAGT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
24 19 0.54
25 16 0.46
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32
Consensus pattern (24 bp):
GTATGCTCATACAAGCTATAATTG
Found at i:61512772 original size:53 final size:53
Alignment explanation
Indices: 61512708--61512916 Score: 229
Period size: 53 Copynumber: 3.9 Consensus size: 53
61512698 CTTTCCTTTT
* *
61512708 TAAACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTA
1 TAAACTTACCATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTA
* * * * *
61512761 TGAACTTACCATTTCCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTA
1 TAAACTTACCATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTA
** * * * * * * *
61512814 TCATAGTTTATCAATGCCATGTCTTGACATTGTCTTACATGATTTCCTTGCCTTG
1 T-A-AACTTACCATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTA
* *
61512869 TAAAACTTACCATTGCCATGCCTTGGCATGGTCTTACTTGGTATCCTT
1 T-AAACTTACCATTGCCATGCCTTGACATGGTCTTACATGGTATCCTT
61512917 AAACCCTAAT
Statistics
Matches: 122, Mismatches: 32, Indels: 3
0.78 0.20 0.02
Matches are distributed among these distances:
53 47 0.39
54 35 0.29
55 40 0.33
ACGTcount: A:0.20, C:0.24, G:0.17, T:0.39
Consensus pattern (53 bp):
TAAACTTACCATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTA
Found at i:61520442 original size:68 final size:68
Alignment explanation
Indices: 61520305--61520461 Score: 192
Period size: 68 Copynumber: 2.3 Consensus size: 68
61520295 TTAACTGTAA
* * * * *
61520305 AATC-AACAGATTCGGACAGCTACATTTACTAAATAAAACAGCATATATGGTAGTGCATCGAACA
1 AATCTAACACATTCGGACAGCTACATTTACCAAATAAAACAACATAAATGATAGTGCATCGAACA
61520369 ATG
66 ATG
* * * *
61520372 AATTTAACACATTCGGACAGCTACATTTACCAAATAAAACAACATAAATGAT-GATGCTTTGAAT
1 AATCTAACACATTCGGACAGCTACATTTACCAAATAAAACAACATAAATGATAG-TGCATCGAAC
*
61520436 AGTG
65 AATG
*
61520440 AATCTAACACATTCGAACAGCT
1 AATCTAACACATTCGGACAGCT
61520462 TAATTTTAAG
Statistics
Matches: 76, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
67 4 0.05
68 72 0.95
ACGTcount: A:0.42, C:0.18, G:0.14, T:0.25
Consensus pattern (68 bp):
AATCTAACACATTCGGACAGCTACATTTACCAAATAAAACAACATAAATGATAGTGCATCGAACA
ATG
Found at i:61523940 original size:44 final size:43
Alignment explanation
Indices: 61523874--61523991 Score: 128
Period size: 44 Copynumber: 2.7 Consensus size: 43
61523864 ACATATATCG
* *
61523874 CATCCATAATGAACTTGAACCAACTCAACAAGCTCGAATGCTCA
1 CATCCATAATGAACTCGGACCAACTCAACAAGCTCGAATGC-CA
* * * *
61523918 CATCCATAATGAACTCGGACCAACTCAATAAGTTCGGATGCCT
1 CATCCATAATGAACTCGGACCAACTCAACAAGCTCGAATGCCA
* * *
61523961 CATACATATCACGAACCCGGACCAACTCAAC
1 CATCCATA--ATGAACTCGGACCAACTCAAC
61523992 GAGTTCAGAT
Statistics
Matches: 62, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
43 8 0.13
44 36 0.58
45 18 0.29
ACGTcount: A:0.36, C:0.31, G:0.13, T:0.19
Consensus pattern (43 bp):
CATCCATAATGAACTCGGACCAACTCAACAAGCTCGAATGCCA
Found at i:61526569 original size:15 final size:15
Alignment explanation
Indices: 61526537--61526599 Score: 72
Period size: 15 Copynumber: 4.1 Consensus size: 15
61526527 GTTTATAATA
*
61526537 TATAGTGTTCACAATC
1 TATAGT-TTCACAGTC
* *
61526553 TAAAGTTTCATAGTC
1 TATAGTTTCACAGTC
*
61526568 TATTGTTTCACAGTC
1 TATAGTTTCACAGTC
*
61526583 TATAGTTTCACAATC
1 TATAGTTTCACAGTC
61526598 TA
1 TA
61526600 GAATTTCAAT
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
15 34 0.87
16 5 0.13
ACGTcount: A:0.30, C:0.17, G:0.11, T:0.41
Consensus pattern (15 bp):
TATAGTTTCACAGTC
Found at i:61528000 original size:35 final size:35
Alignment explanation
Indices: 61527961--61528122 Score: 147
Period size: 35 Copynumber: 4.6 Consensus size: 35
61527951 TTTTTAGTAG
*
61527961 GCATGCTTTACATGC-AGATCAGAATCAGTATAGCA
1 GCATGCTTAACATGCGA-ATCAGAATCAGTATAGCA
*
61527996 GCATGCTTAACATGCGAATAAGAATCAGTATAATGACA
1 GCATGCTTAACATGCGAATCAGAATCAGTAT-A-G-CA
*
61528034 -CA--CTTAACATGCAAATCAGAATCAGTATA--A
1 GCATGCTTAACATGCGAATCAGAATCAGTATAGCA
* ***
61528064 TGACATGCTTAACATGCGAATTAGAATCAGTATAATT
1 -G-CATGCTTAACATGCGAATCAGAATCAGTATAGCA
* *
61528101 GCATGGTTAACATGCTAATCAG
1 GCATGCTTAACATGCGAATCAG
61528123 CTAATCAGAA
Statistics
Matches: 106, Mismatches: 10, Indels: 22
0.77 0.07 0.16
Matches are distributed among these distances:
30 1 0.01
33 2 0.02
34 1 0.01
35 94 0.89
36 3 0.03
37 3 0.03
38 2 0.02
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.27
Consensus pattern (35 bp):
GCATGCTTAACATGCGAATCAGAATCAGTATAGCA
Found at i:61528111 original size:70 final size:69
Alignment explanation
Indices: 61527961--61528122 Score: 211
Period size: 70 Copynumber: 2.3 Consensus size: 69
61527951 TTTTTAGTAG
* *
61527961 GCATGCTTTACATGCAGATCAGAATCAGTATAGCAGCATGCTTAACATGCGAATAAGAATCAGTA
1 GCATGCTTAACATGCAAATCAGAATCAGTATAGCAGCATGCTTAACATGCGAATAAGAATCAGTA
61528026 TAAT
66 TAAT
** *
61528030 GACACACTTAACATGCAAATCAGAATCAGTATA--ATGACATGCTTAACATGCGAATTAGAATCA
1 G-CATGCTTAACATGCAAATCAGAATCAGTATAGCA-G-CATGCTTAACATGCGAATAAGAATCA
61528093 GTATAATT
63 GTATAA-T
* *
61528101 GCATGGTTAACATGCTAATCAG
1 GCATGCTTAACATGCAAATCAG
61528123 CTAATCAGAA
Statistics
Matches: 80, Mismatches: 9, Indels: 7
0.83 0.09 0.07
Matches are distributed among these distances:
68 1 0.01
69 2 0.03
70 75 0.94
71 2 0.03
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.27
Consensus pattern (69 bp):
GCATGCTTAACATGCAAATCAGAATCAGTATAGCAGCATGCTTAACATGCGAATAAGAATCAGTA
TAAT
Found at i:61528786 original size:13 final size:13
Alignment explanation
Indices: 61528768--61528792 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
61528758 TGAAGATAGG
61528768 GCTAGGTTTGGCA
1 GCTAGGTTTGGCA
61528781 GCTAGGTTTGGC
1 GCTAGGTTTGGC
61528793 CAAGCTTCCT
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:0.12, C:0.16, G:0.40, T:0.32
Consensus pattern (13 bp):
GCTAGGTTTGGCA
Found at i:61530201 original size:16 final size:16
Alignment explanation
Indices: 61530180--61530214 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
61530170 ATAGGTGGAT
61530180 TTGTAATGGTATTTAG
1 TTGTAATGGTATTTAG
61530196 TTGTAATGGTATTTAG
1 TTGTAATGGTATTTAG
61530212 TTG
1 TTG
61530215 AAAATTTAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.23, C:0.00, G:0.26, T:0.51
Consensus pattern (16 bp):
TTGTAATGGTATTTAG
Found at i:61535084 original size:20 final size:20
Alignment explanation
Indices: 61535059--61535153 Score: 102
Period size: 20 Copynumber: 4.8 Consensus size: 20
61535049 TTGTATGGGA
61535059 TTTGCACTTCGGTGCCTCTG
1 TTTGCACTTCGGTGCCTCTG
61535079 TTTGCACTTCGGTGCCTCTG
1 TTTGCACTTCGGTGCCTCTG
***
61535099 TACACACTTCGGTGTCC-CTG
1 TTTGCACTTCGGTG-CCTCTG
* * *
61535119 TTTGCACTACGGTTCCCCTG
1 TTTGCACTTCGGTGCCTCTG
**
61535139 TCAGCACTTCGGTGC
1 TTTGCACTTCGGTGC
61535154 TCCTATTATG
Statistics
Matches: 61, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
19 2 0.03
20 57 0.93
21 2 0.03
ACGTcount: A:0.09, C:0.33, G:0.23, T:0.35
Consensus pattern (20 bp):
TTTGCACTTCGGTGCCTCTG
Found at i:61535120 original size:40 final size:40
Alignment explanation
Indices: 61535062--61535153 Score: 125
Period size: 40 Copynumber: 2.3 Consensus size: 40
61535052 TATGGGATTT
* *
61535062 GCACTTCGGTGCCTCTGTTTGCACTTCGGTGCCTCTGTACA
1 GCACTTCGGTGCCTCTGTTTGCACTACGGTGCCCCTGT-CA
*
61535103 -CACTTCGGTGTCC-CTGTTTGCACTACGGTTCCCCTGTCA
1 GCACTTCGGTG-CCTCTGTTTGCACTACGGTGCCCCTGTCA
61535142 GCACTTCGGTGC
1 GCACTTCGGTGC
61535154 TCCTATTATG
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
39 3 0.07
40 41 0.89
41 2 0.04
ACGTcount: A:0.10, C:0.34, G:0.24, T:0.33
Consensus pattern (40 bp):
GCACTTCGGTGCCTCTGTTTGCACTACGGTGCCCCTGTCA
Found at i:61540091 original size:27 final size:27
Alignment explanation
Indices: 61540061--61540122 Score: 106
Period size: 27 Copynumber: 2.3 Consensus size: 27
61540051 TAAGTAGGTG
*
61540061 TTACATTTTAATAAAACCATAAGGTTT
1 TTACATCTTAATAAAACCATAAGGTTT
*
61540088 TTACATCTTAATGAAACCATAAGGTTT
1 TTACATCTTAATAAAACCATAAGGTTT
61540115 TTACATCT
1 TTACATCT
61540123 AAATTTAGGT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.37, C:0.15, G:0.08, T:0.40
Consensus pattern (27 bp):
TTACATCTTAATAAAACCATAAGGTTT
Found at i:61540330 original size:20 final size:22
Alignment explanation
Indices: 61540289--61540338 Score: 68
Period size: 20 Copynumber: 2.3 Consensus size: 22
61540279 GGTTTTTTAG
61540289 TATTTGTGCATATTAGATTTATT
1 TATTTGTGCA-ATTAGATTTATT
61540312 TATTTGTGC-ATTA-ATTTATT
1 TATTTGTGCAATTAGATTTATT
*
61540332 TAATTGT
1 TATTTGT
61540339 CTAATGTCAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 13 0.50
21 4 0.15
23 9 0.35
ACGTcount: A:0.26, C:0.04, G:0.12, T:0.58
Consensus pattern (22 bp):
TATTTGTGCAATTAGATTTATT
Found at i:61542508 original size:704 final size:704
Alignment explanation
Indices: 61541161--61542570 Score: 2759
Period size: 704 Copynumber: 2.0 Consensus size: 704
61541151 CAGATAGATA
61541161 GTTTTGACTCGAGCCTGCCTCAAATAGTCAGCATGAACTCTAGGAGGAATAGCGAAAATGAGTTA
1 GTTTTGACTCGAGCCTGCCTCAAATAGTCAGCATGAACTCTAGGAGGAATAGCGAAAATGAGTTA
*
61541226 AAGGGAATATGAAAATCATGGGACGAGGCTAAGAAAATACGCTTCTGAGACAAGTATGGCGATGT
66 AAGGGAATATGAAAATCATGGGACGAGGCTAAGAAAATACGCTTCTGAGACAAGTATGACGATGT
61541291 AACACAGCTTCTGTATGTTAAACCGGATGATGCCCTATTGAAGGCCATGGTTTATTTTTTAGATC
131 AACACAGCTTCTGTATGTTAAACCGGATGATGCCCTATTGAAGGCCATGGTTTATTTTTTAGATC
61541356 CCACTTATAGGTGTTTTACGTTCAATGAAGTAGATATGGTACCTACTATCAAGGAATATTCTACC
196 CCACTTATAGGTGTTTTACGTTCAATGAAGTAGATATGGTACCTACTATCAAGGAATATTCTACC
61541421 CTTTCTCCATTATGACTTTAAAGATCCGTTTAGGATATATTGGAAGTGGAACGTCGATTTTCAGG
261 CTTTCTCCATTATGACTTTAAAGATCCGTTTAGGATATATTGGAAGTGGAACGTCGATTTTCAGG
61541486 GACCCTTAGCCAATCTGATGGGATTACCTGTAGATATGGTGAAAGCAAGATTAAAAGATAAAAAT
326 GACCCTTAGCCAATCTGATGGGATTACCTGTAGATATGGTGAAAGCAAGATTAAAAGATAAAAAT
61541551 GGTCCCTACATTTCCTAGTTCGACATTAAGGATGCTATGGGAAAGGCCAGCGCTGATAGACATTT
391 GGTCCCTACATTTCCTAGTTCGACATTAAGGATGCTATGGGAAAGGCCAGCGCTGATAGACATTT
*
61541616 GGCACTATTCGCGTTTATCATATACGAGTTGATTGTGTTCCAAAAAGCTCTGGGATATGTGAGTG
456 GGCACTATTCGCATTTATCATATACGAGTTGATTGTGTTCCAAAAAGCTCTGGGATATGTGAGTG
*
61541681 TAGAGTTAATTGATTTCCTATTTCAGATTGAAAGAGAGGTGAATCCTGGTCCAGTAGTCTTAGCT
521 TAGAGTTAATTGATTTCCTATTTCAGATTGAAAGAGAGGTGAATCCTGCTCCAGTAGTCTTAGCT
61541746 GAAACCATTATTTCTCTCAATTTCATCAGAAGGAAAAGATACTGGTGTTTCTTAGGATACACACA
586 GAAACCATTATTTCTCTCAATTTCATCAGAAGGAAAAGATACTGGTGTTTCTTAGGATACACACA
61541811 GTTGTTGTTCGTATGGATGAAAAGCCATTTTAGGTGCCTCTATAAGCGCTTTTG
651 GTTGTTGTTCGTATGGATGAAAAGCCATTTTAGGTGCCTCTATAAGCGCTTTTG
61541865 GTTTTGACTCGAGCCTGCCTCAAATAGTCAGCATGAACTCTAGGAGGAATAGCGAAAATGAGTTA
1 GTTTTGACTCGAGCCTGCCTCAAATAGTCAGCATGAACTCTAGGAGGAATAGCGAAAATGAGTTA
