Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01012092.1 Kokia drynarioides strain JFW-HI SEQ_127091, 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: 300402
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.34
Warning! 195 characters in sequence are not A, C, G, or T
File 1 of 2
Found at i:23 original size:12 final size:12
Alignment explanation
Indices: 8--41 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
1 ATTACTG
8 TTATTATTAATA
1 TTATTATTAATA
20 TTATTATTAATA
1 TTATTATTAATA
*
32 ATATTTATTA
1 TTA-TTATTA
42 GGTTATAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 14 0.70
13 6 0.30
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
TTATTATTAATA
Found at i:923 original size:18 final size:18
Alignment explanation
Indices: 884--944 Score: 54
Period size: 17 Copynumber: 3.4 Consensus size: 18
874 AATAAGTTTT
* *
884 AAATTT-AAATATAAATC
1 AAATTTAAAATTTAAAAC
* *
901 TAAATTTAAATTTTTAAAC
1 -AAATTTAAAATTTAAAAC
*
920 AAA-TTAAAATTTAAAAT
1 AAATTTAAAATTTAAAAC
937 AAATTTAA
1 AAATTTAA
945 TCTTAAAATA
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
17 14 0.41
18 13 0.38
19 7 0.21
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.39
Consensus pattern (18 bp):
AAATTTAAAATTTAAAAC
Found at i:940 original size:17 final size:17
Alignment explanation
Indices: 901--957 Score: 53
Period size: 17 Copynumber: 3.3 Consensus size: 17
891 AATATAAATC
* *
901 TAAATTTAAATTTTTAAA
1 TAAA-TTAAAATTTAAAA
*
919 CAAATTAAAATTTAAAA
1 TAAATTAAAATTTAAAA
*
936 TAAATT-TAATCTTAAAA
1 TAAATTAAAAT-TTAAAA
953 TAAAT
1 TAAAT
958 CTTAAAAAAG
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
16 3 0.09
17 27 0.82
18 3 0.09
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (17 bp):
TAAATTAAAATTTAAAA
Found at i:6609 original size:25 final size:26
Alignment explanation
Indices: 6556--6605 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
6546 TTTGTTGTTT
* *
6556 TAATATTTTTAAGTGTATTTGATATA
1 TAATATTTTAAAATGTATTTGATATA
6582 TAATATTTTAAAAT-TATTT-ATATA
1 TAATATTTTAAAATGTATTTGATATA
6606 ATAAAATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 5 0.23
25 5 0.23
26 12 0.55
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (26 bp):
TAATATTTTAAAATGTATTTGATATA
Found at i:8880 original size:6 final size:6
Alignment explanation
Indices: 8869--8896 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
8859 CCAACTTCAA
8869 TGGTGT TGGTGT TGGTGT TGGTGT TGGT
1 TGGTGT TGGTGT TGGTGT TGGTGT TGGT
8897 ATTCATTGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (6 bp):
TGGTGT
Found at i:14578 original size:31 final size:31
Alignment explanation
Indices: 14543--14603 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
14533 ACAACCCAAT
14543 GACTTAAAT-AAGAACTTTTGAATAGTTTAGG
1 GACTTAAATGAA-AACTTTTGAATAGTTTAGG
*
14574 GACTTAAATGAAAATTTTTGAATAGTTTAG
1 GACTTAAATGAAAACTTTTGAATAGTTTAG
14604 TGATCAAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
31 26 0.93
32 2 0.07
ACGTcount: A:0.39, C:0.05, G:0.18, T:0.38
Consensus pattern (31 bp):
GACTTAAATGAAAACTTTTGAATAGTTTAGG
Found at i:15424 original size:69 final size:70
Alignment explanation
Indices: 15309--15448 Score: 219
Period size: 69 Copynumber: 2.0 Consensus size: 70
15299 AGTGACTTTG
* *
15309 AGTGTAATTTACTGATCTTAAAAAAAGCAGTGGAAACCCTCTTTTTTCGGTTTTTCACCAACTCA
1 AGTGTAATTTAC--ATCGTAAAAAAAGCAGTGGAAACCCTCATTTTTCGGTTTTTCACCAACTCA
15374 ACCAAGC
64 ACCAAGC
* *
15381 AGTGTAATTTAC-TCGTAAAAAAAGCAGTGTAAACCCTCATTTTTCGGTTTTTCACCAATTCAAC
1 AGTGTAATTTACATCGTAAAAAAAGCAGTGGAAACCCTCATTTTTCGGTTTTTCACCAACTCAAC
15445 CAAG
66 CAAG
15449 TTTTTCATTG
Statistics
Matches: 64, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
69 52 0.81
72 12 0.19
ACGTcount: A:0.33, C:0.21, G:0.14, T:0.32
Consensus pattern (70 bp):
AGTGTAATTTACATCGTAAAAAAAGCAGTGGAAACCCTCATTTTTCGGTTTTTCACCAACTCAAC
CAAGC
Found at i:19812 original size:11 final size:11
Alignment explanation
Indices: 19796--19836 Score: 82
Period size: 11 Copynumber: 3.7 Consensus size: 11
19786 ACCGCCACCG
19796 CCACGTCATCA
1 CCACGTCATCA
19807 CCACGTCATCA
1 CCACGTCATCA
19818 CCACGTCATCA
1 CCACGTCATCA
19829 CCACGTCA
1 CCACGTCA
19837 GACACGTGAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 30 1.00
ACGTcount: A:0.27, C:0.46, G:0.10, T:0.17
Consensus pattern (11 bp):
CCACGTCATCA
Found at i:20079 original size:21 final size:20
Alignment explanation
Indices: 20038--20079 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
20028 CCTGCAAGTG
* *
20038 AAAACACAAAGAGCAACAGA
1 AAAAAACAAAGAGCAAAAGA
20058 AAAAAACAAAGAGCCAAAAGA
1 AAAAAACAAAGAG-CAAAAGA
20079 A
1 A
20080 CAATATTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.69, C:0.17, G:0.14, T:0.00
Consensus pattern (20 bp):
AAAAAACAAAGAGCAAAAGA
Found at i:24916 original size:17 final size:17
Alignment explanation
Indices: 24876--24919 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 17
24866 CTGAAGAAAG
24876 CGAGAAGAAAGCGACCT
1 CGAGAAGAAAGCGACCT
* *
24893 CGGGAAGAAAGCGGCCT
1 CGAGAAGAAAGCGACCT
*
24910 CTAGAAGAAA
1 CGAGAAGAAA
24920 AAATGTTGAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.41, C:0.20, G:0.32, T:0.07
Consensus pattern (17 bp):
CGAGAAGAAAGCGACCT
Found at i:31772 original size:49 final size:49
Alignment explanation
Indices: 31620--32007 Score: 290
Period size: 49 Copynumber: 7.9 Consensus size: 49
31610 CACATTCTAC
* ** * *
31620 AGGGAAAGATTTAAGCAGCAACAACGAATCTAGTACCACGAAGATAATGT
1 AGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGAT-ATGA
* * * * *
31670 AGGGAAAGGTTTAAGTCGCAACGACGAATCTC-GTACCTTA-GAAG-CATGG
1 AGGGAAAGATTTAAGCCGCAACGGCGAATC-CAGTACC--ACGAAGATATGA
* * * *
31719 AGGGAAAGATTTAAGTCGTAACGGCGAATCCAGTACCGCGAAGATATAA
1 AGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGATATGA
* * *
31768 AGGGAAAGGTTTAAGCCGCAATGGCGAA-CCTTA-TACCAC-AGAGACATGA
1 AGGGAAAGATTTAAGCCGCAACGGCGAATCC--AGTACCACGA-AGATATGA
* *** * *
31817 AGAGAAAGATTTAAGCCGCAACAATGAATCCAGTACCACGAAGATGTTA
1 AGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGATATGA
* * * *
31866 AGGGAAAGGTTTAAGCCGTAACGGCGAA-CCTAGTACCTC-AA-AAATGA
1 AGGGAAAGATTTAAGCCGCAACGGCGAATCC-AGTACCACGAAGATATGA
* * * * *** * *
31913 AGTGAAAGATTCAAGCCGCAACGGTGAATCTAGTACCGTAAAGACATAA
1 AGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGATATGA
* * *
31962 AAGGAAAGATTTAAGCCGCAATGGTGAATCCAGTACCACGAAGATA
1 AGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGATA
32008 CAAAGAGAAG
Statistics
Matches: 263, Mismatches: 59, Indels: 33
0.74 0.17 0.09
Matches are distributed among these distances:
47 32 0.12
48 16 0.06
49 175 0.67
50 35 0.13
51 4 0.02
52 1 0.00
ACGTcount: A:0.39, C:0.18, G:0.24, T:0.18
Consensus pattern (49 bp):
AGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGATATGA
Found at i:31846 original size:98 final size:97
Alignment explanation
Indices: 31623--31982 Score: 346
Period size: 98 Copynumber: 3.7 Consensus size: 97
31613 ATTCTACAGG
* * ** *
31623 GAAAGATTTAAGCAGCAACAACGAATCTAGTACCACGAAGATAATGTAGGGAAAGGTTTAAGTCG
1 GAAAGATTTAAGCCGCAACAACGAATCCAGTACCACGAAGAT-ATAAAGGGAAAGGTTTAAGCCG
* * ** * * *
31688 CAACGACGAATCTCGTACCTTAGAAGCATGGAGG
65 CAACGGCGAACCTTATACCTCAGAA-CATGAAGA
* * ** *
31722 GAAAGATTTAAGTCGTAACGGCGAATCCAGTACCGCGAAGATATAAAGGGAAAGGTTTAAGCCGC
1 GAAAGATTTAAGCCGCAACAACGAATCCAGTACCACGAAGATATAAAGGGAAAGGTTTAAGCCGC
* *
31787 AATGGCGAACCTTATACCACAGAGACATGAAGA
66 AACGGCGAACCTTATACCTCAGA-ACATGAAGA
* * * *
31820 GAAAGATTTAAGCCGCAACAATGAATCCAGTACCACGAAGATGTTAAGGGAAAGGTTTAAGCCGT
1 GAAAGATTTAAGCCGCAACAACGAATCCAGTACCACGAAGATATAAAGGGAAAGGTTTAAGCCGC
* *
31885 AACGGCGAACC-TAGTACCTCA-AAAATGAAGT
66 AACGGCGAACCTTA-TACCTCAGAACATGAAGA
* *** * *** * * *
31916 GAAAGATTCAAGCCGCAACGGTGAATCTAGTACCGTAAAGACATAAAAGGAAAGATTTAAGCCGC
1 GAAAGATTTAAGCCGCAACAACGAATCCAGTACCACGAAGATATAAAGGGAAAGGTTTAAGCCGC
31981 AA
66 AA
31983 TGGTGAATCC
Statistics
Matches: 214, Mismatches: 45, Indels: 7
0.80 0.17 0.03
Matches are distributed among these distances:
96 61 0.29
97 3 0.01
98 114 0.53
99 36 0.17
ACGTcount: A:0.40, C:0.18, G:0.24, T:0.18
Consensus pattern (97 bp):
GAAAGATTTAAGCCGCAACAACGAATCCAGTACCACGAAGATATAAAGGGAAAGGTTTAAGCCGC
AACGGCGAACCTTATACCTCAGAACATGAAGA
Found at i:32115 original size:49 final size:49
Alignment explanation
Indices: 31916--32129 Score: 166
Period size: 49 Copynumber: 4.4 Consensus size: 49
31906 AAAATGAAGT
* **
31916 GAAAGATTCAAGCCGCAACGGTGAATCTAGTACCGTAAAGACATAAAAG
1 GAAAGATTCAAGCCACAACGGTGAATCTAGTACCGCGAAGACATAAAAG
* * * * *
31965 GAAAGATTTAAGCCGCAATGGTGAATCCAGTACCACGAAG--ATACAAAG
1 GAAAGATTCAAGCCACAACGGTGAATCTAGTACCGCGAAGACATA-AAAG
* * * * * * * ** *
32013 AGAAGGGTTTAAGTCACAACGGTGAA-CTTTGTACCTC-AAAAGCACGAAGG
1 -GAAAGATTCAAGCCACAACGGTGAATC-TAGTACCGCGAAGA-CATAAAAG
* *
32063 GAAAAATTCAAGCCACAACGGCGAATCTAGTACCGCGAAGACATAAAAG
1 GAAAGATTCAAGCCACAACGGTGAATCTAGTACCGCGAAGACATAAAAG
* *
32112 GAAAGATTGAGGCCACAA
1 GAAAGATTCAAGCCACAA
32130 TGACAAATCT
Statistics
Matches: 124, Mismatches: 33, Indels: 16
0.72 0.19 0.09
Matches are distributed among these distances:
47 3 0.02
48 7 0.06
49 106 0.85
50 7 0.06
51 1 0.01
ACGTcount: A:0.42, C:0.19, G:0.23, T:0.16
Consensus pattern (49 bp):
GAAAGATTCAAGCCACAACGGTGAATCTAGTACCGCGAAGACATAAAAG
Found at i:32131 original size:147 final size:145
Alignment explanation
Indices: 31841--32131 Score: 375
Period size: 147 Copynumber: 2.0 Consensus size: 145
31831 GCCGCAACAA
*** * **
31841 TGAATCCAGTACCACGAAGATGTTAAGGGAAAGGTTTAAGCCGTAACGGCGAACCTAGTACCTCA
1 TGAATCCAGTACCACGAAGATACAAAGAGAAAGGTTTAAGCCACAACGGCGAACCTAGTACCTCA
* * * * * *
31906 AAAATGAAGTGAAAGATTCAAGCCGCAACGGTGAATCTAGTACCGTAAAGACATAAAAGGAAAGA
66 AAAACGAAGGGAAAAATTCAAGCCACAACGGCGAATCTAGTACCGCAAAGACATAAAAGGAAAGA
* *
31971 TTTAAGCCGCAATGG
131 TTGAAGCCACAATGG
* * * * *
31986 TGAATCCAGTACCACGAAGATACAAAGAGAAGGGTTTAAGTCACAACGGTGAACTTTGTACCTCA
1 TGAATCCAGTACCACGAAGATACAAAGAGAAAGGTTTAAGCCACAACGGCGAACCTAGTACCTCA
*
32051 AAAGCACGAAGGGAAAAATTCAAGCCACAACGGCGAATCTAGTACCGCGAAGACATAAAAGGAAA
66 AAA--ACGAAGGGAAAAATTCAAGCCACAACGGCGAATCTAGTACCGCAAAGACATAAAAGGAAA
*
32116 GATTGAGGCCACAATG
129 GATTGAAGCCACAATG
32132 ACAAATCTCA
Statistics
Matches: 123, Mismatches: 21, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
145 57 0.46
147 66 0.54
ACGTcount: A:0.40, C:0.19, G:0.24, T:0.17
Consensus pattern (145 bp):
TGAATCCAGTACCACGAAGATACAAAGAGAAAGGTTTAAGCCACAACGGCGAACCTAGTACCTCA
AAAACGAAGGGAAAAATTCAAGCCACAACGGCGAATCTAGTACCGCAAAGACATAAAAGGAAAGA
TTGAAGCCACAATGG
Found at i:32160 original size:147 final size:145
Alignment explanation
Indices: 31898--32160 Score: 323
Period size: 147 Copynumber: 1.8 Consensus size: 145
31888 GGCGAACCTA
* * * * * *
31898 GTACCTCAAAAATGAAGTGAAAGATTCAAGCCGCAACGGTGAATCTAGTACCGTAAAGACATAAA
1 GTACCTCAAAAACGAAGGGAAAAATTCAAGCCACAACGGCGAATCTAGTACCGCAAAGACATAAA
* * *** * * * *
31963 AGGAAAGATTTAAGCCGCAATGGTGAATCCAGTACCACGAAGATACAAAGAGAAGGGTTTAAGTC
66 AGGAAAGATTGAAGCCACAATGACAAATCCAGAACCACCAAAATAAAAAGAGAAGGGTTTAAGTC
32028 ACAACGGTGAACTTT
131 ACAACGGTGAACTTT
*
32043 GTACCTCAAAAGCACGAAGGGAAAAATTCAAGCCACAACGGCGAATCTAGTACCGCGAAGACATA
1 GTACCTCAAAA--ACGAAGGGAAAAATTCAAGCCACAACGGCGAATCTAGTACCGCAAAGACATA
*
32108 AAAGGAAAGATTGAGGCCACAATGACAAATCTCA-AACC-CCAAAATCAAAAAGA
64 AAAGGAAAGATTGAAGCCACAATGACAAATC-CAGAACCACCAAAAT-AAAAAGA
32161 AGCATATTAA
Statistics
Matches: 97, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
145 11 0.11
146 5 0.05
147 79 0.81
148 2 0.02
ACGTcount: A:0.43, C:0.20, G:0.21, T:0.16
Consensus pattern (145 bp):
