Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: evm.model.Ga11G0463
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: 3231
ACGTcount: A:0.36, C:0.20, G:0.22, T:0.21
Found at i:1067 original size:69 final size:69
Alignment explanation
Indices: 994--1367 Score: 342
Period size: 69 Copynumber: 5.5 Consensus size: 69
984 TCGTTTTCTT
* * * * * * *
994 CAAGAAAAAGAGCCCCCTGTTGCTGGACATGAAGAACCGTCTGAAATGCTAAATAAACGACCTCT
1 CAAGAAAAAGAGCCCCATGTTGCTGGACATGAAGAGCCGTCGGAAATGCTAGATAAACAACGTCG
1059 ACTC
66 ACTC
* * * * * *
1063 CAAGAAAAAGAGCCACC-TGTCGCTGGACACGAAGAGCCGTCAGAAACGCTAGATCAACAACCTC
1 CAAGAAAAAGAGCC-CCATGTTGCTGGACATGAAGAGCCGTCGGAAATGCTAGATAAACAACGTC
**
1127 TCCTC
65 GACTC
* * * ** *
1132 CAAGGAAAAGAGCCACATGTTCCTGGAGGTGAAGAG-C--CGGAAATGCTAGATAAACAAGGTCG
1 CAAGAAAAAGAGCCCCATGTTGCTGGACATGAAGAGCCGTCGGAAATGCTAGATAAACAACGTCG
**
1194 AAAC
66 ACTC
* * * * * * *
1198 CAAGAAAATGAGCTCCATGTTACCGGACATGAAGAGCCATCGGAAATGCTAAATAAACGACGTCG
1 CAAGAAAAAGAGCCCCATGTTGCTGGACATGAAGAGCCGTCGGAAATGCTAGATAAACAACGTCG
1263 ACTC
66 ACTC
* * * * * * * *
1267 CAAGAAAATGAGCTCCATGTTGATGGACATGAAGAGCCCTCGGAAATACTAGATCAACAGCGTCA
1 CAAGAAAAAGAGCCCCATGTTGCTGGACATGAAGAGCCGTCGGAAATGCTAGATAAACAACGTCG
1332 ACTC
66 ACTC
* * *
1336 CAAGAAAATGAGCTCCATATTGCTGGACATGA
1 CAAGAAAAAGAGCCCCATGTTGCTGGACATGA
1368 GCTAGATAAA
Statistics
Matches: 250, Mismatches: 50, Indels: 10
0.81 0.16 0.03
Matches are distributed among these distances:
66 48 0.19
67 1 0.00
68 2 0.01
69 197 0.79
70 2 0.01
ACGTcount: A:0.37, C:0.24, G:0.22, T:0.17
Consensus pattern (69 bp):
CAAGAAAAAGAGCCCCATGTTGCTGGACATGAAGAGCCGTCGGAAATGCTAGATAAACAACGTCG
ACTC
Found at i:1433 original size:123 final size:123
Alignment explanation
Indices: 1245--1492 Score: 304
Period size: 123 Copynumber: 2.0 Consensus size: 123
1235 CATCGGAAAT
** ** * *
1245 GCTAAATAAACGACGTCGACTCCAAGAAAATGAGCTCCATGTTGATGGACATGAAGAGCCCTCGG
1 GCTAAATAAACGACGTCGACTCCAAGAAAACAAAATCCATGTTGACGGACATGAAGAGCCATCGG
1310 AAATACTAGATC-AAC-AGCGTCAACTCCAAGAAAATGAGCTCCATA-TTGCTGGACATGA
66 AAATACTAGA-CAAACGA-CGTCAACTCCAAGAAAATGAGCTCCA-AGTTGCTGGACATGA
* * * **
1368 GCTAGATAAACTAGGTCGACTCCAAGAAAACAAAATCCATGTTTCCGGACATGAAGAGCCATCGG
1 GCTAAATAAACGACGTCGACTCCAAGAAAACAAAATCCATGTTGACGGACATGAAGAGCCATCGG
** * * *
1433 AAATGTTAGACAAACGACGTCGACTCCTAGAAAATGAGCTCCAAGTTGGTGGACATGA
66 AAATACTAGACAAACGACGTCAACTCCAAGAAAATGAGCTCCAAGTTGCTGGACATGA
1491 GC
1 GC
1493 AGCCCTTAGA
Statistics
Matches: 106, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
122 2 0.02
123 103 0.97
124 1 0.01
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.19
Consensus pattern (123 bp):
GCTAAATAAACGACGTCGACTCCAAGAAAACAAAATCCATGTTGACGGACATGAAGAGCCATCGG
AAATACTAGACAAACGACGTCAACTCCAAGAAAATGAGCTCCAAGTTGCTGGACATGA
Found at i:1530 original size:192 final size:192
Alignment explanation
Indices: 1176--1533 Score: 520
Period size: 192 Copynumber: 1.9 Consensus size: 192
1166 AGCCGGAAAT
** **
1176 GCTAGATAAACAAGGTCGAAACCAAGAAAATGAGCTCCATGTTACCGGACATGAAGAGCCATCGG
1 GCTAGATAAACAAGGTCGAAACCAAGAAAACAAAATCCATGTTACCGGACATGAAGAGCCATCGG
* *
1241 AAATGCTAAATAAACGACGTCGACTCCAAGAAAATGAGCTCCATGTTGATGGACATGAAGAGCCC
66 AAATGCTAAACAAACGACGTCGACTCCAAGAAAATGAGCTCCAAGTTGATGGACATGAAGAGCCC
* *
1306 TCGGAAATACTAGATCAACAGCGTCAACTCCAAGAAAATGAGCTCCATATTGCTGGACATGA
131 TCAGAAATACTAGATAAACAGCGTCAACTCCAAGAAAATGAGCTCCATATTGCTGGACATGA
* ** *
1368 GCTAGATAAACTAGGTCGACTCCAAGAAAACAAAATCCATGTTTCCGGACATGAAGAGCCATCGG
1 GCTAGATAAACAAGGTCGAAACCAAGAAAACAAAATCCATGTTACCGGACATGAAGAGCCATCGG
* * * *
1433 AAATGTTAGACAAACGACGTCGACTCCTAGAAAATGAGCTCCAAGTTGGTGGACATG-AGCAGCC
66 AAATGCTAAACAAACGACGTCGACTCCAAGAAAATGAGCTCCAAGTTGATGGACATGAAG-AGCC
* * * *
1497 CTTAGAAATGCTAGATAAACGGCGTCGACTCCAAGAA
130 CTCAGAAATACTAGATAAACAGCGTCAACTCCAAGAA
1534 CATATCGATG
Statistics
Matches: 145, Mismatches: 20, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
191 2 0.01
192 143 0.99