61541930 AAGGGAATATGAAAATCATGGGACGAGGCTAAGAAAATACGCTTCTGAGACAAGTATGACGATGT
66 AAGGGAATATGAAAATCATGGGACGAGGCTAAGAAAATACGCTTCTGAGACAAGTATGACGATGT
61541995 AACACAGCTTCTGTATGTTAAACCGGATGATGCCCTATTGAAGGCCATGGTTTATTTTTTAGATC
131 AACACAGCTTCTGTATGTTAAACCGGATGATGCCCTATTGAAGGCCATGGTTTATTTTTTAGATC
61542060 CCACTTATAGGTGTTTTACGTTCAATGAAGTAGATATGGTACCTACTATCAAGGAATATTCTACC
196 CCACTTATAGGTGTTTTACGTTCAATGAAGTAGATATGGTACCTACTATCAAGGAATATTCTACC
61542125 CTTTCTCCATTATGACTTTAAAGATCCGTTTAGGATATATTGGAAGTGGAACGTCGATTTTCAGG
261 CTTTCTCCATTATGACTTTAAAGATCCGTTTAGGATATATTGGAAGTGGAACGTCGATTTTCAGG
61542190 GACCCTTAGCCAATCTGATGGGATTACCTGTAGATATGGTGAAAGCAAGATTAAAAGATAAAAAT
326 GACCCTTAGCCAATCTGATGGGATTACCTGTAGATATGGTGAAAGCAAGATTAAAAGATAAAAAT
61542255 GGTCCCTACATTTCCTAGTTCGACATTAAGGATGCTATGGGAAAGGCCAGCGCTGATAGACATTT
391 GGTCCCTACATTTCCTAGTTCGACATTAAGGATGCTATGGGAAAGGCCAGCGCTGATAGACATTT
*
61542320 GGCACTATTCGCATTTATCATATACGAGTTGATTGTGTTCCCAAAAGCTCTGGGATATGTGAGTG
456 GGCACTATTCGCATTTATCATATACGAGTTGATTGTGTTCCAAAAAGCTCTGGGATATGTGAGTG
*
61542385 TAGAGTTAGTTGATTTCCTATTTCAGATTGAAAGAGAGGTGAATCCTGCTCCAGTAGTCTTAGCT
521 TAGAGTTAATTGATTTCCTATTTCAGATTGAAAGAGAGGTGAATCCTGCTCCAGTAGTCTTAGCT
61542450 GAAACCATTATTTCTCTCAA-TTCTATCAGAAGGAAAAGATACTGGTGTTTCTTAGGATACACAC
586 GAAACCATTATTTCTCTCAATTTC-ATCAGAAGGAAAAGATACTGGTGTTTCTTAGGATACACAC
61542514 AGTTGTTGTTCGTATGGATGAAAAGCCATTTTAGGTGCCTCTATAAGCGCTTTTG
650 AGTTGTTGTTCGTATGGATGAAAAGCCATTTTAGGTGCCTCTATAAGCGCTTTTG
61542569 GT
1 GT
61542571 CAGGTGTTTG
Statistics
Matches: 700, Mismatches: 5, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
703 3 0.00
704 697 1.00
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (704 bp):
GTTTTGACTCGAGCCTGCCTCAAATAGTCAGCATGAACTCTAGGAGGAATAGCGAAAATGAGTTA
AAGGGAATATGAAAATCATGGGACGAGGCTAAGAAAATACGCTTCTGAGACAAGTATGACGATGT
AACACAGCTTCTGTATGTTAAACCGGATGATGCCCTATTGAAGGCCATGGTTTATTTTTTAGATC
CCACTTATAGGTGTTTTACGTTCAATGAAGTAGATATGGTACCTACTATCAAGGAATATTCTACC
CTTTCTCCATTATGACTTTAAAGATCCGTTTAGGATATATTGGAAGTGGAACGTCGATTTTCAGG
GACCCTTAGCCAATCTGATGGGATTACCTGTAGATATGGTGAAAGCAAGATTAAAAGATAAAAAT
GGTCCCTACATTTCCTAGTTCGACATTAAGGATGCTATGGGAAAGGCCAGCGCTGATAGACATTT
GGCACTATTCGCATTTATCATATACGAGTTGATTGTGTTCCAAAAAGCTCTGGGATATGTGAGTG
TAGAGTTAATTGATTTCCTATTTCAGATTGAAAGAGAGGTGAATCCTGCTCCAGTAGTCTTAGCT
GAAACCATTATTTCTCTCAATTTCATCAGAAGGAAAAGATACTGGTGTTTCTTAGGATACACACA
GTTGTTGTTCGTATGGATGAAAAGCCATTTTAGGTGCCTCTATAAGCGCTTTTG
Found at i:61547927 original size:36 final size:36
Alignment explanation
Indices: 61547877--61547946 Score: 122
Period size: 36 Copynumber: 1.9 Consensus size: 36
61547867 CCAAAGATAA
* *
61547877 TTTTTGTTATATCATATAGACACACTGGTGGATACT
1 TTTTTGTTACATCATATAGACACACTAGTGGATACT
61547913 TTTTTGTTACATCATATAGACACACTAGTGGATA
1 TTTTTGTTACATCATATAGACACACTAGTGGATA
61547947 ACACTGCTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.30, C:0.14, G:0.16, T:0.40
Consensus pattern (36 bp):
TTTTTGTTACATCATATAGACACACTAGTGGATACT
Found at i:61554414 original size:32 final size:29
Alignment explanation
Indices: 61554366--61554429 Score: 83
Period size: 32 Copynumber: 2.1 Consensus size: 29
61554356 TTAAAGGAAA
*
61554366 TTTTAAATTTTTAAAATAAAGTTTTGATCT
1 TTTTAAATTTTTAAAATAAAGCTTTGAT-T
*
61554396 TTTTCAATTATTTCAAAATAAAGCTTTGATT
1 TTTTAAATT-TTT-AAAATAAAGCTTTGATT
61554427 TTT
1 TTT
61554430 GAGGAAAGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
30 8 0.27
31 7 0.23
32 15 0.50
ACGTcount: A:0.34, C:0.06, G:0.06, T:0.53
Consensus pattern (29 bp):
TTTTAAATTTTTAAAATAAAGCTTTGATT
Found at i:61556516 original size:34 final size:34
Alignment explanation
Indices: 61556468--61556561 Score: 109
Period size: 34 Copynumber: 2.7 Consensus size: 34
61556458 TCTAGGCCTA
* *
61556468 AGCCCATTTTAGTAACAGTAACAGTCT-GGGCTTT
1 AGCCCATTTCAGTAATAGTAACAGTCTAGGG-TTT
** *
61556502 AGCCCATTTCAGTAATAGTTGCAGCCTAGGGTTT
1 AGCCCATTTCAGTAATAGTAACAGTCTAGGGTTT
*
61556536 AGCCCTTTTCAGTAATAGTAATCAGT
1 AGCCCATTTCAGTAATAGTAA-CAGT
61556562 GCAGTAACTA
Statistics
Matches: 49, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
34 43 0.88
35 6 0.12
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (34 bp):
AGCCCATTTCAGTAATAGTAACAGTCTAGGGTTT
Found at i:61556568 original size:18 final size:18
Alignment explanation
Indices: 61556545--61556598 Score: 65
Period size: 18 Copynumber: 3.0 Consensus size: 18
61556535 TAGCCCTTTT
61556545 CAGTAATAGTAATCAGTG
1 CAGTAATAGTAATCAGTG
**
61556563 CAGTAACTA-TAATCAACG
1 CAGTAA-TAGTAATCAGTG
*
61556581 CAGTAACAGTAATCAGTG
1 CAGTAATAGTAATCAGTG
61556599 TAATATGCAA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
17 1 0.03
18 26 0.90
19 2 0.07
ACGTcount: A:0.41, C:0.17, G:0.19, T:0.24
Consensus pattern (18 bp):
CAGTAATAGTAATCAGTG
Found at i:61556910 original size:23 final size:24
Alignment explanation
Indices: 61556855--61556910 Score: 64
Period size: 23 Copynumber: 2.4 Consensus size: 24
61556845 TATCCCACCC
61556855 CATGCAATGCAACATAATATTATA
1 CATGCAATGCAACATAATATTATA
*
61556879 CATG-GATGCAACATACATA-TA-A
1 CATGCAATGCAACATA-ATATTATA
*
61556901 CATGCCATGC
1 CATGCAATGC
61556911 TCAAATACAG
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
22 5 0.18
23 16 0.57
24 7 0.25
ACGTcount: A:0.41, C:0.21, G:0.12, T:0.25
Consensus pattern (24 bp):
CATGCAATGCAACATAATATTATA
Found at i:61556991 original size:27 final size:27
Alignment explanation
Indices: 61556947--61557061 Score: 124
Period size: 27 Copynumber: 4.3 Consensus size: 27
61556937 ATAAATCTGC
* * * *
61556947 CATTTTACCTTACCGGGGTATTACAGT
1 CATTTTACCCTACAGGGGTATTTCGGT
61556974 CATTTTACCCTACAGGGGTATTTCGGT
1 CATTTTACCCTACAGGGGTATTTCGGT
* ***
61557001 CATTCTACCCTATTTGGGTATTTCGGT
1 CATTTTACCCTACAGGGGTATTTCGGT
* *
61557028 CATTTTACCCTA-TGAGGGTATTTTGGT
1 CATTTTACCCTACAG-GGGTATTTCGGT
61557055 CATTTTA
1 CATTTTA
61557062 TCACATAAGG
Statistics
Matches: 76, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
26 1 0.01
27 75 0.99
ACGTcount: A:0.19, C:0.20, G:0.19, T:0.42
Consensus pattern (27 bp):
CATTTTACCCTACAGGGGTATTTCGGT
Found at i:61557072 original size:27 final size:27
Alignment explanation
Indices: 61557053--61557230 Score: 259
Period size: 27 Copynumber: 6.6 Consensus size: 27
61557043 GGGTATTTTG
* *
61557053 GTCATTTTATCACATAAGGGAAAAATC
1 GTCATTTTATCACATGAGGGTAAAATC
* *
61557080 ATCATTTTATCACATAAGGGTAAAATC
1 GTCATTTTATCACATGAGGGTAAAATC
* *
61557107 GTCAATTTATCACATGAGGGCAAAATC
1 GTCATTTTATCACATGAGGGTAAAATC
*
61557134 GTCATTTTATCACATAAGGGTAAAATC
1 GTCATTTTATCACATGAGGGTAAAATC
*
61557161 GACATTTTATCACA-GAGGGTAAAATC
1 GTCATTTTATCACATGAGGGTAAAATC
61557187 GTCATTTTATCACATGAGGGTAAAATC
1 GTCATTTTATCACATGAGGGTAAAATC
* *
61557214 TTTATTTTATCACATGA
1 GTCATTTTATCACATGA
61557231 AGGTTCAGGT
Statistics
Matches: 136, Mismatches: 14, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
26 24 0.18
27 112 0.82
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (27 bp):
GTCATTTTATCACATGAGGGTAAAATC
Found at i:61557101 original size:81 final size:81
Alignment explanation
Indices: 61557053--61557233 Score: 276
Period size: 80 Copynumber: 2.2 Consensus size: 81
61557043 GGGTATTTTG
61557053 GTCATTTTATCACATAAGGGAAAAATC-ATCATTTTATCACATAAGGGTAAAATCGTCAATTTAT
1 GTCATTTTATCACATAAGGGAAAAATCGA-CATTTTATCACATAAGGGTAAAATCGTCAATTTAT
61557117 CACATGAGGGCAAAATC
65 CACATGAGGGCAAAATC
* * *
61557134 GTCATTTTATCACATAAGGGTAAAATCGACATTTTATCACA-GAGGGTAAAATCGTCATTTTATC
1 GTCATTTTATCACATAAGGGAAAAATCGACATTTTATCACATAAGGGTAAAATCGTCAATTTATC
*
61557198 ACATGAGGGTAAAATC
66 ACATGAGGGCAAAATC
* *
61557214 TTTATTTTATCACATGAAGG
1 GTCATTTTATCACAT-AAGG
61557234 TTCAGGTACG
Statistics
Matches: 92, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
80 49 0.53
81 42 0.46
82 1 0.01
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.32
Consensus pattern (81 bp):
GTCATTTTATCACATAAGGGAAAAATCGACATTTTATCACATAAGGGTAAAATCGTCAATTTATC
ACATGAGGGCAAAATC
Found at i:61560185 original size:34 final size:34
Alignment explanation
Indices: 61560147--61560260 Score: 140
Period size: 34 Copynumber: 3.4 Consensus size: 34
61560137 TAAGCCCGTA
* * *
61560147 TTAGTAACAGTAGTAGTCTCGGCCTTAGCCCATT
1 TTAGTAACAGTAGCAGTCTGGGCTTTAGCCCATT
* *
61560181 TTAGTGACAGTAGCAGTCTGGGCTTTAGTCCATT
1 TTAGTAACAGTAGCAGTCTGGGCTTTAGCCCATT
* *
61560215 TCAGTAATAGTAGCAGTCTGGGCTTTAGCCC-TT
1 TTAGTAACAGTAGCAGTCTGGGCTTTAGCCCATT
*
61560248 TTCAGTAATAGTA
1 TT-AGTAACAGTA
61560261 ATCAGTCCAG
Statistics
Matches: 69, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
33 3 0.04
34 66 0.96
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.34
Consensus pattern (34 bp):
TTAGTAACAGTAGCAGTCTGGGCTTTAGCCCATT
Found at i:61560273 original size:18 final size:18
Alignment explanation
Indices: 61560250--61560308 Score: 64
Period size: 18 Copynumber: 3.3 Consensus size: 18
61560240 TAGCCCTTTT
*
61560250 CAGTAATAGTAATCAGTC
1 CAGTAATAGTAATCAGTG
** * *
61560268 CAGTAACCGTGATCATTG
1 CAGTAATAGTAATCAGTG
*
61560286 TAGTAATAGTAATCAGTG
1 CAGTAATAGTAATCAGTG
61560304 CAGTA
1 CAGTA
61560309 TGCAAGCAGA
Statistics
Matches: 30, Mismatches: 11, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.36, C:0.15, G:0.20, T:0.29
Consensus pattern (18 bp):
CAGTAATAGTAATCAGTG
Found at i:61560582 original size:23 final size:23
Alignment explanation
Indices: 61560556--61560605 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
61560546 TCCCCATGTA
61560556 ATGCAACATA-ATATTATACATGG-
1 ATGCAACATACATA-TA-ACATGGT
61560579 ATGCAACATACATATAACATGGT
1 ATGCAACATACATATAACATGGT
61560602 ATGC
1 ATGC
61560606 TCAAATACAG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 6 0.24
23 16 0.64
24 3 0.12
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (23 bp):
ATGCAACATACATATAACATGGT
Found at i:61560670 original size:27 final size:27
Alignment explanation
Indices: 61560640--61560758 Score: 123
Period size: 27 Copynumber: 4.4 Consensus size: 27
61560630 GAACAAATCT
* * * *
61560640 GTCATTTTACCTTACCGGGGTATTACA
1 GTCATTTTACCCTACAGGGGTATTTCG
*
61560667 GTCATGTTACCCTACAGGGGTATTTCG
1 GTCATTTTACCCTACAGGGGTATTTCG
* * * **
61560694 GACATTATACCTTATGGGGGTATTTCG
1 GTCATTTTACCCTACAGGGGTATTTCG
*
61560721 GTCATTTTACCCTA-TGAGGGTATTTCG
1 GTCATTTTACCCTACAG-GGGTATTTCG
61560748 GTCATTTTACC
1 GTCATTTTACC
61560759 ACATAAGGGA
Statistics
Matches: 76, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
26 1 0.01
27 75 0.99
ACGTcount: A:0.20, C:0.20, G:0.22, T:0.38
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGTATTTCG
Found at i:61560714 original size:54 final size:54
Alignment explanation