GTACCTCAAAAACGAAGGGAAAAATTCAAGCCACAACGGCGAATCTAGTACCGCAAAGACATAAA
AGGAAAGATTGAAGCCACAATGACAAATCCAGAACCACCAAAATAAAAAGAGAAGGGTTTAAGTC
ACAACGGTGAACTTT
Found at i:32663 original size:15 final size:15
Alignment explanation
Indices: 32640--32680 Score: 73
Period size: 15 Copynumber: 2.7 Consensus size: 15
32630 CAGATCCAAT
*
32640 ACAAACCCAAAACCC
1 ACAAGCCCAAAACCC
32655 ACAAGCCCAAAACCC
1 ACAAGCCCAAAACCC
32670 ACAAGCCCAAA
1 ACAAGCCCAAA
32681 TCATAAACCC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.51, C:0.44, G:0.05, T:0.00
Consensus pattern (15 bp):
ACAAGCCCAAAACCC
Found at i:33055 original size:39 final size:39
Alignment explanation
Indices: 33012--33091 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
33002 AAAGAACATT
33012 ATTATTGTAATTTATTTTGGCTCTAAAAGGCCATTGCAA
1 ATTATTGTAATTTATTTTGGCTCTAAAAGGCCATTGCAA
33051 ATTATTGTAATTTATTTTGGCTCTAAAAGGCCATTGCAA
1 ATTATTGTAATTTATTTTGGCTCTAAAAGGCCATTGCAA
33090 AT
1 AT
33092 CTGTAAAACA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.31, C:0.12, G:0.15, T:0.41
Consensus pattern (39 bp):
ATTATTGTAATTTATTTTGGCTCTAAAAGGCCATTGCAA
Found at i:40214 original size:8 final size:8
Alignment explanation
Indices: 40203--40232 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
40193 TTTCTCTCCA
40203 TCTCGCCG
1 TCTCGCCG
40211 TCTCGCCG
1 TCTCGCCG
40219 TCTCGCCG
1 TCTCGCCG
40227 TCTCGC
1 TCTCGC
40233 GTGCGCTCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.00, C:0.50, G:0.23, T:0.27
Consensus pattern (8 bp):
TCTCGCCG
Found at i:46415 original size:58 final size:58
Alignment explanation
Indices: 46350--46476 Score: 148
Period size: 58 Copynumber: 2.2 Consensus size: 58
46340 TGTTAGGATT
* * * * *
46350 TCGGTGCATTAATG-ACAAATTGGTGCTTGTGTGAATCATTATGGAATGTTAGGAGATA
1 TCGGTGCATTAATGTAC-AACTGGCGCTTGTGCGAATAATTATCGAATGTTAGGAGATA
* * * *
46408 TCGGTGCATTTATGTTCAACTGGCGCTTGTGCGCATAATTATCGAGTGTTAGGAGATA
1 TCGGTGCATTAATGTACAACTGGCGCTTGTGCGAATAATTATCGAATGTTAGGAGATA
*
46466 TCGGTACATTA
1 TCGGTGCATTA
46477 TACTATTATT
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
58 56 0.98
59 1 0.02
ACGTcount: A:0.26, C:0.13, G:0.27, T:0.35
Consensus pattern (58 bp):
TCGGTGCATTAATGTACAACTGGCGCTTGTGCGAATAATTATCGAATGTTAGGAGATA
Found at i:50342 original size:172 final size:172
Alignment explanation
Indices: 50052--50401 Score: 594
Period size: 172 Copynumber: 2.0 Consensus size: 172
50042 TAATACATTA
*
50052 AAAATACTAAAAACATTCAAATAAATATTTTCCAACAACTTAAAAATAAATTTAAAAAATATGTA
1 AAAATACTAAAAACATTCAAATAAATATTTTCCAACAACTTAAAAATAAATTAAAAAAATATGTA
* *
50117 TAATTAAATAACACTAAGATAAGTACAACTTAATAAGTAAATGCTTCTAAAATAGTAACAAATAA
66 TAATTAAATAACACTAAGATAAGTACAACTTAACAAGTAAATGCTTCTAAAATAGAAACAAATAA
* * *
50182 ACAA-TAAAATAAGAGATATAAAATTTCCAAATAATAACAAT
131 ACAACAAAAACAAGAGATATAAAATATCCAAATAATAACAAT
50223 AAAATACTAAAAACATTCAAATAAATATTTTCCAACAACTTAAAAATAAATTAAAAAAAATATGT
1 AAAATACTAAAAACATTCAAATAAATATTTTCCAACAACTTAAAAATAAATT-AAAAAAATATGT
*
50288 ATAATTAAATAACACTAAGATAAGTACAACTTAACAAGTAAATGCTTTTAAAATAGAAACAAATA
65 ATAATTAAATAACACTAAGATAAGTACAACTTAACAAGTAAATGCTTCTAAAATAGAAACAAATA
* * *
50353 AACAACAAAAACAAGAGTTATATAATATCCAAATAATAATAAT
130 AACAACAAAAACAAGAGATATAAAATATCCAAATAATAACAAT
50396 AAAATA
1 AAAATA
50402 ATAGCAACAT
Statistics
Matches: 167, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
171 52 0.31
172 78 0.47
173 37 0.22
ACGTcount: A:0.58, C:0.11, G:0.05, T:0.27
Consensus pattern (172 bp):
AAAATACTAAAAACATTCAAATAAATATTTTCCAACAACTTAAAAATAAATTAAAAAAATATGTA
TAATTAAATAACACTAAGATAAGTACAACTTAACAAGTAAATGCTTCTAAAATAGAAACAAATAA
ACAACAAAAACAAGAGATATAAAATATCCAAATAATAACAAT
Found at i:50401 original size:11 final size:11
Alignment explanation
Indices: 50387--50436 Score: 55
Period size: 11 Copynumber: 4.5 Consensus size: 11
50377 ATATCCAAAT
50387 AATAATAATAA
1 AATAATAATAA
**
50398 AATAATAGCAA
1 AATAATAATAA
*
50409 CATAATAATAA
1 AATAATAATAA
**
50420 AATGGTAATAA
1 AATAATAATAA
50431 AATAAT
1 AATAAT
50437 GAGAAAACAA
Statistics
Matches: 29, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
11 29 1.00
ACGTcount: A:0.64, C:0.04, G:0.06, T:0.26
Consensus pattern (11 bp):
AATAATAATAA
Found at i:50455 original size:33 final size:33
Alignment explanation
Indices: 50392--50455 Score: 76
Period size: 33 Copynumber: 1.9 Consensus size: 33
50382 CAAATAATAA
* * * *
50392 TAATAAAATAATAGCAACATAATAATAAAATGG
1 TAATAAAATAATAGCAAAACAACAAGAAAATGG
50425 TAATAAAATAATGAG-AAAACAACAAGAAAAT
1 TAATAAAATAAT-AGCAAAACAACAAGAAAAT
50456 AACAGCAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
33 24 0.92
34 2 0.08
ACGTcount: A:0.64, C:0.06, G:0.09, T:0.20
Consensus pattern (33 bp):
TAATAAAATAATAGCAAAACAACAAGAAAATGG
Found at i:56292 original size:26 final size:28
Alignment explanation
Indices: 56234--56285 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 28
56224 CTTCGGTAAA
*
56234 ATATATTTAGTTTATAGATTTTTTAATC
1 ATATATTTAGTTTATAGAGTTTTTAATC
56262 A-ATATTTAGTTTAT-G-GTTTTTAAT
1 ATATATTTAGTTTATAGAGTTTTTAAT
56286 ATTATATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 8 0.35
26 1 0.04
27 13 0.57
28 1 0.04
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.58
Consensus pattern (28 bp):
ATATATTTAGTTTATAGAGTTTTTAATC
Found at i:61210 original size:19 final size:19
Alignment explanation
Indices: 61186--61223 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
61176 AATAATTAAA
*
61186 TTATTTAAAAAAATTATTT
1 TTATTTAAAAAAACTATTT
61205 TTATTTAAAAAAACTATTT
1 TTATTTAAAAAAACTATTT
61224 AAGTAACATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (19 bp):
TTATTTAAAAAAACTATTT
Found at i:61789 original size:20 final size:20
Alignment explanation
Indices: 61764--61801 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
61754 AAGACATGTG
61764 AAAAATAATAGAAGTATTAA
1 AAAAATAATAGAAGTATTAA
* *
61784 AAAAATTATAGAGGTATT
1 AAAAATAATAGAAGTATT
61802 TCCCGCATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.58, C:0.00, G:0.13, T:0.29
Consensus pattern (20 bp):
AAAAATAATAGAAGTATTAA
Found at i:65752 original size:3 final size:3
Alignment explanation
Indices: 65744--65810 Score: 98
Period size: 3 Copynumber: 22.3 Consensus size: 3
65734 ACCGTCTTAA
* * * *
65744 ATT ATT ATT ATT ATT ATT ATT ACT ACT ACT ACT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
65792 ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT A
65811 ATGTGTGTAT
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 62 1.00
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:66100 original size:31 final size:30
Alignment explanation
Indices: 66027--66103 Score: 82
Period size: 30 Copynumber: 2.5 Consensus size: 30
66017 AAAATTTTTA
* *
66027 AAAATTACAAATCAGTTACTAACGTTTATG
1 AAAAGTACAAATCAATTACTAACGTTTATG
* * * * *
66057 AAATGTATAAATCAATTATTAATGTTTTTG
1 AAAAGTACAAATCAATTACTAACGTTTATG
66087 AAAAGTAACAAATCAAT
1 AAAAGT-ACAAATCAAT
66104 CATTGAAGTT
Statistics
Matches: 37, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
30 28 0.76
31 9 0.24
ACGTcount: A:0.47, C:0.09, G:0.09, T:0.35
Consensus pattern (30 bp):
AAAAGTACAAATCAATTACTAACGTTTATG
Found at i:75020 original size:32 final size:32
Alignment explanation
Indices: 74952--75011 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
74942 AAAGGTATTG
*
74952 AAATTGAATATATAAATCGAATTATTTCTACA
1 AAATTAAATATATAAATCGAATTATTTCTACA
*
74984 AAATTAAATATATAAATTGAATT-TTTCT
1 AAATTAAATATATAAATCGAATTATTTCT
75012 TTTTAAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 5 0.19
32 21 0.81
ACGTcount: A:0.47, C:0.07, G:0.05, T:0.42
Consensus pattern (32 bp):
AAATTAAATATATAAATCGAATTATTTCTACA
Found at i:87120 original size:7 final size:7
Alignment explanation
Indices: 87110--87141 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
87100 GTAGGGACGG
87110 TTTTCTT
1 TTTTCTT
87117 TTTTCTT
1 TTTTCTT
87124 TTTTCTT
1 TTTTCTT
87131 TTTTCTT
1 TTTTCTT
87138 TTTT
1 TTTT
87142 TACACACATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTCTT
Found at i:89558 original size:18 final size:17
Alignment explanation
Indices: 89531--89581 Score: 57
Period size: 19 Copynumber: 2.8 Consensus size: 17
89521 AAATCAAATA
*
89531 TCTAATATTACATAATC
1 TCTAAGATTACATAATC
*
89548 TTCTAAGATTACAAGTTATC
1 -TCTAAGATTAC-A-TAATC
89568 TCTAAGATTACATA
1 TCTAAGATTACATA
89582 TATTTAAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
17 1 0.04
18 11 0.39
19 12 0.43
20 4 0.14
ACGTcount: A:0.39, C:0.16, G:0.06, T:0.39
Consensus pattern (17 bp):
TCTAAGATTACATAATC
Found at i:90333 original size:20 final size:21
Alignment explanation
Indices: 90297--90335 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
90287 TTCATTTTTA
90297 TTTACATATTTTCTTAAAACT
1 TTTACATATTTTCTTAAAACT
90318 TTTA-ATATTATT-TTAAAA
1 TTTACATATT-TTCTTAAAA
90336 AAGAAAGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (21 bp):
TTTACATATTTTCTTAAAACT
Found at i:103530 original size:16 final size:17
Alignment explanation
Indices: 103489--103534 Score: 51
Period size: 16 Copynumber: 2.7 Consensus size: 17
103479 TATACAAATG
103489 ATTAAAAAA-ATTCATTA
1 ATTAAAAAATATTCA-TA
*
103506 TTTATAAAAATATTCA-A
1 ATTA-AAAAATATTCATA
103523 ATTAAAAAATAT
1 ATTAAAAAATAT
103535 ACATTAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
16 8 0.32
17 7 0.28
18 5 0.20
19 5 0.20
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (17 bp):
ATTAAAAAATATTCATA
Found at i:103909 original size:51 final size:51
Alignment explanation
Indices: 103813--103910 Score: 126
Period size: 52 Copynumber: 1.9 Consensus size: 51
103803 AATAAAAAAT
* * * *
103813 ATTTTTTTTGTATTTATCATCTAATAACCTACATCACTTTTTTCAAATATA
1 ATTTTTTTTGTATTTATCATCCAATAACCTACACCACTATCTTCAAATATA
* *
103864 ATTTTTTTTGGTGTTTATCATCCAATAGCCTACACCA-TATCTTCAAA
1 ATTTTTTTT-GTATTTATCATCCAATAACCTACACCACTATCTTCAAA
103911 ATTTTAAAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
51 17 0.43
52 23 0.57
ACGTcount: A:0.30, C:0.18, G:0.05, T:0.47
Consensus pattern (51 bp):
ATTTTTTTTGTATTTATCATCCAATAACCTACACCACTATCTTCAAATATA
Found at i:103992 original size:38 final size:37
Alignment explanation
Indices: 103913--103994 Score: 96
Period size: 38 Copynumber: 2.2 Consensus size: 37
103903 TCTTCAAAAT
*
103913 TTTAAAAAATAATTAAATTTTAAATAATTAAAACATAA
1 TTTAAAAAATAATTAAATTTAAAATAATTAAAACA-AA
*
103951 TTTAAAAATTATAATTAAA-TTAAAATAATTAGAAAC-GA
1 TTTAAAAA--ATAATTAAATTTAAAATAATTA-AAACAAA
103989 TTTAAA
1 TTTAAA
103995 TACTTTTTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
38 15 0.38
39 11 0.28
40 13 0.33
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (37 bp):
TTTAAAAAATAATTAAATTTAAAATAATTAAAACAAA
Found at i:104230 original size:55 final size:55
Alignment explanation
Indices: 104086--104314 Score: 237
Period size: 55 Copynumber: 4.1 Consensus size: 55
104076 ATAATTTTAA
* * * * *
104086 ATTTTTAAATTTGAGATAGGTGATGTAGGTCATTAGGTGACAAGCACCAAAAAAAAT
1 ATTTTTAAATTTGAGAAAAGTGGTGTAGGTCATTAGGTGACAAACA-C-TAAAAAAT
* * * *
104143 ATTTTTAAATTTGAAAAAAATGGTGTAGGTCATTAAGTGACAAACACTTAAAAAT
1 ATTTTTAAATTTGAGAAAAGTGGTGTAGGTCATTAGGTGACAAACACTAAAAAAT
* * * *
104198 ATTTTTAAATTTGAGAAAAGTGGTATAAGTCATTGGGTGACAAACACTCAAAAAT
1 ATTTTTAAATTTGAGAAAAGTGGTGTAGGTCATTAGGTGACAAACACTAAAAAAT
* ** * *
104253 ATTTTTAAATTTGA-AAAATGTGATGTAGACCATTGGGT-AGCAAACATCCAAAAAAT
1 ATTTTTAAATTTGAGAAAA-GTGGTGTAGGTCATTAGGTGA-CAAACA-CTAAAAAAT
104309 ATTTTT
1 ATTTTT
104315 TTATTCGAAT
Statistics
Matches: 146, Mismatches: 23, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
54 5 0.03
55 88 0.60