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.18
Consensus pattern (192 bp):
GCTAGATAAACAAGGTCGAAACCAAGAAAACAAAATCCATGTTACCGGACATGAAGAGCCATCGG
AAATGCTAAACAAACGACGTCGACTCCAAGAAAATGAGCTCCAAGTTGATGGACATGAAGAGCCC
TCAGAAATACTAGATAAACAGCGTCAACTCCAAGAAAATGAGCTCCATATTGCTGGACATGA
Found at i:1586 original size:129 final size:128
Alignment explanation
Indices: 1414--2229 Score: 1229
Period size: 129 Copynumber: 6.3 Consensus size: 128
1404 CCATGTTTCC
* * * * * * *
1414 GGACATGAAGAGCCATCGGAAATGTTAGACAAACGACGTCGACTCCTAGA-AAATGAGCTCCAAG
1 GGACACGAAGAGCCCTCGGAAATGCTAGATAAAAGACGTCGACTCCAAGAGAAA-GAACTCCAAG
* * * *
1478 TTGGTGGACATGAGCAGCCCTTAGAAATGCTAGATAAACGGCGTCGACTCCAAGAACATATCGAT
65 TTGATGGACATGAG-AGCCCTCAGAAATGCTAGATAAACGGCGTCAACTCAAAGAACATATCGAT
* * *
1543 GGACACGAAGAGCCCTCGGAAATGCTAGATAAAAGACGCCGACTCCAACAAAAAGAACTCCAAGT
1 GGACACGAAGAGCCCTCGGAAATGCTAGATAAAAGACGTCGACTCCAAGAGAAAGAACTCCAAGT
** * *
1608 TGATGGACAAAAAGCGCCCTCAAAAATGCTAGATAAACGGCGTCAACTCAAAGAACATATCGAT
66 TGATGGAC-ATGAGAGCCCTCAGAAATGCTAGATAAACGGCGTCAACTCAAAGAACATATCGAT
** *
1672 GGACACGAAGAGCCCTCAAAAATGCTAGATAAAAGACGTCGACTCCAGGAGAAAGAACTCCAAGT
1 GGACACGAAGAGCCCTCGGAAATGCTAGATAAAAGACGTCGACTCCAAGAGAAAGAACTCCAAGT
* *
1737 TGATGGACATGGAGAGCCCTCAGAAATGCTGGATAAACAGCGTCAACTCAAAGAACATATCGAT
66 TGATGGACAT-GAGAGCCCTCAGAAATGCTAGATAAACGGCGTCAACTCAAAGAACATATCGAT
1801 GGACACGAAGAGCCCTCGGAAATGCTAGATAAAAGACGTCGACTCCAAGAGAAAGAACTCCAAGT
1 GGACACGAAGAGCCCTCGGAAATGCTAGATAAAAGACGTCGACTCCAAGAGAAAGAACTCCAAGT
* *
1866 TGATGGACATGAAAAGCCCTCAGAAATGCTAGATAAACGGCGTCGACTCAAAGAACATATCGAT
66 TGATGGACATG-AGAGCCCTCAGAAATGCTAGATAAACGGCGTCAACTCAAAGAACATATCGAT
* *
1930 GGACACAAAGAGCCCTCGAAAATGCTAGATAAAAGACGTCGACTCCAAGAGAAAGAACTCCAAGT
1 GGACACGAAGAGCCCTCGGAAATGCTAGATAAAAGACGTCGACTCCAAGAGAAAGAACTCCAAGT
1995 TGATGGACATGAAGAGCCCTCAGAAATGCTAGATAAACGGCGTCAACTCAAAGAACATATCGAT
66 TGATGGACATG-AGAGCCCTCAGAAATGCTAGATAAACGGCGTCAACTCAAAGAACATATCGAT
* * *
2059 GGACACGAAGAGCCTTCGGAAATACTAGATAAAAGACGTCAACTCCAAGAGAAAGAACTCCAAGT
1 GGACACGAAGAGCCCTCGGAAATGCTAGATAAAAGACGTCGACTCCAAGAGAAAGAACTCCAAGT
* *
2124 TGATAGACATGAAGAGCCCTCAGAAATGCTAGATAAACGGCGTCAACTTAAAGAACATATCGAT
66 TGATGGACATG-AGAGCCCTCAGAAATGCTAGATAAACGGCGTCAACTCAAAGAACATATCGAT
* * * * *
2188 CGACACGAAGAGACCTCGAAAATGCTAGATAAACGGCGTCGA
1 GGACACGAAGAGCCCTCGGAAATGCTAGATAAAAGACGTCGA
2230 ATCAAACAAC
Statistics
Matches: 628, Mismatches: 55, Indels: 8
0.91 0.08 0.01
Matches are distributed among these distances:
128 2 0.00
129 620 0.99
130 6 0.01
ACGTcount: A:0.40, C:0.22, G:0.23, T:0.16
Consensus pattern (128 bp):
GGACACGAAGAGCCCTCGGAAATGCTAGATAAAAGACGTCGACTCCAAGAGAAAGAACTCCAAGT
TGATGGACATGAGAGCCCTCAGAAATGCTAGATAAACGGCGTCAACTCAAAGAACATATCGAT
Found at i:1641 original size:69 final size:69
Alignment explanation
Indices: 1540--2816 Score: 834
Period size: 69 Copynumber: 19.5 Consensus size: 69
1530 AGAACATATC
* * *
1540 GATGGACACGAAGAGCCCTCGGAAATGCTAGATAAAAGACGCCGACTCCAACAAAAAGAACTCCA
1 GATGGACACGAAGAGCCCTCAGAAATGCTAGATAAAAGACGTCGACTCCAACAGAAAGAACTCCA
1605 AGTT
66 AGTT
** * * * * * *
1609 GATGGACAAAAAGCGCCCTCAAAAATGCTAGATAAACGGCGTCAACT-CAA-AG-AA-CA-T---
1 GATGGACACGAAGAGCCCTCAGAAATGCTAGATAAAAGACGTCGACTCCAACAGAAAGAACTCCA
*
1666 A-TC
66 AGTT
* **
1669 GATGGACACGAAGAGCCCTCAAAAATGCTAGATAAAAGACGTCGACTCCAGGAGAAAGAACTCCA
1 GATGGACACGAAGAGCCCTCAGAAATGCTAGATAAAAGACGTCGACTCCAACAGAAAGAACTCCA
1734 AGTT
66 AGTT
* * * * *
1738 GATGGACATGGAGAGCCCTCAGAAATGCTGGATAAACAG-CGTCAACT-CAA-AG-AA-CA-T--
1 GATGGACACGAAGAGCCCTCAGAAATGCTAGATAAA-AGACGTCGACTCCAACAGAAAGAACTCC
*
1795 -A-TC
65 AAGTT
* *
1798 GATGGACACGAAGAGCCCTCGGAAATGCTAGATAAAAGACGTCGACTCCAAGAGAAAGAACTCCA
1 GATGGACACGAAGAGCCCTCAGAAATGCTAGATAAAAGACGTCGACTCCAACAGAAAGAACTCCA
1863 AGTT
66 AGTT
* * * * *
1867 GATGGACATGAAAAGCCCTCAGAAATGCTAGATAAACGGCGTCGACT-CAA-AG-AA-CA-T---
1 GATGGACACGAAGAGCCCTCAGAAATGCTAGATAAAAGACGTCGACTCCAACAGAAAGAACTCCA
*
1924 A-TC
66 AGTT
* *
1927 GATGGACACAAAGAGCCCTC-GAAAATGCTAGATAAAAGACGTCGACTCCAAGAGAAAGAACTCC