Indices: 61560642--61560758 Score: 146
Period size: 54 Copynumber: 2.2 Consensus size: 54
61560632 ACAAATCTGT
61560642 CATTTTACCTTACCGGGGTATTACAGTCATGTTACCCTACAG-GGGTATTTCGGA
1 CATTTTACCTTACCGGGGTATTACAGTCATGTTACCCTA-AGAGGGTATTTCGGA
* ** * * * * *
61560696 CATTATACCTTATGGGGGTATTTCGGTCATTTTACCCTATGAGGGTATTTCGGT
1 CATTTTACCTTACCGGGGTATTACAGTCATGTTACCCTAAGAGGGTATTTCGGA
61560750 CATTTTACC
1 CATTTTACC
61560759 ACATAAGGGA
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
53 1 0.02
54 52 0.98
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.38
Consensus pattern (54 bp):
CATTTTACCTTACCGGGGTATTACAGTCATGTTACCCTAAGAGGGTATTTCGGA
Found at i:61560767 original size:27 final size:27
Alignment explanation
Indices: 61560684--61560793 Score: 98
Period size: 27 Copynumber: 4.1 Consensus size: 27
61560674 TACCCTACAG
* * ** **
61560684 GGGTATTTCGGACATTATACCTTATGG
1 GGGTATTTCGGTCATTTTACCACATAA
*
61560711 GGGTATTTCGGTCATTTTACC-CTATGA
1 GGGTATTTCGGTCATTTTACCAC-ATAA
61560738 GGGTATTTCGGTCATTTTACCACATAA
1 GGGTATTTCGGTCATTTTACCACATAA
* **
61560765 GGGAAAAATC-GTCATTTTACCACATAA
1 GGG-TATTTCGGTCATTTTACCACATAA
61560792 GG
1 GG
61560794 ACAAAATCGT
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 68 0.94
28 4 0.06
ACGTcount: A:0.26, C:0.17, G:0.22, T:0.35
Consensus pattern (27 bp):
GGGTATTTCGGTCATTTTACCACATAA
Found at i:61560799 original size:27 final size:27
Alignment explanation
Indices: 61560748--61561091 Score: 433
Period size: 27 Copynumber: 12.8 Consensus size: 27
61560738 GGGTATTTCG
* *
61560748 GTCATTTTACCACATAAGGGAAAAATC
1 GTCATTTTATCACATAAGGGTAAAATC
* **
61560775 GTCATTTTACCACATAAGGACAAAATC
1 GTCATTTTATCACATAAGGGTAAAATC
*
61560802 GTCATTTTATCACATAATGGTAAAATC
1 GTCATTTTATCACATAAGGGTAAAATC
* *
61560829 ATCATTTTATCACATGAGGGTAAAATC
1 GTCATTTTATCACATAAGGGTAAAATC
* *
61560856 GTTATTTTATCACATAAGGGTAAAATT
1 GTCATTTTATCACATAAGGGTAAAATC
61560883 GTCATTTTAT--CATAGAGGGTAAAATC
1 GTCATTTTATCACATA-AGGGTAAAATC
* * *
61560909 GACATTTTATCACATGTAGGG-AAAATT
1 GTCATTTTATCACAT-AAGGGTAAAATC
* *
61560936 ATCATTTTATCACATAAGGCTAAAATC
1 GTCATTTTATCACATAAGGGTAAAATC
* *
61560963 ATCATTTTATCACATAAGGGTAAAATG
1 GTCATTTTATCACATAAGGGTAAAATC
* * *
61560990 GTCTTTTTATCTCATGAGGGTAAAATC
1 GTCATTTTATCACATAAGGGTAAAATC
* *
61561017 ATTATTTTATCACATAAGGGTAAAATC
1 GTCATTTTATCACATAAGGGTAAAATC
*
61561044 GTCATTTTATCACATGAGGGTAAAATC
1 GTCATTTTATCACATAAGGGTAAAATC
*
61561071 GTCATTTTATCACATCAGGGT
1 GTCATTTTATCACATAAGGGT
61561092 TCAGGTACGC
Statistics
Matches: 273, Mismatches: 39, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
25 4 0.01
26 22 0.08
27 240 0.88
28 7 0.03
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.34
Consensus pattern (27 bp):
GTCATTTTATCACATAAGGGTAAAATC
Found at i:61564164 original size:39 final size:40
Alignment explanation
Indices: 61564100--61564245 Score: 208
Period size: 41 Copynumber: 3.7 Consensus size: 40
61564090 ATTTGAATGA
61564100 TATCCGGGCTAAGT-CCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
61564139 TAT-CGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
* * * *
61564178 TATCCGGGCTAAGACCCCGAAGGCATTTGTGCGAGTTGA-TA
1 TATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAG-TGATTT
*
61564219 TATCCGGGCTAAGACCCGAAGGCATTT
1 TATCCGGGCTAAGTCCCGAAGGCATTT
61564246 GTGCGAGTTG
Statistics
Matches: 98, Mismatches: 5, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
38 10 0.10
39 31 0.32
40 22 0.22
41 32 0.33
42 3 0.03
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.29
Consensus pattern (40 bp):
TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
Found at i:61564248 original size:40 final size:40
Alignment explanation
Indices: 61564099--61564308 Score: 225
Period size: 39 Copynumber: 5.3 Consensus size: 40
61564089 CATTTGAATG
* * *
61564099 ATATCCGGGCTAAG-TCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
* * * *
61564138 TTAT-CGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
*
61564177 TTATCCGGGCTAAGACCCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGA-CCCGAAGGCATTTGTGCGAG-TGATT
*
61564218 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGATT
* * ** *
61564258 ATA-CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
61564297 ATATCC-GGCTAA
1 ATATCCGGGCTAA
61564309 ATTCCGAAGA
Statistics
Matches: 152, Mismatches: 12, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
38 11 0.07
39 67 0.44
40 38 0.25
41 33 0.22
42 3 0.02
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.29
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
Found at i:61572367 original size:40 final size:40
Alignment explanation
Indices: 61572218--61572430 Score: 225
Period size: 40 Copynumber: 5.3 Consensus size: 40
61572208 CATTTGAATG
* * * *
61572218 ATATCCGGGCTAAGTCCCGAGGGCATTTCTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
* * * *
61572258 TTATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
* *
61572298 TTATCTGGGCTAAGACCCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGA-CCCGAAGGCATTTGTGCGAG-TGATT
*
61572339 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGATT
* * * ** *
61572379 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
61572419 ATATCC-GGCTAA
1 ATATCCGGGCTAA
61572431 ATTCTGAAGA
Statistics
Matches: 152, Mismatches: 17, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
39 7 0.05
40 110 0.72
41 32 0.21
42 3 0.02
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.29
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
Found at i:61572393 original size:81 final size:80
Alignment explanation
Indices: 61572222--61572430 Score: 217
Period size: 81 Copynumber: 2.6 Consensus size: 80
61572212 TGAATGATAT
* * * * * *
61572222 CCGGGCTAAGTCCCGAGGGCATTTCTGCTAGTGATTTTATCCGGGCTAAGTCCCGAAGGCATTTA
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATTATATCCGGGCTAAGACCCGAAGGCATTTA
* * * *
61572287 TGCTAGTGATTTTAT
66 TGCGAGTGACTATAC
*
61572302 CTGGGCTAAGACCCCGAAGGCATTTGTGCGAGTTGA-TATATCCGGGCTAAGACCCGAAGGCATT
1 CCGGGCTAAGA-CCCGAAGGCATTTGTGCGAG-TGATTATATCCGGGCTAAGACCCGAAGGCATT
*
61572366 TGTGCGAGTTG-CTATAC
64 TATGCGAG-TGACTATAC
* * ** *
61572383 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCC-GGCTAA
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATTATATCCGGGCTAA
61572431 ATTCTGAAGA
Statistics
Matches: 107, Mismatches: 18, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
79 8 0.07
80 33 0.31
81 61 0.57
82 5 0.05
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATTATATCCGGGCTAAGACCCGAAGGCATTTA
TGCGAGTGACTATAC
Found at i:61579934 original size:34 final size:34
Alignment explanation
Indices: 61579894--61579962 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
61579884 CCATTTAAAC
*
61579894 ATACTTCAAGGGAACCTAAACATTGCCAAAACAT
1 ATACTTCAAGGGAACCTAAACATTACCAAAACAT
61579928 ATACTTCAAGGGAACCTAAACATTACCAAAACAT
1 ATACTTCAAGGGAACCTAAACATTACCAAAACAT
61579962 A
1 A
61579963 CACCAAAATG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.46, C:0.23, G:0.10, T:0.20
Consensus pattern (34 bp):
ATACTTCAAGGGAACCTAAACATTACCAAAACAT
Found at i:61588466 original size:20 final size:20
Alignment explanation
Indices: 61588441--61588669 Score: 128
Period size: 20 Copynumber: 11.4 Consensus size: 20
61588431 GAAATGAAGA
61588441 AGTGCCCCTATTTGCACATC
1 AGTGCCCCTATTTGCACATC
* * * *
61588461 AGTGCCCTTGTTTGTACTTC
1 AGTGCCCCTATTTGCACATC
* *
61588481 GGTACCCCTATTTGCACATC
1 AGTGCCCCTATTTGCACATC
* *
61588501 AGTGCCCCTGA-TTGTACTTC
1 AGTGCCCCT-ATTTGCACATC
*
61588521 -GATGCCCCTTTTTGCACATC
1 AG-TGCCCCTATTTGCACATC
*
61588541 AGTGCCCCTGATTAT--ACTTC
1 AGTGCCCCT-ATT-TGCACATC
* *
61588561 -GATACCCCTGTTTGCACATC
1 AG-TGCCCCTATTTGCACATC
* *
61588581 AGTGCCCCTGA-TTGTACTTC
1 AGTGCCCCT-ATTTGCACATC
* * * *
61588601 GGTACCCCTGTTTGCATATC
1 AGTGCCCCTATTTGCACATC
* ** *
61588621 AGTGCCCCTGTTTATACTTC
1 AGTGCCCCTATTTGCACATC
* * * *
61588641 GGTACCCCTTTTTTCACATC
1 AGTGCCCCTATTTGCACATC
61588661 AGTGCCCCT
1 AGTGCCCCT
61588670 GATTGTATTT
Statistics
Matches: 151, Mismatches: 46, Indels: 24
0.68 0.21 0.11
Matches are distributed among these distances:
18 1 0.01
19 4 0.03
20 140 0.93
21 5 0.03
22 1 0.01
ACGTcount: A:0.16, C:0.32, G:0.17, T:0.35
Consensus pattern (20 bp):
AGTGCCCCTATTTGCACATC
Found at i:61588500 original size:40 final size:40
Alignment explanation
Indices: 61588445--61588748 Score: 383
Period size: 40 Copynumber: 7.6 Consensus size: 40
61588435 TGAAGAAGTG
* *
61588445 CCCCTATTTGCACATCAGTGCCCTTGTTTGTACTTCGGTA
1 CCCCTATTTGCACATCAGTGCCCCTGATTGTACTTCGGTA
* *
61588485 CCCCTATTTGCACATCAGTGCCCCTGATTGTACTTCGATG
1 CCCCTATTTGCACATCAGTGCCCCTGATTGTACTTCGGTA
* * *
61588525 CCCCTTTTTGCACATCAGTGCCCCTGATTATACTTCGATA
1 CCCCTATTTGCACATCAGTGCCCCTGATTGTACTTCGGTA
*
61588565 CCCCTGTTTGCACATCAGTGCCCCTGATTGTACTTCGGTA
1 CCCCTATTTGCACATCAGTGCCCCTGATTGTACTTCGGTA
* * * *
61588605 CCCCTGTTTGCATATCAGTGCCCCTGTTTATACTTCGGTA
1 CCCCTATTTGCACATCAGTGCCCCTGATTGTACTTCGGTA
* * * *
61588645 CCCCTTTTTTCACATCAGTGCCCCTGATTGTATTTTGGTA
1 CCCCTATTTGCACATCAGTGCCCCTGATTGTACTTCGGTA
* * * * * *
61588685 CCCTTATTTGCACATCAGTTCCCCTGTTTGAACTTTGATA
1 CCCCTATTTGCACATCAGTGCCCCTGATTGTACTTCGGTA
* * *
61588725 GCCCTTTTTGCACTTCAGTGCCCC
1 CCCCTATTTGCACATCAGTGCCCC
61588749 GAATTGCACA
Statistics
Matches: 231, Mismatches: 33, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 231 1.00
ACGTcount: A:0.16, C:0.31, G:0.16, T:0.37
Consensus pattern (40 bp):
CCCCTATTTGCACATCAGTGCCCCTGATTGTACTTCGGTA
Found at i:61591873 original size:25 final size:25
Alignment explanation
Indices: 61591836--61591902 Score: 71
Period size: 25 Copynumber: 2.7 Consensus size: 25
61591826 CAAGAACAAT
*
61591836 GCTCACACAAGTTGTGATGGTAAAC
1 GCTCACACAAGTTATGATGGTAAAC
** * *
61591861 GCTCACAGGAGTTATGATTGTAAAT
1 GCTCACACAAGTTATGATGGTAAAC
* *
61591886 GCTCACACGAGCTATGA
1 GCTCACACAAGTTATGA
61591903 AATGGGTCTG
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.25
Consensus pattern (25 bp):
GCTCACACAAGTTATGATGGTAAAC
Found at i:61592439 original size:16 final size:16
Alignment explanation
Indices: 61592418--61592448 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
61592408 TGACCTGACA
61592418 AAAAATAAAAATAAAG
1 AAAAATAAAAATAAAG
61592434 AAAAATAAAAATAAA
1 AAAAATAAAAATAAA
61592449 AATTGTATCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.84, C:0.00, G:0.03, T:0.13
Consensus pattern (16 bp):
AAAAATAAAAATAAAG
Found at i:61594855 original size:14 final size:13
Alignment explanation
Indices: 61594829--61594854 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