56 14 0.10
57 39 0.27
ACGTcount: A:0.42, C:0.09, G:0.17, T:0.32
Consensus pattern (55 bp):
ATTTTTAAATTTGAGAAAAGTGGTGTAGGTCATTAGGTGACAAACACTAAAAAAT
Found at i:104786 original size:10 final size:10
Alignment explanation
Indices: 104742--104786 Score: 54
Period size: 10 Copynumber: 4.5 Consensus size: 10
104732 AGCAATTTAA
104742 TTTTTATTTT
1 TTTTTATTTT
* *
104752 CTTTTATGTT
1 TTTTTATTTT
* *
104762 CTTTAATTTT
1 TTTTTATTTT
104772 TTTTTATTTT
1 TTTTTATTTT
104782 TTTTT
1 TTTTT
104787 CATTCTCTTA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
10 29 1.00
ACGTcount: A:0.11, C:0.04, G:0.02, T:0.82
Consensus pattern (10 bp):
TTTTTATTTT
Found at i:107094 original size:29 final size:28
Alignment explanation
Indices: 107062--107133 Score: 78
Period size: 28 Copynumber: 2.6 Consensus size: 28
107052 GTTAACAGTT
*
107062 AAATATAAATTTTAAAATCTAAAGA-AAAA
1 AAATATAAATTTTAAAA-ATAAA-ATAAAA
*
107091 AAATA-AAATTTTTAAAAATAAAATATAA
1 AAATATAAA-TTTTAAAAATAAAATAAAA
107119 AAAT-TAAATTTTAAA
1 AAATATAAATTTTAAA
107134 TTTATAAAGA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
27 8 0.21
28 17 0.45
29 13 0.34
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.32
Consensus pattern (28 bp):
AAATATAAATTTTAAAAATAAAATAAAA
Found at i:107112 original size:28 final size:29
Alignment explanation
Indices: 107062--107153 Score: 75
Period size: 29 Copynumber: 3.1 Consensus size: 29
107052 GTTAACAGTT
*
107062 AAATATAAA-TTTTAAAATCTAAAGA-AAAA
1 AAATA-AAATTTTTAAAATATAAA-ATAAAA
*
107091 AAATAAAATTTTTAAAA-ATAAAATATAA
1 AAATAAAATTTTTAAAATATAAAATAAAA
* *
107119 AAATTAAA-TTTTAAATTTATAAAGAGTAAAA
1 AAATAAAATTTTTAAA-ATATAAA-A-TAAAA
107150 AAAT
1 AAAT
107154 TTATAATATA
Statistics
Matches: 52, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
27 8 0.15
28 17 0.33
29 18 0.35
30 1 0.02
31 8 0.15
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (29 bp):
AAATAAAATTTTTAAAATATAAAATAAAA
Found at i:113137 original size:16 final size:16
Alignment explanation
Indices: 113118--113151 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
113108 AACCCATCTC
113118 ATTTTTGTA-ATTATTT
1 ATTTTT-TATATTATTT
113134 ATTTTTTATATTATTT
1 ATTTTTTATATTATTT
113150 AT
1 AT
113152 GTAAACAAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 2 0.12
16 15 0.88
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (16 bp):
ATTTTTTATATTATTT
Found at i:123242 original size:29 final size:30
Alignment explanation
Indices: 123222--123292 Score: 99
Period size: 30 Copynumber: 2.4 Consensus size: 30
123212 TTTTGGATGC
*
123222 TCGGGAGTAAAACGGTAA-TTTTAGACACT
1 TCGGGAGTAAAACGGTAATTTTTAGATACT
* *
123251 TCGGGTGTAAAATGGTAATTTTTAGATACT
1 TCGGGAGTAAAACGGTAATTTTTAGATACT
*
123281 TCGGGGGTAAAA
1 TCGGGAGTAAAA
123293 ACATAATTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
29 16 0.43
30 21 0.57
ACGTcount: A:0.32, C:0.10, G:0.27, T:0.31
Consensus pattern (30 bp):
TCGGGAGTAAAACGGTAATTTTTAGATACT
Found at i:123300 original size:30 final size:30
Alignment explanation
Indices: 123240--123303 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
123230 AAAACGGTAA
* ***
123240 TTTTAGACACTTCGGGTGTAAAATGGTAAT
1 TTTTAGACACTTCGGGGGTAAAAACATAAT
*
123270 TTTTAGATACTTCGGGGGTAAAAACATAAT
1 TTTTAGACACTTCGGGGGTAAAAACATAAT
123300 TTTT
1 TTTT
123304 GCAAAGTTTA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.39
Consensus pattern (30 bp):
TTTTAGACACTTCGGGGGTAAAAACATAAT
Found at i:123361 original size:58 final size:59
Alignment explanation
Indices: 123296--123744 Score: 422
Period size: 58 Copynumber: 7.7 Consensus size: 59
123286 GGTAAAAACA
* * * * *
123296 TAATTTTTGCAAAGTTTAGGGTCAAAAAT-GTATTTTTAGACATTTGAAGGTAAAATGG
1 TAATTTTTGGAAAGTTTGGGGTCAAAAATGGAATTTTTGGACATTTGAGGGTAAAATGG
* * * * *** * * *
123354 TAATTTTTGGAGA-TTTCGAGGTTAAAGACAAAATTTTTGGATATCT-AGGGGTAAAGTGG
1 TAATTTTTGGAAAGTTT-GGGGTCAAAAATGGAATTTTTGGACATTTGA-GGGTAAAATGG
* * * *
123413 TAATTTTTGGAAATTTTGGGGTAAAAAATGAAATTTTTGGATA-TTGAGGGGTAAAATGG
1 TAATTTTTGGAAAGTTTGGGGTCAAAAATGGAATTTTTGGACATTTGA-GGGTAAAATGG
* * *
123472 TAATTTTTGGAAAGTTT-AGGTCAAAAATGGAATTTTCGGACATTCG-GGAGTAAAATGG
1 TAATTTTTGGAAAGTTTGGGGTCAAAAATGGAATTTTTGGACATTTGAGG-GTAAAATGG
* *
123530 TAATTTTTGGAAAGTTTGGGGTCAAAAATGGAATTTTCGGACA-TTGAGGAATAAAATGG
1 TAATTTTTGGAAAGTTTGGGGTCAAAAATGGAATTTTTGGACATTTGAGG-GTAAAATGG
* **
123589 TAA-TTTTGGAAATTTTGGGGTCAAAAATGGAATTTTTGGACATCCGAGGGTAAAATGG
1 TAATTTTTGGAAAGTTTGGGGTCAAAAATGGAATTTTTGGACATTTGAGGGTAAAATGG
* * * * *
123647 TAATTTTTGG-AAGTTCGGGGTTAAAAAAGAAATTTTTGGAAAGTTTG-GGGTCAAAAT-G
1 TAATTTTTGGAAAGTTTGGGGTCAAAAATGGAATTTTTGGACA-TTTGAGGGT-AAAATGG
*
123705 TAATTTTTGG-AAGTTTAGGGGCCAAAATAT-G-ATTTTTGGA
1 TAATTTTTGGAAAGTTT-GGGGTCAAAA-ATGGAATTTTTGGA
123745 TAGTTTAGGG
Statistics
Matches: 326, Mismatches: 50, Indels: 30
0.80 0.12 0.07
Matches are distributed among these distances:
57 5 0.02
58 171 0.52
59 146 0.45
60 4 0.01
ACGTcount: A:0.34, C:0.05, G:0.26, T:0.35
Consensus pattern (59 bp):
TAATTTTTGGAAAGTTTGGGGTCAAAAATGGAATTTTTGGACATTTGAGGGTAAAATGG
Found at i:123525 original size:117 final size:117
Alignment explanation
Indices: 123296--123723 Score: 419
Period size: 117 Copynumber: 3.7 Consensus size: 117
123286 GGTAAAAACA
* * * * * * *
123296 TAATTTTTGCAAAGTTTAGGGTCAAAAATG-TATTTTTAGACATTTGA-AGGTAAAATGGTAATT
1 TAATTTTTGGAAAGTTTGGGGTAAAAAATGAAATTTTTGGA-AATTGAGGGGTAAAATGGTAATT
* * * *** * * * *
123359 TTTGGAGA-TTTCGAGGTTAAAGACAAAATTTTTGGATAT-CTAGGGGTAAAGTGG
65 TTTGGAAAGTTT--AGGTCAAAAATGGAATTTTCGGACATCCGA-GGGTAAAATGG
* *
123413 TAATTTTTGGAAATTTTGGGGTAAAAAATGAAATTTTTGGATATTGAGGGGTAAAATGGTAATTT
1 TAATTTTTGGAAAGTTTGGGGTAAAAAATGAAATTTTTGGAAATTGAGGGGTAAAATGGTAATTT
*
123478 TTGGAAAGTTTAGGTCAAAAATGGAATTTTCGGACATTCG-GGAGTAAAATGG
66 TTGGAAAGTTTAGGTCAAAAATGGAATTTTCGGACATCCGAGG-GTAAAATGG
* * * * **
123530 TAATTTTTGGAAAGTTTGGGGTCAAAAATGGAATTTTCGGACATTGAGGAATAAAATGGTAA-TT
1 TAATTTTTGGAAAGTTTGGGGTAAAAAATGAAATTTTTGGAAATTGAGGGGTAAAATGGTAATTT
* * *
123594 TTGGAAATTTTGGGGTCAAAAATGGAATTTTTGGACATCCGAGGGTAAAATGG
66 TTGGAAAGTTT-AGGTCAAAAATGGAATTTTCGGACATCCGAGGGTAAAATGG
* *
123647 TAATTTTTGG-AAGTTCGGGGTTAAAAAA-GAAATTTTTGGAAAGTT-TGGGGTCAAAAT-GTAA
1 TAATTTTTGGAAAGTTTGGGG-TAAAAAATGAAATTTTTGGAAA-TTGAGGGGT-AAAATGGTAA
123708 TTTTTGG-AAGTTTAGG
63 TTTTTGGAAAGTTTAGG
123724 GGCCAAAATA
Statistics
Matches: 260, Mismatches: 40, Indels: 24
0.80 0.12 0.07
Matches are distributed among these distances:
115 2 0.01
116 46 0.18
117 176 0.68
118 33 0.13
119 3 0.01
ACGTcount: A:0.34, C:0.04, G:0.26, T:0.35
Consensus pattern (117 bp):
TAATTTTTGGAAAGTTTGGGGTAAAAAATGAAATTTTTGGAAATTGAGGGGTAAAATGGTAATTT
TTGGAAAGTTTAGGTCAAAAATGGAATTTTCGGACATCCGAGGGTAAAATGG
Found at i:123752 original size:30 final size:29
Alignment explanation
Indices: 123677--123754 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 29
123667 TTAAAAAAGA
* *
123677 AATTTTTGGAAAGTTT-GGGGTCAAAATGT
1 AATTTTTGG-AAGTTTAGGGGCCAAAATAT
123706 AATTTTTGGAAGTTTAGGGGCCAAAATAT
1 AATTTTTGGAAGTTTAGGGGCCAAAATAT
*
123735 GATTTTTGGATAGTTTAGGG
1 AATTTTTGGA-AGTTTAGGG
123755 ACCTCTTGGG
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
28 6 0.14
29 29 0.66
30 9 0.20
ACGTcount: A:0.29, C:0.04, G:0.28, T:0.38
Consensus pattern (29 bp):
AATTTTTGGAAGTTTAGGGGCCAAAATAT
Found at i:125541 original size:17 final size:17
Alignment explanation
Indices: 125519--125575 Score: 87
Period size: 17 Copynumber: 3.4 Consensus size: 17
125509 AATTTAATGC
*
125519 TAAATTTATAATAAATT
1 TAAATTTAAAATAAATT
*
125536 TAAATTTAAAATAAACT
1 TAAATTTAAAATAAATT
*
125553 TAATTTTAAAATAAATT
1 TAAATTTAAAATAAATT
125570 TAAATT
1 TAAATT
125576 CTATTGAGCT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 35 1.00
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (17 bp):
TAAATTTAAAATAAATT
Found at i:125945 original size:24 final size:21
Alignment explanation
Indices: 125898--125958 Score: 63
Period size: 20 Copynumber: 2.8 Consensus size: 21
125888 TTGTATAAAA
125898 ATAAAA-TAAATTATTATATT
1 ATAAAATTAAATTATTATATT
125918 -TAAAATTAAATTAGTTATAACTT
1 ATAAAATTAAATTA-TTAT-A-TT
125941 ATAAAATATAAAATTATT
1 ATAAAAT-T-AAATTATT
125959 TGAATCGATT
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
19 5 0.15
20 7 0.21
21 4 0.12
22 1 0.03
23 2 0.06
24 6 0.18
25 3 0.09
26 6 0.18
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (21 bp):
ATAAAATTAAATTATTATATT
Found at i:126512 original size:27 final size:27
Alignment explanation
Indices: 126468--126524 Score: 71
Period size: 26 Copynumber: 2.1 Consensus size: 27
126458 TTATAGCACT
126468 TTTTTTTTCTAATAATATAG-CAAATA
1 TTTTTTTTCTAATAATATAGACAAATA
**
126494 TTTTTTTTCTTGTACATATAGATCAAATA
1 TTTTTTTTCTAATA-ATATAGA-CAAATA
126523 TT
1 TT
126525 ACTAATTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 12 0.46
27 6 0.23
29 8 0.31
ACGTcount: A:0.33, C:0.09, G:0.05, T:0.53
Consensus pattern (27 bp):
TTTTTTTTCTAATAATATAGACAAATA
Found at i:127730 original size:18 final size:18
Alignment explanation
Indices: 127678--127733 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
127668 GAATAATAAA
* *
127678 TTTTACATATATTTTAATT
1 TTTTAAATATA-TATAATT
* *
127697 ATTTTATATA-AAATAATT
1 -TTTTAAATATATATAATT
127715 TTTTAAATATATATAATT
1 TTTTAAATATATATAATT
127733 T
1 T
127734 ATACTTTTTA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
17 8 0.27
18 13 0.43
19 1 0.03
20 8 0.27
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (18 bp):
TTTTAAATATATATAATT
Found at i:144999 original size:33 final size:34
Alignment explanation
Indices: 144962--145037 Score: 90
Period size: 32 Copynumber: 2.3 Consensus size: 34
144952 TGTTAAAATT
144962 GTTATTTTTTATTAA-AT-TTAAGT-TAATTATAAA
1 GTTATTTTTTATTAATATATT-AGTGTAA-TATAAA
*
144995 GTTA-TTTTT-TTAATATATTAGTGTGATATAAA
1 GTTATTTTTTATTAATATATTAGTGTAATATAAA
145027 GTTATTTTTTA
1 GTTATTTTTTA
145038 ATTATATTGT
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
31 4 0.11
32 20 0.54
33 13 0.35
ACGTcount: A:0.34, C:0.00, G:0.09, T:0.57
Consensus pattern (34 bp):
GTTATTTTTTATTAATATATTAGTGTAATATAAA
Found at i:145058 original size:32 final size:32
Alignment explanation
Indices: 144990--145071 Score: 89
Period size: 32 Copynumber: 2.6 Consensus size: 32
144980 TAAGTTAATT
* * *
144990 ATAAAGTTATTTTTTTAA-TATATTAGTGTGAT
1 ATAAAGTTA-TTTTTTAATTATATTAGTATCAA
145022 ATAAAGTTATTTTTTAATTATATT-GTTATCAA
1 ATAAAGTTATTTTTTAATTATATTAG-TATCAA
*
145054 ATAAA-TAATTTTTTAATT
1 ATAAAGTTATTTTTTAATT
145072 TCAAAATGTT
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
31 21 0.48
32 23 0.52
ACGTcount: A:0.38, C:0.01, G:0.07, T:0.54
Consensus pattern (32 bp):
ATAAAGTTATTTTTTAATTATATTAGTATCAA
Found at i:149012 original size:6 final size:6
Alignment explanation
Indices: 148988--149062 Score: 77
Period size: 6 Copynumber: 13.0 Consensus size: 6
148978 TGCGCCTTTT
* *
148988 TTTAAA TTT-TA TTTAAA TTTGAA TTTAAA -TT-AA TCTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T-TTAAA TTTAAA
* *
149034 TTT-AA TTTAAA TTTAAA TTCAAA GTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
149063 AAGTCCAAAT
Statistics
Matches: 57, Mismatches: 7, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
4 2 0.04
5 11 0.19
6 41 0.72
7 3 0.05
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.49
Consensus pattern (6 bp):
TTTAAA
Found at i:149014 original size:23 final size:23
Alignment explanation
Indices: 148988--149062 Score: 82
Period size: 23 Copynumber: 3.3 Consensus size: 23
148978 TGCGCCTTTT
* *
148988 TTTAAATTTTATTTAAATTTGAA
1 TTTAAATTTAATTTAAATTTAAA