1 GATGGACACGAAGAGCCCTCAG-AAATGCTAGATAAAAGACGTCGACTCCAACAGAAAGAACTCC
1991 AAGTT
65 AAGTT
* * * * *
1996 GATGGACATGAAGAGCCCTCAGAAATGCTAGATAAACGGCGTCAACT-CAA-AG-AA-CA-T---
1 GATGGACACGAAGAGCCCTCAGAAATGCTAGATAAAAGACGTCGACTCCAACAGAAAGAACTCCA
*
2053 A-TC
66 AGTT
* * * * *
2056 GATGGACACGAAGAGCCTTCGGAAATACTAGATAAAAGACGTCAACTCCAAGAGAAAGAACTCCA
1 GATGGACACGAAGAGCCCTCAGAAATGCTAGATAAAAGACGTCGACTCCAACAGAAAGAACTCCA
2121 AGTT
66 AGTT
* * * **
2125 GATAGACATGAAGAGCCCTCAGAAATGCTAGAT--AA-ACGGCG--T-CAACTTAAAGAA---CA
1 GATGGACACGAAGAGCCCTCAGAAATGCTAGATAAAAGACGTCGACTCCAACAGAAAGAACTCCA
*
2181 TA-TC
66 -AGTT
* * * * * * *
2185 GATCGACACGAAGAGACCTC-GAAAATGCTAGATAAACGGCGTCGAAT-CAA-A-CAA-CA-T--
1 GATGGACACGAAGAGCCCTCAG-AAATGCTAGATAAAAGACGTCGACTCCAACAGAAAGAACTCC
*
2242 -A-TA
65 AAGTT
* * * *
2245 GATGGACATGAAGAGCCCTCGGAAATGCTAGATAAAAGACGTCGACTCCAAGA-AAATGAGCTCC
1 GATGGACACGAAGAGCCCTCAGAAATGCTAGATAAAAGACGTCGACTCCAACAGAAA-GAACTCC
2309 AAGTT
65 AAGTT
* * * *
2314 GATGGACATGAAGAGCCCTCAGAAATGCTAGATAAACGGCGTCGACT-CAA-AGAACA-TA-T-C
1 GATGGACACGAAGAGCCCTCAGAAATGCTAGATAAAAGACGTCGACTCCAACAGAA-AGAACTCC
*
2374 --GAT
65 AAGTT
* * * * *
2377 -AT--ACACGAAGAGCCCTCGGAAATTCTAGATAAAAGACGTCTACTCCAAGAGAAAGAACTACA
1 GATGGACACGAAGAGCCCTCAGAAATGCTAGATAAAAGACGTCGACTCCAACAGAAAGAACTCCA
*
2439 TGTT
66 AGTT
* * * * *
2443 GATGGACATGAAAAGCCCTCAGAAATGCTAGATAAACGGCGTCGACT-CAA-AG-AA-CA-T---
1 GATGGACACGAAGAGCCCTCAGAAATGCTAGATAAAAGACGTCGACTCCAACAGAAAGAACTCCA
*
2500 A-TC
66 AGTT
* * * * *
2503 GATGGACATGAAGAGCCCTCGGAAATGCTAGATAAAAGACATCGACTACAAGAGAAAGAACTCCA
1 GATGGACACGAAGAGCCCTCAGAAATGCTAGATAAAAGACGTCGACTCCAACAGAAAGAACTCC-
2568 AGAAAATGTT
65 ----AA-GTT
* * * * * *
2578 GATGGACATGAAGAGCCCTCAAAAATTCTAGATAAAAGACATCGACTCCAAGA-AAATGATCTCC
1 GATGGACACGAAGAGCCCTCAGAAATGCTAGATAAAAGACGTCGACTCCAACAGAAA-GAACTCC
2642 AAGTT
65 AAGTT
* * * *
2647 GACGGACATGAAGAGCCCTC-GAAAATGCTAGATAAAAGACGTCGACTCCAAGA-AAATGAGCTC
1 GATGGACACGAAGAGCCCTCAG-AAATGCTAGATAAAAGACGTCGACTCCAACAGAAA-GAACTC
*
2710 CATGTT
64 CAAGTT
* * * * ** * * * *
2716 GCTAGACAC-AGAGAACTCTTTGAAATGCTATATAAACGACGTCGACTCCAA-AAAAATGAGCTC
1 GATGGACACGA-AGAGCCCTCAGAAATGCTAGATAAAAGACGTCGACTCCAACAGAAA-GAACTC
*
2779 CATGTT
64 CAAGTT
* *
2785 GTTAGACATC-AAGAGCCCTC-GAAAATGCTAGA
1 GATGGACA-CGAAGAGCCCTCAG-AAATGCTAGA
2817 AAATGAGCTT
Statistics
Matches: 964, Mismatches: 152, Indels: 184
0.74 0.12 0.14
Matches are distributed among these distances:
59 4 0.00
60 316 0.33
61 27 0.03
62 22 0.02
63 28 0.03
64 12 0.01
65 16 0.02
66 17 0.02
67 14 0.01
68 27 0.03
69 413 0.43
70 8 0.01
73 1 0.00
74 3 0.00
75 56 0.06
ACGTcount: A:0.40, C:0.21, G:0.21, T:0.17
Consensus pattern (69 bp):
GATGGACACGAAGAGCCCTCAGAAATGCTAGATAAAAGACGTCGACTCCAACAGAAAGAACTCCA
AGTT
Found at i:2101 original size:318 final size:310
Alignment explanation
Indices: 1738--2700 Score: 1047
Period size: 318 Copynumber: 3.0 Consensus size: 310
1728 ACTCCAAGTT
* * * * * *
1738 GATGGACATGGAGAGCCCTCAGAAATGCTGGATAAACAG-CGTCAACT-CAAAG-AACATATCGA
1 GATGGACACGAAGAGCCCTCGGAAATACTAGATAAA-AGACGTCAACTCCAAAGAAACATATTGA
* * * * *
1800 TGGACACGAAGAGCCCTCGGAAATGCTAGATAAAAGACGTCGACTCCAAGAGAAAGAACTCCAAG
65 TGGACATGAAGAGCCCTCAGAAATGCTAGATAAACGGCGTCGACT-CAA-AG-AA-CA-T---A-
* *
1865 TTGATGGACATGAAAAGCCCTCAGAAATGCTAGATAAACGGCGTCGACTCAAAGAACATATCGAT
121 TCGATGGACATGAAGAGCCCTC-GAAATGCTAGATAAACGGCGTCGACTCAAAGAACATATCGAT
1930 GGACACAAAGAGCCCTCGAAAATGCTAGATAAAAGACGTCGACTCCAAGAGAAA-GAACTCCAAG
185 GGACACAAAGAGCCCTCGAAAATGCTAGATAAAAGACGTCGACTCCAAGA-AAATGAACTCCAAG
*
1994 TTGATGGACATGAAGAGCCCTCAGAAATGCTAGATAAACGGCGTCAACTCAAAGAACATATC
249 TTGATGGACATGAAGAGCCCTCAGAAATGCTAGATAAACGGCGTCGACTCAAAGAACATATC
* *
2056 GATGGACACGAAGAGCCTTCGGAAATACTAGATAAAAGACGTCAACTCCAAGAGAAAGAACTCCA
1 GATGGACACGAAGAGCCCTCGGAAATACTAGATAAAAGACGTCAACTCCAA-AGAAA-CA-T---
* * *
2121 AGTTGATAGACATGAAGAGCCCTCAGAAATGCTAGATAAACGGCGTCAACTTAAAGAACATATCG