61594819 ATATAATTTT
61594829 TTTTATTTAAAAA
1 TTTTATTTAAAAA
61594842 TTTTATTTAAAAA
1 TTTTATTTAAAAA
61594855 AACTCCTCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
TTTTATTTAAAAA
Found at i:61595217 original size:11 final size:11
Alignment explanation
Indices: 61595201--61595225 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
61595191 AATATTTAAA
61595201 AATATAATAAT
1 AATATAATAAT
61595212 AATATAATAAT
1 AATATAATAAT
61595223 AAT
1 AAT
61595226 TTTTTTATAC
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:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (11 bp):
AATATAATAAT
Found at i:61607852 original size:48 final size:50
Alignment explanation
Indices: 61607795--61607904 Score: 118
Period size: 48 Copynumber: 2.3 Consensus size: 50
61607785 ATTACACATT
* *
61607795 TTTATCATCTCGGGTTGCCT-AACAACAATGGCTCACACTA-TTCAACAG
1 TTTACCATCTCGGGATGCCTCAACAACAATGGCTCACACTATTTCAACAG
* * * * * *
61607843 TTTACCATCT-TGGATGGCTCAACAACAGTGGTTTACACTATTTCAACAT
1 TTTACCATCTCGGGATGCCTCAACAACAATGGCTCACACTATTTCAACAG
*
61607892 TTTACAATCTCGG
1 TTTACCATCTCGG
61607905 ATGGCCCGAC
Statistics
Matches: 49, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
47 6 0.12
48 26 0.53
49 16 0.33
50 1 0.02
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.33
Consensus pattern (50 bp):
TTTACCATCTCGGGATGCCTCAACAACAATGGCTCACACTATTTCAACAG
Found at i:61607907 original size:49 final size:49
Alignment explanation
Indices: 61607801--61607937 Score: 141
Period size: 49 Copynumber: 2.8 Consensus size: 49
61607791 CATTTTTATC
* * * * * * *
61607801 ATCTCGGGTTGCCTAACAACAATGGCTCACACTA-TTCAACAGTTTACC
1 ATCTCGGATGGCCCAACAACAGTGGTTTACACTATTTCAACAGTTTACA
* * *
61607849 ATCTTGGATGGCTCAACAACAGTGGTTTACACTATTTCAACATTTTACA
1 ATCTCGGATGGCCCAACAACAGTGGTTTACACTATTTCAACAGTTTACA
* * * *
61607898 ATCTCGGATGGCCCGACAACGGTTGTTTATACTATTTCAA
1 ATCTCGGATGGCCCAACAACAGTGGTTTACACTATTTCAA
61607938 TATACTACCA
Statistics
Matches: 72, Mismatches: 16, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
48 26 0.36
49 46 0.64
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.31
Consensus pattern (49 bp):
ATCTCGGATGGCCCAACAACAGTGGTTTACACTATTTCAACAGTTTACA
Found at i:61607955 original size:49 final size:49
Alignment explanation
Indices: 61607829--61607962 Score: 128
Period size: 49 Copynumber: 2.8 Consensus size: 49
61607819 ACAATGGCTC
* * * *
61607829 ACACTA-TTCAACAGT-TTACCATCTTGGATGGCTCAACAACAGTGGTTT
1 ACACTATTTCAACA-TACTACCATCTCGGATGGCCCGACAACAGTGGTTT
** * * *
61607877 ACACTATTTCAACATTTTACAATCTCGGATGGCCCGACAACGGTTGTTT
1 ACACTATTTCAACATACTACCATCTCGGATGGCCCGACAACAGTGGTTT
* * * *
61607926 ATACTATTTCAATATACTACCATCCCGGATGACCCGA
1 ACACTATTTCAACATACTACCATCTCGGATGGCCCGA
61607963 AAAAGATGGT
Statistics
Matches: 71, Mismatches: 13, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
48 7 0.10
49 64 0.90
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (49 bp):
ACACTATTTCAACATACTACCATCTCGGATGGCCCGACAACAGTGGTTT
Found at i:61607996 original size:49 final size:48
Alignment explanation
Indices: 61607943--61608075 Score: 151
Period size: 49 Copynumber: 2.7 Consensus size: 48
61607933 TTCAATATAC
* * * * *
61607943 TACCATCCCGGATGACCCGAAAAAGATGGTTTTCCTTATTCT-TATATTT
1 TACCATCCTGGATG-CCCGACAATGATGGTTTTCATTATT-TGAATATTT
* **
61607992 TACCATCTTGGATGCCTCGACAATGATGGCATTCATTATTTGAATATTT
1 TACCATCCTGGATGCC-CGACAATGATGGTTTTCATTATTTGAATATTT
61608041 TACCATCCTGGATGGCCCGACAATGATGGTTTTCA
1 TACCATCCTGGAT-GCCCGACAATGATGGTTTTCA
61608076 ACCTAAGCTA
Statistics
Matches: 70, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
48 3 0.04
49 64 0.91
50 3 0.04
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.35
Consensus pattern (48 bp):
TACCATCCTGGATGCCCGACAATGATGGTTTTCATTATTTGAATATTT
Found at i:61608148 original size:16 final size:18
Alignment explanation
Indices: 61608127--61608159 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
61608117 GAGTAACACT
61608127 GAATCA-ATAT-ACATTA
1 GAATCACATATCACATTA
61608143 GAATCACATATCACATT
1 GAATCACATATCACATT
61608160 TTAATCTCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 4 0.27
18 5 0.33
ACGTcount: A:0.45, C:0.18, G:0.06, T:0.30
Consensus pattern (18 bp):
GAATCACATATCACATTA
Found at i:61610403 original size:20 final size:20
Alignment explanation
Indices: 61610374--61610418 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
61610364 ACCACATGTA
* *
61610374 TTCATAAAATTTTAGAATTT
1 TTCATAAAATTTTACAACTT
*
61610394 TTCATCAAATTTTACAACTT
1 TTCATAAAATTTTACAACTT
61610414 TTCAT
1 TTCAT
61610419 TTTAGTCCCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.13, G:0.02, T:0.49
Consensus pattern (20 bp):
TTCATAAAATTTTACAACTT
Found at i:61618333 original size:46 final size:47
Alignment explanation
Indices: 61618207--61618384 Score: 199
Period size: 47 Copynumber: 3.8 Consensus size: 47
61618197 TGGGTAAGGT
61618207 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATATCTC-AG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCT-ATATCTCGAG
* * *
61618254 GTCGATGCCATGTCCAAGATATGGTCTTACACT-GACTATCATCTCGTA-
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAG-CTAT-ATCTCG-AG
* *
61618302 GCCGATG-CATGTCCCAGACA-GGTCTTACACTGGCTTATTTCTCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGC-TATATCTCGAG
* *
61618348 GCTGATG-CATGTCTCAGACAT-GTCTTACACTAGCTAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTAT
61618385 CAATAACCCA
Statistics
Matches: 113, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
45 4 0.04
46 50 0.44
47 52 0.46
48 6 0.05
49 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (47 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTATATCTCGAG
Found at i:61631816 original size:47 final size:47
Alignment explanation
Indices: 61631761--61632027 Score: 253
Period size: 46 Copynumber: 5.7 Consensus size: 47
61631751 GGGTAAGGTA
*
61631761 CCGATGCCATGTCCCAGACATGGTCTTACACTAGGTCATATCTCAAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATATCTCAAG
* * *
61631808 TCGATGCCATGTCCCAAACATGGTCTTACACTAACT--TCATCTCATAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCAT-ATCTCA-AG
* * ** *
61631855 CCGATG-CATGTCCCAGACA-CGTCTTACACTAGCTTACGTCTCGAGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATATCTC-AAG
* * *
61631901 CCGATG-CATGTCCCAGACAT-GTCTTACACTAGCCCTTGTCTCAATG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATATCTCAA-G
* * * ***
61631947 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTTATAATGTGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATAT-CTCAAG
* *
61631995 CTGATG-CATGTCCCAGACA-AGTCTTACACTAGC
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGC
61632028 CAACAATAAC
Statistics
Matches: 184, Mismatches: 26, Indels: 21
0.80 0.11 0.09
Matches are distributed among these distances:
45 15 0.08
46 79 0.43
47 67 0.36
48 22 0.12
49 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (47 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATATCTCAAG
Found at i:61632007 original size:94 final size:93
Alignment explanation
Indices: 61631761--61632028 Score: 261
Period size: 94 Copynumber: 2.9 Consensus size: 93
61631751 GGGTAAGGTA
*
61631761 CCGATGCCATGTCCCAGACATGGTCTTACACTAGGTCATATCTCAA-GT--CGATGCCATGTCCC
1 CCGATGCCATGTCCCAGACATGGTCTTACACT-GGTC-T-TAT-AATGTGGCGATG-CATGTCCC
* *
61631823 AAACATGGTCTTACACTA--ACTTCATCTCATAG
61 AGACAT-GTCTTACACTAGCCCTTCATCTCATAG
* * * *
61631855 CCGATG-CATGTCCCAGACA-CGTCTTACACTAG-CTTACGT-CTCGAGGCCGATGCATGTCCCA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGTCTTA--TAAT-GTGG-CGATGCATGTCCCA
*
61631916 GACATGTCTTACACTAGCCCTT-GTCTCA-ATG
62 GACATGTCTTACACTAGCCCTTCATCTCATA-G
61631947 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTTATAATGTGGCTGATGCATGTCCCAGA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGG-TCTTATAATGTGGC-GATGCATGTCCCAGA
*
61632012 CAAGTCTTACACTAGCC
64 CATGTCTTACACTAGCC
61632029 AACAATAACC
Statistics
Matches: 145, Mismatches: 13, Indels: 32
0.76 0.07 0.17
Matches are distributed among these distances:
88 1 0.01
89 1 0.01
90 3 0.02
91 13 0.09
92 35 0.24
93 35 0.24
94 52 0.36
95 1 0.01
96 4 0.03
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.27
Consensus pattern (93 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGGTCTTATAATGTGGCGATGCATGTCCCAGACA
TGTCTTACACTAGCCCTTCATCTCATAG
Found at i:61639513 original size:33 final size:33
Alignment explanation
Indices: 61639458--61639534 Score: 84
Period size: 33 Copynumber: 2.3 Consensus size: 33
61639448 AGTGACAGTC
* * *
61639458 CAGTATCAGT-TAGGGCCATAGCCCATTACAGTAT
1 CAGTATCAGTGT--GGCCATAGCCCAATACAATAA
* *
61639492 CAGTGTCAGTGTGGCCTTAGCCCAATACAATAA
1 CAGTATCAGTGTGGCCATAGCCCAATACAATAA
61639525 CAGTATCAGT
1 CAGTATCAGT
61639535 AATGCAATCA
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
33 26 0.72
34 9 0.25
35 1 0.03
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (33 bp):
CAGTATCAGTGTGGCCATAGCCCAATACAATAA
Found at i:61641384 original size:27 final size:27
Alignment explanation
Indices: 61641335--61641511 Score: 153
Period size: 27 Copynumber: 6.5 Consensus size: 27
61641325 ATATTGAGCC
*
61641335 CGCACACTCAGTGCTATACA-A-TCAACT
1 CGCACACTTAGTGC-A-ACATAGTCAACT
** * * *
61641362 CGCACACTTAGTGCCGCGTAATCAAAT
1 CGCACACTTAGTGCAACATAGTCAACT
* *
61641389 CGCACACTTAGTGCTACATAGTTAGACT
1 CGCACACTTAGTGCAACATAGTCA-ACT
** * *
61641417 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCAACATAGTCAACT
* * **
61641444 CGCACACTTAGTGCATCATATTCATTT
1 CGCACACTTAGTGCAACATAGTCAACT
61641471 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCAACATAGTC-AACT
61641498 CGCACACTTAGTGC
1 CGCACACTTAGTGC
61641512 TGTACAATTT
Statistics
Matches: 122, Mismatches: 24, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
25 1 0.01
26 1 0.01
27 97 0.80
28 23 0.19
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCAACATAGTCAACT
Found at i:61641428 original size:55 final size:55
Alignment explanation
Indices: 61641335--61641512 Score: 204
Period size: 54 Copynumber: 3.3 Consensus size: 55
61641325 ATATTGAGCC
* * *
61641335 CGCACACTCAGTGCTATACA-A-TCAACTCGCACACTTAGTGCCGCGTAATCAAAT
1 CGCACACTTAGTGCTAT-CATATTCAACTCGCACACTTAGTGCCGCATAGTCAAAT
* *
61641389 CGCACACTTAGTGCTA-CATAGTT-AGACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTATCATA-TTCA-ACTCGCACACTTAGTGCCGCATAGTCAAAT
** ** *
61641444 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCGCATAGTCAAAT
61641498 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
61641513 GTACAATTTA
Statistics
