Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 149 of 343
Found at i:49596226 original size:46 final size:49
Alignment explanation
Indices: 49596140--49596252 Score: 126
Period size: 46 Copynumber: 2.4 Consensus size: 49
49596130 GGACTCACCA
*
49596140 CAGCTCA-TATGAGCTTACCGATATATCAGCTCATAAGAGCTTTCAGTTT
1 CAGCTCATTA-GAGCTTACCGATATATCAGCTCATAAGAGCTTACAGTTT
* * * * * *
49596189 TAGCTTATTGGAGCTTACCG-T-T-TCAGCTCCTATGAGCTTACCGTTT
1 CAGCTCATTAGAGCTTACCGATATATCAGCTCATAAGAGCTTACAGTTT
49596235 CAGCTCATTAGAGCTTAC
1 CAGCTCATTAGAGCTTAC
49596253 TGCTATCAGC
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
46 35 0.66
47 1 0.02
48 1 0.02
49 15 0.28
50 1 0.02
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.35
Consensus pattern (49 bp):
CAGCTCATTAGAGCTTACCGATATATCAGCTCATAAGAGCTTACAGTTT
Found at i:49596509 original size:71 final size:71
Alignment explanation
Indices: 49596431--49596566 Score: 254
Period size: 71 Copynumber: 1.9 Consensus size: 71
49596421 GGATGGCTTC
*
49596431 ATGTATTTGTCAAATGACTAACATATGATGGATACTTCTGATTAAGTGTTGGTTAATTGAATTGT
1 ATGTATTTGTCAAATGACTAACATATGATGGATACTTATGATTAAGTGTTGGTTAATTGAATTGT
49596496 GGTTTT
66 GGTTTT
*
49596502 ATGTATTTGTCAAATGACTAACATATGATGGATACTTATGATTAGGTGTTGGTTAATTGAATTGT
1 ATGTATTTGTCAAATGACTAACATATGATGGATACTTATGATTAAGTGTTGGTTAATTGAATTGT
49596567 TGGCATTTTA
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
71 63 1.00
ACGTcount: A:0.29, C:0.07, G:0.21, T:0.43
Consensus pattern (71 bp):
ATGTATTTGTCAAATGACTAACATATGATGGATACTTATGATTAAGTGTTGGTTAATTGAATTGT
GGTTTT
Found at i:49598693 original size:40 final size:39
Alignment explanation
Indices: 49598622--49598871 Score: 315
Period size: 40 Copynumber: 6.3 Consensus size: 39
49598612 CCTTCGGGGT
* *
49598622 TTAG-CCGGATATAGCT-ACTCGCTCAAATGCCTTCGGAAC
1 TTAGCCCGGTTATAG-TAACTCGCACAAATGCCTTCGG-AC
* * *
49598661 TTAGCCCGGTTATAGTAACTCGTACAATTGCCTTTGGGAC
1 TTAGCCCGGTTATAGTAACTCGCACAAATGCC-TTCGGAC
* *
49598701 TTAACCCGGTTATAGTAACTCGCACAATTGCCTTCGAGAC
1 TTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCG-GAC
*
49598741 TTGGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAC
1 TTAGCCCGGTTATAGTAACTCGCACAAATGCCTTC-GGAC
* * *
49598781 TTAGCCCAGATATAGTAACTCGCACAAATGCCTTCGGGC
1 TTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGAC
* * *
49598820 TTAGCCCGGATATAGTAACTTGCACAAATGCCTTCGGGC
1 TTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGAC
49598859 TTAGCCCGGTTAT
1 TTAGCCCGGTTAT
49598872 CAATCCGAAT
Statistics
Matches: 188, Mismatches: 18, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
39 60 0.32
40 123 0.65
41 5 0.03
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (39 bp):
TTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGAC
Found at i:49606329 original size:40 final size:40
Alignment explanation
Indices: 49606248--49606506 Score: 343
Period size: 40 Copynumber: 6.6 Consensus size: 40
49606238 AAACCAAGTA
** * *
49606248 CCTTCGGGGTTTAGCCGGA-TATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGATTATAG-TAACTCGCACAAATG
*
49606287 CCTTCGGGACTTAGCCCGATTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGATTATAGTAACTCGCACAAATG
* * *
49606327 CCTTCGGGACTTAGCCCGGTTATAGTAACTCACACAATTG
1 CCTTCGGGACTTAGCCCGATTATAGTAACTCGCACAAATG
* *
49606367 CCTTCGGGACTTGGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGATTATAGTAACTCGCACAAATG
49606407 CCTTCGGGACTTAGCCCGGA-TATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCC-GATTATAGTAACTCGCACAAATG
49606447 CCTTCGGG-CTTAGCCCGGA-TATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCC-GATTATAGTAACTCGCACAAATG
*
49606486 CCTTCGGG--TTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGATTAT
49606507 CAATCCGAAT
Statistics
Matches: 203, Mismatches: 13, Indels: 9
0.90 0.06 0.04
Matches are distributed among these distances:
37 1 0.00
38 10 0.05
39 56 0.28
40 135 0.67
41 1 0.00
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGATTATAGTAACTCGCACAAATG
Found at i:49609121 original size:27 final size:28
Alignment explanation
Indices: 49609069--49609143 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 28
49609059 CCACGGTTAT
* * *
49609069 AAAATTACCCAAATATCCTC-GATTTGT
1 AAAATTACCGAAATACCCTCAGATTTGC
*
49609096 AAGATTACCGAAATACCCTCAG-TTTGC
1 AAAATTACCGAAATACCCTCAGATTTGC
* *
49609123 AAAATTACTGAAACACCCTCA
1 AAAATTACCGAAATACCCTCA
49609144 CATGTAAAAT
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
27 39 0.98
28 1 0.03
ACGTcount: A:0.39, C:0.25, G:0.09, T:0.27
Consensus pattern (28 bp):
AAAATTACCGAAATACCCTCAGATTTGC
Found at i:49609200 original size:27 final size:27
Alignment explanation
Indices: 49609162--49609356 Score: 223
Period size: 27 Copynumber: 7.2 Consensus size: 27
49609152 ATTAACAAAG
* *
49609162 TACCCTCGAATTACAAAAATTACTATTT
1 TACCCTCGATTTAC-AAAATTACTGTTT
* *
49609190 TACCCTCAATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
* * *
49609217 TACCCTCAATTTATAAAATTACCGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
49609244 TACCCTCGATTTACAAAATTA-TCGTTT
1 TACCCTCGATTTACAAAATTACT-GTTT
* * * *
49609271 TACCCTCGATTTATAGAATTATTATTT
1 TACCCTCGATTTACAAAATTACTGTTT
*
49609298 TACCCTCGATTTACAGAATTA-TCGTTT
1 TACCCTCGATTTACAAAATTACT-GTTT
**
49609325 TACCCTCGATTTACAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACTGTTT
49609352 TACCC
1 TACCC
49609357 CTAGGGTGTT
Statistics
Matches: 145, Mismatches: 18, Indels: 9
0.84 0.10 0.05
Matches are distributed among these distances:
26 1 0.01
27 131 0.90
28 13 0.09
ACGTcount: A:0.31, C:0.23, G:0.06, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTGTTT
Found at i:49609235 original size:54 final size:54
Alignment explanation
Indices: 49609162--49609356 Score: 266
Period size: 54 Copynumber: 3.6 Consensus size: 54
49609152 ATTAACAAAG
* * * *
49609162 TACCCTCGAATTACAAAAATTACTATTTTACCCTCAATTTACAGAATTA-CTGTTT
1 TACCCTCGATTTA-TAAAATTACCATTTTACCCTCGATTTACAGAATTATC-GTTT
* * *
49609217 TACCCTCAATTTATAAAATTACCGTTTTACCCTCGATTTACAAAATTATCGTTT
1 TACCCTCGATTTATAAAATTACCATTTTACCCTCGATTTACAGAATTATCGTTT
* **
49609271 TACCCTCGATTTATAGAATTATTATTTTACCCTCGATTTACAGAATTATCGTTT
1 TACCCTCGATTTATAAAATTACCATTTTACCCTCGATTTACAGAATTATCGTTT
*
49609325 TACCCTCGATTTACAAAATTACCATTTTACCC
1 TACCCTCGATTTATAAAATTACCATTTTACCC
49609357 CTAGGGTGTT
Statistics
Matches: 122, Mismatches: 17, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
54 110 0.90
55 12 0.10
ACGTcount: A:0.31, C:0.23, G:0.06, T:0.40
Consensus pattern (54 bp):
TACCCTCGATTTATAAAATTACCATTTTACCCTCGATTTACAGAATTATCGTTT
Found at i:49609380 original size:81 final size:81
Alignment explanation
Indices: 49609162--49609384 Score: 243
Period size: 81 Copynumber: 2.7 Consensus size: 81
49609152 ATTAACAAAG
* * * * * * *
49609162 TACCCTCGAATTACAAAAATTACTATTTTACCCTCAATTTACAGAATTACTGTTTTACCCTCAAT
1 TACCCTCGATTTAC-AAAATTACCATTTTACCCTCGATGTATAGAATGATTGTTTTACCCTCAAT
*
49609227 TTATAAAATTACCGTTT
65 TTACAAAATTACCGTTT
* * * * * *
49609244 TACCCTCGATTTACAAAATTATCGTTTTACCCTCGATTTATAGAATTATTATTTTACCCTCGATT
1 TACCCTCGATTTACAAAATTACCATTTTACCCTCGATGTATAGAATGATTGTTTTACCCTCAATT
* *
49609309 TACAGAATTATCGTTT
66 TACAAAATTACCGTTT
* *
49609325 TACCCTCGATTTACAAAATTACCATTTTACCCCTAGGGTGT-TA-AATGATTGTTTTACCCT
1 TACCCTCGATTTACAAAATTACCATTTTA-CCCT-CGATGTATAGAATGATTGTTTTACCCT
49609385 TGTGGGCAAG
Statistics
Matches: 120, Mismatches: 19, Indels: 5
0.83 0.13 0.03
Matches are distributed among these distances:
81 98 0.82
82 19 0.16
83 3 0.03
ACGTcount: A:0.30, C:0.22, G:0.08, T:0.40
Consensus pattern (81 bp):
TACCCTCGATTTACAAAATTACCATTTTACCCTCGATGTATAGAATGATTGTTTTACCCTCAATT
TACAAAATTACCGTTT
Found at i:49609637 original size:27 final size:26
Alignment explanation
Indices: 49609593--49609644 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
49609583 CTCACTGCAA
*
49609593 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
49609620 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
49609645 GCAGCCTTGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:49614016 original size:47 final size:47
Alignment explanation
Indices: 49613957--49614086 Score: 181
Period size: 47 Copynumber: 2.8 Consensus size: 47
49613947 TGTGAGGAAA
* * * * *
49613957 TACCTTGATTTGGCTACAGGCCATGGTATAGGTA-TTTTGTGAAGAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAAGTACTCTAG-GAAAAGT
49614004 TACCTTGATTTGGCTACGGGCCATGGTATAAGTACTCTAGGAAAAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAAGTACTCTAGGAAAAGT
* *
49614051 TACCATGATTTGGCTACGGGCCATGGTATATGTACT
1 TACCTTGATTTGGCTACGGGCCATGGTATAAGTACT
49614087 TATTGATTGT
Statistics
Matches: 75, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
47 72 0.96
48 3 0.04
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.33
Consensus pattern (47 bp):
TACCTTGATTTGGCTACGGGCCATGGTATAAGTACTCTAGGAAAAGT
Found at i:49616120 original size:68 final size:64
Alignment explanation
Indices: 49615932--49616125 Score: 167
Period size: 68 Copynumber: 2.9 Consensus size: 64
49615922 CAATTTATCT
* * * * * *
49615932 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACCTGGAACCACGCATGCGACCTAGCTACATATAT
1 CGTAGCTCTCTTGTCTACATGATG---TACACATAGCACCACACATGCGACCTAGCTACATATAT
49615997 TC
63 TC
* * * * *
49615999 CGTAGCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACTTAGCTACATCATAATG
1 CGTAGCTCTCTTGTCTACATGATGTACACATAGCACCACACATGCGACCTAGCTACAT-AT-AT-
49616064 TC
63 TC
* * *
49616066 TCGTAGCTCTCTTGTAC-ACATGATGTGCAC-TCAGCACCATACATGTGACCTAGCTACATA
1 -CGTAGCTCTCTTGT-CTACATGATGTACACAT-AGCACCACACATGCGACCTAGCTACATA
49616126 CCATCTGTAT
Statistics
Matches: 106, Mismatches: 15, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
64 27 0.25
65 2 0.02
66 2 0.02
67 28 0.26
68 46 0.43
69 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.17, T:0.30
Consensus pattern (64 bp):
CGTAGCTCTCTTGTCTACATGATGTACACATAGCACCACACATGCGACCTAGCTACATATATTC
Found at i:49630825 original size:23 final size:23
Alignment explanation
Indices: 49630743--49630874 Score: 92
Period size: 23 Copynumber: 5.7 Consensus size: 23
49630733 CTCACCACAA
*
49630743 CTCGTACGAGCTTACCGATATATCAG
1 CTCGTATGAGCTTACC-AT-T-TCAG
* * **
49630769 CTCGTAAGAGGTTACTGTTTCAG
1 CTCGTATGAGCTTACCATTTCAG
*
49630792 CTCAT-TGGAGCTTACCATTTCAG
1 CTCGTAT-GAGCTTACCATTTCAG
* *
49630815 CTTGTATGAGCTTACTGA-TT-AG
1 CTCGTATGAGCTTAC-CATTTCAG
* *
49630837 CTCG-ATAGTGCTAACCATTTCAG
1 CTCGTAT-GAGCTTACCATTTCAG
49630860 CTCGTATGAGCTTAC
1 CTCGTATGAGCTTAC
49630875 TAATCAACTC
Statistics
Matches: 81, Mismatches: 18, Indels: 17
0.70 0.16 0.15
Matches are distributed among these distances:
21 3 0.04
22 13 0.16
23 46 0.57
24 5 0.06
25 1 0.01
26 13 0.16
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.33
Consensus pattern (23 bp):
CTCGTATGAGCTTACCATTTCAG
Found at i:49630907 original size:45 final size:45
Alignment explanation
Indices: 49630799--49630893 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 45
49630789 CAGCTCATTG
* * * * *
49630799 GAGCTTACCATTTCAGCTTGTATGAGCTTACTGATTAGCTCGATA
1 GAGCTAACCATTTCAGCTCGTATGAGCTTACTAATCAACTCGATA
*
49630844 GTGCTAACCATTTCAGCTCGTATGAGCTTACTAATCAACTCGATA
1 GAGCTAACCATTTCAGCTCGTATGAGCTTACTAATCAACTCGATA
49630889 GAGCT
1 GAGCT
49630894 TGTCATTTTA
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.33
Consensus pattern (45 bp):
GAGCTAACCATTTCAGCTCGTATGAGCTTACTAATCAACTCGATA
Found at i:49632983 original size:25 final size:25
Alignment explanation
Indices: 49632950--49633001 Score: 63
Period size: 24 Copynumber: 2.1 Consensus size: 25
49632940 TGTTACATGT
*
49632950 TTTAATGCTTTAA-TGTTAT-ATGAA
1 TTTAATGC-TTAATTGCTATCATGAA
49632974 TTTAATTGCTTAATTGCTATCATGAA
1 TTTAA-TGCTTAATTGCTATCATGAA
49633000 TT
1 TT
49633002 ATATGCCTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 9 0.38
25 8 0.33
26 7 0.29
ACGTcount: A:0.31, C:0.08, G:0.12, T:0.50
Consensus pattern (25 bp):
TTTAATGCTTAATTGCTATCATGAA
Found at i:49636920 original size:24 final size:24
Alignment explanation
Indices: 49636889--49636937 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
49636879 CTCAATTCAT
49636889 AATTTAACTTATACATTCTTTCTC
1 AATTTAACTTATACATTCTTTCTC
49636913 AATTTAACTTATACATTCTTTCTC
1 AATTTAACTTATACATTCTTTCTC
49636937 A
1 A
49636938 TACTTTTCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.31, C:0.20, G:0.00, T:0.49
Consensus pattern (24 bp):
AATTTAACTTATACATTCTTTCTC
Found at i:49638626 original size:15 final size:14
Alignment explanation
Indices: 49638591--49638653 Score: 67
Period size: 14 Copynumber: 4.4 Consensus size: 14
49638581 ATAATATCAT
49638591 TATAAATTA-ATTA
1 TATAAATTATATTA
49638604 TCATAAATTCATATTA
1 T-ATAAATT-ATATTA
