Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: 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: 47972186
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2603476 characters in sequence are not A, C, G, or T
File 136 of 145
Found at i:44736909 original size:137 final size:138
Alignment explanation
Indices: 44736644--44736929 Score: 522
Period size: 137 Copynumber: 2.1 Consensus size: 138
44736634 ATAATTAATT
*
44736644 AATAATATTGACTTGATACCCTAAATAAAAATTAAAGTAAAGTGCCATGCAATAATAAGCAACCC
1 AATAATCTTGACTTGATACCCTAAATAAAAATTAAAGTAAAGTGCCATGCAATAATAAGCAACCC
*
44736709 TAAATCTTAAATCCCATGCCATAGTTTCAAAATAAAATATTATAGTCCTTGAATTAATAAAATAA
66 TAAATCCTAAATCCCATGCCATAGTTTCAAAATAAAATATTATAGTCCTTGAATTAATAAAATAA
*
44736774 ATCATAA-
131 ACCATAAG
44736781 AAGTAATCTTGACTTGATA-CCTAAATAAAAATTAAAGTAAAGTGCCATGCAATAATAAGCAACC
1 AA-TAATCTTGACTTGATACCCTAAATAAAAATTAAAGTAAAGTGCCATGCAATAATAAGCAACC
44736845 CTAAATCCTAAATCCCATGCCATAGTTTCAAAATAAAATATTATAGTCCTTGAATTAATAAAATA
65 CTAAATCCTAAATCCCATGCCATAGTTTCAAAATAAAATATTATAGTCCTTGAATTAATAAAATA
44736910 AACCATAAG
130 AACCATAAG
44736919 AATAATCTTGA
1 AATAATCTTGA
44736930 ATAAATCAAA
Statistics
Matches: 144, Mismatches: 3, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
137 127 0.88
138 17 0.12
ACGTcount: A:0.47, C:0.16, G:0.09, T:0.29
Consensus pattern (138 bp):
AATAATCTTGACTTGATACCCTAAATAAAAATTAAAGTAAAGTGCCATGCAATAATAAGCAACCC
TAAATCCTAAATCCCATGCCATAGTTTCAAAATAAAATATTATAGTCCTTGAATTAATAAAATAA
ACCATAAG
Found at i:44738088 original size:25 final size:24
Alignment explanation
Indices: 44738060--44738141 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 24
44738050 ATGTAAATGA
44738060 GAAGCTCTTTCGAGCCATATAACAG
1 GAAGCTCTTTCGAGCCA-ATAACAG
* * *
44738085 GAAGCTCATGT-GAGCTAAGTAACGG
1 GAAGCTC-TTTCGAGCCAA-TAACAG
* *
44738110 GAAGCTCTTGCGAGCCAAATACCAG
1 GAAGCTCTTTCGAGCC-AATAACAG
44738135 GAAGCTC
1 GAAGCTC
44738142 AAGAGAGCTA
Statistics
Matches: 45, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
24 2 0.04
25 39 0.87
26 4 0.09
ACGTcount: A:0.32, C:0.23, G:0.26, T:0.20
Consensus pattern (24 bp):
GAAGCTCTTTCGAGCCAATAACAG
Found at i:44738149 original size:25 final size:24
Alignment explanation
Indices: 44738071--44738199 Score: 80
Period size: 25 Copynumber: 5.2 Consensus size: 24
44738061 AAGCTCTTTC
* *
44738071 GAGCCATATAACAGGAAGCTCATGT
1 GAGCCAAATAAC-GGAAGCTCATGA
* * * *
44738096 GAGCTAAGTAACGGGAAGCTCTTGC
1 GAGCCAAATAAC-GGAAGCTCATGA
* *
44738121 GAGCCAAATACCAGGAAGCTCAAGA
1 GAGCCAAATAAC-GGAAGCTCATGA
* *
44738146 GAG-CTATTAATCGGAAAGCTCATGA
1 GAGCCAAATAA-CGG-AAGCTCATGA
* * *
44738171 GAGCCAAGTATCGGAAAGCTCAAGA
1 GAGCCAAATAACGG-AAGCTCATGA
44738196 GAGC
1 GAGC
44738200 TGTGGTGTGT
Statistics
Matches: 80, Mismatches: 21, Indels: 6
0.75 0.20 0.06
Matches are distributed among these distances:
24 6 0.08
25 70 0.88
26 4 0.05
ACGTcount: A:0.36, C:0.20, G:0.27, T:0.16
Consensus pattern (24 bp):
GAGCCAAATAACGGAAGCTCATGA
Found at i:44738165 original size:50 final size:50
Alignment explanation
Indices: 44738061--44738200 Score: 149
Period size: 50 Copynumber: 2.8 Consensus size: 50
44738051 TGTAAATGAG
* * * * *
44738061 AAGCTCTTTCGAGCCATATAACAGGAAGCTCATGTGAGCTAAGTAACGGG
1 AAGCTCTTGCGAGCCAAATAACAGGAAGCTCAAGAGAGCTAAGTAACGGA
* *
44738111 AAGCTCTTGCGAGCCAAATACCAGGAAGCTCAAGAGAGCT-ATTAATCGGA
1 AAGCTCTTGCGAGCCAAATAACAGGAAGCTCAAGAGAGCTAAGTAA-CGGA
* * * *
44738161 AAGCTCATGAGAGCCAAGTATC-GGAAAGCTCAAGAGAGCT
1 AAGCTCTTGCGAGCCAAATAACAGG-AAGCTCAAGAGAGCT
44738201 GTGGTGTGTT
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
49 6 0.08
50 71 0.92
ACGTcount: A:0.35, C:0.21, G:0.26, T:0.19
Consensus pattern (50 bp):
AAGCTCTTGCGAGCCAAATAACAGGAAGCTCAAGAGAGCTAAGTAACGGA
Found at i:44740788 original size:85 final size:86
Alignment explanation
Indices: 44740636--44740829 Score: 275
Period size: 85 Copynumber: 2.3 Consensus size: 86
44740626 AGATAAAAAC
* * *
44740636 ATTTGCAGTTACTGCCACTTGTTGTGAGTGCACAACATGGTTGCAGATTAAACAAACTGTCACTG
1 ATTTGCAGTTACTGCCACTTGTTGTAAGTGCACAACATGATTGCAGATTAAACAAACTGCCACTG
*
44740701 GG-TTTGTGAACGAGCTACAT
66 GGTTTTGTGAACGAGCCACAT
** * * *
44740721 ATTTTTAGTTATTGCTACTTGTTGTAAGTGCACAACAT-ATTCGCAGATTAAACAAACTGCCATT
1 ATTTGCAGTTACTGCCACTTGTTGTAAGTGCACAACATGATT-GCAGATTAAACAAACTGCCACT
*
44740785 GGGTTTTGTGGACGAGCCACAT
65 GGGTTTTGTGAACGAGCCACAT
44740807 ATTTGCAGTTACTGCCACTTGTT
1 ATTTGCAGTTACTGCCACTTGTT
44740830 TGCACAACAT
Statistics
Matches: 93, Mismatches: 14, Indels: 3
0.85 0.13 0.03
Matches are distributed among these distances:
84 2 0.02
85 56 0.60
86 35 0.38
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.34
Consensus pattern (86 bp):
ATTTGCAGTTACTGCCACTTGTTGTAAGTGCACAACATGATTGCAGATTAAACAAACTGCCACTG
GGTTTTGTGAACGAGCCACAT
Found at i:44751855 original size:9 final size:9
Alignment explanation
Indices: 44751795--44751854 Score: 52
Period size: 9 Copynumber: 6.8 Consensus size: 9
44751785 AGGCAACTTT
44751795 TTTTTTTGC
1 TTTTTTTGC
**
44751804 GCTTTTTGC
1 TTTTTTTGC
*
44751813 TTCTTCTT-C
1 TT-TTTTTGC
44751822 TTTTTTTGC
1 TTTTTTTGC
**
44751831 GCTTTTTGC
1 TTTTTTTGC
44751840 TTTTTTTG-
1 TTTTTTTGC
44751848 TTTTTTT
1 TTTTTTT
44751855 TAAAGAATAA
Statistics
Matches: 39, Mismatches: 10, Indels: 5
0.72 0.19 0.09
Matches are distributed among these distances:
8 11 0.28
9 24 0.62
10 4 0.10
ACGTcount: A:0.00, C:0.15, G:0.12, T:0.73
Consensus pattern (9 bp):
TTTTTTTGC
Found at i:44751855 original size:27 final size:27
Alignment explanation
Indices: 44751791--44751855 Score: 96
Period size: 27 Copynumber: 2.4 Consensus size: 27
44751781 AGGTAGGCAA
44751791 CTTTTTTTTTTGCGCTTTTTGCTTCTT
1 CTTTTTTTTTTGCGCTTTTTGCTTCTT
*
44751818 CTTCTTTTTTTGCGCTTTTTGCTT-TT
1 CTTTTTTTTTTGCGCTTTTTGCTTCTT
*
44751844 TTTGTTTTTTTT
1 CTT-TTTTTTTT
44751856 AAAGAATAAG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
26 4 0.12
27 30 0.88
ACGTcount: A:0.00, C:0.15, G:0.11, T:0.74
Consensus pattern (27 bp):
CTTTTTTTTTTGCGCTTTTTGCTTCTT
Found at i:44759732 original size:25 final size:25
Alignment explanation
Indices: 44759519--44759725 Score: 166
Period size: 25 Copynumber: 8.3 Consensus size: 25
44759509 ACAGTAAATA
* *
44759519 CGAATTCTCTAGAAAGCCTTTGTGG
1 CGAATTCTTTGGAAAGCCTTTGTGG
* * *
44759544 CGAATTCTATGGAAAACATTTGT-G
1 CGAATTCTTTGGAAAGCCTTTGTGG
** * * * *
44759568 ATAACTTTTTTGAAAAGCCTTTAT-A
1 CGAA-TTCTTTGGAAAGCCTTTGTGG
* * * * *
44759593 TGAATCCTCTGAAAAGCCTTTGTGA
1 CGAATTCTTTGGAAAGCCTTTGTGG
*
44759618 CGAATTCTCTGGAAAGCCTTTGTGG
1 CGAATTCTTTGGAAAGCCTTTGTGG
* * * * *
44759643 CAAATCCTTTGGAAATCATTTATGG
1 CGAATTCTTTGGAAAGCCTTTGTGG
*
44759668 CGAATTCTTTAGAAAGCCTTTGTGG
1 CGAATTCTTTGGAAAGCCTTTGTGG
* *
44759693 TGAATTCTTTGGAAAGCTTTTGTGG
1 CGAATTCTTTGGAAAGCCTTTGTGG
44759718 CGAATTCT
1 CGAATTCT
44759726 CTAGAAAATC
Statistics
Matches: 141, Mismatches: 39, Indels: 4
0.77 0.21 0.02
Matches are distributed among these distances:
24 18 0.13
25 123 0.87
ACGTcount: A:0.27, C:0.16, G:0.21, T:0.36
Consensus pattern (25 bp):
CGAATTCTTTGGAAAGCCTTTGTGG
Found at i:44765089 original size:124 final size:124
Alignment explanation
Indices: 44764944--44765182 Score: 478
Period size: 124 Copynumber: 1.9 Consensus size: 124
44764934 GCATGAAAAC
44764944 ATAGGTATTTCCCCTTATCTAAGTAATTACCTTTAATTCAAAATCGACAAGAATCGACATCCTTA
1 ATAGGTATTTCCCCTTATCTAAGTAATTACCTTTAATTCAAAATCGACAAGAATCGACATCCTTA
44765009 CTAAAGGTTCACTCCAATCACTCGAAATGTTTAAGGTTCAAGAATAAGCAAAGCATGAA
66 CTAAAGGTTCACTCCAATCACTCGAAATGTTTAAGGTTCAAGAATAAGCAAAGCATGAA
44765068 ATAGGTATTTCCCCTTATCTAAGTAATTACCTTTAATTCAAAATCGACAAGAATCGACATCCTTA
1 ATAGGTATTTCCCCTTATCTAAGTAATTACCTTTAATTCAAAATCGACAAGAATCGACATCCTTA
44765133 CTAAAGGTTCACTCCAATCACTCGAAATGTTTAAGGTTCAAGAATAAGCA
66 CTAAAGGTTCACTCCAATCACTCGAAATGTTTAAGGTTCAAGAATAAGCA
44765183 CTCAATAGTC
Statistics
Matches: 115, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
124 115 1.00
ACGTcount: A:0.37, C:0.21, G:0.13, T:0.30
Consensus pattern (124 bp):
ATAGGTATTTCCCCTTATCTAAGTAATTACCTTTAATTCAAAATCGACAAGAATCGACATCCTTA
CTAAAGGTTCACTCCAATCACTCGAAATGTTTAAGGTTCAAGAATAAGCAAAGCATGAA
Found at i:44772511 original size:23 final size:24
Alignment explanation
Indices: 44772447--44772515 Score: 76
Period size: 20 Copynumber: 3.1 Consensus size: 24
44772437 AGTTAAAAAA
44772447 TATATCAAATTCGTATTGATGACT
1 TATATCAAATTCGTATTGATGACT
* * *
44772471 TA-AT--ATTTGGT-TTTATGA-T
1 TATATCAAATTCGTATTGATGACT
44772490 TATATCAAATTCGTATTGATGACT
1 TATATCAAATTCGTATTGATGACT
44772514 TA
1 TA
44772516 ATAGAGGTGA
Statistics
Matches: 34, Mismatches: 6, Indels: 10
0.68 0.12 0.20
Matches are distributed among these distances:
19 3 0.09
20 8 0.24
21 5 0.15
22 5 0.15
23 8 0.24
24 5 0.15
ACGTcount: A:0.32, C:0.09, G:0.13, T:0.46
Consensus pattern (24 bp):
TATATCAAATTCGTATTGATGACT
Found at i:44773896 original size:16 final size:16
Alignment explanation
Indices: 44773877--44773911 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
44773867 AAAATCATAA
44773877 AAATA-TAAAATAATTT
1 AAATATTAAAA-AATTT
44773893 AAATATTAAAAAATTT
1 AAATATTAAAAAATTT
44773909 AAA
1 AAA
44773912 AAAATTAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
AAATATTAAAAAATTT
Found at i:44774591 original size:10 final size:10
Alignment explanation
Indices: 44774578--44774602 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
44774568 TTTTAATATT
44774578 TTATATTTTA
1 TTATATTTTA
44774588 TTATATTTTA
1 TTATATTTTA
44774598 TTATA
1 TTATA
44774603 AGTTTCTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (10 bp):
TTATATTTTA
Found at i:44774636 original size:30 final size:27
Alignment explanation
Indices: 44774565--44774641 Score: 70
Period size: 30 Copynumber: 2.7 Consensus size: 27
44774555 GGTTTAAATG
44774565 ATTTTTTAATA-TTTTATATTTTATTAT
1 ATTTTTTAA-AGTTTTATATTTTATTAT
44774592 ATTTTATTATAAGTTTCTATGATTTT-TTAT
1 ATTTT-TTA-AAGTTT-TAT-ATTTTATTAT
44774622 AAATTTTTTAAAG-TTTATAT
1 --ATTTTTTAAAGTTTTATAT
44774642 CTATTTTAAT
Statistics
Matches: 43, Mismatches: 0, Indels: 14
0.75 0.00 0.25
Matches are distributed among these distances:
27 7 0.16
28 7 0.16
29 6 0.14
30 10 0.23
31 8 0.19
32 5 0.12
ACGTcount: A:0.31, C:0.01, G:0.04, T:0.64
Consensus pattern (27 bp):
ATTTTTTAAAGTTTTATATTTTATTAT
Found at i:44774841 original size:11 final size:9
Alignment explanation
Indices: 44774800--44774869 Score: 76
Period size: 9 Copynumber: 7.8 Consensus size: 9
44774790 NNNNNNNNNN
44774800 TTTTTAT-A
1 TTTTTATAA
44774808 TTTTTATAA
1 TTTTTATAA
44774817 TTTTTATAA
1 TTTTTATAA
44774826 TTTTTATAA
1 TTTTTATAA
44774835 TATTTT-T-A
1 T-TTTTATAA