Matches: 105, Mismatches: 12, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
52 2 0.02
53 1 0.01
54 56 0.53
55 46 0.44
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCGCATAGTCAAAT
Found at i:61641474 original size:82 final size:81
Alignment explanation
Indices: 61641356--61641511 Score: 213
Period size: 82 Copynumber: 1.9 Consensus size: 81
61641346 TGCTATACAA
* * * *
61641356 TCAACTCGCACACTTAGTGCCGCGTAATCAAATCGCACACTTAGTGCTACATAGTTAGACTCGCA
1 TCAACTCGCACACTTAGTGCAGCATAATCAAATCGCACACTTAGTGCAACATAG-TAGAATCGCA
61641421 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * * ** *
61641438 TCAATTCGCACACTTAGTGCATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCAC
1 TCAACTCGCACACTTAGTGCAGCATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCAC
61641503 ACTTAGTGC
66 ACTTAGTGC
61641512 TGTACAATTT
Statistics
Matches: 64, Mismatches: 10, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
81 18 0.28
82 46 0.72
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCAGCATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:61649428 original size:27 final size:27
Alignment explanation
Indices: 61649398--61649575 Score: 115
Period size: 27 Copynumber: 6.6 Consensus size: 27
61649388 ATATTGAGCC
* * *
61649398 CGCACACTCAGTGCTATACAATCAACT
1 CGCACACTTAGTGCTACACAATCAAAT
* **
61649425 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACACAATCAAAT
* * * *
61649452 CGCACACTTAGTGCTACATAGTTAGACT
1 CGCACACTTAGTGCTACACAATCA-AAT
** *** *
61649480 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACACAATCAAAT
* * **
61649507 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CACAATCAAAT
* * * *
61649534 CGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTACACAATCAAAT
61649561 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
61649576 GTACAATTTA
Statistics
Matches: 123, Mismatches: 25, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
27 100 0.81
28 23 0.19
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACACAATCAAAT
Found at i:61649491 original size:55 final size:55
Alignment explanation
Indices: 61649398--61649575 Score: 204
Period size: 54 Copynumber: 3.3 Consensus size: 55
61649388 ATATTGAGCC
* * *
61649398 CGCACACTCAGTGCTATACA-A-TCAACTCGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTAT-CATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
* * *
61649452 CGCACACTTAGTGCTA-CATAGTT-AGACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTATCATA-TTCA-ACTCGCACACTTAGTGCCACATAGTCAAAT
** * *
61649507 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
61649561 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
61649576 GTACAATTTA
Statistics
Matches: 104, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
52 2 0.02
53 1 0.01
54 56 0.54
55 45 0.43
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
Found at i:61649537 original size:82 final size:81
Alignment explanation
Indices: 61649419--61649574 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
61649409 TGCTATACAA
* * *
61649419 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTTAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAG-TAGAATCGCA
61649484 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
61649501 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCA
61649565 CACTTAGTGC
65 CACTTAGTGC
61649575 TGTACAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 20 0.31
82 45 0.69
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:61652430 original size:25 final size:25
Alignment explanation
Indices: 61652402--61652449 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
61652392 CCAATGAATC
*
61652402 GGGGAATCAGCACTTAGCAACCCTG
1 GGGGAATCAGCACATAGCAACCCTG
61652427 GGGGAATCAGCACATAGCAACCC
1 GGGGAATCAGCACATAGCAACCC
61652450 CCTTTTCATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.31, C:0.29, G:0.27, T:0.12
Consensus pattern (25 bp):
GGGGAATCAGCACATAGCAACCCTG
Found at i:61652539 original size:24 final size:25
Alignment explanation
Indices: 61652502--61652550 Score: 82
Period size: 24 Copynumber: 2.0 Consensus size: 25
61652492 CCAAATGAAA
*
61652502 TCGGGGAATCAGCACTTAGCAACCC
1 TCGGGGAATCAGCACATAGCAACCC
61652527 TCGGGG-ATCAGCACATAGCAACCC
1 TCGGGGAATCAGCACATAGCAACCC
61652551 CCTTTCACAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 17 0.74
25 6 0.26
ACGTcount: A:0.29, C:0.33, G:0.24, T:0.14
Consensus pattern (25 bp):
TCGGGGAATCAGCACATAGCAACCC
Found at i:61652595 original size:103 final size:101
Alignment explanation
Indices: 61652266--61652628 Score: 520
Period size: 102 Copynumber: 3.6 Consensus size: 101
61652256 TAGCCGTTAT
** *
61652266 TGGTGGATCCCGCACTTAGCACCACC-CTGAATCGGGGAATCAGCACTT-GCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAA-CCCTC-GGGG
* *
61652329 AATCAGCACATAGCAATCCCCTTTTTATTTCAAAAGATA
64 AATCAGCACATAGCAACCCCCTTTTCATTTC-AAAGATA
*
61652368 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCTGGGGGAA
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCTCGGGGAA
61652433 TCAGCACATAGCAACCCCCTTTTCA-TTCAAAGATA
66 TCAGCACATAGCAACCCCCTTTTCATTTCAAAGATA
61652468 TGGTGGATATCGCACTTAGCACCACCAAATGAAATCGGGGAATCAGCACTTAGCAACCCTCGGGG
1 TGGTGGATATCGCACTTAGCACCACC-AATG-AATCGGGGAATCAGCACTTAGCAACCCTCGGGG
*
61652533 -ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
64 AATCAGCACATAGCAACCCCCTTT-TCATTTCAAAGATA
* * * **
61652571 TGGTGGATCA-CGCACATAGCACCACCCATAAATCGGGGAATCAGCACACAGCAACCCT
1 TGGTGGAT-ATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCT
61652629 TTTATATACA
Statistics
Matches: 241, Mismatches: 13, Indels: 15
0.90 0.05 0.06
Matches are distributed among these distances:
100 33 0.14
101 56 0.23
102 89 0.37
103 58 0.24
104 5 0.02
ACGTcount: A:0.31, C:0.29, G:0.20, T:0.20
Consensus pattern (101 bp):
TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCTCGGGGAA
TCAGCACATAGCAACCCCCTTTTCATTTCAAAGATA
Found at i:61656009 original size:39 final size:40
Alignment explanation
Indices: 61655908--61656130 Score: 262
Period size: 40 Copynumber: 5.7 Consensus size: 40
61655898 TTGAATGATG
* * *
61655908 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* *
61655947 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
*
61655988 TCCGGGCTAAG-CCCGAAGGCA-TTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
61656026 TCCGGGTTAAGTCCCGAAGGCA-TTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
61656065 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
61656104 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
61656131 AACGAGGAGC
Statistics
Matches: 163, Mismatches: 13, Indels: 14
0.86 0.07 0.07
Matches are distributed among these distances:
38 25 0.15
39 59 0.36
40 69 0.42
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:61656119 original size:79 final size:79
Alignment explanation
Indices: 61655908--61656128 Score: 281
Period size: 79 Copynumber: 2.8 Consensus size: 79
61655898 TTGAATGATG
* * * * *
61655908 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTAAG-TCCCGAAGGCA-
*
61655971 TTGTGCGAGATACTAAT
63 TTGTGCGAGATACTAAA
*
61655988 TCCGGGCTAAG-CCCGAAGGCA-TTGTGCGAGTTACTA-AATCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTAAGTCCCGAAGGCATT
*
61656050 GTGCGAGTTACTAAA
65 GTGCGAGATACTAAA
* *
61656065 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATT
61656129 TGAACGAGGA
Statistics
Matches: 124, Mismatches: 11, Indels: 13
0.84 0.07 0.09
Matches are distributed among these distances:
77 27 0.22
78 33 0.27
79 51 0.41
80 13 0.10
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (79 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTG
TGCGAGATACTAAA
Found at i:61656161 original size:79 final size:78
Alignment explanation
Indices: 61655908--61656163 Score: 229
Period size: 79 Copynumber: 3.3 Consensus size: 78
61655898 TTGAATGATG
* * * * * * * *
61655908 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATT
1 TCCGGGTTAAATCCCGAAGGCATTGTGC-GAGTTACTAAATCCGGGCTAAG-TCCCGAAGGCA-T
*
61655972 TGTGCGAGAT-ACTAAT
63 TGTGCGAG-TGACTAAA
* * *
61655988 TCCGGGCT-AAGCCCGAAGGCATTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTGT
1 TCCGGGTTAAATCCCGAAGGCATTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTGT
*
61656052 GCGAGTTACTAAA
66 GCGAGTGACTAAA
* *
61656065 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAATCCCGAAGGCA-TTGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATT
*
61656129 -TGAACGAG-GAGCTATA
64 GTG--CGAGTGA-CTAAA
*
61656145 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAATCCCGAAGG
61656164 TACGTGATTT
Statistics
Matches: 149, Mismatches: 19, Indels: 17
0.81 0.10 0.09
Matches are distributed among these distances:
76 1 0.01
77 22 0.15
78 38 0.26
79 67 0.45
80 21 0.14
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (78 bp):
TCCGGGTTAAATCCCGAAGGCATTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTGT
GCGAGTGACTAAA
Found at i:61663930 original size:40 final size:40
Alignment explanation
Indices: 61663846--61664069 Score: 296
Period size: 40 Copynumber: 5.7 Consensus size: 40
61663836 TTGAATGATG
* * * *
61663846 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
61663886 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
61663926 TCCGGGCTAAG-CCCGAAGGCA-TTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
61663964 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
61664004 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
61664045 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
61664070 AACGAGGAGC
Statistics
Matches: 165, Mismatches: 13, Indels: 12
0.87 0.07 0.06
Matches are distributed among these distances:
38 25 0.15
39 19 0.12
40 111 0.67
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:61664064 original size:80 final size:80
Alignment explanation
Indices: 61663846--61664069 Score: 296
Period size: 78 Copynumber: 2.8 Consensus size: 80
61663836 TTGAATGATG
* * * * *
61663846 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTAAG-TCCCGAAGGCAT
*
61663909 TTGTGCGAGATACTAAT
64 TTGTGCGAGATACTAAA
*
61663926 TCCGGGCTAAG-CCCGAAGGCA-TTGTGCGAGTTACTA-AATCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTAAGTCCCGAAGGCATT
*
61663988 TGTGCGAGTTACTAAA
65 TGTGCGAGATACTAAA
* *
61664004 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTT
61664069 G
66 G
61664070 AACGAGGAGC
Statistics
Matches: 127, Mismatches: 11, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
77 2 0.02
78 49 0.39
79 25 0.20
80 49 0.39
81 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:61669482 original size:22 final size:23
