Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007970.1 Hibiscus syriacus cultivar Beakdansim tig00110407_pilon, whole genome shotgun sequence
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: 487657
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
File 1 of 3
Found at i:5033 original size:2 final size:2
Alignment explanation
Indices: 5026--5063 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
5016 TCATGACTTT
5026 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
5064 ATTTTTGGAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:17879 original size:20 final size:22
Alignment explanation
Indices: 17834--17891 Score: 84
Period size: 20 Copynumber: 2.6 Consensus size: 22
17824 GCATGGGTAG
17834 TGCATCGATGCACATGTTAAAGAA
1 TGCATCGATGCAC-TGTT-AAGAA
17858 TGCATCGATGCACTG-T-AGAA
1 TGCATCGATGCACTGTTAAGAA
17878 TGCATCGATGCACT
1 TGCATCGATGCACT
17892 TCAAGGGGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 18 0.53
22 1 0.03
23 2 0.06
24 13 0.38
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (22 bp):
TGCATCGATGCACTGTTAAGAA
Found at i:18690 original size:18 final size:18
Alignment explanation
Indices: 18667--18714 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
18657 GGGTCTACAC
18667 GGTCCTTCGGGACATAGT
1 GGTCCTTCGGGACATAGT
*
18685 GGTCCTTTGGGACATAGT
1 GGTCCTTCGGGACATAGT
18703 GGTCCTTCGGGA
1 GGTCCTTCGGGA
18715 TATATGTGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.15, C:0.21, G:0.35, T:0.29
Consensus pattern (18 bp):
GGTCCTTCGGGACATAGT
Found at i:21947 original size:24 final size:20
Alignment explanation
Indices: 21920--21977 Score: 71
Period size: 20 Copynumber: 2.7 Consensus size: 20
21910 GCATGGGTAG
21920 TGCATCGATGCACATGTTAAAGAA
1 TGCATCGATGCAC-TG-T--AGAA
*
21944 TGCATCGATGTACTGTAGAA
1 TGCATCGATGCACTGTAGAA
21964 TGCATCGATGCACT
1 TGCATCGATGCACT
21978 TCAAGGGGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 17 0.53
22 1 0.03
23 2 0.06
24 12 0.38
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (20 bp):
TGCATCGATGCACTGTAGAA
Found at i:22757 original size:18 final size:18
Alignment explanation
Indices: 22734--22787 Score: 99
Period size: 18 Copynumber: 3.0 Consensus size: 18
22724 GAGGGTCTAC
22734 GTGGTCCTTCGGGACATA
1 GTGGTCCTTCGGGACATA
*
22752 GTGGTCCTTTGGGACATA
1 GTGGTCCTTCGGGACATA
22770 GTGGTCCTTCGGGACATA
1 GTGGTCCTTCGGGACATA
22788 TGTGTTATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.17, C:0.20, G:0.33, T:0.30
Consensus pattern (18 bp):
GTGGTCCTTCGGGACATA
Found at i:29610 original size:21 final size:20
Alignment explanation
Indices: 29586--29625 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
29576 AAATATTATT
*
29586 TTTATTCAATAAAAATATAAA
1 TTTAATCAA-AAAAATATAAA
*
29607 TTTAATCAAAAGAATATAA
1 TTTAATCAAAAAAATATAA
29626 TATATAGAGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.57, C:0.05, G:0.03, T:0.35
Consensus pattern (20 bp):
TTTAATCAAAAAAATATAAA
Found at i:33533 original size:31 final size:31
Alignment explanation
Indices: 33457--33541 Score: 86
Period size: 31 Copynumber: 2.8 Consensus size: 31
33447 GATTATCCAC
* *
33457 CACAGCAAAT-CAAAGAAAACATAAACCCAT
1 CACAACAAATACAAAGAAAACAAAAACCCAT
**
33487 CACAGA-AAA-AGCAAAGAAAACAAAAATTCAT
1 CACA-ACAAATA-CAAAGAAAACAAAAACCCAT
*
33518 CACAACAAATACAAAGGAAACAAA
1 CACAACAAATACAAAGAAAACAAA
33542 GATAGGGGTA
Statistics
Matches: 45, Mismatches: 5, Indels: 9
0.76 0.08 0.15
Matches are distributed among these distances:
30 8 0.18
31 36 0.80
32 1 0.02
ACGTcount: A:0.62, C:0.21, G:0.08, T:0.08
Consensus pattern (31 bp):
CACAACAAATACAAAGAAAACAAAAACCCAT
Found at i:41036 original size:14 final size:14
Alignment explanation
Indices: 40990--41029 Score: 71
Period size: 14 Copynumber: 2.9 Consensus size: 14
40980 CCTCGCATAG
*
40990 CTCGCTCGGATGCC
1 CTCGGTCGGATGCC
41004 CTCGGTCGGATGCC
1 CTCGGTCGGATGCC
41018 CTCGGTCGGATG
1 CTCGGTCGGATG
41030 GCTTCGGATG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.07, C:0.35, G:0.35, T:0.23
Consensus pattern (14 bp):
CTCGGTCGGATGCC
Found at i:45105 original size:29 final size:30
Alignment explanation
Indices: 45066--45137 Score: 119
Period size: 30 Copynumber: 2.4 Consensus size: 30
45056 GTCTGTTTTA
* *
45066 ATACTTAAACTTTCA-TTTTTTTCAAAATC
1 ATACCTAAACTTTCATTTTTTTTCAAAACC
45095 ATACCTAAACTTTCATTTTTTTTCAAAACC
1 ATACCTAAACTTTCATTTTTTTTCAAAACC
45125 ATACCTAAACTTT
1 ATACCTAAACTTT
45138 AGCTTTTGTT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
29 14 0.35
30 26 0.65
ACGTcount: A:0.35, C:0.21, G:0.00, T:0.44
Consensus pattern (30 bp):
ATACCTAAACTTTCATTTTTTTTCAAAACC
Found at i:52973 original size:60 final size:60
Alignment explanation
Indices: 52909--53024 Score: 144
Period size: 60 Copynumber: 1.9 Consensus size: 60
52899 ATGATCCTAT
* *
52909 AACTAT-AGGATATTGTTTTATTAAGACCCATGACTTTTAAAAGTTACAAAATGGTCCTTC
1 AACTATAAGGA-ATTGTTTTATCAAGACCCATGACTATTAAAAGTTACAAAATGGTCCTTC
* * * ** *
52969 AACTATAAGGAGTTGTTTTGTCGAGTTCCTTGACTATTAAAAGTTACAAAATGGTC
1 AACTATAAGGAATTGTTTTATCAAGACCCATGACTATTAAAAGTTACAAAATGGTC
53025 ACCTGACTTT
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
60 43 0.91
61 4 0.09
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.36
Consensus pattern (60 bp):
AACTATAAGGAATTGTTTTATCAAGACCCATGACTATTAAAAGTTACAAAATGGTCCTTC
Found at i:53700 original size:161 final size:160
Alignment explanation
Indices: 53515--53810 Score: 439
Period size: 160 Copynumber: 1.8 Consensus size: 160
53505 AACACAATAA
* * * * *
53515 AATACCTATGTAACTTCAATTCTTAATTTTTTACTAAAAATGTAGTCTCTCTTTTTATTTAGTCC
1 AATACCTATGTAACTTCAATTCTTAATTTTTTACTAAAAATATACTCTCTC-TTTAATTCAATCC
* *
53580 CTTAACTTTGTATTTTACTCAATATGATCTCTTGACTATAATTGTTTACAGATTCTTTCTTTCCA
65 CTTAAATTTGTATTTTACTCAATATGATCTCTTGACTATAATTGTTTACAGATTCTTTCTTCCCA
53645 CCAATTTCTTGACTCCTCTATACACCACAAG
130 CCAATTTCTTGACTCCTCTATACACCACAAG
* *
53676 AATACCTATGTAACTTCGATTCTTACTTTTTTACTAAAAATATACTCTCTCTTTAATTCAATCCC
1 AATACCTATGTAACTTCAATTCTTAATTTTTTACTAAAAATATACTCTCTCTTTAATTCAATCCC
* * * * * * *
53741 TTAAATTTTTATTTTACTCAATTTGGTCTTTTGACTATAATTGTTTGCATATTCTTTCTTCCCAT
66 TTAAATTTGTATTTTACTCAATATGATCTCTTGACTATAATTGTTTACAGATTCTTTCTTCCCAC
53806 CAATT
131 CAATT
53811 CCTAATAAAG
Statistics
Matches: 119, Mismatches: 16, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
160 72 0.61
161 47 0.39
ACGTcount: A:0.27, C:0.20, G:0.06, T:0.47
Consensus pattern (160 bp):
AATACCTATGTAACTTCAATTCTTAATTTTTTACTAAAAATATACTCTCTCTTTAATTCAATCCC
TTAAATTTGTATTTTACTCAATATGATCTCTTGACTATAATTGTTTACAGATTCTTTCTTCCCAC
CAATTTCTTGACTCCTCTATACACCACAAG
Found at i:58584 original size:16 final size:17
Alignment explanation
Indices: 58544--58597 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 17
58534 TTTATATATA
58544 TTATAATATTACAT-ATT
1 TTAT-ATATTACATAATT
*
58561 TAAT-TATTA-ATAATT
1 TTATATATTACATAATT
*
58576 TTATATATTATATAAGTT
1 TTATATATTACATAA-TT
58594 TTAT
1 TTAT
58598 TTTTAAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
14 2 0.06
15 11 0.35
16 5 0.16
17 7 0.23
18 6 0.19
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (17 bp):
TTATATATTACATAATT
Found at i:64808 original size:46 final size:47
Alignment explanation
Indices: 64747--64839 Score: 161
Period size: 46 Copynumber: 2.0 Consensus size: 47
64737 TTCTCCCATT
*
64747 TTTTTCGTTAAAAACTGGCATGGTCTAATCAAAAGCTGACATGTGTA
1 TTTTTCGTTAAAAACTGGCATGGTCTAATCAAAAGATGACATGTGTA
*
64794 TTTTT-GTTAAAAACTGGCATGGTCTAATCAGAAGATGACATGTGTA
1 TTTTTCGTTAAAAACTGGCATGGTCTAATCAAAAGATGACATGTGTA
64840 ATAGATAAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
46 39 0.89
47 5 0.11
ACGTcount: A:0.32, C:0.13, G:0.20, T:0.34
Consensus pattern (47 bp):
TTTTTCGTTAAAAACTGGCATGGTCTAATCAAAAGATGACATGTGTA
Found at i:65799 original size:60 final size:60
Alignment explanation
Indices: 65687--65799 Score: 147
Period size: 60 Copynumber: 1.9 Consensus size: 60
65677 AACTATACAG
* * **
65687 TATTACTTTATTAAGTTATTCGACTATTAAAAATTATAAAATAGTTTTTCGACGATAGAA
1 TATTACTTTATTAAGTTATTCGACTATTAAAAATTACAAAATAATTACTCGACGATAGAA
* * *
65747 TATTATTTTGTTAAGTTCA-TCGACTATTAAAAGTTACAAAATAATTACTCGAC
1 TATTACTTTATTAAGTT-ATTCGACTATTAAAAATTACAAAATAATTACTCGAC
65800 TAAACTCGTC
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
60 44 0.98
61 1 0.02
ACGTcount: A:0.39, C:0.11, G:0.10, T:0.41
Consensus pattern (60 bp):
TATTACTTTATTAAGTTATTCGACTATTAAAAATTACAAAATAATTACTCGACGATAGAA
Found at i:66341 original size:207 final size:207
Alignment explanation
Indices: 65986--66382 Score: 749
Period size: 207 Copynumber: 1.9 Consensus size: 207
65976 ACATGGTGAA
*
65986 TAATTAGGTGACAAAGTTATAACTTTTAATAATTCATGGACTCAACAAAACAACACTCTATAGTC
1 TAATTAGATGACAAAGTTATAACTTTTAATAATTCATGGACTCAACAAAACAACACTCTATAGTC
66051 TAAGAACTATTTTGTAACTTTTAACAGTCGAAAGACTTAATAAAATAATATCATATAGTCGGGAC
66 TAAGAACTATTTTGTAACTTTTAACAGTCGAAAGACTTAATAAAATAATATCATATAGTCGGGAC
66116 TGTTCTACTTTATAACCAAGTATTTTTTTACATTATTATTTGTAAATTAAAATAATAATTTATTA
131 TGTTCTACTTTATAACCAAGTATTTTTTTACATTATTATTTGTAAATTAAAATAATAATTTATTA
66181 AGTTTTAACTTT
196 AGTTTTAACTTT
* * *
66193 TAATTAGATGACAAAGTTATAGCTTTTAATAATTCATGGACTCAACAAAACAACACTTTATAGTT
1 TAATTAGATGACAAAGTTATAACTTTTAATAATTCATGGACTCAACAAAACAACACTCTATAGTC
*
66258 TAAGAACTATTTTGTAACTTTTAACGGTCGAAAGACTTAATAAAATAATATCATATAGTCGGGAC
66 TAAGAACTATTTTGTAACTTTTAACAGTCGAAAGACTTAATAAAATAATATCATATAGTCGGGAC
66323 TGTTCTACTTTATAACCAAGTATTTTTTTACATTATTATTTGTAAATTAAAATAATAATT
131 TGTTCTACTTTATAACCAAGTATTTTTTTACATTATTATTTGTAAATTAAAATAATAATT
66383 AATCTATAGC
Statistics
Matches: 185, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
207 185 1.00
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (207 bp):
TAATTAGATGACAAAGTTATAACTTTTAATAATTCATGGACTCAACAAAACAACACTCTATAGTC
TAAGAACTATTTTGTAACTTTTAACAGTCGAAAGACTTAATAAAATAATATCATATAGTCGGGAC
TGTTCTACTTTATAACCAAGTATTTTTTTACATTATTATTTGTAAATTAAAATAATAATTTATTA
AGTTTTAACTTT
Found at i:66866 original size:24 final size:24
Alignment explanation
Indices: 66839--66894 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
66829 AGGAGATCAC
* *
66839 CAGAACCGGACGAGAGAAACCATA
1 CAGAACCAGACGAGAGAAACCACA
66863 CAGAACCAGACGAGAGAAACCACA
1 CAGAACCAGACGAGAGAAACCACA
66887 CAGAACCA
1 CAGAACCA
66895 TCACCGAGAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.48, C:0.29, G:0.21, T:0.02
Consensus pattern (24 bp):
CAGAACCAGACGAGAGAAACCACA
Found at i:66903 original size:24 final size:24
Alignment explanation
Indices: 66839--66905 Score: 80
Period size: 24 Copynumber: 2.7 Consensus size: 24
66829 AGGAGATCAC
** *
66839 CAGAACCGGACGAGAGAAACCATA
1 CAGAACCACACGAGAGAAACCACA
*
66863 CAGAACCAGACGAGAGAAACCACA
1 CAGAACCACACGAGAGAAACCACA
66887 CAGAACCATCACCGAGAGA
1 CAGAACCA-CA-CGAGAGA
66906 CAAAGGAAAC
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
24 30 0.79
25 1 0.03
26 7 0.18
ACGTcount: A:0.46, C:0.28, G:0.22, T:0.03
Consensus pattern (24 bp):
CAGAACCACACGAGAGAAACCACA
Found at i:71632 original size:180 final size:182
Alignment explanation
Indices: 71330--71679 Score: 632
Period size: 180 Copynumber: 1.9 Consensus size: 182
71320 ATTAAATCCG
71330 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
1 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
**
71395 ATAGATTATGTTCAAACTATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTT
66 ATAGATTACATTCAAACTATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTT
71460 TTGTCAGGCC-A-ACTTTGTGATGAGACGAACCCTTCAGAGATTTGTCCCTC
131 TTGTCAGGCCAAGACTTTGTGATGAGACGAACCCTTCAGAGATTTGTCCCTC
*
71510 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGTTTTATGA
1 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
*
71575 ATAGATTACATTCAAACTATGACATTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTT
66 ATAGATTACATTCAAACTATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTT
*
71640 TTGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTCAG
131 TTGTCAGGCC-AAGACTTTGTGATGAGACGAACCCTTCAG
71680 TTAAACCTGA
Statistics