60 A-TTGATGGACATGAAGAGCCCTCAGAAATGCTAGATAAACGGCGTCGACTCAAAGAACATATCG
* * * * * *
2186 ATCGACACGAAGAGACCTCGAAAATGCTAGATAAACGGCGTCGAATCAAACAACATATAGATGGA
124 ATGGACATGAAGAGCCCTCG-AAATGCTAGATAAACGGCGTCGACTCAAAGAACATATCGATGGA
** * *
2251 CATGAAGAGCCCTCGGAAATGCTAGATAAAAGACGTCGACTCCAAGAAAATGAGCTCCAAGTTGA
188 CACAAAGAGCCCTCGAAAATGCTAGATAAAAGACGTCGACTCCAAGAAAATGAACTCCAAGTTGA
2316 TGGACATGAAGAGCCCTCAGAAATGCTAGATAAACGGCGTCGACTCAAAGAACATATC
253 TGGACATGAAGAGCCCTCAGAAATGCTAGATAAACGGCGTCGACTCAAAGAACATATC
** * *
2374 GATATACACGAAGAGCCCTCGGAAATTCTAGATAAAAGACGTCTACTCCAAGAGAAAGAACTACA
1 GATGGACACGAAGAGCCCTCGGAAATACTAGATAAAAGACGTCAACTCC-----AAAGAA--ACA
* *
2439 TGTTGATGGACATGAAAAGCCCTCAGAAATGCTAGATAAACGGCGTCGACTCAAAGAACATATCG
59 TATTGATGGACATGAAGAGCCCTCAGAAATGCTAGATAAACGGCGTCGACTCAAAGAACATATCG
* * * *
2504 ATGGACATGAAGAGCCCTCGGAAATGCTAGATAAAAGACATCGACTACAAGAGAA-AGAACTCCA
124 ATGGACATGAAGAGCCCTC-GAAATGCTAGATAAACGGCGTCGACT-CAA-AGAACA-TA-T-C-
* * * *
2568 AGAAAATGTTGATGGACATGAAGAGCCCTCAAAAATTCTAGATAAAAGACATCGACTCCAAGAAA
182 -G---ATG--GA--CACA--AAGAGCCCTCGAAAATGCTAGATAAAAGACGTCGACTCCAAGAAA
* * * * *
2633 ATGATCTCCAAGTTGACGGACATGAAGAGCCCTC-GAAAATGCTAGATAAAAGACGTCGACTCCA
237 ATGAACTCCAAGTTGATGGACATGAAGAGCCCTCAG-AAATGCTAGATAAACGGCGTCGACTCAA
2697 AGAA
301 AGAA
2701 AATGAGCTCC
Statistics
Matches: 546, Mismatches: 62, Indels: 59
0.82 0.09 0.09
Matches are distributed among these distances:
317 6 0.01
318 350 0.64
319 9 0.02
320 6 0.01
321 3 0.01
322 7 0.01
323 5 0.01
324 4 0.01
325 2 0.00
326 3 0.01
327 45 0.08
329 2 0.00
331 1 0.00
332 1 0.00
333 102 0.19
ACGTcount: A:0.41, C:0.21, G:0.22, T:0.17
Consensus pattern (310 bp):
GATGGACACGAAGAGCCCTCGGAAATACTAGATAAAAGACGTCAACTCCAAAGAAACATATTGAT
GGACATGAAGAGCCCTCAGAAATGCTAGATAAACGGCGTCGACTCAAAGAACATATCGATGGACA
TGAAGAGCCCTCGAAATGCTAGATAAACGGCGTCGACTCAAAGAACATATCGATGGACACAAAGA
GCCCTCGAAAATGCTAGATAAAAGACGTCGACTCCAAGAAAATGAACTCCAAGTTGATGGACATG
AAGAGCCCTCAGAAATGCTAGATAAACGGCGTCGACTCAAAGAACATATC
Found at i:2320 original size:258 final size:254
Alignment explanation
Indices: 1414--2700 Score: 1179
Period size: 258 Copynumber: 5.0 Consensus size: 254
1404 CCATGTTTCC
* * * * * * * *
1414 GGACATGAAGAGCCATCGGAAATGTTAGACAAACGACGTCGACTCCTAGAAAATGAGCTCCAAGT
1 GGACACGAAGAGCCCTCGAAAATGCTAGATAAAAGACGTCGACTCCAAG-AAA-GAACT-C-AGT
* * * * * * *
1479 TGGTGGACATG-AGCAGCCCTTAGAAATGCTAGATAAACGGCGTCGACTCCAAGAACATATCGAT
62 TGATGGACATGAAG-AGCCCTCAGAAATGCTAGATAAAAGACGTCAACTCAAAGAAAATATCGAT
* * *
1543 GGACACGAAGAGCCCTCGGAAATGCTAGATAAAAGACGCCGACTCCAACAAAAAGAACTCCAAGT
126 GGACACGAAGAGCCCTCGGAAATGCTAGATAAAAGACGTCGACTCCAAGAGAAAGAACTCCAAGT
** * *
1608 TGATGGACAAAAAGCGCCCTCAAAAATGCTAGATAAACGGCGTCAACTCAAAGAACATATCGAT
191 TGATGGACATGAAGAGCCCTCAGAAATGCTAGATAAACGGCGTCAACTCAAAGAACATATCGAT
*
1672 GGACACGAAGAGCCCTCAAAAATGCTAGATAAAAGACGTCGACTCCAGGAGAAAGAACTCCAAGT
1 GGACACGAAGAGCCCTCGAAAATGCTAGATAAAAGACGTCGACTCCA--AGAAAGAACT-C-AGT
* * *
1737 TGATGGACATGGAGAGCCCTCAGAAATGCTGGATAAACAG-CGTCAACTCAAAGAACATATCGAT
62 TGATGGACATGAAGAGCCCTCAGAAATGCTAGATAAA-AGACGTCAACTCAAAGAAAATATCGAT
1801 GGACACGAAGAGCCCTCGGAAATGCTAGATAAAAGACGTCGACTCCAAGAGAAAGAACTCCAAGT
126 GGACACGAAGAGCCCTCGGAAATGCTAGATAAAAGACGTCGACTCCAAGAGAAAGAACTCCAAGT
* *
1866 TGATGGACATGAAAAGCCCTCAGAAATGCTAGATAAACGGCGTCGACTCAAAGAACATATCGAT
191 TGATGGACATGAAGAGCCCTCAGAAATGCTAGATAAACGGCGTCAACTCAAAGAACATATCGAT
*
1930 GGACACAAAGAGCCCTCGAAAATGCTAGATAAAAGACGTCGACTCCAAGAGAAAGAACTCCAAGT
1 GGACACGAAGAGCCCTCGAAAATGCTAGATAAAAGACGTCGACTCC-A-AGAAAGAACT-C-AGT
* * *
1995 TGATGGACATGAAGAGCCCTCAGAAATGCTAGATAAACGGCGTCAACTCAAAGAACATATCGATG
62 TGATGGACATGAAGAGCCCTCAGAAATGCTAGATAAAAGACGTCAACTCAAAGAAAATATCGATG
* * *
2060 GACACGAAGAGCCTTCGGAAATACTAGATAAAAGACGTCAACTCCAAGAGAAAGAACTCCAAGTT
127 GACACGAAGAGCCCTCGGAAATGCTAGATAAAAGACGTCGACTCCAAGAGAAAGAACTCCAAGTT
* *
2125 GATAGACATGAAGAGCCCTCAGAAATGCTAGATAAACGGCGTCAACTTAAAGAACATATCGAT
192 GATGGACATGAAGAGCCCTCAGAAATGCTAGATAAACGGCGTCAACTCAAAGAACATATCGAT
* * * * * * *
