Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007460.1 Hibiscus syriacus cultivar Beakdansim tig00020458_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: 111216
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Found at i:3253 original size:46 final size:46
Alignment explanation
Indices: 3186--3278 Score: 168
Period size: 46 Copynumber: 2.0 Consensus size: 46
3176 TCTTCGCTTT
*
3186 TTTGTAAAGGAGAGTGAAGATGTATTTAATGGGAAATATGGGGGGG
1 TTTGTAAAGGAGAGTGAAGATGTATTTAATGGGAAAGATGGGGGGG
*
3232 TTTGTAAAGGAGAGTGAAGATGTATTTAATGGGAAAGATTGGGGGG
1 TTTGTAAAGGAGAGTGAAGATGTATTTAATGGGAAAGATGGGGGGG
3278 T
1 T
3279 GAAGATGTAT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.32, C:0.00, G:0.39, T:0.29
Consensus pattern (46 bp):
TTTGTAAAGGAGAGTGAAGATGTATTTAATGGGAAAGATGGGGGGG
Found at i:3281 original size:32 final size:32
Alignment explanation
Indices: 3245--3310 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
3235 GTAAAGGAGA
*
3245 GTGAAGATGTATTTAATGGGAAAGATTGGGGG
1 GTGAAGATGTATTTAATGGGAAAGATTGAGGG
3277 GTGAAGATGTATTTAATGGGAAAGATTGAGGG
1 GTGAAGATGTATTTAATGGGAAAGATTGAGGG
3309 GT
1 GT
3311 TTTGTAAAAG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.32, C:0.00, G:0.39, T:0.29
Consensus pattern (32 bp):
GTGAAGATGTATTTAATGGGAAAGATTGAGGG
Found at i:3346 original size:80 final size:78
Alignment explanation
Indices: 3199--3347 Score: 253
Period size: 80 Copynumber: 1.9 Consensus size: 78
3189 GTAAAGGAGA
* *
3199 GTGAAGATGTATTTAATGGGAAATATGGGGGGGTTTGTAAAGGAGAGTGAAGATGTATTTAATGG
1 GTGAAGATGTATTTAATGGGAAAGATGAGGGGGTTTGTAAAGGAGAGTGAAGATGTATTTAATGG
3264 GAAAGATTGGGGG
66 GAAAGATTGGGGG
*
3277 GTGAAGATGTATTTAATGGGAAAGATTGAGGGGTTTTGTAAAAGGAGAGTGAAGATGTATTTAAT
1 GTGAAGATGTATTTAATGGGAAAGA-TGAGGGGGTTTGT-AAAGGAGAGTGAAGATGTATTTAAT
3342 GGGAAA
64 GGGAAA
3348 TATCGAGGGA
Statistics
Matches: 66, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
78 24 0.36
79 11 0.17
80 31 0.47
ACGTcount: A:0.34, C:0.00, G:0.37, T:0.29
Consensus pattern (78 bp):
GTGAAGATGTATTTAATGGGAAAGATGAGGGGGTTTGTAAAGGAGAGTGAAGATGTATTTAATGG
GAAAGATTGGGGG
Found at i:3497 original size:17 final size:17
Alignment explanation
Indices: 3467--3499 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
3457 GGCTGGTAAC
3467 GGAGGGTAGCAGGTGAA
1 GGAGGGTAGCAGGTGAA
3484 GGAGAGGTAG-AGGTGA
1 GGAG-GGTAGCAGGTGA
3500 GAGAAAGGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.30, C:0.03, G:0.55, T:0.12
Consensus pattern (17 bp):
GGAGGGTAGCAGGTGAA
Found at i:8894 original size:46 final size:46
Alignment explanation
Indices: 8804--8927 Score: 140
Period size: 46 Copynumber: 2.6 Consensus size: 46
8794 GCTATACTCT
* * * **
8804 AAACTTTAAAGAAACCATAGAATAGAAGCCCAGAATCCCTACATCATGTTG
1 AAACTTTAAAGAAACC----AA-AGAAGCCTACAATCCCTACATCATATCA
*
8855 AAACTTTAAAGAAACCAAAGAAGCCTACAATCCTTACATCATATCA
1 AAACTTTAAAGAAACCAAAGAAGCCTACAATCCCTACATCATATCA
*
8901 AAACTTTAAAGAAACCGAAGAAGCCTA
1 AAACTTTAAAGAAACCAAAGAAGCCTA
8928 TAGCGCTTAT
Statistics
Matches: 66, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
46 48 0.73
47 2 0.03
51 16 0.24
ACGTcount: A:0.47, C:0.22, G:0.11, T:0.20
Consensus pattern (46 bp):
AAACTTTAAAGAAACCAAAGAAGCCTACAATCCCTACATCATATCA
Found at i:21140 original size:35 final size:35
Alignment explanation
Indices: 21095--21166 Score: 126
Period size: 35 Copynumber: 2.1 Consensus size: 35
21085 TAAAAAAACC
*
21095 CTATTTTAGACTAGTATTTAAGTCCTAATCCAACT
1 CTATTCTAGACTAGTATTTAAGTCCTAATCCAACT
*
21130 CTATTCTAGACTAGTATTTGAGTCCTAATCCAACT
1 CTATTCTAGACTAGTATTTAAGTCCTAATCCAACT
21165 CT
1 CT
21167 TTTTTGTTGG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.29, C:0.22, G:0.10, T:0.39
Consensus pattern (35 bp):
CTATTCTAGACTAGTATTTAAGTCCTAATCCAACT
Found at i:21815 original size:109 final size:109
Alignment explanation
Indices: 21624--22065 Score: 758
Period size: 109 Copynumber: 4.1 Consensus size: 109
21614 ATACAAGTCA
* *
21624 AAATCGACTCTGAAATTGGGAAGTTGTTTGTTGACAACCAACCGTCCCTTCGTTGTGAAATTGAA
1 AAATCGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCAACCGTCCCTTCGTTGTGAAGTTGAA
21689 CTTGTGTTGTCTCGGGTAGCACGATATCCTCCGTCGTGGAGTTG
66 CTTGTGTTGTCTCGGGTAGCACGATATCCTCCGTCGTGGAGTTG
*
21733 AAATCGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAA
1 AAATCGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCAACCGTCCCTTCGTTGTGAAGTTGAA
*
21798 CTTGTGTTGTCTCGGGTAGGACGATATCCTCCGTCGTGGAGTTG
66 CTTGTGTTGTCTCGGGTAGCACGATATCCTCCGTCGTGGAGTTG
* *
21842 AAATCGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCAATCGTCCATTCGTTGTGAAGTTGAA
1 AAATCGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCAACCGTCCCTTCGTTGTGAAGTTGAA
* *
21907 CTTGTGTTGTCTCGGGTAGCACGATATCCACCGTCATGGAGTTG
66 CTTGTGTTGTCTCGGGTAGCACGATATCCTCCGTCGTGGAGTTG
* * *
21951 AAATCGGCTCTGAAATTGGGAAGTTGTTTGTTGACAATCAGCTGTCCCTTCGTTGTGAAGTTGAA
1 AAATCGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCAACCGTCCCTTCGTTGTGAAGTTGAA
* * *
22016 CTTTTGTTGTCTCGGGTAGCACGATATCCTCCGTCGTGGGGTTA
66 CTTGTGTTGTCTCGGGTAGCACGATATCCTCCGTCGTGGAGTTG
22060 AAATCG
1 AAATCG
22066 TGGATGGCCC
Statistics
Matches: 313, Mismatches: 20, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
109 313 1.00
ACGTcount: A:0.21, C:0.19, G:0.27, T:0.33
Consensus pattern (109 bp):
AAATCGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCAACCGTCCCTTCGTTGTGAAGTTGAA
CTTGTGTTGTCTCGGGTAGCACGATATCCTCCGTCGTGGAGTTG
Found at i:29358 original size:16 final size:15
Alignment explanation
Indices: 29337--29375 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
29327 AGAAATGAAT
**
29337 AAAAAAAATGACAAG
1 AAAAAAAAACACAAG
*
29352 AAAAAAAAACATAAG
1 AAAAAAAAACACAAG
29367 AAAAAAAAA
1 AAAAAAAAA
29376 ACATGGTTAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.82, C:0.05, G:0.08, T:0.05
Consensus pattern (15 bp):
AAAAAAAAACACAAG
Found at i:30797 original size:22 final size:22
Alignment explanation
Indices: 30756--30805 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 22
30746 ATATATATAT
30756 AAATAAAAAATAAAGTATAAAT-G
1 AAATAAAAAATAAAG-AT-AATGG
30779 AAATAAAAAATAATA-ATAATGG
1 AAATAAAAAATAA-AGATAATGG
30801 AAATA
1 AAATA
30806 TAAGTAAACA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
21 3 0.12
22 8 0.32
23 13 0.52
24 1 0.04
ACGTcount: A:0.70, C:0.00, G:0.08, T:0.22
Consensus pattern (22 bp):
AAATAAAAAATAAAGATAATGG
Found at i:31307 original size:35 final size:35
Alignment explanation
Indices: 31268--31339 Score: 117
Period size: 35 Copynumber: 2.1 Consensus size: 35
31258 CTAAAAAACC
*
31268 CTATTTTAGACGAGTATTTCAGTCCTAATCCAACT
1 CTATTCTAGACGAGTATTTCAGTCCTAATCCAACT
* *
31303 CTATTCTAGACTAGTATTTGAGTCCTAATCCAACT
1 CTATTCTAGACGAGTATTTCAGTCCTAATCCAACT
31338 CT
1 CT
31340 TCTTTGTTGG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.28, C:0.24, G:0.11, T:0.38
Consensus pattern (35 bp):
CTATTCTAGACGAGTATTTCAGTCCTAATCCAACT
Found at i:32835 original size:13 final size:13
Alignment explanation
Indices: 32817--32865 Score: 80
Period size: 13 Copynumber: 3.8 Consensus size: 13
32807 ACCCGACCCG
32817 ACCCGACCCGTTT
1 ACCCGACCCGTTT
32830 ACCCGACCCGTTT
1 ACCCGACCCGTTT
* *
32843 ACCCGACCAGTTG
1 ACCCGACCCGTTT
32856 ACCCGACCCG
1 ACCCGACCCG
32866 ACCCGTTGAC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 33 1.00
ACGTcount: A:0.18, C:0.47, G:0.18, T:0.16
Consensus pattern (13 bp):
ACCCGACCCGTTT
Found at i:32865 original size:31 final size:31