Matches: 162, Mismatches: 5, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
180 136 0.84
182 1 0.01
183 25 0.15
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (182 bp):
TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
ATAGATTACATTCAAACTATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTT
TTGTCAGGCCAAGACTTTGTGATGAGACGAACCCTTCAGAGATTTGTCCCTC
Found at i:72878 original size:36 final size:34
Alignment explanation
Indices: 72831--72948 Score: 112
Period size: 36 Copynumber: 3.4 Consensus size: 34
72821 CAGATGATTA
72831 TCTCACTTGAGATTGCTTTTCTTAAAACAGACTTTG
1 TCTCACTTGAGATTG-TTTTCTTAAAACAGA-TTTG
* ** *
72867 TCTCACTTGAGACTGTTTTACTCGAAA-AGATTTA
1 TCTCACTTGAGATTGTTTT-CTTAAAACAGATTTG
* **
72901 TTTCACTCAAGATTGTTTTTCTTAAAACAAGATTTG
1 TCTCACTTGAGATTG-TTTTCTTAAAAC-AGATTTG
*
72937 TCTCGCTTGAGA
1 TCTCACTTGAGA
72949 CCGTTTTCAC
Statistics
Matches: 63, Mismatches: 15, Indels: 8
0.73 0.17 0.09
Matches are distributed among these distances:
34 19 0.30
35 11 0.17
36 33 0.52
ACGTcount: A:0.27, C:0.18, G:0.14, T:0.41
Consensus pattern (34 bp):
TCTCACTTGAGATTGTTTTCTTAAAACAGATTTG
Found at i:72921 original size:70 final size:76
Alignment explanation
Indices: 72840--72996 Score: 211
Period size: 70 Copynumber: 2.1 Consensus size: 76
72830 ATCTCACTTG
* *
72840 AGATTGCTTTTCTTAAAAC-AGACTTTGTCTCACTTGAGACTGTTTT-ACTCG-AA-AA-G-ATT
1 AGATTGTTTTTCTTAAAACAAGA-TTTGTCTCACTTGAGACCGTTTTCACTCGAAAGAAGGCATT
72899 T-ATTTCACTCA
65 TCATTTCACTCA
*
72910 AGATTGTTTTTCTTAAAACAAGATTTGTCTCGCTTGAGACCGTTTTCACTCGAAAGAAGGCATTT
1 AGATTGTTTTTCTTAAAACAAGATTTGTCTCACTTGAGACCGTTTTCACTCGAAAGAAGGCATTT
72975 CATTTCACTCA
66 CATTTCACTCA
**
72986 AGGCTGTTTTT
1 AGATTGTTTTT
72997 AAAGAATATT
Statistics
Matches: 75, Mismatches: 5, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
70 39 0.52
71 8 0.11
72 2 0.03
73 2 0.03
74 1 0.01
75 4 0.05
76 19 0.25
ACGTcount: A:0.27, C:0.18, G:0.15, T:0.39
Consensus pattern (76 bp):
AGATTGTTTTTCTTAAAACAAGATTTGTCTCACTTGAGACCGTTTTCACTCGAAAGAAGGCATTT
CATTTCACTCA
Found at i:73194 original size:103 final size:104
Alignment explanation
Indices: 73004--73298 Score: 465
Period size: 103 Copynumber: 2.9 Consensus size: 104
72994 TTTAAAGAAT
* * *
73004 ATTTTATCTTGCTTGAGATAGTTTCCCTCTAAATAGAAAATTTTGTCTCCCTTGAGACAGTTTCT
1 ATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAGAAAATTTTGTCTCCCTTGAGACAGTTTCT
* *
73069 TTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGA
66 CTTGAAACATAAACATTGAAAACATTTCCATTGAAATGA
* *
73108 ATTTT-TTTCTCTTGAGATAGTTTCCCTCGAAACAGAAAATTTTGTCTCCCTTGAGACAGTTTCT
1 ATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAGAAAATTTTGTCTCCCTTGAGACAGTTTCT
73172 CTTGAAACATAAACATTGAAAACATTTCCATTGAAATGA
66 CTTGAAACATAAACATTGAAAACATTTCCATTGAAATGA
*
73211 ATTTTATCTCGCTTGAGATAGTTTCCCTTGAAAC-G--AATTTTGTCTCCCTTGAGACAGTTTCT
1 ATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAGAAAATTTTGTCTCCCTTGAGACAGTTTCT
**
73273 CTCCAAACATAAAC-TTGAAAACATTT
66 CTTGAAACATAAACATTGAAAACATTT
73299 AACGAAATCT
Statistics
Matches: 178, Mismatches: 12, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
100 12 0.07
101 39 0.22
103 97 0.54
104 30 0.17
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.38
Consensus pattern (104 bp):
ATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAGAAAATTTTGTCTCCCTTGAGACAGTTTCT
CTTGAAACATAAACATTGAAAACATTTCCATTGAAATGA
Found at i:73243 original size:36 final size:36
Alignment explanation
Indices: 73196--73271 Score: 107
Period size: 36 Copynumber: 2.1 Consensus size: 36
73186 ATTGAAAACA
* * *
73196 TTTCCATTGAAATGAATTTTATCTCGCTTGAGATAG
1 TTTCCATTGAAACGAATTTTATCTCCCTTGAGACAG
* *
73232 TTTCCCTTGAAACGAATTTTGTCTCCCTTGAGACAG
1 TTTCCATTGAAACGAATTTTATCTCCCTTGAGACAG
73268 TTTC
1 TTTC
73272 TCTCCAAACA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.24, C:0.20, G:0.16, T:0.41
Consensus pattern (36 bp):
TTTCCATTGAAACGAATTTTATCTCCCTTGAGACAG
Found at i:73341 original size:86 final size:88
Alignment explanation
Indices: 73231--73453 Score: 353
Period size: 86 Copynumber: 2.6 Consensus size: 88
73221 GCTTGAGATA
* * * *
73231 GTTTCCCTTGAAACGAATTTTGTCTCCCTTGAGACAGTTTCTCTCCAAACATAAAC-TTGAAAAC
1 GTTTTCCTTCAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTCGAAACATAAACTTTGAAAAC
73295 -ATTTAACGAAATCTTTAAATAT
66 AATTTAACGAAATCTTTAAATAT
*
73317 GTTTTCCTTCAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACTTTGAAAAC
1 GTTTTCCTTCAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTCGAAACATAAACTTTGAAAAC
*
73382 AATTTAACGAAATCTTTGAATAT
66 AATTTAACGAAATCTTTAAATAT
* *
73405 GTTTTCCTTCAAACAAA-TTTGTCTCCTTTGAGACAATTTCTCTCGAAAC
1 GTTTTCCTTCAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTCGAAAC
73454 GACACAATTT
Statistics
Matches: 126, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
86 51 0.40
87 37 0.29
88 38 0.30
ACGTcount: A:0.32, C:0.21, G:0.10, T:0.37
Consensus pattern (88 bp):
GTTTTCCTTCAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTCGAAACATAAACTTTGAAAAC
AATTTAACGAAATCTTTAAATAT
Found at i:79708 original size:23 final size:21
Alignment explanation
Indices: 79659--79721 Score: 81
Period size: 21 Copynumber: 2.9 Consensus size: 21
79649 TTTTTGTGCA
* *
79659 GAGGGAATCGATCCCCCCCTT
1 GAGGGAACCGATTCCCCCCTT
*
79680 GAGGGAACCGATTCCCCCTTT
1 GAGGGAACCGATTCCCCCCTT
79701 GAAGGGGAACCGATTCCCCCC
1 G-A-GGGAACCGATTCCCCCC
79722 ACAGGGGAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
21 19 0.53
22 1 0.03
23 16 0.44
ACGTcount: A:0.21, C:0.37, G:0.25, T:0.17
Consensus pattern (21 bp):
GAGGGAACCGATTCCCCCCTT
Found at i:79729 original size:21 final size:21
Alignment explanation
Indices: 79703--79742 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
79693 CCCCCTTTGA
*
79703 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
79724 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
79743 TGGGGTTCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.40, G:0.25, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:81997 original size:18 final size:18
Alignment explanation
Indices: 81974--82008 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
81964 GAGAAGAATA
81974 AGTGTTAAAGTAAGGGGT
1 AGTGTTAAAGTAAGGGGT
81992 AGTGTTAAAGTAAGGGG
1 AGTGTTAAAGTAAGGGG
82009 GAGTAATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.34, C:0.00, G:0.40, T:0.26
Consensus pattern (18 bp):
AGTGTTAAAGTAAGGGGT
Found at i:83398 original size:105 final size:104
Alignment explanation
Indices: 83282--83490 Score: 321
Period size: 106 Copynumber: 2.0 Consensus size: 104
83272 GGATCGTGCC
*
83282 ACTCAAGACAACAC-AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAAATTCCC
1 ACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAACAAAC-AATTCCC
83346 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
65 AATTTCAGAGCCAATTTCAACTTC-CAGCGAAGGATATTGG
* * *
83387 ACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACACTTTCCA
1 ACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAACAAACAATTCCCA
* ** *
83452 GTTTCAGAGTTAGTTTCAACTTCCAGCGAAGGATATTGG
66 ATTTCAGAGCCAATTTCAACTTCCAGCGAAGGATATTGG
83491 CCTCGAAACA
Statistics
Matches: 95, Mismatches: 8, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
104 16 0.17
105 39 0.41
106 40 0.42
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.22
Consensus pattern (104 bp):
ACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAACAAACAATTCCCA
ATTTCAGAGCCAATTTCAACTTCCAGCGAAGGATATTGG
Found at i:83946 original size:4 final size:4
Alignment explanation
Indices: 83937--85993 Score: 3516
Period size: 4 Copynumber: 528.0 Consensus size: 4
83927 GAAAAAGACA
83937 ATAC ATAC ATAC ATAC -TAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
83984 ATAC ATAC --AC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
84030 ATAC ATAC AGAC ATAC ATAC ATAC ATAC AT-C ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
84077 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC --AC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
84123 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT-- ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
84169 ATAC ATAC ATAC ATAC ATAC A-AC ATAC ATAC ATAC ATAC ATAC ATAT
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
84216 AT-C ATAC -TAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
84262 ATAC ATAC AT-- ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
84308 AT-- ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
84354 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AGAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
84402 ATAC ATAC ATAC ATAC ATAC -TAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
84449 ATAC AT-- ATAC ATAC ATAC ATAC AT-C ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
84494 ATAC ATAC AT-C ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
84541 A-AC ATAC ATAC ATAC ATAC -TAC ATAC ATAC ATAC ATAC AGAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
84587 ATAC ATAC ATAC ATAC ATAC ATAC ATAC -TAC ATAC ATAC ATAC AGAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
84634 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATCAC ATAC A-AC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT-AC ATAC ATAC ATAC
84682 ATAC ATAC AT-- ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
84728 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT--
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
84774 ATAC ATAC ATAC ATAC CTAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
84822 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC -TAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
84869 CTAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA- ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
84916 ATAC ATAC ATAC ATAC ATAC ATAC ATA- ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
84963 ATAC ATAC ATAC ATAC AACAC ATAC ATAC ATAC ATAC -TAC ATAC ATAC
1 ATAC ATAC ATAC ATAC -ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
85011 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
85059 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
85107 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
85155 ATAC -TAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
85202 ATAC ATAC A-AC ATAC ATAC ATAC ATAC -TAC -TAC ATAC ATA- ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
85246 -TAC ATAC -TAC AT-C ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
85291 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
85339 ATAC ATAC ATAC ATAC ATAC -TAC A-AC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
85385 ATAC -TAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
85432 ATAC AGAC ATAC ATAC ATAC ATAC ATAC A-A- ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
85478 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC -TAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
85525 ATAC ATAC ATAC ATAC ATAC AT-- ATAC A-AC AT-C ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
85569 A-AC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AGAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
85616 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT--
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
85662 ATAC ATAC ATAC ATAC ATA- ATAC ATAC ATAC ATAC AATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC -ATAC ATAC ATAC
85710 -TAC ATAC ATAC ATAC AT-- ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
85755 ATAA ATAC ATAC ATAC ATAC ATAC A-ATC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATA-C ATAC ATAC ATAC ATAC ATAC
85803 ATAC -TAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATTAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC A-TAC
* *
85851 ATAC ATAC AT-C ATAC AGAC ATAT ATAC ATAC ATA- ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
85897 ATAC ATAC AATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC -ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
