Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01011826.1 Corchorus capsularis cultivar CVL-1 contig11847, 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: 56316
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.35
Found at i:342 original size:109 final size:109
Alignment explanation
Indices: 195--484 Score: 451
Period size: 109 Copynumber: 2.6 Consensus size: 109
185 AACGGTAAAA
* *
195 ATAAAAAAAAAGTTA-TATAAA-ATATT-GAATTTAATTAAATGAAAATAGAGTTTTTAGTAGAA
1 ATAAAAATAAAGTAATTATAAAGATATTAG-ATTTAATTAAATGAAAATAGAGTTTTTAGTAGAA
257 TAAAATTGTATATTAGAAAAAATTTTAATATATCCAAATTTTTTG
65 TAAAATTGTATATTAGAAAAAATTTTAATATATCCAAATTTTTTG
*
302 GTAAAAATAAAGTAATTATAAAGATATTAGATTTAATTAAATGAAAATAGAGTTTTTAGTAGAAT
1 ATAAAAATAAAGTAATTATAAAGATATTAGATTTAATTAAATGAAAATAGAGTTTTTAGTAGAAT
*
367 AAAATTGTATATTAGAAAAAATTTTAGTATATCCAAATTTTTTG
66 AAAATTGTATATTAGAAAAAATTTTAATATATCCAAATTTTTTG
* *
411 ATAAAAATAAAGTAATTATAAAGATATTAGATTTAATTTAATTGAATAAAAATAGAGTTTCTAGT
1 ATAAAAATAAAGTAATTATAAAGATATTAGATTTAA-TT-A---AATGAAAATAGAGTTTTTAGT
476 AGAATAAAA
61 AGAATAAAA
485 CTATAATAGT
Statistics
Matches: 168, Mismatches: 7, Indels: 9
0.91 0.04 0.05
Matches are distributed among these distances:
107 12 0.07
108 6 0.04
109 118 0.70
110 3 0.02
111 1 0.01
114 28 0.17
ACGTcount: A:0.50, C:0.02, G:0.11, T:0.37
Consensus pattern (109 bp):
ATAAAAATAAAGTAATTATAAAGATATTAGATTTAATTAAATGAAAATAGAGTTTTTAGTAGAAT
AAAATTGTATATTAGAAAAAATTTTAATATATCCAAATTTTTTG
Found at i:4687 original size:29 final size:29
Alignment explanation
Indices: 4645--4702 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
4635 GCTCACCCCG
*
4645 CCCAAAAGCCCAAAACCTTTTAAAAGACA
1 CCCAAAAGCCCAAAACCTCTTAAAAGACA
4674 CCCAAAAGCCCAAAACCTCTTAAAAGACA
1 CCCAAAAGCCCAAAACCTCTTAAAAGACA
4703 AAATTTTGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.48, C:0.33, G:0.07, T:0.12
Consensus pattern (29 bp):
CCCAAAAGCCCAAAACCTCTTAAAAGACA
Found at i:6164 original size:18 final size:18
Alignment explanation
Indices: 6141--6175 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6131 CTATGAAATC
* *
6141 AAGCTTGGATACTGGTGG
1 AAGCTTGAATACCGGTGG
6159 AAGCTTGAATACCGGTG
1 AAGCTTGAATACCGGTG
6176 TCTTGTTTGG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.14, G:0.34, T:0.26
Consensus pattern (18 bp):
AAGCTTGAATACCGGTGG
Found at i:11642 original size:36 final size:35
Alignment explanation
Indices: 11602--11669 Score: 109
Period size: 36 Copynumber: 1.9 Consensus size: 35
11592 AAGTGAAAGG
*
11602 CACTTCATACAGAACAGGGCAATGATTAAAAGGATT
1 CACTTCATACAAAACAGGGCAA-GATTAAAAGGATT
*
11638 CACTTCATACAAAACAGGGCAAGATTGAAAGG
1 CACTTCATACAAAACAGGGCAAGATTAAAAGG
11670 GATGACTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
35 9 0.30
36 21 0.70
ACGTcount: A:0.43, C:0.18, G:0.21, T:0.19
Consensus pattern (35 bp):
CACTTCATACAAAACAGGGCAAGATTAAAAGGATT
Found at i:12857 original size:188 final size:188
Alignment explanation
Indices: 12536--12912 Score: 727
Period size: 188 Copynumber: 2.0 Consensus size: 188
12526 TATTGTTCTG
12536 CTATAACCGTATAACTACTGCTCATCTATATGTTAGAAATAAAATAAAACAAAAAAGAGTGAAAC
1 CTATAACCGTATAACTACTGCTCATCTATATGTTAGAAATAAAATAAAACAAAAAAGAGTGAAAC
* *
12601 TGCTCTATGCTCTATTGTTGGCTAAGGAACTTTTGCAGGAAATGGGAGTGTCATTTAGCCATTGA
66 TGCTCTATGCTCCATTGTTGGCTAAGGAACTTTTGCAGGAAATGGGAGTGTCATTTAGCCACTGA
12666 GCTCTAAAGCCTAACATAACAAATTGATAATAGTATATCATACCATCCATGAACCATC
131 GCTCTAAAGCCTAACATAACAAATTGATAATAGTATATCATACCATCCATGAACCATC
*
12724 CTATAACCTTATAACTACTGCTCATCTATATGTTAGAAATAAAATAAAACAAAAAAGAGTGAAAC
1 CTATAACCGTATAACTACTGCTCATCTATATGTTAGAAATAAAATAAAACAAAAAAGAGTGAAAC
12789 TGCTCTATGCTCCATTGTTGGCTAAGGAACTTTTGCAGGAAATGGGAGTGTCATTTAGCCACTGA
66 TGCTCTATGCTCCATTGTTGGCTAAGGAACTTTTGCAGGAAATGGGAGTGTCATTTAGCCACTGA