49638620 TATAAATTATATTTA
1 TATAAATTATA-TTA
*
49638635 TATATCATTA-ATTA
1 TATA-AATTATATTA
49638649 TATAA
1 TATAA
49638654 TTTAAAACAA
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
13 1 0.02
14 17 0.40
15 16 0.37
16 9 0.21
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (14 bp):
TATAAATTATATTA
Found at i:49650805 original size:24 final size:25
Alignment explanation
Indices: 49650752--49650805 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 25
49650742 GGTGCCGATT
49650752 TCTTC-TTCCTCCCTTTTTCTTCCA
1 TCTTCTTTCCTCCCTTTTTCTTCCA
* * * *
49650776 TTTTCTTTCTTCCTTTTTTCTT-TA
1 TCTTCTTTCCTCCCTTTTTCTTCCA
49650800 TCTTCT
1 TCTTCT
49650806 AGCTGAAACC
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
24 10 0.42
25 14 0.58
ACGTcount: A:0.04, C:0.31, G:0.00, T:0.65
Consensus pattern (25 bp):
TCTTCTTTCCTCCCTTTTTCTTCCA
Found at i:49654697 original size:14 final size:13
Alignment explanation
Indices: 49654674--49654746 Score: 58
Period size: 14 Copynumber: 5.1 Consensus size: 13
49654664 ATAATATAAT
49654674 ATTATTATAATTTA
1 ATTA-TATAATTTA
49654688 ATTATCATAAATTTA
1 ATTAT-AT-AATTTA
*
49654703 TATTATATAAATTA
1 -ATTATATAATTTA
49654717 TATT-TATATATCATTA
1 -ATTATATA-AT--TTA
49654733 ATTATATAATTTA
1 ATTATATAATTTA
49654746 A
1 A
49654747 AACAAATAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 15
0.75 0.03 0.22
Matches are distributed among these distances:
13 9 0.18
14 16 0.32
15 13 0.26
16 12 0.24
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (13 bp):
ATTATATAATTTA
Found at i:49654702 original size:15 final size:15
Alignment explanation
Indices: 49654651--49654726 Score: 65
Period size: 15 Copynumber: 5.2 Consensus size: 15
49654641 CACAATTGGC
49654651 ATAAATTTAT-TTA-
1 ATAAATTTATATTAT
*
49654664 AT-AATATAATATTAT
1 ATAAAT-TTATATTAT
49654679 -TATAATTTA-ATTAT
1 ATA-AATTTATATTAT
49654693 CATAAATTTATATTAT
1 -ATAAATTTATATTAT
49654709 ATAAA-TTATATTTAT
1 ATAAATTTATA-TTAT
49654724 ATA
1 ATA
49654727 TCATTAATTA
Statistics
Matches: 52, Mismatches: 2, Indels: 16
0.74 0.03 0.23
Matches are distributed among these distances:
12 3 0.06
13 5 0.10
14 14 0.27
15 20 0.38
16 10 0.19
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.51
Consensus pattern (15 bp):
ATAAATTTATATTAT
Found at i:49654723 original size:20 final size:20
Alignment explanation
Indices: 49654698--49654739 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
49654688 ATTATCATAA
49654698 ATTTATATTAT-ATAAATTAT
1 ATTTATA-TATCATAAATTAT
*
49654718 ATTTATATATCATTAATTAT
1 ATTTATATATCATAAATTAT
49654738 AT
1 AT
49654740 AATTTAAAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 3 0.15
20 17 0.85
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (20 bp):
ATTTATATATCATAAATTAT
Found at i:49657539 original size:40 final size:40
Alignment explanation
Indices: 49657482--49657699 Score: 289
Period size: 40 Copynumber: 5.5 Consensus size: 40
49657472 CGGATGGAAA
* * *
49657482 CCGGGCTAAGTCCCGAAGGCATCTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
* *
49657522 CTGGGCTAAATCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
49657562 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
49657602 CCAGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
49657642 CCGGGCTAAGTCCCGCAGGCATTTGAGAGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
49657682 CC-GACTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
49657700 TACTTGGTTT
Statistics
Matches: 159, Mismatches: 17, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
39 15 0.09
40 143 0.90
41 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:49665941 original size:40 final size:40
Alignment explanation
Indices: 49665745--49665960 Score: 267
Period size: 40 Copynumber: 5.4 Consensus size: 40
49665735 GATGGCAACC
* * *
49665745 GGGCTAAGTCCCGAAGGCATTTGTGCTAATGACTA-ATTCT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCT
* *
49665785 GGGCTAAATCCTGAAGGCATTTGTGCGAGTTACTATATCT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCT
* *
49665825 GGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCT
* *
49665865 GGGCTAAGTCCCGAAGGGATTTGTGCGGGTTACTATATCT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCT
* *
49665905 GGGCTAAGTCCCGCAGGCATTTGAGCGAG-TAGCTATATC-
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCT
* * *
49665944 CGACTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGG
49665961 TACTTGGTTT
Statistics
Matches: 153, Mismatches: 21, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
39 15 0.10
40 137 0.90
41 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCT
Found at i:49667165 original size:20 final size:20
Alignment explanation
Indices: 49667140--49667186 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
49667130 GAAAAATTTA
* *
49667140 CGGAACTGGTTTTTGAGGTT
1 CGGAACTAGTTTTCGAGGTT
49667160 CGGAACTAGTTTTCGAGGTT
1 CGGAACTAGTTTTCGAGGTT
*
49667180 TGGAACT
1 CGGAACT
49667187 CGAGATATGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.19, C:0.13, G:0.32, T:0.36
Consensus pattern (20 bp):
CGGAACTAGTTTTCGAGGTT
Found at i:49669023 original size:105 final size:103
Alignment explanation
Indices: 49668820--49669011 Score: 271
Period size: 105 Copynumber: 1.9 Consensus size: 103
49668810 AAGTGCCTAT
*
49668820 TTGATTTTAATGTTTTAAATGTTTATAATGCAAGGGTAATATGGTAATTGATGTGTTAATATGAT
1 TTGATATTAATGTTTTAAATGTTTATAATGCAAGGGTAATATGGTAATTGATGTGTTAATATGAT
* * * * * * *
49668885 GCAATTAGACCATTGAATATATGAGTGGACATTAATGACC
66 ACAAATAAAACA-T-AAAACATGAATGGACATTAATGACC
49668925 TTGATATTAATGTTTTAAATGTTTATAATGCAAGGGTAATATGGTAATTGATGTGTTAATATG-T
1 TTGATATTAATGTTTTAAATGTTTATAATGCAAGGGTAATATGGTAATTGATGTGTTAATATGAT
49668989 ACTAAATAAAACA-AAAACATGAA
66 AC-AAATAAAACATAAAACATGAA
49669012 ATAAGGCCAT
Statistics
Matches: 78, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
102 7 0.09
104 2 0.03
105 69 0.88
ACGTcount: A:0.38, C:0.06, G:0.18, T:0.38
Consensus pattern (103 bp):
TTGATATTAATGTTTTAAATGTTTATAATGCAAGGGTAATATGGTAATTGATGTGTTAATATGAT
ACAAATAAAACATAAAACATGAATGGACATTAATGACC
Found at i:49669942 original size:42 final size:42
Alignment explanation
Indices: 49669837--49670001 Score: 145
Period size: 43 Copynumber: 3.8 Consensus size: 42
49669827 ATGTGTTATT
* *
49669837 GTGTAA-ATCCATGTCTGGGACGTTGGCATCG-ACTTATGCTTTAC
1 GTGTAAGA-CCATGTCTGGGACATTGGCATCGTA-TT-TGATTT-C
49669881 ATGTGTAAGACCATGTCTGGGACATTGGCATCGTATTTGATTTC
1 --GTGTAAGACCATGTCTGGGACATTGGCATCGTATTTGATTTC
* * * *
49669925 GTGTAAGACCCTGTCTGGGACAATGGCATCGATGTTTGATTAC
1 GTGTAAGACCATGTCTGGGACATTGGCATCG-TATTTGATTTC
* ** * * *
49669968 ATGTAAGACCACATCTAGGACGTTGGCATTGTAT
1 GTGTAAGACCATGTCTGGGACATTGGCATCGTAT
49670002 GTGCTTTCCG
Statistics
Matches: 101, Mismatches: 15, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
42 31 0.31
43 32 0.32
44 1 0.01
45 5 0.05
46 30 0.30
47 2 0.02
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (42 bp):
GTGTAAGACCATGTCTGGGACATTGGCATCGTATTTGATTTC
Found at i:49669977 original size:43 final size:42
Alignment explanation
Indices: 49669884--49669978 Score: 136
Period size: 42 Copynumber: 2.2 Consensus size: 42
49669874 GCTTTACATG
* * *
49669884 TGTAAGACCATGTCTGGGACATTGGCATCGTATTTGATTTCG
1 TGTAAGACCATGTCTGGGACAATGGCATCGTATTTGATTACA
* *
49669926 TGTAAGACCCTGTCTGGGACAATGGCATCGATGTTTGATTACA
1 TGTAAGACCATGTCTGGGACAATGGCATCG-TATTTGATTACA
49669969 TGTAAGACCA
1 TGTAAGACCA
49669979 CATCTAGGAC
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
42 28 0.61
43 18 0.39
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACAATGGCATCGTATTTGATTACA
Found at i:49671811 original size:49 final size:49
Alignment explanation
Indices: 49671747--49671929 Score: 260
Period size: 49 Copynumber: 3.7 Consensus size: 49
49671737 AAGGCCATCT
*
49671747 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCC
1 GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCC
* * * *
49671796 GGTACACATAATAGCCTGCACTTAGTACTACACACGTGATCGAAGTTAT-C
1 GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA-TTATCC
* *
49671846 GGATACGCATAGTAGCCTGAACTTAGTACTACACATGCGACCAATTATCC
1 GG-TACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCC
*
49671896 GGTACACGTAGTAGCCTGCACTTAGTACTACACA
1 GGTACACATAGTAGCCTGCACTTAGTACTACACA
49671930 CGTGACCTCA
Statistics
Matches: 116, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
49 68 0.59
50 12 0.10
51 36 0.31
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.25
Consensus pattern (49 bp):
GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCC
Found at i:49671882 original size:100 final size:100
Alignment explanation
Indices: 49671749--49671934 Score: 345
Period size: 100 Copynumber: 1.9 Consensus size: 100
49671739 GGCCATCTGG
*
49671749 TACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACATAATAGCCTG
1 TACGCATAGTAGCCTGAACTTAGTACTACACATGCGACCAATTATCCGGTACACATAATAGCCTG
49671814 CACTTAGTACTACACACGTGATCGAAGTTATCGGA
66 CACTTAGTACTACACACGTGATCGAAGTTATCGGA
* *
49671849 TACGCATAGTAGCCTGAACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCTG
1 TACGCATAGTAGCCTGAACTTAGTACTACACATGCGACCAATTATCCGGTACACATAATAGCCTG
49671914 CACTTAGTACTACACACGTGA
66 CACTTAGTACTACACACGTGA
49671935 CCTCACAATA
Statistics
Matches: 83, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
100 83 1.00
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (100 bp):
TACGCATAGTAGCCTGAACTTAGTACTACACATGCGACCAATTATCCGGTACACATAATAGCCTG
CACTTAGTACTACACACGTGATCGAAGTTATCGGA
Found at i:49676614 original size:34 final size:35
Alignment explanation
Indices: 49676537--49676636 Score: 109
Period size: 34 Copynumber: 2.9 Consensus size: 35
49676527 ACTCTTTGTT
49676537 TGCATACTG-TACTAAAATGGGCTAAGGCCCAGAC
1 TGCATACTGTTACTAAAATGGGCTAAGGCCCAGAC
* *
49676571 TGCCT-CTGTTACTAAAATGGGCTCAA-GCCCAGAT
1 TGCATACTGTTACTAAAATGGGCT-AAGGCCCAGAC
* *
49676605 TG-ATACTGTTTCTGAAAAAGAGGCTAAGGCCC
1 TGCATACTGTTACT-AAAATG-GGCTAAGGCCC
49676637 TAACTGGAAC
Statistics
Matches: 55, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
33 4 0.07
34 34 0.62
35 9 0.16
36 8 0.15
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.24
Consensus pattern (35 bp):
TGCATACTGTTACTAAAATGGGCTAAGGCCCAGAC
Found at i:49681240 original size:844 final size:844
Alignment explanation
Indices: 49679615--49681515 Score: 3658
Period size: 844 Copynumber: 2.3 Consensus size: 844
49679605 TAGCATGCTG
* * * * * * *
49679615 TGTAACACCCCAAACTCGGCCTGGAAGTTTGGCTCGAATCTGGGATGCCACATTGAAGTGCTTTT
1 TGTAACACCCCAAACCCAGCTTGGAAGTTTGGCTCGAATCTCGCATGTCACATTGAAGTGTTTTT
*
49679680 CGAAAACCATGTTTCCATTAAAAACCCTTCTAAATAATTAAAAACTTATACCCTTTTTAAACCTT
66 CGAAAACCATGTTTCCATTAAAAACCCTTCTTAATAATTAAAAACTTATACCCTTTTTAAACCTT
49679745 GTTAGAAACCTCAGCTGAATAACATTCTTAACAACTTTGTAAAAATCTTGGCAGTTGCGGAAGCT
131 GTTAGAAACCTCAGCTGAATAACATTCTTAACAACTTTGTAAAAATCTTGGCAGTTGCGGAAGCT
49679810 TGATTTAAAAACAATTGCAACCAGGTTTGAACCTAGGACTTCCCCAACACTTCTCAGCACACTTA
196 TGATTTAAAAACAATTGCAACCAGGTTTGAACCTAGGACTTCCCCAACACTTCTCAGCACACTTA
49679875 ACCACTAAAACAAGCCTTCAACTAAGAAATTTTCACGCACAACAGAATATTATAAGCTGCCTTCA
261 ACCACTAAAACAAGCCTTCAACTAAGAAATTTTCACGCACAACAGAATATTATAAGCTGCCTTCA
49679940 ACCGCTCCCATGCTCAAGGCCCAAAACTTCTAGGCCCAAATTCAGGGTGTTACAACTCTACCTCC
326 ACCGCTCCCATGCTCAAGGCCCAAAACTTCTAGGCCCAAATTCAGGGTGTTACAACTCTACCTCC
49680005 CTTAAAGAAATTTCATCCCCGAAATTTTCATCTAATAGGGTAGTCGTGTAACACCTACCCCACTA
391 CTTAAAGAAATTTCATCCCCGAAATTTTCATCTAATAGGGTAGTCGTGTAACACCTACCCCACTA
49680070 TGCTACCGCTGCGCACTCTGATCCTACTATCACTATCACACTTCAACTAGAACTTGAAACATCTC
456 TGCTACCGCTGCGCACTCTGATCCTACTATCACTATCACACTTCAACTAGAACTTGAAACATCTC
49680135 ATACATACAACACTTATTCACAGAAGCAGCCACATATTTATCACACATATATACAATTTCTATAT
521 ATACATACAACACTTATTCACAGAAGCAGCCACATATTTATCACACATATATACAATTTCTATAT
*
49680200 CAAAACATCACATTCACATAAAATAAATACCAAATTTAAATTCAGACCAATATCTAAGGAATCCA
586 CAAAACATCACATCCACATAAAATAAATACCAAATTTAAATTCAGACCAATATCTAAGGAATCCA
49680265 TAGTATTTTAATTTCTAAATAGACAAAAGTATTCAGAAGACTTACGGATTCGGCGCCGGAGACTC
651 TAGTATTTTAATTTCTAAATAGACAAAAGTATTCAGAAGACTTACGGATTCGGCGCCGGAGACTC
49680330 GGTGTGCCACAATCTTTAAGAGAAATACTTCAAACAGACCACGTGGTTGAAATTTTTTTTCTGAA
716 GGTGTGCCACAATCTTTAAGAGAAATACTTCAAACAGACCACGTGGTTGAAATTTTTTTTCTGAA
49680395 ATTCAACCTTTGAAAACCCAATCCACAGCCGAGTTATTGCAACCCAGGCTCTGATACCACTAAA
781 ATTCAACCTTTGAAAACCCAATCCACAGCCGAGTTATTGCAACCCAGGCTCTGATACCACTAAA
49680459 TGTAACACCCCAAACCCAGCTTGGAAGTTTGGCTCGAATCTCGCATGTCACATTGAAGTGTTTTT
1 TGTAACACCCCAAACCCAGCTTGGAAGTTTGGCTCGAATCTCGCATGTCACATTGAAGTGTTTTT
49680524 CGAAAACCATGTTTCCATTAAAAACCCTTCTTAATAATTAAAAACTTATACCCTTTTTAAACCTT
66 CGAAAACCATGTTTCCATTAAAAACCCTTCTTAATAATTAAAAACTTATACCCTTTTTAAACCTT