85946 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
85994 TGATGAATGA
Statistics
Matches: 1961, Mismatches: 26, Indels: 132
0.93 0.01 0.06
Matches are distributed among these distances:
2 23 0.01
3 110 0.06
4 1808 0.92
5 20 0.01
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:86217 original size:34 final size:34
Alignment explanation
Indices: 86179--86243 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 34
86169 TATATATAAA
* *
86179 AAAAAGAATAGAAGGCTGCATATACATATAATGT
1 AAAAAGAAAAGAAGACTGCATATACATATAATGT
* * *
86213 AAAAAGAAAAGATGACTGGATATTCATATAA
1 AAAAAGAAAAGAAGACTGCATATACATATAA
86244 GTTTAACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 26 1.00
ACGTcount: A:0.52, C:0.08, G:0.17, T:0.23
Consensus pattern (34 bp):
AAAAAGAAAAGAAGACTGCATATACATATAATGT
Found at i:88990 original size:22 final size:22
Alignment explanation
Indices: 88960--89002 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
88950 AGAAGTGATT
88960 TAATCTAAAGAAAATAAAAAAG
1 TAATCTAAAGAAAATAAAAAAG
*
88982 TAATTTAAAGAAAATAAAAAA
1 TAATCTAAAGAAAATAAAAAA
89003 TTTAATATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.70, C:0.02, G:0.07, T:0.21
Consensus pattern (22 bp):
TAATCTAAAGAAAATAAAAAAG
Found at i:89458 original size:42 final size:42
Alignment explanation
Indices: 89338--89911 Score: 593
Period size: 42 Copynumber: 13.7 Consensus size: 42
89328 AACAAAGACA
*
89338 TTAGCAGCGTTTTTAGTAATAAACGCCGCAATAGTCATGCACC
1 TTAGCGGCGTTTTT-GTAATAAACGCCGCAATAGTCATGCACC
* *
89381 TTAGCGGCG-TTTT-TAATAAACACCGCAATATTCATGCACC
1 TTAGCGGCGTTTTTGTAATAAACGCCGCAATAGTCATGCACC
* * * * *
89421 TTAGCGACATTTTTGTAATAAACGCTGCAATAATCATGCTCC
1 TTAGCGGCGTTTTTGTAATAAACGCCGCAATAGTCATGCACC
* *
89463 TTAACGGCATTTTTGTAATAAACGCCGCAATAGTCATG-ATCC
1 TTAGCGGCGTTTTTGTAATAAACGCCGCAATAGTCATGCA-CC
* *
89505 TTAGCGGCGTTTTT-T-GTAAACG-CGACAATAGTCATGAACC
1 TTAGCGGCGTTTTTGTAATAAACGCCG-CAATAGTCATGCACC
* * *** * *
89545 ATAACGGCGTTTTTGTAATAAACGCCATGATAGTCATGTACA
1 TTAGCGGCGTTTTTGTAATAAACGCCGCAATAGTCATGCACC
* * ** *
89587 TTAGCGACGTTTTTGTAATAAATGCCGTGATAATCATGCACC
1 TTAGCGGCGTTTTTGTAATAAACGCCGCAATAGTCATGCACC
* * *
89629 TTAGCGGCGTTTTTGTAATAAATGTCGCGATAGTCATGCACC
1 TTAGCGGCGTTTTTGTAATAAACGCCGCAATAGTCATGCACC
* ** * * *
89671 TTAGCGGCGTTTTTCTAATAAACATCACGATAGTCATGCACT
1 TTAGCGGCGTTTTTGTAATAAACGCCGCAATAGTCATGCACC
* ** * * *
89713 TTAGCGACGTTTTCCTAATAAACGCCACGATAGTCAAGCACC
1 TTAGCGGCGTTTTTGTAATAAACGCCGCAATAGTCATGCACC
* * * **
89755 TTAGCGGCGTTTTCGTGATAAACGCCGCAATAATCATGCAAT
1 TTAGCGGCGTTTTTGTAATAAACGCCGCAATAGTCATGCACC
* * * **
89797 TTAGCGACGCTTTTGTAATAAACGACGTGATAGTCATGCACC
1 TTAGCGGCGTTTTTGTAATAAACGCCGCAATAGTCATGCACC
* * **
89839 TTAACGGCGTTTTTGTAATAAACGACGTGATAGTCATGCACC
1 TTAGCGGCGTTTTTGTAATAAACGCCGCAATAGTCATGCACC
*
89881 TTAACGGCGTTTTTGTAATAAACGCCGCAAT
1 TTAGCGGCGTTTTTGTAATAAACGCCGCAAT
89912 TTTACAATCC
Statistics
Matches: 450, Mismatches: 73, Indels: 17
0.83 0.14 0.03
Matches are distributed among these distances:
39 2 0.00
40 63 0.14
41 7 0.02
42 369 0.82
43 9 0.02
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.30
Consensus pattern (42 bp):
TTAGCGGCGTTTTTGTAATAAACGCCGCAATAGTCATGCACC
Found at i:92466 original size:22 final size:22
Alignment explanation
Indices: 92438--92491 Score: 99
Period size: 22 Copynumber: 2.5 Consensus size: 22
92428 GTTTACATTT
92438 GAAATGGATATTTCAGAAATAC
1 GAAATGGATATTTCAGAAATAC
92460 GAAATGGATATTTCAGAAATAC
1 GAAATGGATATTTCAGAAATAC
*
92482 AAAATGGATA
1 GAAATGGATA
92492 AGAGTTAGAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.48, C:0.07, G:0.19, T:0.26
Consensus pattern (22 bp):
GAAATGGATATTTCAGAAATAC
Found at i:95004 original size:21 final size:21
Alignment explanation
Indices: 94980--95019 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
94970 TCGAAGTTGA
94980 AGCGAGAGAAACAGAGAGAGC
1 AGCGAGAGAAACAGAGAGAGC
*
95001 AGCGAGAGAAGCAGAGAGA
1 AGCGAGAGAAACAGAGAGA
95020 AGCATCATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.47, C:0.12, G:0.40, T:0.00
Consensus pattern (21 bp):
AGCGAGAGAAACAGAGAGAGC
Found at i:95021 original size:10 final size:10
Alignment explanation
Indices: 94978--95023 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
94968 AGTCGAAGTT
94978 GAAGC-GAGA
1 GAAGCAGAGA
*
94987 GAAACAGAGA
1 GAAGCAGAGA
94997 G-AGCAGCGAGA
1 GAAGCA--GAGA
95008 GAAGCAGAGA
1 GAAGCAGAGA
95018 GAAGCA
1 GAAGCA
95024 TCATTTCAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
9 7 0.23
10 15 0.48
11 5 0.16
12 4 0.13
ACGTcount: A:0.48, C:0.13, G:0.39, T:0.00
Consensus pattern (10 bp):
GAAGCAGAGA
Found at i:95511 original size:44 final size:44
Alignment explanation
Indices: 95452--95542 Score: 130
Period size: 44 Copynumber: 2.1 Consensus size: 44
95442 TATTACGAAT
*
95452 TTTGTATTCTAAAACGCCGC-AATATAACATGACCTTTAGCGGCG
1 TTTGTATACTAAAACGCCGCTAA-ATAACATGACCTTTAGCGGCG
* * *
95496 TTTGTATACTCAAACGCCGCTAAATAACCTGACTTTTAGCGGCG
1 TTTGTATACTAAAACGCCGCTAAATAACATGACCTTTAGCGGCG
95540 TTT
1 TTT
95543 ATTAGTAGAA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
44 40 0.95
45 2 0.05
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (44 bp):
TTTGTATACTAAAACGCCGCTAAATAACATGACCTTTAGCGGCG
Found at i:95957 original size:18 final size:16
Alignment explanation
Indices: 95924--95972 Score: 55
Period size: 18 Copynumber: 3.0 Consensus size: 16
95914 TATTTCTTAA
95924 CATTTTTTT-CATTTT
1 CATTTTTTTCCATTTT
95939 CATTTTTTTCCAATATTT
1 CATTTTTTTCC-AT-TTT
* *
95957 CATTTATTTCTATTTT
1 CATTTTTTTCCATTTT
95973 TTATCATTCT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
15 9 0.31
16 4 0.14
17 4 0.14
18 12 0.41
ACGTcount: A:0.18, C:0.14, G:0.00, T:0.67
Consensus pattern (16 bp):
CATTTTTTTCCATTTT
Found at i:96020 original size:17 final size:18
Alignment explanation
Indices: 96000--96043 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
95990 AAATTGTATT
96000 TTTTATTTTTTATCT-TC
1 TTTTATTTTTTATCTCTC
* *
96017 TTTTCTTTTTTCTCTCTC
1 TTTTATTTTTTATCTCTC
*
96035 TTTAATTTT
1 TTTTATTTT
96044 ATTTAATTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 13 0.59
18 9 0.41
ACGTcount: A:0.09, C:0.16, G:0.00, T:0.75
Consensus pattern (18 bp):
TTTTATTTTTTATCTCTC
Found at i:96158 original size:15 final size:16
Alignment explanation
Indices: 96126--96160 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
96116 CTATGATTTA
96126 TTTAATATTTAATATT
1 TTTAATATTTAATATT
*
96142 TTTAATA-TTATTATT
1 TTTAATATTTAATATT
96157 TTTA
1 TTTA
96161 TCTAACGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 11 0.61
16 7 0.39
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
TTTAATATTTAATATT
Found at i:96668 original size:18 final size:18
Alignment explanation
Indices: 96635--96669 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
96625 TATACTGATA
*
96635 TTTTTTTAATGATTTCAG
1 TTTTTTTAAAGATTTCAG
*
96653 TTTTTTTAAAGTTTTCA
1 TTTTTTTAAAGATTTCA
96670 TATGTAGCTC
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:0.23, C:0.06, G:0.09, T:0.63
Consensus pattern (18 bp):
TTTTTTTAAAGATTTCAG
Found at i:101460 original size:84 final size:83
Alignment explanation
Indices: 101264--102568 Score: 1242
Period size: 84 Copynumber: 15.7 Consensus size: 83
101254 TATACAAACT
* * * * * *
101264 ATTTGCAGTATAGCTTAAGTCGAGAAGAGCTATC--T-ACCAAAGACCCTCGAGTTCGATTACAC
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGATTACGC
* *
101326 TCAGCTTCGAGGGCACATC
66 TCAGC-TCCAAGGCACATC
* * * * *
101345 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTCACC-AAAGACCTTCGAGTTCGATTACG
*
101410 CTCAGCTCCAAGGCATATC
65 CTCAGCTCCAAGGCACATC
* * *
101429 ATTTGCAGCATAACTTAAGTCGAGAAAGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTC-ACCAAAGACCTTCGAGTTCGATTACG
101494 CTCAGCTCCAAGGCACATC
65 CTCAGCTCCAAGGCACATC
* * * * * *
101513 ATTTGCCGCATAGCTTAAGTCGAGAAGGGCTATCTG---CCAAAGACCCTCAAGTTCGATTACAC
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGATTACGC
* *
101575 TCAGCTTCGAGGGCACATC
66 TCAGC-TCCAAGGCACATC
* * * * * *
101594 ATTTACGGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTCACC-AAAGACCTTCGAGTTCGATTACG
* *
101659 CTCAGCTCCAAGGTATATC
65 CTCAGCTCCAAGGCACATC
* * * * * * *
101678 ATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATATG---CCGAAGACCTTCTAGTTCGACTACGC
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGATTACGC
* *
101740 TCAACTCCAAGGCATATC
66 TCAGCTCCAAGGCACATC
** * * *
101758 ATTTGCAATATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTC-ACCAAAGACCTTCGAGTTCGATTACG
*
101823 CTCAGCTCTAAGGCACATC
65 CTCAGCTCCAAGGCACATC
* * * * * * *
101842 ATTTACAGAATAGCTTAAGTCGAAAAGGGCTATCTGCCAACCAAAGACCATCGAGTTCGATTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTC-ACCAAAGACCTTCGAGTTCGATTACG
*
101907 CTCAGCTTCCAATGCACATC
65 CTCAGC-TCCAAGGCACATC
* * * * *
101927 ATTTACAGCATAACTCAAGGCTAGAAGGATTATCTGTCACCAAAGACCTTCGAGTTCGATTACGC
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGATTACGC
*
101992 TCAGCTCCAAAGGCGCATC
66 TCAGCTCC-AAGGCACATC
* * * *
102011 ATTTGCAGAATAGA-TTAAGTCGAGAAGGGCTATCTG---CCAAAGACCCTCGAGTTCGATTTCG
1 ATTTGCAGCATA-ACTTAAGTCGAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGATTACG
* * *
102072 CTCAGCTTCGAGGGCACATA
65 CTCAGC-TCCAAGGCACATC
* * * * * * *
102092 ATTTACAGTATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCAACTACGC
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGATTACGC
*
102157 TCAGCTTCAAGGCACATC
66 TCAGCTCCAAGGCACATC
* * * *
102175 ATTTGTAGAATAGCTTAAGTCGAGAAGGGTTATCTG---CCAAAGACCCTCGAGTTCGATTACGC
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGATTACGC
* * *
102237 TCAACTTCGAGGGCACATC
66 TCAGC-TCCAAGGCACATC
* * * * * * *
102256 ATTTACAGCATAAATCAAGGCTAGAAGGGTTATCTGTCACCAAATACCTTCGAGTTCGACTACGC
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGATTACGC
* * *
102321 TCAGCTTCGAGGGCACATT
66 TCAGC-TCCAAGGCACATC
* * * * * * *
102340 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTTGAGATCGATTCCGC
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGATTACGC
*
102405 TCAGCTCCAAGGCGCATC
66 TCAGCTCCAAGGCACATC
* * * * * ** *
102423 ATTTGTAGCATAGCTTAAGTCGAGAAGGGCTATTTGCCAACTGAAGACCTTCGAGTTCGATTACA
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTC-ACCAAAGACCTTCGAGTTCGATTACG
* *
102488 CTCAGCT-CAGAGGCAAACC
65 CTCAGCTCCA-AGGCACATC
* * * * * * * * *
102507 AAATTTACAGCATAGCTCAAGACAAGAAGGGCTATCTGTCAACAAA-ATCGTCGAGTTCGATT
1 --ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGATT
102569 CCATTCAGCC
Statistics
Matches: 1008, Mismatches: 186, Indels: 57
0.81 0.15 0.05
Matches are distributed among these distances:
80 125 0.12
81 170 0.17
82 2 0.00
83 82 0.08
84 500 0.50
85 98 0.10
86 31 0.03
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (83 bp):
ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGATTACGC
TCAGCTCCAAGGCACATC
Found at i:101804 original size:249 final size:245
Alignment explanation
Indices: 101264--102544 Score: 1485
Period size: 249 Copynumber: 5.1 Consensus size: 245
101254 TATACAAACT
* * * *
101264 ATTTGCAGTATAGCTTAAGTCGAGAAGAGCTATCT-ACCAAAGACCCTCGAGTTCGATTACACTC
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGACCAAAGACCCTCGAGTTCGATTACGCTC
101328 AGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGAC
66 AGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACC-AAAGAC
* * *
101393 CTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAAGG
130 CTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGG
*
101458 TTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
195 TTATCTG----CCAAAGACCTTCGAGTTCGACTACGCTCAACTCCAAGGCACATC
* * * *
101513 ATTTGCCGCATAGCTTAAGTCGAGAAGGGCTATCTG-CCAAAGACCCTCAAGTTCGATTACACTC
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGACCAAAGACCCTCGAGTTCGATTACGCTC
*
101577 AGCTTCGAGGGCACATCATTTACGGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGAC
66 AGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACC-AAAGAC
* * *