12854 GCTCTAAAGCCTAACATAACAAATTGATAATAGTATATCATACCATCCATGAACCATC
131 GCTCTAAAGCCTAACATAACAAATTGATAATAGTATATCATACCATCCATGAACCATC
12912 C
1 C
12913 CCTGGAAAGT
Statistics
Matches: 186, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
188 186 1.00
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.28
Consensus pattern (188 bp):
CTATAACCGTATAACTACTGCTCATCTATATGTTAGAAATAAAATAAAACAAAAAAGAGTGAAAC
TGCTCTATGCTCCATTGTTGGCTAAGGAACTTTTGCAGGAAATGGGAGTGTCATTTAGCCACTGA
GCTCTAAAGCCTAACATAACAAATTGATAATAGTATATCATACCATCCATGAACCATC
Found at i:21767 original size:23 final size:23
Alignment explanation
Indices: 21741--21786 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
21731 ATAAGCAAGA
21741 GCTTTTTGGGATATTGAATCCGT
1 GCTTTTTGGGATATTGAATCCGT
21764 GCTTTTTGGGATATTGAATCCGT
1 GCTTTTTGGGATATTGAATCCGT
21787 TTCTTGAGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.17, C:0.13, G:0.26, T:0.43
Consensus pattern (23 bp):
GCTTTTTGGGATATTGAATCCGT
Found at i:23941 original size:13 final size:13
Alignment explanation
Indices: 23923--23948 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
23913 ATCTCCCATC
23923 CATTCAGGAATTT
1 CATTCAGGAATTT
23936 CATTCAGGAATTT
1 CATTCAGGAATTT
23949 GAGTAGAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
CATTCAGGAATTT
Found at i:30863 original size:21 final size:21
Alignment explanation
Indices: 30820--30864 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
30810 CAATTCCAAT
*
30820 CAAGCCCAAATCTCAACGTGA
1 CAAGCCCAAATCCCAACGTGA
*
30841 CAAGTCCCAACTCCCAACG-GA
1 CAAG-CCCAAATCCCAACGTGA
30862 CAA
1 CAA
30865 CGATACAACG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.38, C:0.38, G:0.13, T:0.11
Consensus pattern (21 bp):
CAAGCCCAAATCCCAACGTGA
Found at i:39751 original size:6 final size:6
Alignment explanation
Indices: 39740--39764 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
39730 CAATATTTAG
39740 TTGGAT TTGGAT TTGGAT TTGGAT T
1 TTGGAT TTGGAT TTGGAT TTGGAT T
39765 ATTCCGTCAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.32, T:0.52
Consensus pattern (6 bp):
TTGGAT
Found at i:43615 original size:18 final size:18
Alignment explanation
Indices: 43589--43623 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
43579 TAATCAAAGA
*
43589 TTTATGGTTTTAATAGGG
1 TTTAGGGTTTTAATAGGG
43607 TTTAGGGTTTTAATAGG
1 TTTAGGGTTTTAATAGG
43624 AATAGCATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.23, C:0.00, G:0.29, T:0.49
Consensus pattern (18 bp):
TTTAGGGTTTTAATAGGG
Found at i:47985 original size:25 final size:24
Alignment explanation
Indices: 47935--47981 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
47925 CCATCAAATA
** * *
47935 ATTGAAAGTTTTTTTTTGGCCATG
1 ATTGAAAGTTCGTTTTAGGCAATG
47959 ATTGAAAGTTCGTTTTAGGCAAT
1 ATTGAAAGTTCGTTTTAGGCAAT
47982 TGATGAGTAG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.26, C:0.09, G:0.21, T:0.45
Consensus pattern (24 bp):
ATTGAAAGTTCGTTTTAGGCAATG
Found at i:54072 original size:19 final size:19
Alignment explanation
Indices: 54050--54087 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
54040 TGGCTGAAAA
54050 CGCGTTCCGGGGCTTCGAC
1 CGCGTTCCGGGGCTTCGAC
54069 CGCGTTCCGGGGCTTCGAC
1 CGCGTTCCGGGGCTTCGAC
54088 TCAGTTTTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.05, C:0.37, G:0.37, T:0.21
Consensus pattern (19 bp):
CGCGTTCCGGGGCTTCGAC
Found at i:55557 original size:334 final size:334
Alignment explanation
Indices: 51081--56312 Score: 3975
Period size: 334 Copynumber: 15.5 Consensus size: 334
51071 TTCATTAGGT
* * *
51081 ATATGTTTTTACGAGCTTCTAAATCTTGTTTCGATTTAATCAGAAATTAATTTGGAAATAAATAG
1 ATATGTTTTTACGAGCTTCTGAATCTTGTTTCGATTTAATCAGAAATTAAATTGGAAAAAAATAG
* * * * ** *
51146 GAAAAACCATATGTGAAGCATGAAAAGCCCTTAAATCTGTTTGGCGTTGAATTATAAATTACTTG
