Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr11
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: 61124829
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1263459 characters in sequence are not A, C, G, or T
File 165 of 205
Found at i:49130894 original size:41 final size:40
Alignment explanation
Indices: 49130838--49130922 Score: 109
Period size: 41 Copynumber: 2.1 Consensus size: 40
49130828 AAATCAAAAT
*
49130838 AAAATTTAAAATTT-AAAATTTAAAATATTTATAAAAATTCT
1 AAAATTTAAAATTTAAAAATATAAAA-ATTTA-AAAAATTCT
* *
49130879 AAAATTTATATTTTAAAAAATATAAAAATTTAAAAAATTCT
1 AAAATTTAAAATTT-AAAAATATAAAAATTTAAAAAATTCT
49130920 AAA
1 AAA
49130923 GAATATATAT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
41 24 0.62
42 5 0.13
43 10 0.26
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (40 bp):
AAAATTTAAAATTTAAAAATATAAAAATTTAAAAAATTCT
Found at i:49130904 original size:23 final size:25
Alignment explanation
Indices: 49130862--49130910 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
49130852 AAAATTTAAA
* *
49130862 ATATTTATAAAAATTCT-AAAATTT
1 ATATTTATAAAAAATATAAAAATTT
49130886 ATATTT-TAAAAAATATAAAAATTT
1 ATATTTATAAAAAATATAAAAATTT
49130910 A
1 A
49130911 AAAAATTCTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 8 0.36
24 14 0.64
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (25 bp):
ATATTTATAAAAAATATAAAAATTT
Found at i:49130913 original size:7 final size:7
Alignment explanation
Indices: 49130837--49130863 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
49130827 AAAATCAAAA
49130837 TAAAATT
1 TAAAATT
49130844 TAAAATT
1 TAAAATT
49130851 TAAAATT
1 TAAAATT
49130858 TAAAAT
1 TAAAAT
49130864 ATTTATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (7 bp):
TAAAATT
Found at i:49130930 original size:41 final size:40
Alignment explanation
Indices: 49130852--49130953 Score: 116
Period size: 41 Copynumber: 2.5 Consensus size: 40
49130842 TTTAAAATTT
* * * *
49130852 AAAATTTAAAATATTTATAAAAATTCTAAAATTTATATTTTA
1 AAAAATTAAAA-ATTTA-AAAAATTCTAAAATATATATATAA
49130894 AAAAATATAAAAATTTAAAAAATTCTAAAGA-ATATATATAA
1 AAAAAT-TAAAAATTTAAAAAATTCTAAA-ATATATATATAA
*
49130935 AAAAATTAAAAAGTTAAAA
1 AAAAATTAAAAATTTAAAA
49130954 TTTTAAAAAT
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
40 12 0.23
41 25 0.47
42 11 0.21
43 5 0.09
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (40 bp):
AAAAATTAAAAATTTAAAAAATTCTAAAATATATATATAA
Found at i:49140862 original size:9 final size:9
Alignment explanation
Indices: 49140833--49140861 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
49140823 GGGGGGGGAA
49140833 TTTATTTAT
1 TTTATTTAT
49140842 TTTATTTAT
1 TTTATTTAT
49140851 TTTATTT-T
1 TTTATTTAT
49140859 TTT
1 TTT
49140862 TTCATTCTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 4 0.20
9 16 0.80
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (9 bp):
TTTATTTAT
Found at i:49145352 original size:20 final size:20
Alignment explanation
Indices: 49145327--49145366 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
49145317 TTCACCTCAT
*
49145327 GCATCGTATCATATGCATTA
1 GCATCGCATCATATGCATTA
49145347 GCATCGCATCATATGCATTA
1 GCATCGCATCATATGCATTA
49145367 AAGACCTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.33
Consensus pattern (20 bp):
GCATCGCATCATATGCATTA
Found at i:49153303 original size:50 final size:49
Alignment explanation
Indices: 49153246--49153503 Score: 150
Period size: 50 Copynumber: 5.2 Consensus size: 49
49153236 GCAGTGGAAC
*
49153246 AGATTGAAGCTACGACAGTGGATCTAGTTTCCCTGATATTGCAATTAAAA
1 AGATTGAAGCTACGAC-GCGGATCTAGTTTCCCTGATATTGCAATTAAAA
* * * * * * * *
49153296 AGATTGAAGCCACAACGGCGGATCTTA-CTT-CCTTAGCAGTGC-AGTAGAAC
1 AGATTGAAGCTACGAC-GCGGATC-TAGTTTCCCTGA-TATTGCAATTA-AAA
* *
49153346 AGATTGAAGCTACGACGACGAATCTGGTTTCCCTGATATTGCAATTAAAA
1 AGATTGAAGCTACGACG-CGGATCTAGTTTCCCTGATATTGCAATTAAAA
* * * * *** ** *
49153396 AGATTGAAGCCACAACGGCAGATCTTA-CTTCCCTGACGGTGC-GGTAGAAC
1 AGATTGAAGCTACGAC-GCGGATC-TAGTTTCCCTGATATTGCAATTA-AAA
* * * *
49153446 AGATTGAAGCTACGACGGCGGATCTGGTTTCCCCGACATTGCAGTTAAACA
1 AGATTGAAGCTACGAC-GCGGATCTAGTTTCCCTGATATTGCAATTAAA-A
49153497 A-ATTGAA
1 AGATTGAA
49153504 AATTTCAGCT
Statistics
Matches: 153, Mismatches: 42, Indels: 26
0.69 0.19 0.12
Matches are distributed among these distances:
49 12 0.08
50 126 0.82
51 15 0.10
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.25
Consensus pattern (49 bp):
AGATTGAAGCTACGACGCGGATCTAGTTTCCCTGATATTGCAATTAAAA
Found at i:49153409 original size:100 final size:100
Alignment explanation
Indices: 49153236--49153503 Score: 380
Period size: 100 Copynumber: 2.7 Consensus size: 100
49153226 TCCCTGAGCA
* * *
49153236 GCAGTGGAACAGATTGAAGCTACGAC-AGTGGATCTAGTTTCCCTGATATTGCAATTAAAAAGAT
1 GCAGTAGAACAGATTGAAGCTACGACGA-CGGATCTGGTTTCCCTGATATTGCAATTAAAAAGAT
* *
49153300 TGAAGCCACAACGGCGGATCTTACTT-CCTTAGCAGT
65 TGAAGCCACAACGGCAGATCTTACTTCCCTGA-CAGT
*
49153336 GCAGTAGAACAGATTGAAGCTACGACGACGAATCTGGTTTCCCTGATATTGCAATTAAAAAGATT
1 GCAGTAGAACAGATTGAAGCTACGACGACGGATCTGGTTTCCCTGATATTGCAATTAAAAAGATT
*
49153401 GAAGCCACAACGGCAGATCTTACTTCCCTGACGGT
66 GAAGCCACAACGGCAGATCTTACTTCCCTGACAGT
* * * * *
49153436 GCGGTAGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCCGACATTGCAGTTAAACAA-AT
1 GCAGTAGAACAGATTGAAGCTACGACGACGGATCTGGTTTCCCTGATATTGCAATTAAA-AAGAT
49153500 TGAA
65 TGAA
49153504 AATTTCAGCT
Statistics
Matches: 152, Mismatches: 13, Indels: 6
0.89 0.08 0.04
Matches are distributed among these distances:
100 145 0.95
101 7 0.05
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.24
Consensus pattern (100 bp):
GCAGTAGAACAGATTGAAGCTACGACGACGGATCTGGTTTCCCTGATATTGCAATTAAAAAGATT
GAAGCCACAACGGCAGATCTTACTTCCCTGACAGT
Found at i:49153692 original size:44 final size:45
Alignment explanation
Indices: 49153629--49153726 Score: 135
Period size: 44 Copynumber: 2.2 Consensus size: 45
49153619 CAGTGGAATC
* ** *
49153629 GATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTA
1 GATCGAAGAAAACAGATCTTGTCTTCACATACTGGTCGTGAAGTA
* *
49153673 GATCGAAGAAAACAGATCTTGTCTTCCCATACTGGTGGTGAAGTA
1 GATCGAAGAAAACAGATCTTGTCTTCACATACTGGTCGTGAAGTA
49153718 GATCGAAGA
1 GATCGAAGA
49153727 TACAAGTCTT
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
44 30 0.64
45 17 0.36
ACGTcount: A:0.32, C:0.15, G:0.27, T:0.27
Consensus pattern (45 bp):
GATCGAAGAAAACAGATCTTGTCTTCACATACTGGTCGTGAAGTA
Found at i:49165562 original size:36 final size:37
Alignment explanation
Indices: 49165521--49165594 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
49165511 ATAAAGTTTA
49165521 ATATTTTAAAAT-AAAAAAATGGATAGAGTTTATATT
1 ATATTTTAAAATAAAAAAAATGGATAGAGTTTATATT
49165557 ATATTTTAAAATAAAAAAAATGGATAGAGTTTATATT
1 ATATTTTAAAATAAAAAAAATGGATAGAGTTTATATT
49165594 A
1 A
49165595 ACTAAATTTG
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
36 12 0.32
37 25 0.68
ACGTcount: A:0.51, C:0.00, G:0.11, T:0.38
Consensus pattern (37 bp):
ATATTTTAAAATAAAAAAAATGGATAGAGTTTATATT
Found at i:49167219 original size:21 final size:22
Alignment explanation
Indices: 49167193--49167234 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
49167183 CTTTTTATAA
49167193 TTTTT-AAT-ATTTTTATTTTGG
1 TTTTTAAATAATTTTT-TTTTGG
49167214 TTTTTAAATAATTTTTTTTTG
1 TTTTTAAATAATTTTTTTTTG
49167235 ATTTGAACCA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.26
22 8 0.42
23 6 0.32
ACGTcount: A:0.21, C:0.00, G:0.07, T:0.71
Consensus pattern (22 bp):
TTTTTAAATAATTTTTTTTTGG
Found at i:49167797 original size:29 final size:30
Alignment explanation
Indices: 49167721--49167797 Score: 70
Period size: 29 Copynumber: 2.6 Consensus size: 30
49167711 TGAGGGACTA
* ** *
49167721 AAATTTTTAAATAAAAAAATATCGAGATTC
1 AAATTTTAAAATTTAAAAATATAGAGATTC
* *
49167751 AATATCTCAAAA-TT-AAAATATAGAGA-TC
1 AA-ATTTTAAAATTTAAAAATATAGAGATTC
49167779 AAATTTTAAAATTTAAAAA
1 AAATTTTAAAATTTAAAAA
49167798 ATTATAAACC
Statistics
Matches: 36, Mismatches: 8, Indels: 7
0.71 0.16 0.14
Matches are distributed among these distances:
27 7 0.19
28 6 0.17
29 15 0.42
30 2 0.06
31 6 0.17
ACGTcount: A:0.56, C:0.06, G:0.05, T:0.32
Consensus pattern (30 bp):
AAATTTTAAAATTTAAAAATATAGAGATTC
Found at i:49173742 original size:9 final size:9
Alignment explanation
Indices: 49173728--49173752 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
49173718 AACCCAATTT
49173728 TTATTTTTA
1 TTATTTTTA
49173737 TTATTTTTA
1 TTATTTTTA
49173746 TTATTTT
1 TTATTTT
49173753 CTTTGTTTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (9 bp):
TTATTTTTA
Found at i:49173768 original size:21 final size:22
Alignment explanation
Indices: 49173742--49173795 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
49173732 TTTTATTATT
*
49173742 TTTATTATTTTCTTT-GTTTAC
1 TTTATTATTTACTTTAGTTTAC
* *
49173763 TTTATT-TATTACTTTATTTTAT
1 TTTATTAT-TTACTTTAGTTTAC
49173785 TTTATTATTTA
1 TTTATTATTTA
49173796 TTACTTATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
20 1 0.04
21 12 0.44
22 13 0.48
23 1 0.04
ACGTcount: A:0.20, C:0.06, G:0.02, T:0.72
Consensus pattern (22 bp):
TTTATTATTTACTTTAGTTTAC
Found at i:49173776 original size:12 final size:12
Alignment explanation
Indices: 49173759--49173805 Score: 53
Period size: 12 Copynumber: 3.9 Consensus size: 12
49173749 TTTTCTTTGT
49173759 TTACTTTATTTA
1 TTACTTTATTTA
49173771 TTACTTTATTTTA
1 TTACTTTA-TTTA
*
49173784 TT-TTATTATTTA
1 TTACT-TTATTTA
49173796 TTAC-TTATTT
1 TTACTTTATTT
49173806 GGATATTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
11 6 0.20
12 15 0.50
13 9 0.30
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.70
Consensus pattern (12 bp):
TTACTTTATTTA
Found at i:49173783 original size:17 final size:17
Alignment explanation
Indices: 49173726--49173797 Score: 67
Period size: 17 Copynumber: 4.1 Consensus size: 17
49173716 GCAACCCAAT
49173726 TTTTATTTTTATTATTT-
1 TTTTA-TTTTATTATTTA
* *
49173743 TTATTATTTTCTTTGTTTA
1 TT-TTATTTT-ATTATTTA
*
49173762 CTTTA-TTTATTACTTTA
1 TTTTATTTTATTA-TTTA
49173779 TTTTATTTTATTATTTA
1 TTTTATTTTATTATTTA
49173796 TT
1 TT
49173798 ACTTATTTGG
Statistics
Matches: 44, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