101642 CTTCGAGTTCGACTACGCTCAGCTCCAAGGTATATCATTTGCAGTATAGCTTAAGTCGAGAAGGG
130 CTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGG
* * * * *
101707 CTATATGCCGAAGACCTTCTAGTTCGACTACGCTCAACTCCAAGGCATATC
195 TTATCTGCCAAAGACCTTCGAGTTCGACTACGCTCAACTCCAAGGCACATC
** * * * *
101758 ATTTGCAATATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTG---ACCAAAGACCCTCGAGTTCGATTACG
* * * * * * * * * *
101823 CTCAGC-TCTAAGGCACATCATTTACAGAATAGCTTAAGTCGAAAAGGGCTATCTGCCAACCAAA
63 CTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTC-ACCAAA
* * * * * * * *
101887 GACCATCGAGTTCGATTACGCTCAGCTTCCAATGCACATCATTTACAGCATAACTCAAGGCTAGA
127 GACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGA
* * * *
101952 AGGATTATCTGTCACCAAAGACCTTCGAGTTCGATTACGCTCAGCTCCAAAGGCGCATC
191 AGGGTTATCTG---CCAAAGACCTTCGAGTTCGACTACGCTCAACTCC-AAGGCACATC
* *
102011 ATTTGCAGAATAGA-TTAAGTCGAGAAGGGCTATCTG-CCAAAGACCCTCGAGTTCGATTTCGCT
1 ATTTGCAGCATA-ACTTAAGTCGAGAAGGGCTATCTGACCAAAGACCCTCGAGTTCGATTACGCT
* *
102074 CAGCTTCGAGGGCACATAATTTACAGTATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGAC
65 CAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGAC
* * * *
102139 CTTCGAGTTCAACTACGCTCAGCTTCAAGGCACATCATTTGTAGAATAGCTTAAGTCGAGAAGGG
130 CTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGG
* * * *
102204 TTATCTGCCAAAGACCCTCGAGTTCGATTACGCTCAACTTCGAGGGCACATC
195 TTATCTGCCAAAGACCTTCGAGTTCGACTACGCTCAAC-TCCAAGGCACATC
* * * * * * * * *
102256 ATTTACAGCATAAATCAAGGCTAGAAGGGTTATCTGTCACCAAATACCTTCGAGTTCGACTACGC
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTG--ACCAAAGACCCTCGAGTTCGATTACGC
*
102321 TCAGCTTCGAGGGCACATTATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGA
64 TCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGA
* * * * * *
102386 CCTTTGAGATCGATTCCGCTCAGCTCCAAGGCGCATCATTTGTAGCATAGCTTAAGTCGAGAAGG
129 CCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGG
* * * * * * *
102451 GCTATTTGCCAACTGAAGACCTTCGAGTTCGATTACACTCAGCT-CAGAGGCAAACC
194 GTTATCTGCC-A---AAGACCTTCGAGTTCGACTACGCTCAACTCCA-AGGCACATC
* * * * *
102507 AAATTTACAGCATAGCTCAAGACAAGAAGGGCTATCTG
1 --ATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTG
102545 TCAACAAAAT
Statistics
Matches: 881, Mismatches: 126, Indels: 46
0.84 0.12 0.04
Matches are distributed among these distances:
244 1 0.00
245 136 0.15
246 2 0.00
248 256 0.29
249 312 0.35
250 41 0.05
251 7 0.01
252 55 0.06
253 70 0.08
254 1 0.00
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.25
Consensus pattern (245 bp):
ATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGACCAAAGACCCTCGAGTTCGATTACGCTC
AGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACC
TTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGT
TATCTGCCAAAGACCTTCGAGTTCGACTACGCTCAACTCCAAGGCACATC
Found at i:103254 original size:42 final size:39
Alignment explanation
Indices: 103207--103377 Score: 100
Period size: 37 Copynumber: 4.4 Consensus size: 39
103197 TTTTGACAAA
*
103207 ATATATTGTATAATTTTCGGAAAACGATTTTCGAAAATAAGT
1 ATATATTATATAATTTT-GGAAAACG-TTTT-GAAAATAAGT
* * *
103249 ATATATTATATAGTTTTTGAAAACGTTTTTAAAAT-A-T
1 ATATATTATATAATTTTGGAAAACGTTTTGAAAATAAGT
* * ** * ** * **
103286 GTATAGTATATGGTTTTGAAAAATATTTTGAAAACATTT
1 ATATATTATATAATTTTGGAAAACGTTTTGAAAATAAGT
* * * *
103325 ATATATTATATAGTTTT-TAAAACATTTTGAAAGT-A-T
1 ATATATTATATAATTTTGGAAAACGTTTTGAAAATAAGT
* *
103361 ATATAATATATAGTTTT
1 ATATATTATATAATTTT
103378 TAAAACATTT
Statistics
Matches: 104, Mismatches: 23, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
36 17 0.16
37 27 0.26
38 14 0.13
39 20 0.19
40 4 0.04
41 7 0.07
42 15 0.14
ACGTcount: A:0.40, C:0.04, G:0.11, T:0.45
Consensus pattern (39 bp):
ATATATTATATAATTTTGGAAAACGTTTTGAAAATAAGT
Found at i:103277 original size:77 final size:75
Alignment explanation
Indices: 103183--103376 Score: 196
Period size: 77 Copynumber: 2.5 Consensus size: 75
103173 ATAGTAATAC
* * * *
103183 AGTTTTTGAAAATGTTTTGACAAA-ATATATTGTATAAT-TTTCGGAAAACGATTTTCGAAAATA
1 AGTTTTTGAAAACGTTTTGA-AAATATATATAGTAT-ATGTTT-GGAAAAAGATTTT-GAAAACA
103246 AGTATATATTATAT
62 AGTATATATTATAT
* * * * **
103260 AGTTTTTGAAAACGTTTTTAAAATATGTATAGTATATGGTTTTGAAAAATATTTTGAAAACATTT
1 AGTTTTTGAAAACGTTTTGAAAATATATATAGTATAT-GTTTGGAAAAAGATTTTGAAAACAAGT
103325 ATATATTATAT
65 ATATATTATAT
* * *
103336 AGTTTTT-AAAACATTTTGAAAGTATATATAATATATAGTTT
1 AGTTTTTGAAAACGTTTTGAAAATATATATAGTATAT-GTTT
103377 TTAAAACATT
Statistics
Matches: 98, Mismatches: 16, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
75 28 0.29
76 30 0.31
77 37 0.38
78 3 0.03
ACGTcount: A:0.40, C:0.04, G:0.12, T:0.44
Consensus pattern (75 bp):
AGTTTTTGAAAACGTTTTGAAAATATATATAGTATATGTTTGGAAAAAGATTTTGAAAACAAGTA
TATATTATAT
Found at i:103346 original size:27 final size:27
Alignment explanation
Indices: 103311--103449 Score: 98
Period size: 27 Copynumber: 4.5 Consensus size: 27
103301 TTGAAAAATA
*
103311 TTTTGAAAACATTTATATATTATATAG
1 TTTTTAAAACATTTATATATTATATAG
103338 TTTTTAAAACATTTTGAAAGTATATATAATATATAG
1 TTTTTAAAACA--TT-----TATATAT--TATATAG
*
103374 TTTTTAAAACATTTTTAAAACATATATTATATAA
1 TTTTTAAAACA--TTT-----ATATATTATATAG
*
103408 TTTTTAAAACATTTATATAATATATAG
1 TTTTTAAAACATTTATATATTATATAG
103435 TTTTTAAAATCATTT
1 TTTTTAAAA-CATTT
103450 TGAAAACTTA
Statistics
Matches: 93, Mismatches: 4, Indels: 29
0.74 0.03 0.23
Matches are distributed among these distances:
27 30 0.32
28 5 0.05
29 2 0.02
31 1 0.01
32 3 0.03
34 24 0.26
36 28 0.30
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.48
Consensus pattern (27 bp):
TTTTTAAAACATTTATATATTATATAG
Found at i:103388 original size:11 final size:11
Alignment explanation
Indices: 103374--103421 Score: 53
Period size: 11 Copynumber: 4.3 Consensus size: 11
103364 TAATATATAG
103374 TTTTTAAAACA
1 TTTTTAAAACA
103385 TTTTTAAAACA
1 TTTTTAAAACA
* *
103396 TATATTATATA-A
1 T-TTTTA-AAACA
103408 TTTTTAAAACA
1 TTTTTAAAACA
103419 TTT
1 TTT
103422 ATATAATATA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
10 2 0.07
11 20 0.67
12 6 0.20
13 2 0.07
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (11 bp):
TTTTTAAAACA
Found at i:103425 original size:20 final size:22
Alignment explanation
Indices: 103384--103428 Score: 67
Period size: 23 Copynumber: 2.1 Consensus size: 22
103374 TTTTTAAAAC
103384 ATTTTTAAAACATATATTATATA
1 ATTTTTAAAACA-ATATTATATA
103407 ATTTTTAAAAC-AT-TTATATA
1 ATTTTTAAAACAATATTATATA
103427 AT
1 AT
103429 ATATAGTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 9 0.41
21 2 0.09
23 11 0.50
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (22 bp):
ATTTTTAAAACAATATTATATA
Found at i:103516 original size:40 final size:38
Alignment explanation
Indices: 103407--103533 Score: 170
Period size: 40 Copynumber: 3.3 Consensus size: 38
103397 ATATTATATA
103407 ATTTTT-AAAACATTTATATAATATATAGTTTTTAAAAT
1 ATTTTTGAAAAC-TTTATATAATATATAGTTTTTAAAAT
103445 CA-TTTTGAAAAC-TTATATAATATATAGTTTTTGAAAAT
1 -ATTTTTGAAAACTTTATATAATATATAGTTTTT-AAAAT
* *
103483 ATTTTTGAAAACTTATATATAATATATAATTTTTTAAAAC
1 ATTTTTGAAAACTT-TATATAATATAT-AGTTTTTAAAAT
103523 ATTTTTGAAAA
1 ATTTTTGAAAA
103534 TTATATGGTT
Statistics
Matches: 80, Mismatches: 2, Indels: 11
0.86 0.02 0.12
Matches are distributed among these distances:
37 21 0.26
38 19 0.24
39 7 0.09
40 27 0.34
41 6 0.08
ACGTcount: A:0.44, C:0.04, G:0.05, T:0.47
Consensus pattern (38 bp):
ATTTTTGAAAACTTTATATAATATATAGTTTTTAAAAT
Found at i:103614 original size:40 final size:39
Alignment explanation
Indices: 103536--103633 Score: 108
Period size: 41 Copynumber: 2.5 Consensus size: 39
103526 TTTGAAAATT
* * **
103536 ATATGGTTTTTAAAAAAACATTTTTGGAAATTCATATATA
1 ATATAGTTTTTAAAAATACATTTTTAAAAATT-ATATATA
*
103576 ATATAGCTTTTTAAAAATACATTTTTAAAAAGTT-TATATT
1 ATATAG-TTTTTAAAAATACATTTTTAAAAA-TTATATATA
*
103616 ATATTGTTTTTAAAAATA
1 ATATAGTTTTTAAAAATA
103634 TTTTTTATTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
39 12 0.24
40 15 0.30
41 21 0.42
42 2 0.04
ACGTcount: A:0.43, C:0.04, G:0.07, T:0.46
Consensus pattern (39 bp):
ATATAGTTTTTAAAAATACATTTTTAAAAATTATATATA
Found at i:109432 original size:208 final size:209
Alignment explanation
Indices: 109092--109512 Score: 826
Period size: 208 Copynumber: 2.0 Consensus size: 209
109082 TTTTGCAACC
109092 TGGGCTACTACAACCATTACCTATTCCATAGCAAGCTTGGGAGTTTATTATCATTGAGTTTATTG
1 TGGGCTACTACAACCATTACCTATTCCATAGCAAGCTTGGGAGTTTATTATCATTGAGTTTA-TG
109157 AGGGGTTGCCTCCTTCTAATAGATACAATTCTATTTTGGTGGTAATTGACAAGTTCACTAAGTAT
65 AGGGGTTGCCTCCTTCTAATAGATACAATTCTATTTTGGTGGTAATTGACAAGTTCACTAAGTAT
109222 GGGCATTTTCTACCACTGATTCATCCTTTTACAGCTTCTGATGTTGCTAAAGTCTATTTAGAGCA
130 GGGCATTTTCTACCACTGATTCATCCTTTTACAGCTTCTGATGTTGCTAAAGTCTATTTAGAGCA
109287 AGTTTACAAACTCCA
195 AGTTTACAAACTCCA
109302 TGGGCTACTACAACCATTACCTATTCCATAGCAAGCTTGGGAGTTTATTATCATTGAGTTTA-GA
1 TGGGCTACTACAACCATTACCTATTCCATAGCAAGCTTGGGAGTTTATTATCATTGAGTTTATGA
109366 GGGGTTGCCTCCTTCTAATAGATACAATTCTATTTTGGTGGTAATTGACAAGTTCACTAAGTATG
66 GGGGTTGCCTCCTTCTAATAGATACAATTCTATTTTGGTGGTAATTGACAAGTTCACTAAGTATG
109431 GGCATTTTCTACCACTGATTCATCCTTTTACAGCTTCTGATGTTGCTAAAGTCTATTTAGAGCAA
131 GGCATTTTCTACCACTGATTCATCCTTTTACAGCTTCTGATGTTGCTAAAGTCTATTTAGAGCAA
109496 GTTTACAAACTCCA
196 GTTTACAAACTCCA
109510 TGG
1 TGG
109513 ACAACATAAA
Statistics
Matches: 211, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
208 149 0.71
210 62 0.29
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (209 bp):
TGGGCTACTACAACCATTACCTATTCCATAGCAAGCTTGGGAGTTTATTATCATTGAGTTTATGA
GGGGTTGCCTCCTTCTAATAGATACAATTCTATTTTGGTGGTAATTGACAAGTTCACTAAGTATG
GGCATTTTCTACCACTGATTCATCCTTTTACAGCTTCTGATGTTGCTAAAGTCTATTTAGAGCAA
GTTTACAAACTCCA
Found at i:112917 original size:16 final size:16
Alignment explanation
Indices: 112896--112940 Score: 81
Period size: 16 Copynumber: 2.8 Consensus size: 16
112886 TAATAAATAA
112896 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
*
112912 ACGAACATAAATGAAC
1 ACGAACATAAACGAAC
112928 ACGAACATAAACG
1 ACGAACATAAACG
112941 TTGGAGACCC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.56, C:0.22, G:0.13, T:0.09
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:113888 original size:24 final size:24
Alignment explanation
Indices: 113848--113909 Score: 81
Period size: 24 Copynumber: 2.6 Consensus size: 24
113838 GATTGGGTTA
* *
113848 AACATAAAT-GAATGAACATAAATG
1 AACAT-AATCGAACGAACATAAACG
113872 AACATAATCGAACGAACATAAACG
1 AACATAATCGAACGAACATAAACG
*
113896 AACATAACCGAACG
1 AACATAATCGAACG
113910 TTCACGAACG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
23 3 0.09
24 31 0.91
ACGTcount: A:0.55, C:0.18, G:0.13, T:0.15
Consensus pattern (24 bp):
AACATAATCGAACGAACATAAACG
Found at i:114351 original size:22 final size:21
Alignment explanation
Indices: 114317--114359 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
114307 TGCATTATAT
*
114317 TATTTTAGGTTTATATCTTAA
1 TATTTTACGTTTATATCTTAA
*
114338 TATTTATACGTTTATATTTTAA
1 TATTT-TACGTTTATATCTTAA
114360 AACTAATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.30, C:0.05, G:0.07, T:0.58
Consensus pattern (21 bp):
TATTTTACGTTTATATCTTAA
Found at i:114377 original size:105 final size:105
Alignment explanation
Indices: 114268--114478 Score: 413
Period size: 105 Copynumber: 2.0 Consensus size: 105
114258 ATACAATGTC
114268 AAATATTTTTATTTTATTTTATTAAATATAATTTAAGGATGCATTATATTATTTTAGGTTTATAT
1 AAATATTTTTATTTTATTTTATTAAATATAATTTAAGGATGCATTATATTATTTTAGGTTTATAT
114333 CTTAATATTTATACGTTTATATTTTAAAACTAATTTAATT
66 CTTAATATTTATACGTTTATATTTTAAAACTAATTTAATT
114373 AAATATTTTTATTTTATTTTATTAAATATAATTTAAGGATGCATTATATTATTTTAGGTTTATAT
1 AAATATTTTTATTTTATTTTATTAAATATAATTTAAGGATGCATTATATTATTTTAGGTTTATAT
*
114438 CTTAATATTTATACGTTTATATTTTAAAGCTAATTTAATT
66 CTTAATATTTATACGTTTATATTTTAAAACTAATTTAATT
114478 A
1 A
114479 TTTTTTATAT
Statistics
Matches: 105, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
105 105 1.00
ACGTcount: A:0.36, C:0.04, G:0.06, T:0.54
Consensus pattern (105 bp):