2188 CGACACGAAGAGACCTCGAAAATGCTAGATAAACGGCGTCGAAT-C---AAACAACAT-A-TAGA
1 GGACACGAAGAGCCCTCGAAAATGCTAGATAAAAGACGTCGACTCCAAGAAAGAAC-TCAGTTGA
* * *
2247 TGGACATGAAGAGCCCTCGGAAATGCTAGATAAAAGACGTCGACTCCAAGAAAATGAGCTCCAAG
65 TGGACATGAAGAGCCCTCAGAAATGCTAGATAAAAGACGTCAACTCAAAGAAAAT-A--T-C---
* * * * *
2312 TTGATGGACATGAAGAGCCCTCAGAAATGCTAGATAAACGGCGTCGACT-CAA-AGAACA-TA-T
123 --GATGGACACGAAGAGCCCTCGGAAATGCTAGATAAAAGACGTCGACTCCAAGAGAA-AGAACT
* * * * * * *
2373 -C--GAT-AT--ACACGAAGAGCCCTCGGAAATTCTAGATAAAAGACGTCTACTCCAAGAGAAAG
185 CCAAGTTGATGGACATGAAGAGCCCTCAGAAATGCTAGATAAACGGCGTCAACT-C-----AAAG
* *
2432 AACTACATGTTGAT
244 -A--ACATATCGAT
* * * * *
2446 GGACATGAAAAGCCCTC-AGAAATGCTAGATAAACGGCGTCGACT-C---AAAGAACAT-A-TCG
1 GGACACGAAGAGCCCTCGA-AAATGCTAGATAAAAGACGTCGACTCCAAGAAAGAAC-TCAGTTG
* *
2504 ATGGACATGAAGAGCCCTCGGAAATGCTAGATAAAAGACATCGACTACAAGAGAAAGAACTCCAA
64 ATGGACATGAAGAGCCCTCAGAAATGCTAGATAAAAG--A-CG--T-C---------AACTCAAA
* * * ** * *
2569 GAAAATGTTGATGGACATGAAGAGCCCTCAAAAATTCTAGATAAAAGACATCGACTCCAAGA-AA
114 GAAAATATCGATGGACACGAAGAGCCCTCGGAAATGCTAGATAAAAGACGTCGACTCCAAGAGAA
* * * * * *
2633 ATGATCTCCAAGTTGACGGACATGAAGAGCCCTC-GAAAATGCTAGATAAAAGACGTCGACTCCA
179 A-GAACTCCAAGTTGATGGACATGAAGAGCCCTCAG-AAATGCTAGATAAACGGCGTCAACTCAA
2697 AGAA
242 AGAA
2701 AATGAGCTCC
Statistics
Matches: 884, Mismatches: 91, Indels: 102
0.82 0.08 0.09
Matches are distributed among these distances:
249 88 0.10
250 2 0.00
251 2 0.00
252 9 0.01
253 2 0.00
254 1 0.00
255 5 0.01
256 6 0.01
257 7 0.01
258 636 0.72
259 7 0.01
260 3 0.00
261 2 0.00
263 1 0.00
264 45 0.05
265 5 0.01
266 2 0.00
267 4 0.00
268 1 0.00
270 3 0.00
271 1 0.00
272 2 0.00
273 50 0.06
ACGTcount: A:0.40, C:0.21, G:0.22, T:0.16
Consensus pattern (254 bp):
GGACACGAAGAGCCCTCGAAAATGCTAGATAAAAGACGTCGACTCCAAGAAAGAACTCAGTTGAT
GGACATGAAGAGCCCTCAGAAATGCTAGATAAAAGACGTCAACTCAAAGAAAATATCGATGGACA
CGAAGAGCCCTCGGAAATGCTAGATAAAAGACGTCGACTCCAAGAGAAAGAACTCCAAGTTGATG
GACATGAAGAGCCCTCAGAAATGCTAGATAAACGGCGTCAACTCAAAGAACATATCGAT
Found at i:2342 original size:387 final size:384
Alignment explanation
Indices: 1482--2367 Score: 1192
Period size: 387 Copynumber: 2.3 Consensus size: 384
1472 TCCAAGTTGG
** * * * * *
1482 TGGACATGAGCAGCCCTTAGAAATGCTAGATAAACGGCGTCGACTCCAAGAACATATCGATGGAC
1 TGGACATGAAAAGCCCTCAGAAATGCTAGATAAAAGACGTCGACTCAAAGAAAATATCGATGGAC
* *
1547 ACGAAGAGCCCTCGGAAATGCTAGATAAAAGACGCCGACTCCAACAAAAAGAACTCCAAGTTGAT
66 ACGAAGAGCCCTC-GAAATGCTAGATAAAAGACGTCGACTCCAAGAAAAAGAACTCCAAGTTGAT
*
1612 GGACAAAAAGCGCCCTCAAAAATGCTAGATAAACGGCGTCAACTCAAAGAACATATCGATGGACA
130 GGACAAAAAGAGCCCTCAAAAATGCTAGATAAACGGCGTCAACTCAAAGAACATATCGATGGACA
* * * *
1677 CGAAGAGCCCTCAAAAATGCTAGATAAAAGACGTCGACTCCAGGAGAAAGAACTCCAAGTTGATG
195 CGAAGAGCCCTCAAAAATACTAGATAAAAGACGTCAACTCCAAGAGAAAGAACTCCAAGTTGATA
* * *
1742 GACATGGAGAGCCCTCAGAAATGCTGGATAAACAGCGTCAACTCAAAGAACATATCGATGGACAC
260 GACATGAAGAGCCCTCAGAAATGCTAGATAAACAGCGTCAACTCAAAGAACATATCGATCGACAC
* * * *
1807 GAAGAGCCCTCGGAAATGCTAGATAAAAGACGTCGACTCCAAGAGAAAGAACTCCAAGTTGA
325 GAAGAGACCTCGAAAATGCTAGATAAAAGACGTCGAATCCAAGAGAAAGAACT-C-AGTAGA
* * *
1869 TGGACATGAAAAGCCCTCAGAAATGCTAGATAAACGGCGTCGACTCAAAGAACATATCGATGGAC
1 TGGACATGAAAAGCCCTCAGAAATGCTAGATAAAAGACGTCGACTCAAAGAAAATATCGATGGAC
* *
1934 ACAAAGAGCCCTCGAAAATGCTAGATAAAAGACGTCGACTCCAAGAGAAAGAACTCCAAGTTGAT
66 ACGAAGAGCCCTCG-AAATGCTAGATAAAAGACGTCGACTCCAAGAAAAAGAACTCCAAGTTGAT
** *
1999 GGACATGAAGAGCCCTCAGAAATGCTAGATAAACGGCGTCAACTCAAAGAACATATCGATGGACA
130 GGACAAAAAGAGCCCTCAAAAATGCTAGATAAACGGCGTCAACTCAAAGAACATATCGATGGACA
* **
2064 CGAAGAGCCTTCGGAAATACTAGATAAAAGACGTCAACTCCAAGAGAAAGAACTCCAAGTTGATA
195 CGAAGAGCCCTCAAAAATACTAGATAAAAGACGTCAACTCCAAGAGAAAGAACTCCAAGTTGATA
* *
2129 GACATGAAGAGCCCTCAGAAATGCTAGATAAACGGCGTCAACTTAAAGAACATATCGATCGACAC
260 GACATGAAGAGCCCTCAGAAATGCTAGATAAACAGCGTCAACTCAAAGAACATATCGATCGACAC
* * * *
2194 GAAGAGACCTCGAAAATGCTAGATAAACGGCGTCGAAT-CAA-A-CAA-CA-T-A-TAGA