16 2 0.05
17 23 0.52
18 18 0.41
19 1 0.02
ACGTcount: A:0.19, C:0.04, G:0.01, T:0.75
Consensus pattern (17 bp):
TTTTATTTTATTATTTA
Found at i:49179145 original size:24 final size:24
Alignment explanation
Indices: 49179113--49179158 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
49179103 AGAAAAAGTT
*
49179113 TTCTTTTTTCCTTTTTTGATTGTG
1 TTCTTTTTTCCTTTTTCGATTGTG
*
49179137 TTCTTTTTTTCTTTTTCGATTG
1 TTCTTTTTTCCTTTTTCGATTG
49179159 CTCTTCCTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.04, C:0.13, G:0.11, T:0.72
Consensus pattern (24 bp):
TTCTTTTTTCCTTTTTCGATTGTG
Found at i:49185130 original size:2 final size:2
Alignment explanation
Indices: 49185110--49185176 Score: 111
Period size: 2 Copynumber: 34.5 Consensus size: 2
49185100 CACCCAACAT
*
49185110 GA GA GT GA GA G- GA -A GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
49185150 GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA G
49185177 GCATTGTAGT
Statistics
Matches: 61, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
1 2 0.03
2 59 0.97
ACGTcount: A:0.48, C:0.00, G:0.51, T:0.01
Consensus pattern (2 bp):
GA
Found at i:49185656 original size:3 final size:3
Alignment explanation
Indices: 49185650--49185693 Score: 70
Period size: 3 Copynumber: 14.7 Consensus size: 3
49185640 TGATTGTTGT
* *
49185650 TGC TGC TGC TGT TGC TGT TGC TGC TGC TGC TGC TGC TGC TGC TG
1 TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TG
49185694 TTGTTGTTGC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.00, C:0.27, G:0.34, T:0.39
Consensus pattern (3 bp):
TGC
Found at i:49185664 original size:12 final size:12
Alignment explanation
Indices: 49185647--49185704 Score: 71
Period size: 12 Copynumber: 4.8 Consensus size: 12
49185637 AGCTGATTGT
49185647 TGTTGCTGCTGC
1 TGTTGCTGCTGC
*
49185659 TGTTGCTGTTGC
1 TGTTGCTGCTGC
*
49185671 TGCTGCTGCTGC
1 TGTTGCTGCTGC
* *
49185683 TGCTGCTGCTGT
1 TGTTGCTGCTGC
*
49185695 TGTTGTTGCT
1 TGTTGCTGCT
49185705 TGGAAGCAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 40 1.00
ACGTcount: A:0.00, C:0.22, G:0.33, T:0.45
Consensus pattern (12 bp):
TGTTGCTGCTGC
Found at i:49185665 original size:6 final size:6
Alignment explanation
Indices: 49185647--49185704 Score: 53
Period size: 6 Copynumber: 9.2 Consensus size: 6
49185637 AGCTGATTGT
* * * *
49185647 TGTTGC TGCTGC TGTTGC TGTTGC TGCTGCTGC TGCTGC TGCTGC TGTTGT
1 TGTTGC TGTTGC TGTTGC TGTTGC TG-T--TGC TGTTGC TGTTGC TGTTGC
49185698 TGTTGC T
1 TGTTGC T
49185705 TGGAAGCAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
6 37 0.86
7 1 0.02
9 5 0.12
ACGTcount: A:0.00, C:0.22, G:0.33, T:0.45
Consensus pattern (6 bp):
TGTTGC
Found at i:49190849 original size:3 final size:3
Alignment explanation
Indices: 49190841--49190865 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
49190831 CTCCAATATT
49190841 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
49190866 AGCTTATTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:49192507 original size:58 final size:58
Alignment explanation
Indices: 49192417--49192527 Score: 163
Period size: 58 Copynumber: 1.9 Consensus size: 58
49192407 CCATTCCTGA
* *
49192417 AATCCCCACATCTGATTTGAAAATGAAACCCTAGCCTC-AATTCCTTCCTCTTCACTTT
1 AATCCCCACATCCGATTTGAAAATGAAACCCTAACC-CAAATTCCTTCCTCTTCACTTT
*
49192475 AATCCCCA-ATTCCGATTTGAAAATGAAACCCTAACCCAAATTCCTTCGTCTTC
1 AATCCCCACA-TCCGATTTGAAAATGAAACCCTAACCCAAATTCCTTCCTCTTC
49192528 CCTTCCCGAT
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
57 2 0.04
58 46 0.96
ACGTcount: A:0.30, C:0.32, G:0.07, T:0.31
Consensus pattern (58 bp):
AATCCCCACATCCGATTTGAAAATGAAACCCTAACCCAAATTCCTTCCTCTTCACTTT
Found at i:49194978 original size:3 final size:3
Alignment explanation
Indices: 49194972--49195009 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
49194962 ATTATTGAGT
*
49194972 TTA TTA TTA TTA TTA TTA TTA TCA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
49195010 TCTTCCTATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:49195037 original size:9 final size:10
Alignment explanation
Indices: 49194956--49195040 Score: 79
Period size: 9 Copynumber: 8.7 Consensus size: 10
49194946 TCCTATCATT
49194956 TTATTTATTA
1 TTATTTATTA
49194966 TTGAGTTTATTA
1 TT-A-TTTATTA
49194978 TTA-TTATTA
1 TTATTTATTA
*
49194987 TTA-TTATCA
1 TTATTTATTA
49194996 TTA-TTATTA
1 TTATTTATTA
* *
49195005 TTATTTCTTC
1 TTATTTATTA
* *
49195015 CTATTTATTT
1 TTATTTATTA
49195025 TTATTTATT-
1 TTATTTATTA
49195034 TTATTTA
1 TTATTTA
49195041 AACCTTTGGT
Statistics
Matches: 64, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
9 32 0.50
10 21 0.33
11 2 0.03
12 9 0.14
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (10 bp):
TTATTTATTA
Found at i:49214722 original size:31 final size:29
Alignment explanation
Indices: 49214678--49214780 Score: 86
Period size: 30 Copynumber: 3.5 Consensus size: 29
49214668 TATAAACTCC
*
49214678 ATATAT-AATGTAACTTCCATGCAAATTAAA
1 ATATATAAATGTAACTTCAATG-AAATT-AA
* *
49214708 ATATATAAATGTAACTTAAATGGAATTAA
1 ATATATAAATGTAACTTCAATGAAATTAA
* *
49214737 ATCTATAAAATGTAACTTCTATTG-AATT-A
1 ATATAT-AAATGTAACTTC-AATGAAATTAA
*
49214766 ATAGATAAAATGTAA
1 ATATAT-AAATGTAA
49214781 AATTTCCAAA
Statistics
Matches: 62, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
29 21 0.34
30 25 0.40
31 16 0.26
ACGTcount: A:0.49, C:0.08, G:0.09, T:0.35
Consensus pattern (29 bp):
ATATATAAATGTAACTTCAATGAAATTAA
Found at i:49215986 original size:21 final size:20
Alignment explanation
Indices: 49215932--49215987 Score: 62
Period size: 21 Copynumber: 2.9 Consensus size: 20
49215922 ACATAATATC
49215932 CAAATACAA-AC-AATGTCT
1 CAAATACAACACAAATGTCT
* *
49215950 CAAATACATCATAAATGTCTT
1 CAAATACAACACAAATGTC-T
*
49215971 CAAATGCAACACAAATG
1 CAAATACAACACAAATG
49215988 CAAAAATTCC
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
18 8 0.27
19 1 0.03
20 6 0.20
21 15 0.50
ACGTcount: A:0.48, C:0.21, G:0.07, T:0.23
Consensus pattern (20 bp):
CAAATACAACACAAATGTCT
Found at i:49217594 original size:23 final size:23
Alignment explanation
Indices: 49217568--49217620 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
49217558 TCCAAATAAT
49217568 ATTAAAAACAACAGCAAAACAAC
1 ATTAAAAACAACAGCAAAACAAC
* * *
49217591 ATTAAAAACGATAGCAAAACAAT
1 ATTAAAAACAACAGCAAAACAAC
49217614 A-TAAAAA
1 ATTAAAAA
49217621 TGCACAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 6 0.22
23 21 0.78
ACGTcount: A:0.66, C:0.15, G:0.06, T:0.13
Consensus pattern (23 bp):
ATTAAAAACAACAGCAAAACAAC
Found at i:49221938 original size:44 final size:43
Alignment explanation
Indices: 49221623--49222128 Score: 271
Period size: 44 Copynumber: 11.7 Consensus size: 43
49221613 TCTGCTAGTA
* * *** *
49221623 TGCTCCACTGCAACTTCAGGGAGATAAGACT-A-GATGCGATA
1 TGCTCCACTGCAACTTCAGGGAGATAAGATTGAGGTTTTAATC
* * * *
49221664 TGCT-CTCTGCAACTTCAGAGAAATAAGATCTAAGGTTTTAATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGAT-TGAGGTTTTAATC
** * * *
49221707 CACTCCACTGCAACTTCAGGGAGATAGGATTGTCGGCTTTAATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATTG-AGGTTTTAATC
* * * * * *
49221751 TGCTTCACTGCAACTTTAGGGAGATAGGATTGTCGGCTTTAATT
1 TGCTCCACTGCAACTTCAGGGAGATAAGATTG-AGGTTTTAATC
**** *
49221795 TGCTCCACTGCAACTTCAGGGAGATAAGATTTTCTTTACTTAGTC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATTGAGGTT--TTAATC
* * * ***
49221840 TACTCCACTGCAACTTCAGGGAGATAAGACT-A-GATGCGATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATTGAGGTTTTAATC
* * *
49221881 TGCT-CTCTGCAACTTCAGAGAGTTAAGATCTGAGGTTTTAATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGAT-TGAGGTTTTAATC
* * *** * *
49221924 CGCTCCACTGCAACTTCAAGGAGATAAGATTTGCCATCTTCAGTC
1 TGCTCCACTGCAACTTCAGGGAGATAAGA-TTGAGGT-TTTAATC
** *
49221969 TGC-CTCACTGCAACTTCA-GGAGGATAAGACTTG-CTTTACTTAGTC
1 TGCTC-CACTGCAACTTCAGGGA-GATAAGA-TTGAGGTT--TTAATC
* * ** ***
49222014 TGTTCCACTGCAACTTCAGGGAGATAAGACT-A-AATGCGATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATTGAGGTTTTAATC
* * **
49222055 TGCT-CTCTGCCACTTCAAAGAGATAAGATCTGAGGTTTTAATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGAT-TGAGGTTTTAATC
* * *
49222098 CGCTCCATTGCAACTTCAGGGAGATAGGATT
1 TGCTCCACTGCAACTTCAGGGAGATAAGATT
49222129 ATTTGGCCAC
Statistics
Matches: 350, Mismatches: 91, Indels: 46
0.72 0.19 0.09
Matches are distributed among these distances:
40 62 0.18
41 17 0.05
42 3 0.01
43 27 0.08
44 146 0.42
45 91 0.26
46 4 0.01
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.29
Consensus pattern (43 bp):
TGCTCCACTGCAACTTCAGGGAGATAAGATTGAGGTTTTAATC
Found at i:49221947 original size:84 final size:84
Alignment explanation
Indices: 49221842--49222123 Score: 311
Period size: 84 Copynumber: 3.3 Consensus size: 84
49221832 ACTTAGTCTA
*
49221842 CTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGTTAA
1 CTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAA
49221907 GATCTGAGGTTTTAATCCG
66 GATCTGAGGTTTTAATCCG
* * * * *
49221926 CTCCACTGCAACTTCAAGGAGATAAGATTTGCCAT-CTTCAGTCTGCCTCACTGCAACTTCAG-G
1 CTCCACTGCAACTTCAGGGAGATAAGACTAG--ATGC--GA-TCTG-CTCTCTGCAACTTCAGAG
** * *
49221989 AGGATAAGA-CTTG-CTTTACTTAGTCTG
60 A-GATAAGATC-TGAGGTT--TTAATCCG
* * * *
49222016 TTCCACTGCAACTTCAGGGAGATAAGACTAAATGCGATCTGCTCTCTGCCACTTCAAAGAGATAA
1 CTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAA
49222081 GATCTGAGGTTTTAATCCG
66 GATCTGAGGTTTTAATCCG
*
49222100 CTCCATTGCAACTTCAGGGAGATA
1 CTCCACTGCAACTTCAGGGAGATA
49222124 GGATTATTTG
Statistics
Matches: 159, Mismatches: 25, Indels: 28
0.75 0.12 0.13
Matches are distributed among these distances:
84 56 0.35
85 23 0.14
86 11 0.07
87 2 0.01
88 11 0.07
89 24 0.15
90 32 0.20
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.28
Consensus pattern (84 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAA
GATCTGAGGTTTTAATCCG
Found at i:49222023 original size:174 final size:174
Alignment explanation
Indices: 49221800--49222128 Score: 543
Period size: 174 Copynumber: 1.9 Consensus size: 174
49221790 TAATTTGCTC
* *
49221800 CACTGCAACTTCAGGGAGATAAGATTTTCTTTACTTAGTCTACTCCACTGCAACTTCAGGGAGAT