AAATATTTTTATTTTATTTTATTAAATATAATTTAAGGATGCATTATATTATTTTAGGTTTATAT
CTTAATATTTATACGTTTATATTTTAAAACTAATTTAATT
Found at i:114456 original size:22 final size:21
Alignment explanation
Indices: 114422--114464 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
114412 TGCATTATAT
*
114422 TATTTTAGGTTTATATCTTAA
1 TATTTTACGTTTATATCTTAA
*
114443 TATTTATACGTTTATATTTTAA
1 TATTT-TACGTTTATATCTTAA
114465 AGCTAATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.30, C:0.05, G:0.07, T:0.58
Consensus pattern (21 bp):
TATTTTACGTTTATATCTTAA
Found at i:115157 original size:37 final size:36
Alignment explanation
Indices: 115098--115217 Score: 181
Period size: 35 Copynumber: 3.3 Consensus size: 36
115088 ATCCCATTAT
* *
115098 CATTTTTC-AACAAACATCTACCAAACTTTGAAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTG-AAAAC
*
115134 TATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
115170 CA-TTTTCAAAGAAACATTTACCAAACTTTGAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
115205 CATTTTTTCAAAG
1 CA-TTTTTCAAAG
115218 TTGGTTACCA
Statistics
Matches: 77, Mismatches: 4, Indels: 5
0.90 0.05 0.06
Matches are distributed among these distances:
35 35 0.45
36 13 0.17
37 29 0.38
ACGTcount: A:0.43, C:0.20, G:0.05, T:0.32
Consensus pattern (36 bp):
CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
Found at i:115173 original size:21 final size:21
Alignment explanation
Indices: 115149--115209 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
115139 TTCAAAGAAA
115149 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
*
115170 CATTT-TCAAA----G-AAA-
1 CATTTACCAAACTTTGAAAAC
115184 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
115205 CATTT
1 CATTT
115210 TTTCAAAGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 14
0.66 0.04 0.30
Matches are distributed among these distances:
14 5 0.16
15 7 0.23
16 1 0.03
19 1 0.03
20 7 0.23
21 10 0.32
ACGTcount: A:0.43, C:0.21, G:0.05, T:0.31
Consensus pattern (21 bp):
CATTTACCAAACTTTGAAAAC
Found at i:115226 original size:35 final size:36
Alignment explanation
Indices: 115100--115244 Score: 142
Period size: 35 Copynumber: 4.1 Consensus size: 36
115090 CCCATTATCA
*
115100 TTTTTCAACA-AACA-TCTACCAAACTTTGAAAAAC-T
1 TTTTTCAA-AGAACAGT-TACCAAACTTTGAAAACCAT
*
115135 ATTTTTCAAAGAAACATTTACCAAACTTTGAAAACCA-
1 -TTTTTCAAAG-AACAGTTACCAAACTTTGAAAACCAT
*
115172 -TTTTCAAAGAAACATTTACCAAACTTTGAAAACCAT
1 TTTTTCAAAG-AACAGTTACCAAACTTTGAAAACCAT
***
115208 TTTTTCAAAG-TTGGTTACCAAAC-TTGAAAACCAT
1 TTTTTCAAAGAACAGTTACCAAACTTTGAAAACCAT
115242 TTT
1 TTT
115245 AATACTTTCA
Statistics
Matches: 98, Mismatches: 5, Indels: 14
0.84 0.04 0.12
Matches are distributed among these distances:
34 14 0.14
35 45 0.46
36 8 0.08
37 30 0.31
38 1 0.01
ACGTcount: A:0.41, C:0.19, G:0.06, T:0.33
Consensus pattern (36 bp):
TTTTTCAAAGAACAGTTACCAAACTTTGAAAACCAT
Found at i:118559 original size:16 final size:16
Alignment explanation
Indices: 118535--118566 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
118525 TATCGCTGAT
*
118535 CGAATTTCACTATTCA
1 CGAAATTCACTATTCA
118551 CGAAATTCACTATTCA
1 CGAAATTCACTATTCA
118567 TGTGAATAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.25, G:0.06, T:0.34
Consensus pattern (16 bp):
CGAAATTCACTATTCA
Found at i:119034 original size:37 final size:36
Alignment explanation
Indices: 118975--119094 Score: 181
Period size: 35 Copynumber: 3.3 Consensus size: 36
118965 ATCCCATTAT
* *
118975 CATTTTTC-AACAAACATCTACCAAACTTTGAAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTG-AAAAC
*
119011 TATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
119047 CA-TTTTCAAAGAAACATTTACCAAACTTTGAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
119082 CATTTTTTCAAAG
1 CA-TTTTTCAAAG
119095 TTGGTTACCA
Statistics
Matches: 77, Mismatches: 4, Indels: 5
0.90 0.05 0.06
Matches are distributed among these distances:
35 35 0.45
36 13 0.17
37 29 0.38
ACGTcount: A:0.43, C:0.20, G:0.05, T:0.32
Consensus pattern (36 bp):
CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
Found at i:119050 original size:21 final size:21
Alignment explanation
Indices: 119026--119086 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
119016 TTCAAAGAAA
119026 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
*
119047 CATTT-TCAAA----G-AAA-
1 CATTTACCAAACTTTGAAAAC
119061 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
119082 CATTT
1 CATTT
119087 TTTCAAAGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 14
0.66 0.04 0.30
Matches are distributed among these distances:
14 5 0.16
15 7 0.23
16 1 0.03
19 1 0.03
20 7 0.23
21 10 0.32
ACGTcount: A:0.43, C:0.21, G:0.05, T:0.31
Consensus pattern (21 bp):
CATTTACCAAACTTTGAAAAC
Found at i:119103 original size:35 final size:36
Alignment explanation
Indices: 118977--119121 Score: 142
Period size: 35 Copynumber: 4.1 Consensus size: 36
118967 CCCATTATCA
*
118977 TTTTTCAACA-AACA-TCTACCAAACTTTGAAAAAC-T
1 TTTTTCAA-AGAACAGT-TACCAAACTTTGAAAACCAT
*
119012 ATTTTTCAAAGAAACATTTACCAAACTTTGAAAACCA-
1 -TTTTTCAAAG-AACAGTTACCAAACTTTGAAAACCAT
*
119049 -TTTTCAAAGAAACATTTACCAAACTTTGAAAACCAT
1 TTTTTCAAAG-AACAGTTACCAAACTTTGAAAACCAT
***
119085 TTTTTCAAAG-TTGGTTACCAAAC-TTGAAAACCAT
1 TTTTTCAAAGAACAGTTACCAAACTTTGAAAACCAT
119119 TTT
1 TTT
119122 AATACTTTCA
Statistics
Matches: 98, Mismatches: 5, Indels: 14
0.84 0.04 0.12
Matches are distributed among these distances:
34 14 0.14
35 45 0.46
36 8 0.08
37 30 0.31
38 1 0.01
ACGTcount: A:0.41, C:0.19, G:0.06, T:0.33
Consensus pattern (36 bp):
TTTTTCAAAGAACAGTTACCAAACTTTGAAAACCAT
Found at i:123300 original size:27 final size:27
Alignment explanation
Indices: 123262--123316 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
123252 GGTAAACCAC
* *
123262 ACTCGCATGAAATCTTAACTACAGGCT
1 ACTCACATGAAATCTTAACGACAGGCT
123289 ACTCACATGAAATCTTAACGACAGGCT
1 ACTCACATGAAATCTTAACGACAGGCT
123316 A
1 A
123317 GAAGTTATAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.36, C:0.25, G:0.15, T:0.24
Consensus pattern (27 bp):
ACTCACATGAAATCTTAACGACAGGCT
Found at i:138630 original size:16 final size:16
Alignment explanation
Indices: 138606--138637 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
138596 TATCACCGAT
*
138606 CGAATTTCACTATTCA
1 CGAAATTCACTATTCA
138622 CGAAATTCACTATTCA
1 CGAAATTCACTATTCA
138638 TGTGAATAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.25, G:0.06, T:0.34
Consensus pattern (16 bp):
CGAAATTCACTATTCA
Found at i:140190 original size:58 final size:58
Alignment explanation
Indices: 140100--140216 Score: 234
Period size: 58 Copynumber: 2.0 Consensus size: 58
140090 AGATATATAG
140100 TTGGTGGAAATTTTCTTCGCCTCGTGTCCTACCCTTCACTGCCCTAAACTGAGCTGAC
1 TTGGTGGAAATTTTCTTCGCCTCGTGTCCTACCCTTCACTGCCCTAAACTGAGCTGAC
140158 TTGGTGGAAATTTTCTTCGCCTCGTGTCCTACCCTTCACTGCCCTAAACTGAGCTGAC
1 TTGGTGGAAATTTTCTTCGCCTCGTGTCCTACCCTTCACTGCCCTAAACTGAGCTGAC
140216 T
1 T
140217 GATGACCTAA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 59 1.00
ACGTcount: A:0.17, C:0.31, G:0.19, T:0.33
Consensus pattern (58 bp):
TTGGTGGAAATTTTCTTCGCCTCGTGTCCTACCCTTCACTGCCCTAAACTGAGCTGAC
Found at i:141811 original size:24 final size:23
Alignment explanation
Indices: 141754--141816 Score: 62
Period size: 24 Copynumber: 2.8 Consensus size: 23
141744 ACTTTTTGTA
141754 ATTTTATAA-TTTTT--TTACAT
1 ATTTTATAATTTTTTAATTACAT
*
141774 A-TTTCTAATATTTTTAATTACGAT
1 ATTTTATAAT-TTTTTAATTAC-AT
*
141798 ATTTTATAATTTTTGAATT
1 ATTTTATAATTTTTTAATT
141817 CTTGAGTAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
19 6 0.18
20 1 0.03
21 5 0.15
23 4 0.12
24 11 0.32
25 7 0.21
ACGTcount: A:0.32, C:0.05, G:0.03, T:0.60
Consensus pattern (23 bp):
ATTTTATAATTTTTTAATTACAT
Found at i:146102 original size:13 final size:13
Alignment explanation
Indices: 146084--146110 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
146074 GCTTATGTAT
146084 TTGTACAGTTTTG
1 TTGTACAGTTTTG
146097 TTGTACAGTTTTG
1 TTGTACAGTTTTG
146110 T
1 T
146111 GCTACTTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.07, G:0.22, T:0.56
Consensus pattern (13 bp):
TTGTACAGTTTTG
Found at i:146857 original size:6 final size:6
Alignment explanation
Indices: 146846--146870 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
146836 TGATTAAGCT
146846 ATTGCC ATTGCC ATTGCC ATTGCC A
1 ATTGCC ATTGCC ATTGCC ATTGCC A
146871 GAGCGGCCCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.20, C:0.32, G:0.16, T:0.32
Consensus pattern (6 bp):
ATTGCC
Found at i:149240 original size:29 final size:29
Alignment explanation
Indices: 149195--149252 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
149185 GTGTTGGCCG
*
149195 TAGGTCGCCATGCCTTCCGGGCGACCTAC
1 TAGGTCGCCATGCCTTCCCGGCGACCTAC
* * *
149224 TAGGTCTCCATGTCTTCCCGGCGAGCTAC
1 TAGGTCGCCATGCCTTCCCGGCGACCTAC
149253 AAGAGATTGC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.14, C:0.36, G:0.26, T:0.24
Consensus pattern (29 bp):
TAGGTCGCCATGCCTTCCCGGCGACCTAC
Found at i:149316 original size:14 final size:14
Alignment explanation
Indices: 149297--149361 Score: 67
Period size: 14 Copynumber: 4.2 Consensus size: 14
149287 CTGGGCATCT
149297 GAGGCCATCCGACC
1 GAGGCCATCCGACC
149311 GAGGCCATCCGAGAGCATC
1 GAGGCCATCC--GA-C--C
149330 TGAGGCCATCCGACC
1 -GAGGCCATCCGACC
*
149345 GAGGCCATCCGAAC
1 GAGGCCATCCGACC
149359 GAG
1 GAG
149362 CTATGCGAGG
Statistics
Matches: 44, Mismatches: 1, Indels: 12
0.77 0.02 0.21
Matches are distributed among these distances:
14 26 0.59
15 1 0.02
16 2 0.05
17 2 0.05
18 2 0.05
19 1 0.02
20 10 0.23
ACGTcount: A:0.25, C:0.35, G:0.31, T:0.09
Consensus pattern (14 bp):
GAGGCCATCCGACC
Found at i:149329 original size:34 final size:34
Alignment explanation
Indices: 149291--149356 Score: 132
Period size: 34 Copynumber: 1.9 Consensus size: 34
149281 AACACGCTGG
149291 GCATCTGAGGCCATCCGACCGAGGCCATCCGAGA
1 GCATCTGAGGCCATCCGACCGAGGCCATCCGAGA
149325 GCATCTGAGGCCATCCGACCGAGGCCATCCGA
1 GCATCTGAGGCCATCCGACCGAGGCCATCCGA
149357 ACGAGCTATG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.23, C:0.36, G:0.29, T:0.12
Consensus pattern (34 bp):
GCATCTGAGGCCATCCGACCGAGGCCATCCGAGA
Found at i:149397 original size:33 final size:33
Alignment explanation
Indices: 149360--149424 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
149350 CATCCGAACG
*
149360 AGCTATGCGAGGGCATCCGAGGGCAA-CCGAGCA
1 AGCTATGCGAGGGAATCCGAGGG-AAGCCGAGCA
149393 AGCTATGCGAGGGAATCCGAGGGAAGCCGAGC
1 AGCTATGCGAGGGAATCCGAGGGAAGCCGAGC
149425 GAGGGTAGGT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 2 0.07
33 28 0.93
ACGTcount: A:0.28, C:0.25, G:0.38, T:0.09
Consensus pattern (33 bp):
AGCTATGCGAGGGAATCCGAGGGAAGCCGAGCA
Found at i:149558 original size:29 final size:29
Alignment explanation
Indices: 149516--149630 Score: 187
Period size: 29 Copynumber: 4.0 Consensus size: 29
149506 GAGCAAGGGT
*
149516 AGGTCGCCCGGAGTG-TATGGTGACCTACA
1 AGGTCGCCCGGAGTGCT-TGGCGACCTACA
* *
149545 AGGTCGCCAGGAGTGCATGGCGACCTACA
1 AGGTCGCCCGGAGTGCTTGGCGACCTACA
149574 AGGTCGCCCGGAGTGCTTGGCGACCTACA
1 AGGTCGCCCGGAGTGCTTGGCGACCTACA
149603 AGGTCGCCCGGAGTGCTTGGCGACCTAC
1 AGGTCGCCCGGAGTGCTTGGCGACCTAC
149631 GGCTAACACT
Statistics
Matches: 80, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
29 80 1.00
ACGTcount: A:0.19, C:0.29, G:0.35, T:0.17
Consensus pattern (29 bp):
AGGTCGCCCGGAGTGCTTGGCGACCTACA
Found at i:151474 original size:45 final size:45
Alignment explanation
Indices: 151401--151490 Score: 112
Period size: 45 Copynumber: 2.0 Consensus size: 45
151391 GACACGAGTA
* * *
151401 ATTAATTATCCATTAATAACCTGGGTAGGTTGGT-GATTGGTGGTT
1 ATTAATTATCCATGAATAACCTGAGTAGGTT-CTCGATTGGTGGTT
*
151446 ATTAATTATCCATGAATGATCC-GAGTAGGTTCTCGATTGGTGGTT
1 ATTAATTATCCATGAAT-AACCTGAGTAGGTTCTCGATTGGTGGTT
151491 GAACAAGAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
44 1 0.03
45 35 0.90
46 3 0.08
ACGTcount: A:0.24, C:0.11, G:0.26, T:0.39
Consensus pattern (45 bp):
ATTAATTATCCATGAATAACCTGAGTAGGTTCTCGATTGGTGGTT