44774843 TTATTTATAAA
1 TT-TTTAT-AA
44774854 TTTTTA-AGA
1 TTTTTATA-A
44774863 TTTTTAT
1 TTTTTAT
44774870 GGGAAAATAT
Statistics
Matches: 54, Mismatches: 0, Indels: 14
0.79 0.00 0.21
Matches are distributed among these distances:
7 1 0.02
8 13 0.24
9 29 0.54
10 8 0.15
11 3 0.06
ACGTcount: A:0.31, C:0.00, G:0.01, T:0.67
Consensus pattern (9 bp):
TTTTTATAA
Found at i:44774841 original size:29 final size:28
Alignment explanation
Indices: 44774805--44774859 Score: 83
Period size: 29 Copynumber: 1.9 Consensus size: 28
44774795 NNNNNTTTTT
*
44774805 ATATTTTTATAATTTTTATAATTTTTATA
1 ATATTTTTATAATTTATA-AATTTTTATA
*
44774834 ATATTTTTATTATTTATAAATTTTTA
1 ATATTTTTATAATTTATAAATTTTTA
44774860 AGATTTTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 8 0.33
29 16 0.67
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (28 bp):
ATATTTTTATAATTTATAAATTTTTATA
Found at i:44778855 original size:172 final size:173
Alignment explanation
Indices: 44778558--44778902 Score: 683
Period size: 172 Copynumber: 2.0 Consensus size: 173
44778548 TTAAACCCAA
44778558 TCATAAAAGATAAAAAACATTTAAAATTTGAATAATAAAATATTAAAAGTTTTGTACCGGCTAAA
1 TCATAAAAGATAAAAAACATTTAAAATTTGAATAATAAAATATTAAAAGTTTTGTACCGGCTAAA
44778623 ATTACATATTGGTATGCACCATTACAAATTAGTATTGGTCGAAATGGATTGATAGTGCTGAAACA
66 ATTACATATTGGTATGCACCATTACAAATTAGTATTGGTCGAAATGGATTGATAGTGCTGAAACA
44778688 CATAAAAATTTTAATCAAAATGGAACCTAAGCTATTTAATACT
131 CATAAAAATTTTAATCAAAATGGAACCTAAGCTATTTAATACT
44778731 TCATAAAAGA-AAAAAACATTTAAAATTTGAATAATAAAATATTAAAAGTTTTGTACCGGCTAAA
1 TCATAAAAGATAAAAAACATTTAAAATTTGAATAATAAAATATTAAAAGTTTTGTACCGGCTAAA
44778795 ATTACATATTGGTATGCACCATTACAAATTAGTATTGGTCGAAATGGATTGATAGTGCTGAAACA
66 ATTACATATTGGTATGCACCATTACAAATTAGTATTGGTCGAAATGGATTGATAGTGCTGAAACA
44778860 CATAAAAATTTTAATCAAAATGGAACCTAAGCTATTTAATACT
131 CATAAAAATTTTAATCAAAATGGAACCTAAGCTATTTAATACT
44778903 AATTTAAAAC
Statistics
Matches: 172, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
172 162 0.94
173 10 0.06
ACGTcount: A:0.45, C:0.11, G:0.13, T:0.32
Consensus pattern (173 bp):
TCATAAAAGATAAAAAACATTTAAAATTTGAATAATAAAATATTAAAAGTTTTGTACCGGCTAAA
ATTACATATTGGTATGCACCATTACAAATTAGTATTGGTCGAAATGGATTGATAGTGCTGAAACA
CATAAAAATTTTAATCAAAATGGAACCTAAGCTATTTAATACT
Found at i:44780939 original size:19 final size:19
Alignment explanation
Indices: 44780915--44780951 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
44780905 TTTTTTATAT
44780915 TTTTAAATTACATTATTAC
1 TTTTAAATTACATTATTAC
* *
44780934 TTTTAATTTATATTATTA
1 TTTTAAATTACATTATTA
44780952 ACCTTAAGCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.59
Consensus pattern (19 bp):
TTTTAAATTACATTATTAC
Found at i:44781085 original size:42 final size:42
Alignment explanation
Indices: 44781005--44781088 Score: 125
Period size: 42 Copynumber: 2.0 Consensus size: 42
44780995 AGCTTGATTC
* *
44781005 CAAAAATTAGTAAATGAGCTTAATTGAGCTCTAGCTCGAGTA
1 CAAAAATTAGTAAACGAGCTTAATTGAGCTCTAACTCGAGTA
*
44781047 CAAAAATTAGTAAGCGAGCTTAATTGAGCT-TGAACTCGAGTA
1 CAAAAATTAGTAAACGAGCTTAATTGAGCTCT-AACTCGAGTA
44781089 GCTCGATTGT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
41 1 0.03
42 37 0.97
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.27
Consensus pattern (42 bp):
CAAAAATTAGTAAACGAGCTTAATTGAGCTCTAACTCGAGTA
Found at i:44792358 original size:19 final size:18
Alignment explanation
Indices: 44792336--44792373 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
44792326 AATTTTAAAA
44792336 TATTTTTAAAATAATTTTT
1 TATTTTT-AAATAATTTTT
*
44792355 TATTTTTTAATAATTTTT
1 TATTTTTAAATAATTTTT
44792373 T
1 T
44792374 TGTGTTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TATTTTTAAATAATTTTT
Found at i:44796855 original size:106 final size:107
Alignment explanation
Indices: 44796631--44796940 Score: 507
Period size: 106 Copynumber: 2.9 Consensus size: 107
44796621 TAAATTAATA
* *
44796631 CAATATTTTGCGTTTGGAAAATTCGAGAAAATGTGCCCTAACGTGCTGGTTTTCGATTTCTCGTT
1 CAATATTTCGCGTTTGGAAAATTCGAGAAAATGTGCCCTAACGTGCTGGGTTTCGA-TTCTCGTT
*
44796696 CGACTAAATAGCCAAATATCCTTTTTAAACTTTTAAATTAAGG
65 CGACTAAATAGCCAAATATCCTTTTTAAACTTTTAAAATAAGG
44796739 CAATATTTCGCGTTTGGAAAATTCGAGAAAATGTGCCCTAACGTGCTGGGTTTCGA-TCTCGTTC
1 CAATATTTCGCGTTTGGAAAATTCGAGAAAATGTGCCCTAACGTGCTGGGTTTCGATTCTCGTTC
*
44796803 GACTAAATAGCCAAATATTCTTTTTAAACTTTTAAAATAAGG
66 GACTAAATAGCCAAATATCCTTTTTAAACTTTTAAAATAAGG
* * *
44796845 CAATACTTCGCGTTTGGAAAA-TCGAGGAAACGTGCCCTAACGTGCTGGGTTTCGATTTCTCGTT
1 CAATATTTCGCGTTTGGAAAATTCGAGAAAATGTGCCCTAACGTGCTGGGTTTCGA-TTCTCGTT
* *
44796909 CGACTAAATAGCCAAATATCCTCTTAAAACTT
65 CGACTAAATAGCCAAATATCCTTTTTAAACTT
44796941 CAAAGTATGG
Statistics
Matches: 190, Mismatches: 10, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
105 32 0.17
106 68 0.36
107 36 0.19
108 54 0.28
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.34
Consensus pattern (107 bp):
CAATATTTCGCGTTTGGAAAATTCGAGAAAATGTGCCCTAACGTGCTGGGTTTCGATTCTCGTTC
GACTAAATAGCCAAATATCCTTTTTAAACTTTTAAAATAAGG
Found at i:44801742 original size:96 final size:97
Alignment explanation
Indices: 44801627--44801815 Score: 308
Period size: 96 Copynumber: 2.0 Consensus size: 97
44801617 CTCATTTTGT
* * * *
44801627 ATTTTAGCAAAATTTGCTATCTTAATTAATCTATTCATTTCGAGCTTTGTTCTCAATAAATTTTC
1 ATTTTAGCAAAATTTGCTATCTTAATTAATCTATTCATTGCAAGCATTGTTCTCAATAAAATTTC
*
44801692 ATCGTATCCATTGTGATAATCTTTTTCATCTC
66 ATCGTATCCATTGTAATAATCTTTTTCATCTC
*
44801724 ATTTTAGC-AAATTTGCTATCTTGATTAATCTATTCATTGCAAGCATTGTTCTCAATAAAATTTC
1 ATTTTAGCAAAATTTGCTATCTTAATTAATCTATTCATTGCAAGCATTGTTCTCAATAAAATTTC
*
44801788 ATCTTATCCATTGTAATAATCTTTTTCA
66 ATCGTATCCATTGTAATAATCTTTTTCA
44801816 AGCATTTTTT
Statistics
Matches: 85, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
96 77 0.91
97 8 0.09
ACGTcount: A:0.29, C:0.17, G:0.08, T:0.47
Consensus pattern (97 bp):
ATTTTAGCAAAATTTGCTATCTTAATTAATCTATTCATTGCAAGCATTGTTCTCAATAAAATTTC
ATCGTATCCATTGTAATAATCTTTTTCATCTC
Found at i:44802869 original size:132 final size:132
Alignment explanation
Indices: 44802623--44802934 Score: 525
Period size: 132 Copynumber: 2.4 Consensus size: 132
44802613 CAATGTAGCT
* **
44802623 GATTGAAGATTTCAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGAAGATGGTGGATTTTA
1 GATTGAAGATTACAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGAAGATGGCAGATTTTA
* * *
44802688 CCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGACAACAGTGGAA
66 CCTCCCTGTGGTTACAGTGGAGTACATAGAAGCCAGAAACTCTACTTCCCTGGACAACAGTGGAA
44802753 TA
131 TA
*
44802755 GATTGAAGATTACAGATCTTATCTCCCTAAGTAATAGTGGAGCAGATCGAAGATGGCAGATTTTA
1 GATTGAAGATTACAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGAAGATGGCAGATTTTA
*
44802820 CCTCCCTGTGGTTACAGTGGAGTACATAGAAGCCAGAAACTCTATTTCCCTGGACAACAGTGGAA
66 CCTCCCTGTGGTTACAGTGGAGTACATAGAAGCCAGAAACTCTACTTCCCTGGACAACAGTGGAA
44802885 TA
131 TA
* * *
44802887 GATTGAAGATTACAGGTCTTATCTCCCAAAGCAGTAGTGGAGCAGATC
1 GATTGAAGATTACAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATC
44802935 ATATTAAGTC
Statistics
Matches: 168, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
132 168 1.00
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.27
Consensus pattern (132 bp):
GATTGAAGATTACAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGAAGATGGCAGATTTTA
CCTCCCTGTGGTTACAGTGGAGTACATAGAAGCCAGAAACTCTACTTCCCTGGACAACAGTGGAA
TA
Found at i:44806190 original size:1 final size:1
Alignment explanation
Indices: 44806184--44806208 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
44806174 GAACTAAACT
44806184 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
44806209 CCTTAATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:44807460 original size:2 final size:2
Alignment explanation
Indices: 44807453--44807485 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
44807443 TAGATTGTTG
*
44807453 TA TA TA TA TT TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
44807486 TATTTTGTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:44808688 original size:42 final size:40
Alignment explanation
Indices: 44808636--44808728 Score: 95
Period size: 36 Copynumber: 2.4 Consensus size: 40
44808626 GGGTTCGAGC
* *
44808636 TCGAGTTCAAGCTTGAGTACAAAAATTAGTAAATGAGCTTAA
1 TCGAGCTC-AGCTT-AGTACAAAAATTAGTAAACGAGCTTAA
*
44808678 TCGAGCTCA----AGTACAAAAATTAGTCAACGAGCTTAA
1 TCGAGCTCAGCTTAGTACAAAAATTAGTAAACGAGCTTAA
*
44808714 TCAAGCTCGAGCTTA
1 TCGAGCTC-AGCTTA
44808729 AAAATAGATG
Statistics
Matches: 42, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
36 32 0.76
37 1 0.02
41 2 0.05
42 7 0.17
ACGTcount: A:0.39, C:0.17, G:0.18, T:0.26
Consensus pattern (40 bp):
TCGAGCTCAGCTTAGTACAAAAATTAGTAAACGAGCTTAA
Found at i:44808733 original size:36 final size:36
Alignment explanation
Indices: 44808642--44808721 Score: 115
Period size: 36 Copynumber: 2.2 Consensus size: 36
44808632 GAGCTCGAGT
** *
44808642 TCAAGCTTGAGTACAAAAATTAGTAAATGAGCTTAA
1 TCAAGCTCAAGTACAAAAATTAGTAAACGAGCTTAA
* *
44808678 TCGAGCTCAAGTACAAAAATTAGTCAACGAGCTTAA
1 TCAAGCTCAAGTACAAAAATTAGTAAACGAGCTTAA
44808714 TCAAGCTC
1 TCAAGCTC
44808722 GAGCTTAAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.41, C:0.17, G:0.16, T:0.25
Consensus pattern (36 bp):
TCAAGCTCAAGTACAAAAATTAGTAAACGAGCTTAA
Found at i:44817685 original size:15 final size:14
Alignment explanation
Indices: 44817655--44817692 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
44817645 TCGGAAAAGT
44817655 AAATCATTTTTTAA
1 AAATCATTTTTTAA
* *
44817669 AAATTATTTTTTGA
1 AAATCATTTTTTAA
44817683 AAATCATTTT
1 AAATCATTTT
44817693 CAGTAAAACT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.39, C:0.05, G:0.03, T:0.53
Consensus pattern (14 bp):
AAATCATTTTTTAA
Found at i:44818615 original size:55 final size:55
Alignment explanation
Indices: 44818553--44818664 Score: 224
Period size: 55 Copynumber: 2.0 Consensus size: 55
44818543 AAATACTCAC
44818553 GACTAATTAATTTAGGGATTCATACATTTAATGTTTCTAAATACCTAACATTTTG
1 GACTAATTAATTTAGGGATTCATACATTTAATGTTTCTAAATACCTAACATTTTG
44818608 GACTAATTAATTTAGGGATTCATACATTTAATGTTTCTAAATACCTAACATTTTG
1 GACTAATTAATTTAGGGATTCATACATTTAATGTTTCTAAATACCTAACATTTTG
44818663 GA
1 GA
44818665 TACACCTAAT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 57 1.00
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.41
Consensus pattern (55 bp):
GACTAATTAATTTAGGGATTCATACATTTAATGTTTCTAAATACCTAACATTTTG
Found at i:44820700 original size:42 final size:42
Alignment explanation
Indices: 44820648--44820736 Score: 133
Period size: 42 Copynumber: 2.1 Consensus size: 42
44820638 GCTCGAGCTC
* * *