1 CACTGCAACTTCAGGGAGATAAGACTTGCTTTACTTAGTCTACTCCACTGCAACTTCAGGGAGAT
* * *
49221865 AAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGTTAAGATCTGAGGTTTTAATCCGCTCC
66 AAGACTAAATGCGATCTGCTCTCTGCAACTTCAAAGAGATAAGATCTGAGGTTTTAATCCGCTCC
49221930 ACTGCAACTTCAAGGAGATAAGATTTGCCATCTTCAGTCTGCCT
131 ACTGCAACTTCAAGGAGATAAGATTTGCCATCTTCAGTCTGCCT
**
49221974 CACTGCAACTTCA-GGAGGATAAGACTTGCTTTACTTAGTCTGTTCCACTGCAACTTCAGGGAGA
1 CACTGCAACTTCAGGGA-GATAAGACTTGCTTTACTTAGTCTACTCCACTGCAACTTCAGGGAGA
*
49222038 TAAGACTAAATGCGATCTGCTCTCTGCCACTTCAAAGAGATAAGATCTGAGGTTTTAATCCGCTC
65 TAAGACTAAATGCGATCTGCTCTCTGCAACTTCAAAGAGATAAGATCTGAGGTTTTAATCCGCTC
* * *
49222103 CATTGCAACTTCAGGGAGATAGGATT
130 CACTGCAACTTCAAGGAGATAAGATT
49222129 ATTTGGCCAC
Statistics
Matches: 143, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
173 3 0.02
174 140 0.98
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (174 bp):
CACTGCAACTTCAGGGAGATAAGACTTGCTTTACTTAGTCTACTCCACTGCAACTTCAGGGAGAT
AAGACTAAATGCGATCTGCTCTCTGCAACTTCAAAGAGATAAGATCTGAGGTTTTAATCCGCTCC
ACTGCAACTTCAAGGAGATAAGATTTGCCATCTTCAGTCTGCCT
Found at i:49235084 original size:11 final size:11
Alignment explanation
Indices: 49235065--49235108 Score: 65
Period size: 11 Copynumber: 4.2 Consensus size: 11
49235055 AACACTGAAC
*
49235065 TTTTTGGGTAA
1 TTTTCGGGTAA
49235076 TTTTCGGGTAA
1 TTTTCGGGTAA
49235087 --TTCGGGTAA
1 TTTTCGGGTAA
49235096 TTTTCGGGTAA
1 TTTTCGGGTAA
49235107 TT
1 TT
49235109 CGATTAATTC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
9 9 0.30
11 21 0.70
ACGTcount: A:0.18, C:0.07, G:0.27, T:0.48
Consensus pattern (11 bp):
TTTTCGGGTAA
Found at i:49235092 original size:9 final size:9
Alignment explanation
Indices: 49235078--49235169 Score: 98
Period size: 9 Copynumber: 10.2 Consensus size: 9
49235068 TTGGGTAATT
49235078 TTCGGGTAA
1 TTCGGGTAA
49235087 TTCGGGTAA
1 TTCGGGTAA
49235096 TTTTCGGGTAA
1 --TTCGGGTAA
**
49235107 TTCGATTAA
1 TTCGGGTAA
*
49235116 TTCGGTTAA
1 TTCGGGTAA
49235125 -TCGGGTAA
1 TTCGGGTAA
*
49235133 TTCGGTTAA
1 TTCGGGTAA
49235142 -TCGGGTAA
1 TTCGGGTAA
*
49235150 TTTGGGTAA
1 TTCGGGTAA
*
49235159 TTCAGGTAA
1 TTCGGGTAA
49235168 TT
1 TT
49235170 TTTAACCAAA
Statistics
Matches: 70, Mismatches: 9, Indels: 8
0.80 0.10 0.09
Matches are distributed among these distances:
8 14 0.20
9 47 0.67
11 9 0.13
ACGTcount: A:0.24, C:0.10, G:0.27, T:0.39
Consensus pattern (9 bp):
TTCGGGTAA
Found at i:49235135 original size:26 final size:26
Alignment explanation
Indices: 49235088--49235161 Score: 87
Period size: 26 Copynumber: 2.8 Consensus size: 26
49235078 TTCGGGTAAT
49235088 TCGGGTAATTTTCGGGTAATTCGATTAA
1 TCGGGTAA--TTCGGGTAATTCGATTAA
* *
49235116 TTCGGTTAA-TCGGGTAATTCGGTTAA
1 -TCGGGTAATTCGGGTAATTCGATTAA
*
49235142 TCGGGTAATTTGGGTAATTC
1 TCGGGTAATTCGGGTAATTC
49235162 AGGTAATTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
25 7 0.17
26 26 0.65
29 7 0.17
ACGTcount: A:0.23, C:0.11, G:0.27, T:0.39
Consensus pattern (26 bp):
TCGGGTAATTCGGGTAATTCGATTAA
Found at i:49235159 original size:17 final size:18
Alignment explanation
Indices: 49235070--49235170 Score: 89
Period size: 17 Copynumber: 5.5 Consensus size: 18
49235060 TGAACTTTTT
49235070 GGGTAATTTTCGGGTAATTC
1 GGGTAA-TTT-GGGTAATTC
49235090 GGGTAATTTTCGGGTAATTC
1 GGGTAA-TTT-GGGTAATTC
** * *
49235110 GATTAATTCGGTTAA-TC
1 GGGTAATTTGGGTAATTC
* *
49235127 GGGTAATTCGGTTAA-TC
1 GGGTAATTTGGGTAATTC
49235144 GGGTAATTTGGGTAATTC
1 GGGTAATTTGGGTAATTC
*
49235162 AGGTAATTT
1 GGGTAATTT
49235171 TTAACCAAAA
Statistics
Matches: 71, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
17 30 0.42
18 15 0.21
19 2 0.03
20 24 0.34
ACGTcount: A:0.24, C:0.09, G:0.28, T:0.40
Consensus pattern (18 bp):
GGGTAATTTGGGTAATTC
Found at i:49238225 original size:15 final size:16
Alignment explanation
Indices: 49238202--49238234 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
49238192 CAATTTAATT
*
49238202 TATTTAAAA-TAAAAA
1 TATTGAAAATTAAAAA
49238217 TATTGAAAATTAAAAA
1 TATTGAAAATTAAAAA
49238233 TA
1 TA
49238235 CTATTGACTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (16 bp):
TATTGAAAATTAAAAA
Found at i:49238435 original size:20 final size:18
Alignment explanation
Indices: 49238410--49238468 Score: 66
Period size: 20 Copynumber: 3.2 Consensus size: 18
49238400 TTTATAAGAT
49238410 TATAAAAATGTAAAATAATA
1 TATAAAAAT-TAAAAT-ATA
* *
49238430 TATAAAAATTTAAAATTTT
1 TATAAAAA-TTAAAATATA
49238449 TATAAAAATTAAAA-ATA
1 TATAAAAATTAAAATATA
49238466 TAT
1 TAT
49238469 TTAATTTTCA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
17 4 0.12
18 6 0.18
19 9 0.26
20 14 0.41
21 1 0.03
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (18 bp):
TATAAAAATTAAAATATA
Found at i:49238452 original size:19 final size:20
Alignment explanation
Indices: 49238409--49238471 Score: 74
Period size: 19 Copynumber: 3.1 Consensus size: 20
49238399 TTTTATAAGA
*
49238409 TTATAAAAATGTAAAATAAT
1 TTATAAAAATTTAAAATAAT
* *
49238429 ATATAAAAATTTAAAAT-TT
1 TTATAAAAATTTAAAATAAT
*
49238448 TTATAAAAATTAAAAATATAT
1 TTATAAAAATTTAAAATA-AT
49238469 TTA
1 TTA
49238472 ATTTTCAAGT
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
19 16 0.46
20 15 0.43
21 4 0.11
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.40
Consensus pattern (20 bp):
TTATAAAAATTTAAAATAAT
Found at i:49238647 original size:19 final size:17
Alignment explanation
Indices: 49238620--49238664 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 17
49238610 TTTTTGTAAA
49238620 TTTTATAT-TTAT-AATT
1 TTTTATATATT-TCAATT
49238636 TTTATATATATTTCAATT
1 TTT-TATATATTTCAATT
49238654 TTTTATATATT
1 TTTTATATATT
49238665 AATTTCGATT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
16 3 0.12
17 14 0.54
18 9 0.35
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTTATATATTTCAATT
Found at i:49238669 original size:21 final size:19
Alignment explanation
Indices: 49238634--49238682 Score: 62
Period size: 21 Copynumber: 2.5 Consensus size: 19
49238624 ATATTTATAA
49238634 TTTTTATATATATTTCAAT
1 TTTTTATATATATTTCAAT
*
49238653 TTTTTATATATTAATTTCGAT
1 TTTTTATATA-T-ATTTCAAT
*
49238674 TTTTCATAT
1 TTTTTATAT
49238683 TTTTAGTGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 10 0.38
20 1 0.04
21 15 0.58
ACGTcount: A:0.29, C:0.06, G:0.02, T:0.63
Consensus pattern (19 bp):
TTTTTATATATATTTCAAT
Found at i:49239696 original size:24 final size:24
Alignment explanation
Indices: 49239664--49239710 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
49239654 ATGTATAGGT
49239664 ATAGGAAAT-ATGAGAATAATAATG
1 ATAGGAAATAATG-GAATAATAATG
* *
49239688 ATAGTAAATAATGTAATAATAAT
1 ATAGGAAATAATGGAATAATAAT
49239711 AGTAATGGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 17 0.85
25 3 0.15
ACGTcount: A:0.55, C:0.00, G:0.15, T:0.30
Consensus pattern (24 bp):
ATAGGAAATAATGGAATAATAATG
Found at i:49241848 original size:22 final size:23
Alignment explanation
Indices: 49241811--49241853 Score: 79
Period size: 22 Copynumber: 1.9 Consensus size: 23
49241801 AAATAATGAG
49241811 AAAACAACAAAAAAAATAGCATT
1 AAAACAACAAAAAAAATAGCATT
49241834 AAAACAAC-AAAAAAATAGCA
1 AAAACAACAAAAAAAATAGCA
49241854 ATTTTTTTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.72, C:0.14, G:0.05, T:0.09
Consensus pattern (23 bp):
AAAACAACAAAAAAAATAGCATT
Found at i:49242024 original size:5 final size:5
Alignment explanation
Indices: 49242014--49242038 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
49242004 GAGTCTTCAT
49242014 TTAAA TTAAA TTAAA TTAAA TTAAA
1 TTAAA TTAAA TTAAA TTAAA TTAAA
49242039 ATATTATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TTAAA
Found at i:49244242 original size:18 final size:18
Alignment explanation
Indices: 49244219--49244255 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
49244209 CCCCAAAGCC
49244219 GTGCTAGATATATTCATG
1 GTGCTAGATATATTCATG
49244237 GTGCTAGATATATTCATG
1 GTGCTAGATATATTCATG
49244255 G
1 G
49244256 AGTTCATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.27, C:0.11, G:0.24, T:0.38
Consensus pattern (18 bp):
GTGCTAGATATATTCATG
Found at i:49251779 original size:30 final size:30
Alignment explanation
Indices: 49251739--49251840 Score: 116
Period size: 30 Copynumber: 3.4 Consensus size: 30
49251729 AAAAAAATAA
* * *
49251739 AAATTGCATTTTGACCCCCAAACTTTTC-CT
1 AAATTTCATTTTGACCCCTAAAC-TTTCATT
** *
49251769 AAATTTCATTTTGACCTTTAAACTTTCTTT
1 AAATTTCATTTTGACCCCTAAACTTTCATT
* *
49251799 AAATTTCACTTAGACCCCTAAACTTTCATT
1 AAATTTCATTTTGACCCCTAAACTTTCATT
49251829 AAATTTCATTTT
1 AAATTTCATTTT
49251841 AATCCTAAAT
Statistics
Matches: 59, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
29 4 0.07
30 55 0.93
ACGTcount: A:0.29, C:0.23, G:0.04, T:0.44
Consensus pattern (30 bp):
AAATTTCATTTTGACCCCTAAACTTTCATT
Found at i:49252411 original size:10 final size:10
Alignment explanation
Indices: 49252392--49252475 Score: 55
Period size: 10 Copynumber: 8.1 Consensus size: 10
49252382 AGAAGAAGAG
*
49252392 AAGAAGAAAA
1 AAGAAAAAAA
49252402 AAGAAAAAAA
1 AAGAAAAAAA
* * *
49252412 TGAGGAAGAAA
1 -AAGAAAAAAA
* *
49252423 AAGAGAGAAA
1 AAGAAAAAAA
49252433 AAGAAAGAAAA
1 AAGAAA-AAAA
49252444 AAGAAAAAAA
1 AAGAAAAAAA
49252454 ATA-AAAAATAA
1 A-AGAAAAA-AA
49252465 AA-AATAAAAA
1 AAGAA-AAAAA
49252475 A
1 A
49252476 CAGCAGGCTA
Statistics
Matches: 60, Mismatches: 9, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
10 37 0.62
11 23 0.38
ACGTcount: A:0.80, C:0.00, G:0.15, T:0.05
Consensus pattern (10 bp):
AAGAAAAAAA
Found at i:49252459 original size:6 final size:7
Alignment explanation
Indices: 49252449--49252475 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
49252439 GAAAAAAGAA
49252449 AAAAAAT
1 AAAAAAT
49252456 AAAAAAT
1 AAAAAAT
49252463 AAAAAAT
1 AAAAAAT
49252470 AAAAAA
1 AAAAAA
49252476 CAGCAGGCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (7 bp):
AAAAAAT
Found at i:49252475 original size:9 final size:9
Alignment explanation
Indices: 49252392--49252461 Score: 50
Period size: 9 Copynumber: 7.0 Consensus size: 9
49252382 AGAAGAAGAG
49252392 AAGAAGAAAA
1 AAGAA-AAAA
49252402 AAGAAAAAA
1 AAGAAAAAA
*
49252411 ATGAGGAAGAAA
