Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: evm.model.Ga13G0028
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: 2073
ACGTcount: A:0.39, C:0.07, G:0.30, T:0.23
Found at i:314 original size:6 final size:6
Alignment explanation
Indices: 279--311 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
269 AAGTTCTAGT
*
279 GAAAAA GAAAAA GAAAAA GAAAAA GAAGAA GAA
1 GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAA
312 GAATAAAGAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (6 bp):
GAAAAA
Found at i:574 original size:96 final size:95
Alignment explanation
Indices: 474--1984 Score: 597
Period size: 102 Copynumber: 14.8 Consensus size: 95
464 ACATAGGGGC
* *
474 TGATGA-AATTGAAACAAAGAAAAATAAGAAGAAGAAGAGCAATGAGAATGTA-GATGCCATTGA
1 TGATGAGAATTGAAA-AAAGAAAAA-AAGAAGAAGAAGAGCAATGAAAATG-AGGATGCTATTGA
537 GGCTATTGCTGTTGCTGTTGTTGATAGTGCAATTGAT
63 GGCTATTGCTGTTGCTGTTGTTGATAGTGC-A---AT
574 GTAGGGAGTGATGAATTTGAAAAGAAGAAAAAGAAGAAGAAGAAGAAGAGCAATGAAAATGAGGA
1 -T---GA-TGA-GAA-TTGAAAA-AAG--AAA-AA-AAGAAGAAGAAGAGCAATGAAAATGAGGA
* ** *
639 TGCTATTGAGGCTATTGCTGTTGTTGATGGTGCAATTGAT-GTAGGGAG
54 TGCTATTGAGGCTATTGCTGTTGCTG-T--TG---TTGATAGT-GCAAT
* *
687 TGATGA-AATTG--AAAAG-AAGAAA-AAGAAGAAGAGCAATGAAAATGAGAATGCTATTGAGGC
1 TGATGAGAATTGAAAAAAGAAAAAAAGAAGAAGAAGAGCAATGAAAATGAGGATGCTATTGAGGC
*
747 TA------TTGCTGTTGTTGATGGTGCAAT
66 TATTGCTGTTGCTGTTGTTGATAGTGCAAT
* * * *
771 TGATGTAGGGAGTGATGAAAATGAAAATAAGAAAAAGAAGAAGAGCAATGAAAATGAGGATGCTA
1 TGATG-A-GAATTGA--AAAAAG-AAA-AA-AAGAAGAAGAAGAGCAATGAAAATGAGGATGCTA
* *
836 TTGAGGCTATTGCTGTTGCTGTTGTGGATGGTGCAAT
59 TTGAGGCTATTGCTGTTGCTGTTGTTGATAGTGCAAT
*
873 TGATGTAGGGAGTAATGAAATTGAAAAGAATAAAAAGAAAAAGAAGAAGAGCAATGAAAATGAGG
1 TGATG-A--GA--ATTG-AA---AAAAGAA-AAAAAG---AAGAAGAAGAGCAATGAAAATGAGG
* *
938 ATGCTATTGAGGATATTGCTGTTGCTGTTGTTGATAATGCAATT
53 ATGCTATTGAGGCTATTGCTGTTGCTGTTGTTGATAGTGCAA-T
* *
982 GATGCAGGGAGTGATGAAATTGAAAAGAAGAAAAAGAAGAAGAAGAAGAAGAAGAACAAAGAGAA
1 --T-----GA-TGA-G-AATTGAAAA-AAG--AAA-AA-AAGAAGAAGAAG-AG--CAATGAAAA
* * ** *
1047 TGAGGAGGCTATTGAGGCTATTGCTGTTGTTGATGGTGCAATTGAT-GTAGGGAG
48 TGAGGATGCTATTGAGGCTATTGCTGTTGCTG-T--TG---TTGATAGT-GCAAT
1101 TGATGA-AATTGAAAATAAGAAAAAGAAGAAGAAGAAGAAGAAGAGCAATGAAAATGAGGATGCT
1 TGATGAGAATTGAAAA-AAG--AAA-AA-AAG---AAGAAGAAGAGCAATGAAAATGAGGATGCT
*
1165 ATTGAGGCTA------TTGCTGTTGTTGATGGTGCAAT