Found at i:151711 original size:38 final size:38
Alignment explanation
Indices: 151660--151749 Score: 128
Period size: 38 Copynumber: 2.4 Consensus size: 38
151650 TCAATAGGTT
* * *
151660 GGTA-GTTGGTGGTTAATAATTATCCTTTAATAACTCG
1 GGTAGGTTGGTGGTTAATAATTATCCATTAACAACCCG
* *
151697 GGTAGGTTGGTGGTTATTAATTATCCATTAACATCCCG
1 GGTAGGTTGGTGGTTAATAATTATCCATTAACAACCCG
151735 GGTAGGTTGGTGGTT
1 GGTAGGTTGGTGGTT
151750 GCACAGAAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
37 4 0.09
38 43 0.91
ACGTcount: A:0.22, C:0.11, G:0.28, T:0.39
Consensus pattern (38 bp):
GGTAGGTTGGTGGTTAATAATTATCCATTAACAACCCG
Found at i:154787 original size:35 final size:36
Alignment explanation
Indices: 154701--154844 Score: 159
Period size: 36 Copynumber: 4.0 Consensus size: 36
154691 TTAAATGATT
** *
154701 TAATAA-T-AATGATTTAATGTTATTGATTTAATAA
1 TAATAATTCAATGATTTAATACTAATGATTTAATAA
* * * *
154735 TAATTACTAATATTGATTTAATACTAATAATTTAATAA
1 TAATAATTCA-A-TGATTTAATACTAATGATTTAATAA
154773 TAA-AATTCAATGATTTAATACTAATGATTTAATAA
1 TAATAATTCAATGATTTAATACTAATGATTTAATAA
* **
154808 TAATAATTTAATGATTTGCTACTAATGATTTAATAA
1 TAATAATTCAATGATTTAATACTAATGATTTAATAA
154844 T
1 T
154845 GATTACTAAT
Statistics
Matches: 93, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
34 5 0.05
35 28 0.30
36 32 0.34
37 4 0.04
38 24 0.26
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.44
Consensus pattern (36 bp):
TAATAATTCAATGATTTAATACTAATGATTTAATAA
Found at i:154846 original size:11 final size:11
Alignment explanation
Indices: 154830--154981 Score: 97
Period size: 11 Copynumber: 13.7 Consensus size: 11
154820 GATTTGCTAC
154830 TAATGATTTAA
1 TAATGATTTAA
*
154841 TAATGA-TTAC
1 TAATGATTTAA
154851 T-A--ATTTAA
1 TAATGATTTAA
154859 TAAT-A-TT--
1 TAATGATTTAA
154866 TAATGATTTGATA
1 TAATGATTT-A-A
154879 TTAATGATTTAA
1 -TAATGATTTAA
*
154891 TAATAATTACTAA
1 TAATGATT--TAA
154904 TAATGAAATTATAA
1 TAATG--ATT-TAA
*
154918 TAATTA-TTAA
1 TAATGATTTAA
*
154928 TAATAATTTAA
1 TAATGATTTAA
154939 TAATGATTTCTAA
1 TAATGA-TT-TAA
154952 TAATGATTTAA
1 TAATGATTTAA
**
154963 TAATGACATAA
1 TAATGATTTAA
154974 TAATGATT
1 TAATGATT
154982 ATTTAAGGCA
Statistics
Matches: 112, Mismatches: 12, Indels: 34
0.71 0.08 0.22
Matches are distributed among these distances:
7 5 0.04
8 5 0.04
9 6 0.05
10 13 0.12
11 41 0.37
12 6 0.05
13 17 0.15
14 16 0.14
15 3 0.03
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.44
Consensus pattern (11 bp):
TAATGATTTAA
Found at i:154853 original size:21 final size:21
Alignment explanation
Indices: 154830--154981 Score: 78
Period size: 24 Copynumber: 7.4 Consensus size: 21
154820 GATTTGCTAC
*
154830 TAATGATTTAATAATGATTAC
1 TAATGATTTAATAATGATTAA
154851 T-A--ATTTAATAAT-ATT--
1 TAATGATTTAATAATGATTAA
154866 TAATGATTTGATATTAATGATTTAA
1 TAATGATTT-A-A-TAATGA-TTAA
*
154891 TAATAATTACTAATAATGA--AA
1 TAATGATT--TAATAATGATTAA
*
154912 T--T-A--TAATAATTATTAA
1 TAATGATTTAATAATGATTAA
*
154928 TAATAATTTAATAATGATTTCTAA
1 TAATGATTTAATAATGA--T-TAA
*
154952 TAATGATTTAATAATGACATAA
1 TAATGATTTAATAATGA-TTAA
154974 TAATGATT
1 TAATGATT
154982 ATTTAAGGCA
Statistics
Matches: 103, Mismatches: 6, Indels: 43
0.68 0.04 0.28
Matches are distributed among these distances:
14 8 0.08
15 1 0.01
16 4 0.04
17 3 0.03
18 16 0.16
19 3 0.03
20 2 0.02
21 16 0.16
22 12 0.12
23 3 0.03
24 25 0.24
25 8 0.08
26 1 0.01
27 1 0.01
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.44
Consensus pattern (21 bp):
TAATGATTTAATAATGATTAA
Found at i:154867 original size:50 final size:51
Alignment explanation
Indices: 154805--154904 Score: 166
Period size: 50 Copynumber: 2.0 Consensus size: 51
154795 AATGATTTAA
* *
154805 TAATAATAATTTAATGATTTGCTACTAATGATTTAATAATGATTACTAATT
1 TAATAATAATTTAATGATTTGATACTAATGATTTAATAATAATTACTAATT
*
154856 TAATAAT-ATTTAATGATTTGATATTAATGATTTAATAATAATTACTAAT
1 TAATAATAATTTAATGATTTGATACTAATGATTTAATAATAATTACTAAT
154905 AATGAAATTA
Statistics
Matches: 46, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
50 39 0.85
51 7 0.15
ACGTcount: A:0.43, C:0.04, G:0.07, T:0.46
Consensus pattern (51 bp):
TAATAATAATTTAATGATTTGATACTAATGATTTAATAATAATTACTAATT
Found at i:154874 original size:18 final size:17
Alignment explanation
Indices: 154830--154895 Score: 66
Period size: 18 Copynumber: 3.9 Consensus size: 17
154820 GATTTGCTAC
154830 TAATGATTTAATAATGAT
1 TAATGATTTAATAAT-AT
* *
154848 TACTAATTTAATAATATT
1 TAATGATTTAATAATA-T
*
154866 TAATGA-TT--TGATAT
1 TAATGATTTAATAATAT
154880 TAATGATTTAATAATA
1 TAATGATTTAATAATA
154896 ATTACTAATA
Statistics
Matches: 38, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
14 7 0.18
15 6 0.16
17 7 0.18
18 18 0.47
ACGTcount: A:0.44, C:0.02, G:0.08, T:0.47
Consensus pattern (17 bp):
TAATGATTTAATAATAT
Found at i:154897 original size:14 final size:14
Alignment explanation
Indices: 154694--154819 Score: 80
Period size: 14 Copynumber: 8.8 Consensus size: 14
154684 AATATTTTTA
154694 AATGATTTAATAAT
1 AATGATTTAATAAT
**
154708 AATGATTTAATGTT
1 AATGATTTAATAAT
*
154722 ATTGATTTAATAAT
1 AATGATTTAATAAT
*
154736 -A--A-TTACTAAT
1 AATGATTTAATAAT
* *
154746 ATTGATTTAATACT
1 AATGATTTAATAAT
*
154760 AATAATTTAATAATAAAATT
1 AATGA-TT--TAAT--AA-T
*
154780 CAATGATTTAATACT
1 -AATGATTTAATAAT
154795 AATGATTTAATAAT
1 AATGATTTAATAAT
*
154809 AATAATTTAAT
1 AATGATTTAAT
154820 GATTTGCTAC
Statistics
Matches: 84, Mismatches: 17, Indels: 22
0.68 0.14 0.18
Matches are distributed among these distances:
10 7 0.08
11 1 0.01
13 1 0.01
14 55 0.65
15 3 0.04
16 1 0.01
17 4 0.05
18 4 0.05
19 1 0.01
20 3 0.04
21 4 0.05
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.44
Consensus pattern (14 bp):
AATGATTTAATAAT
Found at i:154917 original size:24 final size:24
Alignment explanation
Indices: 154890--154979 Score: 89
Period size: 24 Copynumber: 3.8 Consensus size: 24
154880 TAATGATTTA
154890 ATAATAATTACTAATAATGAAATT
1 ATAATAATTACTAATAATGAAATT
* *
154914 ATAATAATTATTAATAAT-AATTT
1 ATAATAATTACTAATAATGAAATT
* *
154937 AATAATGATTTCTAATAATG--ATT
1 -ATAATAATTACTAATAATGAAATT
*
154960 -TAATAATGACATAATAATGA
1 ATAATAATTAC-TAATAATGA
154980 TTATTTAAGG
Statistics
Matches: 53, Mismatches: 9, Indels: 9
0.75 0.13 0.13
Matches are distributed among these distances:
21 7 0.13
22 8 0.15
23 6 0.11
24 32 0.60
ACGTcount: A:0.51, C:0.03, G:0.06, T:0.40
Consensus pattern (24 bp):
ATAATAATTACTAATAATGAAATT
Found at i:154963 original size:35 final size:35
Alignment explanation
Indices: 154866--154981 Score: 126
Period size: 35 Copynumber: 3.2 Consensus size: 35
154856 TAATAATATT
*
154866 TAATGATTTGATATTAATGATTTAATAATAATTACTAA
1 TAATGATTT-ATAATAATGATTTAATAATAATT--TAA
* *
154904 TAATGAAATTATAATAATTA-TTAATAATAATTTAA
1 TAATG-ATTTATAATAATGATTTAATAATAATTTAA
* * **
154939 TAATGATTTCTAATAATGATTTAATAATGACATAA
1 TAATGATTTATAATAATGATTTAATAATAATTTAA
154974 TAATGATT
1 TAATGATT
154982 ATTTAAGGCA
Statistics
Matches: 67, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
34 11 0.16
35 28 0.42
37 12 0.18
38 13 0.19
39 3 0.04
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.43
Consensus pattern (35 bp):
TAATGATTTATAATAATGATTTAATAATAATTTAA
Found at i:155043 original size:14 final size:15
Alignment explanation
Indices: 155012--155049 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
155002 ACATAAAAAA
*
155012 TTAATATTTTTCTAT
1 TTAATATTTTTATAT
155027 TTAATATTTTTAT-T
1 TTAATATTTTTATAT
155041 TTAATATTT
1 TTAATATTT
155050 AAATTAAATC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 10 0.45
15 12 0.55
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (15 bp):
TTAATATTTTTATAT
Found at i:155310 original size:14 final size:14
Alignment explanation
Indices: 155288--155474 Score: 102
Period size: 14 Copynumber: 13.3 Consensus size: 14
155278 TTAAATGATT
155288 TAATGATTTAATAA
1 TAATGATTTAATAA
* **
155302 TAATAATTTAATGT
1 TAATGATTTAATAA
*
155316 TATTGATTTAATAA
1 TAATGATTTAATAA
*
155330 T-A--A-TTACTAA
1 TAATGATTTAATAA
*
155340 TAATGATTTAATAC
1 TAATGATTTAATAA
155354 TAATGATTTAATAA
1 TAATGATTTAATAA
*
155368 TAAT-ATTTAATGA
1 TAATGATTTAATAA
* *
155381 T--TTA-ATAATAA
1 TAATGATTTAATAA
* * *
155392 TTAATTATTTGATAC
1 -TAATGATTTAATAA
155407 TAATGATTTAATAA
1 TAATGATTTAATAA
*
155421 TGATTACTAATTTAATAA
1 T-A--A-TGATTTAATAA
* *
155439 TATTTCATGATTTGATAC
1 TA----ATGATTTAATAA
155457 TAATGATTTAATAA
1 TAATGATTTAATAA
155471 TAAT
1 TAAT
155475 TAATAATAAT
Statistics
Matches: 130, Mismatches: 28, Indels: 30
0.69 0.15 0.16
Matches are distributed among these distances:
10 7 0.05
11 8 0.06
12 2 0.02
13 10 0.08
14 73 0.56
15 5 0.04
17 2 0.02
18 21 0.16
19 2 0.02
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.46
Consensus pattern (14 bp):
TAATGATTTAATAA
Found at i:155349 original size:38 final size:37
Alignment explanation
Indices: 155281--155486 Score: 127
Period size: 38 Copynumber: 5.8 Consensus size: 37
155271 AATATTTTTA
* * **
155281 AATGATTTAATGAT--TTAATAATAATAATTTAATGTT
1 AATGATTTAATAATAATT-ATAATAATGATTTAATACT
*
155317 ATTGATTTAATAATAATTACTAATAATGATTTAATACT
1 AATGATTTAATAATAATTA-TAATAATGATTTAATACT
*
155355 AATGATTTAATAATAA-TAT-TTAATGATTT-A-A-T
1 AATGATTTAATAATAATTATAATAATGATTTAATACT
* * *
155387 AAT-AATTAAT--TATTTGATACTAATGATTT-A-A-T
1 AATGATTTAATAATAATT-ATAATAATGATTTAATACT
* * *
155419 AATGATTACTAATTTAATAA-TAT-TTCATGATTTGATACT
1 AATGATT--TAA--TAATAATTATAATAATGATTTAATACT
155458 AATGATTTAATAATAATTAATAATAATGA
1 AATGATTTAATAATAATT-ATAATAATGA
155487 AATTATAATA
Statistics
Matches: 135, Mismatches: 16, Indels: 36
0.72 0.09 0.19
Matches are distributed among these distances:
29 2 0.01
30 1 0.01
31 8 0.06
32 19 0.14
33 3 0.02
34 1 0.01
35 18 0.13
36 22 0.16
37 12 0.09
38 39 0.29
39 10 0.07
ACGTcount: A:0.45, C:0.03, G:0.07, T:0.45
Consensus pattern (37 bp):
AATGATTTAATAATAATTATAATAATGATTTAATACT
Found at i:155379 original size:21 final size:21
Alignment explanation
Indices: 155354--155484 Score: 79
Period size: 21 Copynumber: 5.9 Consensus size: 21
155344 GATTTAATAC
155354 TAATGATTTAATAATAATATT
1 TAATGATTTAATAATAATATT
155375 TAATGATTTAATAAT-A-A-T
1 TAATGATTTAATAATAATATT
* * *
155393 TAATTATTTGATACTAATGATTT
1 TAATGATTTAATAATAAT-A-TT
155416 AATAATGATTACTAATTTAATAATATT
1 --TAATGATT--TAA--TAATAATATT
* * *
155443 TCATGATTTGATACTAATGATT
1 TAATGATTTAATAATAAT-ATT
*
155465 TAATAATAATTAATAATAAT
1 TAATGAT--TTAATAATAAT
155485 GAAATTATAA
Statistics
Matches: 83, Mismatches: 13, Indels: 25
0.69 0.11 0.21
Matches are distributed among these distances:
18 13 0.16
19 2 0.02
20 1 0.01
21 22 0.27
22 8 0.10
23 3 0.04
24 9 0.11
25 14 0.17
27 4 0.05
28 1 0.01
29 6 0.07
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.46
Consensus pattern (21 bp):
TAATGATTTAATAATAATATT
Found at i:155388 original size:18 final size:17
Alignment explanation
Indices: 155365--155478 Score: 69
Period size: 18 Copynumber: 6.8 Consensus size: 17
155355 AATGATTTAA
155365 TAATAATATTTAATGATT
1 TAATAATA-TTAATGATT
*
155383 TAATAATAATTAATTA-T
1 TAATAAT-ATTAATGATT
* *
155400 T--TGATACTAATGATT
1 TAATAATATTAATGATT
* *
155415 TAATAATGATTACTAATT
1 TAATAAT-ATTAATGATT
*
155433 TAATAATATTTCATGA-T
1 TAATAATA-TTAATGATT
* *
155450 T--TGATACTAATGATT
1 TAATAATATTAATGATT
155465 TAATAATAATTAAT
1 TAATAAT-ATTAAT
155479 AATAATGAAA
Statistics
Matches: 70, Mismatches: 16, Indels: 20
0.66 0.15 0.19
Matches are distributed among these distances:
14 11 0.16
15 11 0.16
17 11 0.16
18 36 0.51
19 1 0.01
ACGTcount: A:0.44, C:0.04, G:0.06, T:0.46
Consensus pattern (17 bp):
TAATAATATTAATGATT
Found at i:155440 original size:50 final size:50
Alignment explanation
Indices: 155340--155481 Score: 194
Period size: 50 Copynumber: 2.8 Consensus size: 50
155330 TAATTACTAA
* *
155340 TAATGATTTAATACTAATGATTTAATAATAATATTTAATGATTTAATAATAAT
1 TAATGATTTGATACTAATGATTTAATAAT-A-A-TTAATAATTTAATAATAAT
* * * *
155393 TAATTATTTGATACTAATGATTTAATAATGATTACTAATTTAATAATATT
1 TAATGATTTGATACTAATGATTTAATAATAATTAATAATTTAATAATAAT
*
155443 TCATGATTTGATACTAATGATTTAATAATAATTAATAAT
1 TAATGATTTGATACTAATGATTTAATAATAATTAATAAT