1 A--A-GAAAAAA
*
49252423 AAGAGAGAAA
1 AAGA-AAAAA
49252433 AAGAAAGAAAA
1 AAG-AA-AAAA
49252444 AAGAAAAAA
1 AAGAAAAAA
*
49252453 AATAAAAAA
1 AAGAAAAAA
49252462 TAAAAAATAA
Statistics
Matches: 51, Mismatches: 3, Indels: 13
0.76 0.04 0.19
Matches are distributed among these distances:
9 19 0.37
10 17 0.33
11 8 0.16
12 7 0.14
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.03
Consensus pattern (9 bp):
AAGAAAAAA
Found at i:49252475 original size:16 final size:16
Alignment explanation
Indices: 49252428--49252468 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
49252418 AGAAAAAGAG
49252428 AGAAAAAGAAAGAAAAA
1 AGAAAAA-AAAGAAAAA
*
49252445 AGAAAAAAAATAAAAA
1 AGAAAAAAAAGAAAAA
*
49252461 ATAAAAAA
1 AGAAAAAA
49252469 TAAAAAACAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 15 0.68
17 7 0.32
ACGTcount: A:0.85, C:0.00, G:0.10, T:0.05
Consensus pattern (16 bp):
AGAAAAAAAAGAAAAA
Found at i:49267665 original size:71 final size:70
Alignment explanation
Indices: 49267543--49267718 Score: 212
Period size: 71 Copynumber: 2.5 Consensus size: 70
49267533 CTTTCCAAGG
** *
49267543 AAAATCAACTCATATTGCGAG-AGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTT
1 AAAATCAACTCATATTGCGAGAAG-TGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTA
*
49267607 TTTTTT
65 TGTTTT
** * *
49267613 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTA
1 -AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTA
49267678 TGTTTT
65 TGTTTT
** * *
49267684 -AAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
49267719 TTTAATTTTT
Statistics
Matches: 92, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
69 31 0.34
71 59 0.64
72 2 0.02
ACGTcount: A:0.29, C:0.14, G:0.23, T:0.34
Consensus pattern (70 bp):
AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTAT
GTTTT
Found at i:49267814 original size:17 final size:18
Alignment explanation
Indices: 49267792--49267826 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
49267782 TGTTGAGGTA
*
49267792 TTTTCAATTTATG-TTTT
1 TTTTCAATCTATGCTTTT
49267809 TTTTCAATCTATGCTTTT
1 TTTTCAATCTATGCTTTT
49267827 CAAAAATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.17, C:0.11, G:0.06, T:0.66
Consensus pattern (18 bp):
TTTTCAATCTATGCTTTT
Found at i:49267981 original size:87 final size:90
Alignment explanation
Indices: 49267731--49267987 Score: 296
Period size: 92 Copynumber: 2.9 Consensus size: 90
49267721 TAATTTTTGT
* *
49267731 TTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCA-GCTCACATGTTGAGGTATTT
1 TTTTC-AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGC-CACACGCTGAGGTATTT
* * **
49267795 TCAATTTATGTTTTTTTTCAATCTATGC
64 TCAATTTCTGTCTTTACTCAATCTAT-C
* *
49267823 TTTTCAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAAGG---CACGCTGAGGTATTT
1 TTTTC-AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTC-AGGCCACACGCTGAGGTATTT
49267885 TCAATTTCTG-CTTTACT-AATTCTAT-
64 TCAATTTCTGTCTTTACTCAA-TCTATC
* *
49267910 TTTTC-AAATCAACTCATATTGCAAGAGGTGAGTTGAGTCTCAGGCCACACGCTGAGGTCTTTTC
1 TTTTCAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGCCACACGCTGAGGTATTTTC
* *
49267974 AAATTCTGTTTTTA
66 AATTTCTGTCTTTA
49267988 ATTTCTGTTT
Statistics
Matches: 144, Mismatches: 14, Indels: 18
0.82 0.08 0.10
Matches are distributed among these distances:
84 3 0.02
85 33 0.23
87 28 0.19
88 6 0.04
89 9 0.06
90 22 0.15
92 41 0.28
93 1 0.01
94 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.38
Consensus pattern (90 bp):
TTTTCAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGCCACACGCTGAGGTATTTTC
AATTTCTGTCTTTACTCAATCTATC
Found at i:49267999 original size:14 final size:14
Alignment explanation
Indices: 49267977--49268009 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
49267967 TCTTTTCAAA
49267977 TTCTG-TTTTTAAT
1 TTCTGTTTTTTAAT
49267990 TTCTGTTTTTTAAT
1 TTCTGTTTTTTAAT
49268004 TTCTGT
1 TTCTGT
49268010 GTTTCAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 5 0.26
14 14 0.74
ACGTcount: A:0.12, C:0.09, G:0.09, T:0.70
Consensus pattern (14 bp):
TTCTGTTTTTTAAT
Found at i:49268172 original size:54 final size:54
Alignment explanation
Indices: 49268090--49268304 Score: 332
Period size: 54 Copynumber: 4.0 Consensus size: 54
49268080 AATTTCTACT
*
49268090 TTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
1 TTTTAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
*
49268144 TTTTAATTTCTATTTTTCAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCC
1 TTTTAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
49268198 --TT--TTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
1 TTTTAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
* * *
49268248 TTTTGCAAATTCT-GTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCC
1 TTTT--AATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
49268303 TT
1 TT
49268305 GGCTCACGTG
Statistics
Matches: 149, Mismatches: 6, Indels: 11
0.90 0.04 0.07
Matches are distributed among these distances:
50 47 0.32
52 4 0.03
54 52 0.35
55 42 0.28
56 4 0.03
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.38
Consensus pattern (54 bp):
TTTTAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
Found at i:49268225 original size:50 final size:50
Alignment explanation
Indices: 49268096--49268304 Score: 292
Period size: 50 Copynumber: 4.0 Consensus size: 50
49268086 TACTTTTTAA
*
49268096 TTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTT
1 TTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC--TT
*
49268148 AATTTCTATTTTTCAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCCTT
1 --TTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT
49268200 TTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT
1 TTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT
* * *
49268250 TTGCAAATTCTGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTT
1 TTTC----TAT-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT
49268305 GGCTCACGTG
Statistics
Matches: 144, Mismatches: 6, Indels: 9
0.91 0.04 0.06
Matches are distributed among these distances:
50 52 0.36
52 2 0.01
54 48 0.33
55 42 0.29
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.37
Consensus pattern (50 bp):
TTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT
Found at i:49268571 original size:14 final size:15
Alignment explanation
Indices: 49268546--49268580 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
49268536 TTTAATTTTC
49268546 AAAATTTCAAAAAAA
1 AAAATTTCAAAAAAA
*
49268561 AAAATTT-AAAAATA
1 AAAATTTCAAAAAAA
49268575 AAAATT
1 AAAATT
49268581 GCATTTTGAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (15 bp):
AAAATTTCAAAAAAA
Found at i:49268616 original size:30 final size:30
Alignment explanation
Indices: 49268576--49268677 Score: 125
Period size: 30 Copynumber: 3.4 Consensus size: 30
49268566 TTAAAAATAA
* * *
49268576 AAATTGCATTTTGACCCCCAAACTTTTC-CT
1 AAATTTCATTTTGACCCCTAAAC-TTTCATT
* *
49268606 AAATTTCATTTTGACCCTTAAACTTTCTTT
1 AAATTTCATTTTGACCCCTAAACTTTCATT
* *
49268636 AAATTTCACTTAGACCCCTAAACTTTCATT
1 AAATTTCATTTTGACCCCTAAACTTTCATT
49268666 AAATTTCATTTT
1 AAATTTCATTTT
49268678 AATCCTAAAT
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
29 4 0.07
30 57 0.93
ACGTcount: A:0.29, C:0.24, G:0.04, T:0.43
Consensus pattern (30 bp):
AAATTTCATTTTGACCCCTAAACTTTCATT
Found at i:49269287 original size:12 final size:12
Alignment explanation
Indices: 49269234--49269307 Score: 50
Period size: 12 Copynumber: 6.4 Consensus size: 12
49269224 AGAGAAGAAG
49269234 AAAAAAG-AA-A
1 AAAAAAGAAAGA
*
49269244 AAAAAAG-AGGA
1 AAAAAAGAAAGA
*
49269255 AGAAAAAGAGAG-
1 A-AAAAAGAAAGA
*
49269267 AGAAAAGAAAGA
1 AAAAAAGAAAGA
49269279 AAAAAAGAAA-A
1 AAAAAAGAAAGA
* *
49269290 AAAATAAAAAATA
1 AAAA-AAGAAAGA
49269303 AAAAA
1 AAAAA
49269308 TAAAAAACAG
Statistics
Matches: 51, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
10 8 0.16
11 15 0.29
12 22 0.43
13 6 0.12
ACGTcount: A:0.81, C:0.00, G:0.16, T:0.03
Consensus pattern (12 bp):
AAAAAAGAAAGA
Found at i:49269287 original size:17 final size:17
Alignment explanation
Indices: 49269228--49269300 Score: 58
Period size: 17 Copynumber: 4.1 Consensus size: 17
49269218 AGAAGAAGAG
49269228 AAGAAGAAAAAAGAAAAA
1 AAGAA-AAAAAAGAAAAA
* **
49269246 AA-AAGAGGAAGAAAAA
1 AAGAAAAAAAAGAAAAA
49269262 GAGAGAGAAAAGAAAGAAAAA
1 -A-AGA-AAAA-AAAGAAAAA
*
49269283 AAGAAAAAAAATAAAAA
1 AAGAAAAAAAAGAAAAA
49269300 A
1 A
49269301 TAAAAAATAA
Statistics
Matches: 43, Mismatches: 7, Indels: 11
0.70 0.11 0.18
Matches are distributed among these distances:
16 9 0.21
17 12 0.28
18 7 0.16
19 4 0.09
20 3 0.07
21 8 0.19
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.01
Consensus pattern (17 bp):
AAGAAAAAAAAGAAAAA
Found at i:49269298 original size:6 final size:7
Alignment explanation
Indices: 49269288--49269314 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
49269278 AAAAAAAGAA
49269288 AAAAAAT
1 AAAAAAT
49269295 AAAAAAT
1 AAAAAAT
49269302 AAAAAAT
1 AAAAAAT
49269309 AAAAAA
1 AAAAAA
49269315 CAGCAGGCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (7 bp):
AAAAAAT
Found at i:49270013 original size:18 final size:18
Alignment explanation
Indices: 49269979--49270013 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
49269969 AATTTTTGAC
*
49269979 TTTTCGCGTTTTCAAAAG
1 TTTTCGCGTTTTAAAAAG
*
49269997 TTTTCGTGTTTTAAAAA
1 TTTTCGCGTTTTAAAAA
49270014 AAATTCACGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.11, G:0.14, T:0.49
Consensus pattern (18 bp):
TTTTCGCGTTTTAAAAAG
Found at i:49270050 original size:25 final size:25
Alignment explanation
Indices: 49270022--49270083 Score: 94
Period size: 23 Copynumber: 2.6 Consensus size: 25
49270012 AAAAATTCAC
49270022 GTTTTAAAATGAAAAAAATTTTCGT
1 GTTTTAAAATGAAAAAAATTTTCGT
*
49270047 GTTTTCAAATG--AAAAATTTTCGT
1 GTTTTAAAATGAAAAAAATTTTCGT
49270070 GTTTTAAAAT-AAAA
1 GTTTTAAAATGAAAA
49270084 CAAAAAACAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
23 21 0.64
24 2 0.06
25 10 0.30
ACGTcount: A:0.44, C:0.05, G:0.11, T:0.40
Consensus pattern (25 bp):
GTTTTAAAATGAAAAAAATTTTCGT