58 ATTGAGGCTATTGCTGTTGCTGTTGTTGATAGTGCAAT
* * * ** *** * *
1197 TGATGTGGGGAGTGATGAAA-TTGAAAAGAAGAAAAAGAGCAACGAAAATGAGGATGCTATTGAG
1 TGA--TGAGAATTGAAAAAAGAAAAAAAGAAGAAGAAGAGCAATGAAAATGAGGATGCTATTGAG
* * ** *
1261 TCTATTGCTGTTGTTGATGGTGCAATTGAT-GTAGGGAG
64 GCTATTGCTGTTGCTG-T--TG---TTGATAGT-GCAAT
1299 TGATGA-AATTGAAAAGAAGAAAAAGAAGAAGAAGAAGAGCAATGAAAATGAGGATGCTATTGAG
1 TGATGAGAATTGAAAA-AAGAAAAA-AAGAAGAAGAAGAGCAATGAAAATGAGGATGCTATTGAG
* ** *
1363 GCTATTGCTGTTGTTGATGGTGCAATTGAT-GTAGGGAG
64 GCTATTGCTGTTGCTG-T--TG---TTGATAGT-GCAAT
* * * *
1401 TGGTGA-AATTGAAAAGAAGAAAAAGAAGAAGAAGAAGAAGAACAAAGAGAATGAGGAGGCTATT
1 TGATGAGAATTGAAAA-AAGAAAAA-AAGAAGAAGAAG-AG--CAATGAAAATGAGGATGCTATT
** * * * * ** * * * *
1465 GCTGTTGTTGATGGTGCAATTGATG-CAG-G-GAG
61 GAGGCTATTGCTGTTGCTGTTGTTGATAGTGCAAT
1497 TGATGA-AATTGAAAATAAGAAAAAGAAGAAGAAGAAGAAGAAGAGCAATGAAAATGAGGATGCT
1 TGATGAGAATTGAAAA-AAG----A-AA-AA-AAGAAGAAGAAGAGCAATGAAAATGAGGATGCT
*
1561 ATTGAGGCTA------TTGCTGTTGTTGATGGTGCAAT
58 ATTGAGGCTATTGCTGTTGCTGTTGTTGATAGTGCAAT
* * ** *** * *
1593 TGATGTAGGGAGTGATGAAA-TTGAAAAGAAGAAAAAGAGCAACGAAAATGAGGATGCTATTGAG
1 TGATG-A-GAATTGAAAAAAGAAAAAAAGAAGAAGAAGAGCAATGAAAATGAGGATGCTATTGAG
* * *
1657 TCTATTGCTGTTGTTGATGGTGCAATTGAT-GTAGGGAA-
64 GCTATTGCTGTTGCTG-T--TG---TTGATAGT--GCAAT
*
1695 TGATGA-AATTGAAAAGAAGAAAAAGAAGAAGAAGAAGAGCAATGAAAATGAGGATACTATTGAG
1 TGATGAGAATTGAAAA-AAGAAAAA-AAGAAGAAGAAGAGCAATGAAAATGAGGATGCTATTGAG
* ** *
1759 GCTATTGCTGTTGTTGATGGTGCAATTGAT-GTAGGGAG
64 GCTATTGCTGTTGCTG-T--TG---TTGATAGT-GCAAT
* * * *
1797 TGATGA-AATTGAAAAGCAGAAAAAGAAGAAGAAGAAGAAGAACAAAGAGAATGAGGAGGCTATT
1 TGATGAGAATTGAAAA-AAGAAAAA-AAGAAGAAGAAG-AG--CAATGAAAATGAGGATGCTATT
1861 GAGGCTATTGCTGTTGCTGTTGTTGATAGTGCAATT
61 GAGGCTATTGCTGTTGCTGTTGTTGATAGTGCAA-T
* * * *
1897 GATGCAGGGAGTGATGAAATTGAAAAGAAGAAGAAGAAGAAGAAGAAGAACAAAGAGAATGAGGA
1 --T-----GA-TGA-G-AATTGAAAA-AAGAA-AAAAAGAAGAAGAAGAGCAATGAAAATGAGGA
*
1962 GGCTATTGAGGCTATTGCTGTTG
54 TGCTATTGAGGCTATTGCTGTTG
1985 TTGACGGTGC
Statistics
Matches: 1121, Mismatches: 141, Indels: 289
0.72 0.09 0.19
Matches are distributed among these distances:
84 12 0.01
85 3 0.00
87 5 0.00
89 1 0.00
90 82 0.07
91 6 0.01
93 13 0.01
94 4 0.00
95 3 0.00
96 124 0.11
97 8 0.01
98 7 0.01
99 60 0.05
100 9 0.01
101 18 0.02
102 289 0.26
103 11 0.01
104 5 0.00
105 76 0.07
106 7 0.01
107 10 0.01
108 166 0.15
109 3 0.00