44820648 AAGCTTGAGCTTGAGTACAAAAATTAGTAAATGAGCTTAATT
1 AAGCTCGAGCTCGAGTACAAAAATTAGTAAACGAGCTTAATT
*
44820690 AAGCTCGAGCTCGAGTACAAAAATTAGTAAGCGAGCTTAATT
1 AAGCTCGAGCTCGAGTACAAAAATTAGTAAACGAGCTTAATT
*
44820732 GAGCT
1 AAGCT
44820737 TGAAATCGAG
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.38, C:0.13, G:0.21, T:0.27
Consensus pattern (42 bp):
AAGCTCGAGCTCGAGTACAAAAATTAGTAAACGAGCTTAATT
Found at i:44820746 original size:42 final size:42
Alignment explanation
Indices: 44820660--44820748 Score: 124
Period size: 42 Copynumber: 2.1 Consensus size: 42
44820650 GCTTGAGCTT
* **
44820660 GAGTACAAAAATTAGTAAATGAGCTTAATTAAGCTCGAGCTC
1 GAGTACAAAAATTAGTAAACGAGCTTAATTAAGCTCGAAATC
* * *
44820702 GAGTACAAAAATTAGTAAGCGAGCTTAATTGAGCTTGAAATC
1 GAGTACAAAAATTAGTAAACGAGCTTAATTAAGCTCGAAATC
44820744 GAGTA
1 GAGTA
44820749 GCTCGATTGT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.40, C:0.12, G:0.21, T:0.26
Consensus pattern (42 bp):
GAGTACAAAAATTAGTAAACGAGCTTAATTAAGCTCGAAATC
Found at i:44828485 original size:6 final size:6
Alignment explanation
Indices: 44828474--44828537 Score: 85
Period size: 6 Copynumber: 10.5 Consensus size: 6
44828464 TAACATGAAG
* *
44828474 AAAATA AAAATAAA AAAATA AAAATA AAAAT- AAAATA TATATA AAAATA
1 AAAATA AAAAT--A AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
44828523 AAAATA AAAATA AAA
1 AAAATA AAAATA AAA
44828538 TTGGGTTGCC
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
5 5 0.10
6 40 0.78
8 6 0.12
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
AAAATA
Found at i:44828528 original size:29 final size:27
Alignment explanation
Indices: 44828474--44828538 Score: 105
Period size: 29 Copynumber: 2.4 Consensus size: 27
44828464 TAACATGAAG
44828474 AAAATAAAA-ATAAAAAAATAAAAATA
1 AAAATAAAATATAAAAAAATAAAAATA
44828500 AAAATAAAATATATATAAAAATAAAAATA
1 AAAATAAAATATA-A-AAAAATAAAAATA
44828529 AAAATAAAAT
1 AAAATAAAAT
44828539 TGGGTTGCCT
Statistics
Matches: 36, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
26 9 0.25
27 3 0.08
28 1 0.03
29 23 0.64
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (27 bp):
AAAATAAAATATAAAAAAATAAAAATA
Found at i:44835209 original size:166 final size:167
Alignment explanation
Indices: 44835006--44835332 Score: 471
Period size: 167 Copynumber: 2.0 Consensus size: 167
44834996 TAAATTACTA
* * **
44835006 TCCTAGAATATAAAATGACAAAAATATCGTCATAATAATGTTCCTTATTTTAT-AAAAAT-GGGT
1 TCCTAAAATATAAAATGACAAAAATATCGTCATAATAATATTCCTTATTTTATAAAAAATAGATT
* * * * **
44835069 TTTCTGTAATTTCCCAATTAAGTTAGAACTCGATTGTCTCAATTGATGAGTGATA-CTAGTTCAG
66 TTTC-ATAATTTCCCAACTAAGTTAGAACTCGATTATCTCAATTGATGAGCGATATC-AACTCAG
*
44835133 CCAATCCTAAATATTAGTATAGATTAAATTAACTTTTTG
129 CCAATCCTAAATATCAGTATAGATTAAATTAACTTTTTG
44835172 TCCTAAAATATAAAATGACAAAAATATCGTCATAATAATATTCCTTATTTTATAAAAAATAGATT
1 TCCTAAAATATAAAATGACAAAAATATCGTCATAATAATATTCCTTATTTTATAAAAAATAGATT
** * * *
44835237 TTTCATAATTTTTCAACTAAGTTAGAACTCGGTTATCTCAATTGATGAGCGATATCAACTCTGTC
66 TTTCATAATTTCCCAACTAAGTTAGAACTCGATTATCTCAATTGATGAGCGATATCAACTCAGCC
44835302 AATCCTAAATATCAGTATAGATTAAATTAAC
131 AATCCTAAATATCAGTATAGATTAAATTAAC
44835333 GTTCTACCCT
Statistics
Matches: 142, Mismatches: 16, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
166 51 0.36
167 84 0.59
168 7 0.05
ACGTcount: A:0.39, C:0.14, G:0.11, T:0.37
Consensus pattern (167 bp):
TCCTAAAATATAAAATGACAAAAATATCGTCATAATAATATTCCTTATTTTATAAAAAATAGATT
TTTCATAATTTCCCAACTAAGTTAGAACTCGATTATCTCAATTGATGAGCGATATCAACTCAGCC
AATCCTAAATATCAGTATAGATTAAATTAACTTTTTG
Found at i:44838093 original size:20 final size:21
Alignment explanation
Indices: 44838070--44838117 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
44838060 AATATATACA
44838070 ATAAAATTTAATAAAAAT-TT
1 ATAAAATTTAATAAAAATATT
*
44838090 ATAAAA--TCATAAAAATAATT
1 ATAAAATTTAATAAAAAT-ATT
44838110 ATAAAATT
1 ATAAAATT
44838118 GAAACCATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
18 9 0.39
20 14 0.61
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (21 bp):
ATAAAATTTAATAAAAATATT
Found at i:44838103 original size:18 final size:19
Alignment explanation
Indices: 44838080--44838116 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
44838070 ATAAAATTTA
44838080 ATAAAAAT-TTATAAAATC
1 ATAAAAATATTATAAAATC
44838098 ATAAAAATAATTATAAAAT
1 ATAAAAAT-ATTATAAAAT
44838117 TGAAACCATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 8 0.47
20 9 0.53
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (19 bp):
ATAAAAATATTATAAAATC
Found at i:44838178 original size:2 final size:2
Alignment explanation
Indices: 44838173--44838197 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
44838163 AATTTTATGA
44838173 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
44838198 AGTAATTACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:44842078 original size:2 final size:2
Alignment explanation
Indices: 44842071--44842111 Score: 55
Period size: 2 Copynumber: 20.5 Consensus size: 2
44842061 AGATGAAAAC
* * *
44842071 TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TG TA TG TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
44842112 GGAGTCAAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.51
Consensus pattern (2 bp):
TA
Found at i:44854768 original size:21 final size:21
Alignment explanation
Indices: 44854739--44854792 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
44854729 ATGATATTGA
44854739 AATGATATTTATATTTATGAT
1 AATGATATTTATATTTATGAT
* * *
44854760 AATGTTATTTATCTTTGTGAT
1 AATGATATTTATATTTATGAT
* *
44854781 AATTAAATTTAT
1 AATGATATTTAT
44854793 CTAGCCATTT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.35, C:0.02, G:0.09, T:0.54
Consensus pattern (21 bp):
AATGATATTTATATTTATGAT
Found at i:44861030 original size:21 final size:21
Alignment explanation
Indices: 44861006--44861053 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
44860996 CGACTGTGGC
* *
44861006 GGAGGACTAGCAGCTGGGGGT
1 GGAGGACTAACAGCTGAGGGT
*
44861027 GGAGGACTAACAGGTGAGGGT
1 GGAGGACTAACAGCTGAGGGT
44861048 GGAGGA
1 GGAGGA
44861054 TATAAGGATG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.25, C:0.10, G:0.52, T:0.12
Consensus pattern (21 bp):
GGAGGACTAACAGCTGAGGGT
Found at i:44869608 original size:16 final size:16
Alignment explanation
Indices: 44869587--44869913 Score: 204
Period size: 16 Copynumber: 19.1 Consensus size: 16
44869577 AAAGTGATAT
44869587 ACTTACATAATACATA
1 ACTTACATAATACATA
44869603 ACTTACATACTACATACATAA
1 ACTTAC--A-TA-ATACAT-A
44869624 ACTTACATAATACATA
1 ACTTACATAATACATA
*
44869640 ACTTACAT-A-ACTTAA
1 ACTTACATAATACAT-A
* *
44869655 ATTTATCAATCATATCATA
1 ACTTA-C-ATAATA-CATA
*
44869674 ACTTACATACATAAAT-
1 ACTTACATA-ATACATA
*
44869690 ATTTATCAT-AT-CATA
1 ACTTA-CATAATACATA
*
44869705 ACTTACATAACCCACATA
1 ACTTACATAA--TACATA
44869723 ACTTACATAACTTACATAATA
1 ACTTACATAA--TAC---ATA
*
44869744 ACTTACACAATACATA
1 ACTTACATAATACATA
* *
44869760 ACCTACATAACTTATATA
1 ACTTACATAA--TACATA
44869778 ACTTACATAACTTAACATA
1 ACTTACATAA--T-ACATA
44869797 ACTTACATAATACATA
1 ACTTACATAATACATA
44869813 ACTTACATAACCTACATA
1 ACTTACATAA--TACATA
44869831 A--TACATAACTTACATA
1 ACTTACATAA--TACATA
44869847 ACTTACATAATACATA
1 ACTTACATAATACATA
*
44869863 ACTTACATAATTTACTTA
1 ACTTACATAA--TACATA
44869881 A--TACATAACTTACATA
1 ACTTACATAA--TACATA
* *
44869897 ATTTACTTAATACATA
1 ACTTACATAATACATA
44869913 A
1 A
44869914 ATATATATCA
Statistics
Matches: 256, Mismatches: 23, Indels: 64
0.75 0.07 0.19
Matches are distributed among these distances:
14 8 0.03
15 13 0.05
16 98 0.38
17 16 0.06
18 68 0.27
19 26 0.10
20 8 0.03
21 19 0.07
ACGTcount: A:0.47, C:0.20, G:0.00, T:0.33
Consensus pattern (16 bp):
ACTTACATAATACATA
Found at i:44869611 original size:9 final size:9
Alignment explanation
Indices: 44869587--44869902 Score: 230
Period size: 9 Copynumber: 36.7 Consensus size: 9
44869577 AAAGTGATAT
44869587 ACTTACATA
1 ACTTACATA
44869596 A--TACATA
1 ACTTACATA
44869603 ACTTACATA
1 ACTTACATA
*
44869612 CTACATACATAA
1 --ACTTACAT-A
44869624 ACTTACATA
1 ACTTACATA
44869633 A--TACATA
1 ACTTACATA
44869640 ACTTACATA
1 ACTTACATA
44869649 ACTT--A-A
1 ACTTACATA
*
44869655 ATTTATCA-A
1 ACTTA-CATA
* *
44869664 TCATATCATA
1 ACTTA-CATA
44869674 ACTTACAT-
1 ACTTACATA
* *
44869682 ACATAAAT-
1 ACTTACATA
*
44869690 ATTTATCAT-
1 ACTTA-CATA
44869699 A--T-CATA
1 ACTTACATA
44869705 ACTTACATA
1 ACTTACATA
**
44869714 ACCCACATA
1 ACTTACATA
44869723 ACTTACATA
1 ACTTACATA
44869732 ACTTACATAATA
1 ACTTAC---ATA
*
44869744 ACTTACACA
1 ACTTACATA
44869753 A--TACATA
1 ACTTACATA
*
44869760 ACCTACATA
1 ACTTACATA
*
44869769 ACTTATATA
1 ACTTACATA
44869778 ACTTACATA
1 ACTTACATA
44869787 ACTTAACATA
1 ACTT-ACATA
44869797 ACTTACATA
1 ACTTACATA
44869806 A--TACATA
1 ACTTACATA
44869813 ACTTACATA
1 ACTTACATA
*
44869822 ACCTACATA
1 ACTTACATA
44869831 A--TACATA
1 ACTTACATA
44869838 ACTTACATA
1 ACTTACATA
44869847 ACTTACATA
1 ACTTACATA
44869856 A--TACATA
1 ACTTACATA
44869863 ACTTACATA
1 ACTTACATA
* *
44869872 ATTTACTTA
1 ACTTACATA
44869881 A--TACATA
1 ACTTACATA
44869888 ACTTACATA
1 ACTTACATA
*
44869897 ATTTAC
1 ACTTAC
44869903 TTAATACATA
Statistics
Matches: 250, Mismatches: 27, Indels: 60
0.74 0.08 0.18
Matches are distributed among these distances:
5 3 0.01
6 5 0.02
7 49 0.20
8 10 0.04
9 146 0.58
10 20 0.08
11 7 0.03
12 10 0.04
ACGTcount: A:0.47, C:0.21, G:0.00, T:0.33
Consensus pattern (9 bp):
ACTTACATA
Found at i:44869628 original size:21 final size:20
Alignment explanation
Indices: 44869596--44869898 Score: 79
Period size: 25 Copynumber: 14.9 Consensus size: 20
44869586 TACTTACATA
*
44869596 ATACATAACTTACATACTAC
1 ATACATAACTTACATAATAC
44869616 ATACATAAACTTAC---ATA-
1 ATACAT-AACTTACATAATAC
*
44869633 ATACATAACTTACATAACTTAA
1 ATACATAACTTACATAA--TAC
** *
44869655 ATTTATCAATCATATCATAACTTAC
1 ATACAT-AA-CTTA-CATAA--TAC
* * *
44869680 ATACATAA-ATA-TTTAT-C
1 ATACATAACTTACATAATAC
44869697 ATATCATAACTTACAT-A-AC
1 ATA-CATAACTTACATAATAC
**
44869716 CCACATAACTTACATAACTTAC
1 ATACATAACTTACATAA--TAC
*
44869738 ATA-ATAACTTAC---ACA-
1 ATACATAACTTACATAATAC
*
44869753 ATACATAACCTACAT-A-AC
1 ATACATAACTTACATAATAC
* *
44869771 TTATATAACTTACAT-A-AC
1 ATACATAACTTACATAATAC
*
44869789 TTAACATAACTTACATAATAC
1 AT-ACATAACTTACATAATAC
* * *
44869810 ATA-ACTTACATAACCTACATA-
1 ATACA-TAAC-TTACATA-ATAC
44869831 ATACATAACTTACATAACTTAC
1 ATACATAACTTACATAA--TAC
44869853 ATAATACATAACTTACATAATTTAC
1 ---ATACATAACTTACATAA--TAC
44869878 TTAATACATAACTTACATAAT
1 ---ATACATAACTTACATAAT
44869899 TTACTTAATA
Statistics
Matches: 218, Mismatches: 30, Indels: 67