149011 TTTAAA-TTAATCTTAAATTTAAA
1 TTTAAATTTAAT-TTAAATTTAAA
*
149034 TTT-AATTTAAATTTAAATTCAAA
1 TTTAAATTT-AATTTAAATTTAAA
*
149057 GTTAAA
1 TTTAAA
149063 AAGTCCAAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
22 6 0.14
23 33 0.75
24 5 0.11
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.49
Consensus pattern (23 bp):
TTTAAATTTAATTTAAATTTAAA
Found at i:149020 original size:17 final size:16
Alignment explanation
Indices: 148988--149052 Score: 76
Period size: 17 Copynumber: 3.9 Consensus size: 16
148978 TGCGCCTTTT
* *
148988 TTTAAATTTTATTTAAA
1 TTTAAATTTAAATT-AA
*
149005 TTTGAATTTAAATTAA
1 TTTAAATTTAAATTAA
149021 TCTTAAATTTAAATTTAA
1 T-TTAAATTTAAA-TTAA
149039 TTTAAATTTAAATT
1 TTTAAATTTAAATT
149053 CAAAGTTAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
16 5 0.12
17 32 0.76
18 5 0.12
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (16 bp):
TTTAAATTTAAATTAA
Found at i:149061 original size:12 final size:11
Alignment explanation
Indices: 148988--149062 Score: 62
Period size: 11 Copynumber: 6.5 Consensus size: 11
148978 TGCGCCTTTT
**
148988 TTTAAATTTTA
1 TTTAAATTAAA
*
148999 TTTAAATTTGAA
1 TTTAAA-TTAAA
149011 TTTAAATT-AA
1 TTTAAATTAAA
149021 TCTTAAATTTAAA
1 T-TTAAA-TTAAA
*
149034 TTTAATTTAAA
1 TTTAAATTAAA
149045 TTTAAATTCAAA
1 TTTAAATT-AAA
*
149057 GTTAAA
1 TTTAAA
149063 AAGTCCAAAT
Statistics
Matches: 54, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
10 3 0.06
11 25 0.46
12 23 0.43
13 3 0.06
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.49
Consensus pattern (11 bp):
TTTAAATTAAA
Found at i:149121 original size:15 final size:16
Alignment explanation
Indices: 149087--149123 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
149077 AATTACATAA
149087 CCCAAATTACAAATGG
1 CCCAAATTACAAATGG
149103 CCCAAATT-CGAAA-GG
1 CCCAAATTAC-AAATGG
149118 CCCAAA
1 CCCAAA
149124 CTTTACACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 9 0.45
16 11 0.55
ACGTcount: A:0.43, C:0.30, G:0.14, T:0.14
Consensus pattern (16 bp):
CCCAAATTACAAATGG
Found at i:150894 original size:29 final size:29
Alignment explanation
Indices: 150855--151072 Score: 241
Period size: 29 Copynumber: 7.5 Consensus size: 29
150845 AAGCTGTCCA
* *
150855 AAAAATC-CATTTTTACCCCCAAACTTCC
1 AAAAATCTCATTTTTAGCCCCGAACTTCC
150883 AAAAATCTCATTTTTAGCCCCGAACTTCC
1 AAAAATCTCATTTTTAGCCCCGAACTTCC
*
150912 AAAAATCTCATTTTT-GACCCCAAAACTTCC
1 AAAAATCTCATTTTTAG-CCCC-GAACTTCC
*
150942 CAAAAT-TCTATTTTTAGCCCCGAACTTCC
1 AAAAATCTC-ATTTTTAGCCCCGAACTTCC
*
150971 AAAAAT-TCCATTTTTAGCCCTGAACTTCC
1 AAAAATCT-CATTTTTAGCCCCGAACTTCC
* *
151000 AAAAATCCCATTTTT-GACCTCGAAACTTCC
1 AAAAATCTCATTTTTAG-CCCCG-AACTTCC
* *
151030 CAAAAT-TCCATTTTTAGCCTCGAACTTCC
1 AAAAATCT-CATTTTTAGCCCCGAACTTCC
*
151059 AAAAATTTCATTTT
1 AAAAATCTCATTTT
151073 CGACTTCGAA
Statistics
Matches: 165, Mismatches: 13, Indels: 23
0.82 0.06 0.11
Matches are distributed among these distances:
28 9 0.05
29 106 0.64
30 48 0.29
31 2 0.01
ACGTcount: A:0.33, C:0.29, G:0.05, T:0.33
Consensus pattern (29 bp):
AAAAATCTCATTTTTAGCCCCGAACTTCC
Found at i:150955 original size:59 final size:58
Alignment explanation
Indices: 150855--151072 Score: 232
Period size: 59 Copynumber: 3.7 Consensus size: 58
150845 AAGCTGTCCA
*
150855 AAAAATC-CATTTTTACCCCCAAACTTCCAAAAATCTCATTTTTAGCCCCGAACTTCC
1 AAAAATCTCATTTTTACCCCAAAACTTCCAAAAATCTCATTTTTAGCCCCGAACTTCC
*
150912 AAAAATCTCATTTTTGACCCCAAAACTTCCCAAAAT-TCTATTTTTAGCCCCGAACTTCC
1 AAAAATCTCATTTTT-ACCCCAAAACTTCCAAAAATCTC-ATTTTTAGCCCCGAACTTCC
* ** * *
150971 AAAAAT-TCCATTTTTAGCCCTGAACTTCCAAAAATCCCATTTTT-GACCTCGAAACTTCC
1 AAAAATCT-CATTTTTACCCCAAAACTTCCAAAAATCTCATTTTTAG-CCCCG-AACTTCC
* * * *
151030 CAAAAT-TCCATTTTTAGCCTC-GAACTTCCAAAAATTTCATTTT
1 AAAAATCT-CATTTTTA-CCCCAAAACTTCCAAAAATCTCATTTT
151073 CGACTTCGAA
Statistics
Matches: 140, Mismatches: 13, Indels: 14
0.84 0.08 0.08
Matches are distributed among these distances:
57 8 0.06
58 36 0.26
59 94 0.67
60 2 0.01
ACGTcount: A:0.33, C:0.29, G:0.05, T:0.33
Consensus pattern (58 bp):
AAAAATCTCATTTTTACCCCAAAACTTCCAAAAATCTCATTTTTAGCCCCGAACTTCC
Found at i:150972 original size:88 final size:87
Alignment explanation
Indices: 150855--151072 Score: 328
Period size: 88 Copynumber: 2.5 Consensus size: 87
150845 AAGCTGTCCA
* * * *
150855 AAAAATCCATTTTTACCCCCAAACTTCCAAAAATCTCATTTTTAGCCCCGAACTTCCAAAAATCT
1 AAAATTCCATTTTTAGCCCCGAACTTCCAAAAAT-TCATTTTTAGCCCCGAACTTCCAAAAATCC
150920 CATTTTTGACCCCAAAACTTCCC
65 CATTTTTGACCCCAAAACTTCCC
* *
150943 AAAATTCTATTTTTAGCCCCGAACTTCCAAAAATTCCATTTTTAGCCCTGAACTTCCAAAAATCC
1 AAAATTCCATTTTTAGCCCCGAACTTCCAAAAATT-CATTTTTAGCCCCGAACTTCCAAAAATCC
* *
151008 CATTTTTGACCTCGAAACTTCCC
65 CATTTTTGACCCCAAAACTTCCC
*
151031 AAAATTCCATTTTTAGCCTCGAACTTCCAAAAATTTCATTTT
1 AAAATTCCATTTTTAGCCCCGAACTTCCAAAAA-TTCATTTT
151073 CGACTTCGAA
Statistics
Matches: 118, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
87 1 0.01
88 115 0.97
89 2 0.02
ACGTcount: A:0.33, C:0.29, G:0.05, T:0.33
Consensus pattern (87 bp):
AAAATTCCATTTTTAGCCCCGAACTTCCAAAAATTCATTTTTAGCCCCGAACTTCCAAAAATCCC
ATTTTTGACCCCAAAACTTCCC
Found at i:151088 original size:30 final size:29
Alignment explanation
Indices: 150851--151162 Score: 203
Period size: 29 Copynumber: 10.6 Consensus size: 29
150841 CTCTAAGCTG
* * * *
150851 TCCAAAAAATCCATTTTTACCCCCAAACT
1 TCCAAAAATTCCATTTTGACCTCGAAACT
* *
150880 TCCAAAAA-TCTCATTTTTAGCCCCG-AACT
1 TCCAAAAATTC-CATTTTGA-CCTCGAAACT
* *
150909 TCCAAAAA-TCTCATTTTTGACCCCAAAACT
1 TCCAAAAATTC-CA-TTTTGACCTCGAAACT
* * * *
150939 TCCCAAAATTCTATTTTTAGCCCCG-AACT
1 TCCAAAAATTCCATTTTGA-CCTCGAAACT
*
150968 TCCAAAAATTCCATTTTTAGCC-CTG-AACT
1 TCCAAAAATTCCATTTTGA-CCTC-GAAACT
*
150997 TCCAAAAATCCCATTTTTGACCTCGAAACT
1 TCCAAAAATTCCA-TTTTGACCTCGAAACT
* *
151027 TCCCAAAATTCCATTTTTAGCCTCG-AACT
1 TCCAAAAATTCCATTTTGA-CCTCGAAACT
* *
151056 TCCAAAAATTTCATTTTCGACTTCGAAACT
1 TCCAAAAATTCCATTTT-GACCTCGAAACT
* * *
151086 TCCTAAAATTACCATTTT-ACCCCCG-GA-T
1 TCCAAAAATT-CCATTTTGA-CCTCGAAACT
* *
151114 GTCCAAAAACTCCATTTTCGACCTCGTAACT
1 -TCCAAAAATTCCATTTT-GACCTCGAAACT
*
151145 TCCTAAAATTACCATTTT
1 TCCAAAAATT-CCATTTT
151163 ACCCGTGGAT
Statistics
Matches: 233, Mismatches: 29, Indels: 40
0.77 0.10 0.13
Matches are distributed among these distances:
28 11 0.05
29 128 0.55
30 78 0.33
31 16 0.07
ACGTcount: A:0.32, C:0.30, G:0.06, T:0.33
Consensus pattern (29 bp):
TCCAAAAATTCCATTTTGACCTCGAAACT
Found at i:151119 original size:118 final size:118
Alignment explanation
Indices: 150997--151278 Score: 294
Period size: 118 Copynumber: 2.4 Consensus size: 118
150987 GCCCTGAACT
*
150997 TCCAAAAATCCCATTTTTGACCTCGAAACTTCCCAAAATT-CCATTTTTAGCC-TCGAACT-TCC
1 TCCAAAAATCCCATTTTTGACCTCGAAACTTCCCAAAATTACCATTTTTACCCGT-GAA-TGTCC
* * **
151059 AAAAATTTCATTTTCGA-CTTCGAAACT-TCCTAAAATTA-CCATTTTACCCCCGGATG
64 AAAAACTCCATTTTCGACCTT-GAAACTCT-C-AAAATTATCC-TTTTACCCCCAAATG
* * * *
151115 TCCAAAAA-CTCCATTTTCGACCTCGTAACTTCCTAAAATTACCA-TTTTACCCGTGGATGTCCA
1 TCCAAAAATC-CCATTTTTGACCTCGAAACTTCCCAAAATTACCATTTTTACCCGTGAATGTCCA
*
151178 AAAACTCCATTTTCGACCTTGAAACTCTCAAAATTATCCTTTTACCCCTAAATG
65 AAAACTCCATTTTCGACCTTGAAACTCTCAAAATTATCCTTTTACCCCCAAATG
* * * **
151232 TCTAAAAATTCCATTTTTAACC-CTGAATTTTCCCAAAATTACCATTT
1 TCCAAAAATCCCATTTTTGACCTC-GAAACTTCCCAAAATTACCATTT
151279 CACCCCCGAG
Statistics
Matches: 136, Mismatches: 18, Indels: 20
0.78 0.10 0.11
Matches are distributed among these distances:
116 1 0.01
117 54 0.40
118 73 0.54
119 8 0.06
ACGTcount: A:0.31, C:0.28, G:0.07, T:0.34
Consensus pattern (118 bp):
TCCAAAAATCCCATTTTTGACCTCGAAACTTCCCAAAATTACCATTTTTACCCGTGAATGTCCAA
AAACTCCATTTTCGACCTTGAAACTCTCAAAATTATCCTTTTACCCCCAAATG
Found at i:151128 original size:28 final size:28
Alignment explanation
Indices: 151097--151190 Score: 75
Period size: 28 Copynumber: 3.2 Consensus size: 28
151087 CCTAAAATTA
151097 CCATTTTACCCCCGGATGTCCAAAAACT
1 CCATTTTACCCCCGGATGTCCAAAAACT
* * * *
151125 CCATTTT-CGACCTCGTAACT-TCCTAAAATT
1 CCATTTTAC--CCCCG-GA-TGTCCAAAAACT
**
151155 ACCATTTTACCCGTGGATGTCCAAAAACT
1 -CCATTTTACCCCCGGATGTCCAAAAACT
151184 CCATTTT
1 CCATTTT
151191 CGACCTTGAA
Statistics
Matches: 50, Mismatches: 9, Indels: 14
0.68 0.12 0.19
Matches are distributed among these distances:
27 1 0.02
28 15 0.30
29 13 0.26
30 12 0.24
31 8 0.16
32 1 0.02
ACGTcount: A:0.28, C:0.31, G:0.10, T:0.32
Consensus pattern (28 bp):
CCATTTTACCCCCGGATGTCCAAAAACT
Found at i:151239 original size:58 final size:59
Alignment explanation
Indices: 150964--151284 Score: 266
Period size: 59 Copynumber: 5.5 Consensus size: 59
150954 TTTAGCCCCG
* * * * *
150964 AACTTCCAAAAATT-CCATTTTTAGCCCTGAACT-TCCAAAAA-TCCCATTTTTGACCTCGA
1 AACTTCCTAAAATTACCA-TTTTACCCCTGGA-TGTCCAAAAACT-CCATTTTCGACCTTGA
* * * * *
151023 AACTTCCCAAAATT-CCATTTTTA-GCCTCGAACT-TCCAAAAATTTCATTTTCGA-CTTCGA
1 AACTTCCTAAAATTACCA-TTTTACCCCT-GGA-TGTCCAAAAACTCCATTTTCGACCTT-GA
* * *
151082 AACTTCCTAAAATTACCATTTTACCCCCGGATGTCCAAAAACTCCATTTTCGACCTCGT
1 AACTTCCTAAAATTACCATTTTACCCCTGGATGTCCAAAAACTCCATTTTCGACCTTGA
*
151141 AACTTCCTAAAATTACCATTTTACCCGTGGATGTCCAAAAACTCCATTTTCGACCTTGA
1 AACTTCCTAAAATTACCATTTTACCCCTGGATGTCCAAAAACTCCATTTTCGACCTTGA
** * * ** *
151200 AAC-T-CTCAAAATTATCC-TTTTACCCCTAAATGTCTAAAAATTCCATTTTTAACCCTGA
1 AACTTCCT-AAAATTA-CCATTTTACCCCTGGATGTCCAAAAACTCCATTTTCGACCTTGA
** * *
151258 ATTTTCCCAAAATTACCATTTCACCCC
1 AACTTCCTAAAATTACCATTTTACCCC
151285 CGAGAATCCA
Statistics
Matches: 221, Mismatches: 29, Indels: 24
0.81 0.11 0.09
Matches are distributed among these distances:
57 2 0.01
58 50 0.23
59 160 0.72
60 9 0.04
ACGTcount: A:0.31, C:0.29, G:0.07, T:0.33
Consensus pattern (59 bp):
AACTTCCTAAAATTACCATTTTACCCCTGGATGTCCAAAAACTCCATTTTCGACCTTGA
Found at i:158495 original size:20 final size:19
Alignment explanation
Indices: 158452--158495 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
158442 ATTTTTTTAT
*
158452 TAAAATAATAATTTATAAA
1 TAAAATAATAATTTACAAA
*
158471 TAAAATAATAATATTACACA
1 TAAAATAATAAT-TTACAAA
158491 TAAAA
1 TAAAA
158496 CAATTTGAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 12 0.55
20 10 0.45
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.32
Consensus pattern (19 bp):
TAAAATAATAATTTACAAA
Found at i:171319 original size:20 final size:20
Alignment explanation
Indices: 171294--171332 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
171284 TTGATGAAAG
*
171294 TTAATTGTTAATATTATTAA
1 TTAATTGTTAATATCATTAA
171314 TTAATTGTTAATATCATTA
1 TTAATTGTTAATATCATTA
171333 TTGTTAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.54
Consensus pattern (20 bp):
TTAATTGTTAATATCATTAA
Found at i:171337 original size:15 final size:15
Alignment explanation
Indices: 171317--171347 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
171307 TTATTAATTA
171317 ATTGTTAATATCATT
1 ATTGTTAATATCATT
*
171332 ATTGTTAATATTATT
1 ATTGTTAATATCATT
171347 A
1 A
171348 CTTTTCCTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.55
Consensus pattern (15 bp):
ATTGTTAATATCATT
Found at i:174609 original size:22 final size:20
Alignment explanation
Indices: 174562--174600 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
174552 TACTGAGTGA
* *
174562 AAAAAATTATGTAAATAATT
1 AAAAAATTATATAAAAAATT
174582 AAAAAATTATATAAAAAAT
1 AAAAAATTATATAAAAAAT
174601 ATTAAAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (20 bp):
AAAAAATTATATAAAAAATT
Found at i:177261 original size:14 final size:14
Alignment explanation
Indices: 177239--177268 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