110 9 0.01
111 103 0.09
112 9 0.01
113 7 0.01
114 44 0.04
115 2 0.00
116 6 0.01
117 11 0.01
119 1 0.00
120 7 0.01
ACGTcount: A:0.40, C:0.06, G:0.31, T:0.23
Consensus pattern (95 bp):
TGATGAGAATTGAAAAAAGAAAAAAAGAAGAAGAAGAGCAATGAAAATGAGGATGCTATTGAGGC
TATTGCTGTTGCTGTTGTTGATAGTGCAAT
Found at i:579 original size:108 final size:107
Alignment explanation
Indices: 441--2047 Score: 1694
Period size: 108 Copynumber: 15.6 Consensus size: 107
431 AGGCTGTTGC
* ** *
441 TGCTGCTGTTGATGGTGCTAA-TGACATAGGG-GCTGATGAAATTGAAACA-AAGAAAAATAAGA
1 TGCTGTTGTTGATGGTGC-AATTGATGTAGGGAG-TGATGAAATTGAAA-AGAAGAAAAAGAAGA
* *
503 AGAAGAAGAGCAATGAGAATGTA-GATGCCATTGAGGCTATTGCTGT
63 AGAAGAAGAGCAATGAAAATG-AGGATGCTATTGAGGCTATTGCT-T
* *
549 TGCTGTTGTTGATAGTGCAATTGATGTAGGGAGTGATGAATTTGAAAAGAAGAAAAAGAAGAAGA
1 TGCTGTTGTTGATGGTGCAATTGATGTAGGGAGTGATGAAATTGAAAAGAAG--AAA-AAGAAGA
614 AGAAGAAGAGCAATGAAAATGAGGATGCTATTGAGGCTA-----T
63 AGAAGAAGAGCAATGAAAATGAGGATGCTATTGAGGCTATTGCTT
654 TGCTGTTGTTGATGGTGCAATTGATGTAGGGAGTGATGAAATTGAAAAGAAG----A-AA-AAGA
1 TGCTGTTGTTGATGGTGCAATTGATGTAGGGAGTGATGAAATTGAAAAGAAGAAAAAGAAGAAGA
*
713 AGAAGAGCAATGAAAATGAGAATGCTATTGAGGCTA-----T
66 AGAAGAGCAATGAAAATGAGGATGCTATTGAGGCTATTGCTT
* *
750 TGCTGTTGTTGATGGTGCAATTGATGTAGGGAGTGATGAAAATGAAAATAAG----A-AA-AAGA
1 TGCTGTTGTTGATGGTGCAATTGATGTAGGGAGTGATGAAATTGAAAAGAAGAAAAAGAAGAAGA
809 AGAAGAGCAATGAAAATGAGGATGCTATTGAGGCTATTGCTGT
66 AGAAGAGCAATGAAAATGAGGATGCTATTGAGGCTATTGCT-T
* * * *
852 TGCTGTTGTGGATGGTGCAATTGATGTAGGGAGTAATGAAATTGAAAAGAATAAAAAGAAAAAGA
1 TGCTGTTGTTGATGGTGCAATTGATGTAGGGAGTGATGAAATTGAAAAGAAGAAAAAGAAGAAGA
*
917 AGAAGAGCAATGAAAATGAGGATGCTATTGAGGATATTGCTGT
66 AGAAGAGCAATGAAAATGAGGATGCTATTGAGGCTATTGCT-T
** *
960 TGCTGTTGTTGATAATGCAATTGATGCAGGGAGTGATGAAATTGAAAAGAAGAAAAAGAAGAAGA
1 TGCTGTTGTTGATGGTGCAATTGATGTAGGGAGTGATGAAATTGAAAAGAAGAAAAAGAAGAAGA
* * *
1025 AGAAGAAG-AA-GAACAAAGAGAATG--A-GGAGGCTATTGAGGCTAT
66 AGAAG-AGCAATGAA-AATGAGGATGCTATTGAGGCTATT---GCT-T
*
1068 TGCTGTTGTTGATGGTGCAATTGATGTAGGGAGTGATGAAATTGAAAATAAGAAAAAGAAGAAGA
1 TGCTGTTGTTGATGGTGCAATTGATGTAGGGAGTGATGAAATTG--AA-AAG---AAGAAAAAGA
1133 AGAAGAAGAAGAGCAATGAAAATGAGGATGCTATTGAGGCTA-----T
60 AGAAGAAGAAGAGCAATGAAAATGAGGATGCTATTGAGGCTATTGCTT
*
1176 TGCTGTTGTTGATGGTGCAATTGATGTGGGGAGTGATGAAATT--------G-AAAAGAAG-A-A
1 TGCTGTTGTTGATGGTGCAATTGATGTAGGGAGTGATGAAATTGAAAAGAAGAAAAAGAAGAAGA
* *