49680589 GTTAGAAACCTCAGCTGAATAACATTCTTAACAACTTTGTAAAAATCTTGGCAGTTGCGGAAGCT
131 GTTAGAAACCTCAGCTGAATAACATTCTTAACAACTTTGTAAAAATCTTGGCAGTTGCGGAAGCT
49680654 TGATTTAAAAACAATTGCAACCAGGTTTGAACCTAGGACTTCCCCAACACTTCTCAGCACACTTA
196 TGATTTAAAAACAATTGCAACCAGGTTTGAACCTAGGACTTCCCCAACACTTCTCAGCACACTTA
49680719 ACCACTAAAACAAGCCTTCAACTAAGAAATTTTCACGCACAACAGAATATTATAAGCTGCCTTCA
261 ACCACTAAAACAAGCCTTCAACTAAGAAATTTTCACGCACAACAGAATATTATAAGCTGCCTTCA
*
49680784 ACCGCTCCCATGCTCAAGGCCCAAAACTTCTAGGCCCAAATTTAGGGTGTTACAACTCTACCTCC
326 ACCGCTCCCATGCTCAAGGCCCAAAACTTCTAGGCCCAAATTCAGGGTGTTACAACTCTACCTCC
49680849 CTTAAAGAAATTTCATCCCCGAAATTTTCATCTAATAGGGTAGTCGTGTAACACCTACCCCACTA
391 CTTAAAGAAATTTCATCCCCGAAATTTTCATCTAATAGGGTAGTCGTGTAACACCTACCCCACTA
49680914 TGCTACCGCTGCGCACTCTGATCCTACTATCACTATCACACTTCAACTAGAACTTGAAACATCTC
456 TGCTACCGCTGCGCACTCTGATCCTACTATCACTATCACACTTCAACTAGAACTTGAAACATCTC
49680979 ATACATACAACACTTATTCACAGAAGCAGCCACATATTTATCACACATATATACAATTTCTATAT
521 ATACATACAACACTTATTCACAGAAGCAGCCACATATTTATCACACATATATACAATTTCTATAT
49681044 CAAAACATCACATCCACATAAAATAAATACCAAATTTAAATTCAGACCAATATCTAAGGAATCCA
586 CAAAACATCACATCCACATAAAATAAATACCAAATTTAAATTCAGACCAATATCTAAGGAATCCA
49681109 TAGTATTTTAATTTCTAAATAGACAAAAGTATTCAGAAGACTTACGGATTCGGCGCCGGAGACTC
651 TAGTATTTTAATTTCTAAATAGACAAAAGTATTCAGAAGACTTACGGATTCGGCGCCGGAGACTC
49681174 GGTGTGCCACAATCTTTAAGAGAAATACTTCAAACAGACCACGTGGTTGAAATTTTTTTTCTGAA
716 GGTGTGCCACAATCTTTAAGAGAAATACTTCAAACAGACCACGTGGTTGAAATTTTTTTTCTGAA
49681239 ATTCAACCTTTGAAAACCCAATCCACAGCCGAGTTATTGCAACCCAGGCTCTGATACCACTAAA
781 ATTCAACCTTTGAAAACCCAATCCACAGCCGAGTTATTGCAACCCAGGCTCTGATACCACTAAA
49681303 TGTAACACCCCAAACCCAGCTTGGAAGTTTGGCTCGAATCTCGCATGTCACATTGAAGTGTTTTT
1 TGTAACACCCCAAACCCAGCTTGGAAGTTTGGCTCGAATCTCGCATGTCACATTGAAGTGTTTTT
49681368 CGAAAACCATGTTTCCATTAAAAACCCTTCTTAATAATTAAAAACTTATACCCTTTTTAAACCTT
66 CGAAAACCATGTTTCCATTAAAAACCCTTCTTAATAATTAAAAACTTATACCCTTTTTAAACCTT
* * * ***
49681433 GTTAGAAACCTCAGCTGAATAAAATTTTTAACACCTTTGTAAAAATCTTGGCAGTTATAGAAGCT
131 GTTAGAAACCTCAGCTGAATAACATTCTTAACAACTTTGTAAAAATCTTGGCAGTTGCGGAAGCT
49681498 TGATTTAAAAACAATTGC
196 TGATTTAAAAACAATTGC
49681516 GGTTACGTGA
Statistics
Matches: 1041, Mismatches: 16, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
844 1041 1.00
ACGTcount: A:0.35, C:0.25, G:0.13, T:0.28
Consensus pattern (844 bp):
TGTAACACCCCAAACCCAGCTTGGAAGTTTGGCTCGAATCTCGCATGTCACATTGAAGTGTTTTT
CGAAAACCATGTTTCCATTAAAAACCCTTCTTAATAATTAAAAACTTATACCCTTTTTAAACCTT
GTTAGAAACCTCAGCTGAATAACATTCTTAACAACTTTGTAAAAATCTTGGCAGTTGCGGAAGCT
TGATTTAAAAACAATTGCAACCAGGTTTGAACCTAGGACTTCCCCAACACTTCTCAGCACACTTA
ACCACTAAAACAAGCCTTCAACTAAGAAATTTTCACGCACAACAGAATATTATAAGCTGCCTTCA
ACCGCTCCCATGCTCAAGGCCCAAAACTTCTAGGCCCAAATTCAGGGTGTTACAACTCTACCTCC
CTTAAAGAAATTTCATCCCCGAAATTTTCATCTAATAGGGTAGTCGTGTAACACCTACCCCACTA
TGCTACCGCTGCGCACTCTGATCCTACTATCACTATCACACTTCAACTAGAACTTGAAACATCTC
ATACATACAACACTTATTCACAGAAGCAGCCACATATTTATCACACATATATACAATTTCTATAT
CAAAACATCACATCCACATAAAATAAATACCAAATTTAAATTCAGACCAATATCTAAGGAATCCA
TAGTATTTTAATTTCTAAATAGACAAAAGTATTCAGAAGACTTACGGATTCGGCGCCGGAGACTC
GGTGTGCCACAATCTTTAAGAGAAATACTTCAAACAGACCACGTGGTTGAAATTTTTTTTCTGAA
ATTCAACCTTTGAAAACCCAATCCACAGCCGAGTTATTGCAACCCAGGCTCTGATACCACTAAA
Found at i:49681963 original size:6 final size:6
Alignment explanation
Indices: 49681954--49682064 Score: 75
Period size: 6 Copynumber: 17.8 Consensus size: 6
49681944 TATTAGAACT
* * *
49681954 AGAATC AGAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATT AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC
* * *
49682003 AGTATC AGGTAA-C AGAATC AAAATC AGAATC AGTATC AGGTAA-C AGAATC
1 AGAATC A-G-AATC AGAATC AGAATC AGAATC AGAATC A-G-AATC AGAATC
*
49682053 AAAAATC AGAAT
1 -AGAATC AGAAT
49682065 GTGAATGCAA
Statistics
Matches: 81, Mismatches: 14, Indels: 20
0.70 0.12 0.17
Matches are distributed among these distances:
5 5 0.06
6 60 0.74
7 13 0.16
8 3 0.04
ACGTcount: A:0.49, C:0.14, G:0.18, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:49681992 original size:31 final size:31
Alignment explanation
Indices: 49681954--49682064 Score: 159
Period size: 31 Copynumber: 3.5 Consensus size: 31
49681944 TATTAGAACT
* * * *
49681954 AGAATCAGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
* *
49681985 AGAATCAGAATTAGAATCAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
49682016 AGAATCAAAATCAGAATCAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
49682047 AGAATCAAAAATCAGAAT
1 AGAATC-AAAATCAGAAT
49682065 GTGAATGCAA
Statistics
Matches: 73, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
31 62 0.85
32 11 0.15
ACGTcount: A:0.49, C:0.14, G:0.18, T:0.20
Consensus pattern (31 bp):
AGAATCAAAATCAGAATCAGTATCAGGTAAC
Found at i:49682021 original size:19 final size:19
Alignment explanation
Indices: 49681997--49682053 Score: 56
Period size: 19 Copynumber: 3.4 Consensus size: 19
49681987 AATCAGAATT
49681997 AGAATCAGTATCAGGTAAC
1 AGAATCAGTATCAGGTAAC
*
49682016 AGAATCA--A--A---ATC
1 AGAATCAGTATCAGGTAAC
49682028 AGAATCAGTATCAGGTAAC
1 AGAATCAGTATCAGGTAAC
49682047 AGAATCA
1 AGAATCA
49682054 AAAATCAGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 14
0.64 0.04 0.31
Matches are distributed among these distances:
12 9 0.31
14 1 0.03
15 1 0.03
16 1 0.03
17 1 0.03
19 16 0.55
ACGTcount: A:0.47, C:0.16, G:0.18, T:0.19
Consensus pattern (19 bp):
AGAATCAGTATCAGGTAAC
Found at i:49682243 original size:27 final size:26
Alignment explanation
Indices: 49682201--49682302 Score: 114
Period size: 27 Copynumber: 3.8 Consensus size: 26
49682191 GCTCAGTTAT
* *
49682201 CAGATATTGTGACAGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGA-A
49682228 CAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
* *
49682254 CAGATATTTGTGGCATAGCCACCAAAAA
1 CAGATA-TTGTGGCAGAGCCACC-AGAA
* * *
49682282 CAGGTAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
49682303 TTAACAGAAT
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
26 7 0.11
27 51 0.77
28 8 0.12
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.19
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:49682489 original size:22 final size:22
Alignment explanation
Indices: 49682461--49682525 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
49682451 GAAAATACAT
*
49682461 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
49682483 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
49682505 TTGACACAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
49682526 AAGGCTTTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 2 0.06
22 32 0.89
23 2 0.06
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:49683008 original size:27 final size:27
Alignment explanation
Indices: 49682970--49683030 Score: 104
Period size: 27 Copynumber: 2.3 Consensus size: 27
49682960 TACCCCACAA
*
49682970 GGTATCTCGGTAATTCCACCCTACAGG
1 GGTATTTCGGTAATTCCACCCTACAGG
*
49682997 GGTATTTCGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCCACCCTACAGG
49683024 GGTATTT
1 GGTATTT
49683031 TAGGAATTCT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.33
Consensus pattern (27 bp):
GGTATTTCGGTAATTCCACCCTACAGG
Found at i:49683038 original size:27 final size:27
Alignment explanation
Indices: 49682952--49683048 Score: 99
Period size: 27 Copynumber: 3.6 Consensus size: 27
49682942 GGGGCAAAAT
* * * * *
49682952 GGTAATTTTACCCCACA-AGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTA
* *
49682978 GGTAATTCCACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTA
49683005 GGTAATTCTACCCTACAGGGGTATTTTA
1 GGTAATTCTACCCTACAGGGGTA-TTTA
*
49683033 GG-AATTCTACCTTACA
1 GGTAATTCTACCCTACA
49683049 TGTAACACCC
Statistics
Matches: 61, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
26 14 0.23
27 42 0.69
28 5 0.08
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.32
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTA
Found at i:49683910 original size:37 final size:37
Alignment explanation
Indices: 49683855--49684006 Score: 223
Period size: 37 Copynumber: 4.1 Consensus size: 37
49683845 ACCTTTAGCT
* * *
49683855 CGGACGAAATCTCCACACGAAGTTATCGGGTCTTACC
1 CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
*
49683892 CGGACAAAATCTCTACACGTAGTCATCGGGTCTTACC
1 CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
*
49683929 CGGGCAAAATCTCCACACGTAGTCATCGGGTCTTACC
1 CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
* * * *
49683966 CGAACATACTCTCCACACGTAGTCATCGGGTCTCACC
1 CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
49684003 CGGA
1 CGGA
49684007 ATATATTTCC
Statistics
Matches: 103, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 103 1.00
ACGTcount: A:0.26, C:0.32, G:0.20, T:0.22
Consensus pattern (37 bp):
CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
Found at i:49684223 original size:47 final size:47
Alignment explanation
Indices: 49684169--49684730 Score: 809
Period size: 47 Copynumber: 12.0 Consensus size: 47
49684159 TTTCACACTA
* * * *
49684169 GCCATTCGGCTTTACCACATATATGCATGTTCATATTCACCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* *
49684216 GCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* *
49684263 GCCATTCGGCCTTATCATATATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* *
49684310 GCCATTCGGCCTCATCACATATATGCATGTTCACATTCATCACATAG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* * * *
49684357 GGCATTCGGCCTTATCACATATATGCATGTTCATATTCACCACAATG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* *
49684404 GCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* *
49684451 GCCATTCGGCCTCATCACATATATGCATGTTCACATTCATCACATAG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* *
49684498 GCCATTCGGCCTTATCACATATATGCATGTTCATATTCACCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* * *
49684545 GCCATTCGGCCTTATCACACATATGCGTGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* * *
49684592 GCCATTCGGCCTTATCACATATATACATGTTCATATTCACCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
** * * * *
49684639 GCCATTCAACCTTATCACACATATGCATGCTCACATTTATCAAATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* **
49684686 GCCATTCGGCCTTATCACATATATACACATTCACATTCATCACAT
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACAT
49684731 AAAATCCTAA
Statistics
Matches: 454, Mismatches: 61, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 454 1.00
ACGTcount: A:0.27, C:0.29, G:0.12, T:0.32
Consensus pattern (47 bp):
GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
Found at i:49688709 original size:40 final size:40
Alignment explanation
Indices: 49688620--49688967 Score: 477
Period size: 40 Copynumber: 8.8 Consensus size: 40
49688610 GAATACACAT
*
49688620 CACCAGCAT-GAATGCTCTTCGAGACTTAGCCCGG--ATAA
1 CACCAGC-TCGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
49688658 CACTAGCTCGAATGCTCTTCGGGACCTAGCCCGGATATAA
1 CACCAGCTCGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
49688698 CACCAGCTCGAATGCTCTTCGGGACCTAGCCCGGATATAA
1 CACCAGCTCGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
49688738 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAA
1 CACCAGCTCGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * *
49688778 CACCAACTCGAATGCTCTTCGGGACTTAGCTCGGATATAT
1 CACCAGCTCGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * * * *
49688818 CACTAGCACGAATGCTCTTCGAGACTTAGCTCGGATATAT
1 CACCAGCTCGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * *
49688858 CACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAA
1 CACCAGCTCGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
49688898 CACCAACTCGAATGCTCTTCAGGACTTAGCCCGGATATAA
1 CACCAGCTCGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
49688938 CACCAGCACGAATGCTCTTCAGGACTTAGC
1 CACCAGCTCGAATGCTCTTCGGGACTTAGC
49688968 TCGGGTATCT
Statistics
Matches: 282, Mismatches: 25, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
37 1 0.00
38 29 0.10
40 252 0.89
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (40 bp):
CACCAGCTCGAATGCTCTTCGGGACTTAGCCCGGATATAA
Found at i:49688847 original size:23 final size:23
Alignment explanation
Indices: 49688821--49688887 Score: 56
Period size: 23 Copynumber: 3.2 Consensus size: 23
49688811 GATATATCAC
49688821 TAGCACGAATGCTCTTCGAGACT
1 TAGCACGAATGCTCTTCGAGACT
* * * *
49688844 TAGCTCGGAT-AT-ATC---AC-
1 TAGCACGAATGCTCTTCGAGACT
49688861 TAGCACGAATGCTCTTCGAGACT
1 TAGCACGAATGCTCTTCGAGACT
49688884 TAGC
1 TAGC
49688888 CCGGATATAA
Statistics
Matches: 30, Mismatches: 8, Indels: 12
0.60 0.16 0.24
Matches are distributed among these distances:
17 8 0.27
18 3 0.10
19 2 0.07
21 2 0.07
22 3 0.10
23 12 0.40
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.27