325 GAAGAGACCTCGAAAATGCTAGATAAAAGACGTCGAATCCAAGAGAAAGAACTCAGTAGA
* * *
2247 TGGACATGAAGAGCCCTCGGAAATGCTAGATAAAAGACGTCGACTCCAAGAAAATGAGCTCCAAG
1 TGGACATGAAAAGCCCTCAGAAATGCTAGATAAAAGACGTCGACTCAAAGAAAAT-A--T-C---
* * * *
2312 TTGATGGACATGAAGAGCCCTCAGAAATGCTAGATAAACGGCGTCGACTCAAAGAA
59 --GATGGACACGAAGAGCCCTC-GAAATGCTAGATAAAAGACGTCGACTCCAAGAA
2368 CATATCGATA
Statistics
Matches: 444, Mismatches: 44, Indels: 22
0.87 0.09 0.04
Matches are distributed among these distances:
378 52 0.12
379 2 0.00
381 1 0.00
382 2 0.00
383 1 0.00
384 2 0.00
385 1 0.00
386 4 0.01
387 378 0.85
388 1 0.00
ACGTcount: A:0.40, C:0.22, G:0.22, T:0.16
Consensus pattern (384 bp):
TGGACATGAAAAGCCCTCAGAAATGCTAGATAAAAGACGTCGACTCAAAGAAAATATCGATGGAC
ACGAAGAGCCCTCGAAATGCTAGATAAAAGACGTCGACTCCAAGAAAAAGAACTCCAAGTTGATG
GACAAAAAGAGCCCTCAAAAATGCTAGATAAACGGCGTCAACTCAAAGAACATATCGATGGACAC
GAAGAGCCCTCAAAAATACTAGATAAAAGACGTCAACTCCAAGAGAAAGAACTCCAAGTTGATAG
ACATGAAGAGCCCTCAGAAATGCTAGATAAACAGCGTCAACTCAAAGAACATATCGATCGACACG
AAGAGACCTCGAAAATGCTAGATAAAAGACGTCGAATCCAAGAGAAAGAACTCAGTAGA
Found at i:2424 original size:129 final size:129
Alignment explanation
Indices: 2189--2716 Score: 603
Period size: 129 Copynumber: 4.0 Consensus size: 129
2179 CATATCGATC
* * * * * *
2189 GACACGAAGAGACCTC-GAAAATGCTAGATAAACGGCGTCGAATCAAACAACATATAGATGGACA
1 GACATGAAGAGCCCTCAG-AAATGCTAGATAAACGGCGTCGACTCAAAGAACATATCGATAGACA
* *
2253 TGAAGAGCCCTCGGAAATGCTAGATAAAAGACGTCGACTCCAAGA-AAATGAGCTCCAAGTTGAT
65 CGAAGAGCCCTCGGAAATGCTAGATAAAAGACGTCGACTCCAAGAGAAA-GAACTCCAAGTTGAT
2317 G
129 G
*
2318 GACATGAAGAGCCCTCAGAAATGCTAGATAAACGGCGTCGACTCAAAGAACATATCGATATACAC
1 GACATGAAGAGCCCTCAGAAATGCTAGATAAACGGCGTCGACTCAAAGAACATATCGATAGACAC
* * * *
2383 GAAGAGCCCTCGGAAATTCTAGATAAAAGACGTCTACTCCAAGAGAAAGAACTACATGTTGATG
66 GAAGAGCCCTCGGAAATGCTAGATAAAAGACGTCGACTCCAAGAGAAAGAACTCCAAGTTGATG
* * *
2447 GACATGAAAAGCCCTCAGAAATGCTAGATAAACGGCGTCGACTCAAAGAACATATCGATGGACAT
1 GACATGAAGAGCCCTCAGAAATGCTAGATAAACGGCGTCGACTCAAAGAACATATCGATAGACAC
* *
2512 GAAGAGCCCTCGGAAATGCTAGATAAAAGACATCGACTACAAGAGAAAGAACTCCAAGAAAATGT
66 GAAGAGCCCTCGGAAATGCTAGATAAAAGACGTCGACTCCAAGAGAAAGAACTCC-----AA-GT
2577 TGATG
125 TGATG
* * * * * * * *
2582 GACATGAAGAGCCCTCAAAAATTCTAGATAAAAGACATCGACTCCAAGAAAATGATCTCCAAGTT
1 GACATGAAGAGCCCTCAGAAATGCTAGATAAACGGCGTCGACTCAAAGAACAT-A--T-C--GAT
* * *
2647 GACGGACATGAAGAGCCCTCGAAAATGCTAGATAAAAGACGTCGACTCCAAGA-AAATGAGCTCC
60 -A--GACACGAAGAGCCCTCGGAAATGCTAGATAAAAGACGTCGACTCCAAGAGAAA-GAACTCC
*
2711 ATGTTG
121 AAGTTG
2717 CTAGACACAG
Statistics
Matches: 343, Mismatches: 38, Indels: 27
0.84 0.09 0.07
Matches are distributed among these distances:
129 221 0.64
130 4 0.01
134 1 0.00
135 52 0.15
136 1 0.00
138 5 0.01
139 2 0.01
141 2 0.01
143 3 0.01
144 52 0.15
ACGTcount: A:0.41, C:0.20, G:0.22, T:0.17
Consensus pattern (129 bp):
GACATGAAGAGCCCTCAGAAATGCTAGATAAACGGCGTCGACTCAAAGAACATATCGATAGACAC
GAAGAGCCCTCGGAAATGCTAGATAAAAGACGTCGACTCCAAGAGAAAGAACTCCAAGTTGATG
Found at i:2548 original size:60 final size:61
Alignment explanation
Indices: 2314--2558 Score: 251
Period size: 60 Copynumber: 3.9 Consensus size: 61
2304 GCTCCAAGTT
* *
2314 GATGGACATGAAGAGCCCTCAGAAATGCTAGATAAACGGCGTCGACT-CAAAGAACATATC
1 GATGGACATGAAGAGCCCTCAGAAATGCTAGATAAAAGACGTCGACTACAAAGAACATATC
** * * * * *
2374 GATATACACGAAGAGCCCTCGGAAATTCTAGATAAAAGACGTCTACTCCAAGAGAAAGAACTACA
1 GATGGACATGAAGAGCCCTCAGAAATGCTAGATAAAAGACGTCGACT-----ACAAAG-A--ACA
* *
2439 TGTT
58 TATC
* * *
2443 GATGGACATGAAAAGCCCTCAGAAATGCTAGATAAACGGCGTCGACT-CAAAGAACATATC
1 GATGGACATGAAGAGCCCTCAGAAATGCTAGATAAAAGACGTCGACTACAAAGAACATATC
* *
2503 GATGGACATGAAGAGCCCTCGGAAATGCTAGATAAAAGACATCGACTACAAGAGAA
1 GATGGACATGAAGAGCCCTCAGAAATGCTAGATAAAAGACGTCGACTACAA-AGAA
2559 AGAACTCCAA
Statistics
Matches: 146, Mismatches: 28, Indels: 20
0.75 0.14 0.10
Matches are distributed among these distances:
60 86 0.59
61 3 0.02
62 5 0.03
63 4 0.03
66 4 0.03
67 1 0.01
69 43 0.29