0.69 0.10 0.21
Matches are distributed among these distances:
15 3 0.01
16 16 0.07
17 11 0.05
18 39 0.18
19 21 0.10
20 19 0.09
21 34 0.16
22 14 0.06
23 3 0.01
24 5 0.02
25 53 0.24
ACGTcount: A:0.47, C:0.20, G:0.00, T:0.33
Consensus pattern (20 bp):
ATACATAACTTACATAATAC
Found at i:44869701 original size:31 final size:32
Alignment explanation
Indices: 44869613--44869713 Score: 111
Period size: 31 Copynumber: 3.2 Consensus size: 32
44869603 ACTTACATAC
* * *
44869613 TACATACATAAACTTA-CATAATA-CATAACT
1 TACATACATAAATTTATAATCATATCATAACT
*
44869643 TACATAACTTAAATTTATCAATCATATCATAACT
1 TACAT-ACATAAATTTAT-AATCATATCATAACT
44869677 TACATACATAAATATT-T-ATCATATCATAACT
1 TACATACATAAAT-TTATAATCATATCATAACT
44869708 TACATA
1 TACATA
44869714 ACCCACATAA
Statistics
Matches: 61, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
30 5 0.08
31 29 0.48
33 13 0.21
34 14 0.23
ACGTcount: A:0.47, C:0.18, G:0.00, T:0.36
Consensus pattern (32 bp):
TACATACATAAATTTATAATCATATCATAACT
Found at i:44869859 original size:50 final size:50
Alignment explanation
Indices: 44869701--44869947 Score: 266
Period size: 50 Copynumber: 4.8 Consensus size: 50
44869691 TTTATCATAT
* *
44869701 CATAACTTACATAACCCACATAACTTACATAACTTACATAATAACTTACACAATA
1 CATAACTTACATAACCTACATAA--TACATAACTTAC---ATAACTTACATAATA
* * *
44869756 CATAACCTACATAACTTATATAACTTACATAACTTAACATAACTTACATAATA
1 CATAACTTACATAACCTACATAA--TACATAACTT-ACATAACTTACATAATA
44869809 CATAACTTACATAACCTACATAATACATAACTTACATAACTTACATAATA
1 CATAACTTACATAACCTACATAATACATAACTTACATAACTTACATAATA
** * * *
44869859 CATAACTTACATAATTTACTTAATACATAACTTACATAATTTACTTAATA
1 CATAACTTACATAACCTACATAATACATAACTTACATAACTTACATAATA
* * * *
44869909 CATAA-ATATATATCATATCAT-AT-CATAACTTACATAACT
1 CATAACTTACATAACCTA-CATAATACATAACTTACATAACT
44869948 CATTTATACT
Statistics
Matches: 170, Mismatches: 20, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
48 15 0.09
49 9 0.05
50 69 0.41
51 10 0.06
53 34 0.20
55 31 0.18
56 2 0.01
ACGTcount: A:0.47, C:0.21, G:0.00, T:0.33
Consensus pattern (50 bp):
CATAACTTACATAACCTACATAATACATAACTTACATAACTTACATAATA
Found at i:44869913 original size:25 final size:25
Alignment explanation
Indices: 44869718--44869898 Score: 135
Period size: 25 Copynumber: 7.0 Consensus size: 25
44869708 TACATAACCC
44869718 ACATAACTTACATAACTTACATAAT
1 ACATAACTTACATAACTTACATAAT
* * *
44869743 AACTTACACAATACATAACCTACATAACTT
1 -ACATA-AC-TTACATAACTTACATAA--T
*
44869773 ATATAACTTACATAACTTAACATAACTT
1 ACATAACTTACATAACTT-ACATAA--T
44869801 ACATAA--TACATAACTTACATAACCT
1 ACATAACTTACATAACTTACATAA--T
44869826 ACATAA--TACATAACTTACATAACTT
1 ACATAACTTACATAACTTACATAA--T
44869851 ACATAA--TACATAACTTACATAATTT
1 ACATAACTTACATAACTTACATAA--T
*
44869876 ACTTAA--TACATAACTTACATAAT
1 ACATAACTTACATAACTTACATAAT
44869899 TTACTTAATA
Statistics
Matches: 138, Mismatches: 12, Indels: 13
0.85 0.07 0.08
Matches are distributed among these distances:
23 1 0.01
25 77 0.56
26 14 0.10
27 11 0.08
28 31 0.22
29 3 0.02
30 1 0.01
ACGTcount: A:0.48, C:0.20, G:0.00, T:0.32
Consensus pattern (25 bp):
ACATAACTTACATAACTTACATAAT
Found at i:44875823 original size:43 final size:43
Alignment explanation
Indices: 44875762--44875859 Score: 135
Period size: 43 Copynumber: 2.3 Consensus size: 43
44875752 CAAAATTTGT
* *
44875762 GGCGTTTATGATGAAAGCGCCGCTAAAAGTCATGATCTATAGC
1 GGCGTTTGTGATGAAAGCGCCACTAAAAGTCATGATCTATAGC
*
44875805 GGCGTTTGTGA-GAAAAGCGCCATTAAAAGTCATGATCTATAGC
1 GGCGTTTGTGATG-AAAGCGCCACTAAAAGTCATGATCTATAGC
* *
44875848 AGCATTTGTGAT
1 GGCGTTTGTGAT
44875860 TGAAGCTGTA
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
42 1 0.02
43 47 0.98
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.28
Consensus pattern (43 bp):
GGCGTTTGTGATGAAAGCGCCACTAAAAGTCATGATCTATAGC
Found at i:44891297 original size:43 final size:43
Alignment explanation
Indices: 44891239--44891383 Score: 184
Period size: 43 Copynumber: 3.4 Consensus size: 43
44891229 AAACGCCACT
* *
44891239 AAAGTCATGATCTATAGCGGCGTTTGTGAGAGAAGCGTCGCTA
1 AAAGTCATGATCTATAGCGGCGTTTGTGAGAAAAGCGCCGCTA
* *
44891282 AAAGTCATGATCTATAACAGCGTTTGTGAGAAAAGCGCCGCTA
1 AAAGTCATGATCTATAGCGGCGTTTGTGAGAAAAGCGCCGCTA
* * * * *
44891325 AAGGTCGTGATCTATAGCGGCGTTTGTGATAAAAGTGCAGCTA
1 AAAGTCATGATCTATAGCGGCGTTTGTGAGAAAAGCGCCGCTA
* *
44891368 AAGGTCGTGA-CTATAG
1 AAAGTCATGATCTATAG
44891384 GCGCCGCTAA
Statistics
Matches: 91, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
42 6 0.07
43 85 0.93
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.26
Consensus pattern (43 bp):
AAAGTCATGATCTATAGCGGCGTTTGTGAGAAAAGCGCCGCTA
Found at i:44900458 original size:34 final size:34
Alignment explanation
Indices: 44900392--44900458 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 34
44900382 AGCTAGAGAT
* *
44900392 GCATCAAATAAATACTGAATATGAAGAGGGATAA
1 GCATCAAATAAATACTAAATATGAAAAGGGATAA
* *
44900426 GCATCAAATAGATACTAAATATGAAAATGGATA
1 GCATCAAATAAATACTAAATATGAAAAGGGATA
44900459 GGGAACTAGA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.51, C:0.09, G:0.18, T:0.22
Consensus pattern (34 bp):
GCATCAAATAAATACTAAATATGAAAAGGGATAA
Found at i:44913607 original size:17 final size:17
Alignment explanation
Indices: 44913585--44913619 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
44913575 TAATTGTTAA
44913585 ATTGGTAAAAACAATTT
1 ATTGGTAAAAACAATTT
*
44913602 ATTGGTGAAAACAATTT
1 ATTGGTAAAAACAATTT
44913619 A
1 A
44913620 GTGACATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.46, C:0.06, G:0.14, T:0.34
Consensus pattern (17 bp):
ATTGGTAAAAACAATTT
Found at i:44922269 original size:9 final size:9
Alignment explanation
Indices: 44922255--44922339 Score: 116
Period size: 9 Copynumber: 9.4 Consensus size: 9
44922245 TTTGGTTAAA
44922255 AATTAACCG
1 AATTAACCG
44922264 AATTAACCG
1 AATTAACCG
*
44922273 AATTACCCG
1 AATTAACCG
44922282 AATTAACCG
1 AATTAACCG
* *
44922291 GATTACCCG
1 AATTAACCG
44922300 AATTAACCG
1 AATTAACCG
* *
44922309 GATTACCCG
1 AATTAACCG
*
44922318 AATTACCCG
1 AATTAACCG
44922327 AATTAACCG
1 AATTAACCG
44922336 AATT
1 AATT
44922340 GAATCACTAC
Statistics
Matches: 66, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 66 1.00
ACGTcount: A:0.38, C:0.26, G:0.13, T:0.24
Consensus pattern (9 bp):
AATTAACCG
Found at i:44922390 original size:6 final size:6
Alignment explanation
Indices: 44922379--44922407 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
44922369 ACTTTTAGAC
44922379 TTTAGT TTTAGT TTTAGT TTTAGT TTTAG
1 TTTAGT TTTAGT TTTAGT TTTAGT TTTAG
44922408 AATTTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.00, G:0.17, T:0.66
Consensus pattern (6 bp):
TTTAGT
Found at i:44931901 original size:18 final size:18
Alignment explanation
Indices: 44931863--44931901 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
44931853 ACACTACTAT
* * *
44931863 ATTATTTGAGTTATTTGA
1 ATTATTCGAGTTACTTAA
44931881 ATTATTCGAGTTACTTAA
1 ATTATTCGAGTTACTTAA
44931899 ATT
1 ATT
44931902 GTAAAATTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.31, C:0.05, G:0.13, T:0.51
Consensus pattern (18 bp):
ATTATTCGAGTTACTTAA
Found at i:44943266 original size:3 final size:3
Alignment explanation
Indices: 44943251--44943338 Score: 56
Period size: 3 Copynumber: 29.0 Consensus size: 3
44943241 TGAATGAATA
* * *
44943251 AAT AAT TAT AAT AAT AAT GAGAT AAGT AAT AAC AAT AA- ATAC AAT AAT
1 AAT AAT AAT AAT AAT AAT -A-AT AA-T AAT AAT AAT AAT A-AT AAT AAT
* * * *
44943299 AGT AAT AAC ATT AA- AA- AAT AAT AAT AAT AAT AAA AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
44943339 GATATTGTTA
Statistics
Matches: 66, Mismatches: 13, Indels: 12
0.73 0.14 0.13
Matches are distributed among these distances:
2 5 0.08
3 53 0.80
4 6 0.09
5 2 0.03
ACGTcount: A:0.64, C:0.03, G:0.05, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:44943287 original size:24 final size:23
Alignment explanation
Indices: 44943243--44943288 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
44943233 AAATTGTATG
* *
44943243 AATGAATAAATAATTATAATAAT
1 AATGAATAAATAATAACAATAAT
*
44943266 AATGAGATAAGTAATAACAATAA
1 AATGA-ATAAATAATAACAATAA
44943289 ATACAATAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.61, C:0.02, G:0.09, T:0.28
Consensus pattern (23 bp):
AATGAATAAATAATAACAATAAT
Found at i:44947770 original size:21 final size:21
Alignment explanation
Indices: 44947746--44947791 Score: 53
Period size: 20 Copynumber: 2.2 Consensus size: 21
44947736 GATATTATTC
44947746 ATTTTCAATAA-TTT-ATTCTGA
1 ATTTTCAA-AATTTTCATT-TGA
44947767 A-TTTCAAAATTTTCATTTGA
1 ATTTTCAAAATTTTCATTTGA
44947787 ATTTT
1 ATTTT
44947792 ATATTTTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
19 2 0.09
20 13 0.59
21 7 0.32
ACGTcount: A:0.33, C:0.09, G:0.04, T:0.54
Consensus pattern (21 bp):
ATTTTCAAAATTTTCATTTGA
Found at i:44948704 original size:220 final size:219
Alignment explanation
Indices: 44948322--44948753 Score: 776
Period size: 220 Copynumber: 2.0 Consensus size: 219
44948312 ATATTACGTG
* *
44948322 CTTTAGATCAGAAACCAAGAATTTAATTTTGTTTCTTTTTGAAAGCTATTGATTCTCCCTCCCCC
1 CTTTAGATCAGAAACCAAGAATTTAATTTTGTTTCTTTTTGAAAGCTATTGA-TCCCCCCCCCCC
*
44948387 CCCCCCCGCTTTCGTTGCTTTTTATTAGGTTGTTTTCTGTTAATTAATTAGATTGTAAATAGTTA
65 CCCCCCCGATTTCGTTGCTTTTTATTAGGTTGTTTTCTGTTAATTAATTAGATTGTAAATAGTTA
44948452 ATTTTAATGCAAAGAAAGCTAATTTTGACTTTAATCTATTCAACATTCTTAAAATTAACCATATT
130 ATTTTAATGCAAAGAAAGCTAATTTTGACTTTAATCTATTCAACATTCTTAAAATTAACCATATT
44948517 TTGGGAAATTTATGAGCATTTCGGT
195 TTGGGAAATTTATGAGCATTTCGGT
* * *
44948542 CTTTAGATCAGAAACCAAGAATTTTATTTTGTTTTTTTTTGAAAGCTTTTTG-TCCCCCCCCCCC
1 CTTTAGATCAGAAACCAAGAATTTAATTTTGTTTCTTTTTGAAAGC-TATTGATCCCCCCCCCCC
44948606 CCCCCCCGAATTTCGTTGCTTTTTATTAGGTTGTTTTCTGTTAATTAATTAGATTGTAAATAGTT
65 CCCCCCCG-ATTTCGTTGCTTTTTATTAGGTTGTTTTCTGTTAATTAATTAGATTGTAAATAGTT
44948671 AATTTTAATGCAAAGAAAGCTAATTTTGACTTTAATCTATTCAACATTCTTAAAATTAACCATAT
129 AATTTTAATGCAAAGAAAGCTAATTTTGACTTTAATCTATTCAACATTCTTAAAATTAACCATAT
44948736 TTTGGGAAATTTATGAGC
194 TTTGGGAAATTTATGAGC
44948754 TTTATATTAG
Statistics
Matches: 204, Mismatches: 6, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
219 18 0.09
220 182 0.89
221 4 0.02
ACGTcount: A:0.28, C:0.17, G:0.12, T:0.42
Consensus pattern (219 bp):
CTTTAGATCAGAAACCAAGAATTTAATTTTGTTTCTTTTTGAAAGCTATTGATCCCCCCCCCCCC
CCCCCCGATTTCGTTGCTTTTTATTAGGTTGTTTTCTGTTAATTAATTAGATTGTAAATAGTTAA
TTTTAATGCAAAGAAAGCTAATTTTGACTTTAATCTATTCAACATTCTTAAAATTAACCATATTT
TGGGAAATTTATGAGCATTTCGGT
Found at i:44953308 original size:20 final size:20
Alignment explanation