Alignment explanation
Indices: 32830--32891 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
32820 CGACCCGTTT
*
32830 ACCCGACCCGTTTACCCGAC-CAGTTGACCCG
1 ACCCGACCCGTTGACCCGACTC-GTTGACCCG
32861 ACCCGACCCGTTGACCCGACTCGTTGACCCG
1 ACCCGACCCGTTGACCCGACTCGTTGACCCG
32892 TTGACCGTTG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
31 28 0.97
32 1 0.03
ACGTcount: A:0.18, C:0.45, G:0.21, T:0.16
Consensus pattern (31 bp):
ACCCGACCCGTTGACCCGACTCGTTGACCCG
Found at i:32866 original size:18 final size:18
Alignment explanation
Indices: 32843--32880 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
32833 CGACCCGTTT
32843 ACCCGACCAGTTGACCCG
1 ACCCGACCAGTTGACCCG
*
32861 ACCCGACCCGTTGACCCG
1 ACCCGACCAGTTGACCCG
32879 AC
1 AC
32881 TCGTTGACCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.21, C:0.47, G:0.21, T:0.11
Consensus pattern (18 bp):
ACCCGACCAGTTGACCCG
Found at i:32876 original size:8 final size:8
Alignment explanation
Indices: 32865--32919 Score: 66
Period size: 8 Copynumber: 7.5 Consensus size: 8
32855 GACCCGACCC
32865 GACCCGTT
1 GACCCGTT
32873 GACCC---
1 GACCCGTT
*
32878 GACTCGTT
1 GACCCGTT
32886 GACCCGTT
1 GACCCGTT
32894 GA-CCGTT
1 GACCCGTT
32901 GACCCGTT
1 GACCCGTT
32909 GA-CCGTT
1 GACCCGTT
32916 GACC
1 GACC
32920 GGAGTTGACC
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
5 4 0.10
7 14 0.35
8 22 0.55
ACGTcount: A:0.15, C:0.36, G:0.25, T:0.24
Consensus pattern (8 bp):
GACCCGTT
Found at i:32901 original size:7 final size:7
Alignment explanation
Indices: 32882--32920 Score: 60
Period size: 7 Copynumber: 5.3 Consensus size: 7
32872 TGACCCGACT
32882 CGTTGACC
1 CGTTGA-C
32890 CGTTGAC
1 CGTTGAC
32897 CGTTGACC
1 CGTTGA-C
32905 CGTTGAC
1 CGTTGAC
32912 CGTTGAC
1 CGTTGAC
32919 CG
1 CG
32921 GAGTTGACCA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
7 17 0.57
8 13 0.43
ACGTcount: A:0.13, C:0.33, G:0.28, T:0.26
Consensus pattern (7 bp):
CGTTGAC
Found at i:32902 original size:15 final size:15
Alignment explanation
Indices: 32882--32919 Score: 76
Period size: 15 Copynumber: 2.5 Consensus size: 15
32872 TGACCCGACT
32882 CGTTGACCCGTTGAC
1 CGTTGACCCGTTGAC
32897 CGTTGACCCGTTGAC
1 CGTTGACCCGTTGAC
32912 CGTTGACC
1 CGTTGACC
32920 GGAGTTGACC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.13, C:0.34, G:0.26, T:0.26
Consensus pattern (15 bp):
CGTTGACCCGTTGAC
Found at i:34235 original size:18 final size:18
Alignment explanation
Indices: 34209--34244 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
34199 TCGAAAGGAC
*
34209 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
34227 TGAATTAAATAATAAGAT
1 TGAAGTAAATAATAAGAT
34245 CGGATGGAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.31
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:35424 original size:23 final size:23
Alignment explanation
Indices: 35398--35471 Score: 96
Period size: 23 Copynumber: 3.2 Consensus size: 23
35388 AATTCTATTA
*
35398 TGATCCTGACCTGGATTCTGATC
1 TGATCATGACCTGGATTCTGATC
*
35421 TGAT-ATTGACATGGATTCTGATC
1 TGATCA-TGACCTGGATTCTGATC
*
35444 TGATACATGACCTGGATTCTGATA
1 TGAT-CATGACCTGGATTCTGATC
35468 TGAT
1 TGAT
35472 ACTTGACTTG
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
23 24 0.55
24 19 0.43
25 1 0.02
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.36
Consensus pattern (23 bp):
TGATCATGACCTGGATTCTGATC
Found at i:35459 original size:24 final size:24
Alignment explanation
Indices: 35404--35478 Score: 116
Period size: 24 Copynumber: 3.2 Consensus size: 24
35394 ATTATGATCC
35404 TGACCTGGATTCTGATCTGATA-T
1 TGACCTGGATTCTGATCTGATACT
* *
35427 TGACATGGATTCTGATCTGATACA
1 TGACCTGGATTCTGATCTGATACT
*
35451 TGACCTGGATTCTGATATGATACT
1 TGACCTGGATTCTGATCTGATACT
35475 TGAC
1 TGAC
35479 TTGAATTATG
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
23 21 0.46
24 25 0.54
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.36
Consensus pattern (24 bp):
TGACCTGGATTCTGATCTGATACT
Found at i:37688 original size:13 final size:13
Alignment explanation
Indices: 37670--37718 Score: 80
Period size: 13 Copynumber: 3.8 Consensus size: 13
37660 ACCCGACCCG
37670 ACCCGACCCGTTT
1 ACCCGACCCGTTT
37683 ACCCGACCCGTTT
1 ACCCGACCCGTTT
* *
37696 ACCCGACCAGTTG
1 ACCCGACCCGTTT
37709 ACCCGACCCG
1 ACCCGACCCG
37719 ACCCGTTGAC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 33 1.00
ACGTcount: A:0.18, C:0.47, G:0.18, T:0.16
Consensus pattern (13 bp):
ACCCGACCCGTTT
Found at i:37719 original size:18 final size:18
Alignment explanation
Indices: 37696--37731 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
37686 CGACCCGTTT
37696 ACCCGACCAGTTGACCCG
1 ACCCGACCAGTTGACCCG
*
37714 ACCCGACCCGTTGACCCG
1 ACCCGACCAGTTGACCCG
37732 TTGACCGTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.19, C:0.47, G:0.22, T:0.11
Consensus pattern (18 bp):
ACCCGACCAGTTGACCCG
Found at i:37741 original size:7 final size:7
Alignment explanation
Indices: 37721--37759 Score: 69
Period size: 7 Copynumber: 5.4 Consensus size: 7
37711 CCGACCCGAC
37721 CCGTTGA
1 CCGTTGA
37728 CCCGTTGA
1 -CCGTTGA
37736 CCGTTGA
1 CCGTTGA
37743 CCGTTGA
1 CCGTTGA
37750 CCGTTGA
1 CCGTTGA
37757 CCG
1 CCG
37760 GAGTTGACCA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
7 24 0.77
8 7 0.23
ACGTcount: A:0.13, C:0.33, G:0.28, T:0.26
Consensus pattern (7 bp):
CCGTTGA
Found at i:39078 original size:18 final size:18
Alignment explanation
Indices: 39052--39087 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
39042 TCGAAAGGAC
*
39052 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
39070 TGAATTAAATAATAAGAT
1 TGAAGTAAATAATAAGAT
39088 CGGATGGAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.31
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:40264 original size:23 final size:23
Alignment explanation
Indices: 40238--40311 Score: 96
Period size: 23 Copynumber: 3.2 Consensus size: 23
40228 AATTCTATTA
*
40238 TGATCCTGACCTGGATTCTGATC
1 TGATCATGACCTGGATTCTGATC
*
40261 TGAT-ATTGACATGGATTCTGATC
1 TGATCA-TGACCTGGATTCTGATC
*
40284 TGATACATGACCTGGATTCTGATA
1 TGAT-CATGACCTGGATTCTGATC
40308 TGAT
1 TGAT
40312 ACTTGACTTG
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
23 24 0.55
24 19 0.43
25 1 0.02
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.36
Consensus pattern (23 bp):
TGATCATGACCTGGATTCTGATC
Found at i:40299 original size:24 final size:24
Alignment explanation
Indices: 40244--40318 Score: 116
Period size: 24 Copynumber: 3.2 Consensus size: 24
40234 ATTATGATCC
40244 TGACCTGGATTCTGATCTGATA-T
1 TGACCTGGATTCTGATCTGATACT
* *
40267 TGACATGGATTCTGATCTGATACA
1 TGACCTGGATTCTGATCTGATACT
*
40291 TGACCTGGATTCTGATATGATACT
1 TGACCTGGATTCTGATCTGATACT
40315 TGAC
1 TGAC
40319 TTGAATTATG
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
23 21 0.46
24 25 0.54
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.36
Consensus pattern (24 bp):
TGACCTGGATTCTGATCTGATACT
Found at i:49223 original size:229 final size:226
Alignment explanation
Indices: 48818--49266 Score: 774
Period size: 229 Copynumber: 2.0 Consensus size: 226
48808 GTAAATTATC
* *
48818 TATCCTTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAATATATTTATTATTATCTTTAGT
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTA-CTTTAGT
***
48883 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATATTTTTT
65 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATTT
48948 TGTGTAAATTAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTG
130 TGTGTAAATTAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTG
49013 AAACATAAATTACATAACTTTCAAAAAAATATA
195 AAACATAAATTACATAACTTT-AAAAAAATATA
*
49046 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTTGAAAACATATTTATTAAATTA-TTTG
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTG-TGAAAACATATTTATT--ATTACTTTA
*
49110 GTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAAT
63 GTTAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAAT
*
49175 TTTGTGTAAATTAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAATAAAT
128 TTTGTGTAAATTAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAT
49240 TGAAACATAAATTACATAACTTTAAAA
193 TGAAACATAAATTACATAACTTTAAAA
49267 GCAGTTTTAA
Statistics
Matches: 210, Mismatches: 8, Indels: 6
0.94 0.04 0.03
Matches are distributed among these distances:
228 40 0.19
229 166 0.79
231 4 0.02
ACGTcount: A:0.45, C:0.08, G:0.07, T:0.40
Consensus pattern (226 bp):
TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTACTTTAGTT
AATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATTTT
GTGTAAATTAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGA
AACATAAATTACATAACTTTAAAAAAATATA
Found at i:49354 original size:20 final size:19
Alignment explanation
Indices: 49331--49375 Score: 72
Period size: 19 Copynumber: 2.3 Consensus size: 19
49321 CGATATACCA
49331 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
49351 GGTAACAAATGATAAAACC
1 GGTAAAAAATGATAAAACC
49370 GGTAAA
1 GGTAAA
49376 TTTAAAAGTG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.53, C:0.11, G:0.18, T:0.18
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:49520 original size:20 final size:19
Alignment explanation
Indices: 49497--49543 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 19
49487 CGATATAACA
49497 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
49517 GGTAACAAAATGATAAAACC
1 GGTAA-AAAATGATAAAACC
49537 GGTAAAA
1 GGTAAAA
49544 TGATACCGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.55, C:0.11, G:0.17, T:0.17
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:49545 original size:17 final size:18
Alignment explanation
Indices: 49501--49548 Score: 62
Period size: 20 Copynumber: 2.6 Consensus size: 18
49491 ATAACAGGTA
49501 AAAATATGATAAAACCGGT
1 AAAA-ATGATAAAACCGGT
49520 AACAAAATGATAAAACCGGT
1 -A-AAAATGATAAAACCGGT
49540 -AAAATGATA
1 AAAAATGATA
49549 CCGGATATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
17 9 0.33
20 15 0.56
21 3 0.11
ACGTcount: A:0.56, C:0.10, G:0.15, T:0.19
Consensus pattern (18 bp):
AAAAATGATAAAACCGGT
Found at i:51817 original size:21 final size:21
Alignment explanation
Indices: 51770--51834 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
51760 AAGACAATCA
* *
51770 AGAGTCGAAGAGAAACTTGATC
1 AGAGTCGAAGAGAAACTCGA-G
*
51792 A-AGTCGTAGAGAAACTCGAG
1 AGAGTCGAAGAGAAACTCGAG
* *
51812 AGAGTCGAAGATACACTCGAG
1 AGAGTCGAAGAGAAACTCGAG
51833 AG
1 AG
51835 CATAAGGGGT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
20 1 0.03
21 34 0.94
22 1 0.03
ACGTcount: A:0.40, C:0.15, G:0.29, T:0.15
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTCGAG
Found at i:51907 original size:32 final size:32
Alignment explanation
Indices: 51866--51926 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
51856 AAATAGATGG
*
51866 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGTGA
* *
51898 AGTGGTGAAAGAAGTTGGGGTGTTAAGGG
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGG
51927 GTGATATTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.30, C:0.00, G:0.48, T:0.23
Consensus pattern (32 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGTGA
Found at i:53737 original size:19 final size:19
Alignment explanation
Indices: 53713--53761 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
53703 AATGTCGAGT
53713 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
53732 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
*
53751 TATTTTTGTAT
1 TAATTTTGTAT
53762 GTGAATATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:54225 original size:198 final size:199
Alignment explanation
Indices: 53880--55257 Score: 2580
Period size: 198 Copynumber: 7.0 Consensus size: 199
53870 CAATATGGCC
* * * *
53880 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCAATCCCAAAAACATCGAAAA
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG-AAC
53945 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
54010 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAA
130 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAA
54075 TTAAA
195 TTAAA
54080 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
*
54145 CAAAAGTATAATGT-ATAAGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
54209 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
54274 TAAA
196 TAAA
54278 AACAAGGTGCACCCATAAAGTGTCGATCC-TATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
*
54342 C-AAAGTATAATGTAATAAGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
*
54406 AATATGTCTAAATAATGTGTCCACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
54471 TAAA
196 TAAA
54475 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
54540 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACC-GTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
54604 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
54669 TAAA
196 TAAA
54673 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
54738 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
54803 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
54868 T-AA
196 TAAA
*
54871 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCTATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
*
54936 CAAAAGTATAATGT-ATATGTAATTTTTCAATCTAACCGGTACAATTATACC-ATTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
54999 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
55064 T-AA
196 TAAA
55067 AACAAGGTGCACCCATAAAGTGTCGATCCATATAT--AAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
55130 CAAAAGTATAATGTAATATGT-ATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
*
55194 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAA
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAA
55258 ATAGGTAAAC
Statistics
Matches: 1159, Mismatches: 13, Indels: 17
0.97 0.01 0.01
Matches are distributed among these distances:
194 71 0.06
195 80 0.07
196 126 0.11
197 220 0.19
198 460 0.40
199 144 0.12
200 58 0.05
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.32
Consensus pattern (199 bp):
AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
TAAA
Found at i:54678 original size:395 final size:396
Alignment explanation
Indices: 53880--55257 Score: 2590
Period size: 395 Copynumber: 3.5 Consensus size: 396
53870 CAATATGGCC
* * * *
53880 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCAATCCCAAAAACATCGAAAA
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG-AAC
53945 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
54010 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAA
130 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAA
54075 TTAAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATC
195 TTAAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATC
*
54140 GAACCCAAAAGTATAATGTATAAGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATG
260 GAACCCAAAAGTATAATGTATATGTAATTTTTCAATCTAACCGGTACAATTATACC-GTTTTATG
54205 AGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAAT
324 AGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAAT
54270 GAATTAAA
389 GAATTAAA
54278 AACAAGGTGCACCCATAAAGTGTCGATCC-TATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
*
54342 C-AAAGTATAATGTAATAAGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
*
54406 AATATGTCTAAATAATGTGTCCACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
54471 TAAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG
196 TAAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG
54536 AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGTTTTATGA
261 AACCCAAAAGTATAATGT-ATATGTAATTTTTCAATCTAACCGGTACAATTATACCGTTTTATGA
54601 GAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATG
325 GAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATG
54666 AATTAAA
390 AATTAAA
54673 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
54738 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
54803 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
*
54868 T-AAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCTATCCCAAAATCATCG
196 TAAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG
*
54932 AACCCAAAAGTATAATGTATATGTAATTTTTCAATCTAACCGGTACAATTATACCATTTTATGAG
261 AACCCAAAAGTATAATGTATATGTAATTTTTCAATCTAACCGGTACAATTATACCGTTTTATGAG
54997 AGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGA
326 AGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGA
55062 ATT-AA
391 ATTAAA
55067 AACAAGGTGCACCCATAAAGTGTCGATCCATATAT--AAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
55130 CAAAAGTATAATGTAATATGT-ATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
*
55194 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAA
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAA
55258 ATAGGTAAAC
Statistics
Matches: 965, Mismatches: 12, Indels: 13
0.97 0.01 0.01
Matches are distributed among these distances:
391 106 0.11
392 49 0.05
394 37 0.04
395 433 0.45
396 156 0.16
397 156 0.16
398 28 0.03
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.32
Consensus pattern (396 bp):
AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
TAAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG
AACCCAAAAGTATAATGTATATGTAATTTTTCAATCTAACCGGTACAATTATACCGTTTTATGAG
AGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGA
ATTAAA
Found at i:55037 original size:593 final size:593
Alignment explanation
Indices: 53880--55257 Score: 2572
Period size: 593 Copynumber: 2.3 Consensus size: 593
53870 CAATATGGCC
* * * *
53880 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCAATCCCAAAAACATCGAAAA
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG-AAC
53945 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
54010 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAA
130 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAA
54075 TTAAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATC
195 TTAAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATC
54140 GAACCCAAAAGTATAATGTATAAGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATG
260 GAACCCAAAAGTATAATGTATAAGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATG
54205 AGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAAT
325 AGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAAT
54270 GAATTAAAAACAAGGTGCACCCATAAAGTGTCGATCCTATATAAAAAGTGTCGATCCCAAAATCA
390 GAATTAAAAACAAGGTGCACCCATAAAGTGTCGATCCTATATAAAAAGTGTCGATCCCAAAATCA
*
54335 TCGAACCCAAAGTATAATGTAATAAGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTA
455 TCGAACCCAAAGTATAATGTAATAAGTAATTTTTCAATCTAACCGGTACAATTATACCGATTTTA
54400 TGAGAGAATATGTCTAAATAATGTGTCCACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGA
520 TGAGAGAATATGTCTAAATAATGTGTCCACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGA
54465 ATGAATTAAA
585 ATGAATT-AA
54475 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
54540 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACC-GTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
54604 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
54669 TAAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG
196 TAAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG
*
54734 AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATG
261 AACCCAAAAGTATAATGT-ATAAGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATG
54799 AGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAAT
325 AGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAAT
*
54864 GAATT-AAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCTATCCCAAAATC
390 GAATTAAAAACAAGGTGCACCCATAAAGTGTCGATCC-TATATAAAAAGTGTCGATCCCAAAATC
*
54928 ATCGAACCCAAAAGTATAATGT-ATATGTAATTTTTCAATCTAACCGGTACAATTATACC-ATTT
454 ATCGAACCC-AAAGTATAATGTAATAAGTAATTTTTCAATCTAACCGGTACAATTATACCGATTT
*
54991 TATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCA
518 TATGAGAGAATATGTCTAAATAATGTGTCCACACTAATATAGTTTGTGTCGATATTTTTTTTCCA
55056 GAATGAATTAA
583 GAATGAATTAA
55067 AACAAGGTGCACCCATAAAGTGTCGATCCATATAT--AAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
55130 CAAAAGTATAATGTAATATGT-ATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
*
55194 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAA
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAA
55258 ATAGGTAAAC
Statistics
Matches: 769, Mismatches: 10, Indels: 13
0.97 0.01 0.02
Matches are distributed among these distances:
589 30 0.04
590 124 0.16
592 37 0.05
593 267 0.35
594 241 0.31
595 70 0.09
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.32
Consensus pattern (593 bp):
AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
TAAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG
AACCCAAAAGTATAATGTATAAGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGA
GAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATG
AATTAAAAACAAGGTGCACCCATAAAGTGTCGATCCTATATAAAAAGTGTCGATCCCAAAATCAT
CGAACCCAAAGTATAATGTAATAAGTAATTTTTCAATCTAACCGGTACAATTATACCGATTTTAT
GAGAGAATATGTCTAAATAATGTGTCCACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAA
TGAATTAA
Found at i:55299 original size:23 final size:23
Alignment explanation
Indices: 55268--55331 Score: 83
Period size: 23 Copynumber: 2.8 Consensus size: 23
55258 ATAGGTAAAC
*
55268 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* * **
55291 ATATAATGTAATATGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
55314 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
55332 TGGTTATATT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.36, C:0.06, G:0.19, T:0.39
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:55338 original size:23 final size:23
Alignment explanation
Indices: 55268--55340 Score: 76
Period size: 23 Copynumber: 3.2 Consensus size: 23
55258 ATAGGTAAAC
* **
55268 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGTGCTT
* *
55291 ATATAATGTAATATGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
55314 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
55337 ATAT
1 ATAT
55341 TGTAAAGTGT
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
23 40 0.98
24 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.19, T:0.41
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:55746 original size:21 final size:23