Found at i:49270061 original size:23 final size:22
Alignment explanation
Indices: 49269992--49270083 Score: 84
Period size: 23 Copynumber: 4.2 Consensus size: 22
49269982 TCGCGTTTTC
*
49269992 AAAAGTTTTCGTGTTTT-AAA-
1 AAAAATTTTCGTGTTTTAAAAT
**
49270012 AAAAA--TTCACGTTTTAAAAT
1 AAAAATTTTCGTGTTTTAAAAT
*
49270032 GAAAAAAATTTTCGTGTTTTCAAAT
1 ---AAAAATTTTCGTGTTTTAAAAT
49270057 GAAAAATTTTCGTGTTTTAAAAT
1 -AAAAATTTTCGTGTTTTAAAAT
49270080 AAAA
1 AAAA
49270084 CAAAAAACAA
Statistics
Matches: 57, Mismatches: 8, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
18 8 0.14
19 3 0.05
20 4 0.07
22 4 0.07
23 26 0.46
25 12 0.21
ACGTcount: A:0.43, C:0.07, G:0.11, T:0.39
Consensus pattern (22 bp):
AAAAATTTTCGTGTTTTAAAAT
Found at i:49270129 original size:18 final size:18
Alignment explanation
Indices: 49270108--49270214 Score: 92
Period size: 18 Copynumber: 5.6 Consensus size: 18
49270098 AACTCCCGTC
49270108 TTTCAAAAATTTTCGTGT
1 TTTCAAAAATTTTCGTGT
*
49270126 TTTCAAAAATTCTCGTG-
1 TTTCAAAAATTTTCGTGT
**
49270143 TTAAAAAAATTTTGTGTTTTCGTGT
1 TTTCAAAAA-------TTTTCGTGT
49270168 TTTCAAAAAATTTTCGTG-
1 TTTC-AAAAATTTTCGTGT
*
49270186 TTTCAAAAATCTTCGTGT
1 TTTCAAAAATTTTCGTGT
49270204 TTTCAAAAATT
1 TTTCAAAAATT
49270215 ATTATTTTGT
Statistics
Matches: 71, Mismatches: 8, Indels: 20
0.72 0.08 0.20
Matches are distributed among these distances:
17 19 0.27
18 30 0.42
19 8 0.11
24 7 0.10
25 2 0.03
26 5 0.07
ACGTcount: A:0.31, C:0.11, G:0.11, T:0.47
Consensus pattern (18 bp):
TTTCAAAAATTTTCGTGT
Found at i:49270194 original size:43 final size:43
Alignment explanation
Indices: 49270117--49270207 Score: 130
Period size: 43 Copynumber: 2.1 Consensus size: 43
49270107 CTTTCAAAAA
*
49270117 TTTTCGTGTTTTCAAAAATTCTCGTGTTAAAAAAAT-TTTGTG
1 TTTTCGTGTTTTCAAAAATTCTCGTGTTAAAAAAATCTTCGTG
* **
49270159 TTTTCGTGTTTTCAAAAAATTTTCGTGTTTCAAAAATCTTCGTG
1 TTTTCGTGTTTTC-AAAAATTCTCGTGTTAAAAAAATCTTCGTG
49270203 TTTTC
1 TTTTC
49270208 AAAAATTATT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
42 13 0.30
43 20 0.47
44 10 0.23
ACGTcount: A:0.25, C:0.12, G:0.13, T:0.49
Consensus pattern (43 bp):
TTTTCGTGTTTTCAAAAATTCTCGTGTTAAAAAAATCTTCGTG
Found at i:49274747 original size:394 final size:394
Alignment explanation
Indices: 49274017--49274802 Score: 1173
Period size: 394 Copynumber: 2.0 Consensus size: 394
49274007 TGTCTCTTCT
* *
49274017 GATTCCTAAGTCGCTTCTTCTACGCTATGGCTGCGTCACAAGACTTTCACAAGTGGCAAGCGTTT
1 GATTCCTAAGTCGCTTCTTCTACGCTATGACTGCGGCACAAGACTTTCACAAGTGGCAAGCGTTT
**
49274082 ATTACTCAGCTCTTTGACTTCTTGAGTTAAGATTTGTACTAGTTCCTCCTCATATGATAAGTCGG
66 ATTACTCAGCTCTTCCACTTCTTGAGTTAAGATTTGTACTAGTTCCTCCTCATATGATAAGTCGG
*
49274147 CTTGAATTTCAATTTATTATACTGGAATAACATGAGATGGGTTAGAACGATATCATTTAAACATG
131 CTTGAATTTCAATTTATTATACTGGAATAACATGAGATGGGTTAGAACGATATCATCTAAACATG
* * * * * **
49274212 GATACATGGAATGCATTGTGGATCTTTTGCAATTCCAATGGTAAGGTTAGGCAGTATGCAACCGG
196 GATACATGGAATGCATCGTGGATCTTTTGCAATTCCAACGGCAAGGTAAGGCAATATGCAACCAA
* * * * * * *
49274277 TCTAATTCTCTCGATGATTTCATACTACTCAATATGCTTGGGACTTAATTTCCCTTTGTCGTCGA
261 CCCAATTCTCTCAATGATTTCATACGACCCAATATACCTGGGACTTAATTTCCCTTTGTCGTCGA
** *
49274342 AACGCAAGACCTTTTTCCTTAGAGAAACCTTCAGGAATACTTTATCACCTACGGAATACTCGATA
326 AACGCAAGACCTTTTTCCACAGAGAAACCTTCAGGAATACTTTATCACCTACCGAATACTCGATA
49274407 TCCC
391 TCCC
* * *
49274411 GATTCCTAGGTCGCTTCTTCTATGCTATGACTGCGGCACAAGACTTTCACAAGTGGCAAGCTTTT
1 GATTCCTAAGTCGCTTCTTCTACGCTATGACTGCGGCACAAGACTTTCACAAGTGGCAAGCGTTT
* * ** *
49274476 ATTACTCAGCTCTTCCACTTCTTGAGCTT-AGATTTTTACTGGTTCCTTTTTATATGATAAGTCG
66 ATTACTCAGCTCTTCCACTTCTTGAG-TTAAGATTTGTACTAGTTCCTCCTCATATGATAAGTCG
* *
49274540 AG-TTGAATTTCAATTTCTTATACTGGAATAACATGAGATGGGTTAGAATGATATCATCTAAACA
130 -GCTTGAATTTCAATTTATTATACTGGAATAACATGAGATGGGTTAGAACGATATCATCTAAACA
* * *
49274604 TTGATACATGGAATTCATCGTGGATCTTTTGTAATTCCAACGGCAAGGTAAGGCAATATGCAACC
194 TGGATACATGGAATGCATCGTGGATCTTTTGCAATTCCAACGGCAAGGTAAGGCAATATGCAACC
*
49274669 AACCCAATTCTCTCAATGATTTCATACGACCCAATATACCTGGGACTTAATTTTCCTTTGTCG-C
259 AACCCAATTCTCTCAATGATTTCATACGACCCAATATACCTGGGACTTAATTTCCCTTTGTCGTC
* * *
49274733 TGAAACGTAAGACCTTTTTCCACGGAGAAACCTTTAGGAATACTTTATCACCTACCGAATACTCG
324 -GAAACGCAAGACCTTTTTCCACAGAGAAACCTTCAGGAATACTTTATCACCTACCGAATACTCG
49274798 ATATC
388 ATATC
49274803 TCTCTATTTC
Statistics
Matches: 350, Mismatches: 39, Indels: 6
0.89 0.10 0.02
Matches are distributed among these distances:
393 1 0.00
394 346 0.99
395 3 0.01
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (394 bp):
GATTCCTAAGTCGCTTCTTCTACGCTATGACTGCGGCACAAGACTTTCACAAGTGGCAAGCGTTT
ATTACTCAGCTCTTCCACTTCTTGAGTTAAGATTTGTACTAGTTCCTCCTCATATGATAAGTCGG
CTTGAATTTCAATTTATTATACTGGAATAACATGAGATGGGTTAGAACGATATCATCTAAACATG
GATACATGGAATGCATCGTGGATCTTTTGCAATTCCAACGGCAAGGTAAGGCAATATGCAACCAA
CCCAATTCTCTCAATGATTTCATACGACCCAATATACCTGGGACTTAATTTCCCTTTGTCGTCGA
AACGCAAGACCTTTTTCCACAGAGAAACCTTCAGGAATACTTTATCACCTACCGAATACTCGATA
TCCC
Found at i:49281401 original size:26 final size:26
Alignment explanation
Indices: 49281346--49281402 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
49281336 TGTAAAAATC
* * **
49281346 ATGAAAATAATTATTTTTAACTTTTC
1 ATGAAAATAAATATTTTTAAATTTAA
49281372 ATGAAAATAAATATTTTTAAATTTAA
1 ATGAAAATAAATATTTTTAAATTTAA
49281398 ATGAA
1 ATGAA
49281403 TTAGGCTTGG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.47, C:0.04, G:0.05, T:0.44
Consensus pattern (26 bp):
ATGAAAATAAATATTTTTAAATTTAA
Found at i:49284362 original size:20 final size:20
Alignment explanation
Indices: 49284328--49284369 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
49284318 AACTATTTAA
** *
49284328 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
49284348 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
49284368 AT
1 AT
49284370 GTGTTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:49288531 original size:19 final size:19
Alignment explanation
Indices: 49288507--49288544 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
49288497 TATGGCCTAA
49288507 GCCAATTTCACCTATTTCT
1 GCCAATTTCACCTATTTCT
49288526 GCCAATTTCACCTATTTCT
1 GCCAATTTCACCTATTTCT
49288545 ATCTGTTGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.32, G:0.05, T:0.42
Consensus pattern (19 bp):
GCCAATTTCACCTATTTCT
Found at i:49297886 original size:24 final size:24
Alignment explanation
Indices: 49297842--49297898 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 24
49297832 AGAAACAATG
*
49297842 AATATATACATGAGATGGTATAAA
1 AATATATACATGAAATGGTATAAA
*
49297866 AATATGTACATGGAAAT-GTATAAGA
1 AATATATACAT-GAAATGGTATAA-A
*
49297891 ACTATATA
1 AATATATA
49297899 TAACTAGTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
24 16 0.59
25 11 0.41
ACGTcount: A:0.49, C:0.05, G:0.16, T:0.30
Consensus pattern (24 bp):
AATATATACATGAAATGGTATAAA
Found at i:49298752 original size:11 final size:12
Alignment explanation
Indices: 49298736--49298771 Score: 58
Period size: 11 Copynumber: 3.2 Consensus size: 12
49298726 AGAAAAAAAA
49298736 GAAGAGAG-AGG
1 GAAGAGAGAAGG
49298747 GAAGAGAGAAGG
1 GAAGAGAGAAGG
49298759 G-AGAGAGAAGG
1 GAAGAGAGAAGG
49298770 GA
1 GA
49298772 GGGGGAAAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 19 0.83
12 4 0.17
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (12 bp):
GAAGAGAGAAGG
Found at i:49299283 original size:22 final size:22
Alignment explanation
Indices: 49299231--49299283 Score: 88
Period size: 22 Copynumber: 2.4 Consensus size: 22
49299221 AGTGTCAGAC
*
49299231 GGTATGGGACTGTTGTAGTGGA
1 GGTATGGGGCTGTTGTAGTGGA
*
49299253 GGTATGGGGCTGTTGTAGTGGG
1 GGTATGGGGCTGTTGTAGTGGA
49299275 GGTATGGGG
1 GGTATGGGG
49299284 TTGCTTCATG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.13, C:0.04, G:0.53, T:0.30
Consensus pattern (22 bp):
GGTATGGGGCTGTTGTAGTGGA
Found at i:49300264 original size:72 final size:72
Alignment explanation
Indices: 49300028--49300280 Score: 409
Period size: 73 Copynumber: 3.5 Consensus size: 72
49300018 ACATGTGAAC
* *
49300028 TGAGGCTCAACTCACTTT-TCGCAATATGAGTTGATTTTTTTGACAACAGAAATTGAAATTACCT
1 TGAGGCTCAACTCA-TTTCTCGCAATATGAGTTGA--ATTTTGAAAACAGAAATTGAAATTACCT
* *
49300092 CAGCGTGTCC
63 CAACGTGTCT
*
49300102 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCA
1 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA-CAGAAATTGAAATTACCTCA
49300167 ACGTGTCT
65 ACGTGTCT
49300175 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAA
1 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAA
*
49300240 TGTGTCT
66 CGTGTCT
49300247 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
1 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
49300281 TTCTTTCAAA
Statistics
Matches: 170, Mismatches: 7, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
72 68 0.40
73 72 0.42
74 30 0.18
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32
Consensus pattern (72 bp):
TGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAA
CGTGTCT
Found at i:49300362 original size:88 final size:87
Alignment explanation
Indices: 49300213--49300460 Score: 284
Period size: 88 Copynumber: 2.8 Consensus size: 87
49300203 AGTTGAATTT
* ** * **
49300213 TGAAAACAGAAATTGAAATTACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGT
1 TGAAAACAGAAATTGAAAATACCTCGGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
*
49300278 TGA-TTCTTTCAAAAACATAATAA
66 TGATTTCTTTAAAAAACA-AA-AA
* *
49300301 TGAAAACAGAAATGGAAAATACCTCGGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 TGAAAACAGAAATTGAAAATACCTCGGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
* *
49300366 TGATTTTTTTTTAAAAAACAGAAA
66 TGA--TTTCTTTAAAAAACAAAAA
* **
49300390 TCAAAAGGC-TTAATTGAAAATACCTCGGCGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
1 TGAAAA--CAGAAATTGAAAATACCTC-G-GTGTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
49300454 GAGTTGA
62 GAGTTGA
49300461 AATTAAAACA
Statistics
Matches: 137, Mismatches: 16, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
88 60 0.44
89 7 0.05
90 15 0.11
91 14 0.10
92 41 0.30
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (87 bp):