Indices: 44953280--44953317 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
44953270 CAGTATACCA
*
44953280 AATATTTTTTTAATTATATG
1 AATAATTTTTTAATTATATG
44953300 AATAATTTTTTAATTATA
1 AATAATTTTTTAATTATA
44953318 ATTATTTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (20 bp):
AATAATTTTTTAATTATATG
Found at i:44969539 original size:19 final size:19
Alignment explanation
Indices: 44969501--44969541 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
44969491 GATTTTTTCC
*
44969501 TTTTAAATTTTAAATCTTT
1 TTTTAAATTTTAAATATTT
**
44969520 TTTTAAATTTTATTTATTT
1 TTTTAAATTTTAAATATTT
44969539 TTT
1 TTT
44969542 CTCTGTCTCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (19 bp):
TTTTAAATTTTAAATATTT
Found at i:44970667 original size:18 final size:18
Alignment explanation
Indices: 44970644--44970681 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
44970634 ACAGGTTCAA
44970644 CAACAGCACCAGCAACAG
1 CAACAGCACCAGCAACAG
*
44970662 CAACAGCACCAGCACCAG
1 CAACAGCACCAGCAACAG
44970680 CA
1 CA
44970682 CCAGATTCAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.42, C:0.42, G:0.16, T:0.00
Consensus pattern (18 bp):
CAACAGCACCAGCAACAG
Found at i:44970682 original size:6 final size:6
Alignment explanation
Indices: 44970647--44970685 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
44970637 GGTTCAACAA
* *
44970647 CAGCAC CAGCAA CAGCAA CAGCAC CAGCAC CAGCAC CAG
1 CAGCAC CAGCAC CAGCAC CAGCAC CAGCAC CAGCAC CAG
44970686 ATTCAGACTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.38, C:0.44, G:0.18, T:0.00
Consensus pattern (6 bp):
CAGCAC
Found at i:44975829 original size:13 final size:13
Alignment explanation
Indices: 44975811--44975849 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
44975801 TGCAGTTGAA
44975811 AAATACTTTTCAG
1 AAATACTTTTCAG
*
44975824 AAATACTTTTGA-
1 AAATACTTTTCAG
44975836 AAAGTACTTTTCAG
1 AAA-TACTTTTCAG
44975850 TGGAGAAGTG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 3 0.14
13 19 0.86
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.38
Consensus pattern (13 bp):
AAATACTTTTCAG
Found at i:44976079 original size:15 final size:15
Alignment explanation
Indices: 44976061--44976112 Score: 61
Period size: 15 Copynumber: 3.4 Consensus size: 15
44976051 TAAATATAAT
44976061 AATAATTTATATTTA
1 AATAATTTATATTTA
44976076 AATAATTTA-ATTTA
1 AATAATTTATATTTA
* *
44976090 ATGACAAATTATATTTA
1 A--ATAATTTATATTTA
44976107 AATAAT
1 AATAAT
44976113 CTAATATAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
14 6 0.20
15 12 0.40
16 6 0.20
17 6 0.20
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (15 bp):
AATAATTTATATTTA
Found at i:44991426 original size:26 final size:26
Alignment explanation
Indices: 44991390--44991439 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
44991380 TCACGTGTTG
* *
44991390 TTCTTTTAGACTCAGTGGGATAATTT
1 TTCTTTCAGACTCAGCGGGATAATTT
44991416 TTCTTTCAGACTCAGCGGGATAAT
1 TTCTTTCAGACTCAGCGGGATAAT
44991440 ATAGGAGGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.40
Consensus pattern (26 bp):
TTCTTTCAGACTCAGCGGGATAATTT
Found at i:44996015 original size:27 final size:28
Alignment explanation
Indices: 44995961--44996015 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
44995951 ATGTTATCCT
*
44995961 TTTTTTTATTTACCAAAATATTATAAAA
1 TTTTTTTATTTACCAAAATATTACAAAA
44995989 TTTTTTTATTTACCAAAATA-TACAAAA
1 TTTTTTTATTTACCAAAATATTACAAAA
44996016 AAAATAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 6 0.23
28 20 0.77
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (28 bp):
TTTTTTTATTTACCAAAATATTACAAAA
Found at i:44997697 original size:27 final size:27
Alignment explanation
Indices: 44997644--44997735 Score: 166
Period size: 27 Copynumber: 3.4 Consensus size: 27
44997634 ATCTTTTGGT
44997644 ATATTTTGGTAAATAAAAAAAATTTATA
1 ATATTTTGGTAAATAAAAAAAA-TTATA
44997672 ATATTTTGGTAAATAAAAAAAATTATA
1 ATATTTTGGTAAATAAAAAAAATTATA
*
44997699 ATATTTTGGTAAATAAAAAAAGTTATA
1 ATATTTTGGTAAATAAAAAAAATTATA
44997726 ATATTTTGGT
1 ATATTTTGGT
44997736 TATTTTTTTT
Statistics
Matches: 63, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
27 41 0.65
28 22 0.35
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (27 bp):
ATATTTTGGTAAATAAAAAAAATTATA
Found at i:44998076 original size:23 final size:23
Alignment explanation
Indices: 44998048--44998103 Score: 112
Period size: 23 Copynumber: 2.4 Consensus size: 23
44998038 AAAATTGAAG
44998048 TTCGAGTTAAACGAATTGAGTTA
1 TTCGAGTTAAACGAATTGAGTTA
44998071 TTCGAGTTAAACGAATTGAGTTA
1 TTCGAGTTAAACGAATTGAGTTA
44998094 TTCGAGTTAA
1 TTCGAGTTAA
44998104 TCGAGTTATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.34, C:0.09, G:0.21, T:0.36
Consensus pattern (23 bp):
TTCGAGTTAAACGAATTGAGTTA
Found at i:44998190 original size:9 final size:9
Alignment explanation
Indices: 44998171--44998207 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
44998161 TGAGTTTTCA
*
44998171 AATTTGAAT
1 AATTCGAAT
*
44998180 AACTCGAAT
1 AATTCGAAT
44998189 AATTCGAAT
1 AATTCGAAT
44998198 AATTCGAAT
1 AATTCGAAT
44998207 A
1 A
44998208 TCAAACTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:44998589 original size:198 final size:198
Alignment explanation
Indices: 44998251--44998646 Score: 792
Period size: 198 Copynumber: 2.0 Consensus size: 198
44998241 CTCCTAAACC
44998251 TTTTTACTTTTCCCTCAAAACTTTTACTCCTCTCCCCTAGAGGTGCTCATGGGCCGGGCCGGGTT
1 TTTTTACTTTTCCCTCAAAACTTTTACTCCTCTCCCCTAGAGGTGCTCATGGGCCGGGCCGGGTT
44998316 CGGGTCGGGCCCATAAAAAATTTGGGTCCGGGCCCGGCCCGAAATATGGGTCTGAAATTTTGCCT
66 CGGGTCGGGCCCATAAAAAATTTGGGTCCGGGCCCGGCCCGAAATATGGGTCTGAAATTTTGCCT
44998381 AGGCCCGGCCCGGGAAAAGATCATAAGCCTGGGCCCGGCCTGGCCCGACCCATTTTTTAATAAAA
131 AGGCCCGGCCCGGGAAAAGATCATAAGCCTGGGCCCGGCCTGGCCCGACCCATTTTTTAATAAAA
44998446 TAT
196 TAT
44998449 TTTTTACTTTTCCCTCAAAACTTTTACTCCTCTCCCCTAGAGGTGCTCATGGGCCGGGCCGGGTT
1 TTTTTACTTTTCCCTCAAAACTTTTACTCCTCTCCCCTAGAGGTGCTCATGGGCCGGGCCGGGTT
44998514 CGGGTCGGGCCCATAAAAAATTTGGGTCCGGGCCCGGCCCGAAATATGGGTCTGAAATTTTGCCT
66 CGGGTCGGGCCCATAAAAAATTTGGGTCCGGGCCCGGCCCGAAATATGGGTCTGAAATTTTGCCT
44998579 AGGCCCGGCCCGGGAAAAGATCATAAGCCTGGGCCCGGCCTGGCCCGACCCATTTTTTAATAAAA
131 AGGCCCGGCCCGGGAAAAGATCATAAGCCTGGGCCCGGCCTGGCCCGACCCATTTTTTAATAAAA
44998644 TAT
196 TAT
44998647 CAAAAATTTA
Statistics
Matches: 198, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
198 198 1.00
ACGTcount: A:0.21, C:0.28, G:0.25, T:0.26
Consensus pattern (198 bp):
TTTTTACTTTTCCCTCAAAACTTTTACTCCTCTCCCCTAGAGGTGCTCATGGGCCGGGCCGGGTT
CGGGTCGGGCCCATAAAAAATTTGGGTCCGGGCCCGGCCCGAAATATGGGTCTGAAATTTTGCCT
AGGCCCGGCCCGGGAAAAGATCATAAGCCTGGGCCCGGCCTGGCCCGACCCATTTTTTAATAAAA
TAT
Found at i:44998669 original size:27 final size:27
Alignment explanation
Indices: 44998637--44998694 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
44998627 CCCATTTTTT
* * **
44998637 AATAAAATATCAAAAATTTATTTTAAA
1 AATAAAAAATAAAAAAAGTATTTTAAA
44998664 AATAAAAAATAAAAAAAGTATTTTAAA
1 AATAAAAAATAAAAAAAGTATTTTAAA
44998691 AATA
1 AATA
44998695 TTTTAAAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.31
Consensus pattern (27 bp):
AATAAAAAATAAAAAAAGTATTTTAAA
Found at i:45000440 original size:21 final size:21
Alignment explanation
Indices: 45000411--45000450 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
45000401 TCCCTCAAAC
45000411 TTTTATCCCCCAAAACTTTTTA
1 TTTTAT-CCCCAAAACTTTTTA
*
45000433 TTTT-TCCCCTAAACTTTT
1 TTTTATCCCCAAAACTTTT
45000451 ACTTCTCTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 12 0.71
21 1 0.06
22 4 0.24
ACGTcount: A:0.23, C:0.28, G:0.00, T:0.50
Consensus pattern (21 bp):
TTTTATCCCCAAAACTTTTTA
Found at i:45006816 original size:25 final size:25
Alignment explanation
Indices: 45006756--45006817 Score: 79
Period size: 25 Copynumber: 2.5 Consensus size: 25
45006746 CTCAAGTCGT
* * *
45006756 AAGAGCTTACCGTTATTCAGCTCAG
1 AAGAGCTTACTGATATTAAGCTCAG
*
45006781 AAGAGCTTACTGATATTAAGCTCGG
1 AAGAGCTTACTGATATTAAGCTCAG
*
45006806 ATGAGCTTACTG
1 AAGAGCTTACTG
45006818 TTTATTACTC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (25 bp):
AAGAGCTTACTGATATTAAGCTCAG
Found at i:45010582 original size:9 final size:9
Alignment explanation
Indices: 45010529--45010566 Score: 76
Period size: 9 Copynumber: 4.2 Consensus size: 9
45010519 TGGCTCCAAC
45010529 AGAGTTGAA
1 AGAGTTGAA
45010538 AGAGTTGAA
1 AGAGTTGAA
45010547 AGAGTTGAA
1 AGAGTTGAA
45010556 AGAGTTGAA
1 AGAGTTGAA
45010565 AG
1 AG
45010567 CTCAGTTGCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.45, C:0.00, G:0.34, T:0.21
Consensus pattern (9 bp):
AGAGTTGAA
Found at i:45018884 original size:6 final size:6
Alignment explanation
Indices: 45018863--45018914 Score: 54
Period size: 6 Copynumber: 8.5 Consensus size: 6
45018853 ATGTACCCTG
*
45018863 TAAAAA T-AAAA T-AAAA TAAAAA TAAAATA GTAAAAA TAAATAA TAATAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAA-A -TAAAAA TAAA-AA TAAAAA
45018912 TAA
1 TAA
45018915 TAGGAAAATT
Statistics
Matches: 41, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
5 10 0.24
6 19 0.46
7 7 0.17
8 5 0.12
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (6 bp):
TAAAAA
Found at i:45018884 original size:16 final size:16
Alignment explanation
Indices: 45018863--45018916 Score: 60
Period size: 16 Copynumber: 3.5 Consensus size: 16
45018853 ATGTACCCTG
45018863 TAAAAATAAAATAAAA
1 TAAAAATAAAATAAAA
*
45018879 TAAAAATAAAAT--AG
1 TAAAAATAAAATAAAA
45018893 TAAAAAT-AAATAATAA
1 TAAAAATAAAATAA-AA
*
45018909 TAATAATA
1 TAAAAATA
45018917 GGAAAATTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
13 4 0.13
14 8 0.26
16 19 0.61
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (16 bp):
TAAAAATAAAATAAAA
Found at i:45018899 original size:25 final size:26
Alignment explanation
Indices: 45018870--45018936 Score: 84
Period size: 25 Copynumber: 2.7 Consensus size: 26
45018860 CTGTAAAAAT
*
45018870 AAAATAAAATAAAAATAA-AATAGTA
1 AAAATAAAATAAAAATAATAATAGGA
*
45018895 AAAAT-AAATAATAATAATAATAGGA
1 AAAATAAAATAAAAATAATAATAGGA
* *
45018920 AAATTAAAATTAAAATA
1 AAAATAAAATAAAAATA
45018937 TTTTTTTTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
24 11 0.31
25 15 0.43
26 9 0.26
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.24
Consensus pattern (26 bp):
AAAATAAAATAAAAATAATAATAGGA
Found at i:45025548 original size:46 final size:46
Alignment explanation
Indices: 45025445--45025606 Score: 251
Period size: 46 Copynumber: 3.6 Consensus size: 46
45025435 TACGTATGAT
* *
45025445 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCTAGA-CTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
* *