Alignment explanation
Indices: 55696--55757 Score: 83
Period size: 21 Copynumber: 2.8 Consensus size: 23
55686 ATAGGTAAAC
*
55696 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* *
55719 ATATAATGTAATAGGTA-TCGTT
1 ATATAATGTAATAGGTAGCCCTT
55741 -TATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
55758 TGGTTATATT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
21 16 0.46
22 3 0.09
23 16 0.46
ACGTcount: A:0.35, C:0.06, G:0.21, T:0.37
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:55764 original size:21 final size:21
Alignment explanation
Indices: 55720--55771 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
55710 GTAGCCCTTA
*
55720 TATAATGTAATAGGTATCGTT
1 TATAATGTAATAGGTATCGGT
55741 TATAATGTAATAGGTAGT-GGT
1 TATAATGTAATAGGTA-TCGGT
*
55762 TATATTGTAA
1 TATAATGTAA
55772 AGTGTCTATC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 27 0.96
22 1 0.04
ACGTcount: A:0.35, C:0.02, G:0.21, T:0.42
Consensus pattern (21 bp):
TATAATGTAATAGGTATCGGT
Found at i:56096 original size:21 final size:21
Alignment explanation
Indices: 56051--56096 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
56041 AAATTACATA
56051 ACTTTTAAAAAAGTATCGATC
1 ACTTTTAAAAAAGTATCGATC
*
56072 -CTTTTATAAAAAGTATGGA-C
1 ACTTTTA-AAAAAGTATCGATC
56092 ACTTT
1 ACTTT
56097 CAATATAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.39, C:0.13, G:0.11, T:0.37
Consensus pattern (21 bp):
ACTTTTAAAAAAGTATCGATC
Found at i:56145 original size:23 final size:23
Alignment explanation
Indices: 56114--56177 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
56104 ATAGGTAAAC
*
56114 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
56137 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
56160 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
56178 TGGTTATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:56184 original size:23 final size:23
Alignment explanation
Indices: 56114--56186 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
56104 ATAGGTAAAC
* **
56114 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGTGCTT
*
56137 ATATAATGTAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
56160 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
56183 ATAT
1 ATAT
56187 TGTAAAGTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
23 42 0.98
24 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:56190 original size:420 final size:429
Alignment explanation
Indices: 55257--56456 Score: 2271
Period size: 420 Copynumber: 2.8 Consensus size: 429
55247 CCCAGAATGA
*
55257 AATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATGTAATATGTATCGTTTATATAATG
1 AATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATGTAATAGGTATCGTTTATATAATG
55322 TAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCAC
66 TAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCAC
55387 TGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATA
131 TGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATA
55452 GGCGTCTAATGATTTATTTTTTACGTTACGATATATATATTATTAAATT-AAAATTCTAAATATT
196 GGCGTCTAATGATTTATTTTTTACGTTACGATATATATATTATTAAATTAAAAATTCTAAATATT
55516 ATTTTATAAAATATCAAAACAATCAAATAATTTTTGTGCAAATGAAATTATTAAATTAATATTGT
261 ATTTTATAAAATATCAAAACAATCAAATAATTTTTGTGCAAATGAAATTATTAAATTAATATTGT
55581 AGGTGGAAAACATGAAACACTGTTAAAAAAATTGAAACATAAATTACATAACTTTTAAAAAAAGT
326 AGGTGGAAAACATGAAACACTGTTAAAAAAATTGAAACATAAATTACATAACTTTTAAAAAAAGT
55646 ATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATAT
391 ATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATAT
55685 AATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATGTAATAGGTATCG-TT-TATAATG
1 AATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATGTAATAGGTATCGTTTATATAATG
55748 TAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCAC
66 TAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCAC
55813 TGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATA
131 TGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATA
55878 -G-G-CTAATGA-TTATTTTTTACGTTACGATATATATATTATTAAATTAAAAATTCT-AA-ATT
196 GGCGTCTAATGATTTATTTTTTACGTTACGATATATATATTATTAAATTAAAAATTCTAAATATT
55937 ATTTTATAAAATATCAAAACAATC-AATAATTTTTGTGCAAATGAAATTATTAAATTAATATTGT
261 ATTTTATAAAATATCAAAACAATCAAATAATTTTTGTGCAAATGAAATTATTAAATTAATATTGT
56001 AGGTGGAAAACATGAAACACTGTTAAAAAAATTGAAACATAAATTACATAACTTTT-AAAAAAGT
326 AGGTGGAAAACATGAAACACTGTTAAAAAAATTGAAACATAAATTACATAACTTTTAAAAAAAGT
56065 ATCGATCC-TTTTATAAAAAGTATGGACACTTTCAATAT
391 ATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATAT
56103 AATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATGTAATAGGTATCGTTTATATAATG
1 AATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATGTAATAGGTATCGTTTATATAATG
* *
56168 TAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATATTTTTTTCAA
66 TAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCAC
56233 TGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATA
131 TGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATA
56298 GGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTAAATAT
196 GGCGTCTAATGATTTATTTTTTACGTTACGATATATA-TATTATTAAATTAAAAATTCTAAATAT
56363 TATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATT
260 TATTTTATAAAATATCAAAACAATCAAATAA-TTTTTGTGCAAATGAAATTATTAAATTAATATT
56428 GTAGGTGGAAAACATGAAACACTGTTAAA
324 GTAGGTGGAAAACATGAAACACTGTTAAA
56457 GTATCGATCC
Statistics
Matches: 757, Mismatches: 3, Indels: 23
0.97 0.00 0.03
Matches are distributed among these distances:
418 84 0.11
419 18 0.02
420 231 0.31
421 28 0.04
422 39 0.05
423 22 0.03
424 25 0.03
425 22 0.03
426 139 0.18
427 29 0.04
428 58 0.08
429 62 0.08
ACGTcount: A:0.39, C:0.08, G:0.13, T:0.40
Consensus pattern (429 bp):
AATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATGTAATAGGTATCGTTTATATAATG
TAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCAC
TGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATA
GGCGTCTAATGATTTATTTTTTACGTTACGATATATATATTATTAAATTAAAAATTCTAAATATT
ATTTTATAAAATATCAAAACAATCAAATAATTTTTGTGCAAATGAAATTATTAAATTAATATTGT
AGGTGGAAAACATGAAACACTGTTAAAAAAATTGAAACATAAATTACATAACTTTTAAAAAAAGT
ATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATAT
Found at i:58970 original size:129 final size:129
Alignment explanation
Indices: 58730--58970 Score: 324
Period size: 129 Copynumber: 1.9 Consensus size: 129
58720 AATCTCAAAA
* * *
58730 ACATCGAAATCGATAATTACAATGTAATAGGTAAATTTACAATGTACCCGATAGAAATATACCAG
1 ACATCGAAACCGATAATTACAATGTAATACGTAAATTTACAATGTAACCGATAGAAATATACCAG
* * **
58795 TTTTATGAGAAAATAGGTAAACATATGTGTCGATACATTTTCTAAAAGTATCGACACATATGTT
66 TTTTATGAGAAAATAGGTAAACATATGTATCGACACAAATTCTAAAAGTATCGACACATATGTT
* * * **
58859 ACATCGAAACCGATAATTATAATGTAATACGTAAATTTACAATGTAACCGGTATAAATATA-TTG
1 ACATCGAAACCGATAATTACAATGTAATACGTAAATTTACAATGTAACCGATAGAAATATACCAG
* *
58923 ATTTTATGAGATAATAGGTCAACATAATGTATCGACACAAATT-TAAAA
66 -TTTTATGAGAAAATAGGTAAACAT-ATGTATCGACACAAATTCTAAAA
58971 AGTGTCGATA
Statistics
Matches: 96, Mismatches: 14, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
128 1 0.01
129 82 0.85
130 13 0.14
ACGTcount: A:0.43, C:0.12, G:0.14, T:0.31
Consensus pattern (129 bp):
ACATCGAAACCGATAATTACAATGTAATACGTAAATTTACAATGTAACCGATAGAAATATACCAG
TTTTATGAGAAAATAGGTAAACATATGTATCGACACAAATTCTAAAAGTATCGACACATATGTT
Found at i:59060 original size:329 final size:329
Alignment explanation