66 GAAAAACCATTTTTGAAGCATGAAAAGCCCTTAAATCTTTTTGGCATTGAATTATAAATTTTTTA
* * * *** * * *
51211 TGAGTATTGTGGTCAAAAATTGA-AAAAAAAAATTTCGATTCAATTTTTGCTAAATTATAGTC-G
131 TGAGTACTGTGGCCAAAAATTGAGGAAAAATTTTTTCGTTTCAATTTTTGCAAAATTTTAG-CAG
* * * * * * *
51274 AAATCGTGTACTAACCATCACAGTTTCGGGCTGAAAATGCGTTTCGAGGC-CCTGGCTCAGTTTT
195 AAATCGTGTAGTAACCATCACGGTTTCTGGCTGAAAACGCATTCCGGGGCTCC-GGCTCAGTTTT
*** * * * *
51338 G-ATAGATTTTTAATGTCGAGACTACTCGAAATATCTATATTCATCTAATCAAGTCTCAGCCACA
259 GCAT-GATTTTTGGCGCCGAGACTCCTTGTAATATCTATATTCATCTAATCAAGTCTCAGCCACA
51402 TTGGATTTAAGG
323 TTGGATTTAAGG
** * * *
51414 ATATAATTTTATGAGCTTCTCAATCTTGTTTCGATTTAATCAGAAATTAATTTGGAAAAAAATAG
1 ATATGTTTTTACGAGCTTCTGAATCTTGTTTCGATTTAATCAGAAATTAAATTGGAAAAAAATAG
* * * * *
51479 AAAAAAACCATTTGTGAAGCATGAAAAGTCCTTAAATCTTTTTGGCGTTGAATAAT-AATTTTCT
66 -GAAAAACCATTTTTGAAGCATGAAAAGCCCTTAAATCTTTTTGGCATTGAATTATAAATTTT-T
* * * * *
51543 TATGAGTACTGTGACCAAATATTGAGGAAAAATTTTTT-GTTTCAGTTTTTGAAAAATTTTAGCC
129 TATGAGTACTGTGGCCAAAAATTGAGGAAAAATTTTTTCGTTTCAATTTTTGCAAAATTTTAGCA
* * ** * * * *
51607 GAAATTC-TTTACTAACCATCACGGTTTCCAGCTGAAAACGCGTTTCGAGGCACCGGCTCAGTTT
194 GAAA-TCGTGTAGTAACCATCACGGTTTCTGGCTGAAAACGCATTCCGGGGCTCCGGCTCAGTTT
* * * * *
51671 TGCAAGATTTTTGGTGCCGAGACTCCTTGAAATATTTATATTCATCTAATCAAGTCTCAGTCACA
258 TGCATGATTTTTGGCGCCGAGACTCCTTGTAATATCTATATTCATCTAATCAAGTCTCAGCCACA
*
51736 TTGGATTTGAGG
323 TTGGATTTAAGG
** * *
51748 ATATGTTTTTACGAGCTTCTCCATCTTGTTTTGATTTAATCAGAAATTAATTTGGAAAAAAAAAA
1 ATATGTTTTTACGAGCTTCTGAATCTTGTTTCGATTTAATCAGAAATTAAATTGG---AAAAAAA
* * * ** * *
51813 TAGAAAAAAACCATTTGTGAAGCAAGAAAAGTTCTTAAATCTTTTTAGCGTTGAATTAT-AATTT
63 TAG-GAAAAACCATTTTTGAAGCATGAAAAGCCCTTAAATCTTTTTGGCATTGAATTATAAATTT
* *
51877 TCTTATGAGTACTGTGGCCAAAAATTGTGGAAAAAATTTTTCGTTTCAATTTTTGCAAAATTTTA
127 T-TTATGAGTACTGTGGCCAAAAATTGAGGAAAAATTTTTTCGTTTCAATTTTTGCAAAATTTTA
* * * * * * * * *
51942 GCCGAAATCGTTTACTAACCACCACGGTTTCGGGTTGAAAACGCGTTCCGAGGCCCCGGCTCAGT
191 GCAGAAATCGTGTAGTAACCATCACGGTTTCTGGCTGAAAACGCATTCCGGGGCTCCGGCTCAGT
* * *
52007 TTTGCAAGATTTTTGGCGCTGAGACTCCTTGAAATATCTATATTCATCTAATCAAGTCTCAGCCA
256 TTTGCATGATTTTTGGCGCCGAGACTCCTTGTAATATCTATATTCATCTAATCAAGTCTCAGCCA
* *
52072 TATTAGATTTAAGG
321 CATTGGATTTAAGG
* ** **
52086 ATATGTTTTTACAAGCTTCACAATCTTGTTTCGATTTAATCAGAAATTAGTTTGGAAAAAAATAG
1 ATATGTTTTTACGAGCTTCTGAATCTTGTTTCGATTTAATCAGAAATTAAATTGGAAAAAAATAG
* * * *
52151 AAAAAAACCATTTGTGAAGCATGAAAAGTCCTTAAATCATTTTGGCATTGAATTAT-AATTTTCT
66 -GAAAAACCATTTTTGAAGCATGAAAAGCCCTTAAATCTTTTTGGCATTGAATTATAAATTTT-T
* *
52215 TATGAGTACTGTGGCCAAAAATTGAGGAAAAA-TTTTTCGTTTCAGTTTTTGCAAAATTTTAGCC
129 TATGAGTACTGTGGCCAAAAATTGAGGAAAAATTTTTTCGTTTCAATTTTTGCAAAATTTTAGCA
* * * * * *
52279 GAAATCGTTTACTAACACCATCACGGTTTCGGGCTGAAAACGCGTTCCGAGGCCCCGGCTCAGTT
194 GAAATCGTGTAGT-A-ACCATCACGGTTTCTGGCTGAAAACGCATTCCGGGGCTCCGGCTCAGTT
* * * *
52344 TTGTAAGATTTTTGGCGCCGAGACTCCCTGAAATATCTATATTCATCTAATCAAGTCTCAGCCAC
257 TTGCATGATTTTTGGCGCCGAGACTCCTTGTAATATCTATATTCATCTAATCAAGTCTCAGCCAC
52409 ATTGGATTTAAGG
322 ATTGGATTTAAGG
* * *
52422 ATATGTTTTTACGAGCTTCTCAATCTTGTTTCGATTTAATCTGAAATTAATTTGG-AAAAAA-A-
1 ATATGTTTTTACGAGCTTCTGAATCTTGTTTCGATTTAATCAGAAATTAAATTGGAAAAAAATAG
* * *
52484 -AAAAACCATTTGTGAAGCATGAAAAGTCCTTAAATCTTTTTGGCGTTGAATTAT-AATTTTCTT
66 GAAAAACCATTTTTGAAGCATGAAAAGCCCTTAAATCTTTTTGGCATTGAATTATAAATTTT-TT
* * *
52547 ATGAGTACTGTGGTCAAAAATTGAGG-AAAATTTTTTCGTTTCAGTTTTTGCAAAATTTTAGCCG
130 ATGAGTACTGTGGCCAAAAATTGAGGAAAAATTTTTTCGTTTCAATTTTTGCAAAATTTTAGCAG
* * * * * * *
52611 AAATCGTGTACTATCAATCACGGTTTTTTTTGCTGAAAACGCGTTCCGAGG-TCCCGGCTCAGTT
195 AAATCGTGTAGTAACCATCACGG--TTTCTGGCTGAAAACGCATTCCGGGGCT-CCGGCTCAGTT
* * * * *
52675 TTGCAAGATTTTTGGCGCCGAGACTCCTTG----ATCTTTATGCATCTAATGAAGTCTCAACCAC