45025488 CACTTATCACTTTGTTACTTGATCAGATAAGTATAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
45025534 CACTTATCACTTTGTCACCTT-ATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCA-CTTGATCAGATAAGTGTAGCTAAAGCTAC
45025580 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
45025607 AGTACTCAAA
Statistics
Matches: 108, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
43 10 0.09
44 4 0.04
45 24 0.22
46 67 0.62
47 3 0.03
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
Found at i:45025699 original size:19 final size:19
Alignment explanation
Indices: 45025675--45025719 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
45025665 TTTTATTCTC
45025675 ATTTCATCAATAAA-TATAT
1 ATTTCATC-ATAAATTATAT
45025694 ATTTCATCATAAATTATAT
1 ATTTCATCATAAATTATAT
*
45025713 AATTCAT
1 ATTTCAT
45025720 GAAATTAACA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 5 0.21
19 19 0.79
ACGTcount: A:0.44, C:0.11, G:0.00, T:0.44
Consensus pattern (19 bp):
ATTTCATCATAAATTATAT
Found at i:45030487 original size:46 final size:45
Alignment explanation
Indices: 45030391--45030506 Score: 155
Period size: 46 Copynumber: 2.6 Consensus size: 45
45030381 TACGTATGAT
* * * *
45030391 CACTTATCAC-TTGTC-CCTGATTAGATAAGTGTAGTTAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGTAAAGCTAC
* *
45030434 CATTTATCACTTTATCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAG-TAAAGCTAC
45030480 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
45030507 AGTACTCAAA
Statistics
Matches: 62, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
43 9 0.15
44 4 0.06
45 17 0.27
46 32 0.52
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (45 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGTAAAGCTAC
Found at i:45035130 original size:3 final size:3
Alignment explanation
Indices: 45035122--45035151 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
45035112 ATTATTTAGT
45035122 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
45035152 GTTTTTTTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:45035359 original size:22 final size:22
Alignment explanation
Indices: 45035325--45035366 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
45035315 ACTTACATAT
* *
45035325 ATATATATTTTTATATATTAAA
1 ATATATATATTTATACATTAAA
*
45035347 ATATGTATATTTATACATTA
1 ATATATATATTTATACATTA
45035367 TATATTTTAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (22 bp):
ATATATATATTTATACATTAAA
Found at i:45035613 original size:21 final size:20
Alignment explanation
Indices: 45035580--45035627 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
45035570 TCGTTTTTGT
*
45035580 TCATATTTTTTATTCACATCA
1 TCATATTTATTATTC-CATCA
*
45035601 TCATGTTTATTATTCCATCA
1 TCATATTTATTATTCCATCA
45035621 TGCATAT
1 T-CATAT
45035628 AAATATCATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
20 6 0.26
21 17 0.74
ACGTcount: A:0.27, C:0.19, G:0.04, T:0.50
Consensus pattern (20 bp):
TCATATTTATTATTCCATCA
Found at i:45035987 original size:110 final size:109
Alignment explanation
Indices: 45035788--45036195 Score: 651
Period size: 109 Copynumber: 3.8 Consensus size: 109
45035778 NNNNNNNNNN
45035788 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATT
1 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATT
* *
45035853 TTTCTCGTTCAACCAAATGACTTAATATCCTTTTAAAAAATTTTA
66 TTTCTCGTTCAACCAAATGGCTTAATATCCTTTT-AAAAATTTCA
* *
45035898 AGATAAGGCAATGTTTTGCGTTTGGAAACTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATT
1 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATT
*
45035963 TTTCTCGTTCAACCAAATGGCTTAATATCCTTTTCAAAATTTCA
66 TTTCTCGTTCAACCAAATGGCTTAATATCCTTTTAAAAATTTCA
* *
45036007 AAATATGGCAATGTTTTGCGTTTAGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATT
1 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATT
* * *
45036072 TTTCTCGTTCAACCAAATAGCTAAATATCCTTTCAAAAATTTCA
66 TTTCTCGTTCAACCAAATGGCTTAATATCCTTTTAAAAATTTCA
* ** *
45036116 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAG-GAATGTGCCCTAAGGTGCTGGGTTTCGA--
1 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATT
*
45036178 TTTCTCGTTTAACCAAAT
66 TTTCTCGTTCAACCAAAT
45036196 TGCCAAATAT
Statistics
Matches: 278, Mismatches: 20, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
106 17 0.06
108 24 0.09
109 141 0.51
110 96 0.35
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.34
Consensus pattern (109 bp):
AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATT
TTTCTCGTTCAACCAAATGGCTTAATATCCTTTTAAAAATTTCA
Found at i:45038674 original size:27 final size:27
Alignment explanation
Indices: 45038636--45038698 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
45038626 TTTTAGTCTT
* **
45038636 GTGCCGCCAATGGGATTGGCACCACCG
1 GTGCCGCCAATGAGAAAGGCACCACCG
* *
45038663 GTGCCGCCAATGAGAAAGGCATCATCG
1 GTGCCGCCAATGAGAAAGGCACCACCG
45038690 GTGCCGCCA
1 GTGCCGCCA
45038699 TTCCATTACC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.22, C:0.32, G:0.32, T:0.14
Consensus pattern (27 bp):
GTGCCGCCAATGAGAAAGGCACCACCG
Found at i:45043398 original size:188 final size:189
Alignment explanation
Indices: 45043081--45043458 Score: 749
Period size: 188 Copynumber: 2.0 Consensus size: 189
45043071 TTATATTAAT
45043081 TTATATGTTAAGAAATAAACGATATATTTATCGTTCTTAGGAAACCAGTTAGGCTCTTATATCTA
1 TTATATGTTAAGAAATAAACGATATATTTATCGTTCTTAGGAAACCAGTTAGGCTCTTATATCTA
45043146 TCCAAGAGTAAACCATGCCTGAAATTAAATTATAATTTATTATTTTTAATAGTGTATATTTTTAT
66 TCCAAGAGTAAACCATGCCTGAAATTAAATTATAATTTATTATTTTTAATAGTGTATATTTTTAT
45043211 AATTTTTAAAAGATTAAATTAAAATTTTATCATTTTTATGGGATG-AAATGTAATATTA
131 AATTTTTAAAAGATTAAATTAAAATTTTATCATTTTTATGGGATGAAAATGTAATATTA
45043269 TTATATGTTAAGAAATAAACGATATATTTATCGTTCTTAGGAAACCAGTTAGGCTCTTATATCTA
1 TTATATGTTAAGAAATAAACGATATATTTATCGTTCTTAGGAAACCAGTTAGGCTCTTATATCTA
45043334 TCCAAGAGTAAACCATGCCTGAAATTAAATTATAATTTATTATTTTTAATAGTGTATATTTTTAT
66 TCCAAGAGTAAACCATGCCTGAAATTAAATTATAATTTATTATTTTTAATAGTGTATATTTTTAT
45043399 AATTTTTAAAAGATTAAATTAAAATTTTATCATTTTTATGGGATGAAAATGTAATATTA
131 AATTTTTAAAAGATTAAATTAAAATTTTATCATTTTTATGGGATGAAAATGTAATATTA
45043458 T
1 T
45043459 CTCTTATAAT
Statistics
Matches: 189, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
188 175 0.93
189 14 0.07
ACGTcount: A:0.38, C:0.08, G:0.11, T:0.43
Consensus pattern (189 bp):
TTATATGTTAAGAAATAAACGATATATTTATCGTTCTTAGGAAACCAGTTAGGCTCTTATATCTA
TCCAAGAGTAAACCATGCCTGAAATTAAATTATAATTTATTATTTTTAATAGTGTATATTTTTAT
AATTTTTAAAAGATTAAATTAAAATTTTATCATTTTTATGGGATGAAAATGTAATATTA
Found at i:45044023 original size:11 final size:11
Alignment explanation
Indices: 45044007--45044036 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
45043997 TATAGGCAAA
45044007 TTAATTTTGTT
1 TTAATTTTGTT
45044018 TTAATTTTGTT
1 TTAATTTTGTT
45044029 TTAATTTT
1 TTAATTTT
45044037 AAGAGAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.20, C:0.00, G:0.07, T:0.73
Consensus pattern (11 bp):
TTAATTTTGTT
Found at i:45056816 original size:29 final size:30
Alignment explanation
Indices: 45056784--45056841 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 30
45056774 GATGAAAATG
45056784 TAACAAAACCTAGCAAATATTGTT-AAACC
1 TAACAAAACCTAGCAAATATTGTTGAAACC
45056813 TAACAAAACCTAGCAAATATTGTTGAAAC
1 TAACAAAACCTAGCAAATATTGTTGAAAC
45056842 TTGGAACAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 24 0.86
30 4 0.14
ACGTcount: A:0.48, C:0.19, G:0.09, T:0.24
Consensus pattern (30 bp):
TAACAAAACCTAGCAAATATTGTTGAAACC
Found at i:45057056 original size:14 final size:14
Alignment explanation
Indices: 45057037--45057063 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
45057027 ACAAGCAAAC
45057037 TGTTATGAACCAAG
1 TGTTATGAACCAAG
45057051 TGTTATGAACCAA
1 TGTTATGAACCAA
45057064 TTAAAACCCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.15, G:0.19, T:0.30
Consensus pattern (14 bp):
TGTTATGAACCAAG
Found at i:45064672 original size:25 final size:25
Alignment explanation
Indices: 45064616--45064674 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 25
45064606 CTCAAGTCAT
* *
45064616 AAGAGCTTACAGTTATTCAGCTCGG
1 AAGAGCTTACAGATATTAAGCTCGG
* *
45064641 AAAAGCTTACTGATATTAAGCTCGG
1 AAGAGCTTACAGATATTAAGCTCGG
*
45064666 ATGAGCTTA
1 AAGAGCTTA
45064675 ATGTTTATTA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (25 bp):
AAGAGCTTACAGATATTAAGCTCGG
Found at i:45100862 original size:15 final size:15
Alignment explanation
Indices: 45100837--45100871 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
45100827 GACTCTATTT
*
45100837 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
45100851 TAATTAATATTAAGA
1 TAATTAATATTAAGA
45100866 TAATTA
1 TAATTA
45100872 TTAAAGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:45105591 original size:25 final size:25
Alignment explanation
Indices: 45105531--45105593 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 25
45105521 ACCTATCCTC
* * **
45105531 GATGATCTTACTGTTATTCTGCTCG
1 GATGAGCTTACTGATATTAAGCTCG
* * *
45105556 AAAGAGTTTACTGATATTAAGCTCG
1 GATGAGCTTACTGATATTAAGCTCG
45105581 GATGAGCTTACTG
1 GATGAGCTTACTG
45105594 TTTATCGCTC
Statistics
Matches: 28, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.25, C:0.16, G:0.22, T:0.37
Consensus pattern (25 bp):
GATGAGCTTACTGATATTAAGCTCG
Found at i:45107840 original size:18 final size:18
Alignment explanation
Indices: 45107787--45107841 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 18
45107777 AAATCAAAAG
45107787 AGTTTATTTAAAAGTTCT
1 AGTTTATTTAAAAGTTCT
** * ** *
45107805 TTTTTTTTTTGAATTTCT
1 AGTTTATTTAAAAGTTCT
45107823 AGTTTATTTAAAAGTTCT
1 AGTTTATTTAAAAGTTCT
45107841 A
1 A
45107842 TTATAATTTA
Statistics
Matches: 25, Mismatches: 12, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.27, C:0.05, G:0.09, T:0.58
Consensus pattern (18 bp):
AGTTTATTTAAAAGTTCT
Found at i:45117162 original size:13 final size:14
Alignment explanation
Indices: 45117139--45117167 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
45117129 ACAATAATGA
45117139 TATAGTAATAATAT
1 TATAGTAATAATAT
45117153 TATA-TAATAATAT
1 TATAGTAATAATAT
45117166 TA
1 TA
45117168 ATGATATTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (14 bp):
TATAGTAATAATAT
Found at i:45118156 original size:16 final size:16
Alignment explanation
Indices: 45118135--45118175 Score: 82
Period size: 16 Copynumber: 2.6 Consensus size: 16
45118125 TTCGCTGTAT
45118135 TGGAATAGATGCGTAA
1 TGGAATAGATGCGTAA
45118151 TGGAATAGATGCGTAA
1 TGGAATAGATGCGTAA
45118167 TGGAATAGA
1 TGGAATAGA
45118176 GGCGCAATAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.39, C:0.05, G:0.32, T:0.24