TGAAAACAGAAATTGAAAATACCTCGGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
TGATTTCTTTAAAAAACAAAAA
Found at i:49300783 original size:76 final size:74
Alignment explanation
Indices: 49300682--49301020 Score: 441
Period size: 76 Copynumber: 4.5 Consensus size: 74
49300672 AGTGTGTAAT
*
49300682 CTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAAACAGAAATTGAAAATACCT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAAACAGAAATTGAAAATACCT
*
49300747 CAGCATGTGAAC
66 CAGC--GTG-TC
* *
49300759 C-GAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTGAAAACAGAAATTGAAAATAC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTTAAAAACAGAAATTGAAAATAC
*
49300823 CTCAACGTGTC
64 CTCAGCGTGTC
* ** * * * *
49300834 TTGAGGCTCAACTCATTTCTCGCAATATAAGTTGA--ATTTTGAAAACAGAAATTGAAATTACCT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAAACAGAAATTGAAAATACCT
49300897 CAGCGTGTC
66 CAGCGTGTC
** * *
49300906 CTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTAACAACAGAAATTGAAATTAC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTTAAAAACAGAAATTGAAAATAC
49300971 CTCAGCGTGTC
64 CTCAGCGTGTC
*
49300982 CTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
49301021 GAAAAACAAA
Statistics
Matches: 236, Mismatches: 19, Indels: 17
0.87 0.07 0.06
Matches are distributed among these distances:
72 67 0.28
74 4 0.02
75 1 0.00
76 131 0.56
77 1 0.00
78 32 0.14
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (74 bp):
CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAAACAGAAATTGAAAATACCT
CAGCGTGTC
Found at i:49300945 original size:148 final size:149
Alignment explanation
Indices: 49300682--49301038 Score: 481
Period size: 148 Copynumber: 2.4 Consensus size: 149
49300672 AGTGTGTAAT
* * *
49300682 CTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAAACAGAAATTGAAAATACCT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--ATTTTGAAAACAGAAATTGAAAATACCT
49300747 CAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTGAA-AACAGA
64 CAGCA-GTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTT-AACAACAGA
49300811 AATTGAAAATACCTCAACGTGTC
127 AATTGAAAATACCTCAACGTGTC
* ** * *
49300834 TTGAGGCTCAACTCATTTCTCGCAATATAAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCA
* ** *
49300899 GC-GTG-TCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTAACAACAGAAAT
66 GCAGTGAACC-GAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTAACAACAGAAAT
* *
49300962 TGAAATTACCTCAGCGTGTC
130 TGAAAATACCTCAACGTGTC
* *
49300982 CTGAGGCTCAACTCACCTCTAGCAATATGAGTTG-ATTTTGAAAAACAAAAATT-AAAA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTG-AAAACAGAAATTGAAAA
49301039 GGCTTAACTC
Statistics
Matches: 181, Mismatches: 21, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
147 13 0.07
148 109 0.60
150 29 0.16
152 30 0.17
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.31
Consensus pattern (149 bp):
CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCA
GCAGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTAACAACAGAAATT
GAAAATACCTCAACGTGTC
Found at i:49301186 original size:71 final size:70
Alignment explanation
Indices: 49301038--49301213 Score: 212
Period size: 71 Copynumber: 2.5 Consensus size: 70
49301028 AAAAATTAAA
* * * * * * **
49301038 AGGCTTAACTCACCTCTCGCAATATGAG-TCAATTTAAAACATAAACTAAAAATACCTCGGCGTG
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAAAAAAAACTAAAAATACCTCAACGTG
49301102 CCCCG
66 CCCCG
*
49301107 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAAAAAAAATTAAAAATACCTCAACGT
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTT-AAAAAAAAAACTAAAAATACCTCAACGT
* **
49301172 GTCTTG
65 GCCCCG
49301178 AGGCTCAACTCA-TCTCTCGCAATATGAGTTGATTTT
1 AGGCTCAACTCACT-TCTCGCAATATGAGTTGATTTT
49301214 CCTTGGAAAG
Statistics
Matches: 92, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
69 26 0.28
70 6 0.07
71 60 0.65
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.28
Consensus pattern (70 bp):
AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAAAAAAAACTAAAAATACCTCAACGTG
CCCCG
Found at i:49315027 original size:23 final size:22
Alignment explanation
Indices: 49315001--49315054 Score: 65
Period size: 23 Copynumber: 2.5 Consensus size: 22
49314991 TGTATACACG
49315001 TACATAATAAAAATATATACTAA
1 TACATAATAAAAATA-ATACTAA
* **
49315024 TACATAATAATAATAATGGTAA
1 TACATAATAAAAATAATACTAA
49315046 TAC-TAATAA
1 TACATAATAA
49315055 TACTAATAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 6 0.21
22 8 0.29
23 14 0.50
ACGTcount: A:0.57, C:0.07, G:0.04, T:0.31
Consensus pattern (22 bp):
TACATAATAAAAATAATACTAA
Found at i:49315035 original size:3 final size:3
Alignment explanation
Indices: 49315004--49315074 Score: 54
Period size: 3 Copynumber: 23.3 Consensus size: 3
49314994 ATACACGTAC
* * * * *
49315004 ATA ATA AAA ATA TATA CTA ATA CATA ATA ATA ATA ATG GTA ATA CTA
1 ATA ATA ATA ATA -ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA
* *
49315051 ATA ATA CTA ATA AT- ATA AAA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
49315075 CAAGGATATT
Statistics
Matches: 51, Mismatches: 14, Indels: 6
0.72 0.20 0.08
Matches are distributed among these distances:
2 2 0.04
3 43 0.84
4 6 0.12
ACGTcount: A:0.61, C:0.06, G:0.03, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:49315555 original size:11 final size:12
Alignment explanation
Indices: 49315539--49315574 Score: 58
Period size: 11 Copynumber: 3.2 Consensus size: 12
49315529 AGAAAAAAAA
49315539 GAAGAGAG-AGG
1 GAAGAGAGAAGG
49315550 GAAGAGAGAAGG
1 GAAGAGAGAAGG
49315562 G-AGAGAGAAGG
1 GAAGAGAGAAGG
49315573 GA
1 GA
49315575 GGGGGAAAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 19 0.83
12 4 0.17
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (12 bp):
GAAGAGAGAAGG
Found at i:49316057 original size:22 final size:21
Alignment explanation
Indices: 49316032--49316083 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 21
49316022 AGTGTCAGAC
49316032 GGTATGGGACTGTTGTAGTGGA
1 GGTATGGG-CTGTTGTAGTGGA
*
49316054 GGTATAGGGCTGTTGTAGTGGG
1 GGTAT-GGGCTGTTGTAGTGGA
49316076 GGTATGGG
1 GGTATGGG
49316084 GTTGCTTCAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 3 0.11
22 22 0.79
23 3 0.11
ACGTcount: A:0.15, C:0.04, G:0.50, T:0.31
Consensus pattern (21 bp):
GGTATGGGCTGTTGTAGTGGA
Found at i:49318375 original size:22 final size:22
Alignment explanation
Indices: 49318341--49318432 Score: 141
Period size: 22 Copynumber: 4.2 Consensus size: 22
49318331 AAATTCAATA
49318341 TCAATTTCCTTCAAAAATTCTC
1 TCAATTTCCTTCAAAAATTCTC
49318363 TCAA-TTCCTTTCAAAAATTCTC
1 TCAATTTCC-TTCAAAAATTCTC
* *
49318385 TCAATTCCCTTCAAAATTTCTC
1 TCAATTTCCTTCAAAAATTCTC
*
49318407 TCAATTTCCTTCCAAAATTCTC
1 TCAATTTCCTTCAAAAATTCTC
49318429 TCAA
1 TCAA
49318433 ACTCTCAAAT
Statistics
Matches: 63, Mismatches: 5, Indels: 4
0.88 0.07 0.06
Matches are distributed among these distances:
21 4 0.06
22 56 0.89
23 3 0.05
ACGTcount: A:0.30, C:0.29, G:0.00, T:0.40
Consensus pattern (22 bp):
TCAATTTCCTTCAAAAATTCTC
Found at i:49318438 original size:30 final size:30
Alignment explanation
Indices: 49318404--49318462 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
49318394 TTCAAAATTT
* *
49318404 CTCTCAATTTCCTTCCAAAATTCTCTCAAA
1 CTCTCAAATTCCTTCCAAAATCCTCTCAAA
49318434 CTCTCAAATTCCTTCCAAAATCCTCTCAA
1 CTCTCAAATTCCTTCCAAAATCCTCTCAA
49318463 TTTCCTTCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.36, G:0.00, T:0.34
Consensus pattern (30 bp):
CTCTCAAATTCCTTCCAAAATCCTCTCAAA
Found at i:49318448 original size:52 final size:51
Alignment explanation
Indices: 49318382--49318484 Score: 138
Period size: 52 Copynumber: 2.0 Consensus size: 51
49318372 TTCAAAAATT
* * *
49318382 CTCTCAATTCCCTT-CAAAATTTCTCTCAATTTCCTTCCAAAATTCTCTCAAA
1 CTCTCAATTCCCTTCCAAAA-TCCTCTCAATTTCCTTCAAAAAATCTC-CAAA
49318434 CTCTCAAATT-CCTTCCAAAATCCTCTCAATTTCCTTCAAAAAATCTCCAAA
1 CTCTC-AATTCCCTTCCAAAATCCTCTCAATTTCCTTCAAAAAATCTCCAAA
49318485 TCCATATTAA
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
51 4 0.09
52 33 0.72
53 9 0.20
ACGTcount: A:0.32, C:0.33, G:0.00, T:0.35
Consensus pattern (51 bp):
CTCTCAATTCCCTTCCAAAATCCTCTCAATTTCCTTCAAAAAATCTCCAAA
Found at i:49318473 original size:21 final size:22
Alignment explanation
Indices: 49318434--49318475 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
49318424 TTCTCTCAAA
49318434 CTCTCAAATTCCTTCCAAAATC
1 CTCTCAAATTCCTTCCAAAATC
* *
49318456 CTCTCAATTTCCTTCAAAAA
1 CTCTCAAATTCCTTCCAAAA
49318476 ATCTCCAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (22 bp):
CTCTCAAATTCCTTCCAAAATC
Found at i:49318550 original size:28 final size:27
Alignment explanation
Indices: 49318517--49318573 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 27
49318507 ATTAAATTTC
49318517 ATTTTTTTAAGAAAATTTGAAAAATTTTT
1 ATTTTTTTAA-AAAATTT-AAAAATTTTT
* *
49318546 ATTTTTTTAAATAATTTTAAAATTTTT
1 ATTTTTTTAAAAAATTTAAAAATTTTT
49318573 A
1 A
49318574 ATATTTTCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 10 0.38
28 6 0.23
29 10 0.38
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (27 bp):
ATTTTTTTAAAAAATTTAAAAATTTTT
Found at i:49318700 original size:14 final size:15
Alignment explanation
Indices: 49318671--49318704 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
49318661 AAATTTTAAA
49318671 TTTTATTTAAGATAT
1 TTTTATTTAAGATAT
*
49318686 TTTTATTTATG-TAT
1 TTTTATTTAAGATAT
49318700 TTTTA
1 TTTTA
49318705 GATATTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (15 bp):
TTTTATTTAAGATAT
Found at i:49322692 original size:123 final size:124
Alignment explanation
Indices: 49322479--49322713 Score: 375
Period size: 123 Copynumber: 1.9 Consensus size: 124
49322469 GCGATTTGAC
49322479 ACTATTTGCTCAGAAACGTCAAAAAAAAATTATTTCCTACATGACCAACTGTAGCGAAATCGCGT
1 ACTATTTGCTCAGAAACGTC-AAAAAAAATTATTTCCTACATGACCAACTGTAGCGAAATCGCGT
*** *
49322544 CCACGAGGGTGCGATTTCACAATTTCTTCTCATATAGCATCCTGGTATCAGTGATTTTAT
65 CCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTATCAGTGATTTTAT
*
49322604 ACTATTTGCTCAGAAAACGTC-AAAAAAATTATTTCTTACATGACC-ACTGTAGCGAAATCGCGT
1 ACTATTTGCTCAG-AAACGTCAAAAAAAATTATTTCCTACATGACCAACTGTAGCGAAATCGCGT