ACGTcount: A:0.40, C:0.20, G:0.22, T:0.17
Consensus pattern (61 bp):
GATGGACATGAAGAGCCCTCAGAAATGCTAGATAAAAGACGTCGACTACAAAGAACATATC
Found at i:2841 original size:48 final size:48
Alignment explanation
Indices: 2768--2864 Score: 140
Period size: 48 Copynumber: 2.0 Consensus size: 48
2758 CGACTCCAAA
*
2768 AAAATGAGCTCCATGTTGTTAGACATCAAGAGCCCTCGAAAATGCTAG
1 AAAATGAGCTCCATGTTGCTAGACATCAAGAGCCCTCGAAAATGCTAG
* * * * *
2816 AAAATGAGCTTCATGTTGCTGGACATGAAGATCCCTCGGAAATGCTAG
1 AAAATGAGCTCCATGTTGCTAGACATCAAGAGCCCTCGAAAATGCTAG
2864 A
1 A
2865 TAAACGGCGT
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.34, C:0.20, G:0.23, T:0.24
Consensus pattern (48 bp):
AAAATGAGCTCCATGTTGCTAGACATCAAGAGCCCTCGAAAATGCTAG
Found at i:2910 original size:117 final size:117
Alignment explanation
Indices: 2697--2933 Score: 287
Period size: 117 Copynumber: 2.0 Consensus size: 117
2687 GTCGACTCCA
* ** * *
2697 AGAAAATGAGCTCCATGTTGCTAGACACAGAGAACTCTTTGAAATGCTATATAAACGACGTCGAC
1 AGAAAATGAGCTCCATGTTGCTAGACACAGAGAACCCTCGGAAATGCTAGATAAACGACGTCAAC
* *
2762 TCCAAAAAAATGAGCTCCATGTTGTTAGACATCAAGAGCCCTCGAAAATGCT
66 TCCAAAAAAATGAGCTCCATGTCGCTAGACATCAAGAGCCCTCGAAAATGCT
* * * * *
2814 AGAAAATGAGCTTCATGTTGCTGGACA-TGAAGATCCCTCGGAAATGCTAGATAAACGGCGTCAA
1 AGAAAATGAGCTCCATGTTGCTAGACACAG-AGAACCCTCGGAAATGCTAGATAAACGACGTCAA
* * * * * * *
2878 CTCCAAGAAAATGGGCTCCATGTCGCTGGACATGAAGAGGCGTCGGAAATGCT
65 CTCCAAAAAAATGAGCTCCATGTCGCTAGACATCAAGAGCCCTCGAAAATGCT
2931 AGA
1 AGA
2934 TAAACGACGT
Statistics
Matches: 100, Mismatches: 19, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
116 1 0.01
117 99 0.99
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.22
Consensus pattern (117 bp):
AGAAAATGAGCTCCATGTTGCTAGACACAGAGAACCCTCGGAAATGCTAGATAAACGACGTCAAC
TCCAAAAAAATGAGCTCCATGTCGCTAGACATCAAGAGCCCTCGAAAATGCT
Found at i:2925 original size:69 final size:68
Alignment explanation
Indices: 2814--3159 Score: 323
Period size: 69 Copynumber: 5.1 Consensus size: 68
2804 CGAAAATGCT
* * * * *
2814 AGAAAATGAGCTTCATGTTGCTGGACATGAAGATCCCTCGGAAATGCTAGATAAACGGCGTCAAC
1 AGAAAATGAGCTCCATGTTGCTGGACATGAAGA-CCGTCAGAAATGCTAGATAAACGACGTCTAC
2879 TCCA
65 TCCA
* * * * *
2883 AGAAAATGGGCTCCATGTCGCTGGACATGAAGAGGCGTCGGAAATGCTAGATAAACGACGTCGAC
1 AGAAAATGAGCTCCATGTTGCTGGACATGAAGA-CCGTCAGAAATGCTAGATAAACGACGTCTAC
2948 TCCA
65 TCCA
** * * * **
2952 AGAAGTTGAGCACCCTATTTTTGGACATGAAGAGCCGT------TGCTAGATAATATC--CGTCT
1 AGAAAATGAGCTCCATGTTGCTGGACATGAAGA-CCGTCAGAAATGCTAGATAA-A-CGACGTCT
3009 ACTCCA
63 ACTCCA
* *
3015 AGAAAATGAG-TCCACTGTTGCTGGACATGAAGAACTGTCAGAAATGCTAGATAAACCACGTCTA
1 AGAAAATGAGCTCCA-TGTTGCTGGACATGAAG-ACCGTCAGAAATGCTAGATAAACGACGTCTA
3079 CTCCA
64 CTCCA
* * * * * *
3084 AGAAAAGGAGCCCCCTGTTGCTGGACATGAAGAGCCATCAGAAATTCTAGATAAACAACGTCTAC
1 AGAAAATGAGCTCCATGTTGCTGGACATGAAGA-CCGTCAGAAATGCTAGATAAACGACGTCTAC
3149 TCCA
65 TCCA
3153 AGGAAAA
1 A-GAAAA
3160 CAGTCTCCTG
Statistics
Matches: 228, Mismatches: 34, Indels: 29
0.78 0.12 0.10
Matches are distributed among these distances:
62 2 0.01
63 45 0.20
64 2 0.01
65 1 0.00
67 1 0.00
68 2 0.01
69 168 0.74
70 7 0.03
ACGTcount: A:0.34, C:0.22, G:0.23, T:0.21
Consensus pattern (68 bp):
AGAAAATGAGCTCCATGTTGCTGGACATGAAGACCGTCAGAAATGCTAGATAAACGACGTCTACT
CCA
Found at i:2987 original size:186 final size:191
Alignment explanation
Indices: 2628--3159 Score: 483
Period size: 186 Copynumber: 2.7 Consensus size: 191
2618 ATCGACTCCA
* * * * * *
2628 AGAAAATGATCTCCAAGTTGAC-GGACATGAAGAGCCCTCGAAAATGCTAGATAAAAGACGTCGA
1 AGAAAATGAGCTCCATGTTG-CTGGACATGAAGAACCCTCGGAAATGCTAGATAAACGACGTCAA
* * * * *
2692 CTCCAAGAAAATGAGCTCCATGTTGCTAGACA--CAGAGAACTCTTTGAAATGCTATATAAACGA
65 CTCCAAGAAAATGGGCTCCATGTTGCTGGACATGAAGAG-ACTC--AGAAATGCTAGATAAACGA
* * * *
2755 CGTCGACTCCAAAAAAATGAGCTCCATGTTGTTAGACATCAAGAGCC-CTCGA-AA-AT-G-CT-
127 CGTCGACTCCAAGAAAATGAGCACCATATTGTTAGACATCAAGAGCCGCTAGATAATATCGTCTC
* * *
2814 AGAAAATGAGCTTCATGTTGCTGGACATGAAGATCCCTCGGAAATGCTAGATAAACGGCGTCAAC