Consensus pattern (16 bp):
TGGAATAGATGCGTAA
Found at i:45118248 original size:44 final size:46
Alignment explanation
Indices: 45118165--45118253 Score: 146
Period size: 44 Copynumber: 2.0 Consensus size: 46
45118155 ATAGATGCGT
*
45118165 AATGGAATAGAGGCGCAATAGGTAATTCTTTTGTTTGGTTGAATGG
1 AATGGAATAGAGGCGCAATAGGTAATTCTTGTGTTTGGTTGAATGG
*
45118211 AATGGAATAGAGGCGTAAT-GGT-ATTCTTGTGTTTGGTTGAATG
1 AATGGAATAGAGGCGCAATAGGTAATTCTTGTGTTTGGTTGAATG
45118254 TAATAGAGGT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
44 20 0.49
45 3 0.07
46 18 0.44
ACGTcount: A:0.27, C:0.06, G:0.31, T:0.36
Consensus pattern (46 bp):
AATGGAATAGAGGCGCAATAGGTAATTCTTGTGTTTGGTTGAATGG
Found at i:45118253 original size:39 final size:44
Alignment explanation
Indices: 45118165--45118270 Score: 123
Period size: 39 Copynumber: 2.5 Consensus size: 44
45118155 ATAGATGCGT
* *
45118165 AATGGAATAGAGGCGCAATAGGTAATTCTTTTGTTTGGTTGAATGG
1 AATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTT--ATGG
45118211 AATGGAATAGAGGCGTAAT-GGT-ATTCTTGTGTTTGG-T-T-G
1 AATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTATGG
* *
45118250 AATGTAATAGAGGTGTAATAG
1 AATGGAATAGAGGCGTAATAG
45118271 CATAAGAAAA
Statistics
Matches: 55, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
39 18 0.33
40 2 0.04
43 1 0.02
44 13 0.24
45 3 0.05
46 18 0.33
ACGTcount: A:0.29, C:0.05, G:0.31, T:0.35
Consensus pattern (44 bp):
AATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTATGG
Found at i:45118314 original size:15 final size:15
Alignment explanation
Indices: 45118294--45118329 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
45118284 GCTAAAATGA
45118294 CTAGAATACCCTTAG
1 CTAGAATACCCTTAG
45118309 CTAGAATACCCTTAG
1 CTAGAATACCCTTAG
45118324 C-AGAAT
1 CTAGAAT
45118330 TTTTTTAGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 5 0.24
15 16 0.76
ACGTcount: A:0.36, C:0.25, G:0.14, T:0.25
Consensus pattern (15 bp):
CTAGAATACCCTTAG
Found at i:45121177 original size:35 final size:35
Alignment explanation
Indices: 45121126--45121192 Score: 107
Period size: 35 Copynumber: 1.9 Consensus size: 35
45121116 ATGCTACTTT
45121126 TCAAGTAACTTCAGATCAAAACTAAAATCCAAAAA
1 TCAAGTAACTTCAGATCAAAACTAAAATCCAAAAA
* * *
45121161 TCAAGTGACTTTAGATCAAAATTAAAATCCAA
1 TCAAGTAACTTCAGATCAAAACTAAAATCCAA
45121193 GAAAAGAGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.51, C:0.18, G:0.07, T:0.24
Consensus pattern (35 bp):
TCAAGTAACTTCAGATCAAAACTAAAATCCAAAAA
Found at i:45126286 original size:6 final size:6
Alignment explanation
Indices: 45126275--45126304 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
45126265 ATTGTTTTCT
45126275 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA
45126305 AATTAAATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
TAAAAA
Found at i:45127304 original size:141 final size:140
Alignment explanation
Indices: 45127133--45127413 Score: 508
Period size: 141 Copynumber: 2.0 Consensus size: 140
45127123 CTAATAAACC
45127133 CCTAATTTCAATTTCTTACAATTTAATCCTTATTGCATTAAACTTATAACTTATTTCACAATTTA
1 CCTAATTTCAATTTCTTACAATTTAATCCTTATTGCATTAAACTTATAACTTATTTCACAATTTA
45127198 ATCTTTTTCCCAATTTTAGTTTGAAATTCCATCAATTCAATCTCTAATTCATCCATTAATTCAAT
66 ATCTTTTTCCCAATTTTAGTTTGAAATTCCATCAATTCAATCTCTAATTCATCCATTAATTCAAT
45127263 ATAAACTACA
131 ATAAACTACA
* *
45127273 CCTAATTTTGAATTTCTTACAATTTAGTCCTTATTGCATTAAACTTATAACTTATTTCACAATTT
1 CCTAA-TTTCAATTTCTTACAATTTAATCCTTATTGCATTAAACTTATAACTTATTTCACAATTT
* * *
45127338 AATCTTTTTCCCAATTTTAGTTTGAATTTCCATCAATTCAATTTCTAATTCATCCATTAATTTAA
65 AATCTTTTTCCCAATTTTAGTTTGAAATTCCATCAATTCAATCTCTAATTCATCCATTAATTCAA
45127403 TATAAACTACA
130 TATAAACTACA
45127414 TTAAAAAATC
Statistics
Matches: 135, Mismatches: 5, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
140 5 0.04
141 130 0.96
ACGTcount: A:0.33, C:0.19, G:0.03, T:0.45
Consensus pattern (140 bp):
CCTAATTTCAATTTCTTACAATTTAATCCTTATTGCATTAAACTTATAACTTATTTCACAATTTA
ATCTTTTTCCCAATTTTAGTTTGAAATTCCATCAATTCAATCTCTAATTCATCCATTAATTCAAT
ATAAACTACA
Found at i:45127661 original size:5 final size:5
Alignment explanation
Indices: 45127653--45127709 Score: 50
Period size: 5 Copynumber: 11.6 Consensus size: 5
45127643 TTTATATATA
*
45127653 ATAAT ATAAT ATAAT ATAAT A-ACAT ACTTAT -TAAT -TAAGT A-AAT
1 ATAAT ATAAT ATAAT ATAAT ATA-AT A-TAAT ATAAT ATAA-T ATAAT
45127697 ATAAT ATAAT ATA
1 ATAAT ATAAT ATA
45127710 CAACTTTTAA
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
4 9 0.20
5 33 0.75
6 2 0.05
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.39
Consensus pattern (5 bp):
ATAAT
Found at i:45127703 original size:34 final size:32
Alignment explanation
Indices: 45127660--45127731 Score: 94
Period size: 34 Copynumber: 2.2 Consensus size: 32
45127650 ATAATAATAT
45127660 AATATAATATAATA-ACATACTTATT-AATTAAGTA
1 AATATAATATAATATACA-ACTT-TTAAATTAA--A
45127694 AATATAATATAATATACAACTTTTAAATTAAA
1 AATATAATATAATATACAACTTTTAAATTAAA
45127726 AATATA
1 AATATA
45127732 TTAGATTTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
32 7 0.19
33 2 0.06
34 24 0.67
35 3 0.08
ACGTcount: A:0.56, C:0.06, G:0.01, T:0.38
Consensus pattern (32 bp):
AATATAATATAATATACAACTTTTAAATTAAA
Found at i:45128530 original size:5 final size:5
Alignment explanation
Indices: 45128522--45128578 Score: 50
Period size: 5 Copynumber: 11.6 Consensus size: 5
45128512 TTTATATATA
*
45128522 ATAAT ATAAT ATAAT ATAAT A-ACAT ACTTAT -TAAT -TAAGT A-AAT
1 ATAAT ATAAT ATAAT ATAAT ATA-AT A-TAAT ATAAT ATAA-T ATAAT
45128566 ATAAT ATAAT ATA
1 ATAAT ATAAT ATA
45128579 CAACTTTTAA
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
4 9 0.20
5 33 0.75
6 2 0.05
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.39
Consensus pattern (5 bp):
ATAAT
Found at i:45128572 original size:34 final size:32
Alignment explanation
Indices: 45128529--45128600 Score: 94
Period size: 34 Copynumber: 2.2 Consensus size: 32
45128519 ATAATAATAT
45128529 AATATAATATAATA-ACATACTTATT-AATTAAGTA
1 AATATAATATAATATACA-ACTT-TTAAATTAA--A
45128563 AATATAATATAATATACAACTTTTAAATTAAA
1 AATATAATATAATATACAACTTTTAAATTAAA
45128595 AATATA
1 AATATA
45128601 TTAGATTTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
32 7 0.19
33 2 0.06
34 24 0.67
35 3 0.08
ACGTcount: A:0.56, C:0.06, G:0.01, T:0.38
Consensus pattern (32 bp):
AATATAATATAATATACAACTTTTAAATTAAA
Found at i:45137402 original size:40 final size:40
Alignment explanation
Indices: 45137352--45137445 Score: 152
Period size: 40 Copynumber: 2.4 Consensus size: 40
45137342 GTTTGGATAA
*
45137352 AAAACGCCGCTAAAGATCGAGCATTAGTGGCACTTTTTGG
1 AAAACGCCGCTAAAGATCGAGCATTAGCGGCACTTTTTGG
* * *
45137392 AAAACGCCGCTAAAGGTCGAGTATTAGCGGCGCTTTTTGG
1 AAAACGCCGCTAAAGATCGAGCATTAGCGGCACTTTTTGG
45137432 AAAACGCCGCTAAA
1 AAAACGCCGCTAAA
45137446 AACAACCATT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 50 1.00
ACGTcount: A:0.31, C:0.21, G:0.26, T:0.22
Consensus pattern (40 bp):
AAAACGCCGCTAAAGATCGAGCATTAGCGGCACTTTTTGG
Found at i:45137620 original size:14 final size:14
Alignment explanation
Indices: 45137594--45137634 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
45137584 CAAGTAATTA
45137594 TATGGATTTAAGGAT
1 TATGGA-TTAAGGAT
45137609 TATGGATTAAGGAT
1 TATGGATTAAGGAT
*
45137623 TATGGTTTAAGG
1 TATGGATTAAGG
45137635 GTTGGGATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
14 19 0.76
15 6 0.24
ACGTcount: A:0.32, C:0.00, G:0.29, T:0.39
Consensus pattern (14 bp):
TATGGATTAAGGAT
Found at i:45141213 original size:43 final size:42
Alignment explanation
Indices: 45141117--45141466 Score: 298
Period size: 43 Copynumber: 8.3 Consensus size: 42
45141107 AATATGTTTT
* * * * *
45141117 TAGCGGTGTTTGTGTGAAAAGCGCTGTTAAAGGTC-TGATCTT
1 TAGCGGCGTTTGTG-GAAAAGCGCCGCTAAAAGTCATGATCTA
* * * * *
45141159 TCA-CGGCATTTGTGAGAAAAGTGCCGTTAAAAGTGATGATCTG
1 T-AGCGGCGTTTGTG-GAAAAGCGCCGCTAAAAGTCATGATCTA
* * * *
45141202 TAGCGGCATTTGTGGTAAAAGCGTCGTTAAAATTCATGA-CTTA
1 TAGCGGCGTTTGTGG-AAAAGCGCCGCTAAAAGTCATGATC-TA
* * **
45141245 TAGCGTCGTTTGTGGAAAAAGTGTTGCTAAAAGTCATGATCTA
1 TAGCGGCGTTTGTGG-AAAAGCGCCGCTAAAAGTCATGATCTA
*
45141288 TAGCGGCGTTTGTGGGAAAA--G-CGCTAAAAGTCATGATCTT
1 TAGCGGCGTTTGT-GGAAAAGCGCCGCTAAAAGTCATGATCTA
* * * *
45141328 TAGCGGCGTTTGAGGAAAAGCGCCGTTAAAAGTCTTGTTCTA
1 TAGCGGCGTTTGTGGAAAAGCGCCGCTAAAAGTCATGATCTA
* * *
45141370 TAGCGGCGTTTGTGTGAAAAGCGCCGCTAAAGGTCTTGTTCTA
1 TAGCGGCGTTTGTG-GAAAAGCGCCGCTAAAAGTCATGATCTA
* ** * *
45141413 TAGCGGCGTTTGTGTGAAAAACGCCGCTAATGGTCTTGTTCTA
1 TAGCGGCGTTTGTG-GAAAAGCGCCGCTAAAAGTCATGATCTA
45141456 TAGCGGCGTTT
1 TAGCGGCGTTT
45141467 CTTTCTAAAA
Statistics
Matches: 264, Mismatches: 33, Indels: 21
0.83 0.10 0.07
Matches are distributed among these distances:
39 6 0.02
40 29 0.11
41 2 0.01
42 57 0.22
43 167 0.63
44 3 0.01
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.31
Consensus pattern (42 bp):
TAGCGGCGTTTGTGGAAAAGCGCCGCTAAAAGTCATGATCTA
Found at i:45141373 original size:125 final size:126
Alignment explanation
Indices: 45141117--45141432 Score: 327
Period size: 125 Copynumber: 2.5 Consensus size: 126
45141107 AATATGTTTT
* * * * * * *
45141117 TAGCGGTGTTTGTGTGAAAAGCGCTGTTAAAGGTC-TGATCTTTCA-CGGCATTTGTGAGAAAAG
1 TAGCGGCGTTTGTGTGAAAAGCGCCGCTAAAAGTCATGATCTAT-AGCGGCGTTTGTGGGAAAA-
* * * * *
45141180 TGCCGTTAAAAGTGATGATCTGTAGCGGCATTTGTGGTAAAAGCGTCGTTAAAATTCATGACTTA
64 -G-CGCTAAAAGTCATGATCTGTAGCGGCATTTGAGGTAAAAGCGCCGTTAAAAGTCATGACTTA
* * **
45141245 TAGCGTCGTTTGTG-GAAAAAGTGTTGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGGAAAAG
1 TAGCGGCGTTTGTGTG-AAAAGCGCCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGGAAAAG
* * * *
45141309 CGCTAAAAGTCATGATCTTTAGCGGCGTTTGAGG-AAAAGCGCCGTTAAAAGTCTTG-TTCTA
65 CGCTAAAAGTCATGATCTGTAGCGGCATTTGAGGTAAAAGCGCCGTTAAAAGTCATGACT-TA
* * * *
45141370 TAGCGGCGTTTGTGTGAAAAGCGCCGCTAAAGGTCTTGTTCTATAGCGGCGTTTGTGTGAAAA
1 TAGCGGCGTTTGTGTGAAAAGCGCCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGGAAAA
45141433 ACGCCGCTAA
Statistics
Matches: 157, Mismatches: 26, Indels: 13
0.80 0.13 0.07
Matches are distributed among these distances:
124 1 0.01
125 74 0.47
126 30 0.19
127 2 0.01
128 28 0.18
129 22 0.14
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.31
Consensus pattern (126 bp):
TAGCGGCGTTTGTGTGAAAAGCGCCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGGAAAAGC
GCTAAAAGTCATGATCTGTAGCGGCATTTGAGGTAAAAGCGCCGTTAAAAGTCATGACTTA
Found at i:45141417 original size:168 final size:170
Alignment explanation
Indices: 45141117--45141433 Score: 376
Period size: 168 Copynumber: 1.9 Consensus size: 170