Consensus pattern (23 bp):
TAGCACGAATGCTCTTCGAGACT
Found at i:49688968 original size:120 final size:119
Alignment explanation
Indices: 49688618--49688971 Score: 550
Period size: 120 Copynumber: 3.0 Consensus size: 119
49688608 CCGAATACAC
* * *
49688618 ATCACCAGCATGAATGCTCTTCGAGACTTAGCCCGG--ATAACACTAGCTCGAATGCTCTTCGGG
1 ATCACCAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAACACCAACTCGAATGCTCTTCGGG
* * * *
49688681 ACCTAGCCCGGATATAACACCAGCTCGAATGCTCTTCGGGACCTAGCCCGGATAT
66 ACTTAGCCCGGATATAACACCAGCACGAATGCTCTTC-GGACTTAGCTCGGATAT
*
49688736 AACACCAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAACACCAACTCGAATGCTCTTCGGG
1 ATCACCAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAACACCAACTCGAATGCTCTTCGGG
* * *
49688801 ACTTAGCTCGGATATATCACTAGCACGAATGCTCTTCGAGACTTAGCTCGGATAT
66 ACTTAGCCCGGATATAACACCAGCACGAATGCTCTTCG-GACTTAGCTCGGATAT
* *
49688856 ATCACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAACACCAACTCGAATGCTCTTCAGG
1 ATCACCAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAACACCAACTCGAATGCTCTTCGGG
49688921 ACTTAGCCCGGATATAACACCAGCACGAATGCTCTTCAGGACTTAGCTCGG
66 ACTTAGCCCGGATATAACACCAGCACGAATGCTCTTC-GGACTTAGCTCGG
49688972 GTATCTAACT
Statistics
Matches: 215, Mismatches: 17, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
118 34 0.16
119 1 0.00
120 179 0.83
121 1 0.00
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (119 bp):
ATCACCAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAACACCAACTCGAATGCTCTTCGGG
ACTTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGACTTAGCTCGGATAT
Found at i:49690334 original size:71 final size:72
Alignment explanation
Indices: 49690241--49690384 Score: 236
Period size: 71 Copynumber: 2.0 Consensus size: 72
49690231 TAGCTCGACG
* *
49690241 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACAAAATCT-CACACGTAGTCATCGGGTCTT
1 AAATCTCCACACGAAGTCATCGGGTCTTACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTC
49690305 ACCCGGA
66 ACCCGGA
* * *
49690312 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACATACTCTCCACACGTAGTCATCGGGTCTC
1 AAATCTCCACACGAAGTCATCGGGTCTTACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTC
49690377 ACCCGGA
66 ACCCGGA
49690384 A
1 A
49690385 TATATTTCCA
Statistics
Matches: 67, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
71 39 0.58
72 28 0.42
ACGTcount: A:0.26, C:0.32, G:0.19, T:0.22
Consensus pattern (72 bp):
AAATCTCCACACGAAGTCATCGGGTCTTACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTC
ACCCGGA
Found at i:49690365 original size:37 final size:36
Alignment explanation
Indices: 49690241--49690383 Score: 218
Period size: 37 Copynumber: 4.0 Consensus size: 36
49690231 TAGCTCGACG
* *
49690241 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGAC
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGAC
49690277 AAAATCT-CACACGTAGTCATCGGGTCTTACCCGGA-
1 -AAATCTCCACACGTAGTCATCGGGTCTTACCCGGAC
49690312 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGAC
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGAC
* *
49690348 ATACTCTCCACACGTAGTCATCGGGTCTCACCCGGA
1 A-AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
49690384 ATATATTTCC
Statistics
Matches: 99, Mismatches: 4, Indels: 6
0.91 0.04 0.06
Matches are distributed among these distances:
34 6 0.06
35 28 0.28
36 27 0.27
37 38 0.38
ACGTcount: A:0.26, C:0.32, G:0.20, T:0.22
Consensus pattern (36 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGAC
Found at i:49690600 original size:47 final size:47
Alignment explanation
Indices: 49690546--49690868 Score: 447
Period size: 47 Copynumber: 7.0 Consensus size: 47
49690536 TTTCACACTA
* * *
49690546 GCCATTCGGCTTTACCACATATATGCATGTTCATATTCACCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCACCACATTG
* * *
49690593 GCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATAG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCACCACATTG
*
49690640 GCCATTCGGCCTTATCACATATATGCATGTTCATATTCACCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCACCACATTG
* * *
49690687 GCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCACCACATTG
* *
49690734 GCCATTCGGCCTTATCACATATATACATGTTCATATTCACCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCACCACATTG
* * *
49690781 GCCATT---CCTTATCACACATATGCATGCTCACATT-ATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCACCACATTG
* ** *
49690824 GCCATTCGGCCTTATCACATATATACACATTCACATTCATCACAT
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCACCACAT
49690869 AAAATCCTAA
Statistics
Matches: 243, Mismatches: 29, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
43 14 0.06
44 24 0.10
46 23 0.09
47 182 0.75
ACGTcount: A:0.27, C:0.29, G:0.11, T:0.32
Consensus pattern (47 bp):
GCCATTCGGCCTTATCACATATATGCATGTTCACATTCACCACATTG
Found at i:49690659 original size:94 final size:94
Alignment explanation
Indices: 49690538--49690847 Score: 522
Period size: 94 Copynumber: 3.3 Consensus size: 94
49690528 CCTACATATT
* *
49690538 TCACACTA-GCCATTCGGCTTTACCACATATATGCATGTTCATATTCACCACATTGGCCATTCGG
1 TCACA-TAGGCCATTCGGCCTTATCACATATATGCATGTTCATATTCACCACATTGGCCATTCGG
*
49690602 CCTTATCACACATATGCATGTTCACATTCA
65 CCTTATCACACATATGCATGCTCACATTCA
49690632 TCACATAGGCCATTCGGCCTTATCACATATATGCATGTTCATATTCACCACATTGGCCATTCGGC
1 TCACATAGGCCATTCGGCCTTATCACATATATGCATGTTCATATTCACCACATTGGCCATTCGGC
49690697 CTTATCACACATATGCATGCTCACATTCA
66 CTTATCACACATATGCATGCTCACATTCA
* *
49690726 TCACATTGGCCATTCGGCCTTATCACATATATACATGTTCATATTCACCACATTGGCCATT---C
1 TCACATAGGCCATTCGGCCTTATCACATATATGCATGTTCATATTCACCACATTGGCCATTCGGC
49690788 CTTATCACACATATGCATGCTCACATT-A
66 CTTATCACACATATGCATGCTCACATTCA
*
49690816 TCACATTGGCCATTCGGCCTTATCACATATAT
1 TCACATAGGCCATTCGGCCTTATCACATATAT
49690848 ACACATTCAC
Statistics
Matches: 210, Mismatches: 5, Indels: 6
0.95 0.02 0.03
Matches are distributed among these distances:
90 33 0.16
91 28 0.13
93 2 0.01
94 147 0.70
ACGTcount: A:0.27, C:0.29, G:0.12, T:0.32
Consensus pattern (94 bp):
TCACATAGGCCATTCGGCCTTATCACATATATGCATGTTCATATTCACCACATTGGCCATTCGGC
CTTATCACACATATGCATGCTCACATTCA
Found at i:49694843 original size:40 final size:40
Alignment explanation
Indices: 49694754--49695105 Score: 467
Period size: 40 Copynumber: 8.8 Consensus size: 40
49694744 GAATACACAT
*
49694754 CACCAGCAT-GAATGCTCTTCGAGACTTAGCCCGG--ATAA
1 CACCAGC-TCGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
49694792 CACTAGCTCGAATGCTCTTCGGGACCTAGCCCGGATATAA
1 CACCAGCTCGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
49694832 CACCAGCTCGAATGCTCTTCGGGACCTAGCCCGGATATAA
1 CACCAGCTCGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
49694872 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAA
1 CACCAGCTCGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * *
49694912 CACCAACTCGAATGCTCTTCGGGACTTAGCTCGGATATAT
1 CACCAGCTCGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * * * *
49694952 CACTAGCACGAATGCTCTTCGAGACTTAGCTCGGATATAT
1 CACCAGCTCGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * * *
49694992 CACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATCTAA
1 CACCAGCTCGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * *
49695032 CACCAACTCGAATGCTCTTCAGGACTTAGCCCAGATATAA
1 CACCAGCTCGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
49695072 CACCAGCACGAATGCTCTTCAGGACTTAGCCCGG
1 CACCAGCTCGAATGCTCTTCGGGACTTAGCCCGG
49695106 GTATCTAACT
Statistics
Matches: 282, Mismatches: 29, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
37 1 0.00
38 29 0.10
40 252 0.89
ACGTcount: A:0.27, C:0.30, G:0.20, T:0.22
Consensus pattern (40 bp):
CACCAGCTCGAATGCTCTTCGGGACTTAGCCCGGATATAA
Found at i:49694964 original size:120 final size:120
Alignment explanation
Indices: 49694754--49695105 Score: 537
Period size: 120 Copynumber: 3.0 Consensus size: 120
49694744 GAATACACAT
* * *
49694754 CACCAGCATGAATGCTCTTCGAGACTTAGCCCGG--ATAACACTAGCTCGAATGCTCTTCGGGAC
1 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAACACCAACTCGAATGCTCTTCGGGAC
* * *
49694817 CTAGCCCGGATATAACACCAGCTCGAATGCTCTTCGGGACCTAGCCCGGATATAA
66 TTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
49694872 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAACACCAACTCGAATGCTCTTCGGGAC
1 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAACACCAACTCGAATGCTCTTCGGGAC
* * * * * *
49694937 TTAGCTCGGATATATCACTAGCACGAATGCTCTTCGAGACTTAGCTCGGATATAT
66 TTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * *
49694992 CACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATCTAACACCAACTCGAATGCTCTTCAGGAC
1 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAACACCAACTCGAATGCTCTTCGGGAC
* *
49695057 TTAGCCCAGATATAACACCAGCACGAATGCTCTTCAGGACTTAGCCCGG
66 TTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGACTTAGCCCGG
49695106 GTATCTAACT
Statistics
Matches: 210, Mismatches: 22, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
118 33 0.16
120 177 0.84
ACGTcount: A:0.27, C:0.30, G:0.20, T:0.22
Consensus pattern (120 bp):
CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAACACCAACTCGAATGCTCTTCGGGAC
TTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
Found at i:49694981 original size:23 final size:23
Alignment explanation
Indices: 49694955--49695021 Score: 56
Period size: 23 Copynumber: 3.2 Consensus size: 23
49694945 GATATATCAC
49694955 TAGCACGAATGCTCTTCGAGACT
1 TAGCACGAATGCTCTTCGAGACT
* * * *
49694978 TAGCTCGGAT-AT-ATC---AC-
1 TAGCACGAATGCTCTTCGAGACT
49694995 TAGCACGAATGCTCTTCGAGACT
1 TAGCACGAATGCTCTTCGAGACT
49695018 TAGC
1 TAGC
49695022 CCGGATCTAA
Statistics
Matches: 30, Mismatches: 8, Indels: 12
0.60 0.16 0.24
Matches are distributed among these distances:
17 8 0.27
18 3 0.10
19 2 0.07
21 2 0.07
22 3 0.10
23 12 0.40
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.27
Consensus pattern (23 bp):
TAGCACGAATGCTCTTCGAGACT
Found at i:49696439 original size:37 final size:37
Alignment explanation
Indices: 49696380--49696525 Score: 211
Period size: 37 Copynumber: 3.9 Consensus size: 37
49696370 TAGCTCGACG
* *
49696380 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
49696417 AAATCTCTACACGTAGTCATCGGGTCTTACCCGGGCA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
49696454 AAATCTCCACACGTATTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* * *
49696491 TACTCTCCACACGTAGTCATCGGGTCTCACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
49696526 ATATATTTCC
Statistics
Matches: 96, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 96 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:49696463 original size:74 final size:74
Alignment explanation
Indices: 49696380--49696524 Score: 236
Period size: 74 Copynumber: 2.0 Consensus size: 74
49696370 TAGCTCGACG
* *
49696380 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACAAAATCTCTACACGTAGTCATCGGGTCTT
1 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTC
49696445 ACCCGGGCA
66 ACCCGGGCA
* * * *
49696454 AAATCTCCACACGTATTTATCGGGTCTTACCCGGACATACTCTCCACACGTAGTCATCGGGTCTC
1 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTC
49696519 ACCCGG
66 ACCCGG
49696525 AATATATTTC
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
74 65 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (74 bp):
AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTC
ACCCGGGCA
Found at i:49696743 original size:47 final size:47
Alignment explanation
Indices: 49696688--49697249 Score: 809
Period size: 47 Copynumber: 12.0 Consensus size: 47
49696678 TTTCACACTA
* * * *
49696688 GCCATTCGGCTTTACCACATATATGCATGTTCATATTCACCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* * *
49696735 GTCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* * *
49696782 GCCATTTGGCCTTATCATATATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* *
49696829 GCCATTCGGCCTCATCACATATATGCATGTTCACATTCATCACATAG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* *
49696876 GCCATTCGGCCTTATCACATATATGCATGTTCATATTCACCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* *
49696923 GCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* *
49696970 GCCATTCGGCCTCATCACATATATGCATGTTCACATTCATCACATAG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* *
49697017 GCCATTCGGCCTTATCACATATATGCATGTTCATATTCACCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* *
49697064 GCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* * *
49697111 GCCATTCGGCCTTATCACATATATACATGTTCATATTCACCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
** * * * *
49697158 GCCATTCAACCTTATCACACATATGCATGCTCACATTTATCAAATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* * **