155482 AATGAAATTA
Statistics
Matches: 79, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
50 51 0.65
51 1 0.01
53 27 0.34
ACGTcount: A:0.44, C:0.04, G:0.06, T:0.46
Consensus pattern (50 bp):
TAATGATTTGATACTAATGATTTAATAATAATTAATAATTTAATAATAAT
Found at i:155518 original size:24 final size:24
Alignment explanation
Indices: 155457--155525 Score: 79
Period size: 24 Copynumber: 2.9 Consensus size: 24
155447 GATTTGATAC
*
155457 TAATGATTTAATAATAATTAATAA
1 TAATGATTAAATAATAATTAATAA
*
155481 TAATGA--AATTATAATAATTACTAA
1 TAATGATTAA--ATAATAATTAATAA
*
155505 TAATGATTAAATAATGATTAA
1 TAATGATTAAATAATAATTAA
155526 ATGAAATCTT
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
22 1 0.03
24 34 0.92
26 2 0.05
ACGTcount: A:0.54, C:0.01, G:0.06, T:0.39
Consensus pattern (24 bp):
TAATGATTAAATAATAATTAATAA
Found at i:155524 original size:11 final size:11
Alignment explanation
Indices: 155457--155527 Score: 54
Period size: 11 Copynumber: 6.1 Consensus size: 11
155447 GATTTGATAC
*
155457 TAATGATTTAA
1 TAATGATTAAA
*
155468 TAATAATTAATAA
1 TAATGATT-A-AA
155481 TAATGAAATTATAA
1 TAATG--ATTA-AA
* *
155495 TAATTACT-AA
1 TAATGATTAAA
155505 TAATGATTAAA
1 TAATGATTAAA
155516 TAATGATTAAA
1 TAATGATTAAA
155527 T
1 T
155528 GAAATCTTTA
Statistics
Matches: 48, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
10 8 0.17
11 21 0.44
12 2 0.04
13 6 0.12
14 8 0.17
15 3 0.06
ACGTcount: A:0.54, C:0.01, G:0.06, T:0.39
Consensus pattern (11 bp):
TAATGATTAAA
Found at i:155622 original size:20 final size:20
Alignment explanation
Indices: 155566--155657 Score: 68
Period size: 20 Copynumber: 5.3 Consensus size: 20
155556 ATATTTTTAT
155566 TTTAATATTTAAATGAAATC
1 TTTAATATTTAAATGAAATC
*
155586 TTT-AT-TTT---TG-TAT-
1 TTTAATATTTAAATGAAATC
155599 TTTAATATTTAAATGAAATC
1 TTTAATATTTAAATGAAATC
155619 TTTAAT-TTT--AT---AT-
1 TTTAATATTTAAATGAAATC
*
155632 TTTAATATTTAAATTAAATC
1 TTTAATATTTAAATGAAATC
155652 TTTAAT
1 TTTAAT
155658 TTTTTATTTA
Statistics
Matches: 56, Mismatches: 2, Indels: 28
0.65 0.02 0.33
Matches are distributed among these distances:
13 9 0.16
14 9 0.16
15 5 0.09
16 2 0.04
17 2 0.04
18 5 0.09
19 9 0.16
20 15 0.27
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.55
Consensus pattern (20 bp):
TTTAATATTTAAATGAAATC
Found at i:155679 original size:8 final size:7
Alignment explanation
Indices: 155547--155675 Score: 53
Period size: 7 Copynumber: 19.4 Consensus size: 7
155537 AAACTGTGAA
155547 TAATATT
1 TAATATT
155554 TAATATT
1 TAATATT
*
155561 T-TTATTT
1 TAATA-TT
155568 TAATATT
1 TAATATT
*
155575 TAA-ATG
1 TAATATT
* *
155581 AAATCTT
1 TAATATT
155588 T-AT-TT
1 TAATATT
**
155593 TTGTATTT
1 TAATA-TT
155601 TAATATT
1 TAATATT
*
155608 TAA-ATG
1 TAATATT
* *
155614 AAATCTT
1 TAATATT
155621 TAAT-TT
1 TAATATT
155627 T-ATATTT
1 TAATA-TT
155634 TAATATT
1 TAATATT
155641 TAA-ATT
1 TAATATT
* *
155647 AAATCTT
1 TAATATT
155654 TAAT-TT
1 TAATATT
*
155660 T-TTATT
1 TAATATT
155666 TAATATT
1 TAATATT
155673 TAA
1 TAA
155676 ATATAAATTT
Statistics
Matches: 89, Mismatches: 20, Indels: 26
0.66 0.15 0.19
Matches are distributed among these distances:
5 6 0.07
6 27 0.30
7 46 0.52
8 10 0.11
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.58
Consensus pattern (7 bp):
TAATATT
Found at i:155683 original size:33 final size:33
Alignment explanation
Indices: 155552--155677 Score: 202
Period size: 33 Copynumber: 3.8 Consensus size: 33
155542 GTGAATAATA
155552 TTTAATATTTTTATTTTAATATTTAAATGAAATC
1 TTTAAT-TTTTTATTTTAATATTTAAATGAAATC
155586 TTT-ATTTTTGTATTTTAATATTTAAATGAAATC
1 TTTAATTTTT-TATTTTAATATTTAAATGAAATC
* *
155619 TTTAATTTTATATTTTAATATTTAAATTAAATC
1 TTTAATTTTTTATTTTAATATTTAAATGAAATC
155652 TTTAATTTTTTA-TTTAATATTTAAAT
1 TTTAATTTTTTATTTTAATATTTAAAT
155678 ATAAATTTCA
Statistics
Matches: 87, Mismatches: 3, Indels: 6
0.91 0.03 0.06
Matches are distributed among these distances:
32 18 0.21
33 61 0.70
34 8 0.09
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (33 bp):
TTTAATTTTTTATTTTAATATTTAAATGAAATC
Found at i:156913 original size:14 final size:15
Alignment explanation
Indices: 156889--156917 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
156879 TTTAATTAAA
156889 TTAAGATAAAAAATT
1 TTAAGATAAAAAATT
156904 TTAA-ATAAAAAATT
1 TTAAGATAAAAAATT
156918 ACCTTCCGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.34
Consensus pattern (15 bp):
TTAAGATAAAAAATT
Found at i:158386 original size:35 final size:35
Alignment explanation
Indices: 158341--158417 Score: 120
Period size: 35 Copynumber: 2.2 Consensus size: 35
158331 AATCCAATTC
* *
158341 GGTG-CCATTATTGATGCGCAATGGCACCATTATT
1 GGTGCCCATTATTGATACACAATGGCACCATTATT
158375 GGTGCCCATTATTGATACACAATGGCACCATTATT
1 GGTGCCCATTATTGATACACAATGGCACCATTATT
*
158410 GGCGCCCA
1 GGTGCCCA
158418 AAGCACTACG
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
34 4 0.10
35 35 0.90
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.29
Consensus pattern (35 bp):
GGTGCCCATTATTGATACACAATGGCACCATTATT
Found at i:159094 original size:35 final size:35
Alignment explanation
Indices: 159048--159124 Score: 129
Period size: 35 Copynumber: 2.2 Consensus size: 35
159038 CGCAATGCTT
* *
159048 TGGGCACCAATAATGGTGCCATTGTGCATCAATAA
1 TGGGCACCAATAATGGTGCCATTATGCAGCAATAA
159083 TGGGCACCAATAATGGTGCCATTATGCAGCAATAA
1 TGGGCACCAATAATGGTGCCATTATGCAGCAATAA
159118 T-GGCACC
1 TGGGCACC
159125 GAATTGGATT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
34 6 0.15
35 34 0.85
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.23
Consensus pattern (35 bp):
TGGGCACCAATAATGGTGCCATTATGCAGCAATAA
Found at i:161951 original size:33 final size:34
Alignment explanation
Indices: 161889--161962 Score: 123
Period size: 33 Copynumber: 2.2 Consensus size: 34
161879 TGAAATTTAT
161889 ATTTAAATATTAAAATAAAAAAAATTAAAGATTTC
1 ATTTAAATATTAAAAT-AAAAAAATTAAAGATTTC
*
161924 ATTTAAATATTAAAAT-ATAAAATTAAAGATTTC
1 ATTTAAATATTAAAATAAAAAAATTAAAGATTTC
161957 ATTTAA
1 ATTTAA
161963 TCATTATTAG
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
33 22 0.58
35 16 0.42
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.38
Consensus pattern (34 bp):
ATTTAAATATTAAAATAAAAAAATTAAAGATTTC
Found at i:161976 original size:13 final size:13
Alignment explanation
Indices: 161960--162016 Score: 59
Period size: 13 Copynumber: 4.7 Consensus size: 13
161950 AGATTTCATT
161960 TAATCATTATTAG
1 TAATCATTATTAG
* *
161973 TAATTATTA-TAA
1 TAATCATTATTAG
*
161985 T-TTCATTATTAG
1 TAATCATTATTAG
161997 TAATCATTATTA-
1 TAATCATTATTAG
162009 -AATCATTA
1 TAATCATTA
162017 GTATCAAATC
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
11 13 0.36
12 6 0.17
13 17 0.47
ACGTcount: A:0.40, C:0.07, G:0.04, T:0.49
Consensus pattern (13 bp):
TAATCATTATTAG
Found at i:162014 original size:24 final size:24
Alignment explanation
Indices: 161961--162152 Score: 96
Period size: 24 Copynumber: 7.8 Consensus size: 24
161951 GATTTCATTT
*
161961 AATCATTATTAGTAATTATTA-TA
1 AATCATTATTAGTAATCATTATTA
*
161984 ATTTCATTATTAGTAATCATTATTA
1 A-ATCATTATTAGTAATCATTATTA
*
162009 AATCATTAGTA-TCAAATCATTA--A
1 AATCATTATTAGT--AATCATTATTA
*
162032 ATATTATTAAATTAGTAATCATTATTA
1 A-ATCATT--ATTAGTAATCATTATTA
* * *
162059 AATTATTATTATTAA--ATCATTA
1 AATCATTATTAGTAATCATTATTA
* *
162081 AAT-ATTATTATTAAATCATTGTTA
1 AATCATTATTAGT-AATCATTATTA
* *
162105 GTAATTATTATTA--AATCAATAAAATTA
1 --AATCATTATTAGTAATC-AT--TATTA
*
162132 AATCATTATTATTAAATCATT
1 AATCATTATTAGT-AATCATT
162153 TAAAAACATT
Statistics
Matches: 133, Mismatches: 14, Indels: 42
0.70 0.07 0.22
Matches are distributed among these distances:
21 9 0.07
22 11 0.08
23 4 0.03
24 47 0.35
25 31 0.23
26 12 0.09
27 15 0.11
28 4 0.03
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.46
Consensus pattern (24 bp):
AATCATTATTAGTAATCATTATTA
Found at i:162018 original size:21 final size:21
Alignment explanation
Indices: 161992--162122 Score: 67
Period size: 21 Copynumber: 6.0 Consensus size: 21
161982 TAATTTCATT
*
161992 ATTAGTAATCATTATTAAATC
1 ATTAGTAATTATTATTAAATC
* *
162013 ATTAGT-ATCAAATCATTAAAT-
1 ATTAGTAAT--TATTATTAAATC
* *
162034 ATTATTAA--ATTAGT-AATC
1 ATTAGTAATTATTATTAAATC
*
162052 ATTATTAAATTATTATTATTAAATC
1 ATTAGT-AA---TTATTATTAAATC
*
162077 ATTA-AATATTATTATTAAATC
1 ATTAGTA-ATTATTATTAAATC
162098 ATTGTTAGTAATTATTATTAAATC
1 A---TTAGTAATTATTATTAAATC
162122 A
1 A
162123 ATAAAATTAA
Statistics
Matches: 86, Mismatches: 8, Indels: 29
0.70 0.07 0.24
Matches are distributed among these distances:
17 3 0.03
18 10 0.12
19 2 0.02
20 2 0.02
21 25 0.29
22 10 0.12
23 1 0.01
24 24 0.28
25 9 0.10
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.46
Consensus pattern (21 bp):
ATTAGTAATTATTATTAAATC
Found at i:162055 original size:50 final size:50
Alignment explanation
Indices: 161992--162090 Score: 171
Period size: 50 Copynumber: 2.0 Consensus size: 50
161982 TAATTTCATT
161992 ATTAGTAATCATTATTAAATCATTAGTATCAAATCATTAAATATTATTAA
1 ATTAGTAATCATTATTAAATCATTAGTATCAAATCATTAAATATTATTAA
* * *
162042 ATTAGTAATCATTATTAAATTATTATTATTAAATCATTAAATATTATTA
1 ATTAGTAATCATTATTAAATCATTAGTATCAAATCATTAAATATTATTA
162091 TTAAATCATT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 46 1.00
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.45
Consensus pattern (50 bp):
ATTAGTAATCATTATTAAATCATTAGTATCAAATCATTAAATATTATTAA
Found at i:162071 original size:14 final size:14
Alignment explanation
Indices: 162033--162080 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 14
162023 AATCATTAAA
162033 TATTATTAAATTAGT
1 TATTATTAAATTA-T
162048 AATCATTATTAAATTAT
1 --T-ATTATTAAATTAT
*
162065 TATTATTAAATCAT
1 TATTATTAAATTAT
162079 TA
1 TA
162081 AATATTATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
14 14 0.48
15 1 0.03
17 2 0.07
18 12 0.41
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.50
Consensus pattern (14 bp):
TATTATTAAATTAT
Found at i:162088 original size:18 final size:17
Alignment explanation
Indices: 161997--162090 Score: 65
Period size: 18 Copynumber: 5.6 Consensus size: 17
161987 TCATTATTAG
161997 TAATCATTATTAAATCA-
1 TAAT-ATTATTAAATCAT
* *
162014 T--TAGTATCAAATCAT
1 TAATATTATTAAATCAT
* *
162029 TAAATATTATTAAATTAG
1 T-AATATTATTAAATCAT
162047 TAATCATTATT-AA--AT
1 TAAT-ATTATTAAATCAT
*
162062 TATTATTATTAAATCAT
1 TAATATTATTAAATCAT
162079 TAAATATTATTA
1 T-AATATTATTA
162091 TTAAATCATT
Statistics
Matches: 59, Mismatches: 9, Indels: 17
0.69 0.11 0.20
Matches are distributed among these distances:
14 16 0.27
15 8 0.14
17 9 0.15
18 26 0.44
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (17 bp):
TAATATTATTAAATCAT
Found at i:162151 original size:14 final size:14
Alignment explanation
Indices: 162077--162152 Score: 72
Period size: 14 Copynumber: 5.8 Consensus size: 14
162067 TTATTAAATC
162077 ATTAAAT-ATTATT
1 ATTAAATCATTATT
*
162090 ATTAAATCATTGTT
1 ATTAAATCATTATT
*
162104 AGT--A--ATTATT
1 ATTAAATCATTATT
* **
162114 ATTAAATCAATAAA
1 ATTAAATCATTATT
162128 ATTAAATCATTATT
1 ATTAAATCATTATT
162142 ATTAAATCATT
1 ATTAAATCATT
162153 TAAAAACATT
Statistics
Matches: 48, Mismatches: 10, Indels: 9
0.72 0.15 0.13
Matches are distributed among these distances:
10 7 0.15
12 2 0.04
13 7 0.15
14 32 0.67
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.46
Consensus pattern (14 bp):
ATTAAATCATTATT
Found at i:162387 original size:33 final size:32
Alignment explanation
Indices: 162340--162466 Score: 175
Period size: 33 Copynumber: 3.8 Consensus size: 32
162330 GAACAATGAA
162340 ATTTATATTTAAATATTAAAATAAAAATTAAAG
1 ATTTA-ATTTAAATATTAAAATAAAAATTAAAG
162373 ATTTAATTTAAAATATTAAAA-AATTAAATTAAAG
1 ATTTAATTT-AAATATTAAAATAA--AAATTAAAG
**
162407 ATTCCATTTAAATATTAAAATATAAAATTAAAG
1 ATTTAATTTAAATATTAAAATA-AAAATTAAAG
*
162440 ATTTCATTTAAATATTAAAATAAAAAT
1 ATTTAATTTAAATATTAAAATAAAAAT
162467 ATTAAATATT
Statistics
Matches: 86, Mismatches: 3, Indels: 11
0.86 0.03 0.11
Matches are distributed among these distances:
32 11 0.13
33 57 0.66
34 17 0.20