177229 TTGTATTTAA
177239 TTTAAATTTATCTT
1 TTTAAATTTATCTT
*
177253 TTTAGATTTATCTT
1 TTTAAATTTATCTT
177267 TT
1 TT
177269 AAAGTTTAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.23, C:0.07, G:0.03, T:0.67
Consensus pattern (14 bp):
TTTAAATTTATCTT
Found at i:180174 original size:12 final size:12
Alignment explanation
Indices: 180143--180175 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
180133 AATTTTTATT
*
180143 TTTATTTTTCTA
1 TTTATTTATCTA
180155 TTTATTTATCTA
1 TTTATTTATCTA
180167 TTTATTTAT
1 TTTATTTAT
180176 TACATGTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.73
Consensus pattern (12 bp):
TTTATTTATCTA
Found at i:182819 original size:15 final size:15
Alignment explanation
Indices: 182799--182828 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
182789 CATTTAACCG
182799 AATTAACCAAATTAA
1 AATTAACCAAATTAA
*
182814 AATTAACCGAATTAA
1 AATTAACCAAATTAA
182829 CAAAAATTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.13, G:0.03, T:0.27
Consensus pattern (15 bp):
AATTAACCAAATTAA
Found at i:182819 original size:24 final size:25
Alignment explanation
Indices: 182792--182838 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
182782 TAATGTTCAT
*
182792 TTAACCGAATTAAC-CAAATTAAAA
1 TTAACCGAATTAACAAAAATTAAAA
182816 TTAACCGAATTAACAAAAATTAA
1 TTAACCGAATTAACAAAAATTAA
182839 CTGAAATTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 14 0.67
25 7 0.33
ACGTcount: A:0.55, C:0.15, G:0.04, T:0.26
Consensus pattern (25 bp):
TTAACCGAATTAACAAAAATTAAAA
Found at i:182848 original size:20 final size:19
Alignment explanation
Indices: 182812--182865 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
182802 TAACCAAATT
182812 AAAATTAACCGAATTAA-C
1 AAAATTAACCGAATTAATC
*
182830 AAAAATTAACTGAAATTAATC
1 -AAAATTAACCG-AATTAATC
*
182851 AAAATTAACCAAATT
1 AAAATTAACCGAATT
182866 GGTAATATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 14 0.47
20 15 0.50
21 1 0.03
ACGTcount: A:0.57, C:0.13, G:0.04, T:0.26
Consensus pattern (19 bp):
AAAATTAACCGAATTAATC
Found at i:191965 original size:22 final size:22
Alignment explanation
Indices: 191940--191992 Score: 72
Period size: 21 Copynumber: 2.4 Consensus size: 22
191930 CCCATTTGCT
* *
191940 AAAAATAAATAATTTAGTAAAAA
1 AAAAATAAACAACTTA-TAAAAA
191963 AAAAAT-AACAACTTATAAAAA
1 AAAAATAAACAACTTATAAAAA
191984 AAAAATAAA
1 AAAAATAAA
191993 AATAAATAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 12 0.44
22 9 0.33
23 6 0.22
ACGTcount: A:0.74, C:0.04, G:0.02, T:0.21
Consensus pattern (22 bp):
AAAAATAAACAACTTATAAAAA
Found at i:192001 original size:21 final size:21
Alignment explanation
Indices: 191957--192006 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
191947 AATAATTTAG
* *
191957 TAAAAAAAAAATAACAACTTA
1 TAAAAAAAAAATAACAAATAA
191978 TAAAAAAAAAATAA-AAATAAA
1 TAAAAAAAAAATAACAAAT-AA
*
191999 TAAGAAAA
1 TAAAAAAA
192007 TAACAATTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 3 0.12
21 22 0.88
ACGTcount: A:0.78, C:0.04, G:0.02, T:0.16
Consensus pattern (21 bp):
TAAAAAAAAAATAACAAATAA
Found at i:192524 original size:2 final size:2
Alignment explanation
Indices: 192517--192557 Score: 55
Period size: 2 Copynumber: 20.5 Consensus size: 2
192507 TTTACATACG
* * *
192517 TA TA TA TA CA TA TA CA TA TA CA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
192558 TAATTTTTTA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (2 bp):
TA
Found at i:192555 original size:12 final size:12
Alignment explanation
Indices: 192517--192557 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 12
192507 TTTACATACG
192517 TATATATACATA
1 TATATATACATA
*
192529 TACATATACATA
1 TATATATACATA
*
192541 TATATATATATA
1 TATATATACATA
192553 TATAT
1 TATAT
192558 TAATTTTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (12 bp):
TATATATACATA
Found at i:193133 original size:15 final size:15
Alignment explanation
Indices: 193113--193141 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
193103 CGGGTTGTTA
193113 CTGATTGGTTCAATT
1 CTGATTGGTTCAATT
193128 CTGATTGGTTCAAT
1 CTGATTGGTTCAAT
193142 CTTGGGTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.14, G:0.21, T:0.45
Consensus pattern (15 bp):
CTGATTGGTTCAATT
Found at i:201124 original size:22 final size:23
Alignment explanation
Indices: 201099--201148 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 23
201089 TGAAGAACAA
201099 AAAAGAAAAAAAAAAGG-AAAAG
1 AAAAGAAAAAAAAAAGGAAAAAG
* * **
201121 AAAATAGAAAAAATGGGAAAAAG
1 AAAAGAAAAAAAAAAGGAAAAAG
201144 AAAAG
1 AAAAG
201149 GAGAGGTCGA
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
22 13 0.59
23 9 0.41
ACGTcount: A:0.76, C:0.00, G:0.20, T:0.04
Consensus pattern (23 bp):
AAAAGAAAAAAAAAAGGAAAAAG
Found at i:202666 original size:39 final size:39
Alignment explanation
Indices: 202622--202712 Score: 110
Period size: 39 Copynumber: 2.3 Consensus size: 39
202612 TCACCATCAG
* * *
202622 CCAATCTCTTACCCCGAGCTTGGGGCAGATTGCAGCCAT
1 CCAATCTCTTACCCCGACCATGGGGCAGATTACAGCCAT
* * * * *
202661 TCAATCTTTTACCCCGACCATGGGGTATATTATAGCCAT
1 CCAATCTCTTACCCCGACCATGGGGCAGATTACAGCCAT
202700 CCAATCTCTTACC
1 CCAATCTCTTACC
202713 TAAGCCTAAG
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.23, C:0.32, G:0.16, T:0.29
Consensus pattern (39 bp):
CCAATCTCTTACCCCGACCATGGGGCAGATTACAGCCAT
Found at i:203321 original size:209 final size:209
Alignment explanation
Indices: 202760--204074 Score: 1458
Period size: 209 Copynumber: 6.3 Consensus size: 209
202750 AATAGTCAGT
* ** * * * * *
202760 TTCCTGATGAGATACTGAGAAGTGGACCAAATTC--GTGAGGCGGTCATCTTCTTGATAAGATAT
1 TTCCTGATGAGATACAGAGAAGTGGATTAAA-ACAAGTGATGCGGTCATCTTCCTGATGAGATAC
* * *
202823 AGAGAAGTATACAAACTCAATGAAA-CAAGGCTCAAAGTGAGC-AAATCTTCGAACCCCAGCTTC
65 AGAGAAGTAGACCAACTCAATGAAACCAA-GCTCAAAGCGAGCGAAA-CTTCGAACCCCAGCTTC
* * * *
202886 CTGATGAGATACTGAGAAGTAGGTCGAAGCAATAAAGCGATTACCTTCCTGATGAGACATAGAGA
128 CTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAGCGATTAGCTTCCTGATGAGATACAGAGA
* **
202951 AGTGAACTAGATCAATC
193 AGTGAACCAGATCCGTC
* ** * *
202968 TTCCTGATGAGACACAGAGAAGTGGACCAAATTC--GTGA-GACGGTCATCTTCTTGATGAGATA
1 TTCCTGATGAGATACAGAGAAGTGGATTAAA-ACAAGTGATG-CGGTCATCTTCCTGATGAGATA
* * *
203030 TAGAGAAGTAGACCAAATCAATGAAACC-AGACTCAAAGTGAGC-AAATCTTCGAACCCCAGCTT
64 CAGAGAAGTAGACCAACTCAATGAAACCAAG-CTCAAAGCGAGCGAAA-CTTCGAACCCCAGCTT
* * * *
203093 CCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAACGATTACCTTCTTGATGAGATAGAGAG
127 CCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAGCGATTAGCTTCCTGATGAGATACAGAG
203158 AAGTGAACCAGATCCGTC
192 AAGTGAACCAGATCCGTC
* * * **
203176 TTCCTGATAAGACACAGAGAAGTGGATCAAAACAAGTGATGCGGTCATCTTCCTGATGAGATATT
1 TTCCTGATGAGATACAGAGAAGTGGATTAAAACAAGTGATGCGGTCATCTTCCTGATGAGATACA
* * * *
203241 TAGAAGTAGACCAAGTCAATGAAACCAAGCTCAAAGCGAGCGAAACTTCGAACCCCAACTTCTTG
66 GAGAAGTAGACCAACTCAATGAAACCAAGCTCAAAGCGAGCGAAACTTCGAACCCCAGCTTCCTG
* * ** * *
203306 ATGAGATATTGAGAAGCAGGTCAAAAAAATAAAGCGGTTAGCTTCCTGATAAGATACAGAGAAGT
131 ATGAGATACTGAGAAGCAGGTCGAAGCAATAAAGCGATTAGCTTCCTGATGAGATACAGAGAAGT
*
203371 GAACTAGATCCAG-C
196 GAACCAGATCC-GTC
* ** * * * *
203385 TTCCTGATGAGATATAGAGAAGCAGATTGAAACAAGTGAGGCGGTCAGCTTCTTGATGAGATACA
1 TTCCTGATGAGATACAGAGAAGTGGATTAAAACAAGTGATGCGGTCATCTTCCTGATGAGATACA
* * * * *
203450 GAGAAGTATACCAACTCAATGAAGCAAAGCTCAATGCGAGCGAAACTTCAAACCCCAGCTTCCTG
66 GAGAAGTAGACCAACTCAATGAAACCAAGCTCAAAGCGAGCGAAACTTCGAACCCCAGCTTCCTG
* *
203515 ATGAGATACTGAGAAGCAGGTCGAAACAATAAAGCGGTTAGCTTCCTGATGAGATACAGAGAAGT
131 ATGAGATACTGAGAAGCAGGTCGAAGCAATAAAGCGATTAGCTTCCTGATGAGATACAGAGAAGT
* *
203580 GAACTAGATCTAG-C
196 GAACCAGATC-CGTC
* ** * *
203594 TTCCTGATGAGATATAGAGAAGCAGATTGAAACAAGTGA-GATGGTCATCTTCCTGATGAGATAC
1 TTCCTGATGAGATACAGAGAAGTGGATTAAAACAAGTGATG-CGGTCATCTTCCTGATGAGATAC
* * *** * *
203658 AAAGAAGTATACCAACTCAATGAAGTAAAGCTTAATGCGAGCGAAACTTCGAACCCCAGCTTCCT
65 AGAGAAGTAGACCAACTCAATGAAACCAAGCTCAAAGCGAGCGAAACTTCGAACCCCAGCTTCCT
* * *
203723 GATGAGATACTAAGAAGCAGGAT-GAAGCAATAAAGC-AGTTAGCTTCATGATGAGATACAAAGA
130 GATGAGATACTGAGAAGCAGG-TCGAAGCAATAAAGCGA-TTAGCTTCCTGATGAGATACAGAGA
*
203786 AGTGAACCAGATCTGTC
193 AGTGAACCAGATCCGTC
* ** * *
203803 TTCTTGATGAGATACAGAGAAGCAGATTAAAACAAGCGAT--GGTCATCTTCCTGATGAGATACT
1 TTCCTGATGAGATACAGAGAAGTGGATTAAAACAAGTGATGCGGTCATCTTCCTGATGAGATACA
* ** * * ** *
203866 GAGAAGTAGACCAAATCAATGAAACCAAAGCTTGATGTGAGTAAAACTTCGAACCCTAGCTTCCT
66 GAGAAGTAGACCAACTCAATGAAACC-AAGCTCAAAGCGAGCGAAACTTCGAACCCCAGCTTCCT
* * * *
203931 GATGAGATACTGAGAAGCAGGTCGAAGCAATAAAGTGGTT-GTCTTCTTGATGAGATACAAAGAA
130 GATGAGATACTGAGAAGCAGGTCGAAGCAATAAAGCGATTAG-CTTCCTGATGAGATACAGAGAA
* * * *
203995 GTGGATCAAATTCGTC
194 GTGAACCAGATCCGTC
* * **
204011 TTCCTGATGGGATATAGAGAAGTGGATTAAAACAAACGATGCGGTCATCTTCCTGATGAGATAC
1 TTCCTGATGAGATACAGAGAAGTGGATTAAAACAAGTGATGCGGTCATCTTCCTGATGAGATAC
204075 TAAGAAGCAG
Statistics
Matches: 980, Mismatches: 106, Indels: 40
0.87 0.09 0.04
Matches are distributed among these distances:
207 47 0.05
208 352 0.36
209 551 0.56
210 30 0.03
ACGTcount: A:0.37, C:0.18, G:0.23, T:0.22
Consensus pattern (209 bp):
TTCCTGATGAGATACAGAGAAGTGGATTAAAACAAGTGATGCGGTCATCTTCCTGATGAGATACA
GAGAAGTAGACCAACTCAATGAAACCAAGCTCAAAGCGAGCGAAACTTCGAACCCCAGCTTCCTG
ATGAGATACTGAGAAGCAGGTCGAAGCAATAAAGCGATTAGCTTCCTGATGAGATACAGAGAAGT
GAACCAGATCCGTC
Found at i:203451 original size:86 final size:85
Alignment explanation
Indices: 203299--203456 Score: 208
Period size: 86 Copynumber: 1.8 Consensus size: 85
203289 CGAACCCCAA
* * *
203299 CTTCTTGATGAGATATTGAGAAGCAGGTCAAAAAAATAAAGCGGTTAGCTTCCTGATAAGATACA
1 CTTCCTGATGAGATATAGAGAAGCAGGTCAAAAAAATAAAGCGGTCAGCTTCCTGATAAGATACA
203364 GAGAAGTGAACTAGATCCAG
66 GAGAAGTGAACTAGATCCAG
* * * * * * * *
203384 CTTCCTGATGAGATATAGAGAAGCAGATTGAAACAAGTGAGGCGGTCAGCTTCTTGATGAGATAC
1 CTTCCTGATGAGATATAGAGAAGCAG-GTCAAAAAAATAAAGCGGTCAGCTTCCTGATAAGATAC
203449 AGAGAAGT
65 AGAGAAGT
203457 ATACCAACTC
Statistics
Matches: 61, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
85 24 0.39
86 37 0.61
ACGTcount: A:0.37, C:0.14, G:0.26, T:0.23
Consensus pattern (85 bp):
CTTCCTGATGAGATATAGAGAAGCAGGTCAAAAAAATAAAGCGGTCAGCTTCCTGATAAGATACA
GAGAAGTGAACTAGATCCAG
Found at i:204232 original size:134 final size:134
Alignment explanation
Indices: 203925--204215 Score: 474
Period size: 134 Copynumber: 2.2 Consensus size: 134
203915 CGAACCCTAG
* *
203925 CTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAGTGGTTGTCTTCTTGATGAGATACA
1 CTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAGTGATTGTCTTCCTGATGAGATACA
* * * * * *
203990 AAGAAGTGGATCAAATTCGTCTTCCTGATGGGATATAGAGAAGTGGATTAAAACAAACGATGCGG
66 AAGAAGTGGACCAAATCCGTCTTCCTGATGGAATACAGAGAAGCGGATTAAAACAAACGATGCAG
204055 TCAT
131 TCAT
* *
204059 CTTCCTGATGAGATACTAAGAAGCAGGTCGAAGCAATAAAGTGATTGTCTTCCTGATGAGATGCA
1 CTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAGTGATTGTCTTCCTGATGAGATACA
* *
204124 GAGAAGTGGACCAAATCCGTCTTCCTGATGGAATACAGAGAAGCGGATTAAAACAAGCGATGCAG
66 AAGAAGTGGACCAAATCCGTCTTCCTGATGGAATACAGAGAAGCGGATTAAAACAAACGATGCAG
204189 TCAT
131 TCAT
204193 CTTCCTGATGAGATACTGAGAAG
1 CTTCCTGATGAGATACTGAGAAG
204216 TAGACCAAAT
Statistics
Matches: 144, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
134 144 1.00
ACGTcount: A:0.34, C:0.16, G:0.26, T:0.24
Consensus pattern (134 bp):
CTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAGTGATTGTCTTCCTGATGAGATACA
AAGAAGTGGACCAAATCCGTCTTCCTGATGGAATACAGAGAAGCGGATTAAAACAAACGATGCAG
TCAT
Found at i:204361 original size:344 final size:342