257 TTGCATGATTTTTGGCGCCGAGACTCCTTGTAATATCTATATTCATCTAATCAAGTCTCAGCCAC
*
52736 ATTGGACTTAAGG
322 ATTGGATTTAAGG
* * * *
52749 ATAAGTTTTTACGAGTTTCTAAATCTTGTTTCGATTTAATCTGAAATTAAATTGGAAAAAAATAG
1 ATATGTTTTTACGAGCTTCTGAATCTTGTTTCGATTTAATCAGAAATTAAATTGGAAAAAAATAG
* * * * *
52814 AAAAAAACCATTTGTGAAGCATGAAAGGCCCTTAAAT-TTTTTGGTGA-TGAATTATAAATTTTC
66 -GAAAAACCATTTTTGAAGCATGAAAAGCCCTTAAATCTTTTTGG-CATTGAATTATAAATTTTT
** * ** * *
52877 TATGAGTACTGTGGCCGTAATTTGAGG-AAAA-TTTTTCGGAT-AAGTTTTTCCAAATTTTTAGC
129 TATGAGTACTGTGGCCAAAAATTGAGGAAAAATTTTTTCGTTTCAA-TTTTTGCAAAATTTTAGC
* * * * * * * * *
52939 GGAAATC--GT-GT-ACTATCACAGTTTCCGGCTGAAAACACGTTCCGGGGTTCCGACTCAATTT
193 AGAAATCGTGTAGTAACCATCACGGTTTCTGGCTGAAAACGCATTCCGGGGCTCCGGCTCAGTTT
* * * * *
53000 TGCAAGATTTTTGGCGCCGAGATTCCATGAAATATTTATATTCATCTAATCAAGTCTCAGCCACA
258 TGCATGATTTTTGGCGCCGAGACTCCTTGTAATATCTATATTCATCTAATCAAGTCTCAGCCACA
*
53065 TTGGATTTAATG
323 TTGGATTTAAGG
* * * * * * *
53077 ATAAGGTTTTCACGAGATTCTGAATCTTGTTTCGATTTAATCAGAAAATAATTTTGAAAAAAAAA
1 AT-ATGTTTTTACGAGCTTCTGAATCTTGTTTCGATTTAATCAGAAATTAAATTGGAAAAAAATA
* * * * *
53142 GTAATAACCATTTGTGAAGCATGAAAAGCCCTTAAATCTTTTTGGCGTTGAATTATAAATATTTT
65 GGAAAAACCATTTTTGAAGCATGAAAAGCCCTTAAATCTTTTTGGCATTGAATTATAAATTTTTT
* * *
53207 ATGAGTAATGTGGCCAAAAATTGAGGAAAATTTTTTTCATTTCAATTTTTGCAAAATTTTAGCAG
130 ATGAGTACTGTGGCCAAAAATTGAGGAAAAATTTTTTCGTTTCAATTTTTGCAAAATTTTAGCAG
* * * *
53272 AACTCGTGTAGTAACCATCACGGTTTCTGGCT-AAAACGCGTTCCGGGTCTCCGGCTAAGTTTTG
195 AAATCGTGTAGTAACCATCACGGTTTCTGGCTGAAAACGCATTCCGGGGCTCCGGCTCAGTTTTG
* *
53336 CATGATTTTTGGCGCCGAGACTCCTTGT-ATATTTATATTCATCTAATCAAGTACTC-TCTC-C-
260 CATGATTTTTGGCGCCGAGACTCCTTGTAATATCTATATTCATCTAATCAAGT-CTCAGC-CACA
*** *
53397 ---G-TCCCA-T
323 TTGGATTTAAGG
* * * *** * * * ** * *** **
53404 AT-TATTTGT-CCA-CTT-T---TCCCCTAATAGAAGTGGA-CAG--A-TAATATGGGACGGAGG
1 ATATGTTTTTACGAGCTTCTGAATCTTGT-TTCG-ATTTAATCAGAAATTAA-ATTGGAAAAAAA
* * * ** * * * * * *
53458 GAGTATCATCCACATTGGATTT-AAGGAT-ATATTATTACGAGCTTCTGAATCTAGTTTCG-ATT
63 TAGGA-AAAAC-CATT---TTTGAAGCATGA-A--A--A-G-CCCT-TAAATCT-TTTTGGCATT
* * * * * ** ** *** *
53520 TAATCAAAAATTAAATTGAAAAAAAAAATAGG-AAAAACCATTTGTGAAGCATGAAAAGCCCTTA
114 GAATTATAAATT--TTTTATGAGTACTGT-GGCCAAAA--A--T-TG-AG---G--AA------A
** * * * * * **
53584 AATCTTTTTGGCGTTGAAT-AATAAATTTTTTATAAGTACTATGGCTAAAAAT--TG-AGGAAAA
159 AAT-TTTTT--CGTT---TCAAT---TTTTGCA-AA--ATTTTAGC-AGAAATCGTGTAGTAACC
** *** * *** * *** ** * ***
53645 ATTTTTC-GTTTCAATTTTTACAAAATTTTAGT-C-GAAAT-CGTAT-A-CTAACCATGACGGTT
211 A--TCACGGTTTC--TGGCT-GAAAA-CGCATTCCGGGGCTCCGGCTCAGTTTTGCATGA---TT
* *** * ** *** * * * **** ** * *
53704 TCTGGCTGAAAACGCATTCCGGGGCCCTGA-CTA-AGTTTAGCATGATTTTTTGGCA-CCGAGAC
267 TTTGGC-GCCGA-G-ACTCC-TTGTAAT-ATCTATA-TTCATC-TAATCAAGTCTCAGCC-ACAT
** *
53766 T-CCTTGTAA-T
324 TGGATT-TAAGG
* * * * * ** * ** * **
53776 ATCTATATTCATCTAATCAAGCCTCAGCCTCATTGGATTTAAGGATATGTTTTTACGAGCTTCTG
1 A--TATGTT--T-TTA-CGAGCTTCTGAATC-TT-G-TTT--CGAT-T-TAATCA-GA-AAT-T-
* ***** ** ** * ** ** * * *** *
53841 AATCTTGTTTCGATTTAATCAGAAATTAAATTGGAA--A-AAAATAG--GAAAAACCATTTTTGA
49 AA-ATTGGAAAAAAAT-AGGAAAAACCATTTTTGAAGCATGAAA-AGCCCTTAAATC-TTTTT--
* *
53901 AGCACGAAAAGCCCTTAAATCTTTTTGGAATTGAATTATAAATTTTTTATGAGTATTGTGACCAA
108 -----G----G---------C--------ATTGAATTATAAATTTTTTATGAGTACTGTGGCCAA
* * *
53966 AAATTGAGGAAAAATTTTTTCATTTCAATTTTTTG--AAATTTTAGCAGAAATCATGTAATAACC
147 AAATTGAGGAAAAATTTTTTCGTTTCAA-TTTTTGCAAAATTTTAGCAGAAATCGTGTAGTAACC
*
54029 ATCACGGTTTCTGGCTGAAAACGCGTTCCGGGGCTTCGACCGCGTTCCGGGGCTTCGACTCAGTT
211 ATCACGGTTTCTGGCTGAAAACGCATTCC--GG----G---GC--TCC---G----G-CTCAGTT
** * * * * *
54094 TTGTC-TTCTTTTTGGAGCCAAGACTCCTTGTTATATATATATATTCATCTAATCAAGTTTCAGT
257 TTG-CATGATTTTTGGCGCCGAGACTCCTTG-TA-ATATCTATATTCATCTAATCAAGTCTCAGC