Indices: 58454--59157 Score: 1149
Period size: 329 Copynumber: 2.1 Consensus size: 329
58444 AGTAATAGGT
* * * * *
58454 AAAATATAACAGTTTAATGAGAGAATATGTAAATATATGTGTCGATACATTTTCTAAAAGTATCG
1 AAAATATACCAGTTTTATGAGAAAATAGGTAAACATATGTGTCGATACATTTTCTAAAAGTATCG
*
58519 ACACATATGTTACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATATAACCGGTAT
66 ACACATATGTTACATCGAAACCGATAATTATAATGTAATACGTAAATTTACAATATAACCGGTAT
*
58584 AAATATACCGGTTTTATAAGAGAATAGGTCAACATAATGTATCGACACAAATTTAAAAAGTGTCG
131 AAATATACCGATTTTATAAGAGAATAGGTCAACATAATGTATCGACACAAATTTAAAAAGTGTCG
*
58649 ATACATTTTGTCCAGAATGAATGTCAAACGAGGTGCACGCATAAAGTGTCGATACATTTATTAAA
196 ATACATTTTGTCCAGAATGAATGCCAAACGAGGTGCACGCATAAAGTGTCGATACATTTATTAAA
* * *
58714 AGTATCAATCTCAAAAACATCGAAATCGATAATTACAATGTAATAGGTAAATTTACAATGTACCC
261 AATATCAATCCCAAAAACATCGAAAACGATAATTACAATGTAATAGGTAAATTTACAATGTACCC
58779 GATA
326 GATA
*
58783 GAAATATACCAGTTTTATGAGAAAATAGGTAAACATATGTGTCGATACATTTTCTAAAAGTATCG
1 AAAATATACCAGTTTTATGAGAAAATAGGTAAACATATGTGTCGATACATTTTCTAAAAGTATCG
*
58848 ACACATATGTTACATCGAAACCGATAATTATAATGTAATACGTAAATTTACAATGTAACCGGTAT
66 ACACATATGTTACATCGAAACCGATAATTATAATGTAATACGTAAATTTACAATATAACCGGTAT
** * *
58913 AAATATATTGATTTTATGAGATAATAGGTCAACATAATGTATCGACACAAATTTAAAAAGTGTCG
131 AAATATACCGATTTTATAAGAGAATAGGTCAACATAATGTATCGACACAAATTTAAAAAGTGTCG
*
58978 ATACATTTTGTCCAGAATGAATGCCAAACGATGTGCACGCATAAAGTGTCGATACATTTATTAAA
196 ATACATTTTGTCCAGAATGAATGCCAAACGAGGTGCACGCATAAAGTGTCGATACATTTATTAAA
** * * *
59043 AATATTGATCCCAAAAACATCGAAAACGATAATTACAATGTAATATGTAAATTTACAATGTATCT
261 AATATCAATCCCAAAAACATCGAAAACGATAATTACAATGTAATAGGTAAATTTACAATGTACCC
*
59108 GGTA
326 GATA
* *
59112 AAAATATACC-GATTTTATGAGAAAATAGGTATACATAATGTATCGA
1 AAAATATACCAG-TTTTATGAGAAAATAGGTAAACAT-ATGTGTCGA
59158 CACGTTTTAA
Statistics
Matches: 346, Mismatches: 27, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
328 1 0.00
329 337 0.97
330 8 0.02
ACGTcount: A:0.42, C:0.13, G:0.15, T:0.30
Consensus pattern (329 bp):
AAAATATACCAGTTTTATGAGAAAATAGGTAAACATATGTGTCGATACATTTTCTAAAAGTATCG
ACACATATGTTACATCGAAACCGATAATTATAATGTAATACGTAAATTTACAATATAACCGGTAT
AAATATACCGATTTTATAAGAGAATAGGTCAACATAATGTATCGACACAAATTTAAAAAGTGTCG
ATACATTTTGTCCAGAATGAATGCCAAACGAGGTGCACGCATAAAGTGTCGATACATTTATTAAA
AATATCAATCCCAAAAACATCGAAAACGATAATTACAATGTAATAGGTAAATTTACAATGTACCC
GATA
Found at i:59317 original size:198 final size:199
Alignment explanation
Indices: 58859--59347 Score: 594
Period size: 200 Copynumber: 2.5 Consensus size: 199
58849 CACATATGTT
* **
58859 ACATCGAAACCGATAATTATAATGTAATACGTAAATTTACAATGTAACCGGTATAAATATATTGA
1 ACATCGAAACCGATAATTATAATGTAATACGTAAATTTACAATGTTACCGGTATAAATATACCGA
* *
58924 TTTTATGAGATAATAGGTCAACATAATGTATCGACACAAATTTAAAAAGTGTCGATACATTTTGT
66 TTTTATGAGAAAATAGGTCAACATAATGTATCGACACAAATTTAAAAAGTGTCAATACATTTTGT
* * * *
58989 CCAGAATGAATGCCAAACGATGTGCACGCATAAAGTGTCGATACATTTATTAAAAATATTGATCC
131 CCAGAATGAATGCCAAACGAGGTGCACACATAAAGTGTCGATACATTTA-TAAAAATATCGAACC
59054 CAAAA
195 CAAAA
* * * * *
59059 ACATCGAAAACGATAATTACAATGTAATATGTAAATTTACAATG-TATCTGGTAAAAATATACCG
1 ACATCGAAACCGATAATTATAATGTAATACGTAAATTTACAATGTTA-CCGGTATAAATATACCG
** ***
59123 ATTTTATGAGAAAATAGGT-ATACATAATGTATCGACAC-GTTTTAAGTTTGTGTCAATAC-TTT
65 ATTTTATGAGAAAATAGGTCA-ACATAATGTATCGACACAAATTTAA-AAAGTGTCAATACATTT
* * * * **
59185 TTTCCAGAATGAATGCCCAACGAGGTGCATACATAAAGTGTTGATACATTTA-AAATTGTATCGA
128 TGTCCAGAATGAATGCCAAACGAGGTGCACACATAAAGTGTCGATACATTTATAAA-AATATCGA
59249 ACCCAAAA
192 ACCCAAAA
* * *
59257 ACATCGAAACCGATAATTATAATGTAATAGGTAAATTTGCAATGTTACCGATATAAATATACCG-
1 ACATCGAAACCGATAATTATAATGTAATACGTAAATTTACAATGTTACCGGTATAAATATACCGA
* * * *
59321 GTTTAGTTAGAAAATAAGTCAATATAA
66 TTTTA-TGAGAAAATAGGTCAACATAA
59348 ACGCTACCTA
Statistics
Matches: 246, Mismatches: 36, Indels: 16
0.83 0.12 0.05
Matches are distributed among these distances:
197 7 0.03
198 82 0.33
199 59 0.24
200 98 0.40
ACGTcount: A:0.41, C:0.13, G:0.15, T:0.31
Consensus pattern (199 bp):
ACATCGAAACCGATAATTATAATGTAATACGTAAATTTACAATGTTACCGGTATAAATATACCGA
TTTTATGAGAAAATAGGTCAACATAATGTATCGACACAAATTTAAAAAGTGTCAATACATTTTGT
CCAGAATGAATGCCAAACGAGGTGCACACATAAAGTGTCGATACATTTATAAAAATATCGAACCC
AAAA
Found at i:59445 original size:87 final size:87
Alignment explanation
Indices: 59342--59503 Score: 281
Period size: 87 Copynumber: 1.9 Consensus size: 87
59332 AAATAAGTCA
* *
59342 ATATAAACGCTACCTATTACATTATATAAACGTTACCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAACGCTACCTATTACATTATATAAACGTTACCTAACATGTTATTGTACTTAATAATATTT
59407 CCGATTAAATACCTATTTTATT
66 CCGATTAAATACCTATTTTATT
59429 ATATAAGA-GCTACCTATTACATTATATAAACGTTACCTAACATGTTATTGTACTTAATAATATT
1 ATATAA-ACGCTACCTATTACATTATATAAACGTTACCTAACATGTTATTGTACTTAATAATATT
*
59493 TCCGGTTAAAT
65 TCCGATTAAAT
59504 GATATAACAT
Statistics
Matches: 71, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
87 70 0.99
88 1 0.01
ACGTcount: A:0.36, C:0.15, G:0.08, T:0.41
Consensus pattern (87 bp):
ATATAAACGCTACCTATTACATTATATAAACGTTACCTAACATGTTATTGTACTTAATAATATTT
CCGATTAAATACCTATTTTATT
Found at i:61135 original size:36 final size:36
Alignment explanation
Indices: 61063--61135 Score: 112
Period size: 36 Copynumber: 2.0 Consensus size: 36
61053 AGGGAGCTTG
*
61063 AAGATGGACCAGTGGCTGTGGTAGCAGTGTCGTCAT
1 AAGATGGACCAGTGGCTGTGGTAGCAGTGTCATCAT
*
61099 AAGATGGACCTGTGGCTGTGGTAGCAGTTGT-ATCAT
1 AAGATGGACCAGTGGCTGTGGTAGCAG-TGTCATCAT
61135 A
1 A
61136 TCCGGCATAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
36 31 0.91
37 3 0.09
ACGTcount: A:0.23, C:0.15, G:0.34, T:0.27
Consensus pattern (36 bp):
AAGATGGACCAGTGGCTGTGGTAGCAGTGTCATCAT
Found at i:61449 original size:24 final size:24
Alignment explanation
Indices: 61422--61473 Score: 95
Period size: 24 Copynumber: 2.2 Consensus size: 24
61412 ATAAGTGTCG
61422 TTATGAAAATATATCCGAGATTAA
1 TTATGAAAATATATCCGAGATTAA
*
61446 TTATGAAAATATGTCCGAGATTAA
1 TTATGAAAATATATCCGAGATTAA
61470 TTAT
1 TTAT
61474 ATATTTAGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.42, C:0.08, G:0.13, T:0.37
Consensus pattern (24 bp):
TTATGAAAATATATCCGAGATTAA
Found at i:67712 original size:14 final size:14
Alignment explanation
Indices: 67693--67729 Score: 74
Period size: 14 Copynumber: 2.6 Consensus size: 14
67683 AATTCTAAAC
67693 AAATTAATTTACTT
1 AAATTAATTTACTT
67707 AAATTAATTTACTT
1 AAATTAATTTACTT
67721 AAATTAATT
1 AAATTAATT
67730 ATTATTTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (14 bp):
AAATTAATTTACTT
Found at i:69076 original size:29 final size:29
Alignment explanation
Indices: 69024--69098 Score: 71
Period size: 29 Copynumber: 2.5 Consensus size: 29
69014 ATTTAATTCT
*
69024 AATTCTACTTATAATTCTATAATTCAAATTAC
1 AATTCTA-TT-TAATT-TTTAATTCAAATTAC
** *
69056 AATT-TATTTTAATTTTTAATTTTAATTAT
1 AATTCTA-TTTAATTTTTAATTCAAATTAC
69085 AATTCTATTTAATT
1 AATTCTATTTAATT
69099 ACAATTAAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
29 22 0.59
30 7 0.19
31 4 0.11
32 4 0.11
ACGTcount: A:0.37, C:0.08, G:0.00, T:0.55
Consensus pattern (29 bp):
AATTCTATTTAATTTTTAATTCAAATTAC
Found at i:69125 original size:31 final size:31
Alignment explanation
Indices: 69077--69135 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
69067 ATTTTTAATT
*
69077 TTAATTATAATTCTATTTAATTACAATTAAA
1 TTAATTATAAGTCTATTTAATTACAATTAAA
*
69108 TTAATTA-AAGTCATATTTAATTTCAATT
1 TTAATTATAAGTC-TATTTAATTACAATT