Alignment explanation
Indices: 203717--204425 Score: 1048
Period size: 344 Copynumber: 2.1 Consensus size: 342
203707 CGAACCCCAG
203717 CTTCCTGATGAGATACTAAGAAGCAGGATGAAGCAATAAAGCAGTTAGCTTCATGATGAGATACA
1 CTTCCTGATGAGATACTAAGAAGCAGGATGAAGCAATAAAGCAGTTAGCTTCATGATGAGATACA
* * *
203782 AAGAAGTGAACCAGATCTGTCTTCTTGATGAGATACAGAGAAGCAGATTAAAACAAGCGATGGTC
66 AAGAAGTGAACCAAATCCGTCTTCCTGATGAGATACAGAGAAGCAGATTAAAACAAGCGATGGTC
* * **
203847 ATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAACCAAAGCTTGATGTGAGTAAAA
131 ATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATAAAACCAAAGCTCGATGTGAACAAAA
* *
203912 CTTCGAACCCTAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAGTGGTTGTCTTC
196 CTTCGAACCCTAACTTCCCGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAGTGGTTGTCTTC
* * * * * * * * * *
203977 TTGATGAGATACAAAGAAGTGGATCAAATTCGTCTTCCTGATGGGATATAGAGAAGTGGATTAAA
261 CTGATGAGATACAAAGAAATGGACCAAATCCATATTCCTGATAGGATACAGAGAAGCGAATTAAA
204042 ACAAACGATGCGGTCAT
326 ACAAACGATGCGGTCAT
* *
204059 CTTCCTGATGAGATACTAAGAAGCAGG-TCGAAGCAATAAAG-TGATT-GTCTTCCTGATGAGAT
1 CTTCCTGATGAGATACTAAGAAGCAGGAT-GAAGCAATAAAGCAG-TTAG-CTTCATGATGAGAT
* * * *
204121 GCAGAGAAGTGGACCAAATCCGTCTTCCTGATG-GAATACAGAGAAGCGGATTAAAACAAGCGAT
63 ACAAAGAAGTGAACCAAATCCGTCTTCCTGATGAG-ATACAGAGAAGCAGATTAAAACAAGCGAT
204185 GCAGTCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATAAAACCAAAGCTCGATGTGA
127 G--GTCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATAAAACCAAAGCTCGATGTGA
* * * *
204250 ACGAAACTTCGAACCCTAACTTCCCGATTAGATACTGAGAAGTAGGTTGAAGCAATAAAGTGGTT
190 ACAAAACTTCGAACCCTAACTTCCCGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAGTGGTT
*
204315 GTCTTCCTGATGAGATACAGAGAAATGGACCAAATCCATATTCCTGATAGGATACAGAGAAGCGA
255 GTCTTCCTGATGAGATACAAAGAAATGGACCAAATCCATATTCCTGATAGGATACAGAGAAGCGA
204380 ATTAAAACAAACGATGCGGTCAT
320 ATTAAAACAAACGATGCGGTCAT
* *
204403 CTTCTTGATGAGATACTGAGAAG
1 CTTCCTGATGAGATACTAAGAAG
204426 TAGACCAAAT
Statistics
Matches: 329, Mismatches: 32, Indels: 10
0.89 0.09 0.03
Matches are distributed among these distances:
341 4 0.01
342 110 0.33
344 215 0.65
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.23
Consensus pattern (342 bp):
CTTCCTGATGAGATACTAAGAAGCAGGATGAAGCAATAAAGCAGTTAGCTTCATGATGAGATACA
AAGAAGTGAACCAAATCCGTCTTCCTGATGAGATACAGAGAAGCAGATTAAAACAAGCGATGGTC
ATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATAAAACCAAAGCTCGATGTGAACAAAA
CTTCGAACCCTAACTTCCCGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAGTGGTTGTCTTC
CTGATGAGATACAAAGAAATGGACCAAATCCATATTCCTGATAGGATACAGAGAAGCGAATTAAA
ACAAACGATGCGGTCAT
Found at i:204585 original size:210 final size:210
Alignment explanation
Indices: 204059--204565 Score: 764
Period size: 210 Copynumber: 2.4 Consensus size: 210
204049 ATGCGGTCAT
* * *
204059 CTTCCTGATGAGATACTAAGAAGCAGGTCGAAGCAATAAAGTGATTGTCTTCCTGATGAGATGCA
1 CTTCCCGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAGTGGTTGTCTTCCTGATGAGATGCA
* * * *
204124 GAGAAGTGGACCAAATCCGTCTTCCTGATGGAATACAGAGAAGCGGATTAAAACAAGCGATGCAG
66 GAGAAGTGGACCAAATCCATCTTCCTGATAGAATACAGAGAAGCGAATTAAAACAAACGATGCAG
204189 TCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATAAAACCAAAGCTCGATGTGAACGA
131 TCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATAAAACCAAAGCTCGATGTGAACGA
204254 AACTTCGAACCCTAA
196 AACTTCGAACCCTAA
* * * *
204269 CTTCCCGATTAGATACTGAGAAGTAGGTTGAAGCAATAAAGTGGTTGTCTTCCTGATGAGATACA
1 CTTCCCGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAGTGGTTGTCTTCCTGATGAGATGCA
* * * *
204334 GAGAAATGGACCAAATCCATATTCCTGATAGGATACAGAGAAGCGAATTAAAACAAACGATGCGG
66 GAGAAGTGGACCAAATCCATCTTCCTGATAGAATACAGAGAAGCGAATTAAAACAAACGATGCAG
* * *
204399 TCATCTTCTTGATGAGATACTGAGAAGTAGACCAAATCAATGAAACCAAAGCTCGATGTGAGCGA
131 TCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATAAAACCAAAGCTCGATGTGAACGA
*
204464 AACTTCGAACCAC-AG
196 AACTTCGAACC-CTAA
* * ** *
204479 CTTCCCGATGAGATACTGATAAGCAGGTCGAAGCAATAAAATGGTCATCTTCCTGACGAGATGCA
1 CTTCCCGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAGTGGTTGTCTTCCTGATGAGATGCA
* *
204544 AAGAAGTGAACCAAATCCATCT
66 GAGAAGTGGACCAAATCCATCT
204566 ATCTAGTAAA
Statistics
Matches: 264, Mismatches: 32, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
210 263 1.00
211 1 0.00
ACGTcount: A:0.37, C:0.19, G:0.22, T:0.22
Consensus pattern (210 bp):
CTTCCCGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAGTGGTTGTCTTCCTGATGAGATGCA
GAGAAGTGGACCAAATCCATCTTCCTGATAGAATACAGAGAAGCGAATTAAAACAAACGATGCAG
TCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATAAAACCAAAGCTCGATGTGAACGA
AACTTCGAACCCTAA
Found at i:205932 original size:14 final size:14
Alignment explanation
Indices: 205901--205945 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
205891 TTACACACAC
* * *
205901 ACACACACACACAC
1 ACACACACATATAT
205915 ACACACACATATAT
1 ACACACACATATAT
*
205929 ACACACACGTATAT
1 ACACACACATATAT
205943 ACA
1 ACA
205946 TATATACATA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.49, C:0.36, G:0.02, T:0.13
Consensus pattern (14 bp):
ACACACACATATAT
Found at i:205936 original size:2 final size:2
Alignment explanation
Indices: 205893--205923 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
205883 TTTTATTTTT
205893 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
205924 TATATACACA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:205943 original size:16 final size:16
Alignment explanation
Indices: 205897--205936 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
205887 ATTTTTACAC
* * *
205897 ACACACACACACACAC
1 ACACACACACATATAT
205913 ACACACACACATATAT
1 ACACACACACATATAT
205929 ACACACAC
1 ACACACAC
205937 GTATATACAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.50, C:0.42, G:0.00, T:0.07
Consensus pattern (16 bp):
ACACACACACATATAT
Found at i:207064 original size:60 final size:59
Alignment explanation
Indices: 206986--207277 Score: 342
Period size: 60 Copynumber: 4.9 Consensus size: 59
206976 TCTAACCCCC
*
206986 AAACTTTCCAAAACTACATTTTTAACCCTCAAACTTTCCAAAAATTACATTTTAATCCCT
1 AAACTTTCCAAAATTACATTTTTAACCCTCAAACTTTCCAAAAATTACATTTTAA-CCCT
* * * * * *
207046 TAACTTTCTAAAATTACATTTTTGACCCTTAAACTTTCAAAAAAATTATATTTTAACCCTT
1 AAACTTTCCAAAATTACATTTTTAACCCTCAAACTTTC-CAAAAATTACATTTTAACCC-T
* * * *
207107 AAACTTTCTAAAAATATATTTTTAATCCCT-AAACTTTCCAAAAATTACATTTTAATCCT
1 AAACTTTCCAAAATTACATTTTTAA-CCCTCAAACTTTCCAAAAATTACATTTTAACCCT
* * *
207166 CAAACTTTCCAAAATTACATTTTTAA-ACTTAAACTTTCC-AAAATTACATTTTTGACCCT
1 -AAACTTTCCAAAATTACATTTTTAACCCTCAAACTTTCCAAAAATTACA-TTTTAACCCT
*
207225 AAACTTTCCAAACATTACATTTTTTACCC-CAAAC-TTCCAAAAATTACCATTTT
1 AAACTTTCCAAA-ATTACATTTTTAACCCTCAAACTTTCCAAAAATTA-CATTTT
207278 GCCCTCGAGT
Statistics
Matches: 199, Mismatches: 23, Indels: 21
0.82 0.09 0.09
Matches are distributed among these distances:
58 27 0.14
59 45 0.23
60 78 0.39
61 45 0.23
62 4 0.02
ACGTcount: A:0.38, C:0.22, G:0.01, T:0.39
Consensus pattern (59 bp):
AAACTTTCCAAAATTACATTTTTAACCCTCAAACTTTCCAAAAATTACATTTTAACCCT
Found at i:207067 original size:29 final size:29
Alignment explanation
Indices: 206986--207277 Score: 304
Period size: 30 Copynumber: 9.8 Consensus size: 29
206976 TCTAACCCCC
*
206986 AAACTTTCCAAAACTACATTTTTAACCCT
1 AAACTTTCCAAAATTACATTTTTAACCCT
207015 CAAACTTTCCAAAAATTACA-TTTTAATCCCT
1 -AAACTTTCC-AAAATTACATTTTTAA-CCCT
* * *
207046 TAACTTTCTAAAATTACATTTTTGACCCTT
1 AAACTTTCCAAAATTACATTTTTAACCC-T
* *
207076 AAACTTTCAAAAAAATTATA-TTTTAACCCTT
1 AAACTTTC--CAAAATTACATTTTTAACCC-T
* * *
207107 AAACTTTCTAAAAATATATTTTTAATCCCT
1 AAACTTTCCAAAATTACATTTTTAA-CCCT
*
207137 AAACTTTCCAAAAATTACA-TTTTAATCCT
1 AAACTTTCC-AAAATTACATTTTTAACCCT
* *
207166 CAAACTTTCCAAAATTACATTTTTAAACTT
1 -AAACTTTCCAAAATTACATTTTTAACCCT
*
207196 AAACTTTCCAAAATTACATTTTTGACCCT
1 AAACTTTCCAAAATTACATTTTTAACCCT
* *
207225 AAACTTTCCAAACATTACATTTTTTACCCC
1 AAACTTTCCAAA-ATTACATTTTTAACCCT
207255 AAAC-TTCCAAAAATTACCATTTT
1 AAACTTTCC-AAAATTA-CATTTT
207278 GCCCTCGAGT
Statistics
Matches: 227, Mismatches: 21, Indels: 28
0.82 0.08 0.10
Matches are distributed among these distances:
29 78 0.34
30 101 0.44
31 40 0.18
32 8 0.04
ACGTcount: A:0.38, C:0.22, G:0.01, T:0.39
Consensus pattern (29 bp):
AAACTTTCCAAAATTACATTTTTAACCCT
Found at i:207293 original size:29 final size:30
Alignment explanation
Indices: 207260--207400 Score: 148
Period size: 29 Copynumber: 4.8 Consensus size: 30
207250 ACCCCAAACT
207260 TCCAAAAATTACCATTTTGCCCTCGAGTGA
1 TCCAAAAATTACCATTTTGCCCTCGAGTGA
* * * **
207290 -CCAAAAATTACTATTTTACCCCCGA-ACA
1 TCCAAAAATTACCATTTTGCCCTCGAGTGA
*
207318 TCCAAAATTTACCATTTTGCCCTCGAGT-A
1 TCCAAAAATTACCATTTTGCCCTCGAGTGA
* * * *
207347 TCCAAAAATTACCGTTTTACCCTCTATTG-
1 TCCAAAAATTACCATTTTGCCCTCGAGTGA
207376 TCTC-AAAATTACCATTTTGCCCTCG
1 TC-CAAAAATTACCATTTTGCCCTCG
207401 GGCACCCAAA
Statistics
Matches: 89, Mismatches: 18, Indels: 9
0.77 0.16 0.08
Matches are distributed among these distances:
28 1 0.01
29 87 0.98
30 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.33
Consensus pattern (30 bp):
TCCAAAAATTACCATTTTGCCCTCGAGTGA
Found at i:207300 original size:58 final size:56
Alignment explanation
Indices: 207231--207414 Score: 183
Period size: 58 Copynumber: 3.2 Consensus size: 56
207221 CCCTAAACTT
* *
207231 TCCAAACATTACATTTTTTACCCCAAACTTCCAAAAATTACCATTTTGCCCTCGAGTGA
1 TCCAAAAATTAC-TATTTTACCCC-AACTTCCAAAAATTACCATTTTGCCCTCGAGT-A
* *
207290 -CCAAAAATTACTATTTTACCCCCGAACATCCAAAATTTACCATTTTGCCCTCGAGTA
1 TCCAAAAATTACTATTTTA-CCCC-AACTTCCAAAAATTACCATTTTGCCCTCGAGTA
** * * * *
207347 TCCAAAAATTACCGTTTTACCCTCTATTGTCTC-AAAATTACCATTTTGCCCTCGGGCA
1 TCCAAAAATTACTATTTTACCC-CAACT-TC-CAAAAATTACCATTTTGCCCTCGAGTA
*
207405 CCCAAAAATT
1 TCCAAAAATT
207415 GCATTTGACT
Statistics
Matches: 106, Mismatches: 14, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
57 11 0.10
58 94 0.89
59 1 0.01
ACGTcount: A:0.32, C:0.29, G:0.08, T:0.32
Consensus pattern (56 bp):
TCCAAAAATTACTATTTTACCCCAACTTCCAAAAATTACCATTTTGCCCTCGAGTA
Found at i:210544 original size:31 final size:31
Alignment explanation
Indices: 210506--210566 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
210496 TTACAAAATG
* **
210506 ATCACTGAATTATTTGAAAGTTTTCATTTAA
1 ATCACTGAATCATTCAAAAGTTTTCATTTAA
*
210537 ATCACTGAATCATTCAAAAGTTTTTATTTA
1 ATCACTGAATCATTCAAAAGTTTTCATTTA
210567 TATTATTAGG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.36, C:0.11, G:0.08, T:0.44
Consensus pattern (31 bp):
ATCACTGAATCATTCAAAAGTTTTCATTTAA
Found at i:211293 original size:31 final size:32
Alignment explanation
Indices: 211222--211293 Score: 87
Period size: 31 Copynumber: 2.3 Consensus size: 32
211212 TTAGGCCCTC
*
211222 AATTTTTTTAAAAAATTATCATTATATCTTTG
1 AATTTTTTTAAAAAATTATCATTAGATCTTTG
*
211254 AATATTTTT-AAAAATT-TCAATTAGACTCTTT-
1 AATTTTTTTAAAAAATTATC-ATTAGA-TCTTTG
211285 AATTTTTTT
1 AATTTTTTT
211294 TTTTGTAATT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
30 2 0.06
31 20 0.57
32 13 0.37
ACGTcount: A:0.36, C:0.07, G:0.03, T:0.54
Consensus pattern (32 bp):
AATTTTTTTAAAAAATTATCATTAGATCTTTG
Found at i:214952 original size:22 final size:22
Alignment explanation
Indices: 214910--214970 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
214900 AGATAGAGTT
* **
214910 TATCAGATACAGCTGTTGAACA
1 TATCAGATACAGATGCAGAACA
*
214932 TATCAGATACAGATGCAGAACT
1 TATCAGATACAGATGCAGAACA
*
214954 TA-CTAGATAAAGATGCA
1 TATC-AGATACAGATGCA
214971 AAATCCTACC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
21 1 0.03
22 32 0.97