Alignment explanation
Indices: 61669445--61669540 Score: 108
Period size: 22 Copynumber: 4.3 Consensus size: 23
61669435 TCGTAAAAGT
* * *
61669445 TTACTGTTTCAGCTCATTGGAGC
1 TTACCGTTTCAGCTCAATAGAGC
*
61669468 TTACCG-TTCAACTCAATAGAGC
1 TTACCGTTTCAGCTCAATAGAGC
61669490 TTACCGTTTCAGCTCAATAGAGC
1 TTACCGTTTCAGCTCAATAGAGC
* *
61669513 TTACTGTTT-AGCTCGAA-GGAGC
1 TTACCGTTTCAGCTC-AATAGAGC
61669535 TTACCG
1 TTACCG
61669541 ACCATGACTC
Statistics
Matches: 63, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
22 33 0.52
23 30 0.48
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.32
Consensus pattern (23 bp):
TTACCGTTTCAGCTCAATAGAGC
Found at i:61671953 original size:45 final size:44
Alignment explanation
Indices: 61671892--61671981 Score: 144
Period size: 45 Copynumber: 2.0 Consensus size: 44
61671882 GAATTATGTG
* *
61671892 ATCTGAACTGATTGAGTTGTGGTCTAAGTTCATGATATATGTGAC
1 ATCTAAACTCATTGAGTTGTGGTCTAAGTTCATGATATAT-TGAC
*
61671937 ATCTAAACTCATTGAGTTGTGGTCTGAGTTCATGATATATTGAC
1 ATCTAAACTCATTGAGTTGTGGTCTAAGTTCATGATATATTGAC
61671981 A
1 A
61671982 CATGTTTTGG
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
44 5 0.12
45 37 0.88
ACGTcount: A:0.28, C:0.12, G:0.22, T:0.38
Consensus pattern (44 bp):
ATCTAAACTCATTGAGTTGTGGTCTAAGTTCATGATATATTGAC
Found at i:61676452 original size:19 final size:19
Alignment explanation
Indices: 61676428--61676467 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
61676418 TCAAAAGGTA
61676428 ATATTATAAGTGAAGAATT
1 ATATTATAAGTGAAGAATT
61676447 ATATTATAAGTGAAGAATT
1 ATATTATAAGTGAAGAATT
61676466 AT
1 AT
61676468 GCAAAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.47, C:0.00, G:0.15, T:0.38
Consensus pattern (19 bp):
ATATTATAAGTGAAGAATT
Found at i:61678219 original size:71 final size:71
Alignment explanation
Indices: 61678103--61678249 Score: 294
Period size: 71 Copynumber: 2.1 Consensus size: 71
61678093 TATTATATAT
61678103 AGAAATATACTCTCTATGATATGCATTCCTTGCATGCTAACATGAAATATTGTAATAAAGAAATG
1 AGAAATATACTCTCTATGATATGCATTCCTTGCATGCTAACATGAAATATTGTAATAAAGAAATG
61678168 GTGGAA
66 GTGGAA
61678174 AGAAATATACTCTCTATGATATGCATTCCTTGCATGCTAACATGAAATATTGTAATAAAGAAATG
1 AGAAATATACTCTCTATGATATGCATTCCTTGCATGCTAACATGAAATATTGTAATAAAGAAATG
61678239 GTGGAA
66 GTGGAA
61678245 AGAAA
1 AGAAA
61678250 ATTCTTCTTA
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 76 1.00
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.30
Consensus pattern (71 bp):
AGAAATATACTCTCTATGATATGCATTCCTTGCATGCTAACATGAAATATTGTAATAAAGAAATG
GTGGAA
Found at i:61678861 original size:17 final size:17
Alignment explanation
Indices: 61678839--61678872 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
61678829 CAGAGAATTA
61678839 TTGCATATATTTTGTTT
1 TTGCATATATTTTGTTT
* *
61678856 TTGCATTTTTTTTGTTT
1 TTGCATATATTTTGTTT
61678873 ACAGGAAATT
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:0.12, C:0.06, G:0.12, T:0.71
Consensus pattern (17 bp):
TTGCATATATTTTGTTT
Found at i:61680604 original size:13 final size:13
Alignment explanation
Indices: 61680586--61680610 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
61680576 GTCACTTACC
61680586 AAAAAGAAAAACG
1 AAAAAGAAAAACG
61680599 AAAAAGAAAAAC
1 AAAAAGAAAAAC
61680611 ATTAGGCGTC
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:0.80, C:0.08, G:0.12, T:0.00
Consensus pattern (13 bp):
AAAAAGAAAAACG
Found at i:61682571 original size:44 final size:44
Alignment explanation
Indices: 61682519--61682626 Score: 135
Period size: 44 Copynumber: 2.5 Consensus size: 44
61682509 TTGGGTTCAT
* * * *
61682519 ACAATACAACATACAGGGTTTTCACATATTCACCTAGGGTTTGC
1 ACAATACAACATATAGGGTTTGCACATATTCACCTAAGGTTCGC
*** **
61682563 ATGGTACAACATATAATGTTTGCACATATTCACCTAAGGTTCGC
1 ACAATACAACATATAGGGTTTGCACATATTCACCTAAGGTTCGC
61682607 ACAATACAACATATAGGGTT
1 ACAATACAACATATAGGGTT
61682627 CGCATATCAG
Statistics
Matches: 50, Mismatches: 14, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
44 50 1.00
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (44 bp):
ACAATACAACATATAGGGTTTGCACATATTCACCTAAGGTTCGC
Found at i:61684337 original size:24 final size:24
Alignment explanation
Indices: 61684305--61684356 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
61684295 TATCTCTCGT
*
61684305 ATTAAATTCACTTTACAATATTTA
1 ATTAAATTCACTTTACAATAATTA
* *
61684329 ATTAAATTCATTTTATAATAATTA
1 ATTAAATTCACTTTACAATAATTA
61684353 ATTA
1 ATTA
61684357 TCATTAAACC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (24 bp):
ATTAAATTCACTTTACAATAATTA
Found at i:61685337 original size:27 final size:26
Alignment explanation
Indices: 61685307--61685360 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
61685297 TGGGAAAATT
* *
61685307 AGTTTAGGTACCACTAGTGAGAAAAAA
1 AGTTTAGGTACCA-AAATGAGAAAAAA
* *
61685334 AGTTTTGGTATCAAAATGAGAAAAAA
1 AGTTTAGGTACCAAAATGAGAAAAAA
61685360 A
1 A
61685361 TGTACAATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
26 12 0.52
27 11 0.48
ACGTcount: A:0.48, C:0.07, G:0.20, T:0.24
Consensus pattern (26 bp):
AGTTTAGGTACCAAAATGAGAAAAAA
Found at i:61685551 original size:16 final size:16
Alignment explanation
Indices: 61685532--61685565 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
61685522 TATAAATTTA
61685532 GACAAAAATGAATTGT
1 GACAAAAATGAATTGT
61685548 GACAAAAATGAATTGT
1 GACAAAAATGAATTGT
61685564 GA
1 GA
61685566 TCCCACATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.50, C:0.06, G:0.21, T:0.24
Consensus pattern (16 bp):
GACAAAAATGAATTGT
Found at i:61687188 original size:35 final size:34
Alignment explanation
Indices: 61687123--61687192 Score: 88
Period size: 35 Copynumber: 2.0 Consensus size: 34
61687113 GTGTCACCAT
*
61687123 GAAGAACCTATATACCATTTGCACGGTGTCGCCCC
1 GAAGAACCTATATACCATTT-CACGATGTCGCCCC
*
61687158 GAAGGACCTATATACCATCGTT-ACGATGTCGCCCC
1 GAAGAACCTATATACCAT--TTCACGATGTCGCCCC
61687193 AAACACTAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
35 29 0.94
37 2 0.06
ACGTcount: A:0.26, C:0.31, G:0.20, T:0.23
Consensus pattern (34 bp):
GAAGAACCTATATACCATTTCACGATGTCGCCCC
Found at i:61688513 original size:13 final size:13
Alignment explanation
Indices: 61688492--61688521 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
61688482 CGTGTGCGAC
*
61688492 ACACGGCCAATAG
1 ACACAGCCAATAG
61688505 ACACAGCCAATAG
1 ACACAGCCAATAG
61688518 ACAC
1 ACAC
61688522 GCCCGTGTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.43, C:0.33, G:0.17, T:0.07
Consensus pattern (13 bp):
ACACAGCCAATAG
Found at i:61690292 original size:44 final size:44
Alignment explanation
Indices: 61690192--61690458 Score: 274
Period size: 44 Copynumber: 6.0 Consensus size: 44
61690182 AGCTCATACA
* ** * *
61690192 ATGCCAACGTCCCAGACATGGTCTTACGTGTAATCA-AATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGAAATCACTATATCG
* *
61690235 ATGTC-ACTGTCCCAGACATGGTCTTACACGTAAATCACTA-ATCG
1 ATGCCAAC-GTCCCAGACGTGGTCTTACACG-AAATCACTATATCG
**
61690279 ATGCCAATATCCCAGAC-TCGGTCTTACACGAAATCACGTATATCG
1 ATGCCAACGTCCCAGACGT-GGTCTTACACGAAATCAC-TATATCG
* *
61690324 CTGCCAACGTCCCAGATGTGGTCTTACACGAAAATCACTA-ATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACG-AAATCACTATATCG
** * * *
61690368 ATGCCAATATCCCAGATGCGGTCTTACACGAAATAACGTATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGAAATCAC-TATATCG
*
61690413 CTGCCAACGTCCCAGACGTGGTCTTACACGAAAATCACATATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACG-AAATCAC-TATATCG
61690459 CTCTTTGATA
Statistics
Matches: 188, Mismatches: 24, Indels: 21
0.81 0.10 0.09
Matches are distributed among these distances:
42 2 0.01
43 38 0.20
44 66 0.35
45 61 0.32
46 21 0.11
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (44 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGAAATCACTATATCG
Found at i:61690359 original size:89 final size:89
Alignment explanation
Indices: 61690243--61690450 Score: 364
Period size: 89 Copynumber: 2.3 Consensus size: 89
61690233 CGATGTCACT
* *
61690243 GTCCCAGACATGGTCTTACACGTAAATCACTAATCGATGCCAATATCCCAGACT-CGGTCTTACA
1 GTCCCAGACGTGGTCTTACACGAAAATCACTAATCGATGCCAATATCCCAGA-TGCGGTCTTACA
*
61690307 CGAAATCACGTATATCGCTGCCAAC
65 CGAAATAACGTATATCGCTGCCAAC
*
61690332 GTCCCAGATGTGGTCTTACACGAAAATCACTAATCGATGCCAATATCCCAGATGCGGTCTTACAC
1 GTCCCAGACGTGGTCTTACACGAAAATCACTAATCGATGCCAATATCCCAGATGCGGTCTTACAC
61690397 GAAATAACGTATATCGCTGCCAAC
66 GAAATAACGTATATCGCTGCCAAC
61690421 GTCCCAGACGTGGTCTTACACGAAAATCAC
1 GTCCCAGACGTGGTCTTACACGAAAATCAC
61690451 ATATATCGCT
Statistics
Matches: 113, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
88 1 0.01
89 112 0.99
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (89 bp):
GTCCCAGACGTGGTCTTACACGAAAATCACTAATCGATGCCAATATCCCAGATGCGGTCTTACAC
GAAATAACGTATATCGCTGCCAAC
Found at i:61691211 original size:301 final size:303
Alignment explanation
Indices: 61690646--61691253 Score: 1112
Period size: 301 Copynumber: 2.0 Consensus size: 303
61690636 ACCAGCACAA
* * *
61690646 AACCTGCGGGACTTTAAGCTCGAATATAATACCAGCACTAAGCCTGCTGGATTTAACCCAGATAC
1 AACCTGCGGGACTTTAAACTCGAATATAATACCAGCACGAAGCCTGCGGGATTTAACCCAGATAC
*
61690711 ACATCAAATATCATGCATATTTAATCATATATTAACACATCTCATTCAACATATCACATTAATAG
66 ACATCAAATATAATGCATATTTAATCATATATTAACACATCTCATTCAACATATCACATTAATAG
61690776 TCATTTGCTACATTCAGATACAAGTCCCATATGAACATCATCATTTACATTTCGGTTCAAAAGTC
131 TCATTTGCTACATTCAGATACAAGTCCCATATGAACATCATCATTTACATTTCGGTTCAAAAGTC
61690841 ATACATAAATATCACCTATCCATTTCACCATTCAAGCTTAACCCATAGTGACCATTCAAATATAT
196 ATACATAAATATCACCTATCCATTTCACCATTCAAGCTTAACCCATAGTGACCATTCAAATATAT
61690906 GTCATATATATAAATTATTTATCACAAAACTTAATTCAAGTAG
261 GTCATATATATAAATTATTTATCACAAAACTTAATTCAAGTAG
* * *
61690949 AACCTGTGGGA-TTTAAAC-CGGATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATAC
1 AACCTGCGGGACTTTAAACTCGAATATAATACCAGCACGAAGCCTGCGGGATTTAACCCAGATAC
61691012 ACATCAAATATAATGCATATTTAATCATATATTAACACATCTCATTCAACATATCACATTAATAG
66 ACATCAAATATAATGCATATTTAATCATATATTAACACATCTCATTCAACATATCACATTAATAG
*
61691077 TCATTTGCTACATTCGGATACAAGTCCCATATGAACATCATCATTTACATTTCGGTTCAAAAGTC
131 TCATTTGCTACATTCAGATACAAGTCCCATATGAACATCATCATTTACATTTCGGTTCAAAAGTC
* *
61691142 ATACATAAATATCACCTATCCATTTCACCATTCAAGTTTAACCCATAGTGACCATTCAACTATAT
196 ATACATAAATATCACCTATCCATTTCACCATTCAAGCTTAACCCATAGTGACCATTCAAATATAT
61691207 GTCATATATATAAATTATTTATCACAAAACTTAATTCAAGTAG
261 GTCATATATATAAATTATTTATCACAAAACTTAATTCAAGTAG
61691250 AACC
1 AACC
61691254 AAAAGGTCAC
Statistics
Matches: 295, Mismatches: 10, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
301 279 0.95
302 6 0.02
303 10 0.03