49697205 GCCATTTGGCCTTATCACATATATACACATTCACATTCATCACAT
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACAT
49697250 AAAATCCTAA
Statistics
Matches: 455, Mismatches: 60, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 455 1.00
ACGTcount: A:0.27, C:0.29, G:0.12, T:0.32
Consensus pattern (47 bp):
GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
Found at i:49701142 original size:27 final size:27
Alignment explanation
Indices: 49701109--49701248 Score: 115
Period size: 27 Copynumber: 5.2 Consensus size: 27
49701099 TGAATTCGCA
*
49701109 TAATTCTACCCTATAGGGGTATTTCGG
1 TAATTCTACCCAATAGGGGTATTTCGG
* * *
49701136 TAATTCTACCCTACAAGGGTATTTCGG
1 TAATTCTACCCAATAGGGGTATTTCGG
* *
49701163 TAATT-T-CACAAATTAGGGGTATTTTGG
1 TAATTCTAC-CCAA-TAGGGGTATTTCGG
* * *
49701190 TAATTTTA-CAAACTAGGGGTATTTTGG
1 TAATTCTACCCAA-TAGGGGTATTTCGG
* * * *
49701217 TAATTCTATCCGATAAGGGTATTTCAG
1 TAATTCTACCCAATAGGGGTATTTCGG
49701244 TAATT
1 TAATT
49701249 TCACAATCGA
Statistics
Matches: 94, Mismatches: 14, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
25 1 0.01
26 3 0.03
27 87 0.93
28 3 0.03
ACGTcount: A:0.28, C:0.14, G:0.20, T:0.39
Consensus pattern (27 bp):
TAATTCTACCCAATAGGGGTATTTCGG
Found at i:49701289 original size:27 final size:27
Alignment explanation
Indices: 49701253--49701420 Score: 196
Period size: 27 Copynumber: 6.3 Consensus size: 27
49701243 GTAATTTCAC
* *
49701253 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTATA
* *
49701280 AATTGAGGGTAAAATGGTAATTTT-TA
1 AATCGAGGGTAAAACGGTAATTTTATA
* *
49701306 AATCGAAGGTAAAA-GGATAATTCTATA
1 AATCGAGGGTAAAACGG-TAATTTTATA
* *
49701333 AATCGAGGGTAAAATGGTAATTTTTTA
1 AATCGAGGGTAAAACGGTAATTTTATA
* *
49701360 AATCGAGGGTGAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTATA
* * *
49701387 AATCGAGGGTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAACGGTAATTTTATA
49701414 AATCGAG
1 AATCGAG
49701421 AGCATTTTAG
Statistics
Matches: 122, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
25 2 0.02
26 20 0.16
27 98 0.80
28 2 0.02
ACGTcount: A:0.40, C:0.07, G:0.23, T:0.30
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTTTATA
Found at i:49701300 original size:53 final size:53
Alignment explanation
Indices: 49701253--49701408 Score: 240
Period size: 54 Copynumber: 2.9 Consensus size: 53
49701243 GTAATTTCAC
* * *
49701253 AATCGAGGGTAAAACGATAATTTTGTAAATTGAGGGTAAAATGGTAATTTTTA
1 AATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAATGGTAATTTTTA
* *
49701306 AATCGAAGGTAAAAGGATAATTCTATAAATCGAGGGTAAAATGGTAATTTTTTA
1 AATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAATGGTAA-TTTTTA
* *
49701360 AATCGAGGGTGAAACGGTAATTCTATAAATCGAGGGTAAAATGGTAATT
1 AATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAATGGTAATT
49701409 CTACAAATCG
Statistics
Matches: 93, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
53 44 0.47
54 49 0.53
ACGTcount: A:0.40, C:0.06, G:0.23, T:0.31
Consensus pattern (53 bp):
AATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAATGGTAATTTTTA
Found at i:49701512 original size:26 final size:26
Alignment explanation
Indices: 49701424--49701515 Score: 94
Period size: 26 Copynumber: 3.5 Consensus size: 26
49701414 AATCGAGAGC
* **
49701424 ATTTTAGTACTTTTACAATCGACGGT
1 ATTTTAGTAATTTTACAATCGGGGGT
* * *
49701450 ATTTCAGTAATTTTATAAACCGGGGGT
1 ATTTTAGTAATTTTA-CAATCGGGGGT
* * *
49701477 ACTTTGGTAATTTTACAATTGGGGGT
1 ATTTTAGTAATTTTACAATCGGGGGT
49701503 ATTTTAGTAATTT
1 ATTTTAGTAATTT
49701516 GGTAAACTAA
Statistics
Matches: 51, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
26 32 0.63
27 19 0.37
ACGTcount: A:0.27, C:0.10, G:0.20, T:0.43
Consensus pattern (26 bp):
ATTTTAGTAATTTTACAATCGGGGGT
Found at i:49703484 original size:18 final size:18
Alignment explanation
Indices: 49703463--49703497 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
49703453 AAGAAACATT
49703463 ATCAGAA-CTAAAATTAGA
1 ATCAGAATC-AAAATTAGA
49703481 ATCAGAATCAAAATTAG
1 ATCAGAATCAAAATTAG
49703498 GTGACAGAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 15 0.94
19 1 0.06
ACGTcount: A:0.54, C:0.11, G:0.11, T:0.23
Consensus pattern (18 bp):
ATCAGAATCAAAATTAGA
Found at i:49703518 original size:31 final size:31
Alignment explanation
Indices: 49703480--49703582 Score: 134
Period size: 31 Copynumber: 3.3 Consensus size: 31
49703470 CTAAAATTAG
** * *
49703480 AATCAGAATCAAAATTAGGTGACAGAATAAA
1 AATCAGAATCAGTATCAGGTAACAGAATAAA
* *
49703511 AATCAGAATCAGTATCAGGTAATAGAATCAA
1 AATCAGAATCAGTATCAGGTAACAGAATAAA
*
49703542 AATCAGAATCAGTATCAGGTAACAAAATCAAA
1 AATCAGAATCAGTATCAGGTAACAGAAT-AAA
49703574 AATCAGAAT
1 AATCAGAAT
49703583 GTGAATGCAA
Statistics
Matches: 62, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
31 51 0.82
32 11 0.18
ACGTcount: A:0.52, C:0.13, G:0.15, T:0.20
Consensus pattern (31 bp):
AATCAGAATCAGTATCAGGTAACAGAATAAA
Found at i:49703762 original size:27 final size:26
Alignment explanation
Indices: 49703719--49703820 Score: 114
Period size: 27 Copynumber: 3.8 Consensus size: 26
49703709 GCTCAGTTAT
** *
49703719 CAGATATTGTGATAGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGA-A
*
49703746 TAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
*
49703772 CAGATATTTGTGGCATAGCCACCAGAAA
1 CAGATA-TTGTGGCAGAGCCACCAG-AA
* *
49703800 CAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
49703821 TTAACAGAAT
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
26 6 0.09
27 51 0.78
28 8 0.12
ACGTcount: A:0.36, C:0.20, G:0.24, T:0.21
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:49704007 original size:22 final size:22
Alignment explanation
Indices: 49703979--49704043 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
49703969 GCAAATACAT
*
49703979 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
49704001 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
49704023 TTGACACAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
49704044 AAGGCTTTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 2 0.06
22 32 0.89
23 2 0.06
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:49704760 original size:27 final size:27
Alignment explanation
Indices: 49704397--49704762 Score: 405
Period size: 27 Copynumber: 13.6 Consensus size: 27
49704387 TACCACACAA
* *
49704397 GGTATCTCGGTAATTCCACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
** * **
49704424 GGTATTTTAGTAATTCTACCATACAAA
1 GGTATTTCGGTAATTCTACCCTACAGG
49704451 GGTATTTCGAG-AATTCTACCCTACAGG
1 GGTATTTCG-GTAATTCTACCCTACAGG
* ** *
49704478 GGTATTGCGAAAATTCTACGCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* *
49704505 GGTATTTTGGTAATTCTACCCTATAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
49704532 GGTATTCCGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
49704559 GGTATTTCGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* *
49704586 GGTATTTTGGTAATTTTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
49704613 GGTATTTCGATAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* *
49704640 GGTATTTCGATAATTCTACCCTACAAG
1 GGTATTTCGGTAATTCTACCCTACAGG
* * ***
49704667 GGTATTTCAGTAATTTTA-GAAATCAGG
1 GGTATTTCGGTAATTCTACCCTA-CAGG
* * **
49704694 GGTATTTTGGTAATTTTA-CAAATCAGG
1 GGTATTTCGGTAATTCTACCCTA-CAGG
* *
49704721 GGTATTTTGGTAATTCTATCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
49704748 GGTATTTCAGTAATT
1 GGTATTTCGGTAATT
49704763 TCACAATCGA
Statistics
Matches: 289, Mismatches: 46, Indels: 8
0.84 0.13 0.02
Matches are distributed among these distances:
26 1 0.00
27 285 0.99
28 3 0.01
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.35
Consensus pattern (27 bp):
GGTATTTCGGTAATTCTACCCTACAGG
Found at i:49704775 original size:27 final size:27
Alignment explanation
Indices: 49704666--49704775 Score: 75
Period size: 27 Copynumber: 4.1 Consensus size: 27
49704656 TACCCTACAA
* *
49704666 GGGTATTTCAGTAATTTTAGAAATCAG
1 GGGTATTTCAGTAATTTCAGCAATCAG
** *
49704693 GGGTATTTTGGTAATTTTA-CAAATCAG
1 GGGTATTTCAGTAATTTCAGC-AATCAG
** * *
49704720 GGGTATTTTGGTAA-TTCTATC-CTACAG
1 GGGTATTTCAGTAATTTC-AGCAAT-CAG
49704747 GGGTATTTCAGTAATTTCA-CAATCGAG
1 GGGTATTTCAGTAATTTCAGCAATC-AG
49704774 GG
1 GG
49704776 TAAAACGGTA
Statistics
Matches: 68, Mismatches: 8, Indels: 14
0.76 0.09 0.16
Matches are distributed among these distances:
26 5 0.07
27 59 0.87
28 4 0.06
ACGTcount: A:0.28, C:0.11, G:0.24, T:0.37
Consensus pattern (27 bp):
GGGTATTTCAGTAATTTCAGCAATCAG
Found at i:49704841 original size:54 final size:53
Alignment explanation
Indices: 49704767--49704922 Score: 190
Period size: 54 Copynumber: 2.9 Consensus size: 53
49704757 GTAATTTCAC
* *
49704767 AATCGAGGGTAAAACGGTAATTTTGTAAACTGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTTTATAAA-TGAGGGTAAAATGGTAATTTTGTA
* * *
49704821 AATTGAGGGTAAAATGGTAATTCTATAAATTGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTTTATAAA-TGAGGGTAAAATGGTAATTTTGTA
* * *
49704875 AATCGAGGGTGAAACT-TTAA-TTTATAAATCGAGGGTAAAATGTTAATT
1 AATCGAGGGT-AAAATGGTAATTTTATAAAT-GAGGGTAAAATGGTAATT
49704923 CTACTAATCG
Statistics
Matches: 88, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
52 1 0.01
53 23 0.26
54 60 0.68
55 4 0.05
ACGTcount: A:0.38, C:0.05, G:0.24, T:0.33
Consensus pattern (53 bp):
AATCGAGGGTAAAATGGTAATTTTATAAATGAGGGTAAAATGGTAATTTTGTA
Found at i:49704875 original size:81 final size:80
Alignment explanation
Indices: 49704771--49704925 Score: 224
Period size: 81 Copynumber: 1.9 Consensus size: 80
49704761 TTTCACAATC
* *
49704771 GAGGGTAAAACGGTAATTTTGTAAA-CTGAGGGT-AAAATGGTAATTTTGTAAATTGAGGGTAAA
1 GAGGGTAAAACGGTAATTTTGTAAATC-GAGGGTGAAAAT-GTAA-TTTATAAATCGAGGGTAAA
49704834 ATGGTAATTCTATAAATT
63 ATGGTAATTCTATAAATT
* *
49704852 GAGGGTAAAACGGTAATTTTGTAAATCGAGGGTGAAACTTTAATTTATAAATCGAGGGTAAAATG
1 GAGGGTAAAACGGTAATTTTGTAAATCGAGGGTGAAAATGTAATTTATAAATCGAGGGTAAAATG
*
49704917 TTAATTCTA
66 GTAATTCTA
49704926 CTAATCGAGG
Statistics
Matches: 67, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
80 28 0.42
81 34 0.51
82 5 0.07
ACGTcount: A:0.38, C:0.05, G:0.24, T:0.33
Consensus pattern (80 bp):
GAGGGTAAAACGGTAATTTTGTAAATCGAGGGTGAAAATGTAATTTATAAATCGAGGGTAAAATG
GTAATTCTATAAATT
Found at i:49704936 original size:27 final size:27
Alignment explanation
Indices: 49704767--49704936 Score: 170
Period size: 27 Copynumber: 6.3 Consensus size: 27
49704757 GTAATTTCAC
* *
49704767 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTTAGTA
*
49704794 AA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAATGGTAATTTAGTA
*
49704821 AATTGAGGGTAAAATGGTAATTCTA-TA
1 AATCGAGGGTAAAATGGTAATT-TAGTA
* * *
49704848 AATTGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTTAGTA
* *
49704875 AATCGAGGGTGAAACT-TTAATTTA-TA
1 AATCGAGGGT-AAAATGGTAATTTAGTA
* *
49704901 AATCGAGGGTAAAATGTTAATTCTACT-
1 AATCGAGGGTAAAATGGTAATT-TAGTA
49704928 AATCGAGGG
1 AATCGAGGG
49704937 CATTTCAGTA
Statistics
Matches: 124, Mismatches: 11, Indels: 16
0.82 0.07 0.11
Matches are distributed among these distances:
25 4 0.03
26 20 0.16
27 95 0.77
28 5 0.04
ACGTcount: A:0.38, C:0.06, G:0.24, T:0.32
Consensus pattern (27 bp):
AATCGAGGGTAAAATGGTAATTTAGTA
Found at i:49704948 original size:27 final size:26
Alignment explanation
Indices: 49704918--49704975 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
49704908 GGTAAAATGT
* *
49704918 TAATTCTACTAATCGAGGGCATTTCAG
1 TAATTCTAC-AATCAACGGCATTTCAG
* * *
49704945 TAATTTTACAATCAACGGTATTTTAG
1 TAATTCTACAATCAACGGCATTTCAG
49704971 TAATT
1 TAATT
49704976 TTATAAACCA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 18 0.69
27 8 0.31
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.40
Consensus pattern (26 bp):
TAATTCTACAATCAACGGCATTTCAG
Found at i:49704951 original size:80 final size:81
Alignment explanation
Indices: 49704767--49704938 Score: 199
Period size: 80 Copynumber: 2.1 Consensus size: 81
49704757 GTAATTTCAC
* * * *
49704767 AATCGAGGGTAAAACGGTAATTTTGTAAACTGAGGGTAAAATGGTAATTTTGTAAATTGAGGGTA
1 AATCGAGGGCAAAACAGTAATTTTGTAAACTGAGGGTAAAATGGTAATTTTATAAATCGAGGGTA
49704832 AAATGGTAATTCTATA
66 AAATGGTAATTCTATA
* * * * *
49704848 AATTGAGGGTAAAACGGTAATTTTGTAAA-TCGAGGGTGAAACT-TTAA-TTTATAAATCGAGGG
1 AATCGAGGGCAAAACAGTAATTTTGTAAACT-GAGGGT-AAAATGGTAATTTTATAAATCGAGGG
*
49704910 TAAAATGTTAATTCTACT-
64 TAAAATGGTAATTCTA-TA
49704928 AATCGAGGGCA
1 AATCGAGGGCA
49704939 TTTCAGTAAT
Statistics
Matches: 80, Mismatches: 8, Indels: 7
0.84 0.08 0.07
Matches are distributed among these distances:
80 38 0.47
81 38 0.47
82 4 0.05
ACGTcount: A:0.38, C:0.07, G:0.24, T:0.31
Consensus pattern (81 bp):
AATCGAGGGCAAAACAGTAATTTTGTAAACTGAGGGTAAAATGGTAATTTTATAAATCGAGGGTA
AAATGGTAATTCTATA