*
54158 CACATAGGATTTAAGG
319 CACATTGGATTTAAGG
* * *
54174 ATATATTTTTACGAGCTTCTGAATCTT-TTTCCATTTAATCAGAAATTAATTTGG-AAAAAATAG
1 ATATGTTTTTACGAGCTTCTGAATCTTGTTTCGATTTAATCAGAAATTAAATTGGAAAAAAATAG
* * * *
54237 GAAAAACCAATTTTGAAGCATGAAAAGCCTTTAAATATTTTTGGCCTTGAATTATAAATTTTTTA
66 GAAAAACCATTTTTGAAGCATGAAAAGCCCTTAAATCTTTTTGGCATTGAATTATAAATTTTTTA
* * *
54302 TGAATACTATGGCCAAAAATTGAGGAAAAATTTATT-GATTTCAATTTTTGCAAAATTTTAGCAG
131 TGAGTACTGTGGCCAAAAATTGAGGAAAAATTTTTTCG-TTTCAATTTTTGCAAAATTTTAGCAG
* * *
54366 AAATCGTGTAGTAATCATCACGGTTTCTGGCTGAAAATG-AGTTCCGGGGCTCCGGCTAAGTTTT
195 AAATCGTGTAGTAACCATCACGGTTTCTGGCTGAAAACGCA-TTCCGGGGCTCCGGCTCAGTTTT
* *
54430 GCATGATTTTTGGCGCCGAGACTCCTTGTAATATCTATATTCATCTAATCAAGTATCAGCCAAAT
259 GCATGATTTTTGGCGCCGAGACTCCTTGTAATATCTATATTCATCTAATCAAGTCTCAGCCACAT
54495 TGGATTTAAGG
324 TGGATTTAAGG
* *
54506 ATATGTTGTTACGAGCTTCTGAATCTAGTTTCGATTTAATCAGAAATTAAATTGGAAAAAAAATA
1 ATATGTTTTTACGAGCTTCTGAATCTTGTTTCGATTTAATCAGAAATTAAATTGG-AAAAAAATA
* ** * * *
54571 GGAAAAACCATTTGTGAAGCATGAAAAGCGGTTAAATCTTTTTGGCGTTAAATTATATATTTTTT
65 GGAAAAACCATTTTTGAAGCATGAAAAGCCCTTAAATCTTTTTGGCATTGAATTATAAATTTTTT
* * ** * *
54636 AAGAGTA-TAGTGGCAAAAAAGAGAGGAAAAA-TTTTTCGTTTCAATTTTTGTAAAATTTTAGCC
130 ATGAGTACT-GTGGCCAAAAATTGAGGAAAAATTTTTTCGTTTCAATTTTTGCAAAATTTTAGCA
* * * * * * *
54699 GAAAAC--GT-GT-ACCATCACTGTTTCTGGCAGAAAACGCGTTCCGGGGTTCTGCCTCAGTTTT
194 GAAATCGTGTAGTAACCATCACGGTTTCTGGCTGAAAACGCATTCCGGGGCTCCGGCTCAGTTTT
** * *
54760 GCATGATTTTTACCGTCGAGACTCCTTATAATATCTATATTCATCTAATCAAGTCTCAGCCACAT
259 GCATGATTTTTGGCGCCGAGACTCCTTGTAATATCTATATTCATCTAATCAAGTCTCAGCCACAT
*
54825 TGTATTTAAGG
324 TGGATTTAAGG
* * * * * *
54836 AGATGTTATTAGGAGCTTCTGAATCTAGTTTGGATTTAATTAGAAATTAAATTGGAAAAAAATAG
1 ATATGTTTTTACGAGCTTCTGAATCTTGTTTCGATTTAATCAGAAATTAAATTGGAAAAAAATAG
* * *
54901 GAAAAACCATTTGTGAAGCTTGAAAAGCCCTTAAATCTTTTTTGCATTGAATTATAAATTTTTTA
66 GAAAAACCATTTTTGAAGCATGAAAAGCCCTTAAATCTTTTTGGCATTGAATTATAAATTTTTTA
*
54966 TGAGTACTGTGGTCAAAAATTGAGGAAAAATTTTTT-GTTTCAATTTTTGCAAAATTTTAGCAGA
131 TGAGTACTGTGGCCAAAAATTGAGGAAAAATTTTTTCGTTTCAATTTTTGCAAAATTTTAGCAGA
* * *
55030 AATCGTGTAGT-A--ATCTCGGTTTCTGGCTGAAAACGCGTTCCGGGGCTCCGGCTAAGTTTTGC
196 AATCGTGTAGTAACCATCACGGTTTCTGGCTGAAAACGCATTCCGGGGCTCCGGCTCAGTTTTGC
*
55092 ATGATTTTTGGCGCCGAGACTCCTTGTAATATCTATATTCATCTAATCAAGTATCAGCCACATTG
261 ATGATTTTTGGCGCCGAGACTCCTTGTAATATCTATATTCATCTAATCAAGTCTCAGCCACATTG
55157 GATTTAAGG
326 GATTTAAGG
* * * * *
55166 TTATGTTCTTATGAGCTTCTGAATCTAGTTTCGATTTAATTAGAAATTAAATTGGAAAAAAATAG
1 ATATGTTTTTACGAGCTTCTGAATCTTGTTTCGATTTAATCAGAAATTAAATTGGAAAAAAATAG
55231 GAAAAACCATTTTTGAAGCATGAAAAGCCCTTAAATCTTTTTGGCATTGAATTATAAATTTTTTA
66 GAAAAACCATTTTTGAAGCATGAAAAGCCCTTAAATCTTTTTGGCATTGAATTATAAATTTTTTA
* *
55296 TGAGTATTGTGGCCAAAAATTGAGGAAAAATTTTTTCATTTCAATTTTTGCAAAATTTTAGCAGA
131 TGAGTACTGTGGCCAAAAATTGAGGAAAAATTTTTTCGTTTCAATTTTTGCAAAATTTTAGCAGA
* * *
55361 AATCGTGTAGTAACCATCACGGTTTCTGGCTGAAAACGCATTACAGGGCTCTGGCTCAGTTTTGC
196 AATCGTGTAGTAACCATCACGGTTTCTGGCTGAAAACGCATTCCGGGGCTCCGGCTCAGTTTTGC
* *
55426 ATGATTTTTGGCGCCGAGACTCCTTGTTAA-ATCTATATTCATCTAATCACGTCTCAACCACATT
261 ATGATTTTTGGCGCCGAGACTCCTTG-TAATATCTATATTCATCTAATCAAGTCTCAGCCACATT
*
55490 GGATTTAATG
325 GGATTTAAGG
* * *
55500 ATATGTTTTTAC-ATGCTTCTAAATCTTGTTTCGATTTAATTAGAAATTAATTTGG-AAAAAATA
1 ATATGTTTTTACGA-GCTTCTGAATCTTGTTTCGATTTAATCAGAAATTAAATTGGAAAAAAATA
* * * * * * *
55563 GGAAAAACTATTTGTGAAGCATGAAGAA-CCCTTAATTTTTTTTTTGCGTTGAATTTTAAATTTT
65 GGAAAAACCATTTTTGAAGCATGAA-AAGCCCTTAA-ATCTTTTTGGCATTGAATTATAAATTTT
* * * * *
55627 TTATGAGTAGTATGGCCAAAAATTGAGTAAAAA-CTTTTCGTTTCAATTTTTGGAAAATTTTAGC
128 TTATGAGTACTGTGGCCAAAAATTGAGGAAAAATTTTTTCGTTTCAATTTTTGCAAAATTTTAGC
* * * * * * * *
55691 CGAAATCATGTACTGACCATCACGGGTTCCGGTTGAAAACGCATT-CGGGGCCCCGGCTCAGTTT