ACGTcount: A:0.38, C:0.22, G:0.10, T:0.31
Consensus pattern (303 bp):
AACCTGCGGGACTTTAAACTCGAATATAATACCAGCACGAAGCCTGCGGGATTTAACCCAGATAC
ACATCAAATATAATGCATATTTAATCATATATTAACACATCTCATTCAACATATCACATTAATAG
TCATTTGCTACATTCAGATACAAGTCCCATATGAACATCATCATTTACATTTCGGTTCAAAAGTC
ATACATAAATATCACCTATCCATTTCACCATTCAAGCTTAACCCATAGTGACCATTCAAATATAT
GTCATATATATAAATTATTTATCACAAAACTTAATTCAAGTAG
Found at i:61692993 original size:53 final size:53
Alignment explanation
Indices: 61692915--61693021 Score: 214
Period size: 53 Copynumber: 2.0 Consensus size: 53
61692905 CAGAGTAAGC
61692915 TAATAAGCTTAGTAAGCTCGTATGACTAGTATGTACTATATACAATTTAAAAA
1 TAATAAGCTTAGTAAGCTCGTATGACTAGTATGTACTATATACAATTTAAAAA
61692968 TAATAAGCTTAGTAAGCTCGTATGACTAGTATGTACTATATACAATTTAAAAA
1 TAATAAGCTTAGTAAGCTCGTATGACTAGTATGTACTATATACAATTTAAAAA
61693021 T
1 T
61693022 TAATTCACAA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.41, C:0.11, G:0.13, T:0.35
Consensus pattern (53 bp):
TAATAAGCTTAGTAAGCTCGTATGACTAGTATGTACTATATACAATTTAAAAA
Found at i:61693612 original size:20 final size:20
Alignment explanation
Indices: 61693589--61693627 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
61693579 TAAACCGTAA
*
61693589 TTCATTCATATAACTAGTAG
1 TTCATTCATATAACAAGTAG
*
61693609 TTCATTCGTATAACAAGTA
1 TTCATTCATATAACAAGTA
61693628 ATTTATCTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.38
Consensus pattern (20 bp):
TTCATTCATATAACAAGTAG
Found at i:61693858 original size:23 final size:23
Alignment explanation
Indices: 61693828--61693960 Score: 121
Period size: 23 Copynumber: 5.8 Consensus size: 23
61693818 CTAATAAATA
61693828 GTAAGCTCTATTGAGCTGAAACG
1 GTAAGCTCTATTGAGCTGAAACG
*
61693851 GTAAGCTCTATTGAGCT-AAACA
1 GTAAGCTCTATTGAGCTGAAACG
* * * **
61693873 ATAAGCTTTATTAAGCTG-AATT
1 GTAAGCTCTATTGAGCTGAAACG
*
61693895 GTAAGCTC-ATATGAGCTGAATCG
1 GTAAGCTCTAT-TGAGCTGAAACG
* * *
61693918 GTAAGCTCCAATGAGCTAAAAACG
1 GTAAGCTCTATTGAGCT-GAAACG
61693942 GTAAGCTCT-TATGAGCTGA
1 GTAAGCTCTAT-TGAGCTGA
61693961 TATATTGGTA
Statistics
Matches: 86, Mismatches: 18, Indels: 12
0.74 0.16 0.10
Matches are distributed among these distances:
21 2 0.02
22 32 0.37
23 33 0.38
24 19 0.22
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.28
Consensus pattern (23 bp):
GTAAGCTCTATTGAGCTGAAACG
Found at i:61693877 original size:22 final size:23
Alignment explanation
Indices: 61693829--61693892 Score: 85
Period size: 22 Copynumber: 2.8 Consensus size: 23
61693819 TAATAAATAG
**
61693829 TAAGCTCTATTGAGCTGAAACGG
1 TAAGCTCTATTGAGCTGAAACAA
61693852 TAAGCTCTATTGAGCT-AAACAA
1 TAAGCTCTATTGAGCTGAAACAA
* *
61693874 TAAGCTTTATTAAGCTGAA
1 TAAGCTCTATTGAGCTGAA
61693893 TTGTAAGCTC
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
22 18 0.50
23 18 0.50
ACGTcount: A:0.36, C:0.16, G:0.19, T:0.30
Consensus pattern (23 bp):
TAAGCTCTATTGAGCTGAAACAA
Found at i:61693948 original size:24 final size:23
Alignment explanation
Indices: 61693895--61693958 Score: 67
Period size: 24 Copynumber: 2.7 Consensus size: 23
61693885 AAGCTGAATT
* *
61693895 GTAAGCT-CATATGAGCTGAATCG
1 GTAAGCTCCA-ATGAGCTAAAACG
61693918 GTAAGCTCCAATGAGCTAAAAACG
1 GTAAGCTCCAATGAGCT-AAAACG
**
61693942 GTAAGCTCTTATGAGCT
1 GTAAGCTCCAATGAGCT
61693959 GATATATTGG
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
23 14 0.40
24 21 0.60
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.25
Consensus pattern (23 bp):
GTAAGCTCCAATGAGCTAAAACG
Found at i:61701617 original size:47 final size:46
Alignment explanation
Indices: 61701548--61701811 Score: 203
Period size: 46 Copynumber: 5.7 Consensus size: 46
61701538 GTGCCGATAC
* *
61701548 CATGTCCCAAACATGGTCTTACACTGGCTCACATCTCAAGTCGATG
1 CATGTCCCAGACATGGTCTTACACTGGCTCACATCTCAAGCCGATG
**
61701594 TCATGTCCCAGACATGGTCTTACACTGGCT-ATCATCTTGTAGCCGATG
1 -CATGTCCCAGACATGGTCTTACACTGGCTCA-CATC-TCAAGCCGATG
** * * * * *
61701642 CATGTGGCAGACAT-GTCTTACATTGGCTTACTTCTCGAGGCTGATG
1 CATGTCCCAGACATGGTCTTACACTGGCTCACATCTC-AAGCCGATG
* * * * * *
61701688 CATGTCCCAAACAT-GTCTTACACTAGCCCTCGTCTCAATGCCAATG
1 CATGTCCCAGACATGGTCTTACACTGGCTCACATCTCAA-GCCGATG
* * * * **
61701734 CTATGTCCTAGACATGGTCTTAAACTGGCTCTCATAATGTAGCCGATG
1 C-ATGTCCCAGACATGGTCTTACACTGGCTCACAT-CTCAAGCCGATG
* * *
61701782 CATGTACCAGTCAT-GTCTTACACTAGCTCA
1 CATGTCCCAGACATGGTCTTACACTGGCTCA
61701812 AACTCGAATA
Statistics
Matches: 169, Mismatches: 40, Indels: 17
0.75 0.18 0.08
Matches are distributed among these distances:
45 2 0.01
46 69 0.41
47 66 0.39
48 30 0.18
49 2 0.01
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.30
Consensus pattern (46 bp):
CATGTCCCAGACATGGTCTTACACTGGCTCACATCTCAAGCCGATG
Found at i:61701800 original size:140 final size:140
Alignment explanation
Indices: 61701548--61701803 Score: 354
Period size: 140 Copynumber: 1.8 Consensus size: 140
61701538 GTGCCGATAC
* * * *
61701548 CATGTCCCAAACATGGTCTTACACTGGCTCACATCTCAAGTCGATGTCATGTCCCAGACATGGTC
1 CATGTCCCAAACATGGTCTTACACTAGCCCACATCTCAAGCCAATGTCATGTCCCAGACATGGTC
* ** **
61701613 TTACACTGGCTATCATCTTGTAGCCGATGCATGTGGCAGACATGTCTTACATTGGCTTACTTCTC
66 TTAAACTGGCTATCATAATGTAGCCGATGCATGTACCAGACATGTCTTACATTGGCTTACTTCTC
61701678 GAGGCTGATG
131 GAGGCTGATG
* * *
61701688 CATGTCCCAAACAT-GTCTTACACTAGCCCTCGTCTCAATGCCAATG-CTATGTCCTAGACATGG
1 CATGTCCCAAACATGGTCTTACACTAGCCCACATCTCAA-GCCAATGTC-ATGTCCCAGACATGG
* *
61701751 TCTTAAACTGGCTCTCATAATGTAGCCGATGCATGTACCAGTCATGTCTTACA
64 TCTTAAACTGGCTATCATAATGTAGCCGATGCATGTACCAGACATGTCTTACA
61701804 CTAGCTCAAA
Statistics
Matches: 100, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
139 21 0.21
140 79 0.79
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.30
Consensus pattern (140 bp):
CATGTCCCAAACATGGTCTTACACTAGCCCACATCTCAAGCCAATGTCATGTCCCAGACATGGTC
TTAAACTGGCTATCATAATGTAGCCGATGCATGTACCAGACATGTCTTACATTGGCTTACTTCTC
GAGGCTGATG
Found at i:61708874 original size:30 final size:30
Alignment explanation
Indices: 61708840--61708897 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
61708830 AAATTCACAT
* * *
61708840 CTTTGGTAAAATGACCATTTTGCCCCTAGA
1 CTTTGGCAAAATGACCATCTTACCCCTAGA
61708870 CTTTGGCAAAATGACCATCTTACCCCTA
1 CTTTGGCAAAATGACCATCTTACCCCTA
61708898 TGTTCGAGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.31
Consensus pattern (30 bp):
CTTTGGCAAAATGACCATCTTACCCCTAGA
Found at i:61709748 original size:20 final size:19
Alignment explanation
Indices: 61709723--61709819 Score: 86
Period size: 20 Copynumber: 4.8 Consensus size: 19
61709713 AATTTATTCA
*
61709723 TATAACTAGTAGTTCATCTG
1 TATAA-TAGTAATTCATCTG
* *
61709743 TATAACCAGTAATTCATCAG
1 TATAA-TAGTAATTCATCTG
*
61709763 TAATAATAGTAATTTATCTG
1 T-ATAATAGTAATTCATCTG
**
61709783 TATCAATAGTAATTCATCCA
1 TAT-AATAGTAATTCATCTG
*
61709803 TAACAATAGTAATTCAT
1 T-ATAATAGTAATTCAT
61709820 TCATTTCAAC
Statistics
Matches: 64, Mismatches: 10, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
19 2 0.03
20 57 0.89
21 5 0.08
ACGTcount: A:0.39, C:0.14, G:0.09, T:0.37
Consensus pattern (19 bp):
TATAATAGTAATTCATCTG
Found at i:61709782 original size:40 final size:40
Alignment explanation
Indices: 61709724--61709819 Score: 115
Period size: 40 Copynumber: 2.4 Consensus size: 40
61709714 ATTTATTCAT
*
61709724 ATAACTAGTAGTTCATCTGTAT-AACCAGTAATTCAT-CAGTA
1 ATAA-TAGTAATTCATCTGTATCAA-CAGTAATTCATCCA-TA
* *
61709765 ATAATAGTAATTTATCTGTATCAATAGTAATTCATCCATA
1 ATAATAGTAATTCATCTGTATCAACAGTAATTCATCCATA
*
61709805 ACAATAGTAATTCAT
1 ATAATAGTAATTCAT
61709820 TCATTTCAAC
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
40 40 0.83
41 8 0.17
ACGTcount: A:0.40, C:0.15, G:0.09, T:0.36
Consensus pattern (40 bp):
ATAATAGTAATTCATCTGTATCAACAGTAATTCATCCATA
Found at i:61710029 original size:23 final size:23
Alignment explanation
Indices: 61709999--61710086 Score: 110
Period size: 22 Copynumber: 3.9 Consensus size: 23
61709989 GTTAATAAAT
*
61709999 AGTAAGCTCTATTGAGTTGAAAC
1 AGTAAGCTCTATTGAGCTGAAAC
*
61710022 AGTAAGCTCTATCGAGCTG-AAC
1 AGTAAGCTCTATTGAGCTGAAAC
*
61710044 AGTAAACTCTATTGAGCT-AAAC
1 AGTAAGCTCTATTGAGCTGAAAC
*
61710066 AGTAAGCT-TATACGAGCTGAA
1 AGTAAGCTCTAT-TGAGCTGAA
61710087 TCGGTATGCT
Statistics
Matches: 56, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
21 3 0.05
22 34 0.61
23 19 0.34
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.26
Consensus pattern (23 bp):
AGTAAGCTCTATTGAGCTGAAAC
Found at i:61710082 original size:44 final size:45
Alignment explanation
Indices: 61709999--61710086 Score: 135
Period size: 44 Copynumber: 2.0 Consensus size: 45
61709989 GTTAATAAAT
* *
61709999 AGTAAGCTCTATTGAGTTGAAACAGTAAGCTCTATCGAGCTGAAC
1 AGTAAACTCTATTGAGCTGAAACAGTAAGCTCTATCGAGCTGAAC
61710044 AGTAAACTCTATTGAGCT-AAACAGTAAGCT-TATACGAGCTGAA
1 AGTAAACTCTATTGAGCTGAAACAGTAAGCTCTAT-CGAGCTGAA
61710087 TCGGTATGCT
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
43 3 0.08
44 21 0.52
45 16 0.40
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.26
Consensus pattern (45 bp):
AGTAAACTCTATTGAGCTGAAACAGTAAGCTCTATCGAGCTGAAC
Found at i:61710130 original size:24 final size:26
Alignment explanation
Indices: 61710103--61710156 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 26
61710093 TGCTCCAATA
* *
61710103 AGCTAAAA-A-CGGTAAGCTCTTATG
1 AGCTAAAATATCGGTAAGCTCATACG
61710127 AGCTAAAATATCGGTAAGCTCATACG
1 AGCTAAAATATCGGTAAGCTCATACG
61710153 AGCT
1 AGCT
61710157 GTGGTGAGTC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
24 8 0.31
25 1 0.04
26 17 0.65
ACGTcount: A:0.37, C:0.19, G:0.20, T:0.24
Consensus pattern (26 bp):
AGCTAAAATATCGGTAAGCTCATACG
Found at i:61717774 original size:42 final size:43
Alignment explanation
Indices: 61717727--61717812 Score: 156
Period size: 43 Copynumber: 2.0 Consensus size: 43
61717717 CAATTAACTT
61717727 AGTCTTTGAATTG-AAAATTTTTTAGCACACATGGCCAGGCAC
1 AGTCTTTGAATTGCAAAATTTTTTAGCACACATGGCCAGGCAC
*
61717769 AGTCTTTGAATTGCAAAGTTTTTTAGCACACATGGCCAGGCAC
1 AGTCTTTGAATTGCAAAATTTTTTAGCACACATGGCCAGGCAC
61717812 A
1 A
61717813 TGGGCGTGCC
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
42 13 0.31
43 29 0.69
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (43 bp):
AGTCTTTGAATTGCAAAATTTTTTAGCACACATGGCCAGGCAC
Found at i:61720004 original size:16 final size:16
Alignment explanation
Indices: 61719983--61720028 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
61719973 ATCCTCCTTT
61719983 TTTTTATTTATTCTTA
1 TTTTTATTTATTCTTA
*
61719999 TTTTTATTTTAGT-TTA
1 TTTTTA-TTTATTCTTA
61720015 TTTTTATTT-TTCTT
1 TTTTTATTTATTCTT
61720029 TTGATTTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
14 1 0.04
15 5 0.19