1230 A-AAGAGCAACGAAAATGAGGATGCTATTGAGTCTATTGC--
66 AGAAGAGCAATGAAAATGAGGATGCTATTGAGGCTATTGCTT
1269 ---TGTTGTTGATGGTGCAATTGATGTAGGGAGTGATGAAATTGAAAAGAAGAAAAAGAAGAAGA
1 TGCTGTTGTTGATGGTGCAATTGATGTAGGGAGTGATGAAATTGAAAAGAAGAAAAAGAAGAAGA
1331 AGAAGAGCAATGAAAATGAGGATGCTATTGAGGCTA-----T
66 AGAAGAGCAATGAAAATGAGGATGCTATTGAGGCTATTGCTT
*
1368 TGCTGTTGTTGATGGTGCAATTGATGTAGGGAGTGGTGAAATTGAAAAGAAGAAAAAGAAGAAGA
1 TGCTGTTGTTGATGGTGCAATTGATGTAGGGAGTGATGAAATTGAAAAGAAGAAAAAGAAGAAGA
* * *
1433 AG-A-AG-AA-GAACAAAGAGAATG--A-GGAGGCTA-----T
66 AGAAGAGCAATGAA-AATGAGGATGCTATTGAGGCTATTGCTT
* *
1464 TGCTGTTGTTGATGGTGCAATTGATGCAGGGAGTGATGAAATTGAAAATAAGAAAAAGAAGAAGA
1 TGCTGTTGTTGATGGTGCAATTGATGTAGGGAGTGATGAAATTG--AA-AAG---AAGAAAAAGA
1529 AGAAGAAGAAGAGCAATGAAAATGAGGATGCTATTGAGGCTA-----T
60 AGAAGAAGAAGAGCAATGAAAATGAGGATGCTATTGAGGCTATTGCTT
1572 TGCTGTTGTTGATGGTGCAATTGATGTAGGGAGTGATGAAATT--------G-AAAAGAAG-A-A
1 TGCTGTTGTTGATGGTGCAATTGATGTAGGGAGTGATGAAATTGAAAAGAAGAAAAAGAAGAAGA
* *
1626 A-AAGAGCAACGAAAATGAGGATGCTATTGAGTCTATTGC--
66 AGAAGAGCAATGAAAATGAGGATGCTATTGAGGCTATTGCTT
*
1665 ---TGTTGTTGATGGTGCAATTGATGTAGGGAATGATGAAATTGAAAAGAAGAAAAAGAAGAAGA
1 TGCTGTTGTTGATGGTGCAATTGATGTAGGGAGTGATGAAATTGAAAAGAAGAAAAAGAAGAAGA
*
1727 AGAAGAGCAATGAAAATGAGGATACTATTGAGGCTA-----T
66 AGAAGAGCAATGAAAATGAGGATGCTATTGAGGCTATTGCTT
*
1764 TGCTGTTGTTGATGGTGCAATTGATGTAGGGAGTGATGAAATTGAAAAGCAGAAAAAGAAGAAGA
1 TGCTGTTGTTGATGGTGCAATTGATGTAGGGAGTGATGAAATTGAAAAGAAGAAAAAGAAGAAGA
* * *
1829 AGAAGAAGAACAAAGAGAATGAGGAGGCTATTGAGGCTATTGCTGT
66 AGAAG-AG--CAATGAAAATGAGGATGCTATTGAGGCTATTGCT-T
* * *
1875 TGCTGTTGTTGATAGTGCAATTGATGCAGGGAGTGATGAAATTGAAAAGAAGAAGAAGAAGAAGA
1 TGCTGTTGTTGATGGTGCAATTGATGTAGGGAGTGATGAAATTGAAAAGAAGAAAAAGAAGAAGA
* * * *
1940 AGAAGAACAAAGAGAATGAGGAGGCTATTGAGGCTA-----T
66 AGAAGAGCAATGAAAATGAGGATGCTATTGAGGCTATTGCTT
* * **
1977 TGCTGTTGTTGACGGTGCAATTGATGCAGGG-GCTGAGGATGAAACCGAAAAGAAGAAAAAGAAG
1 TGCTGTTGTTGATGGTGCAATTGATGTAGGGAG-T---GATGAAATTGAAAAGAAGAAAAAGAAG
2041 AA-AAGAA
62 AAGAAGAA
2048 AAAGAAAAGA
Statistics
Matches: 1317, Mismatches: 80, Indels: 208
0.82 0.05 0.13
Matches are distributed among these distances:
90 142 0.11
91 4 0.00
92 2 0.00
93 14 0.01
94 2 0.00
96 182 0.14
97 3 0.00
98 8 0.01
99 29 0.02
100 4 0.00
101 6 0.00
102 287 0.22
103 3 0.00
104 7 0.01
105 120 0.09
106 5 0.00
107 9 0.01
108 326 0.25
109 3 0.00