Found at i:49707855 original size:25 final size:25
Alignment explanation
Indices: 49707827--49707875 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
49707817 TTATAATATG
** *
49707827 AAAAATGACTGTTTTACCCCTAGGT
1 AAAAATGACCATTATACCCCTAGGT
49707852 AAAAATGACCATTATACCCCTAGG
1 AAAAATGACCATTATACCCCTAGG
49707876 GTTTAATTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.37, C:0.22, G:0.14, T:0.27
Consensus pattern (25 bp):
AAAAATGACCATTATACCCCTAGGT
Found at i:49707938 original size:11 final size:10
Alignment explanation
Indices: 49707906--49707959 Score: 58
Period size: 11 Copynumber: 5.4 Consensus size: 10
49707896 CATGAGATTT
49707906 TGATAT-ACA
1 TGATATGACA
*
49707915 TGATTTGACA
1 TGATATGACA
49707925 TGATATGCACA
1 TGATATG-ACA
*
49707936 TGATATG-TA
1 TGATATGACA
49707945 TGATATGCACA
1 TGATATG-ACA
49707956 TGAT
1 TGAT
49707960 GTATTCATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
9 13 0.35
10 9 0.24
11 15 0.41
ACGTcount: A:0.35, C:0.11, G:0.19, T:0.35
Consensus pattern (10 bp):
TGATATGACA
Found at i:49708338 original size:30 final size:31
Alignment explanation
Indices: 49708271--49708353 Score: 143
Period size: 31 Copynumber: 2.7 Consensus size: 31
49708261 CGTTTACAAT
*
49708271 AAAGGCTTTGGCCCAGTGATATGAATAATGA
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
49708302 AAAGGCTTCGGCCCAGTGATATGAATAATG-
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
49708332 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
49708354 TTGAGACTGA
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
29 5 0.10
30 17 0.33
31 29 0.57
ACGTcount: A:0.33, C:0.17, G:0.27, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGAATAATGA
Found at i:49709086 original size:22 final size:22
Alignment explanation
Indices: 49709060--49709103 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
49709050 AAAAATGATC
*
49709060 AAAATTAATCAAAATTTATTAT
1 AAAATTAATCAAAATTAATTAT
* *
49709082 AAAATTATTTAAAATTAATTAT
1 AAAATTAATCAAAATTAATTAT
49709104 GTTAATAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (22 bp):
AAAATTAATCAAAATTAATTAT
Found at i:49709255 original size:36 final size:36
Alignment explanation
Indices: 49709210--49709281 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
49709200 ATTAAAAAGT
*
49709210 GTGTATATTTTTGTGTTTCCACACCCCCAAACTTAA
1 GTGTATATTTTTCTGTTTCCACACCCCCAAACTTAA
49709246 GTGTATATTTTTCTGTTTCCACACCCCCAAACTTAA
1 GTGTATATTTTTCTGTTTCCACACCCCCAAACTTAA
49709282 TTCATTGCTC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.25, C:0.26, G:0.10, T:0.39
Consensus pattern (36 bp):
GTGTATATTTTTCTGTTTCCACACCCCCAAACTTAA
Found at i:49713037 original size:31 final size:32
Alignment explanation
Indices: 49712999--49713060 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 32
49712989 CTCGCTGCAA
* *
49712999 TCTGGTGGCTTCGCCAC-ATATATATATCTGT
1 TCTGGTGGCCTAGCCACAATATATATATCTGT
*
49713030 TCTGGTGGCCTAGCCACAATATCTATATCTG
1 TCTGGTGGCCTAGCCACAATATATATATCTG
49713061 GTGACTTCAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 15 0.56
32 12 0.44
ACGTcount: A:0.21, C:0.24, G:0.19, T:0.35
Consensus pattern (32 bp):
TCTGGTGGCCTAGCCACAATATATATATCTGT
Found at i:49718217 original size:40 final size:40
Alignment explanation
Indices: 49718162--49718337 Score: 259
Period size: 40 Copynumber: 4.4 Consensus size: 40
49718152 GATGATAACT
* * *
49718162 GGGCTAAGTCTCGAAGGCATTTGTGCTAGTGACTA-ATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCC
49718202 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
*
49718242 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
*
49718282 GGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCC
*
49718322 -GGCTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGG
49718338 TACTTGGGTT
Statistics
Matches: 127, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
39 17 0.13
40 109 0.86
41 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
Found at i:49723676 original size:27 final size:26
Alignment explanation
Indices: 49723636--49723694 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
49723626 TATATGTATG
*
49723636 TATCTGTTCTGGTGGCCTAGCCACAA
1 TATCTGTTCTGGTGACCTAGCCACAA
* * *
49723662 TATCTGTATCTGGTGACTTCGTCACAA
1 TATCTGT-TCTGGTGACCTAGCCACAA
49723689 TATCTG
1 TATCTG
49723695 GTAGCCTCGC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.20, C:0.24, G:0.20, T:0.36
Consensus pattern (26 bp):
TATCTGTTCTGGTGACCTAGCCACAA
Found at i:49733822 original size:18 final size:19
Alignment explanation
Indices: 49733788--49733823 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
49733778 TCCTAACGCA
49733788 AATTAAATTAAACCATATT
1 AATTAAATTAAACCATATT
*
49733807 AATTAAA-TAAATCATAT
1 AATTAAATTAAACCATAT
49733824 CAACATAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (19 bp):
AATTAAATTAAACCATATT
Found at i:49734652 original size:22 final size:22
Alignment explanation
Indices: 49734625--49734668 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
49734615 AAAAATGATA
*
49734625 AAAATTAATCAAAATTTATTAT
1 AAAATTAATCAAAATTCATTAT
* *
49734647 AAAATTATTTAAAATTCATTAT
1 AAAATTAATCAAAATTCATTAT
49734669 GTTAGTAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (22 bp):
AAAATTAATCAAAATTCATTAT
Found at i:49739374 original size:40 final size:39
Alignment explanation
Indices: 49739266--49739405 Score: 154
Period size: 40 Copynumber: 3.5 Consensus size: 39
49739256 CAGCAGCTTT
** * *
49739266 TATGAGAAAAATACCGCAAAAGGTCAAGCATTAGCGGCGTT
1 TATGAGAAAAACGCCACAAAA-GTCAAGCATTAGCGGCG-C
* *
49739307 TATGAGAAAAATGCCACAAAAGGCAAGCATTAGCGGCGC
1 TATGAGAAAAACGCCACAAAAGTCAAGCATTAGCGGCGC
* * * *
49739346 TATGAGAAAAACGCTACCAAATGTCAAGCATTAGTGTCGC
1 TATGAGAAAAACGCCA-CAAAAGTCAAGCATTAGCGGCGC
*
49739386 TATGAGAAAAATGCCACAAA
1 TATGAGAAAAACGCCACAAA
49739406 GTATCATTTT
Statistics
Matches: 86, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 18 0.21
40 49 0.57
41 19 0.22
ACGTcount: A:0.41, C:0.19, G:0.22, T:0.18
Consensus pattern (39 bp):
TATGAGAAAAACGCCACAAAAGTCAAGCATTAGCGGCGC
Found at i:49739566 original size:27 final size:27
Alignment explanation
Indices: 49739531--49739591 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
49739521 CGACCATCTA
* *
49739531 CTGCATCGTTGTC-AGCTGTCCCCTCTG
1 CTGCATCGTCGTCGA-CTATCCCCTCTG
*
49739558 CTGCATCGTCGTCGACTATCCCTTCTG
1 CTGCATCGTCGTCGACTATCCCCTCTG
49739585 CTGCATC
1 CTGCATC
49739592 ACCGTCAACA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
27 29 0.97
28 1 0.03
ACGTcount: A:0.10, C:0.38, G:0.20, T:0.33
Consensus pattern (27 bp):
CTGCATCGTCGTCGACTATCCCCTCTG
Found at i:49739827 original size:25 final size:25
Alignment explanation
Indices: 49739798--49739845 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
49739788 CCTTAGCTTA
49739798 ATTTTTATTATTTCATTTAACAATT
1 ATTTTTATTATTTCATTTAACAATT
49739823 ATTTTTATTATTTCATTTAACAA
1 ATTTTTATTATTTCATTTAACAA
49739846 AATCCTATCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.58
Consensus pattern (25 bp):
ATTTTTATTATTTCATTTAACAATT
Found at i:49742142 original size:28 final size:28
Alignment explanation
Indices: 49742109--49742175 Score: 98
Period size: 28 Copynumber: 2.4 Consensus size: 28
49742099 CGATATTTCA
49742109 CACACTAAGTGTCATTCTCAACATCTCG
1 CACACTAAGTGTCATTCTCAACATCTCG
* *
49742137 CACACTAAGTGTCATTCTCAATATTTCG
1 CACACTAAGTGTCATTCTCAACATCTCG
* *
49742165 TACACTGAGTG
1 CACACTAAGTG
49742176 CCATATTTGA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.28, C:0.27, G:0.13, T:0.31
Consensus pattern (28 bp):
CACACTAAGTGTCATTCTCAACATCTCG
Found at i:49744038 original size:46 final size:46
Alignment explanation
Indices: 49743985--49744152 Score: 207
Period size: 46 Copynumber: 3.6 Consensus size: 46
49743975 TATTTGGGCA
49743985 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
49744031 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
* *
49744078 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
49744124 CCCGAGCTCGTTGAGTTGAGTCCGAGTTC
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC
49744153 GGGCGAGTTA
Statistics
Matches: 104, Mismatches: 11, Indels: 14
0.81 0.09 0.11
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 60 0.58
47 32 0.31
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:49744140 original size:93 final size:93
Alignment explanation
Indices: 49743981--49744153 Score: 310
Period size: 93 Copynumber: 1.9 Consensus size: 93
49743971 GGGATATTTG
* *
49743981 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
49744046 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* *
49744074 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
49744139 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
49744154 GGCGAGTTAC
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.31, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:49746199 original size:30 final size:31
Alignment explanation
Indices: 49746158--49746270 Score: 160
Period size: 31 Copynumber: 3.7 Consensus size: 31
49746148 TGAGTCTTGA
* *
49746158 CATAT-ACTGGGCCAAAGCCTTTCCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
* *
49746188 CATAT-ATTGGGCCG-AGCCTTTTAATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
49746217 CATATCACTAGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
49746248 CATATCACTGGGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
49746271 ACTGTAAACA
Statistics
Matches: 73, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
29 18 0.25
30 19 0.26
31 36 0.49
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:49746341 original size:42 final size:42
Alignment explanation
Indices: 49746294--49746385 Score: 175
Period size: 42 Copynumber: 2.2 Consensus size: 42
49746284 TGGCCCTTAG
*
49746294 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
49746336 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
49746378 GCCCATTT
1 GCCCATTT
49746386 GGGGAGACTA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.32
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
Found at i:49746568 original size:25 final size:25
Alignment explanation
Indices: 49746533--49746601 Score: 93
Period size: 25 Copynumber: 2.8 Consensus size: 25
49746523 CTCTTTTAAT
*
49746533 AACTGGTGCAAAGCCCTTTCTGATA
1 AACTGGGGCAAAGCCCTTTCTGATA
* *
49746558 AACTGGGGCAAAGCCCTTTTTGGTA
1 AACTGGGGCAAAGCCCTTTCTGATA
* *
49746583 AACTAGGGCAGAGCCCTTT
1 AACTGGGGCAAAGCCCTTT
49746602 TAGCACTTCC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTCTGATA
Found at i:49747442 original size:27 final size:27
Alignment explanation
Indices: 49747412--49747476 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
49747402 GGGCATATTC
49747412 GTCATTTTACCATACAAGGG-TATTACG
1 GTCATTTTACCATACAAGGGCT-TTACG
* * * *
49747439 GTCACTTTACCCTATAGGGGCTTTACG
1 GTCATTTTACCATACAAGGGCTTTACG
*
49747466 GTCTTTTTACC
1 GTCATTTTACC
49747477 TATTAGGGGT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
27 30 0.97
28 1 0.03
ACGTcount: A:0.22, C:0.23, G:0.18, T:0.37
Consensus pattern (27 bp):
GTCATTTTACCATACAAGGGCTTTACG
Found at i:49747478 original size:26 final size:28
Alignment explanation
Indices: 49747434--49747485 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 28
49747424 TACAAGGGTA
49747434 TTACGGTCACTTTACCCTA-TAGGGGCT
1 TTACGGTCACTTTACCCTATTAGGGGCT
**
49747461 TTACGGTCTTTTTA-CCTATTAGGGG
1 TTACGGTCACTTTACCCTATTAGGGG
49747486 TATTTTAGTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 4 0.18
27 18 0.82
ACGTcount: A:0.17, C:0.21, G:0.23, T:0.38
Consensus pattern (28 bp):
TTACGGTCACTTTACCCTATTAGGGGCT
Found at i:49747560 original size:27 final size:27
Alignment explanation
Indices: 49747534--49747663 Score: 102
Period size: 27 Copynumber: 4.7 Consensus size: 27
49747524 ATCTACAAAC
*
49747534 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTCAGTAATTTTGTAAAT
*
49747561 CAATGGTATTTCTA-TAATTTT-TAAAAAGT
1 CAAGGGTATTTC-AGTAATTTTGT--AAA-T
* *
49747590 AAAGGGTATTTCTGTAATTTTGTAAAT
1 CAAGGGTATTTCAGTAATTTTGTAAAT
* * ** *
49747617 TAGGGGTATTTTGGTAATTTTATAAAT
1 CAAGGGTATTTCAGTAATTTTGTAAAT
** *
49747644 TGAGGGTATTTCGGTAATTT
1 CAAGGGTATTTCAGTAATTT
49747664 CACAAACCAG
Statistics
Matches: 84, Mismatches: 13, Indels: 12
0.77 0.12 0.11
Matches are distributed among these distances:
26 1 0.01
27 58 0.69
28 7 0.08
29 17 0.20
30 1 0.01
ACGTcount: A:0.32, C:0.05, G:0.19, T:0.44
Consensus pattern (27 bp):
CAAGGGTATTTCAGTAATTTTGTAAAT
Found at i:49747635 original size:56 final size:55
Alignment explanation
Indices: 49747535--49747691 Score: 165
Period size: 54 Copynumber: 2.9 Consensus size: 55
49747525 TCTACAAACC
* *