* *
49322667 CCACGAGGCCACTATTTCACAATTTCTTCTTAAATAGCATCCTGGTA
65 CCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTA
49322714 GAAGCGATTT
Statistics
Matches: 102, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
123 59 0.58
124 23 0.23
125 13 0.13
126 7 0.07
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.31
Consensus pattern (124 bp):
ACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCCTACATGACCAACTGTAGCGAAATCGCGTC
CACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTATCAGTGATTTTAT
Found at i:49322723 original size:123 final size:124
Alignment explanation
Indices: 49322469--49322733 Score: 372
Period size: 123 Copynumber: 2.1 Consensus size: 124
49322459 CCACGAGGGC
49322469 GCGATTTGACACTATTTGCTCAGAAACGTCAAAAAAAAATTATTTCCTACATGACCAACTGTAGC
1 GCGATTTGACACTATTTGCTCAGAAACGTC-AAAAAAAATTATTTCCTACATGACCAACTGTAGC
*** * **
49322534 GAAATCGCGTCCACGAGGGTGCGATTTCACAATTTCTTCTCATATAGCATCCTGGTATCA
65 GAAATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAA
* * * *
49322594 GTGATTTTATACTATTTGCTCAGAAAACGTC-AAAAAAATTATTTCTTACATGACC-ACTGTAGC
1 GCGATTTGACACTATTTGCTCAG-AAACGTCAAAAAAAATTATTTCCTACATGACCAACTGTAGC
* *
49322657 GAAATCGCGTCCACGAGGCCACTATTTCACAATTTCTTCTTAAATAGCATCCTGGTAGAA
65 GAAATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAA
**
49322717 GCGATTTCCCACTATTT
1 GCGATTTGACACTATTT
49322734 AACCAGATAC
Statistics
Matches: 123, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
123 73 0.59
124 23 0.19
125 20 0.16
126 7 0.06
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (124 bp):
GCGATTTGACACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCCTACATGACCAACTGTAGCG
AAATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAA
Found at i:49326556 original size:15 final size:16
Alignment explanation
Indices: 49326538--49326568 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
49326528 TTTTAACAAA
49326538 AAATT-AAAACAAATG
1 AAATTAAAAACAAATG
49326553 AAATTAAAAACAAATG
1 AAATTAAAAACAAATG
49326569 CGTATATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.68, C:0.06, G:0.06, T:0.19
Consensus pattern (16 bp):
AAATTAAAAACAAATG
Found at i:49329160 original size:111 final size:111
Alignment explanation
Indices: 49328966--49329181 Score: 360
Period size: 111 Copynumber: 1.9 Consensus size: 111
49328956 GAGCTAGAGC
* ***
49328966 CTTTGTTCCACCCACCAGATTGACTCCAACTAGAGGATTGGCCTCCTTGATCAGCAGTGGATTGA
1 CTTTGTTCCACCCACCAGACTGACTCCAACTAGAGGATTGGCCTCCTTGATCAGCACCAGATTGA
**
49329031 TTCCAAGTCTTGGCTCCACCTCCACTTGTTCCACCATTCCCCCCCT
66 TTCCAAGTCTTACCTCCACCTCCACTTGTTCCACCATTCCCCCCCT
*
49329077 CTTTGTTCCAGCCACCAGACTGACTCCAACTAGAGGATTGGCCTCCTTGATCAGCACCAGATTGA
1 CTTTGTTCCACCCACCAGACTGACTCCAACTAGAGGATTGGCCTCCTTGATCAGCACCAGATTGA
*
49329142 TTCCAATTCTTACCTCCACCTCCACTTGTTCCACCATTCC
66 TTCCAAGTCTTACCTCCACCTCCACTTGTTCCACCATTCC
49329182 AGCCCTGGTT
Statistics
Matches: 97, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
111 97 1.00
ACGTcount: A:0.20, C:0.36, G:0.15, T:0.29
Consensus pattern (111 bp):
CTTTGTTCCACCCACCAGACTGACTCCAACTAGAGGATTGGCCTCCTTGATCAGCACCAGATTGA
TTCCAAGTCTTACCTCCACCTCCACTTGTTCCACCATTCCCCCCCT
Found at i:49329454 original size:30 final size:30
Alignment explanation
Indices: 49329418--49329512 Score: 109
Period size: 30 Copynumber: 3.2 Consensus size: 30
49329408 ACCTCTTCCA
* * ** *
49329418 CCTCTACCTCTGTAGCCACCTCTGTCACCT
1 CCTCTACCTCCGTAGCCACCACCATCACCG
* *
49329448 CCTCTACCTCCGAAGCCTCCACCATCACCG
1 CCTCTACCTCCGTAGCCACCACCATCACCG
* *
49329478 CCTCTACCTCCGTAGCCTCCACCATCACCA
1 CCTCTACCTCCGTAGCCACCACCATCACCG
49329508 CCTCT
1 CCTCT
49329513 GCCACCAAAA
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 56 1.00
ACGTcount: A:0.17, C:0.52, G:0.08, T:0.23
Consensus pattern (30 bp):
CCTCTACCTCCGTAGCCACCACCATCACCG
Found at i:49329527 original size:30 final size:30
Alignment explanation
Indices: 49329442--49329527 Score: 82
Period size: 30 Copynumber: 2.9 Consensus size: 30
49329432 GCCACCTCTG
* * * *
49329442 TCACCTCCTCTACCTCCGAAGCCTCCACCA
1 TCACCACCTCTACCACCAAAACCTCCACCA
* * ** *
49329472 TCACCGCCTCTACCTCCGTAGCCTCCACCA
1 TCACCACCTCTACCACCAAAACCTCCACCA
*
49329502 TCACCACCTCTGCCACCAAAACCTCC
1 TCACCACCTCTACCACCAAAACCTCC
49329528 TCTGTCAGAT
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 48 1.00
ACGTcount: A:0.21, C:0.53, G:0.07, T:0.19
Consensus pattern (30 bp):
TCACCACCTCTACCACCAAAACCTCCACCA
Found at i:49329998 original size:93 final size:93
Alignment explanation
Indices: 49329832--49330033 Score: 309
Period size: 93 Copynumber: 2.2 Consensus size: 93
49329822 GTTCCAACCA
*
49329832 CCTTTTTTGCCCCAACCAGAGTCTTGGCCAGAATCATTTCCAGTACCGCAACTTTTCTTACCCCA
1 CCTTTTTTGCCCCAACCAGAGTCTTGGCCAGAATCATTTCCAGTACCCCAACTTTTCTTACCCCA
*
49329897 GCTTGAATCCTGACTTGCATCTG-TCGAT
66 GCTTGAATCCTGACTTGCATCCGCT-GAT
* * *
49329925 CCTTTTTTGCCCCAACCAGAGTCTTGGCCAGCATCATTTCCAGTGCCCCAATTTTTCTTACCCCA
1 CCTTTTTTGCCCCAACCAGAGTCTTGGCCAGAATCATTTCCAGTACCCCAACTTTTCTTACCCCA
49329990 G-TTAGAATCCTGACTTGCATCCGCTGAT
66 GCTT-GAATCCTGACTTGCATCCGCTGAT
* *
49330018 CCCTTTTTCCCCCAAC
1 CCTTTTTTGCCCCAAC
49330034 TAGAATCATT
Statistics
Matches: 100, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
92 2 0.02
93 97 0.97
94 1 0.01
ACGTcount: A:0.19, C:0.35, G:0.14, T:0.32
Consensus pattern (93 bp):
CCTTTTTTGCCCCAACCAGAGTCTTGGCCAGAATCATTTCCAGTACCCCAACTTTTCTTACCCCA
GCTTGAATCCTGACTTGCATCCGCTGAT
Found at i:49343179 original size:17 final size:17
Alignment explanation
Indices: 49343153--49343189 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
49343143 TGTTTGACTG
49343153 AAAATGATTTTTTTTAAA
1 AAAATGA-TTTTTTTAAA
49343171 AAAAT-ATTTTTTTAAA
1 AAAATGATTTTTTTAAA
49343187 AAA
1 AAA
49343190 TTAAAATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 13 0.68
17 1 0.05
18 5 0.26
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (17 bp):
AAAATGATTTTTTTAAA
Found at i:49348007 original size:31 final size:31
Alignment explanation
Indices: 49347969--49348034 Score: 107
Period size: 31 Copynumber: 2.1 Consensus size: 31
49347959 AACAACCCAT
49347969 TGACTTAAATAAAAACTTTT-AAATAGTTTAG
1 TGACTTAAATAAAAA-TTTTCAAATAGTTTAG
*
49348000 TGACTTAAATGAAAATTTTCAAATAGTTTAG
1 TGACTTAAATAAAAATTTTCAAATAGTTTAG
49348031 TGAC
1 TGAC
49348035 CAAAATGTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
30 4 0.12
31 29 0.88
ACGTcount: A:0.42, C:0.08, G:0.12, T:0.38
Consensus pattern (31 bp):
TGACTTAAATAAAAATTTTCAAATAGTTTAG
Found at i:49348041 original size:31 final size:31
Alignment explanation
Indices: 49347975--49348041 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 31
49347965 CCATTGACTT
* **
49347975 AAATAAAAACTTTTAAATAGTTTAGTGACTT
1 AAATGAAAACTTTTAAATAGTTTAGTGACCA
49348006 AAATGAAAA-TTTTCAAATAGTTTAGTGACCA
1 AAATGAAAACTTTT-AAATAGTTTAGTGACCA
49348037 AAATG
1 AAATG
49348042 TAACGTTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
30 4 0.12
31 28 0.88
ACGTcount: A:0.46, C:0.07, G:0.12, T:0.34
Consensus pattern (31 bp):
AAATGAAAACTTTTAAATAGTTTAGTGACCA
Found at i:49349110 original size:2 final size:2
Alignment explanation
Indices: 49349097--49349126 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
49349087 AGAATGTAAG
*
49349097 AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
49349127 TGAAGGTGAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:49349568 original size:25 final size:25
Alignment explanation
Indices: 49349522--49349570 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
49349512 AATATATATT
*
49349522 TAATATATAATTCAGATTAAAAGTC
1 TAATATATAATTCAGATAAAAAGTC
*
49349547 TAATATATATATTTA-ATAAAAAGT
1 TAATATATA-ATTCAGATAAAAAGT
49349571 ATATTTGATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 17 0.81
26 4 0.19
ACGTcount: A:0.51, C:0.04, G:0.06, T:0.39
Consensus pattern (25 bp):
TAATATATAATTCAGATAAAAAGTC
Found at i:49358071 original size:12 final size:13
Alignment explanation
Indices: 49358046--49358070 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
49358036 CAAAAATTCA
49358046 AAAAATTATTTTT
1 AAAAATTATTTTT
49358059 AAAAATTATTTT
1 AAAAATTATTTT
49358071 ATTTTTTTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
AAAAATTATTTTT
Found at i:49363522 original size:67 final size:66
Alignment explanation
Indices: 49363358--49363593 Score: 314
Period size: 67 Copynumber: 3.6 Consensus size: 66
49363348 TTGATTTATT
* * *
49363358 TATTGAATTTTCATTCTTTTATGAACTTCAATTATTTGCATATATTTGCATTATG--TTATTTTT
1 TATTGAATTTTCATTCTTGTATGAACTTCAATTATTTACATATATTTGCATTATGTTTTGTTTTT
49363421 C
66 C
*
49363422 TATTGAATTTTCATTCTTGTATGAACTTCAATTATTTACTTATATTTGCATTATGTTTCTGTTTT
1 TATTGAATTTTCATTCTTGTATGAACTTCAATTATTTACATATATTTGCATTATGTTT-TGTTTT
49363487 TC
65 TC
* * * * * *
49363489 TATTGAATTTTCATTCTTGTATCAATTTAAATTATTTAAATATATCTGTATTATGTTTTTGTTTT
1 TATTGAATTTTCATTCTTGTATGAACTTCAATTATTTACATATATTTGCATTATG-TTTTGTTTT
49363554 TC
65 TC
* * * *
49363556 TATTGAGTTTTCACTCTTATATAAACTTCAATTATTTA
1 TATTGAATTTTCATTCTTGTATGAACTTCAATTATTTA
49363594 GATAAACTTG
Statistics
Matches: 151, Mismatches: 17, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
64 52 0.34
66 1 0.01
67 95 0.63
68 3 0.02
ACGTcount: A:0.26, C:0.11, G:0.08, T:0.56
Consensus pattern (66 bp):
TATTGAATTTTCATTCTTGTATGAACTTCAATTATTTACATATATTTGCATTATGTTTTGTTTTT
C
Found at i:49370116 original size:19 final size:18
Alignment explanation
Indices: 49370068--49370119 Score: 54
Period size: 19 Copynumber: 2.9 Consensus size: 18
49370058 AAAAATATTA
*
49370068 TTAAAAA-ATAATTTAAC
1 TTAAAAATATAATTAAAC
* *
49370085 -TAATAATAAAATTAATAC
1 TTAAAAATATAATTAA-AC
49370103 TTAAAAATATAATTAAA
1 TTAAAAATATAATTAAA
49370120 ATAAAATATA
Statistics
Matches: 27, Mismatches: 5, Indels: 5
0.73 0.14 0.14
Matches are distributed among these distances:
16 5 0.19
17 6 0.22
18 3 0.11
19 13 0.48
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.35
Consensus pattern (18 bp):
TTAAAAATATAATTAAAC
Found at i:49378853 original size:22 final size:22
Alignment explanation
Indices: 49378806--49378858 Score: 56
Period size: 21 Copynumber: 2.4 Consensus size: 22
49378796 AAAGAAAGGA