69136 TAACTATAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 4 0.16
31 21 0.84
ACGTcount: A:0.42, C:0.07, G:0.02, T:0.49
Consensus pattern (31 bp):
TTAATTATAAGTCTATTTAATTACAATTAAA
Found at i:69746 original size:21 final size:20
Alignment explanation
Indices: 69706--69747 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
69696 TGACCGTTTA
*
69706 TAGCCGTTGGGGATGATTTC
1 TAGCCGTTGGGAATGATTTC
*
69726 TAGCCGTTTGGGAATGTTTTC
1 TAGCCG-TTGGGAATGATTTC
69747 T
1 T
69748 CTACAAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.14, C:0.14, G:0.31, T:0.40
Consensus pattern (20 bp):
TAGCCGTTGGGAATGATTTC
Found at i:71015 original size:3 final size:3
Alignment explanation
Indices: 71009--71057 Score: 62
Period size: 3 Copynumber: 16.0 Consensus size: 3
70999 TTTACCCATT
* * *
71009 TTA TTA TTA TTA TAA TTA TTA TTA TAA TTA TTA TATA ATA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA
71055 TTA
1 TTA
71058 AAAAATAATA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
3 37 0.95
4 2 0.05
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:71026 original size:12 final size:12
Alignment explanation
Indices: 71011--71055 Score: 76
Period size: 12 Copynumber: 3.9 Consensus size: 12
71001 TACCCATTTT
71011 ATTATTATTATA
1 ATTATTATTATA
71023 ATTATTATTATA
1 ATTATTATTATA
71035 ATTATTA-TATA
1 ATTATTATTATA
71046 A-TATTATTAT
1 ATTATTATTAT
71056 TAAAAAATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
10 5 0.16
11 8 0.25
12 19 0.59
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (12 bp):
ATTATTATTATA
Found at i:76573 original size:15 final size:15
Alignment explanation
Indices: 76553--76584 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
76543 ATCAATACCT
76553 TTTTGCATACATGCA
1 TTTTGCATACATGCA
*
76568 TTTTGCATACATTCA
1 TTTTGCATACATGCA
76583 TT
1 TT
76585 ATTCATTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.25, C:0.19, G:0.09, T:0.47
Consensus pattern (15 bp):
TTTTGCATACATGCA
Found at i:83915 original size:11 final size:11
Alignment explanation
Indices: 83896--83970 Score: 91
Period size: 11 Copynumber: 6.5 Consensus size: 11
83886 ATTATGCTTG
83896 AAAAA-AAAGA
1 AAAAAGAAAGA
83906 AAAAAGAAAGA
1 AAAAAGAAAGA
83917 AAAAAGAAAGA
1 AAAAAGAAAGA
83928 AAAAA-AAAGAA
1 AAAAAGAAAG-A
83939 AGAAAAGAAAAAGA
1 A-AAAAG--AAAGA
83953 AAAAAGAAAAGA
1 AAAAAG-AAAGA
83965 AAAAAG
1 AAAAAG
83971 GGGGTCAAGG
Statistics
Matches: 59, Mismatches: 0, Indels: 10
0.86 0.00 0.14
Matches are distributed among these distances:
10 9 0.15
11 23 0.39
12 16 0.27
13 5 0.08
14 2 0.03
15 4 0.07
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (11 bp):
AAAAAGAAAGA
Found at i:83921 original size:18 final size:17
Alignment explanation
Indices: 83898--83968 Score: 90
Period size: 18 Copynumber: 3.9 Consensus size: 17
83888 TATGCTTGAA
83898 AAAAAAGAAAAAAGAAAG
1 AAAAAAGAAAAAA-AAAG
83916 AAAAAAGAAAGAAAAAA-
1 AAAAAAGAAA-AAAAAAG
83933 AAAGAAAGAAAAGAAAAAG
1 AAA-AAAGAAAA-AAAAAG
83952 AAAAAAGAAAAGAAAAA
1 AAAAAAGAAAA-AAAAA
83969 AGGGGGTCAA
Statistics
Matches: 49, Mismatches: 0, Indels: 8
0.86 0.00 0.14
Matches are distributed among these distances:
17 4 0.08
18 39 0.80
19 6 0.12
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (17 bp):
AAAAAAGAAAAAAAAAG
Found at i:83939 original size:25 final size:24
Alignment explanation
Indices: 83898--83970 Score: 96
Period size: 25 Copynumber: 3.0 Consensus size: 24
83888 TATGCTTGAA
83898 AAAAAAGAAAAAAGAAAGAAAAAAG
1 AAAAAA-AAAAAAGAAAGAAAAAAG
83923 AAAGAAAAAAAAAGAAAG--AAAAG
1 AAA-AAAAAAAAAGAAAGAAAAAAG
*
83946 AAAAAGAAAAAAGAAAAGAAAAAAG
1 AAAAAAAAAAAAG-AAAGAAAAAAG
83971 GGGGTCAAGG
Statistics
Matches: 43, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
22 9 0.21
23 12 0.28
25 19 0.44
26 3 0.07
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (24 bp):
AAAAAAAAAAAAGAAAGAAAAAAG
Found at i:83952 original size:36 final size:36
Alignment explanation
Indices: 83896--83969 Score: 116
Period size: 36 Copynumber: 2.1 Consensus size: 36
83886 ATTATGCTTG
83896 AAAAAAAAGAAAAAAGAAAGAAAAAAG-AAAGAAAA
1 AAAAAAAAGAAAAAAGAAAGAAAAAAGAAAAGAAAA
83931 AAAAAGAAAGAAAAGAA-AAAGAAAAAAGAAAAGAAAA
1 AAAAA-AAAGAAAA-AAGAAAGAAAAAAGAAAAGAAAA
83968 AA
1 AA
83970 GGGGGTCAAG
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
35 5 0.14
36 19 0.53
37 12 0.33
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (36 bp):
AAAAAAAAGAAAAAAGAAAGAAAAAAGAAAAGAAAA
Found at i:86375 original size:113 final size:113
Alignment explanation
Indices: 85985--86706 Score: 989
Period size: 113 Copynumber: 6.3 Consensus size: 113
85975 CAGCTTTTCC
* * * * ** *
85985 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTAAATTCATCATTTGATGGATTA
1 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGATTGAATTCATCATTCAATGGATCA
* * * * *
86050 ACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCATCTAAAGAAGGA
66 GCGTTTCCAGTTAGAGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGA
* ** * * **
86101 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACTTTTTTCTTAAATTCATCACTCGGTGGATCA
1 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGATTGAATTCATCATTCAATGGATCA
* * * *
86166 ACATTTCCAATTTGAGTTCATAATGAGAAGAACTCATCATCTGAAGAAGGA
66 GCGTTTCCAGTTAGAGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGA
* * *
86217 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTTGAATTCATGATTAAATGGATCA
1 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGATTGAATTCATCATTCAATGGATCA
*
86282 GCGTTTCCAGTTTGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
66 GCGTTTCCAGTTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
86330 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGATTGAATTCATCATTCAATGGATCA
1 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGATTGAATTCATCATTCAATGGATCA
* * *
86395 GTGTTACCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
66 GCGTTTCCAGTTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* **
86443 AGAAGAAGTTCATAATAAGAAGAACTTGTTCAACTTTTTGATTGAATTCATCATTTGATGGATCA
1 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGATTGAATTCATCATTCAATGGATCA
** * *
86508 GTTTTTCAAG--AGAAGTTCATAATGAGAAGAACTCATTTGAAGAAGGA
66 GCGTTTCCAGTTAG-AGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
*
86555 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACTTTTTGATTGAATTCATCATTCAATGGATCA
1 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGATTGAATTCATCATTCAATGGATCA
* * *
86620 GTGTTACCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
66 GCGTTTCCAGTTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
*
86668 AGAAGAAGTTCATAATAAGAAGAACTTGTTCAACTTTTT
1 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTT
86707 CATAATACGA
Statistics
Matches: 555, Mismatches: 48, Indels: 9
0.91 0.08 0.01
Matches are distributed among these distances:
111 1 0.00
112 101 0.18
113 261 0.47
114 2 0.00
116 190 0.34
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.31
Consensus pattern (113 bp):
AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGATTGAATTCATCATTCAATGGATCA
GCGTTTCCAGTTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
Found at i:86595 original size:225 final size:224
Alignment explanation
Indices: 85985--86706 Score: 1041
Period size: 225 Copynumber: 3.2 Consensus size: 224
85975 CAGCTTTTCC
* * * * * *
85985 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTAAATTCATCATTTGATGGATTA
1 AGAAGAAGTTCATAATAAGAAGAACTTGTTCAACTTTTTGATTGAATTCATCATTTGATGGATCA