193 AGAAATCGTGTAGTAACCATCACGGTTTCTGGCTGAAAACGCATTCCGGGGCTCCGGCTCAGTTT
* ** * *
55755 TGCATGTTTTTTGGCGCAAAGACTCCTTGTAATATCTATATTCATCTAATCAAGCCTCAGCCACT
258 TGCATGATTTTTGGCGCCGAGACTCCTTGTAATATCTATATTCATCTAATCAAGTCTCAGCCACA
55820 TTGGATTTAAGG
323 TTGGATTTAAGG
* * * * * * *
55832 ATATGTTTTTACGAGTTTCTAAATATTTTTTCGATTTAATCAGAAATTTATTTGG-AAAGAATAG
1 ATATGTTTTTACGAGCTTCTGAATCTTGTTTCGATTTAATCAGAAATTAAATTGGAAAAAAATAG
*
55896 GAAAAACCATTTTTGAAGCATGAAAAGCCCTTAAATCTTTTTGG-ACTTGAAATATAAATTTTTT
66 GAAAAACCATTTTTGAAGCATGAAAAGCCCTTAAATCTTTTTGGCA-TTGAATTATAAATTTTTT
* ** *
55960 ATGAGCACTGTGGCCAAAAATTGAGGAAAAAAATTTTCGTTTCAATTTTT-CCAAATTTTAGC--
130 ATGAGTACTGTGGCCAAAAATTGAGGAAAAATTTTTTCGTTTCAATTTTTGCAAAATTTTAGCAG
* * * * * *
56022 ----C--CT--TAA--ATCACGGTTTCTGGCTAAAAACGCGTTCTGGGGCCCCGGCTCAGTTTGG
195 AAATCGTGTAGTAACCATCACGGTTTCTGGCTGAAAACGCATTCCGGGGCTCCGGCTCAGTTTTG
* * * *
56077 CATGATTTTTGGCGCCGAGACTCCTTGAAATAAT-TATATTCATCTAATTAAGACTCAGCCAGAT
260 CATGATTTTTGGCGCCGAGACTCCTTGTAAT-ATCTATATTCATCTAATCAAGTCTCAGCCACAT
56141 TGGATTT-AGCG
324 TGGATTTAAG-G
* * * *
56152 ATATGTTTTTATGAGTTTCTGAATCTTGTTTCGATTTAATCTGAAATTAAATTGGAAAATAATAG
1 ATATGTTTTTACGAGCTTCTGAATCTTGTTTCGATTTAATCAGAAATTAAATTGGAAAAAAATAG
56217 GAAAAACC-TTTTGTGAAGCATGAAAAGCCCTTAAATCTTTTTGG-AGTTGAATTATAAATTTTT
66 GAAAAACCATTTT-TGAAGCATGAAAAGCCCTTAAATCTTTTTGGCA-TTGAATTATAAATTTTT
*
56280 TATGAGTACTGTGGCCAAAAATCGAGGAAAAAT
129 TATGAGTACTGTGGCCAAAAATTGAGGAAAAAT
56313 GTTT
Statistics
Matches: 3994, Mismatches: 647, Indels: 528
0.77 0.13 0.10
Matches are distributed among these distances:
317 3 0.00
318 9 0.00
319 28 0.01
320 141 0.04
321 102 0.03
322 7 0.00
323 5 0.00
324 61 0.02
325 5 0.00
326 8 0.00
327 94 0.02
328 84 0.02
329 245 0.06
330 475 0.12
331 380 0.10
332 297 0.07
333 228 0.06
334 635 0.16
335 230 0.06
336 173 0.04
337 108 0.03
338 199 0.05
339 1 0.00
340 1 0.00
342 5 0.00
344 2 0.00
347 1 0.00
348 3 0.00
349 5 0.00
351 11 0.00
352 56 0.01
353 54 0.01
354 1 0.00
356 5 0.00
357 7 0.00
358 13 0.00
359 8 0.00
360 10 0.00
361 9 0.00
362 7 0.00
363 2 0.00
364 4 0.00
365 3 0.00
366 9 0.00
367 5 0.00
369 1 0.00
371 1 0.00
372 3 0.00
373 1 0.00
374 1 0.00
375 4 0.00
377 13 0.00
378 2 0.00
379 7 0.00
380 17 0.00
381 13 0.00
382 8 0.00
383 10 0.00
384 15 0.00
385 4 0.00
386 2 0.00
387 5 0.00
388 7 0.00
389 6 0.00
390 2 0.00
391 6 0.00
392 12 0.00
393 10 0.00
394 7 0.00
395 3 0.00
396 8 0.00
397 18 0.00
398 20 0.01
399 6 0.00
400 8 0.00
401 1 0.00
402 2 0.00
403 2 0.00
404 1 0.00
405 2 0.00
406 2 0.00
407 1 0.00
409 1 0.00
410 1 0.00
411 10 0.00
413 12 0.00
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.36
Consensus pattern (334 bp):
ATATGTTTTTACGAGCTTCTGAATCTTGTTTCGATTTAATCAGAAATTAAATTGGAAAAAAATAG
GAAAAACCATTTTTGAAGCATGAAAAGCCCTTAAATCTTTTTGGCATTGAATTATAAATTTTTTA
TGAGTACTGTGGCCAAAAATTGAGGAAAAATTTTTTCGTTTCAATTTTTGCAAAATTTTAGCAGA
AATCGTGTAGTAACCATCACGGTTTCTGGCTGAAAACGCATTCCGGGGCTCCGGCTCAGTTTTGC
ATGATTTTTGGCGCCGAGACTCCTTGTAATATCTATATTCATCTAATCAAGTCTCAGCCACATTG
GATTTAAGG
Found at i:56018 original size:664 final size:664
Alignment explanation
Indices: 53467--56312 Score: 3622
Period size: 664 Copynumber: 4.3 Consensus size: 664
53457 GGAGTATCAT
* * * * *
53467 CCACATTGGATTTAAGGATATATTATTACGAGCTTCTGAATCTAGTTTCGATTTAATCAAAAATT
1 CCACATTGGATTTAAGGATATGTTTTTAC-AGCTTCTGAATCTTGTTTCGATTTAATTAGAAATT
*
53532 AAATTGAAAAAAAAAATAGGAAAAACCATTTGTGAAGCATGAAAAGCCCTTAAATCTTTTTGGCG
65 AAATTG---GAAAAAATAGGAAAAACCATTTGTGAAGCATGAAAAGCCCTTAAATCTTTTTGGCG
* * *
53597 TTGAATAATAAATTTTTTATAAGTACTATGGCTAAAAATTGAGGAAAAATTTTTCGTTTCAATTT
127 TTGAATTATAAATTTTTTATGAGTACTATGGCCAAAAATTGAGGAAAAATTTTTCGTTTCAATTT
* * *
53662 TTACAAAATTTTAGTC-GAAATCGTATACTAACCATGACGGTTTCTGGCTGAAAACGCATTCCGG