49378806 AAAATTGTAAAGAGAAATAGAGG
1 AAAATTG-AAAGAGAAATAGAGG
*
49378829 -AAATTGAAAGA-AAGATTGAGAG
1 AAAATTGAAAGAGAA-ATAGAG-G
49378851 AAAATTGA
1 AAAATTGA
49378859 GAGGGGGAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 2 0.08
21 10 0.38
22 7 0.27
23 7 0.27
ACGTcount: A:0.57, C:0.00, G:0.25, T:0.19
Consensus pattern (22 bp):
AAAATTGAAAGAGAAATAGAGG
Found at i:49381978 original size:19 final size:20
Alignment explanation
Indices: 49381941--49381979 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
49381931 GTTATTTTTC
* *
49381941 GAAAAATTAATTTTGATCAA
1 GAAAAATTAATATTAATCAA
49381961 GAAAAATTAA-ATTAATCAA
1 GAAAAATTAATATTAATCAA
49381980 ATCAATAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.56, C:0.05, G:0.08, T:0.31
Consensus pattern (20 bp):
GAAAAATTAATATTAATCAA
Found at i:49382346 original size:19 final size:17
Alignment explanation
Indices: 49382331--49382421 Score: 66
Period size: 17 Copynumber: 5.4 Consensus size: 17
49382321 ATTTTAATAT
49382331 TTTAATATTAAATTAAA
1 TTTAATATTAAATTAAA
49382348 TTTAATACTT--ATCTAAA
1 TTTAATA-TTAAAT-TAAA
* **
49382365 --TAGTATTTTATT-AA
1 TTTAATATTAAATTAAA
*
49382379 TTTAATATTAAATTGATTA
1 TTTAATATTAAATT-A-AA
49382398 TCTTAATATTAAATTAAA
1 T-TTAATATTAAATTAAA
49382416 TTTAAT
1 TTTAAT
49382422 GTTTATCTTT
Statistics
Matches: 58, Mismatches: 6, Indels: 20
0.69 0.07 0.24
Matches are distributed among these distances:
14 4 0.07
15 5 0.09
16 13 0.22
17 16 0.28
18 4 0.07
19 3 0.05
20 13 0.22
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.51
Consensus pattern (17 bp):
TTTAATATTAAATTAAA
Found at i:49386061 original size:20 final size:20
Alignment explanation
Indices: 49386036--49386075 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
49386026 GAATGTAACA
* *
49386036 ATTAAATTAAAAATAGAAAT
1 ATTAAAATAAAAATAAAAAT
49386056 ATTAAAATAAAAATAAAAAT
1 ATTAAAATAAAAATAAAAAT
49386076 GGCTAAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.28
Consensus pattern (20 bp):
ATTAAAATAAAAATAAAAAT
Found at i:49388028 original size:3 final size:3
Alignment explanation
Indices: 49388022--49388048 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
49388012 TATTGTGTTA
49388022 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
49388049 AATATTTCTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:49392717 original size:90 final size:90
Alignment explanation
Indices: 49392521--49392723 Score: 232
Period size: 90 Copynumber: 2.2 Consensus size: 90
49392511 GTTGTGGGTA
* * ***
49392521 AACCACAAAAATTGCAGGTTAATACACTGTTAGATGGTTGTGAATACACTAACATAATTACAGAT
1 AACCACCAGAATTGCAGGTTAATACACTACCAGATGGTTGTGAATACACTAACATAATTACAGAT
*
49392586 TAAAGCTGCCAGATAATGGATGGGCG
66 CAAAGCTGCCAGATAAT-GATGGGCG
** * * *
49392612 AACCACCAGTGTTGCAGGTTAATACGCTACCAGATGGTTTTGAATACAC-AACATAATTGCAGA-
1 AACCACCAGAATTGCAGGTTAATACACTACCAGATGGTTGTGAATACACTAACATAATTACAGAT
*
49392675 CAATAGCTGCCAGATAAT-ATGTGGATG
66 CAA-AGCTGCCAGATAATGATG-GG-CG
*
49392702 AACCACCAGAATTGCAGATTAA
1 AACCACCAGAATTGCAGGTTAA
49392724 GAATCTGCCA
Statistics
Matches: 94, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
88 3 0.03
89 4 0.04
90 47 0.50
91 40 0.43
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.25
Consensus pattern (90 bp):
AACCACCAGAATTGCAGGTTAATACACTACCAGATGGTTGTGAATACACTAACATAATTACAGAT
CAAAGCTGCCAGATAATGATGGGCG
Found at i:49402172 original size:7 final size:7
Alignment explanation
Indices: 49402157--49402186 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
49402147 TAAATTATAT
*
49402157 TAATATA
1 TAATTTA
49402164 TAATTTA
1 TAATTTA
49402171 TAATTTA
1 TAATTTA
49402178 TAATTTA
1 TAATTTA
49402185 TA
1 TA
49402187 GTAAGGCGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (7 bp):
TAATTTA
Found at i:49402321 original size:16 final size:16
Alignment explanation
Indices: 49402300--49402332 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
49402290 TTCGCTGTAT
49402300 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
*
49402316 TGGAATAGAGGTGTAA
1 TGGAATAGAGGCGTAA
49402332 T
1 T
49402333 AACAAATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.36, C:0.03, G:0.36, T:0.24
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:49402539 original size:16 final size:16
Alignment explanation
Indices: 49402502--49402543 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
49402492 TTAATCATAT
*
49402502 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
49402518 TT-AAATATATTATAA
1 TTAAAATATATTATAA
49402533 TTAAAATATAT
1 TTAAAATATAT
49402544 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:49402550 original size:14 final size:15
Alignment explanation
Indices: 49402511--49402552 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
49402501 TTTAAACATA
*
49402511 ATTATTATTAAATAT
1 ATTATAATTAAATAT
49402526 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
49402540 A-TATAATTTAATA
1 ATTATAATTAAATA
49402553 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:49402602 original size:61 final size:61
Alignment explanation
Indices: 49402537--49402724 Score: 199
Period size: 61 Copynumber: 3.1 Consensus size: 61
49402527 TTATAATTAA
49402537 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
* * * * * * * * * *
49402598 AATATATGATACT-ATAAAA-TATAAATTAA-C-ATAATTATTAT-TAAATATA-TTATAATTAA
1 AATATATAAT-TTAATAAAATTCTTAA-TAATCAAT-ATTCTTATATGAATTTACTCA-AATCAT
*
49402657 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
49402718 AATATAT
1 AATATAT
49402725 GATACTATAA
Statistics
Matches: 96, Mismatches: 21, Indels: 20
0.70 0.15 0.15
Matches are distributed among these distances:
58 3 0.03
59 30 0.31
60 23 0.24
61 37 0.39
62 3 0.03
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.43
Consensus pattern (61 bp):
AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
Found at i:49402650 original size:120 final size:120
Alignment explanation
Indices: 49402505--49402797 Score: 559
Period size: 120 Copynumber: 2.4 Consensus size: 120
49402495 ATCATATTTA
49402505 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
49402570 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
*
49402625 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
49402690 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
* *
49402745 AACATAATTATTATTAAATATATTATAACTATAATATATAATTTAATAAAATT
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
49402798 NNNNNNNNNN
Statistics
Matches: 170, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
120 170 1.00
ACGTcount: A:0.51, C:0.06, G:0.01, T:0.42
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
Found at i:49402670 original size:14 final size:15
Alignment explanation
Indices: 49402621--49402672 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
49402611 ATAAAATATA
49402621 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
49402636 TATTAAATATATTAT
1 AATTAAATATATTAT
49402651 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
49402664 AATTTAATA
1 AATTAAATA
49402673 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:49402674 original size:59 final size:58
Alignment explanation
Indices: 49402505--49402796 Score: 220
Period size: 59 Copynumber: 4.9 Consensus size: 58
49402495 ATCATATTTA
* * *
49402505 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAAT
1 AACATAATTATTATTAAATATATTATAATTATAATATATAATTTAATAAAA-TATAAAT
* * * * * * *
49402564 AATCA-ATATTCTTATATGAATTTACTCA-AATCATAATATATGATACT-ATAAAATATAAATT
1 AA-CATA-ATTATTAT-TAAATATA-TTATAATTATAATATATAAT-TTAATAAAATATAAA-T
* * *
49402625 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAAT
1 AACATAATTATTATTAAATATATTATAATTATAATATATAATTTAATAAAA-TATAAAT
* * * * * *
49402684 AA-TTAA-TATTCTTATATGA-ATTTACTCAAATCATAATATATGATACT-ATAAAATATAAATT
1 AACATAATTATTATTAAAT-ATA-TTA-T--AATTATAATATATAAT-TTAATAAAATATAAA-T
*
49402745 AACATAATTATTATTAAATATATTATAACTATAATATATAATTTAATAAAAT
1 AACATAATTATTATTAAATATATTATAATTATAATATATAATTTAATAAAAT
49402797 TNNNNNNNNN
Statistics
Matches: 176, Mismatches: 36, Indels: 42
0.69 0.14 0.17
Matches are distributed among these distances:
57 10 0.06
58 11 0.06
59 52 0.30
60 30 0.17
61 52 0.30
62 11 0.06
63 10 0.06
ACGTcount: A:0.51, C:0.06, G:0.01, T:0.42
Consensus pattern (58 bp):
AACATAATTATTATTAAATATATTATAATTATAATATATAATTTAATAAAATATAAAT
Found at i:49405659 original size:6 final size:6
Alignment explanation
Indices: 49405648--49405673 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
49405638 TAGTTTGAAC
49405648 ATTTAA ATTTAA ATTTAA ATTTAA AT
1 ATTTAA ATTTAA ATTTAA ATTTAA AT
49405674 ATAATTTCGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
ATTTAA
Found at i:49405789 original size:17 final size:17
Alignment explanation
Indices: 49405758--49405796 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
49405748 ATGATTAGTT
49405758 TAATT-AAGATTGAACA
1 TAATTAAAGATTGAACA
*
49405774 TAATTAAAGGTTGAACA
1 TAATTAAAGATTGAACA
49405791 TAATTA
1 TAATTA
49405797 TTATTTGAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 5 0.24
17 16 0.76
ACGTcount: A:0.49, C:0.05, G:0.13, T:0.33
Consensus pattern (17 bp):
TAATTAAAGATTGAACA
Found at i:49406190 original size:12 final size:12
Alignment explanation
Indices: 49406173--49406197 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
49406163 AATATGTTTT
49406173 CATAATTTTAAC
1 CATAATTTTAAC
49406185 CATAATTTTAAC
1 CATAATTTTAAC
49406197 C
1 C
49406198 CAGATAAGGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.20, G:0.00, T:0.40
Consensus pattern (12 bp):
CATAATTTTAAC
Found at i:49410986 original size:34 final size:34
Alignment explanation
Indices: 49410925--49410989 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
49410915 GGTTGTTAAT
**
49410925 AGTTCGATACAGTGGCAAATGTTATGCTTATGAC
1 AGTTCGATACAGTGGCAAATGGCATGCTTATGAC
*
49410959 AGTTCGTTACAGTGGCCAAA-GGCATGCTTAT
1 AGTTCGATACAGTGG-CAAATGGCATGCTTAT
49410990 CATGCGTTCG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
34 23 0.85
35 4 0.15
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.31
Consensus pattern (34 bp):
AGTTCGATACAGTGGCAAATGGCATGCTTATGAC
Done.