110 7 0.01
111 111 0.08
113 2 0.00
114 30 0.02
115 3 0.00
116 1 0.00
117 7 0.01
ACGTcount: A:0.40, C:0.06, G:0.31, T:0.23
Consensus pattern (107 bp):
TGCTGTTGTTGATGGTGCAATTGATGTAGGGAGTGATGAAATTGAAAAGAAGAAAAAGAAGAAGA
AGAAGAGCAATGAAAATGAGGATGCTATTGAGGCTATTGCTT
Found at i:856 original size:102 final size:102
Alignment explanation
Indices: 745--2042 Score: 1130
Period size: 102 Copynumber: 12.7 Consensus size: 102
735 TGCTATTGAG
* *
745 GCTATTGCTGTTGTTGATGGTGCAATTGATGTAGGGAGTGATGAAAATGAAAATAAGAAAAAGAA
1 GCTATTGCTGTTGTTGATGGTGCAATTGATGTAGGGAGTGATGAAATTGAAAAGAAGAAAAAGAA
810 GAAGAGCAATGAAAATGAGGATGCTATTGAGGCTATT
66 GAAGAGCAATGAAAATGAGGATGCTATTGAGGCTATT
* * *
847 GCTGTTGCTGTTGTGGATGGTGCAATTGATGTAGGGAGTAATGAAATTGAAAAGAATAAAAAGAA
1 GCTATTGCTGTTGTTGATGGTGCAATTGATGTAGGGAGTGATGAAATTGAAAAG------AAGAA
*
912 AAAGAAGAAGAGCAATGAAAATGAGGATGCTATTGAGGATATT
60 AAAGAAGAAGAGCAATGAAAATGAGGATGCTATTGAGGCTATT
* ** *
955 GCTGTTGCTGTTGTTGATAATGCAATTGATGCAGGGAGTGATGAAATTGAAAAGAAGAAAAAGAA
1 GCTATTGCTGTTGTTGATGGTGCAATTGATGTAGGGAGTGATGAAATTGAAAAGAAG--AAA-AA
* * * * *
1020 GAAGAAGAAGAAGAAGAACAAAGAGAATG--A-GGAGGCTATT
63 GAAGAAG-AGCA-ATGAA-AATGAGGATGCTATTGAGGCTATT
*
1060 GAGGCTATTGCTGTTGTTGATGGTGCAATTGATGTAGGGAGTGATGAAATTGAAAATAAGAAAAA
1 ---GCTATTGCTGTTGTTGATGGTGCAATTGATGTAGGGAGTGATGAAATTGAAAAGAAGAAAAA
* ** *
1125 GAAGAAGAAG-AA-GAAGAA-GAGCAATGAAAATGAGGATGCTATT
63 GAAGAAG-AGCAATGAA-AATGAG-GATGCTATTGA-G--GCTATT
*
1168 GAGGCTATTGCTGTTGTTGATGGTGCAATTGATGTGGGGAGTGATGAAATTGAAAAGAAG----A
1 ---GCTATTGCTGTTGTTGATGGTGCAATTGATGTAGGGAGTGATGAAATTGAAAAGAAGAAAAA
*
1229 -AA-AAGAGCAACGAAAATGAGGATGCTATTGA-G----T
63 GAAGAAGAGCAATGAAAATGAGGATGCTATTGAGGCTATT
1262 -CTATTGCTGTTGTTGATGGTGCAATTGATGTAGGGAGTGATGAAATTGAAAAGAAGAAAAAGAA
1 GCTATTGCTGTTGTTGATGGTGCAATTGATGTAGGGAGTGATGAAATTGAAAAGAAG----A-AA
1326 GAAGAAGAAGAGCAATGAAAATGAGGATGCTATTGA-G-----
61 -AAGAAGAAGAGCAATGAAAATGAGGATGCTATTGAGGCTATT
*
1363 GCTATTGCTGTTGTTGATGGTGCAATTGATGTAGGGAGTGGTGAAATTGAAAAGAAGAAAAAGAA
1 GCTATTGCTGTTGTTGATGGTGCAATTGATGTAGGGAGTGATGAAATTGAAAAGAAGAAAAAGAA
** * * *
1428 GAAGAAG-AA-GAAGAACAAAGA-G--AATGAGG--A-G
66 GAAG-AGCAATGAA-AATGAGGATGCTATTGAGGCTATT
* *
1459 GCTATTGCTGTTGTTGATGGTGCAATTGATGCAGGGAGTGATGAAATTGAAAATAAGAAAAAGAA
1 GCTATTGCTGTTGTTGATGGTGCAATTGATGTAGGGAGTGATGAAATTGAAAAGAAGAAAAAGAA
* ** *
1524 GAAGAAG-AA-GAAGAA-GAGCAATGAAAATGAGGATGCTATT