192 TTGCAAAATTTTAG-CAGAAATCGTGTACTAACCATCACGGTTTCTGGCTGAAAACGCATTCCGG
* * * *
53726 GGCCCTGACTAAGTTTAGCATGATTTTTTGGCACCGAGACTCCTTGTAATATCTATATTCATCTA
256 GGCCCCGGCTAAGTTTTGCATGA-TTTTTGGCGCCGAGACTCCTTGTAATATCTATATTCATCTA
* * *
53791 ATCAAGCCTCAGCCTCATTGGATTTAAGGATATGTTTTTACGAGCTTCTGAATCTTGTTTCGATT
320 ATCAAGCATCAGCCACATTGGATTTAAGGATATGTTTTTACGAGCTTCTGAATCTAGTTTCGATT
*
53856 TAATCAGAAATTAAATTGGAAAAAAATAGGAAAAACCATTTTTGAAGCACGAAAAGCCCTTAAAT
385 TAATCAGAAATTAAATTGGAAAAAAATAGGAAAAACCATTTTTGAAGCATGAAAAGCCCTTAAAT
* * * *
53921 CTTTTTGGAATTGAATTATAAATTTTTTATGAGTATTGTGACCAAAAATTGAGGAAAAATTTTTT
450 CTTTTTGGCATTGAAATATAAATTTTTTATGAGTATTGTGGCCAAAAATTGAGGAAAAAATTTTT
*
53986 CATTTCAATTTTTTG--AAATTTTAGCAGAAATCATGTAATAACCATCACGGTTTCTGGCTGAAA
515 CATTTCAA-TTTTTGCAAAATTTTAGCAGAAATC--GT-GTAACCATCACGGTTTCTGGCTGAAA
** *
54049 ACGCGTTCCGGGGCTTCGACCGCGTTCCGGGGCTTCGACTCAGTTTTGTC-TTCTTTTTGGAGCC
576 ACGCGTTCCGGGGC-T------C--T-----G----G-CTCAGTTTTG-CATGATTTTTGGCGCC
* * * *
54113 AAGACTCCTTGTTATATATATATATTCATCTAATCAAGTTTCAG
621 GAGACTCCTTGATATATATCTATATTCATCTAATCAAGTCTCAG
* * * * *
54157 TCACATAGGATTTAAGGATATATTTTTACGAGCTTCTGAATCTT-TTTCCATTTAATCAGAAATT
1 CCACATTGGATTTAAGGATATGTTTTTAC-AGCTTCTGAATCTTGTTTCGATTTAATTAGAAATT
* * * *
54221 AATTTGGAAAAAATAGGAAAAACCAATTT-TGAAGCATGAAAAGCCTTTAAATATTTTTGGCCTT
65 AAATTGGAAAAAATAGGAAAAACC-ATTTGTGAAGCATGAAAAGCCCTTAAATCTTTTTGGCGTT
*
54285 GAATTATAAATTTTTTATGAATACTATGGCCAAAAATTGAGGAAAAATTTATT-GATTTCAATTT
129 GAATTATAAATTTTTTATGAGTACTATGGCCAAAAATTGAGGAAAAATTT-TTCG-TTTCAATTT
* * *
54349 TTGCAAAATTTTAGCAGAAATCGTGTAGTAATCATCACGGTTTCTGGCTGAAAATG-AGTTCCGG
192 TTGCAAAATTTTAGCAGAAATCGTGTACTAACCATCACGGTTTCTGGCTGAAAACGCA-TTCCGG
*
54413 GGCTCCGGCTAAGTTTTGCATGATTTTTGGCGCCGAGACTCCTTGTAATATCTATATTCATCTAA
256 GGCCCCGGCTAAGTTTTGCATGATTTTTGGCGCCGAGACTCCTTGTAATATCTATATTCATCTAA
* * *
54478 TCAAGTATCAGCCAAATTGGATTTAAGGATATGTTGTTACGAGCTTCTGAATCTAGTTTCGATTT
321 TCAAGCATCAGCCACATTGGATTTAAGGATATGTTTTTACGAGCTTCTGAATCTAGTTTCGATTT
* **
54543 AATCAGAAATTAAATTGGAAAAAAAATAGGAAAAACCATTTGTGAAGCATGAAAAGCGGTTAAAT
386 AATCAGAAATTAAATTGG-AAAAAAATAGGAAAAACCATTTTTGAAGCATGAAAAGCCCTTAAAT
* * * * * **
54608 CTTTTTGGCGTT-AAATTATATATTTTTTAAGAGTATAGTGGCAAAAAAGAGAGG-AAAAATTTT
450 CTTTTTGGCATTGAAA-TATAAATTTTTTATGAGTATTGTGGCCAAAAATTGAGGAAAAAATTTT
* * * * * *
54671 TCGTTTCAATTTTTGTAAAATTTTAGCCGAAAACGTGT-ACCATCACTGTTTCTGGCAGAAAACG
514 TCATTTCAATTTTTGCAAAATTTTAGCAGAAATCGTGTAACCATCACGGTTTCTGGCTGAAAACG
* * ** *
54735 CGTTCCGGGGTTCTGCCTCAGTTTTGCATGATTTTTACCGTCGAGACTCCTT-ATA-ATATCTAT
579 CGTTCCGGGGCTCTGGCTCAGTTTTGCATGATTTTTGGCGCCGAGACTCCTTGATATATATCTAT
54798 ATTCATCTAATCAAGTCTCAG
644 ATTCATCTAATCAAGTCTCAG
* * * * * *
54819 CCACATTGTATTTAAGGAGATGTTATTAGGAGCTTCTGAATCTAGTTTGGATTTAATTAGAAATT
1 CCACATTGGATTTAAGGATATGTTTTTA-CAGCTTCTGAATCTTGTTTCGATTTAATTAGAAATT
* * *
54884 AAATTGGAAAAAAATAGGAAAAACCATTTGTGAAGCTTGAAAAGCCCTTAAATCTTTTTTGCATT
65 AAATTGG-AAAAAATAGGAAAAACCATTTGTGAAGCATGAAAAGCCCTTAAATCTTTTTGGCGTT
* * *
54949 GAATTATAAATTTTTTATGAGTACTGTGGTCAAAAATTGAGGAAAAATTTTTTGTTTCAATTTTT
129 GAATTATAAATTTTTTATGAGTACTATGGCCAAAAATTGAGGAAAAATTTTTCGTTTCAATTTTT
* * *
55014 GCAAAATTTTAGCAGAAATCGTGTAGT-A--ATCTCGGTTTCTGGCTGAAAACGCGTTCCGGGGC
194 GCAAAATTTTAGCAGAAATCGTGTACTAACCATCACGGTTTCTGGCTGAAAACGCATTCCGGGGC
*
55076 TCCGGCTAAGTTTTGCATGATTTTTGGCGCCGAGACTCCTTGTAATATCTATATTCATCTAATCA
259 CCCGGCTAAGTTTTGCATGATTTTTGGCGCCGAGACTCCTTGTAATATCTATATTCATCTAATCA
* * * *
55141 AGTATCAGCCACATTGGATTTAAGGTTATGTTCTTATGAGCTTCTGAATCTAGTTTCGATTTAAT
324 AGCATCAGCCACATTGGATTTAAGGATATGTTTTTACGAGCTTCTGAATCTAGTTTCGATTTAAT
*
55206 TAGAAATTAAATTGGAAAAAAATAGGAAAAACCATTTTTGAAGCATGAAAAGCCCTTAAATCTTT
389 CAGAAATTAAATTGGAAAAAAATAGGAAAAACCATTTTTGAAGCATGAAAAGCCCTTAAATCTTT