ACGTcount: A:0.41, C:0.16, G:0.18, T:0.25
Consensus pattern (22 bp):
TATCAGATACAGATGCAGAACA
Found at i:215192 original size:18 final size:17
Alignment explanation
Indices: 215142--215239 Score: 117
Period size: 18 Copynumber: 5.6 Consensus size: 17
215132 CTAAACCCAT
215142 TTTAAATTTATTTTAAGA
1 TTTAAATTTATTTTAA-A
215160 TTT-AATTTATTTTAAA
1 TTTAAATTTATTTTAAA
215176 TTTAAATTTATTTTTAAA
1 TTTAAATTTA-TTTTAAA
* *
215194 TTTGAATTTGTTTTAAAA
1 TTTAAATTTATTTT-AAA
* *
215212 TTAAAATTTAATTTAAAA
1 TTTAAATTT-ATTTTAAA
215230 TTTAAATTTA
1 TTTAAATTTA
215240 AAAGTATTAT
Statistics
Matches: 69, Mismatches: 7, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
16 4 0.06
17 23 0.33
18 39 0.57
19 3 0.04
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:215231 original size:7 final size:7
Alignment explanation
Indices: 215205--215259 Score: 55
Period size: 7 Copynumber: 8.0 Consensus size: 7
215195 TTGAATTTGT
215205 TTTAAAA
1 TTTAAAA
215212 -TTAAAA
1 TTTAAAA
215218 TTT--AA
1 TTTAAAA
215223 TTTAAAA
1 TTTAAAA
215230 TTT-AAA
1 TTTAAAA
215236 TTTAAAA
1 TTTAAAA
215243 GTATTATAAA
1 -T-TTA-AAA
215253 TTTAAAA
1 TTTAAAA
215260 ATCTAGAATT
Statistics
Matches: 41, Mismatches: 0, Indels: 14
0.75 0.00 0.25
Matches are distributed among these distances:
5 5 0.12
6 12 0.29
7 13 0.32
8 4 0.10
9 4 0.10
10 3 0.07
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.44
Consensus pattern (7 bp):
TTTAAAA
Found at i:215242 original size:13 final size:13
Alignment explanation
Indices: 215205--215242 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
215195 TTGAATTTGT
*
215205 TTTAAAATTAAAA
1 TTTAAATTTAAAA
215218 TTT-AATTTAAAA
1 TTTAAATTTAAAA
215230 TTTAAATTTAAAA
1 TTTAAATTTAAAA
215243 GTATTATAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 11 0.48
13 12 0.52
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (13 bp):
TTTAAATTTAAAA
Found at i:215258 original size:6 final size:6
Alignment explanation
Indices: 215142--215241 Score: 66
Period size: 6 Copynumber: 17.0 Consensus size: 6
215132 CTAAACCCAT
* * **
215142 TTTAAA TTT-AT TTTAAGA TTT-AA TTT-AT TTTAAA TTTAAA TTTATT
1 TTTAAA TTTAAA TTTAA-A TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* ** *
215188 TTTAAA TTTGAA TTT-GT TTTAAAA TTAAAA TTT-AA TTTAAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTT-AAA TTTAAA TTTAAA TTT-AAA TTTAAA
215236 TTTAAA
1 TTTAAA
215242 AGTATTATAA
Statistics
Matches: 72, Mismatches: 15, Indels: 14
0.71 0.15 0.14
Matches are distributed among these distances:
5 20 0.28
6 42 0.58
7 10 0.14
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (6 bp):
TTTAAA
Found at i:216411 original size:12 final size:12
Alignment explanation
Indices: 216394--216427 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
216384 GCTAAAGATG
216394 AAAT-AAAAAGAA
1 AAATAAAAAAG-A
216406 AAATAAAAAAGA
1 AAATAAAAAAGA
216418 AAATAAAAAA
1 AAATAAAAAA
216428 AGAGGTTCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 15 0.71
13 6 0.29
ACGTcount: A:0.85, C:0.00, G:0.06, T:0.09
Consensus pattern (12 bp):
AAATAAAAAAGA
Found at i:217153 original size:29 final size:29
Alignment explanation
Indices: 217112--217537 Score: 225
Period size: 29 Copynumber: 14.6 Consensus size: 29
217102 AAGGTCCCTA
*
217112 AATTGTCCAAAAATTACATTTTTACCCTTG
1 AATTTTCC-AAAATTACATTTTTACCCTTG
* *
217142 AATTTTCCAAAATTCCATTTTGA-CCTT-
1 AATTTTCCAAAATTACATTTTTACCCTTG
* * *
217169 TATTTTCCAAAAATTACATTTTCACCCTTA
1 AATTTTCC-AAAATTACATTTTTACCCTTG
* *
217199 AACTTTCCAAAATTCCATTTTTGACCC-TG
1 AATTTTCCAAAATTACATTTTT-ACCCTTG
* * **
217228 ATTTTTTCAAAAATTACATTTTTACCCTCA
1 A-ATTTTCCAAAATTACATTTTTACCCTTG
* *
217258 AACTTTCCAAAATTCCATTTTTTA--CTTCG
1 AATTTTCCAAAATTACA-TTTTTACCCTT-G
* ** *
217287 ATTTTTAAAAAATTACATTTTTACCCTCG
1 AATTTTCCAAAATTACATTTTTACCCTTG
* * *
217316 AACTTTCCAAAATTTCATTTTTGACCCCT-
1 AATTTTCCAAAATTACATTTTT-ACCCTTG
* * * **
217345 ATTTTTAACAAAATTACTTTTTTACCCTCA
1 AATTTT-CCAAAATTACATTTTTACCCTTG
* *
217375 AACTTTT-TAAAATTCCATTTTTGA-CCTTG
1 AA-TTTTCCAAAATTACATTTTT-ACCCTTG
* * *
217404 ATTTTTCTAAAAATTACATTTTTACCCTCG
1 AATTTTC-CAAAATTACATTTTTACCCTTG
* * * *
217434 AA-CTTCCAAAATTTCATTTCCTAACCC--C
1 AATTTTCCAAAATTACATTT--TTACCCTTG
*
217462 AATTTTTCCAAAAATTATCA-TTTTACCCTCG
1 AA-TTTTCC-AAAATTA-CATTTTTACCCTTG
* * *
217493 AACTTT-CAAAATTTCCATTTTTGTCCC-T-
1 AATTTTCCAAAA-TTACATTTTT-ACCCTTG
217521 AATTTTTCCAAAATTAC
1 AA-TTTTCCAAAATTAC
217538 CGTTTTGCCC
Statistics
Matches: 296, Mismatches: 69, Indels: 63
0.69 0.16 0.15
Matches are distributed among these distances:
27 7 0.02
28 50 0.17
29 123 0.42
30 100 0.34
31 14 0.05
32 2 0.01
ACGTcount: A:0.31, C:0.23, G:0.03, T:0.43
Consensus pattern (29 bp):
AATTTTCCAAAATTACATTTTTACCCTTG
Found at i:217255 original size:59 final size:58
Alignment explanation
Indices: 217119--217537 Score: 472
Period size: 59 Copynumber: 7.2 Consensus size: 58
217109 CTAAATTGTC
* * * * *
217119 CAAAAATTACATTTTTACCCTTGAATTTTCCAAAATTCCA-TTTTGACCTTTATTTTC
1 CAAAAATTACATTTTTACCCTCGAACTTTCCAAAATTCCATTTTTGACCCTGATTTTT
* **
217176 CAAAAATTACATTTTCACCCTTAAACTTTCCAAAATTCCATTTTTGACCCTGATTTTTT
1 CAAAAATTACATTTTTACCCTCGAACTTTCCAAAATTCCATTTTTGACCCTGA-TTTTT
* * *
217235 CAAAAATTACATTTTTACCCTCAAACTTTCCAAAATTCCATTTTTTA-CTTCGATTTTT
1 CAAAAATTACATTTTTACCCTCGAACTTTCCAAAATTCCATTTTTGACCCT-GATTTTT
* *
217293 AAAAAATTACATTTTTACCCTCGAACTTTCCAAAATTTCATTTTTGACCCCT-ATTTTT
1 CAAAAATTACATTTTTACCCTCGAACTTTCCAAAATTCCATTTTTGA-CCCTGATTTTT
* * * ** *
217351 AACAAAATTACTTTTTTACCCTCAAACTTTTTAAAATTCCATTTTTGACCTTGATTTTT
1 CA-AAAATTACATTTTTACCCTCGAACTTTCCAAAATTCCATTTTTGACCCTGATTTTT
* * * **
217410 CTAAAAATTACATTTTTACCCTCGAAC-TTCCAAAATTTCATTTCCTAACCCCAATTTTT
1 C-AAAAATTACATTTTTACCCTCGAACTTTCCAAAATTCCATTT-TTGACCCTGATTTTT
* *
217469 CCAAAAATTATCA-TTTTACCCTCGAACTTT-CAAAATTTCCATTTTTGTCCCTAATTTTT
1 -CAAAAATTA-CATTTTTACCCTCGAACTTTCCAAAA-TTCCATTTTTGACCCTGATTTTT
*
217528 CCAAAATTAC
1 CAAAAATTAC
217538 CGTTTTGCCC
Statistics
Matches: 311, Mismatches: 38, Indels: 26
0.83 0.10 0.07
Matches are distributed among these distances:
57 38 0.12
58 92 0.30
59 166 0.53
60 15 0.05
ACGTcount: A:0.31, C:0.23, G:0.03, T:0.43
Consensus pattern (58 bp):
CAAAAATTACATTTTTACCCTCGAACTTTCCAAAATTCCATTTTTGACCCTGATTTTT
Found at i:217336 original size:117 final size:116
Alignment explanation
Indices: 217119--217515 Score: 482
Period size: 117 Copynumber: 3.4 Consensus size: 116
217109 CTAAATTGTC
** * * **
217119 CAAAAATTACATTTTTACCCTTGAATTTTCCAAAATTCCA-TTTTGACCTTTATTTTCCAAAAAT
1 CAAAAATTACATTTTTACCCTCAAACTTTCCAAAATTCCATTTTTGACCTTGATTTTTAAAAAAT
* ** *
217183 TACATTTTCACCCTTAAACTTTCCAAAATTCCATTTTTGACCCTGATTTTTT
66 TACATTTTTACCCTCGAACTTTCCAAAATTTCATTTTTGACCCT-ATTTTTT
*
217235 CAAAAATTACATTTTTACCCTCAAACTTTCCAAAATTCCATTTTTTA-CTTCGATTTTTAAAAAA
1 CAAAAATTACATTTTTACCCTCAAACTTTCCAAAATTCCATTTTTGACCTT-GATTTTTAAAAAA
217299 TTACATTTTTACCCTCGAACTTTCCAAAATTTCATTTTTGACCCCTA-TTTTT
65 TTACATTTTTACCCTCGAACTTTCCAAAATTTCATTTTTGA-CCCTATTTTTT
* * ** *
217351 AACAAAATTACTTTTTTACCCTCAAACTTTTTAAAATTCCATTTTTGACCTTGATTTTTCTAAAA
1 CA-AAAATTACATTTTTACCCTCAAACTTTCCAAAATTCCATTTTTGACCTTGATTTTT-AAAAA
* * * *
217416 ATTACATTTTTACCCTCGAAC-TTCCAAAATTTCATTTCCTAACCCCAATTTTTC
64 ATTACATTTTTACCCTCGAACTTTCCAAAATTTCATTT-TTGA-CCCTATTTTTT
*
217470 CAAAAATTATCA-TTTTACCCTCGAACTTT-CAAAATTTCCATTTTTG
1 CAAAAATTA-CATTTTTACCCTCAAACTTTCCAAAA-TTCCATTTTTG
217516 TCCCTAATTT
Statistics
Matches: 246, Mismatches: 25, Indels: 18
0.85 0.09 0.06
Matches are distributed among these distances:
116 46 0.19
117 121 0.49
118 73 0.30
119 6 0.02
ACGTcount: A:0.31, C:0.23, G:0.03, T:0.43
Consensus pattern (116 bp):
CAAAAATTACATTTTTACCCTCAAACTTTCCAAAATTCCATTTTTGACCTTGATTTTTAAAAAAT
TACATTTTTACCCTCGAACTTTCCAAAATTTCATTTTTGACCCTATTTTTT
Found at i:228654 original size:18 final size:18
Alignment explanation
Indices: 228628--228662 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
228618 CATCTAATAA
*
228628 TGTTCCTTGTAATTATTT
1 TGTTCCTTGTAAATATTT
*
228646 TGTTTCTTGTAAATATT
1 TGTTCCTTGTAAATATT
228663 CGTCAATTTT
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:0.20, C:0.09, G:0.11, T:0.60
Consensus pattern (18 bp):
TGTTCCTTGTAAATATTT
Found at i:229565 original size:28 final size:28
Alignment explanation
Indices: 229367--229619 Score: 140
Period size: 28 Copynumber: 8.8 Consensus size: 28
229357 TTACCTCCAA
* *
229367 ACTTTCCAAAATTCCATTTTTAACCTTATT
1 ACTTTCCAAAATTCCATTTTTAACC-CA-G
** * *
229397 TTTTTCCATAAATTACATTTTT-ACCCTCG
1 ACTTTCCA-AAATTCCATTTTTAACCC-AG
* **
229426 AACTTTCCAAAATTCCATTTTTGACCTTG
1 -ACTTTCCAAAATTCCATTTTTAACCCAG
* * * *
229455 ATTTTCCCAAAAAATTACA-TTTTACCCCTG
1 ACTTT-CC--AAAATTCCATTTTTAACCCAG
229485 AACTTTCCAAAATTCCATTTTTAACCCTA-
1 -ACTTTCCAAAATTCCATTTTTAACCC-AG
* * **
229514 ATTTTTCTAAAAATTATATTTTTAACCCAG
1 A-CTTTC-CAAAATTCCATTTTTAACCCAG
229544 ACTTTCCAAAATTCCATTTTTAACCCA-
1 ACTTTCCAAAATTCCATTTTTAACCCAG
* * * * *
229571 ATTTTCTAAAAATTACATTTTTACCCCCG
1 ACTTTC-CAAAATTCCATTTTTAACCCAG
229600 AAC-TT-CAAAATTCCATTTTT
1 -ACTTTCCAAAATTCCATTTTT
229620 TGACCCCAAT
Statistics
Matches: 171, Mismatches: 36, Indels: 35
0.71 0.15 0.14
Matches are distributed among these distances:
27 18 0.11
28 48 0.28
29 34 0.20
30 47 0.27
31 24 0.14
ACGTcount: A:0.32, C:0.24, G:0.02, T:0.42
Consensus pattern (28 bp):
ACTTTCCAAAATTCCATTTTTAACCCAG
Found at i:229755 original size:30 final size:27
Alignment explanation
Indices: 229355--229769 Score: 162
Period size: 30 Copynumber: 14.1 Consensus size: 27
229345 AAAAATTATA
*
229355 TTTTACCTCCAAACTTTCCAAAATTCCAT
1 TTTTACC-CC-AATTTTCCAAAATTCCAT
** * *
229384 TTTTAACCTTATTTTTTTCCATAAATTACAT
1 TTTT-ACCCCA--ATTTTCCA-AAATTCCAT
*
229415 TTTTACCCTCGAACTTTCCAAAATTCCAT
1 TTTTACCC-C-AATTTTCCAAAATTCCAT
*** *
229444 TTTTGACCTTGATTTTCCCAAAAAATTACA-
1 TTTT-ACCCCAATTTT-CC--AAAATTCCAT
*
229474 TTTTACCCCTGAACTTTCCAAAATTCCAT
1 TTTTACCCC--AATTTTCCAAAATTCCAT
* * **
229503 TTTTAACCCTAATTTTTCTAAAAATTATAT
1 TTTT-ACCCCAA-TTTTC-CAAAATTCCAT
* *
229533 TTTTAACCCAGACTTTCCAAAATTCCAT
1 TTTTACCCCA-ATTTTCCAAAATTCCAT
* * *
229561 TTTTAACCCAATTTTCTAAAAATTACAT
1 TTTTACCCCAATTTTC-CAAAATTCCAT
*
229589 TTTTACCCCCGAA-CTT-CAAAATTCCATT
1 TTTTA-CCCC-AATTTTCCAAAATTCCA-T
**
229617 TTTTGACCCCAATTTTTTTAAAAATTTACCA-
1 TTTT-ACCCCAA--TTTTCCAAAA-TT-CCAT
*
229648 TTTTACCCTCGAA-CTT-CAAAATTCCATT
1 TTTTACCC-C-AATTTTCCAAAATTCCA-T
**
229676 TTTTGACCCCAATTTTTTTAAAAATTTACCA-
1 TTTT-ACCCCAA--TTTTCCAAAA-TT-CCAT
*
229707 TTTTACCCCCGAA-CTTCCAAAATTTCCAT
1 TTTTA-CCCC-AATTTTCCAAAA-TTCCAT
229736 TTTTGACCCCAATTTTTCCAAAATTACCAT
1 TTTT-ACCCCAA-TTTTCCAAAATT-CCAT
229766 TTTT
1 TTTT
229770 GCCTCCGAGT
Statistics
Matches: 292, Mismatches: 48, Indels: 91
0.68 0.11 0.21
Matches are distributed among these distances:
26 3 0.01
27 19 0.07
28 70 0.24
29 68 0.23
30 72 0.25
31 45 0.15
32 9 0.03
33 6 0.02
ACGTcount: A:0.31, C:0.25, G:0.03, T:0.42
Consensus pattern (27 bp):
TTTTACCCCAATTTTCCAAAATTCCAT
Found at i:229759 original size:59 final size:58
Alignment explanation
Indices: 229342--229768 Score: 431
Period size: 59 Copynumber: 7.3 Consensus size: 58
229332 CCCTAAACTG
* * * * ** *
229342 TCCAAAAATTATATTTTACCTCCAAACTTTCCAAAATTCCATTTTTAACCTTATTTTTT
1 TCCAAAAATTACATTTTACCCCCGAACTTTCCAAAATTCCATTTTTGACCCCA-ATTTT
* * ***
229401 TCCATAAATTACATTTTTACCCTCGAACTTTCCAAAATTCCATTTTTGACCTTGATTTT
1 TCCAAAAATTACA-TTTTACCCCCGAACTTTCCAAAATTCCATTTTTGACCCCAATTTT
* * * *
229460 CCCAAAAAATTACATTTTACCCCTGAACTTTCCAAAATTCCATTTTTAACCCTAATTTT