45141107 AATATGTTTT
* * * * *
45141117 TAGCGGTGTTTGTGTGAAAAGCGCTGTTAAAGGTCTGATCTTTCACGGCATTTGTGAGAAAAGTG
1 TAGCGGCGTTTGTGGGAAAAGCGC--TTAAAAGTCTGATCTTTCACGGCATTTGAGAGAAAAGCG
* * * * *
45141182 CCGTTAAAAGTGATGATCTGTAGCGGCATTTGTGGTAAAAGCGTCGTTAAAATTCATGACTTATA
64 CCGTTAAAAGTCATGATCTATAGCGGCATTTGTGGTAAAAGCGCCGCTAAAAGTCATGACTTATA
*
45141247 GCGTCGTTTGTG-GAAAAAGTGTTGCTAAAAGTCATGATCTA
129 GCGGCGTTTGTGTGAAAAAGTGTTGCTAAAAGTCATGATCTA
*
45141288 TAGCGGCGTTTGTGGGAAAAGCGC-TAAAAGTCATGATCTTT-AGCGGCGTTTGAG-GAAAAGCG
1 TAGCGGCGTTTGTGGGAAAAGCGCTTAAAAGTC-TGATCTTTCA-CGGCATTTGAGAGAAAAGCG
* * * * * *
45141350 CCGTTAAAAGTCTTGTTCTATAGCGGCGTTTGT-GTGAAAAGCGCCGCTAAAGGTCTTG-TTCTA
64 CCGTTAAAAGTCATGATCTATAGCGGCATTTGTGGT-AAAAGCGCCGCTAAAAGTCATGACT-TA
45141413 TAGCGGCGTTTGTGTGAAAAA
127 TAGCGGCGTTTGTGTGAAAAA
45141434 CGCCGCTAAT
Statistics
Matches: 123, Mismatches: 18, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
167 3 0.02
168 75 0.61
169 23 0.19
171 22 0.18
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.31
Consensus pattern (170 bp):
TAGCGGCGTTTGTGGGAAAAGCGCTTAAAAGTCTGATCTTTCACGGCATTTGAGAGAAAAGCGCC
GTTAAAAGTCATGATCTATAGCGGCATTTGTGGTAAAAGCGCCGCTAAAAGTCATGACTTATAGC
GGCGTTTGTGTGAAAAAGTGTTGCTAAAAGTCATGATCTA
Found at i:45142175 original size:34 final size:34
Alignment explanation
Indices: 45142127--45142194 Score: 109
Period size: 34 Copynumber: 2.0 Consensus size: 34
45142117 CTCCCTCTCC
45142127 ATCCATCTTCATATTCAATATTCATTTCATGCAT
1 ATCCATCTTCATATTCAATATTCATTTCATGCAT
* * *
45142161 ATCCTTCTTCATATTCAGTATTCATTTGATGCAT
1 ATCCATCTTCATATTCAATATTCATTTCATGCAT
45142195 TTCTCGTTGG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.26, C:0.22, G:0.06, T:0.46
Consensus pattern (34 bp):
ATCCATCTTCATATTCAATATTCATTTCATGCAT
Found at i:45159056 original size:72 final size:72
Alignment explanation
Indices: 45158939--45159081 Score: 241
Period size: 72 Copynumber: 2.0 Consensus size: 72
45158929 TCCCGGATTT
* *
45158939 AAAAAAGGGATCATGCCCAGTAAGTTAGGACGCGATCTTTTCTTAATTCCCGAAATCGTTTAAAA
1 AAAAAAGGGATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAAATCGTTTAAAA
*
45159004 CTTGAGG
66 CATGAGG
* *
45159011 AAAAAAGGGATCATGCCTAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCGTTTAAAA
1 AAAAAAGGGATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAAATCGTTTAAAA
45159076 CATGAG
66 CATGAG
45159082 TTTGAAAAGA
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
72 66 1.00
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.27
Consensus pattern (72 bp):
AAAAAAGGGATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAAATCGTTTAAAA
CATGAGG
Found at i:45160943 original size:72 final size:72
Alignment explanation
Indices: 45160826--45160968 Score: 241
Period size: 72 Copynumber: 2.0 Consensus size: 72
45160816 TCCCGGATTT
* *
45160826 AAAAAAGGGATCATGCCCAGTAAGTTAGGACGCGATCTTTTCTTAATTCCCGAAATCGTTTAAAA
1 AAAAAAGGGATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAAATCGTTTAAAA
*
45160891 CTTGAGG
66 CATGAGG
* *
45160898 AAAAAAGGGATCATGCCTAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCGTTTAAAA
1 AAAAAAGGGATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAAATCGTTTAAAA
45160963 CATGAG
66 CATGAG
45160969 TTTGAAAAGA
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
72 66 1.00
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.27
Consensus pattern (72 bp):
AAAAAAGGGATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAAATCGTTTAAAA
CATGAGG
Found at i:45170163 original size:131 final size:131
Alignment explanation
Indices: 45169990--45170309 Score: 426
Period size: 131 Copynumber: 2.4 Consensus size: 131
45169980 ATACTGCAAC
* * * *
45169990 CTCAGTGAGATAAGACTAGTGGCTTCAATCTGCTTCCCTACTACCTTGAGAAGATAAGATTCATC
1 CTCAGGGAGATAGGA-TGGTGGCTTAAATCTGCTTCCCTACTACCTTGAGAAGATAAGATTCATC
* * * * *
45170055 GTCTTTGATCTGCTCTACTACTGCTTAGGGAGACAAGATCTGCAATCTTGAACCTACTCCACTGC
65 ATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGCAATCTTCAACCTACTCCACTAC
45170120 TG
130 TG
* *
45170122 CTCAGGGAGATAGGATGGTGGCTTAAATCTACTTCCTTACTACCTT-AGGAAGATAAGATTCATC
1 CTCAGGGAGATAGGATGGTGGCTTAAATCTGCTTCCCTACTACCTTGA-GAAGATAAGATTCATC
* * * *
45170186 ATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTGCAATTTTCAACCTATTCCACTAT
65 ATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGCAATCTTCAACCTACTCCACTAC
45170251 TG
130 TG
* * * * *
45170253 CTCAGGGAGACAAGGCTGGTGGCTTAAATCCGCTTCCCTACTACTTTGGGAAGATAA
1 CTCAGGGAGA-TAGGATGGTGGCTTAAATCTGCTTCCCTACTACCTTGAGAAGATAA
45170310 TGTCTGATAC
Statistics
Matches: 163, Mismatches: 22, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
130 1 0.01
131 111 0.68
132 51 0.31
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (131 bp):
CTCAGGGAGATAGGATGGTGGCTTAAATCTGCTTCCCTACTACCTTGAGAAGATAAGATTCATCA
TCTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGCAATCTTCAACCTACTCCACTACT
G
Found at i:45170424 original size:50 final size:50
Alignment explanation
Indices: 45170362--45170523 Score: 164
Period size: 50 Copynumber: 3.2 Consensus size: 50
45170352 ATCGGCAATT
* * *
45170362 TAGCTTTAATCTATTTAACTGCAATGTCGAGAAAGCAAGATTCACCGTTG
1 TAGCTTCAATCTATTTAACTGCAATGTCGAGGAAGCAAGATTCACTGTTG
* ** * ** * * *
45170412 TAGCTTTAATCTATTCCACTACACCG-CCAGGGAAGTAAGATTCACTGTCG
1 TAGCTTCAATCTATTTAACTGCAATGTCGA-GGAAGCAAGATTCACTGTTG
* * *
45170462 TAGCTTCAATCTATTTAATTGCAATGTCGGGGAAGCAAGATTCGCTGTTG
1 TAGCTTCAATCTATTTAACTGCAATGTCGAGGAAGCAAGATTCACTGTTG
*
45170512 TATCTTCAATCT
1 TAGCTTCAATCT
45170524 GTTCCACTAT
Statistics
Matches: 87, Mismatches: 23, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
49 2 0.02
50 84 0.97
51 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (50 bp):
TAGCTTCAATCTATTTAACTGCAATGTCGAGGAAGCAAGATTCACTGTTG
Found at i:45170539 original size:100 final size:100
Alignment explanation
Indices: 45170362--45170541 Score: 261
Period size: 100 Copynumber: 1.8 Consensus size: 100
45170352 ATCGGCAATT
* *
45170362 TAGCTTTAATCTATTTAACTGCAATGTCGAGAAAGCAAGATTCACCGTTGTAGCTTTAATCTATT
1 TAGCTTCAATCTATTTAACTGCAATGTCGAGAAAGCAAGATTCACCGTTGTAGCTTCAATCTATT
45170427 CCACTACACCGCCAGGGAAGTAAGATTCACTGTCG
66 CCACTACACCGCCAGGGAAGTAAGATTCACTGTCG
* * * * * * *
45170462 TAGCTTCAATCTATTTAATTGCAATGTCGGGGAAGCAAGATTCGCTGTTGTATCTTCAATCTGTT
1 TAGCTTCAATCTATTTAACTGCAATGTCGAGAAAGCAAGATTCACCGTTGTAGCTTCAATCTATT
**
45170527 CCACTATGCCGCCAG
66 CCACTACACCGCCAG
45170542 ATAAAAGATT
Statistics
Matches: 69, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
100 69 1.00
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (100 bp):
TAGCTTCAATCTATTTAACTGCAATGTCGAGAAAGCAAGATTCACCGTTGTAGCTTCAATCTATT
CCACTACACCGCCAGGGAAGTAAGATTCACTGTCG
Found at i:45175099 original size:73 final size:73
Alignment explanation
Indices: 45174946--45175086 Score: 203
Period size: 73 Copynumber: 1.9 Consensus size: 73
45174936 TCTTAGATTT
* * * *
45174946 AAAAAAGGGATCATGCCCAGTAAGTTAGGACGCGATCTTTTCTTAATTCCTGAAATCGTTTAAAA
1 AAAAAAGAGATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAAATCGTTTAAAA
45175011 CTTGAGGA
66 CTTGAGGA
* * *
45175019 AAAAAAGAGATCATGCCTTA-TAAGTTAGGACATGATCTCTTCTTAATTCCCGAGATCGTTTAAA
1 AAAAAAGAGATCATGCC-CAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAAATCGTTTAAA
45175083 ACTT
65 ACTT
45175087 TGGTTTGAAA
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
73 59 0.98
74 1 0.02
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.30
Consensus pattern (73 bp):
AAAAAAGAGATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAAATCGTTTAAAA
CTTGAGGA
Found at i:45176497 original size:2 final size:2
Alignment explanation
Indices: 45176490--45176522 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
45176480 GTACACATAA
45176490 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
45176523 AAGTTGATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:45179732 original size:18 final size:18
Alignment explanation
Indices: 45179690--45179733 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
45179680 CGAATCCTTC
* *
45179690 TTTTCTATTTTTGCTATT
1 TTTTCTTTTTTTGCTATG
45179708 TTTTCTTTTTGTTGC-ATG
1 TTTTCTTTTT-TTGCTATG
45179726 TTTTCTTT
1 TTTTCTTT
45179734 CCTTTTGAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 19 0.83
19 4 0.17
ACGTcount: A:0.07, C:0.11, G:0.09, T:0.73
Consensus pattern (18 bp):
TTTTCTTTTTTTGCTATG
Found at i:45181439 original size:46 final size:46
Alignment explanation
Indices: 45181337--45181649 Score: 578
Period size: 46 Copynumber: 6.9 Consensus size: 46
45181327 TACTTATGAT
* * *
45181337 CACTTATCAC-TTGTC-CCTAATCAGATAAGTGTAGCT-AGACTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
45181380 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
45181426 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
45181472 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
45181518 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
45181564 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
45181610 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAA
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAA
45181650 NNNNNNNNNN
Statistics
Matches: 264, Mismatches: 3, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
43 10 0.04
44 5 0.02
45 19 0.07
46 230 0.87
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.33
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
Found at i:45184716 original size:26 final size:26
Alignment explanation
Indices: 45184670--45184721 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
45184660 TATTTTAGCT
*
45184670 ATTTTATTATTAAATTAATTATTTTA
1 ATTTTATTATCAAATTAATTATTTTA
*
45184696 ATTTTATTATCACTATT-ATTATTTTA
1 ATTTTATTATCA-AATTAATTATTTTA
45184722 CCCTCTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 20 0.87
27 3 0.13
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.62
Consensus pattern (26 bp):
ATTTTATTATCAAATTAATTATTTTA
Found at i:45187730 original size:9 final size:9
Alignment explanation
Indices: 45187713--45187783 Score: 63
Period size: 9 Copynumber: 7.8 Consensus size: 9
45187703 GTTAAAAAGG
*
45187713 ACCCAAATT
1 ACCCGAATT
45187722 ACCCGAATT
1 ACCCGAATT
45187731 ACCCG-ATT
1 ACCCGAATT
*
45187739 AACCGAATT
1 ACCCGAATT
*
45187748 AACCGAATT
1 ACCCGAATT
**
45187757 ACCTAAAAATT
1 ACC--CGAATT
*
45187768 ACCCGAACT
1 ACCCGAATT
45187777 ACCCGAA
1 ACCCGAA
45187784 AATTACCCAA
Statistics
Matches: 51, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
8 7 0.14
9 37 0.73
11 7 0.14
ACGTcount: A:0.41, C:0.31, G:0.08, T:0.20
Consensus pattern (9 bp):
ACCCGAATT
Done.