* *
55271 TTGGCATTGAATTATAAATTTTTTATGAGTATTGTGGCCAAAAATTGAGGAAAAATTTTTTCATT
454 TTGGCATTGAAATATAAATTTTTTATGAGTATTGTGGCCAAAAATTGAGGAAAAAATTTTTCATT
*
55336 TCAATTTTTGCAAAATTTTAGCAGAAATCGTGTAGTAACCATCACGGTTTCTGGCTGAAAACGCA
519 TCAATTTTTGCAAAATTTTAGCAGAAATC--GT-GTAACCATCACGGTTTCTGGCTGAAAACGCG
* * *
55401 TTACAGGGCTCTGGCTCAGTTTTGCATGATTTTTGGCGCCGAGACTCCTTG-T-TAAATCTATAT
581 TTCCGGGGCTCTGGCTCAGTTTTGCATGATTTTTGGCGCCGAGACTCCTTGATATATATCTATAT
* *
55464 TCATCTAATCACGTCTCAA
646 TCATCTAATCAAGTCTCAG
* *
55483 CCACATTGGATTTAATGATATGTTTTTACATGCTTCTAAATCTTGTTTCGATTTAATTAGAAATT
1 CCACATTGGATTTAAGGATATGTTTTTACA-GCTTCTGAATCTTGTTTCGATTTAATTAGAAATT
* * * * *
55548 AATTTGGAAAAAATAGGAAAAACTATTTGTGAAGCATGAAGAA-CCCTTAATTTTTTTTTTGCGT
65 AAATTGGAAAAAATAGGAAAAACCATTTGTGAAGCATGAA-AAGCCCTTAA-ATCTTTTTGGCGT
* * * *
55612 TGAATTTTAAATTTTTTATGAGTAGTATGGCCAAAAATTGAGTAAAAACTTTTCGTTTCAATTTT
128 TGAATTATAAATTTTTTATGAGTACTATGGCCAAAAATTGAGGAAAAATTTTTCGTTTCAATTTT
* * * * * * *
55677 TGGAAAATTTTAGCCGAAATCATGTACTGACCATCACGGGTTCCGGTTGAAAACGCATT-CGGGG
193 TGCAAAATTTTAGCAGAAATCGTGTACTAACCATCACGGTTTCTGGCTGAAAACGCATTCCGGGG
* * **
55741 CCCCGGCTCAGTTTTGCATGTTTTTTGGCGCAAAGACTCCTTGTAATATCTATATTCATCTAATC
258 CCCCGGCTAAGTTTTGCATGATTTTTGGCGCCGAGACTCCTTGTAATATCTATATTCATCTAATC
* * * * * **
55806 AAGCCTCAGCCACTTTGGATTTAAGGATATGTTTTTACGAGTTTCTAAATATTTTTTCGATTTAA
323 AAGCATCAGCCACATTGGATTTAAGGATATGTTTTTACGAGCTTCTGAATCTAGTTTCGATTTAA
* * *
55871 TCAGAAATTTATTTGG-AAAGAATAGGAAAAACCATTTTTGAAGCATGAAAAGCCCTTAAATCTT
388 TCAGAAATTAAATTGGAAAAAAATAGGAAAAACCATTTTTGAAGCATGAAAAGCCCTTAAATCTT
* * * *
55935 TTTGG-ACTTGAAATATAAATTTTTTATGAGCACTGTGGCCAAAAATTGAGGAAAAAAATTTTCG
453 TTTGGCA-TTGAAATATAAATTTTTTATGAGTATTGTGGCCAAAAATTGAGGAAAAAATTTTTCA
* * *
55999 TTTCAATTTTT-CCAAATTTTAGC------CCT-TAA--ATCACGGTTTCTGGCTAAAAACGCGT
517 TTTCAATTTTTGCAAAATTTTAGCAGAAATCGTGTAACCATCACGGTTTCTGGCTGAAAACGCGT
* * * * *
56054 TCTGGGGCCCCGGCTCAGTTTGGCATGATTTTTGGCGCCGAGACTCCTTGAAATA-AT-TATATT
582 TCCGGGGCTCTGGCTCAGTTTTGCATGATTTTTGGCGCCGAGACTCCTTGATATATATCTATATT
* *
56117 CATCTAATTAAGACTCAG
647 CATCTAATCAAGTCTCAG
* * *
56135 CCAGATTGGATTT-AGCGATATGTTTTTATGAGTTTCTGAATCTTGTTTCGATTTAATCT-GAAA
1 CCACATTGGATTTAAG-GATATGTTTTTA-CAGCTTCTGAATCTTGTTTCGATTTAAT-TAGAAA
* *
56198 TTAAATTGGAAAATAATAGGAAAAACCTTTTGTGAAGCATGAAAAGCCCTTAAATCTTTTTGGAG
63 TTAAATTGGAAAA-AATAGGAAAAACCATTTGTGAAGCATGAAAAGCCCTTAAATCTTTTTGGCG
* *
56263 TTGAATTATAAATTTTTTATGAGTACTGTGGCCAAAAATCGAGGAAAAAT
127 TTGAATTATAAATTTTTTATGAGTACTATGGCCAAAAATTGAGGAAAAAT
56313 GTTT
Statistics
Matches: 1907, Mismatches: 211, Indels: 114
0.85 0.09 0.05
Matches are distributed among these distances:
651 1 0.00
652 206 0.11
653 38 0.02
654 5 0.00
656 1 0.00
658 1 0.00
659 86 0.05
660 210 0.11
662 65 0.03
663 111 0.06
664 384 0.20
665 115 0.06
666 132 0.07
667 22 0.01
669 1 0.00
674 1 0.00
676 1 0.00
682 1 0.00
683 34 0.02
684 1 0.00
685 8 0.00
686 234 0.12
687 186 0.10
689 23 0.01
690 40 0.02
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.36
Consensus pattern (664 bp):
CCACATTGGATTTAAGGATATGTTTTTACAGCTTCTGAATCTTGTTTCGATTTAATTAGAAATTA
AATTGGAAAAAATAGGAAAAACCATTTGTGAAGCATGAAAAGCCCTTAAATCTTTTTGGCGTTGA
ATTATAAATTTTTTATGAGTACTATGGCCAAAAATTGAGGAAAAATTTTTCGTTTCAATTTTTGC
AAAATTTTAGCAGAAATCGTGTACTAACCATCACGGTTTCTGGCTGAAAACGCATTCCGGGGCCC
CGGCTAAGTTTTGCATGATTTTTGGCGCCGAGACTCCTTGTAATATCTATATTCATCTAATCAAG
CATCAGCCACATTGGATTTAAGGATATGTTTTTACGAGCTTCTGAATCTAGTTTCGATTTAATCA
GAAATTAAATTGGAAAAAAATAGGAAAAACCATTTTTGAAGCATGAAAAGCCCTTAAATCTTTTT
GGCATTGAAATATAAATTTTTTATGAGTATTGTGGCCAAAAATTGAGGAAAAAATTTTTCATTTC
AATTTTTGCAAAATTTTAGCAGAAATCGTGTAACCATCACGGTTTCTGGCTGAAAACGCGTTCCG
GGGCTCTGGCTCAGTTTTGCATGATTTTTGGCGCCGAGACTCCTTGATATATATCTATATTCATC
TAATCAAGTCTCAG
Done.