66 GAAG-AGCAATGAA-AATGAG-GATGCTATTGA-G--GCTATT
1564 GAGGCTATTGCTGTTGTTGATGGTGCAATTGATGTAGGGAGTGATGAAATTGAAAAGAAG----A
1 ---GCTATTGCTGTTGTTGATGGTGCAATTGATGTAGGGAGTGATGAAATTGAAAAGAAGAAAAA
*
1625 -AA-AAGAGCAACGAAAATGAGGATGCTATTGA-G----T
63 GAAGAAGAGCAATGAAAATGAGGATGCTATTGAGGCTATT
*
1658 -CTATTGCTGTTGTTGATGGTGCAATTGATGTAGGGAATGATGAAATTGAAAAGAAGAAAAAGAA
1 GCTATTGCTGTTGTTGATGGTGCAATTGATGTAGGGAGTGATGAAATTGAAAAGAAG----A-AA
*
1722 GAAGAAGAAGAGCAATGAAAATGAGGATACTATTGA-G-----
61 -AAGAAGAAGAGCAATGAAAATGAGGATGCTATTGAGGCTATT
1759 GCTATTGCTGTTGTTGATGGTGCAATTGATGTAGGGAGTGATGAAATTGAAAAGCAGAAAAAGAA
1 GCTATTGCTGTTGTTGATGGTGCAATTGATGTAGGGAGTGATGAAATTG-AAA--AG---AAG-A
* * * *
1824 GAAGAAGAAGAAGAACAAAGAGAATGAGGAGGCTATTGAGGCTATT
59 -AA-AAGAAGAAGAGCAATGAAAATGAGGATGCTATTGAGGCTATT
* * * *
1870 GCTGTTGCTGTTGTTGATAGTGCAATTGATGCAGGGAGTGATGAAATTGAAAAGAAGAAGAAGAA
1 GCTATTGCTGTTGTTGATGGTGCAATTGATGTAGGGAGTGATGAAATTGAAAAGAAGAAAAAGAA
* * *
1935 GAAGAAG-AA-GAACAAAGAGAATG--A-GGAGGCTATT
66 GAAG-AGCAATGAA-AATGAGGATGCTATTGAGGCTATT
* * **
1969 GAGGCTATTGCTGTTGTTGACGGTGCAATTGATGCAGGG-GCTGAGGATGAAACCGAAAAGAAGA
1 ---GCTATTGCTGTTGTTGATGGTGCAATTGATGTAGGGAG-T---GATGAAATTGAAAAGAAGA
2033 AAAAGAAGAA
59 AAAAGAAGAA
2043 AAGAAAAAGA
Statistics
Matches: 1028, Mismatches: 75, Indels: 183
0.80 0.06 0.14
Matches are distributed among these distances:
90 110 0.11
93 4 0.00
94 3 0.00
95 5 0.00
96 94 0.09
97 5 0.00
98 3 0.00
99 14 0.01
100 4 0.00
101 14 0.01
102 301 0.29
103 22 0.02
104 9 0.01
105 98 0.10
106 9 0.01
107 4 0.00
108 280 0.27
110 3 0.00
111 46 0.04
ACGTcount: A:0.40, C:0.06, G:0.31, T:0.23
Consensus pattern (102 bp):
GCTATTGCTGTTGTTGATGGTGCAATTGATGTAGGGAGTGATGAAATTGAAAAGAAGAAAAAGAA
GAAGAGCAATGAAAATGAGGATGCTATTGAGGCTATT
Found at i:1021 original size:3 final size:3
Alignment explanation
Indices: 1006--1037 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
996 TGAAATTGAA
*
1006 AAG AAG AAA AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1038 CAAAGAGAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:1646 original size:396 final size:396
Alignment explanation
Indices: 441--2038 Score: 2111
Period size: 396 Copynumber: 3.9 Consensus size: 396
431 AGGCTGTTGC
* ** *
441 TGCTGCTGTTGATGGTGCTAA-TGACATAGGG-GCTGATGAAATTGAAACA-AAGAAAAATAAGA
1 TGCTGTTGTTGATGGTGC-AATTGATGTAGGGAG-TGATGAAATTGAAA-AGAAGAAAAAGAAGA
* *