35 1 0.01
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (32 bp):
ATTTAATTTAAATATTAAAATAAAAATTAAAG
Found at i:162399 original size:21 final size:20
Alignment explanation
Indices: 162354--162405 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
162344 ATATTTAAAT
* *
162354 ATTAAAATAAAAATTAAAGA
1 ATTAAATTAAAAATTAAAAA
* *
162374 TTTAATTTAAAATATTAAAAA
1 ATTAAATTAAAA-ATTAAAAA
162395 ATTAAATTAAA
1 ATTAAATTAAA
162406 GATTCCATTT
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
20 9 0.36
21 16 0.64
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (20 bp):
ATTAAATTAAAAATTAAAAA
Found at i:162425 original size:20 final size:19
Alignment explanation
Indices: 162400--162458 Score: 58
Period size: 20 Copynumber: 3.3 Consensus size: 19
162390 AAAAAATTAA
162400 ATTAAAGATTCCATTTAAAT
1 ATTAAAGATT-CATTTAAAT
162420 ATTAAA-A-T-A--TAAA-
1 ATTAAAGATTCATTTAAAT
162433 ATTAAAGATTTCATTTAAAT
1 ATTAAAGA-TTCATTTAAAT
162453 ATTAAA
1 ATTAAA
162459 ATAAAAATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 14
0.70 0.00 0.30
Matches are distributed among these distances:
13 6 0.19
14 5 0.16
16 2 0.06
17 1 0.03
18 1 0.03
19 5 0.16
20 12 0.38
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.39
Consensus pattern (19 bp):
ATTAAAGATTCATTTAAAT
Found at i:162471 original size:67 final size:66
Alignment explanation
Indices: 162346--162472 Score: 195
Period size: 66 Copynumber: 1.9 Consensus size: 66
162336 TGAAATTTAT
*
162346 ATTTAAATATTAAAATAAAAATTAAAGATTTAATTTAAAATATTAAAAAATTAAATTAAAGATTC
1 ATTTAAATATTAAAATAAAAATTAAAGATTTAATTTAAAATATTAAAAAATAAAATTAAAGATTC
162411 C
66 C
*
162412 ATTTAAATATTAAAATATAAAATTAAAGATTTCATTT-AAATATTAAAATAA-AAATATTAAA
1 ATTTAAATATTAAAATA-AAAATTAAAGATTTAATTTAAAATATTAAAA-AATAAA-ATTAAA
162473 TATTTTTTAC
Statistics
Matches: 56, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
66 30 0.54
67 26 0.46
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.37
Consensus pattern (66 bp):
ATTTAAATATTAAAATAAAAATTAAAGATTTAATTTAAAATATTAAAAAATAAAATTAAAGATTC
C
Found at i:162538 original size:23 final size:22
Alignment explanation
Indices: 162509--162594 Score: 111
Period size: 23 Copynumber: 3.7 Consensus size: 22
162499 TTAAATAATC
162509 ATTATTAAATCATTATTAGTAGT
1 ATTATTAAATCATTATTAGTA-T
162532 ATTATTAAATCATTATTAGTA-
1 ATTATTAAATCATTATTAGTAT
162553 ATTATTATAATTTCATTATTAGTAAT
1 ATTATTA-AA--TCATTATTAGT-AT
162579 CATTATTAAATCATTA
1 -ATTATTAAATCATTA
162595 GTATCAAATC
Statistics
Matches: 57, Mismatches: 0, Indels: 11
0.84 0.00 0.16
Matches are distributed among these distances:
21 7 0.12
22 2 0.04
23 21 0.37
24 17 0.30
25 1 0.02
26 2 0.04
27 7 0.12
ACGTcount: A:0.41, C:0.06, G:0.05, T:0.49
Consensus pattern (22 bp):
ATTATTAAATCATTATTAGTAT
Found at i:162568 original size:24 final size:23
Alignment explanation
Indices: 162509--162692 Score: 119
Period size: 24 Copynumber: 7.7 Consensus size: 23
162499 TTAAATAATC
162509 ATTATTA-AA-TCATTATTAGTA
1 ATTATTATAATTCATTATTAGTA
162530 GTATTATTA-AA-TCATTATTAGTA
1 --ATTATTATAATTCATTATTAGTA
162553 ATTATTATAATTTCATTATTAGTA
1 ATTATTATAA-TTCATTATTAGTA
* * *
162577 ATCATTATTAAATCATTAGTA-TCAA
1 ATTATTA-TAATTCATTATTAGT--A
* *
162602 ATCATTA-AATATTATTAAATTAGTA
1 ATTATTATAAT-TCATT--ATTAGTA
* * *
162627 ATCATTATTAAATCATTATTAATA
1 ATTATTA-TAATTCATTATTAGTA
* *
162651 ATTATTTTATTTTCATTATTAGTA
1 ATTATTATA-ATTCATTATTAGTA
*
162675 ATTATTATTAAATCATTA
1 ATTATTA-TAATTCATTA
162693 GTATCAAATC
Statistics
Matches: 130, Mismatches: 17, Indels: 27
0.75 0.10 0.16
Matches are distributed among these distances:
21 7 0.05
22 2 0.02
23 26 0.20
24 64 0.49
25 21 0.16
26 7 0.05
27 3 0.02
ACGTcount: A:0.41, C:0.06, G:0.04, T:0.49
Consensus pattern (23 bp):
ATTATTATAATTCATTATTAGTA
Found at i:162637 original size:98 final size:100
Alignment explanation
Indices: 162523--162812 Score: 356
Period size: 98 Copynumber: 2.9 Consensus size: 100
162513 TTAAATCATT
* * *
162523 ATTAGTAGTATTATTAAATCATTATTAGTAATTATTATAATTTCATTATTAGTAATCATTATTAA
1 ATTAGTAATATTATTAAATCATTATTAATAATTATTATAATTTCATTATTAGTAATTATTATTAA
162588 ATCATTAGTATCAAATCATTAAA-TATTATT-AA-
66 ATCATTAGTATCAAATCATTAAATTATTATTAAAC
* *
162620 ATTAGTAATCATTATTAAATCATTATTAATAATTATTTTATTTTCATTATTAGTAATTATTATTA
1 ATTAGTAAT-ATTATTAAATCATTATTAATAATTATTATAATTTCATTATTAGTAATTATTATTA
162685 AATCATTAGTATCAAATCATTAAATTATTATTAAATC
65 AATCATTAGTATCAAATCATTAAATTATTATTAAA-C
* * * *
162722 ATTAGTATTAAATAATTAAAT-ATTATTATTAAATCATTA-ATATTAAATCATTATTAGTAATTA
1 ATTAGTA--ATATTATTAAATCATTATTAAT-AATTATTATA-ATT---TCATTATTAGTAATTA
* * *
162785 TTATTAAATCAATAGCATTAAATCATTA
59 TTATTAAATCATTAGTATCAAATCATTA
162813 TTATTAAATC
Statistics
Matches: 167, Mismatches: 14, Indels: 15
0.85 0.07 0.08
Matches are distributed among these distances:
97 8 0.05
98 75 0.45
99 7 0.04
100 2 0.01
102 16 0.10
103 17 0.10
104 1 0.01
106 41 0.25
ACGTcount: A:0.43, C:0.06, G:0.04, T:0.47
Consensus pattern (100 bp):
ATTAGTAATATTATTAAATCATTATTAATAATTATTATAATTTCATTATTAGTAATTATTATTAA
ATCATTAGTATCAAATCATTAAATTATTATTAAAC
Found at i:162644 original size:21 final size:20
Alignment explanation
Indices: 162503--162656 Score: 69
Period size: 21 Copynumber: 7.6 Consensus size: 20
162493 ATTGCCTTAA
162503 ATAATCATTATTAAATCATT
1 ATAATCATTATTAAATCATT
* * *
162523 AT--T-AGTAGT--ATTATT
1 ATAATCATTATTAAATCATT
*
162538 A-AATCATTATTAGTAATTATT
1 ATAATCATTATTA--AATCATT
162559 ATAATTTCATTATTAGTAATCATT
1 ATAA--TCATTATTA--AATCATT
162583 ATTAAATCATTAGTATCAAATCATT
1 A-T-AATCATTA-T-T-AAATCATT
162608 A-AAT-ATTATT-AA--ATT
1 ATAATCATTATTAAATCATT
162623 AGTAATCATTATTAAATCATT
1 A-TAATCATTATTAAATCATT
*
162644 ATTAATAATTATT
1 A-TAATCATTATT
162657 TTATTTTCAT
Statistics
Matches: 105, Mismatches: 8, Indels: 41
0.68 0.05 0.27
Matches are distributed among these distances:
15 10 0.10
16 1 0.01
17 13 0.12
18 7 0.07
19 3 0.03
20 3 0.03
21 25 0.24
22 5 0.05
24 24 0.23
25 10 0.10
26 3 0.03
27 1 0.01
ACGTcount: A:0.43, C:0.06, G:0.04, T:0.47
Consensus pattern (20 bp):
ATAATCATTATTAAATCATT
Found at i:162725 original size:14 final size:14
Alignment explanation
Indices: 162531--162826 Score: 115
Period size: 14 Copynumber: 22.1 Consensus size: 14
162521 TTATTAGTAG
162531 TATTATTAAATCAT
1 TATTATTAAATCAT
* *
162545 TATTAGT-AATTAT
1 TATTATTAAATCAT
*
162558 TATAATT---TCAT
1 TATTATTAAATCAT
*
162569 TATTAGT-AATC--
1 TATTATTAAATCAT
162580 -ATTATTAAATCAT
1 TATTATTAAATCAT
* *
162593 TAGTATCAAATCATT
1 TATTATTAAATCA-T
*
162608 AAATATTATTAAATTAGT
1 ---TATTATTAAATCA-T
162626 AATCATTATTAAATCAT
1 --T-ATTATTAAATCAT
* *
162643 TATTAAT-AATTAT
1 TATTATTAAATCAT
*
162656 T-TTATT--TTCAT
1 TATTATTAAATCAT
*
162667 TATTAGT--A--AT
1 TATTATTAAATCAT
162677 TATTATTAAATCAT
1 TATTATTAAATCAT
* *
162691 TAGTATCAAATCATTAAAT
1 TATTATTAAATC-----AT
162710 TATTATTAAATCAT
1 TATTATTAAATCAT
*
162724 TAGTATT-AA--A-
1 TATTATTAAATCAT
162734 TA--ATTAAAT-AT
1 TATTATTAAATCAT
162745 TATTATTAAATCAT
1 TATTATTAAATCAT
*
162759 TAATATTAAATCAT
1 TATTATTAAATCAT
*
162773 TATTAGT--A--AT
1 TATTATTAAATCAT
*
162783 TATTATTAAATCAA
1 TATTATTAAATCAT
**
162797 TAGCATTAAATCAT
1 TATTATTAAATCAT
162811 TATTATTAAATCAT
1 TATTATTAAATCAT
162825 TA
1 TA
162827 AATCATTTAA
Statistics
Matches: 213, Mismatches: 38, Indels: 62
0.68 0.12 0.20
Matches are distributed among these distances:
8 3 0.01
9 2 0.01
10 24 0.11
11 19 0.09
12 11 0.05
13 27 0.13
14 87 0.41
15 2 0.01
17 4 0.02
18 22 0.10
19 12 0.06
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.47
Consensus pattern (14 bp):
TATTATTAAATCAT
Found at i:162751 original size:21 final size:21
Alignment explanation
Indices: 162714--162766 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
162704 TTAAATTATT
162714 ATTAAATCATTAGTATTAAATA
1 ATTAAAT-ATTAGTATTAAATA
* *
162736 ATTAAATATTATTATTAAATC
1 ATTAAATATTAGTATTAAATA
162757 ATT-AATATTA
1 ATTAAATATTA
162767 AATCATTATT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 7 0.24
21 15 0.52
22 7 0.24
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (21 bp):
ATTAAATATTAGTATTAAATA
Found at i:162754 original size:35 final size:35
Alignment explanation
Indices: 162675--162812 Score: 181
Period size: 35 Copynumber: 3.9 Consensus size: 35
162665 ATTATTAGTA
*
162675 ATTATTATTAAATCATTAGTATCAAATCATT-AA-
1 ATTATTATTAAATCATTAGTATTAAATCATTAAAT
*
162708 ATTATTATTAAATCATTAGTATTAAATAATTAAAT
1 ATTATTATTAAATCATTAGTATTAAATCATTAAAT
* *
162743 ATTATTATTAAATCATTAATATTAAATCATTATTAGT
1 ATTATTATTAAATCATTAGTATTAAATCATTA--AAT
* *
162780 AATTATTATTAAATCAATAGCATTAAATCATTA
1 -ATTATTATTAAATCATTAGTATTAAATCATTA
162813 TTATTAAATC
Statistics
Matches: 92, Mismatches: 8, Indels: 5
0.88 0.08 0.05
Matches are distributed among these distances:
33 29 0.32
34 2 0.02
35 30 0.33
37 2 0.02
38 29 0.32
ACGTcount: A:0.46, C:0.07, G:0.03, T:0.44
Consensus pattern (35 bp):
ATTATTATTAAATCATTAGTATTAAATCATTAAAT
Found at i:162785 original size:38 final size:38
Alignment explanation
Indices: 162663--162833 Score: 200
Period size: 38 Copynumber: 4.8 Consensus size: 38
162653 TATTTTATTT
*
162663 TCATTATTAGTAATTATTATTAAATCATTAGTATCAAA
1 TCATTATTAGTAATTATTATTAAATCATTAGTATTAAA
162701 TC---ATTA--AATTATTATTAAATCATTAGTATTAAA
1 TCATTATTAGTAATTATTATTAAATCATTAGTATTAAA
* * *
162734 TAATTA--AAT-ATTATTATTAAATCATTAATATTAAA
1 TCATTATTAGTAATTATTATTAAATCATTAGTATTAAA
* *
162769 TCATTATTAGTAATTATTATTAAATCAATAGCATTAAA
1 TCATTATTAGTAATTATTATTAAATCATTAGTATTAAA
* *
162807 TCATTATTATTAA--ATCATTAAATCATT
1 TCATTATTAGTAATTATTATTAAATCATT
162834 TAAAAACATT
Statistics
Matches: 114, Mismatches: 11, Indels: 18
0.80 0.08 0.13
Matches are distributed among these distances:
33 27 0.24
34 1 0.01
35 34 0.30
36 13 0.11
37 2 0.02
38 37 0.32
ACGTcount: A:0.45, C:0.07, G:0.03, T:0.45
Consensus pattern (38 bp):
TCATTATTAGTAATTATTATTAAATCATTAGTATTAAA
Found at i:175246 original size:16 final size:17
Alignment explanation
Indices: 175215--175247 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
175205 GTTAAATACT
*
175215 ATGATTATATTTTATTA
1 ATGATTATAATTTATTA
175232 ATGATTA-AATTTATTA
1 ATGATTATAATTTATTA
175248 CTTCATATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (17 bp):
ATGATTATAATTTATTA
Found at i:175376 original size:45 final size:45
Alignment explanation
Indices: 175320--175414 Score: 120
Period size: 45 Copynumber: 2.1 Consensus size: 45
175310 CTTTCCTGTG
* * * * *
175320 CAACCACCAACCTACTCGTGATGTTAATGGATAATTAAT-AACCGC
1 CAACCAACAACCTACTCGAGATATTAAAGGATAATT-ATCAACCAC
*
175365 CAACCAACAACCTACTCGAGTTATTAAAGGATAATTATCAACCAC
1 CAACCAACAACCTACTCGAGATATTAAAGGATAATTATCAACCAC
175410 CAACC
1 CAACC
175415 TATTGATATT
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
44 2 0.05
45 41 0.95
ACGTcount: A:0.39, C:0.28, G:0.11, T:0.22
Consensus pattern (45 bp):
CAACCAACAACCTACTCGAGATATTAAAGGATAATTATCAACCAC
Found at i:175408 original size:38 final size:38
Alignment explanation
Indices: 175365--175439 Score: 98
Period size: 38 Copynumber: 2.0 Consensus size: 38
175355 TAATAACCGC
*
175365 CAACCAACAACCTACTCGA-GTTATTAAAGGATAATTAT
1 CAACCAACAACCTA-TCGATATTATTAAAGGATAATTAT
* * *
175403 CAACCACCAACCTATTGATATTATTAACGGATAATTA
1 CAACCAACAACCTATCGATATTATTAAAGGATAATTA
175440 ATGTTGCAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
37 3 0.09
38 29 0.91
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.28
Consensus pattern (38 bp):
CAACCAACAACCTATCGATATTATTAAAGGATAATTAT
Found at i:175574 original size:29 final size:29
Alignment explanation
Indices: 175503--175574 Score: 108
Period size: 29 Copynumber: 2.4 Consensus size: 29
175493 ACTAAATTTT
*
175503 TTACTTCAGATTTTTTATACCTACTTATTA
1 TTACTTC-GAATTTTTATACCTACTTATTA
* *
175533 TTACTTTGGATTTTTATACCTACTTATTA
1 TTACTTCGAATTTTTATACCTACTTATTA
175562 TTACTTCGAATTT
1 TTACTTCGAATTT
175575 ATTACTCCCT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
29 31 0.84
30 6 0.16
ACGTcount: A:0.25, C:0.15, G:0.06, T:0.54
Consensus pattern (29 bp):
TTACTTCGAATTTTTATACCTACTTATTA
Done.