* * *
86050 ACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCATCTAAAGAAGGAAGAAGAAGTTCATA
66 GCATTTCCAGG-A-AGTTCATAATGAGAAGAACTCAT--T-TGAAGAAGGAAGAAGAAGTTCATA
** * * ** *** * * *
86115 ATGAGAAGAATTTGTTCAACTTTTTTCTTAAATTCATCACTCGGTGGATCAACATTTCCAATTTG
126 ATGAGAAGAATTTGTTCAACTTTTTGATTGAATTCATCATTCAATGGATCAGTGTTACCAGTTCG
86180 AGTTCATAATGAGAAGAACTCATCATCTGAAGAAGGA
191 AGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGA
* * * **
86217 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTTGAATTCATGATTAAATGGATCA
1 AGAAGAAGTTCATAATAAGAAGAACTTGTTCAACTTTTTGATTGAATTCATCATTTGATGGATCA
* *
86282 GCGTTTCCAGTTTG-AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAT
66 GCATTTCCAG---GAAGTTCATAATGAGAAGAACTCATTTGAAGAAGGAAGAAGAAGTTCATAAT
*
86346 GAGAAGAACTTGTTCAACTTTTTGATTGAATTCATCATTCAATGGATCAGTGTTACCAGTTCGAG
128 GAGAAGAATTTGTTCAACTTTTTGATTGAATTCATCATTCAATGGATCAGTGTTACCAGTTCGAG
86411 TTCATAATGAGAAGAACTCATCTGAAGAAGGA
193 TTCATAATGAGAAGAACTCATCTGAAGAAGGA
86443 AGAAGAAGTTCATAATAAGAAGAACTTGTTCAACTTTTTGATTGAATTCATCATTTGATGGATCA
1 AGAAGAAGTTCATAATAAGAAGAACTTGTTCAACTTTTTGATTGAATTCATCATTTGATGGATCA
** *
86508 GTTTTTCAAGAGAAGTTCATAATGAGAAGAACTCATTTGAAGAAGGAAGAAGAAGTTCATAATGA
66 GCATTTCCAG-GAAGTTCATAATGAGAAGAACTCATTTGAAGAAGGAAGAAGAAGTTCATAATGA
86573 GAAGAATTTGTTCAACTTTTTGATTGAATTCATCATTCAATGGATCAGTGTTACCAGTTCGAGTT
130 GAAGAATTTGTTCAACTTTTTGATTGAATTCATCATTCAATGGATCAGTGTTACCAGTTCGAGTT
86638 CATAATGAGAAGAACTCATCTGAAGAAGGA
195 CATAATGAGAAGAACTCATCTGAAGAAGGA
86668 AGAAGAAGTTCATAATAAGAAGAACTTGTTCAACTTTTT
1 AGAAGAAGTTCATAATAAGAAGAACTTGTTCAACTTTTT
86707 CATAATACGA
Statistics
Matches: 449, Mismatches: 37, Indels: 15
0.90 0.07 0.03
Matches are distributed among these distances:
224 1 0.00
225 184 0.41
226 82 0.18
227 1 0.00
229 93 0.21
232 87 0.19
235 1 0.00
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.31
Consensus pattern (224 bp):
AGAAGAAGTTCATAATAAGAAGAACTTGTTCAACTTTTTGATTGAATTCATCATTTGATGGATCA
GCATTTCCAGGAAGTTCATAATGAGAAGAACTCATTTGAAGAAGGAAGAAGAAGTTCATAATGAG
AAGAATTTGTTCAACTTTTTGATTGAATTCATCATTCAATGGATCAGTGTTACCAGTTCGAGTTC
ATAATGAGAAGAACTCATCTGAAGAAGGA
Found at i:88968 original size:18 final size:19
Alignment explanation
Indices: 88921--88968 Score: 66
Period size: 18 Copynumber: 2.7 Consensus size: 19
88911 GTTGGTTGCT
88921 TCAT-CTTCATCATTGGAG
1 TCATACTTCATCATTGGAG
*
88939 TCATA-TTTATCATTGGAG
1 TCATACTTCATCATTGGAG
88957 TCA-ACTTCATCA
1 TCATACTTCATCA
88969 CTCCAAGCTG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
17 1 0.04
18 25 0.96
ACGTcount: A:0.27, C:0.21, G:0.12, T:0.40
Consensus pattern (19 bp):
TCATACTTCATCATTGGAG
Found at i:90844 original size:65 final size:66
Alignment explanation
Indices: 90774--90926 Score: 172
Period size: 65 Copynumber: 2.4 Consensus size: 66
90764 CTTGGGGTGT
* * **
90774 ATCGGTACACT-AATTACATTCGATATTTCAA-AATAGCCAG-GAGTGCATCGATGCATGGTCTG
1 ATCGGTACACTAAAATACATTCGATATTTCAATAA-AACC-GTGAACGCATCGATGCATGGTCTG
90836 TGC
64 TGC
* * * *
90839 ATCGGTACA-TAAAATGCATTCGATGTTTCAATAAAATCGTGAACGCATCGATGCATGGTTTGTG
1 ATCGGTACACTAAAATACATTCGATATTTCAATAAAACCGTGAACGCATCGATGCATGGTCTGTG
90903 C
66 C
*
90904 ATCGGTACAC-AAAATGCATTCGA
1 ATCGGTACACTAAAATACATTCGA
90927 ATTAGGGTGT
Statistics
Matches: 76, Mismatches: 8, Indels: 8
0.83 0.09 0.09
Matches are distributed among these distances:
64 2 0.03
65 72 0.95
66 2 0.03
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (66 bp):
ATCGGTACACTAAAATACATTCGATATTTCAATAAAACCGTGAACGCATCGATGCATGGTCTGTG
C
Found at i:98553 original size:31 final size:31
Alignment explanation
Indices: 98518--98717 Score: 215
Period size: 31 Copynumber: 6.5 Consensus size: 31
98508 CAATGTCCAT
*
98518 GTGACCAAAACTTAACAAAACAATAACGTAA
1 GTGACCAAAACTTAATAAAACAATAACGTAA
* * *
98549 GTGACCAAAACTTAATCAAACGATAACATAA
1 GTGACCAAAACTTAATAAAACAATAACGTAA
* * *
98580 GTGACCAAAATTTAGTAAAACAATAACATAA
1 GTGACCAAAACTTAATAAAACAATAACGTAA
******* *
98611 GTGACCAAAACTT-ATGTTTTTTTAACGAAAA
1 GTGACCAAAACTTAATAAAACAATAACG-TAA
*
98642 GTGACCAAAACTTAATAAAACAATAACGCAA
1 GTGACCAAAACTTAATAAAACAATAACGTAA
*
98673 GTGACC-AAACTTTAATAAAACAATAATGTAA
1 GTGACCAAAAC-TTAATAAAACAATAACGTAA
98704 GTGACCAAAACTTA
1 GTGACCAAAACTTA
98718 TATTTTCAAA
Statistics
Matches: 136, Mismatches: 29, Indels: 8
0.79 0.17 0.05
Matches are distributed among these distances:
30 9 0.07
31 116 0.85
32 11 0.08
ACGTcount: A:0.51, C:0.17, G:0.10, T:0.23
Consensus pattern (31 bp):
GTGACCAAAACTTAATAAAACAATAACGTAA
Found at i:98677 original size:93 final size:92
Alignment explanation
Indices: 98547--98748 Score: 280
Period size: 93 Copynumber: 2.2 Consensus size: 92
98537 ACAATAACGT
* * * *
98547 AAGTGACCAAAACTTAATCAAACGATAACATAAGTGACCAAAATTTAGTAAAACAATAACATAAG
1 AAGTGACCAAAACTTAATAAAACAATAACACAAGTGACCAAAATTTAATAAAACAATAACATAAG
* **
98612 TGACCAAAACTTATGTTTTTTTAACGAA
66 TGACCAAAACTTAT-ATTTTCAAACGAA
* * **
98640 AAGTGACCAAAACTTAATAAAACAATAACGCAAGTGACCAAACTTTAATAAAACAATAATGTAAG
1 AAGTGACCAAAACTTAATAAAACAATAACACAAGTGACCAAAATTTAATAAAACAATAACATAAG
*
98705 TGACCAAAACTTATATTTTCAAAGGAA
66 TGACCAAAACTTATATTTTCAAACGAA
98732 AA-TGACCAAAACTTAAT
1 AAGTGACCAAAACTTAAT
98749 CCACGTATTG
Statistics
Matches: 97, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
91 15 0.15
92 11 0.11
93 71 0.73
ACGTcount: A:0.50, C:0.15, G:0.10, T:0.24
Consensus pattern (92 bp):
AAGTGACCAAAACTTAATAAAACAATAACACAAGTGACCAAAATTTAATAAAACAATAACATAAG
TGACCAAAACTTATATTTTCAAACGAA
Found at i:99355 original size:18 final size:18
Alignment explanation
Indices: 99313--99356 Score: 63
Period size: 17 Copynumber: 2.5 Consensus size: 18
99303 TCATGGAATG
*
99313 TAAGATTACCATTGAGAA
1 TAAGATTACCAGTGAGAA
*
99331 T-AGATTACCAGTGGGAA
1 TAAGATTACCAGTGAGAA
99348 TAAGATTAC
1 TAAGATTAC
99357 TGGGAATGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 15 0.65
18 8 0.35
ACGTcount: A:0.41, C:0.11, G:0.20, T:0.27
Consensus pattern (18 bp):
TAAGATTACCAGTGAGAA
Found at i:99566 original size:18 final size:19
Alignment explanation
Indices: 99517--99566 Score: 59
Period size: 17 Copynumber: 2.7 Consensus size: 19
99507 TACTATAATG
*
99517 AATTTATATATATTCTTTAA
1 AATTTATATA-ATTCTATAA
*
99537 AATTTTTA-AATTC-ATAA
1 AATTTATATAATTCTATAA
99554 AATTTATATAATT
1 AATTTATATAATT
99567 TTTTACAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 10 0.38
18 8 0.31
19 1 0.04
20 7 0.27
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (19 bp):
AATTTATATAATTCTATAA
Found at i:105666 original size:60 final size:60
Alignment explanation
Indices: 105545--105714 Score: 145
Period size: 60 Copynumber: 2.8 Consensus size: 60
105535 ATATTTATTT
* ** * ** * * *
105545 TAAATTAGTCCGTAAAC-TTTTAAACATTTTAATTTCCTTCTTAAAATACGA-CTATCATTC
1 TAAATTAGTCCCTAAACTTTTTAAACATTCCAATTT-CATCCCAAACTATGATCT-TCGTTC
*
105605 TAAATTCA-T-CCTCAAAC-TTTTAAACATTTCAA-TTCTATCCTCAAACTATGATCTTCGTTC
1 TAAATT-AGTCCCT-AAACTTTTTAAACATTCCAATTTC-ATCC-CAAACTATGATCTTCGTTC
*
105665 TAAATTAGTCCCTAAACTTTTTGAACATTCCAATTTCATCCCAAACTATG
1 TAAATTAGTCCCTAAACTTTTTAAACATTCCAATTTCATCCCAAACTATG
105715 TGTATATCCT
Statistics
Matches: 91, Mismatches: 10, Indels: 18
0.76 0.08 0.15
Matches are distributed among these distances:
58 1 0.01
59 7 0.08
60 57 0.63
61 23 0.25
62 3 0.03
ACGTcount: A:0.34, C:0.22, G:0.05, T:0.39
Consensus pattern (60 bp):
TAAATTAGTCCCTAAACTTTTTAAACATTCCAATTTCATCCCAAACTATGATCTTCGTTC
Done.