503 AGAAGAAGAGCAATGAGAATGTA-GATGCCATTGAGGCTATTGCTGTTGCTGTTGTTGATAGTGC
63 AGAAGAAGAGCAATGAAAATG-AGGATGCTATTGAGGCTA------TTGCTGTTGTTGATAGTGC
* * * *
567 AATTGATGTAGGGAGTGATGAATTTGAAAAGAAGAAAAAGAAGAAGAAGAAGAAGAGCAATGAAA
121 AATTGATGTAGGGAGTGATGAAATTGAAAAGAAGAAAAAGAAGAAGAAGAAGAAGAACAAAGAGA
* *
632 ATGAGGATGCTATTGAGGCTATTGCTGTTGTTGATGGTGCAATTGATGTAGGGAGTGATGAAA-T
186 AT--GGA-G---GTGAGGCTATTGCTGTTGTTGATGGTGCAATTGATGCAGGGAGTGATGAAATT
*
696 ---T--GAAAAGAAG-A-AA-AAGAAGAAGAGCAATGAAAATGAGAATGCTATTGAGGCTATTGC
245 GAATAAGAAAAGAAGAAGAAGAAGAAGAAGAGCAATGAAAATGAGGATGCTATTGAGGCTATTGC
* *
753 TGTTGTTGATGGTGCAATTGATGTAGGGAGTGATGAAAATGAAAATAAGAAAAAGAAGAAGAGCA
310 TGTTGTTGATGGTGCAATTGATGTAGGGAGTGATGAAATTG--AA-AAG---AAGAAAAAGAGCA
* *
818 ATGAAAATGAGGATGCTATTGAGGCTAT
369 ACGAAAATGAGGATGCTATTGAGTCTAT
* *
846 TGCTGTTGCTGTTGTGGATGGTGCAATTGATGTAGGGAGTAATGAAATTGAAAAGAATAAAAAGA
1 TGCTG-T--TG-T-T-GATGGTGCAATTGATGTAGGGAGTGATGAAATTGAAAAGAAGAAAAAGA
* * *
911 AAAAGAAGAAGAGCAATGAAAATGAGGATGCTATTGAGGATATTGCTGTTGCTGTTGTTGATAAT
60 AGAAGAAGAAGAGCAATGAAAATGAGGATGCTATTGA-G-----GCTATTGCTGTTGTTGATAGT
*
976 GCAATTGATGCAGGGAGTGATGAAATTGAAAAGAAGAAAAAGAAGAAGAAGAAGAAGAAGAACAA
119 GCAATTGATGTAGGGAGTGATGAAATTGAAAAGAAG--AAA-AAGAAGAAGAAGAAGAAGAACAA
*
1041 AGAGAATGAGGAGGCTATTGAGGCTATTGCTGTTGTTGATGGTGCAATTGATGTAGGGAGTGATG
181 AGAGAAT--GGAGG----TGAGGCTATTGCTGTTGTTGATGGTGCAATTGATGCAGGGAGTGATG
1106 AAATTGAAAATAAGAAAAAGAAGAAGAAGAAGAAGAAGAGCAATGAAAATGAGGATGCTATTGAG
240 AAATTG--AATAAG-AAAAGAAGAAGAAGAAGAAGAAGAGCAATGAAAATGAGGATGCTATTGAG
*
1171 GCTATTGCTGTTGTTGATGGTGCAATTGATGTGGGGAGTGATGAAATTGAAAAGAAGAAAAAGAG
302 GCTATTGCTGTTGTTGATGGTGCAATTGATGTAGGGAGTGATGAAATTGAAAAGAAGAAAAAGAG
1236 CAACGAAAATGAGGATGCTATTGAGTCTAT
367 CAACGAAAATGAGGATGCTATTGAGTCTAT
1266 TGCTGTTGTTGATGGTGCAATTGATGTAGGGAGTGATGAAATTGAAAAGAAGAAAAAGAAGAAGA
1 TGCTGTTGTTGATGGTGCAATTGATGTAGGGAGTGATGAAATTGAAAAGAAGAAAAAGAAGAAGA
*
1331 AGAAGAGCAATGAAAATGAGGATGCTATTGAGGCTATTGCTGTTGTTGATGGTGCAATTGATGTA
66 AGAAGAGCAATGAAAATGAGGATGCTATTGAGGCTATTGCTGTTGTTGATAGTGCAATTGATGTA
*
1396 GGGAGTGGTGAAATTGAAAAGAAGAAAAAGAAGAAGAAGAAGAAGAACAAAGAGAAT-GA-G-GA
131 GGGAGTGATGAAATTGAAAAGAAGAAAAAGAAGAAGAAGAAGAAGAACAAAGAGAATGGAGGTGA
1458 GGCTATTGCTGTTGTTGATGGTGCAATTGATGCAGGGAGTGATGAAATTGAAAATAAGAAAAAGA
196 GGCTATTGCTGTTGTTGATGGTGCAATTGATGCAGGGAGTGATGAAATTG--AATAAG-AAAAGA
1523 AGAAGAAGAAGAAGAAGAGCAATGAAAATGAGGATGCTATTGAGGCTATTGCTGTTGTTGATGGT