49747535 AAGGGTATTTCAGTAATTTTGTAAACCAATGGTATTTCT-ATAATTTTTAAAAAGTA
1 AAGGGTATTTCAGTAATTTTGTAAACCAGTGGTATTT-TGGTAATTTTTAAAAA-TA
* ** * * *
49747591 AAGGGTATTTCTGTAATTTTGTAAATTAGGGGTATTTTGGTAA-TTTTATAAATT
1 AAGGGTATTTCAGTAATTTTGTAAACCAGTGGTATTTTGGTAATTTTTAAAAATA
* * ***
49747645 GAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTTGGTAATTTT
1 AAGGGTATTTCAGTAATTTTGTAAACCAGTGGTATTTTGGTAATTTT
49747692 ACAAACTAGG
Statistics
Matches: 83, Mismatches: 16, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
54 36 0.43
55 12 0.14
56 35 0.42
ACGTcount: A:0.31, C:0.06, G:0.19, T:0.43
Consensus pattern (55 bp):
AAGGGTATTTCAGTAATTTTGTAAACCAGTGGTATTTTGGTAATTTTTAAAAATA
Found at i:49747678 original size:27 final size:26
Alignment explanation
Indices: 49747646--49747719 Score: 85
Period size: 27 Copynumber: 2.8 Consensus size: 26
49747636 TTATAAATTG
49747646 AGGGTATTTCGGTAATTTCACAAACC
1 AGGGTATTTCGGTAATTTCACAAACC
* * *
49747672 AGTGGTATTTTGGTAATTTTACAAACT
1 AG-GGTATTTCGGTAATTTCACAAACC
* *
49747699 AGGGTTATTTCAGTCATTTCA
1 AGGG-TATTTCGGTAATTTCA
49747720 TAATCGAGGG
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
26 4 0.10
27 35 0.90
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.39
Consensus pattern (26 bp):
AGGGTATTTCGGTAATTTCACAAACC
Found at i:49747755 original size:27 final size:27
Alignment explanation
Indices: 49747721--49748070 Score: 405
Period size: 27 Copynumber: 12.9 Consensus size: 27
49747711 GTCATTTCAT
*
49747721 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTTTGTA
*
49747748 AATTGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTTTGTA
* *
49747775 AATTGAGGGTAAAATAGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTTTGTA
*
49747802 AATTGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTTTGTA
* * * *
49747829 AATCGAGGGTGAAACGATAATTTTATA
1 AATCGAGGGTAAAATGGTAATTTTGTA
* * *
49747856 AATCTG-GGGTAAAACGGTAATTCTATA
1 AATC-GAGGGTAAAATGGTAATTTTGTA
* * *
49747883 AATCAAGGGTAAAACGGTAATTTTATA
1 AATCGAGGGTAAAATGGTAATTTTGTA
* * * *
49747910 AATTGAGGATAAAATGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTTTGTA
*
49747937 AATCGAGGGTAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTTTGTA
* *
49747964 AATAGAGGGTAAAAAATGGTAATTCTGTA
1 AATCGAGGGT--AAAATGGTAATTTTGTA
* *
49747993 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTTTGTA
* *
49748020 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTTTGTA
* **
49748047 AATCGATGGTAAAACAGTAATTTT
1 AATCGAGGGTAAAATGGTAATTTT
49748071 ACAAATTGAG
Statistics
Matches: 289, Mismatches: 30, Indels: 8
0.88 0.09 0.02
Matches are distributed among these distances:
27 262 0.91
28 1 0.00
29 26 0.09
ACGTcount: A:0.40, C:0.06, G:0.23, T:0.31
Consensus pattern (27 bp):
AATCGAGGGTAAAATGGTAATTTTGTA
Found at i:49747757 original size:54 final size:54
Alignment explanation
Indices: 49747628--49748096 Score: 210
Period size: 54 Copynumber: 8.7 Consensus size: 54
49747618 AGGGGTATTT
* * * ***
49747628 TGGTAATTTTATAAATTGAGGG-TATTTCGGTAATTTCACAAACCAGTGGTATTT
1 TGGTAATTTTATAAATTGAGGGTTATTTCGGTAATTTCATAATCGAG-GGTAAAA
* * * *
49747682 TGGTAATTTTACAAACT-AGGGTTATTTCAGTCATTTCATAATCGAGGGTAAAA
1 TGGTAATTTTATAAATTGAGGGTTATTTCGGTAATTTCATAATCGAGGGTAAAA
* * * ** ** *
49747735 CGGTAATTTTGTAAATTGAGGGTAAAAT-GGTAATTTTGTAAATTGAGGGTAAAA
1 TGGTAATTTTATAAATTGAGGGTTATTTCGGTAATTTCAT-AATCGAGGGTAAAA
* * * ** ** *
49747789 TAGTAATTTTGTAAATTGAGGGTAAAAT-GGTAATTTTGTAAATCGAGGGTGAAA
1 TGGTAATTTTATAAATTGAGGGTTATTTCGGTAATTTCAT-AATCGAGGGTAAAA
* * *** *
49747843 CGATAATTTTATAAATCTG-GGG-TAAAACGGTAA-TTCTATAAATCAAGGGTAAAA
1 TGGTAATTTTATAAAT-TGAGGGTTATTTCGGTAATTTC-AT-AATCGAGGGTAAAA
* * * **
49747897 CGGTAATTTTATAAATTGAGGATAAAAT-GGTAA-TTCTATAAATCGAGGGTAAAA
1 TGGTAATTTTATAAATTGAGGGTTATTTCGGTAATTTC-AT-AATCGAGGGTAAAA
* * * * ** *
49747951 TGGTAATTCTGTAAATAGAGGGTAAAAAAT-GGTAA-TTCTGTAAATCGAGGGTAAAA
1 TGGTAATTTTATAAATTGAGGGT--TATTTCGGTAATTTC-AT-AATCGAGGGTAAAA
* * *** * *
49748007 TGGTAATTCTATAAATCGAGGG-TAAAACGGTAA-TTCTGTAAATCGATGGTAAAA
1 TGGTAATTTTATAAATTGAGGGTTATTTCGGTAATTTC-AT-AATCGAGGGTAAAA
** * * *
49748061 CAGTAATTTTACAAATTGAGGG-CATTTCAGTAATTT
1 TGGTAATTTTATAAATTGAGGGTTATTTCGGTAATTT
49748097 GGTAAACTAA
Statistics
Matches: 341, Mismatches: 62, Indels: 23
0.80 0.15 0.05
Matches are distributed among these distances:
53 38 0.11
54 246 0.72
55 7 0.02
56 50 0.15
ACGTcount: A:0.38, C:0.07, G:0.22, T:0.34
Consensus pattern (54 bp):
TGGTAATTTTATAAATTGAGGGTTATTTCGGTAATTTCATAATCGAGGGTAAAA
Found at i:49747821 original size:81 final size:81
Alignment explanation
Indices: 49747721--49748082 Score: 456
Period size: 81 Copynumber: 4.4 Consensus size: 81
49747711 GTCATTTCAT
* * *
49747721 AATCGAGGGTAAAACGGTAATTTTGTAAATTGAGGGTAAAATGGTAATTTTGTAAATTGAGGGTA
1 AATCGAGGGTAAAACGGTAATTTTGTAAATTGAGGGTAAAATGGTAATTCTATAAATCGAGGGTA
** *
49747786 AAATAGTAATTTTGTA
66 AAACGGTAATTCTGTA
* * * * * * *
49747802 AATTGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTGAAACGATAATTTTATAAATCTG-GGGT
1 AATCGAGGGTAAAACGGTAATTTTGTAAATTGAGGGTAAAATGGTAATTCTATAAATC-GAGGGT
*
49747866 AAAACGGTAATTCTATA
65 AAAACGGTAATTCTGTA
* * *
49747883 AATCAAGGGTAAAACGGTAATTTTATAAATTGAGGATAAAATGGTAATTCTATAAATCGAGGGTA
1 AATCGAGGGTAAAACGGTAATTTTGTAAATTGAGGGTAAAATGGTAATTCTATAAATCGAGGGTA
*
49747948 AAATGGTAATTCTGTA
66 AAACGGTAATTCTGTA
* * * *
49747964 AATAGAGGGTAAAAAATGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGG
1 AATCGAGGGT--AAAACGGTAATTTTGTAAATTGAGGGTAAAATGGTAATTCTATAAATCGAGGG
49748029 TAAAACGGTAATTCTGTA
64 TAAAACGGTAATTCTGTA
* * **
49748047 AATCGATGGTAAAACAGTAATTTTACAAATTGAGGG
1 AATCGAGGGTAAAACGGTAATTTTGTAAATTGAGGG
49748083 CATTTCAGTA
Statistics
Matches: 237, Mismatches: 40, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
80 1 0.00
81 162 0.68
82 1 0.00
83 73 0.31
ACGTcount: A:0.40, C:0.06, G:0.23, T:0.31
Consensus pattern (81 bp):
AATCGAGGGTAAAACGGTAATTTTGTAAATTGAGGGTAAAATGGTAATTCTATAAATCGAGGGTA
AAACGGTAATTCTGTA
Found at i:49752188 original size:25 final size:25
Alignment explanation
Indices: 49752127--49752190 Score: 119
Period size: 25 Copynumber: 2.6 Consensus size: 25
49752117 AGATTACATG
*
49752127 GCACTATGTGTACGAATAAGTAAGA
1 GCACTATGTGTGCGAATAAGTAAGA
49752152 GCACTATGTGTGCGAATAAGTAAGA
1 GCACTATGTGTGCGAATAAGTAAGA
49752177 GCACTATGTGTGCG
1 GCACTATGTGTGCG
49752191 GACTTTCAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.33, C:0.14, G:0.28, T:0.25
Consensus pattern (25 bp):
GCACTATGTGTGCGAATAAGTAAGA
Found at i:49760347 original size:29 final size:30
Alignment explanation
Indices: 49760306--49760384 Score: 74
Period size: 29 Copynumber: 2.7 Consensus size: 30
49760296 GCCTAATCTT
* * * *
49760306 ATTCAAATGGCCCATTTA-GCCCAGTTCAT
1 ATTCATATAGCCCATTTAGGCCCAATTCAC
* *
49760335 ATTCCTATAGCCCA-CTAGGCCCAATTCAC
1 ATTCATATAGCCCATTTAGGCCCAATTCAC
*
49760364 ATTCATATGGCCCA-TTAGGCC
1 ATTCATATAGCCCATTTAGGCC
49760385 TAAATCATAT
Statistics
Matches: 40, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
28 2 0.05
29 38 0.95
ACGTcount: A:0.27, C:0.32, G:0.14, T:0.28
Consensus pattern (30 bp):
ATTCATATAGCCCATTTAGGCCCAATTCAC
Found at i:49760393 original size:58 final size:57
Alignment explanation
Indices: 49760287--49760395 Score: 130
Period size: 58 Copynumber: 1.9 Consensus size: 57
49760277 CATGCATATG
* ** **
49760287 GCCCACTAGGCCTAATCTTATTCAAATGGCCCATTTAGCCCAGTTCATATTCCTATA
1 GCCCACTAGGCCCAATCACATTCAAATGGCCCATTTAGCCCAAATCATATTCCTATA
* *
49760344 GCCCACTAGGCCCAATTCACATTCATATGGCCCA-TTAGGCCTAAATCATATT
1 GCCCACTAGGCCCAA-TCACATTCAAATGGCCCATTTA-GCCCAAATCATATT
49760396 ATATTCATGC
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
57 17 0.40
58 26 0.60
ACGTcount: A:0.28, C:0.30, G:0.13, T:0.29
Consensus pattern (57 bp):
GCCCACTAGGCCCAATCACATTCAAATGGCCCATTTAGCCCAAATCATATTCCTATA
Found at i:49760644 original size:16 final size:16
Alignment explanation
Indices: 49760619--49760653 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
49760609 ACTTTTGGCA
49760619 TTTCGACATTTCAGCT
1 TTTCGACATTTCAGCT
* *
49760635 TTTCGGCATTTCGGCT
1 TTTCGACATTTCAGCT
49760651 TTT
1 TTT
49760654 GCCGATTCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.11, C:0.23, G:0.17, T:0.49
Consensus pattern (16 bp):
TTTCGACATTTCAGCT
Found at i:49763442 original size:18 final size:18
Alignment explanation
Indices: 49763416--49763451 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
49763406 TAAATCGTAA
*
49763416 TTTCGCTACAGTTTTCAG
1 TTTCGCTACAATTTTCAG
*
49763434 TTTCTCTACAATTTTCAG
1 TTTCGCTACAATTTTCAG
49763452 AATACACTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.19, C:0.22, G:0.11, T:0.47
Consensus pattern (18 bp):
TTTCGCTACAATTTTCAG
Found at i:49764323 original size:34 final size:34
Alignment explanation
Indices: 49764271--49764337 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 34
49764261 CACAGTTGAA
* *
49764271 CAGTATTGGGCCTAAGCCCTTTTCAGTATCAGTGG
1 CAGTATTGGGCCTAAGCCCATCTCAGTAT-AGTGG
*
49764306 CAGT-TTGGGCCTTAGCCCATCTCAGTATAGTG
1 CAGTATTGGGCCTAAGCCCATCTCAGTATAGTG
49764338 TCAAAAATGC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 4 0.14
34 21 0.72
35 4 0.14
ACGTcount: A:0.19, C:0.24, G:0.25, T:0.31
Consensus pattern (34 bp):
CAGTATTGGGCCTAAGCCCATCTCAGTATAGTGG
Found at i:49767412 original size:72 final size:72
Alignment explanation
Indices: 49767232--49767438 Score: 211
Period size: 71 Copynumber: 2.9 Consensus size: 72
49767222 AGTAAATTCG
* * *
49767232 TTTATTTAATTATGTGTTTTTAAAAAGTTTAATTTAGTTCAATTTATTAAATTTTGATATTAAGC
1 TTTATTCAATTATGAGTTTTTAAAAAGCTTAATTTAGTTCAATTTATTAAATTTTGATATTAAGC
* * *
49767297 GAAACCG
66 AAAAACA
* * ** * ** *
49767304 TTTATTTAGTTAT-ACATTTTCAAAAGCTTAATTTAGTTTGATTTATTGAAATTTT-ATCTTAAG
1 TTTATTCAATTATGAGTTTTTAAAAAGCTTAATTTAGTTCAATTTATT-AAATTTTGATATTAAG
*
49767367 TAAAAACA
65 CAAAAACA
* * * * *
49767375 TTTGTTCAATTATGAGTTTTTAAAAAGGTTAATTTAGTTCAACTTATTGAGTTTTGATATTAAG
1 TTTATTCAATTATGAGTTTTTAAAAAGCTTAATTTAGTTCAATTTATTAAATTTTGATATTAAG
49767439 TGGAACCATT
Statistics
Matches: 106, Mismatches: 26, Indels: 6
0.77 0.19 0.04
Matches are distributed among these distances:
71 53 0.50
72 53 0.50
ACGTcount: A:0.34, C:0.06, G:0.12, T:0.48
Consensus pattern (72 bp):
TTTATTCAATTATGAGTTTTTAAAAAGCTTAATTTAGTTCAATTTATTAAATTTTGATATTAAGC
AAAAACA
Found at i:49767449 original size:72 final size:72
Alignment explanation
Indices: 49767232--49767453 Score: 232
Period size: 72 Copynumber: 3.1 Consensus size: 72
49767222 AGTAAATTCG
* * * * *
49767232 TTTATTTAATTATGTGTTTTTAAAAAGTTTAATTTAGTTCAATTTATTAAATTTTGATATTAAGC
1 TTTATTCAATTATGAGTTTTTAAAAAGCTTAATTTAGTTCAATTTATTGAATTTTGATATTAAGT
*
49767297 GAAACCG
66 GAAACCA
* * ** * ** *
49767304 TTTATTTAGTTAT-ACATTTTCAAAAGCTTAATTTAGTTTGATTTATTGAAATTTT-ATCTTAAG
1 TTTATTCAATTATGAGTTTTTAAAAAGCTTAATTTAGTTCAATTTATTG-AATTTTGATATTAAG
* *
49767367 TAAAAACA
65 TGAAACCA
* * * *
49767375 TTTGTTCAATTATGAGTTTTTAAAAAGGTTAATTTAGTTCAACTTATTGAGTTTTGATATTAAGT
1 TTTATTCAATTATGAGTTTTTAAAAAGCTTAATTTAGTTCAATTTATTGAATTTTGATATTAAGT
*
49767440 GGAACCA
66 GAAACCA
49767447 TTTATTC
1 TTTATTC
49767454 TGTTATACAA
Statistics
Matches: 117, Mismatches: 30, Indels: 6
0.76 0.20 0.04
Matches are distributed among these distances:
71 53 0.45
72 64 0.55
ACGTcount: A:0.34, C:0.07, G:0.12, T:0.48
Consensus pattern (72 bp):
TTTATTCAATTATGAGTTTTTAAAAAGCTTAATTTAGTTCAATTTATTGAATTTTGATATTAAGT
GAAACCA
Found at i:49768366 original size:14 final size:14
Alignment explanation
Indices: 49768351--49768384 Score: 52
Period size: 13 Copynumber: 2.4 Consensus size: 14
49768341 AAGAGTATAA
49768351 TTAAAGGGTTAAAAT
1 TTAAA-GGTTAAAAT
49768366 TTAAA-GTTAAAAT
1 TTAAAGGTTAAAAT
49768379 TTAAAG
1 TTAAAG
49768385 ATGATAATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 13 0.72
15 5 0.28
ACGTcount: A:0.50, C:0.00, G:0.15, T:0.35
Consensus pattern (14 bp):
TTAAAGGTTAAAAT
Found at i:49768374 original size:13 final size:13
Alignment explanation
Indices: 49768358--49768384 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
49768348 TAATTAAAGG
49768358 GTTAAAATTTAAA
1 GTTAAAATTTAAA
49768371 GTTAAAATTTAAA
1 GTTAAAATTTAAA
49768384 G
1 G
49768385 ATGATAATCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.11, T:0.37
Consensus pattern (13 bp):
GTTAAAATTTAAA
Found at i:49768452 original size:9 final size:9
Alignment explanation
Indices: 49768437--49768574 Score: 104
Period size: 9 Copynumber: 15.6 Consensus size: 9
49768427 AACTTTGGAT
49768437 CATAACTTA
1 CATAACTTA
*
49768446 AATAACTTA
1 CATAACTTA
49768455 CATAACTTA
1 CATAACTTA
49768464 CATAA--TA
1 CATAACTTA
*
49768471 CATAA-ATA
1 CATAACTTA
* * *
49768479 TATATCATA
1 CATAACTTA
*
49768488 TCATAAATTA
1 -CATAACTTA