1 TCC-AAAAATTACATTTTACCCCCGAACTTTCCAAAATTCCATTTTTGACCCCAATTTT
* * * * *
229519 TCTAAAAATTATATTTTTAACCCAG-ACTTTCCAAAATTCCATTTTT-AACCCAA-TTT
1 TCCAAAAATTACA-TTTTACCCCCGAACTTTCCAAAATTCCATTTTTGACCCCAATTTT
*
229575 TCTAAAAATTACATTTTTACCCCCGAAC-TT-CAAAATTCCATTTTTTGACCCCAATTTT
1 TCCAAAAATTACA-TTTTACCCCCGAACTTTCCAAAATTCCA-TTTTTGACCCCAATTTT
** *
229633 TTTAAAAATTTACCATTTTACCCTCGAAC-TT-CAAAATTCCATTTTTTGACCCCAATTTT
1 TCCAAAAA-TTA-CATTTTACCCCCGAACTTTCCAAAATTCCA-TTTTTGACCCCAATTTT
**
229692 TTTAAAAATTTACCATTTTACCCCCGAAC-TTCCAAAATTTCCATTTTTGACCCCAATTTT
1 TCCAAAAA-TTA-CATTTTACCCCCGAACTTTCCAAAA-TTCCATTTTTGACCCCAATTTT
229752 TCC-AAAATTACCATTTT
1 TCCAAAAATTA-CATTTT
229769 TGCCTCCGAG
Statistics
Matches: 326, Mismatches: 31, Indels: 23
0.86 0.08 0.06
Matches are distributed among these distances:
55 10 0.03
56 32 0.10
57 13 0.04
58 50 0.15
59 147 0.45
60 69 0.21
61 5 0.02
ACGTcount: A:0.32, C:0.24, G:0.03, T:0.41
Consensus pattern (58 bp):
TCCAAAAATTACATTTTACCCCCGAACTTTCCAAAATTCCATTTTTGACCCCAATTTT
Found at i:229770 original size:30 final size:28
Alignment explanation
Indices: 229398--229769 Score: 157
Period size: 28 Copynumber: 12.8 Consensus size: 28
229388 AACCTTATTT
229398 TTTTCCATAAATTA-CATTTTTACCCTCGAA
1 TTTTCCA-AAATTACCATTTTTACCC-C-AA
* ***
229428 CTTTCCAAAATT-CCATTTTTGACCTTGA
1 TTTTCCAAAATTACCATTTTT-ACCCCAA
229456 TTTTCCCAAAAAATTA-CA-TTTTACCCCTGAA
1 TTTT-CC--AAAATTACCATTTTTACCCC--AA
* *
229487 CTTTCCAAAATT-CCATTTTTAACCCTAA
1 TTTTCCAAAATTACCATTTTT-ACCCCAA
* * *
229515 TTTTTCTAAAAATTA-TATTTTTAACCCAGA
1 -TTTTC-CAAAATTACCATTTTTACCCCA-A
* *
229545 CTTTCCAAAATT-CCATTTTTAACCCAA
1 TTTTCCAAAATTACCATTTTTACCCCAA
*
229572 TTTTCTAAAAATTA-CATTTTTACCCCCGAA
1 TTTTC-CAAAATTACCATTTTTA-CCCC-AA
*
229602 -CTT-CAAAATT-CCATTTTTTGACCCCAA
1 TTTTCCAAAATTACCA-TTTTT-ACCCCAA
**
229629 TTTTTTTAAAAATTTACCA-TTTTACCCTCGAA
1 --TTTTCCAAAA-TTACCATTTTTACCC-C-AA
*
229661 -CTT-CAAAATT-CCATTTTTTGACCCCAA
1 TTTTCCAAAATTACCA-TTTTT-ACCCCAA
**
229688 TTTTTTTAAAAATTTACCA-TTTTACCCCCGAA
1 --TTTTCCAAAA-TTACCATTTTTA-CCCC-AA
* *
229720 -CTTCCAAAATTTCCATTTTTGACCCCAA
1 TTTTCCAAAATTACCATTTTT-ACCCCAA
229748 TTTTTCCAAAATTACCATTTTT
1 -TTTTCCAAAATTACCATTTTT
229770 GCCTCCGAGT
Statistics
Matches: 261, Mismatches: 35, Indels: 92
0.67 0.09 0.24
Matches are distributed among these distances:
26 3 0.01
27 19 0.07
28 71 0.27
29 59 0.23
30 62 0.24
31 33 0.13
32 8 0.03
33 6 0.02
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (28 bp):
TTTTCCAAAATTACCATTTTTACCCCAA
Found at i:238271 original size:19 final size:20
Alignment explanation
Indices: 238232--238277 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
238222 TACAAAATAA
238232 TCAAAATAATTTTCAAAAAT
1 TCAAAATAATTTTCAAAAAT
* *
238252 TGAAAATAATTTT-TAAAAT
1 TCAAAATAATTTTCAAAAAT
238271 TCAAAAT
1 TCAAAAT
238278 GTTTATAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 11 0.48
20 12 0.52
ACGTcount: A:0.54, C:0.07, G:0.02, T:0.37
Consensus pattern (20 bp):
TCAAAATAATTTTCAAAAAT
Found at i:240745 original size:13 final size:12
Alignment explanation
Indices: 240726--240760 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
240716 TTTTGCATAA
240726 ATTATTTTTTTT
1 ATTATTTTTTTT
*
240738 ATTTATTTTCTTT
1 A-TTATTTTTTTT
240751 ATTATTTTTT
1 ATTATTTTTT
240761 CTTTTCCCTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (12 bp):
ATTATTTTTTTT
Found at i:241036 original size:30 final size:30
Alignment explanation
Indices: 240931--241074 Score: 112
Period size: 30 Copynumber: 4.6 Consensus size: 30
240921 AAATATCGGA
* * * * *
240931 TCTTCCCAAGCTCTTGAATGCGATATCAAG
1 TCTTCCCAAGATCCTGAATGAGATATTAGG
*
240961 TCTTCCCAAGATCTTGAATGAGATATTAGG
1 TCTTCCCAAGATCCTGAATGAGATATTAGG
*
240991 TCTTCTCAATTCCAAGATCCTGAACGAGATATT-GAG
1 TC-T-TC----CCAAGATCCTGAATGAGATATTAG-G
*
241027 TCTTCCCAAGCTCCT-AATTGAGATATTAGG
1 TCTTCCCAAGATCCTGAA-TGAGATATTAGG
* *
241057 TCTTCTCAAGTTCCTGAA
1 TCTTCCCAAGATCCTGAA
241075 CGTCCTCGTA
Statistics
Matches: 94, Mismatches: 10, Indels: 19
0.76 0.08 0.15
Matches are distributed among these distances:
29 2 0.02
30 59 0.63
31 4 0.04
32 2 0.02
34 2 0.02
35 2 0.02
36 23 0.24
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.33
Consensus pattern (30 bp):
TCTTCCCAAGATCCTGAATGAGATATTAGG
Found at i:244291 original size:22 final size:22
Alignment explanation
Indices: 244246--244318 Score: 66
Period size: 22 Copynumber: 3.5 Consensus size: 22
244236 AATTGAGAGC
*
244246 AAATAAATAAAATACTTATAAA
1 AAATAAATAAAATACATATAAA
*
244268 AAATAAATAAAGTTACATAT--A
1 AAATAAATAAA-ATACATATAAA
*
244289 AAATCAA-AAAATA-A-ATCAAA
1 AAATAAATAAAATACATAT-AAA
244309 AAATAAATAA
1 AAATAAATAA
244319 TTAATAAGTA
Statistics
Matches: 41, Mismatches: 5, Indels: 11
0.72 0.09 0.19
Matches are distributed among these distances:
17 2 0.05
18 1 0.02
19 2 0.05
20 10 0.24
21 9 0.22
22 11 0.27
23 6 0.15
ACGTcount: A:0.70, C:0.05, G:0.01, T:0.23
Consensus pattern (22 bp):
AAATAAATAAAATACATATAAA
Found at i:244304 original size:12 final size:12
Alignment explanation
Indices: 244289--244338 Score: 57
Period size: 12 Copynumber: 4.2 Consensus size: 12
244279 GTTACATATA
244289 AAATCAAAAAAT
1 AAATCAAAAAAT
244301 AAATCAAAAAAT
1 AAATCAAAAAAT
**
244313 AAAT-AATTAAT
1 AAATCAAAAAAT
* *
244324 AAGTAAAAAAAT
1 AAATCAAAAAAT
244336 AAA
1 AAA
244339 AAATGAAAGC
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
11 8 0.26
12 23 0.74
ACGTcount: A:0.74, C:0.04, G:0.02, T:0.20
Consensus pattern (12 bp):
AAATCAAAAAAT
Found at i:244711 original size:25 final size:25
Alignment explanation
Indices: 244683--244740 Score: 107
Period size: 25 Copynumber: 2.3 Consensus size: 25
244673 ATTTAAAACA
*
244683 AAAAAAAAATCTTTTTCATTTGTTT
1 AAAAAAAAATCTTTTTCAGTTGTTT
244708 AAAAAAAAATCTTTTTCAGTTGTTT
1 AAAAAAAAATCTTTTTCAGTTGTTT
244733 AAAAAAAA
1 AAAAAAAA
244741 CAAAAAAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.48, C:0.07, G:0.05, T:0.40
Consensus pattern (25 bp):
AAAAAAAAATCTTTTTCAGTTGTTT
Found at i:246106 original size:96 final size:96
Alignment explanation
Indices: 245942--246141 Score: 384
Period size: 96 Copynumber: 2.1 Consensus size: 96
245932 AGACTTTTTA
245942 GGTTATCATTACGAATGCGTGAATGTTTTACTTTGTGATGTGATGCTCTGAGTTGGTCATTTCAT
1 GGTTATCATTACGAATGCGTGAATGTTTTACTTTGTGATGTGATGCTCTGAGTTGGTCATTTCAT
*
246007 CTAGGATGGGTTTAGGGTGTTTACATTTAGT
66 CTAGGATGGGTTTAGGGTGTTTACATTTACT
246038 GGTTATCATTACGAATGCGTGAATGTTTTACTTTGTGATGTGATGCTCTGAGTTGGTCATTTCAT
1 GGTTATCATTACGAATGCGTGAATGTTTTACTTTGTGATGTGATGCTCTGAGTTGGTCATTTCAT
246103 CTAGGATGGGTTTAGGGTGTTTACATTTACT
66 CTAGGATGGGTTTAGGGTGTTTACATTTACT
246134 GG-TATCAT
1 GGTTATCAT
246142 AGCCAAGTTT
Statistics
Matches: 103, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
95 6 0.06
96 97 0.94
ACGTcount: A:0.20, C:0.11, G:0.27, T:0.42
Consensus pattern (96 bp):
GGTTATCATTACGAATGCGTGAATGTTTTACTTTGTGATGTGATGCTCTGAGTTGGTCATTTCAT
CTAGGATGGGTTTAGGGTGTTTACATTTACT
Found at i:252891 original size:23 final size:25
Alignment explanation
Indices: 252865--252910 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
252855 CCAATTAGGG
252865 AATTAT-TGTTTAG-ATTTAATTCT
1 AATTATCTGTTTAGAATTTAATTCT
*
252888 AATTATCTTTTTAGAATTTAATT
1 AATTATCTGTTTAGAATTTAATT
252911 TGGATCCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 6 0.30
25 8 0.40
ACGTcount: A:0.33, C:0.04, G:0.07, T:0.57
Consensus pattern (25 bp):
AATTATCTGTTTAGAATTTAATTCT
Found at i:258472 original size:62 final size:59
Alignment explanation
Indices: 258375--258488 Score: 174
Period size: 62 Copynumber: 1.9 Consensus size: 59
258365 CACTTTAATT
* *
258375 TTAAATTAATATAATACTTATCAAGATAAATATTAAATTAAATTTAATATTACATCTTA
1 TTAAATTAATAGAATACTTATCAAGATAAACATTAAATTAAATTTAATATTACATCTTA
*
258434 TTAAATTAATAGAATATTTATTTACAAGATAAACATTAAATTAAATTTAATATTA
1 TTAAATTAATAGAATACTTA--T-CAAGATAAACATTAAATTAAATTTAATATTA
258489 AGATACTCAC
Statistics
Matches: 49, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
59 18 0.37
61 1 0.02
62 30 0.61
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (59 bp):
TTAAATTAATAGAATACTTATCAAGATAAACATTAAATTAAATTTAATATTACATCTTA
Found at i:258565 original size:16 final size:17
Alignment explanation
Indices: 258546--258579 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
258536 ATTATATTAA
258546 AATTTTATAA-ATGTTT
1 AATTTTATAATATGTTT
*
258562 AATTTTTTAATATGTTT
1 AATTTTATAATATGTTT
258579 A
1 A
258580 TTATATTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (17 bp):
AATTTTATAATATGTTT
Found at i:258813 original size:19 final size:19
Alignment explanation
Indices: 258789--258825 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
258779 CTATGACATT
258789 TAAAATT-TTGATAAACAAA
1 TAAAATTATT-ATAAACAAA
258808 TAAAATTATTATAAACAA
1 TAAAATTATTATAAACAA
258826 CGTTGAGCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 15 0.88
20 2 0.12
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.32
Consensus pattern (19 bp):
TAAAATTATTATAAACAAA
Found at i:262363 original size:29 final size:27
Alignment explanation
Indices: 262326--262401 Score: 68
Period size: 30 Copynumber: 2.7 Consensus size: 27
262316 TGGATACTCG
262326 AGGG-CAAAATGGTAATTTAGGAAAATTT
1 AGGGTCAAAATGGTAATTTA-G-AAATTT
*
262354 AGGGTCAAAAATGG-AATTTTTAGATATTT
1 AGGGTC-AAAATGGTAA--TTTAGAAATTT
262383 AGGGGT-AAAATGGTAATTT
1 A-GGGTCAAAATGGTAATTT
262402 TTAAAAAAAT
Statistics
Matches: 41, Mismatches: 1, Indels: 13
0.75 0.02 0.24
Matches are distributed among these distances:
27 3 0.07
28 11 0.27
29 11 0.27
30 12 0.29
31 4 0.10
ACGTcount: A:0.39, C:0.03, G:0.25, T:0.33
Consensus pattern (27 bp):
AGGGTCAAAATGGTAATTTAGAAATTT
Found at i:262394 original size:58 final size:56
Alignment explanation
Indices: 262331--262552 Score: 214
Period size: 59 Copynumber: 3.8 Consensus size: 56
262321 ACTCGAGGGC
* *
262331 AAAATGGTAATTTAGGAAAATTTAGGGTCAAAAATGGAATTTTTAGATA-TTTAGGGGT
1 AAAATGGTAATTTTGGAAAA-TTGGGGTCAAAAATGGAATTTTT-GA-AGTTTAGGGGT
** * * * * *
262389 AAAATGGTAATTTTTAAAAAAATGGGTGTCAAAAATAGAGTTTTTGGAAGTTCAAGGGT
1 AAAATGGTAA-TTTTGGAAAATTGGG-GTCAAAAATGGAATTTTT-GAAGTTTAGGGGT
* *
262448 AAAATGGTAATTTTGGTAAAATCGGGGT-AAAAATGGAATTTTTGAAAGTTTGGGGGT
1 AAAATGGTAATTTTGG-AAAATTGGGGTCAAAAATGGAATTTTTG-AAGTTTAGGGGT
* * *
262505 AAAATGGTAATTTTTGGAAAAGTCGAGGTCAAAAATGAAATTTTTGAA
1 AAAATGGTAA-TTTTGGAAAA-TTGGGGTCAAAAATGGAATTTTTGAA
262553 AGTTCGAGCG
Statistics
Matches: 135, Mismatches: 21, Indels: 16
0.78 0.12 0.09
Matches are distributed among these distances:
56 1 0.01
57 36 0.27
58 34 0.25
59 64 0.47
ACGTcount: A:0.40, C:0.03, G:0.25, T:0.33
Consensus pattern (56 bp):
AAAATGGTAATTTTGGAAAATTGGGGTCAAAAATGGAATTTTTGAAGTTTAGGGGT
Found at i:262461 original size:28 final size:28
Alignment explanation
Indices: 262429--262586 Score: 101
Period size: 29 Copynumber: 5.4 Consensus size: 28
262419 AAAAATAGAG
*
262429 TTTTTGGAAGTTCAAGGGTAAAATGGTAA
1 TTTTTGGAAGTTC-GGGGTAAAATGGTAA
**
262458 -TTTTGGTAAAATCGGGGTAAAAATGG-AA
1 TTTTTGG-AAGTTCGGGGT-AAAATGGTAA
* *
262486 TTTTTGAAAGTTTGGGGGTAAAATGGTAA
1 TTTTTGGAAG-TTCGGGGTAAAATGGTAA
* *
262515 TTTTTGGAAAAG-TCGAGGTCAAAAAT-GAAA
1 TTTTTGG--AAGTTCGGGGT--AAAATGGTAA
* *
262545 TTTTTGAAAGTTCGAGCGTAAAAAT-GTAA
1 TTTTTGGAAGTTCG-GGGT-AAAATGGTAA
262574 TTTTTGGATAGTT
1 TTTTTGGA-AGTT
262587 TAGGGACCTT
Statistics
Matches: 101, Mismatches: 16, Indels: 23
0.72 0.11 0.16
Matches are distributed among these distances:
28 24 0.24
29 54 0.53
30 15 0.15
31 8 0.08
ACGTcount: A:0.35, C:0.04, G:0.26, T:0.35
Consensus pattern (28 bp):
TTTTTGGAAGTTCGGGGTAAAATGGTAA
Done.