1 AGAAAATGAGCTCCATGTTGCTGGACATGAAGAACCCTCGGAAATGCTAGATAAACGACGTCAAC
* * *
2879 TCCAAGAAAATGGGCTCCATGTCGCTGGACATGAAGAGGCGTCGGAAATGCTAGATAAACGACGT
66 TCCAAGAAAATGGGCTCCATGTTGCTGGACATGAAGAGAC-TCAGAAATGCTAGATAAACGACGT
** * * * *
2944 CGACTCCAAGAAGTTGAGCACCCTATTTTTGGACATGAAGAGCCGTTGCTAGATAATATCCGTCT
130 CGACTCCAAGAAAATGAGCACCATATTGTTAGACATCAAGAGCC---GCTAGATAATAT-CG--T
3009 ACTCC
189 -CT-C
** * * *
3014 AAGAAAATGAG-TCCACTGTTGCTGGACATGAAGAACTGTCAGAAATGCTAGATAAACCACGTCT
1 -AGAAAATGAGCTCCA-TGTTGCTGGACATGAAGAACCCTCGGAAATGCTAGATAAACGACGTCA
* * * * *
3078 ACTCCAAGAAAA-GGAGCCCCCTGTTGCTGGACATGAAGAGCCATCAGAAATTCTAGATAAACAA
64 ACTCCAAGAAAATGG-GCTCCATGTTGCTGGACATGAAGAGAC-TCAGAAATGCTAGATAAACGA
*
3142 CGTCTACTCCAAGGAAAA
127 CGTCGACTCCAA-GAAAA
3160 CAGTCTCCTG
Statistics
Matches: 280, Mismatches: 44, Indels: 28
0.80 0.12 0.08
Matches are distributed among these distances:
185 1 0.00
186 138 0.49
187 1 0.00
188 6 0.02
190 4 0.01
191 2 0.01
192 2 0.01
194 1 0.00
198 2 0.01
200 5 0.02
201 115 0.41
202 3 0.01
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.21
Consensus pattern (191 bp):
AGAAAATGAGCTCCATGTTGCTGGACATGAAGAACCCTCGGAAATGCTAGATAAACGACGTCAAC
TCCAAGAAAATGGGCTCCATGTTGCTGGACATGAAGAGACTCAGAAATGCTAGATAAACGACGTC
GACTCCAAGAAAATGAGCACCATATTGTTAGACATCAAGAGCCGCTAGATAATATCGTCTC
Found at i:3063 original size:132 final size:132
Alignment explanation
Indices: 2872--3119 Score: 338
Period size: 132 Copynumber: 1.9 Consensus size: 132
2862 AGATAAACGG
* * *
2872 CGTCAACTCCAAGAAAATGGGCTCCATGTCGCTGGACATGAAGAGGCGTCGGAAATGCTAGATAA
1 CGTCAACTCCAAGAAAATGAGCTCCATGTCGCTGGACATGAAGAGACGTCAGAAATGCTAGATAA
* *** **
2937 ACGACGTCGACTCCAAGAAGTTGAGCACCCTATTTTTGGACATGAAGAGCCGTTGCTAGATAATA
66 ACCACGTCGACTCCAAGAAAAGGAGCACCCTATTGCTGGACATGAAGAGCCGTTGCTAGATAATA
3002 TC
131 TC
* *
3004 CGTCTACTCCAAGAAAATGAG-TCCACTGTTGCTGGACATGAAGA-ACTGTCAGAAATGCTAGAT
1 CGTCAACTCCAAGAAAATGAGCTCCA-TGTCGCTGGACATGAAGAGAC-GTCAGAAATGCTAGAT
* * *
3067 AAACCACGTCTACTCCAAGAAAAGGAGCCCCCTGTTGCTGGACATGAAGAGCC
64 AAACCACGTCGACTCCAAGAAAAGGAGCACCCTATTGCTGGACATGAAGAGCC
3120 ATCAGAAATT
Statistics
Matches: 100, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
131 5 0.05
132 95 0.95
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.21
Consensus pattern (132 bp):
CGTCAACTCCAAGAAAATGAGCTCCATGTCGCTGGACATGAAGAGACGTCAGAAATGCTAGATAA
ACCACGTCGACTCCAAGAAAAGGAGCACCCTATTGCTGGACATGAAGAGCCGTTGCTAGATAATA
TC
Found at i:3177 original size:69 final size:68
Alignment explanation
Indices: 2829--3200 Score: 271
Period size: 69 Copynumber: 5.5 Consensus size: 68
2819 ATGAGCTTCA
* * * ** *
2829 TGTTGCTGGACATGAAGATCCCTCGGAAATGCTAGATAAACGGCGTCAACTCCAAGAAAATGG-G
1 TGTTGCTGGACATGAAGAACCATCAGAAATGCTAGATAAACAACGTCTACTCCAAGAAAA-GGAG
*
2893 CTCCA
65 -TCCC
* ** * * * * ***
2898 TGTCGCTGGACATGAAGAGGCGTCGGAAATGCTAGATAAACGACGTCGACTCCAAGAAGTTGAGC
1 TGTTGCTGGACATGAAGAACCATCAGAAATGCTAGATAAACAACGTCTACTCCAAGAAAAGGAG-
*
2963 ACCC
65 TCCC
* ** * * *
2967 TATTTTTGGACATGAAG-AGC--C-G--TTGCTAGATAATATC--CGTCTACTCCAAGAAAATGA
1 TGTTGCTGGACATGAAGAACCATCAGAAATGCTAGATAA-A-CAACGTCTACTCCAAGAAAAGGA
3024 GTCCAC
64 GTCC-C
** *
3030 TGTTGCTGGACATGAAGAACTGTCAGAAATGCTAGATAAACCACGTCTACTCCAAGAAAAGGAGC
1 TGTTGCTGGACATGAAGAACCATCAGAAATGCTAGATAAACAACGTCTACTCCAAGAAAAGGAG-
*
3095 CCCC
65 TCCC
* * *
3099 TGTTGCTGGACATGAAGAGCCATCAGAAATTCTAGATAAACAACGTCTACTCCAAGGAAAA-CAG
1 TGTTGCTGGACATGAAGAACCATCAGAAATGCTAGATAAACAACGTCTACTCCAA-GAAAAGGAG
3163 TCTCC
65 TC-CC
** *
3168 TGGTT-CTGGACACAAAGAACCACCAGAAATGCT
1 T-GTTGCTGGACATGAAGAACCATCAGAAATGCT
3201 CTATAAACGA
Statistics
Matches: 246, Mismatches: 41, Indels: 32
0.77 0.13 0.10
Matches are distributed among these distances:
62 2 0.01
63 43 0.17
64 2 0.01
65 2 0.01
66 2 0.01
67 2 0.01
68 5 0.02
69 178 0.72
70 10 0.04
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.21
Consensus pattern (68 bp):
TGTTGCTGGACATGAAGAACCATCAGAAATGCTAGATAAACAACGTCTACTCCAAGAAAAGGAGT
CCC
Done.