258 AGAAGAAGAAGAAGAAGAGCAATGAAAATGAGGATGCTATTGAGGCTATTGCTGTTGTTGATGGT
1588 GCAATTGATGTAGGGAGTGATGAAATTGAAAAGAAGAAAAAGAGCAACGAAAATGAGGATGCTAT
323 GCAATTGATGTAGGGAGTGATGAAATTGAAAAGAAGAAAAAGAGCAACGAAAATGAGGATGCTAT
1653 TGAGTCTAT
388 TGAGTCTAT
*
1662 TGCTGTTGTTGATGGTGCAATTGATGTAGGGAATGATGAAATTGAAAAGAAGAAAAAGAAGAAGA
1 TGCTGTTGTTGATGGTGCAATTGATGTAGGGAGTGATGAAATTGAAAAGAAGAAAAAGAAGAAGA
* *
1727 AGAAGAGCAATGAAAATGAGGATACTATTGAGGCTATTGCTGTTGTTGATGGTGCAATTGATGTA
66 AGAAGAGCAATGAAAATGAGGATGCTATTGAGGCTATTGCTGTTGTTGATAGTGCAATTGATGTA
*
1792 GGGAGTGATGAAATTGAAAAGCAGAAAAAGAAGAAGAAGAAGAAGAACAAAGAGAATGAGGAGGC
131 GGGAGTGATGAAATTGAAAAGAAGAAAAAGAAGAAGAAGAAGAAGAACAAAGAGAAT--GGAGG-
*
1857 TATTGAGGCTATTGCTGTTGCTGTTGTTGATAGTGCAATTGATGCAGGGAGTGATGAAATTGAA-
193 ---TGAGGCTA------TTGCTGTTGTTGATGGTGCAATTGATGCAGGGAGTGATGAAATTGAAT
* * * *
1921 AAG--AAGAAGAAGAAGAAGAAGAAGAACAAAGAGAATGAGGAGGCTATTGAGGCTATTGCTGTT
249 AAGAAAAGAAGAAGAAGAAGAAGAAGAGCAATGAAAATGAGGATGCTATTGAGGCTATTGCTGTT
* * **
1984 GTTGACGGTGCAATTGATGCAGGG-GCTGAGGATGAAACCGAAAAGAAGAAAAAGA
314 GTTGATGGTGCAATTGATGTAGGGAG-T---GATGAAATTGAAAAGAAGAAAAAGA
2039 AGAAAAGAAA
Statistics
Matches: 1093, Mismatches: 46, Indels: 105
0.88 0.04 0.08
Matches are distributed among these distances:
396 387 0.35
399 2 0.00
400 1 0.00
401 1 0.00
402 2 0.00
404 1 0.00
405 121 0.11
406 3 0.00
408 80 0.07
409 3 0.00
410 5 0.00
411 163 0.15
412 2 0.00
413 5 0.00
414 165 0.15
415 2 0.00
416 1 0.00
417 5 0.00
419 1 0.00
420 44 0.04
422 1 0.00
423 11 0.01
424 3 0.00
425 2 0.00
426 82 0.08
ACGTcount: A:0.40, C:0.06, G:0.31, T:0.23
Consensus pattern (396 bp):
TGCTGTTGTTGATGGTGCAATTGATGTAGGGAGTGATGAAATTGAAAAGAAGAAAAAGAAGAAGA
AGAAGAGCAATGAAAATGAGGATGCTATTGAGGCTATTGCTGTTGTTGATAGTGCAATTGATGTA
GGGAGTGATGAAATTGAAAAGAAGAAAAAGAAGAAGAAGAAGAAGAACAAAGAGAATGGAGGTGA
GGCTATTGCTGTTGTTGATGGTGCAATTGATGCAGGGAGTGATGAAATTGAATAAGAAAAGAAGA
AGAAGAAGAAGAAGAGCAATGAAAATGAGGATGCTATTGAGGCTATTGCTGTTGTTGATGGTGCA
ATTGATGTAGGGAGTGATGAAATTGAAAAGAAGAAAAAGAGCAACGAAAATGAGGATGCTATTGA
GTCTAT
Found at i:1929 original size:3 final size:3
Alignment explanation
Indices: 1921--1946 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
1911 TGAAATTGAA
1921 AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AA
1947 CAAAGAGAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Done.