16 15 0.58
17 5 0.19
ACGTcount: A:0.15, C:0.04, G:0.02, T:0.78
Consensus pattern (16 bp):
TTTTTATTTATTCTTA
Found at i:61720005 original size:6 final size:6
Alignment explanation
Indices: 61719989--61720047 Score: 59
Period size: 6 Copynumber: 10.2 Consensus size: 6
61719979 CTTTTTTTTA
* * * *
61719989 TTTATT CTTATT TTTA-T TTTA-G TTTATT TTTATT TTTCTT TTGATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
*
61720035 TTTATC TTTATT T
1 TTTATT TTTATT T
61720048 CAATTTTATT
Statistics
Matches: 42, Mismatches: 10, Indels: 2
0.78 0.19 0.04
Matches are distributed among these distances:
5 9 0.21
6 33 0.79
ACGTcount: A:0.15, C:0.05, G:0.03, T:0.76
Consensus pattern (6 bp):
TTTATT
Found at i:61720014 original size:22 final size:20
Alignment explanation
Indices: 61719980--61720035 Score: 67
Period size: 22 Copynumber: 2.6 Consensus size: 20
61719970 TGGATCCTCC
61719980 TTTTTTTTATTTATTCTTAT
1 TTTTTTTTATTTATTCTTAT
*
61720000 TTTTATTTTAGTTTATTTTTAT
1 TTTT-TTTTA-TTTATTCTTAT
61720022 TTTTCTTTTGATTT
1 TTTT-TTTT-ATTT
61720036 TTATCTTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 4 0.13
21 5 0.16
22 21 0.68
23 1 0.03
ACGTcount: A:0.14, C:0.04, G:0.04, T:0.79
Consensus pattern (20 bp):
TTTTTTTTATTTATTCTTAT
Found at i:61720053 original size:18 final size:15
Alignment explanation
Indices: 61719983--61720067 Score: 57
Period size: 17 Copynumber: 5.3 Consensus size: 15
61719973 ATCCTCCTTT
61719983 TTTTTA-TTTATTCTTA
1 TTTTTATTTTA-T-TTA
61719999 TTTTTATTTTAGTTTA
1 TTTTTATTTTA-TTTA
*
61720015 TTTTTATTTTTCTTTTGA
1 TTTTTA-TTTT-ATTT-A
61720033 TTTTTATCTTTATTTCA
1 TTTTTAT-TTTATTT-A
* *
61720050 ATTTTATTAT-TTTA
1 TTTTTATTTTATTTA
61720064 TTTT
1 TTTT
61720068 GAAAGACATA
Statistics
Matches: 57, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
14 4 0.07
15 3 0.05
16 17 0.30
17 23 0.40
18 10 0.18
ACGTcount: A:0.18, C:0.05, G:0.02, T:0.75
Consensus pattern (15 bp):
TTTTTATTTTATTTA
Found at i:61722958 original size:13 final size:13
Alignment explanation
Indices: 61722942--61722974 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
61722932 TTTAATTAAA
*
61722942 TTAGTTAATTAGT
1 TTAGATAATTAGT
61722955 TTAGATAATTAGT
1 TTAGATAATTAGT
61722968 TTA-ATAA
1 TTAGATAA
61722975 AGAAATCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:61725312 original size:40 final size:40
Alignment explanation
Indices: 61725236--61725379 Score: 125
Period size: 40 Copynumber: 3.6 Consensus size: 40
61725226 TAACTCATTC
* *
61725236 AATGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACA
* *
61725276 AATGCCTTCGGGACTTAACCCGGA-ATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATATTA-AAACTCGCACA
* ** ** *
61725316 AAGGCCTTC-GGATCTTAGTCCGGATA-TAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGATATTA-AAAC-TCGCACA
*
61725357 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
61725380 CAGCATTCAA
Statistics
Matches: 88, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
39 6 0.07
40 70 0.80
41 12 0.14
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACA
Found at i:61733097 original size:27 final size:27
Alignment explanation
Indices: 61733048--61733224 Score: 153
Period size: 27 Copynumber: 6.5 Consensus size: 27
61733038 ATATTGAGCC
*
61733048 CGCACACTCAGTGCTATACA-A-TCAACT
1 CGCACACTTAGTGC-A-ACATAGTCAACT
** * * *
61733075 CGCACACTTAGTGCCGCGTAATCAAAT
1 CGCACACTTAGTGCAACATAGTCAACT
* *
61733102 CGCACACTTAGTGCTACATAGTTAGACT
1 CGCACACTTAGTGCAACATAGTCA-ACT
** * *
61733130 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCAACATAGTCAACT
* * **
61733157 CGCACACTTAGTGCATCATATTCATTT
1 CGCACACTTAGTGCAACATAGTCAACT
61733184 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCAACATAGTC-AACT
61733211 CGCACACTTAGTGC
1 CGCACACTTAGTGC
61733225 TGTACAATTT
Statistics
Matches: 122, Mismatches: 24, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
25 1 0.01
26 1 0.01
27 97 0.80
28 23 0.19
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCAACATAGTCAACT
Found at i:61733141 original size:55 final size:55
Alignment explanation
Indices: 61733048--61733225 Score: 204
Period size: 54 Copynumber: 3.3 Consensus size: 55
61733038 ATATTGAGCC
* * *
61733048 CGCACACTCAGTGCTATACA-A-TCAACTCGCACACTTAGTGCCGCGTAATCAAAT
1 CGCACACTTAGTGCTAT-CATATTCAACTCGCACACTTAGTGCCGCATAGTCAAAT
* *
61733102 CGCACACTTAGTGCTA-CATAGTT-AGACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTATCATA-TTCA-ACTCGCACACTTAGTGCCGCATAGTCAAAT
** ** *
61733157 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCGCATAGTCAAAT
61733211 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
61733226 GTACAATTTA
Statistics
Matches: 105, Mismatches: 12, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
52 2 0.02
53 1 0.01
54 56 0.53
55 46 0.44
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCGCATAGTCAAAT
Found at i:61733187 original size:82 final size:81
Alignment explanation
Indices: 61733069--61733224 Score: 213
Period size: 82 Copynumber: 1.9 Consensus size: 81
61733059 TGCTATACAA
* * * *
61733069 TCAACTCGCACACTTAGTGCCGCGTAATCAAATCGCACACTTAGTGCTACATAGTTAGACTCGCA
1 TCAACTCGCACACTTAGTGCAGCATAATCAAATCGCACACTTAGTGCAACATAG-TAGAATCGCA
61733134 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * * ** *
61733151 TCAATTCGCACACTTAGTGCATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCAC
1 TCAACTCGCACACTTAGTGCAGCATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCAC
61733216 ACTTAGTGC
66 ACTTAGTGC
61733225 TGTACAATTT
Statistics
Matches: 64, Mismatches: 10, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
81 18 0.28
82 46 0.72
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCAGCATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:61742287 original size:34 final size:35
Alignment explanation
Indices: 61742244--61742321 Score: 108
Period size: 34 Copynumber: 2.3 Consensus size: 35
61742234 AGTGACGGTC
*
61742244 CAGTATCAGT-TAGGGCCATAGCCCATTACAGT-AT
1 CAGTATCAGTGT-GGGCCATAGCCCAATACAGTAAT
*
61742278 CAGTATCAGTGTGGGCCTTAGCCCAATACAGTAAT
1 CAGTATCAGTGTGGGCCATAGCCCAATACAGTAAT
61742313 -AGTATCAGT
1 CAGTATCAGT
61742322 AATGCAATCA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
34 37 0.93
35 3 0.08
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (35 bp):
CAGTATCAGTGTGGGCCATAGCCCAATACAGTAAT
Found at i:61754146 original size:47 final size:47
Alignment explanation
Indices: 61754095--61754285 Score: 292
Period size: 47 Copynumber: 4.1 Consensus size: 47
61754085 TTAGGATTTT
* * *
61754095 ATGTGATGAATGGGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
61754142 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGACCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
61754189 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
61754236 ATGTGATGAATGTGAACATGTATATATGTGGTAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
61754283 ATG
1 ATG
61754286 CGAAATATGT
Statistics
Matches: 134, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 134 1.00
ACGTcount: A:0.32, C:0.12, G:0.30, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:61754395 original size:46 final size:46
Alignment explanation
Indices: 61754259--61754395 Score: 211
Period size: 46 Copynumber: 3.0 Consensus size: 46
61754249 GAACATGTAT
* *
61754259 ATATGTGGTAAGGCCGAATGGCTAATGCGAAATATGTATGAGATAG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAGATGG
* **
61754305 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAGATGG
* *
61754351 ATATGTGGTAAAGCCAAATGGCTAATGCGAGATATGTATGAGATG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAGATG
61754396 TGTATATATA
Statistics
Matches: 81, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 81 1.00
ACGTcount: A:0.35, C:0.09, G:0.31, T:0.25
Consensus pattern (46 bp):
ATATGTGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAGATGG
Found at i:61778587 original size:12 final size:11
Alignment explanation
Indices: 61778574--61778640 Score: 55
Period size: 11 Copynumber: 6.0 Consensus size: 11
61778564 TCCTTATATA
61778574 TTTTTTTA-TT
1 TTTTTTTATTT
* *
61778584 TATTCTTATTT
1 TTTTTTTATTT
*
61778595 TTATTTTATTT
1 TTTTTTTATTT
*
61778606 TATTTTTATTT
1 TTTTTTTATTT
*
61778617 TTGTTTTGATTT
1 TT-TTTTTATTT
*
61778629 TTATTTTCATTT
1 TT-TTTTTATTT
61778641 CAATTTTATT
Statistics
Matches: 44, Mismatches: 11, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
10 6 0.14
11 20 0.45
12 18 0.41
ACGTcount: A:0.15, C:0.03, G:0.03, T:0.79
Consensus pattern (11 bp):
TTTTTTTATTT
Found at i:61778594 original size:10 final size:10
Alignment explanation
Indices: 61778577--61778660 Score: 57
Period size: 12 Copynumber: 7.9 Consensus size: 10
61778567 TTATATATTT
61778577 TTTTA-TTTA
1 TTTTATTTTA
61778586 TTCTTATTTTTA
1 TT-TTA-TTTTA
61778598 TTTTATTTTA
1 TTTTATTTTA
*
61778608 TTTTTATTTTTG
1 -TTTTA-TTTTA
61778620 TTTTGATTTTTA
1 TTTT-A-TTTTA
*
61778632 TTTTCATTTCAA
1 TTTT-ATTT-TA
61778644 TTTTA--TTA
1 TTTTATTTTA
61778652 TTTTATTTT
1 TTTTATTTT
61778661 GAAAGACATA
Statistics
Matches: 61, Mismatches: 5, Indels: 17
0.73 0.06 0.20
Matches are distributed among these distances:
8 6 0.10
9 3 0.05
10 10 0.16
11 16 0.26
12 26 0.43
ACGTcount: A:0.18, C:0.04, G:0.02, T:0.76
Consensus pattern (10 bp):
TTTTATTTTA
Found at i:61778595 original size:16 final size:15
Alignment explanation
Indices: 61778576--61778660 Score: 73
Period size: 17 Copynumber: 5.3 Consensus size: 15
61778566 CTTATATATT
61778576 TTTTTATTTATTCTTA
1 TTTTTATTTATT-TTA
61778592 TTTTTATTTTATTTTA
1 TTTTTA-TTTATTTTA
*
61778608 TTTTTATTTTTGTTTTGA
1 TTTTTA--TTTATTTT-A
*
61778626 TTTTTATTTTCATTTCA
1 TTTTTA-TTT-ATTTTA
*
61778643 ATTTTA-TTATTTTA
1 TTTTTATTTATTTTA
61778657 TTTT
1 TTTT
61778661 GAAAGACATA
Statistics
Matches: 59, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
14 8 0.14
15 2 0.03
16 15 0.25
17 24 0.41
18 10 0.17
ACGTcount: A:0.18, C:0.04, G:0.02, T:0.76
Consensus pattern (15 bp):
TTTTTATTTATTTTA
Found at i:61778598 original size:6 final size:6
Alignment explanation
Indices: 61778572--61778640 Score: 72
Period size: 6 Copynumber: 11.8 Consensus size: 6
61778562 ACTCCTTATA
*
61778572 TATTTT T-TTATT TATTCT TATTTT TA-TTT TA-TTT TATTTT TATTTT
1 TATTTT TATT-TT TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT
* * *
61778618 TGTTTT GATTTT TATTTT CATTT
1 TATTTT TATTTT TATTTT TATTT
61778641 CAATTTTATT
Statistics
Matches: 53, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
5 12 0.23
6 39 0.74
7 2 0.04
ACGTcount: A:0.16, C:0.03, G:0.03, T:0.78
Consensus pattern (6 bp):
TATTTT
Done.