49768498 CATAACTTA
1 CATAACTTA
49768507 CATAACTTA
1 CATAACTTA
*
49768516 CATTACTTA
1 CATAACTTA
*
49768525 CATAA-ATA
1 CATAACTTA
* * *
49768533 TATATCATA
1 CATAACTTA
49768542 TCATAACTTA
1 -CATAACTTA
*
49768552 CAGAACTTA
1 CATAACTTA
*
49768561 CAGAACTTA
1 CATAACTTA
*
49768570 AATAA
1 CATAA
49768575 ACTTTGGATC
Statistics
Matches: 104, Mismatches: 20, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
7 7 0.07
8 10 0.10
9 76 0.73
10 11 0.11
ACGTcount: A:0.49, C:0.17, G:0.01, T:0.33
Consensus pattern (9 bp):
CATAACTTA
Found at i:49768553 original size:54 final size:52
Alignment explanation
Indices: 49768435--49768574 Score: 208
Period size: 54 Copynumber: 2.7 Consensus size: 52
49768425 AAAACTTTGG
*
49768435 ATCATAACTTAAATAACTTACATAACTTACATAATACATAAATATATATCAT
1 ATCATAACTTACATAACTTACATAACTTACATAATACATAAATATATATCAT
* *
49768487 ATCATAAATTACATAACTTACATAACTTACATTACTTACATAAATATATATCAT
1 ATCATAACTTACATAACTTACATAACTTACA-TA-ATACATAAATATATATCAT
* * *
49768541 ATCATAACTTACAGAACTTACAGAACTTAAATAA
1 ATCATAACTTACATAACTTACATAACTTACATAA
49768575 ACTTTGGATC
Statistics
Matches: 78, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
52 29 0.37
53 4 0.05
54 45 0.58
ACGTcount: A:0.49, C:0.16, G:0.01, T:0.34
Consensus pattern (52 bp):
ATCATAACTTACATAACTTACATAACTTACATAATACATAAATATATATCAT
Found at i:49772457 original size:30 final size:30
Alignment explanation
Indices: 49772423--49772483 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
49772413 TCCTTAACTC
49772423 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
49772453 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
49772483 A
1 A
49772484 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:49773519 original size:27 final size:27
Alignment explanation
Indices: 49773489--49773688 Score: 249
Period size: 27 Copynumber: 7.4 Consensus size: 27
49773479 ATTACTGAAA
* ** *
49773489 TACCCTCAATTTGTAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
49773516 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
49773543 CACCCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
49773570 TACCCTCAATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTT
49773597 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
49773624 TACCCTCGATTTACAAAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
49773651 TACCC-CCACTTTACAAAATTACCGTTT
1 TACCCTCGA-TTTACAGAATTACCGTTT
49773678 TACCCTCGATT
1 TACCCTCGATT
49773689 GTGAAATTAC
Statistics
Matches: 150, Mismatches: 21, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
26 2 0.01
27 146 0.97
28 2 0.01
ACGTcount: A:0.29, C:0.26, G:0.07, T:0.38
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCGTTT
Found at i:49773606 original size:81 final size:81
Alignment explanation
Indices: 49773489--49773688 Score: 310
Period size: 81 Copynumber: 2.5 Consensus size: 81
49773479 ATTACTGAAA
* * *
49773489 TACCCTCAATTTGTAGAATTACCATTTTACCCTCGATTTATAGAATTACTGTTTCACCCTCGATT
1 TACCCTCAATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCGATT
*
49773554 TACAAAATTACCGTTT
66 TACAAAATTACCATTT
*
49773570 TACCCTCAATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATT
1 TACCCTCAATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCGATT
49773635 TACAAAATTACCATTT
66 TACAAAATTACCATTT
* * * * *
49773651 TACCCCCACTTTACAAAATTACCGTTTTACCCTCGATT
1 TACCCTCAATTTATAGAATTACCATTTTACCCTCGATT
49773689 GTGAAATTAC
Statistics
Matches: 109, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
81 109 1.00
ACGTcount: A:0.29, C:0.26, G:0.07, T:0.38
Consensus pattern (81 bp):
TACCCTCAATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCGATT
TACAAAATTACCATTT
Found at i:49773722 original size:27 final size:27
Alignment explanation
Indices: 49773687--49773869 Score: 212
Period size: 27 Copynumber: 6.8 Consensus size: 27
49773677 TTACCCTCGA
*
49773687 TTGTGAAATTACTAAAATACCCCTAGT
1 TTGTAAAATTACTAAAATACCCCTAGT
49773714 TTGTAAAATTA-TCAAAATA-CCCTAGT
1 TTGTAAAATTACT-AAAATACCCCTAGT
* *
49773740 TTGTAAAATTACCAAAATACCCCTACT
1 TTGTAAAATTACTAAAATACCCCTAGT
*
49773767 TTGTAAAATTACTAAAATACCACTAGT
1 TTGTAAAATTACTAAAATACCCCTAGT
** * *
49773794 TTGTAAAATTACCGAAATACCCTTAAT
1 TTGTAAAATTACTAAAATACCCCTAGT
*
49773821 TTGTAAAATTACCAAAATACCCCT-GAT
1 TTGTAAAATTACTAAAATACCCCTAG-T
**
49773848 TTACAAAATTA-TAGAAATACCC
1 TTGTAAAATTACTA-AAATACCC
49773870 TTGACTTTCT
Statistics
Matches: 134, Mismatches: 17, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
26 26 0.19
27 108 0.81
ACGTcount: A:0.42, C:0.19, G:0.07, T:0.32
Consensus pattern (27 bp):
TTGTAAAATTACTAAAATACCCCTAGT
Found at i:49773722 original size:53 final size:53
Alignment explanation
Indices: 49773678--49773842 Score: 222
Period size: 53 Copynumber: 3.1 Consensus size: 53
49773668 ATTACCGTTT
* * * * *
49773678 TACCCTCGATTGTGAAATTACTAAAATACCCCTAGTTTGTAAAATTATCAAAA
1 TACCCTAGATTGTAAAATTACCAAAATACCCCTACTTTGTAAAATTACCAAAA
* *
49773731 TACCCTAGTTTGTAAAATTACCAAAATACCCCTACTTTGTAAAATTACTAAAA
1 TACCCTAGATTGTAAAATTACCAAAATACCCCTACTTTGTAAAATTACCAAAA
* * * *
49773784 TACCACTAGTTTGTAAAATTACCGAAATACCCTTAATTTGTAAAATTACCAAAA
1 TACC-CTAGATTGTAAAATTACCAAAATACCCCTACTTTGTAAAATTACCAAAA
49773838 TACCC
1 TACCC
49773843 CTGATTTACA
Statistics
Matches: 100, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
53 51 0.51
54 49 0.49
ACGTcount: A:0.41, C:0.21, G:0.07, T:0.32
Consensus pattern (53 bp):
TACCCTAGATTGTAAAATTACCAAAATACCCCTACTTTGTAAAATTACCAAAA
Found at i:49773776 original size:80 final size:81
Alignment explanation
Indices: 49773687--49773869 Score: 264
Period size: 80 Copynumber: 2.3 Consensus size: 81
49773677 TTACCCTCGA
* * *
49773687 TTGTGAAATTACTAAAATACCCCTAGTTTGTAAAATTATCAAAATACCC-TAGTTTGTAAAATTA
1 TTGTAAAATTACTAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTAATTTGTAAAATTA
49773751 CCAAAATACCCCT-ACT
66 CCAAAATACCCCTGA-T
* *
49773767 TTGTAAAATTACTAAAATACCACTAGTTTGTAAAATTACCGAAATACCCTTAATTTGTAAAATTA
1 TTGTAAAATTACTAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTAATTTGTAAAATTA
49773832 CCAAAATACCCCTGAT
66 CCAAAATACCCCTGAT
**
49773848 TTACAAAATTA-TAGAAATACCC
1 TTGTAAAATTACTA-AAATACCC
49773870 TTGACTTTCT
Statistics
Matches: 92, Mismatches: 8, Indels: 5
0.88 0.08 0.05
Matches are distributed among these distances:
80 47 0.51
81 44 0.48
82 1 0.01
ACGTcount: A:0.42, C:0.19, G:0.07, T:0.32
Consensus pattern (81 bp):
TTGTAAAATTACTAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTAATTTGTAAAATTA
CCAAAATACCCCTGAT
Found at i:49773920 original size:27 final size:27
Alignment explanation
Indices: 49773771--49773932 Score: 107
Period size: 27 Copynumber: 5.9 Consensus size: 27
49773761 CCTACTTTGT
* * **
49773771 AAAATTACTAAAATACCAC-TAGTTTGT
1 AAAATTACTGAAATACC-CTTGGTTTAC
* ** **
49773798 AAAATTACCGAAATACCCTTAATTTGT
1 AAAATTACTGAAATACCCTTGGTTTAC
** * *
49773825 AAAATTACCAAAATACCCCTGATTTAC
1 AAAATTACTGAAATACCCTTGGTTTAC
*
49773852 AAAATTA-TAGAAATACCCTTGACTTT-C
1 AAAATTACT-GAAATACCCTTG-GTTTAC
*
49773879 TAAAAATTA-TAGAAATACCATTGGTTTAC
1 --AAAATTACT-GAAATACCCTTGGTTTAC
49773908 AAAATTACTGAAATACCCTTGGTTT
1 AAAATTACTGAAATACCCTTGGTTT
49773933 GTAGATTTAC
Statistics
Matches: 113, Mismatches: 15, Indels: 14
0.80 0.11 0.10
Matches are distributed among these distances:
26 1 0.01
27 84 0.74
28 7 0.06
29 21 0.19
ACGTcount: A:0.42, C:0.17, G:0.08, T:0.33
Consensus pattern (27 bp):
AAAATTACTGAAATACCCTTGGTTTAC
Found at i:49773928 original size:56 final size:54
Alignment explanation
Indices: 49773692--49773927 Score: 226
Period size: 54 Copynumber: 4.4 Consensus size: 54
49773682 CTCGATTGTG
** * * * **
49773692 AAATTACTAAAATACCCCTAGTTTGTAAAATTA-TCAAAATACC-CTAGTTTGTA
1 AAATTACCGAAATACCCTTACTTTGTAAAATTACT-AAAATACCACTGGTTTACA
* * * **
49773745 AAATTACCAAAATACCCCTACTTTGTAAAATTACTAAAATACCACTAGTTTGTA
1 AAATTACCGAAATACCCTTACTTTGTAAAATTACTAAAATACCACTGGTTTACA
* * * *
49773799 AAATTACCGAAATACCCTTAATTTGTAAAATTACCAAAATACCCCTGATTTACA
1 AAATTACCGAAATACCCTTACTTTGTAAAATTACTAAAATACCACTGGTTTACA
** * *
49773853 AAATTATAGAAATACCCTTGACTTTCTAAAAATTA-TAGAAATACCATTGGTTTACA
1 AAATTACCGAAATACCCTT-ACTTTGT-AAAATTACTA-AAATACCACTGGTTTACA
*
49773909 AAATTACTGAAATACCCTT
1 AAATTACCGAAATACCCTT
49773928 GGTTTGTAGA
Statistics
Matches: 157, Mismatches: 21, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
53 39 0.25
54 73 0.46
55 6 0.04
56 39 0.25
ACGTcount: A:0.42, C:0.19, G:0.07, T:0.32
Consensus pattern (54 bp):
AAATTACCGAAATACCCTTACTTTGTAAAATTACTAAAATACCACTGGTTTACA
Found at i:49774016 original size:27 final size:27
Alignment explanation
Indices: 49773973--49774046 Score: 71
Period size: 27 Copynumber: 2.7 Consensus size: 27
49773963 AAATGACTAA
*
49773973 AATACCCCTAATA-GGTAAAAAGACCGT
1 AATACCCCT-GTAGGGTAAAAAGACCGT
**
49774000 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTAGGGTAAAAAGACCGT
* *
49774027 AATACCCTTGTATGGTAAAA
1 AATACCCCTGTAGGGTAAAA
49774047 TGATGAATAT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
26 3 0.08
27 34 0.89
28 1 0.03
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAAAAAGACCGT
Found at i:49775741 original size:68 final size:64
Alignment explanation
Indices: 49775622--49775883 Score: 221
Period size: 68 Copynumber: 4.0 Consensus size: 64
49775612 GATTGGATGA
** * * *
49775622 TACA-GATAGTATGTAGCTAGGTCACATGTATGGTGCTAAGTGCACATCATGT-GTACAAGAGAG
1 TACAGGATA-TATGTAGCTAGGTCACATGGGTGGTACTATGTGCACACCATGTAG-ACAAGAGAG
49775685 C
64 C
* *
49775686 TACAAGGCATTATGATGTAGCTAGGTCACATGGGTGATACTATGTGTACACCATGTAGACAAGAG
1 TAC-AGG-A-TAT-ATGTAGCTAGGTCACATGGGTGGTACTATGTGCACACCATGTAGACAAGAG
49775751 AGC
62 AGC
* * * * *
49775754 TACAGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGCACACCATGTAGACAAGAGA
1 TACAGGATATATGTAGCTAGGTCACATGGGTGGTACTA--TG-TGCACACCATGTAGACAAGAGA
49775819 GC
63 GC
* * * **
49775821 TA-TGAGATAAAT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGA
1 TACAG-GATATATGTAGCTAGGTCACATGGGTGGTACT-ATGTGCACACCATGTAG-ACAAGAGA
49775882 GC
63 GC
49775884 CGAACTATAT
Statistics
Matches: 162, Mismatches: 24, Indels: 25
0.77 0.11 0.12
Matches are distributed among these distances:
62 1 0.01
63 19 0.12
64 27 0.17
65 4 0.02
66 24 0.15
67 36 0.22
68 50 0.31
69 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.28, T:0.25
Consensus pattern (64 bp):
TACAGGATATATGTAGCTAGGTCACATGGGTGGTACTATGTGCACACCATGTAGACAAGAGAGC
Found at i:49778691 original size:42 final size:42
Alignment explanation
Indices: 49778632--49778766 Score: 252
Period size: 42 Copynumber: 3.2 Consensus size: 42
49778622 TAGTCTCCCC
*
49778632 AAATGGGCTTGCATACATTCATTGACATTATATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
49778674 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
*
49778716 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
49778758 AAATGGGCT
1 AAATGGGCT
49778767 AAGGGCCATA
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 91 1.00
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
Found at i:49778823 original size:31 final size:31
Alignment explanation
Indices: 49778788--49778894 Score: 169
Period size: 31 Copynumber: 3.5 Consensus size: 31
49778778 CATTTACAGT
49778788 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
* * *
49778819 AAAGGCTTCGGCCTAGTGATCTGATTTATAA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
* *
49778850 AAAGGCTTCAGCCCAGTGATATGATTTATGG
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
49778881 AAAGGCTTCGGCCC
1 AAAGGCTTCGGCCC
49778895 TGTATTTGTC
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 67 1.00
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:49781641 original size:24 final size:24
Alignment explanation
Indices: 49781614--49781659 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
49781604 TATCGAGTGT
*
49781614 ATCATGGAGAGATATTA-GGAGAAA
1 ATCAAGGAGAGAT-TTATGGAGAAA
*
49781638 ATCAAGGAGTGATTTATGGAGA
1 ATCAAGGAGAGATTTATGGAGA
49781660 GATTTAAGGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 3 0.16
24 16 0.84
ACGTcount: A:0.41, C:0.04, G:0.30, T:0.24
Consensus pattern (24 bp):
ATCAAGGAGAGATTTATGGAGAAA
Found at i:49796116 original size:27 final size:26
Alignment explanation
Indices: 49796083--49796151 Score: 93
Period size: 27 Copynumber: 2.6 Consensus size: 26
49796073 GCCAAACTAT
*
49796083 TTAAATTACCGAAATACCCCTAATTTG
1 TTAAATTACCGAAATACCCC-AACTTG
* *
49796110 TTAAATTACCAAAATACCCCCACTTG
1 TTAAATTACCGAAATACCCCAACTTG
*
49796136 TAAAATTACCGAAATA
1 TTAAATTACCGAAATA
49796152 ACCTTGTAGT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
26 18 0.49
27 19 0.51
ACGTcount: A:0.42, C:0.23, G:0.06, T:0.29
Consensus pattern (26 bp):
TTAAATTACCGAAATACCCCAACTTG
Done.