Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Ga01g00769.F2
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: 2918
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.29
Found at i:464 original size:228 final size:228
Alignment explanation
Indices: 67--1649 Score: 1311
Period size: 228 Copynumber: 6.9 Consensus size: 228
57 CTCGCGAAAG
* * * * * * *
67 ATGCAGATCTTTGTAAAAACTCTTACTGGTAAGACCATCACCCTCGAGGTGGAAAGCTCCGACAC
1 ATGCAGATATTTGTGAAAACCCTCACTGGAAAGACCATCACCCTTGAGGTGGAGAGCTCCGACAC
* *
132 AATTGATAATGTCAAGGCCAAGATCCAAGACAAGGAAGGGATCCCCCCTGACCAACAGAGGCTTA
66 AATTGATAATGTCAAGGCCAAGATCCAGGACAAGGAAGGGATCCCACCTGACCAACAGAGGCTTA
* * * * * *
197 TCTTCGCTGGGAAACAGCTAGAGGATGGCCGTACCCTTGCTGACTACAACATCCAAAAGGAGTCC
131 TCTTTGCTGGGAAGCAGCTGGAGGATGGCCGAACCCTTGCTGACTACAACATTCAAAAGGAGTCT
262 ACCCTCCATCTTGTCCTTCGTCTCAGGGGTGGC
196 ACCCTCCATCTTGTCCTTCGTCTCAGGGGTGGC
* * * * * *
295 ATGCAGATCTTCGTGAAAACCCTCACTGGCAAGACAATCACCCTTGAGGTTGAAAGCTCCGACAC
1 ATGCAGATATTTGTGAAAACCCTCACTGGAAAGACCATCACCCTTGAGGTGGAGAGCTCCGACAC
* * *
360 AATTGATAATGTCAAGGCTAAGATCCAGGATAAGGAAGGGATCCCTCCTGACCAACAGAGGCTTA
66 AATTGATAATGTCAAGGCCAAGATCCAGGACAAGGAAGGGATCCCACCTGACCAACAGAGGCTTA
* * * * * * *
425 TCTTTGCCGGTAAGCAACTGGAAGATGGTCGCACCCTTGCTGACTACAACATTCAAAAAGAGTCT
131 TCTTTGCTGGGAAGCAGCTGGAGGATGGCCGAACCCTTGCTGACTACAACATTCAAAAGGAGTCT
* *
490 ACCCTCCACCTTGTGCTTCGTCTCAGGGGTGGC
196 ACCCTCCATCTTGTCCTTCGTCTCAGGGGTGGC
* * * * * * * *
523 ATGCAAATATTTGTCAAAACTCTTACTGGCAAGACAATCACCCTTGAAGTGGAAAGCTCCGACAC
1 ATGCAGATATTTGTGAAAACCCTCACTGGAAAGACCATCACCCTTGAGGTGGAGAGCTCCGACAC
* * * *
588 AATTGATAATGTCAAGGCCAAGATCCAAGACAAAGAAGGTATCCCTCCTGACCAACAGAGGCTTA
66 AATTGATAATGTCAAGGCCAAGATCCAGGACAAGGAAGGGATCCCACCTGACCAACAGAGGCTTA
* * ** * *
653 TCTTTGCTGGAAAACAATTGGAGGATGGCCGCACCCTTGCTGACTACAACATCCAGAAA-GAGTC
131 TCTTTGCTGGGAAGCAGCTGGAGGATGGCCGAACCCTTGCTGACTACAACATTCA-AAAGGAGTC
* *
717 TACCCTCCACCTTGTCCTTCGTCTTAGGGGTGGC
195 TACCCTCCATCTTGTCCTTCGTCTCAGGGGTGGC
* * * * * * * *
751 ATGCAGATCTTTGTAAAAACGCTCACTGGAAAAACCATCA-CTTTAGAGGTGGAGAGTTCTGATA
1 ATGCAGATATTTGTGAAAACCCTCACTGGAAAGACCATCACCCTT-GAGGTGGAGAGCTCCGACA
* * * * * *
815 CAATTGATAACGTTAAGTCCAAGATTCAGGACAAGG-AGGGCATCCCACCAGACCAGCAGAGG-T
65 CAATTGATAATGTCAAGGCCAAGATCCAGGACAAGGAAGGG-ATCCCACCTGACCAACAGAGGCT
* * * * * * * * *
878 TAATTTTTGCTGGGAAACAACTTGAAGATGGCAGAACCCTTGCAGACTATAACATTCAAAAGGAA
129 T-ATCTTTGCTGGGAAGCAGCTGGAGGATGGCCGAACCCTTGCTGACTACAACATTCAAAAGGAG
* * *
943 TCTACCCTCCAT-TTGGT-GTTGCGTCTTC-GTGGTGGT
193 TCTACCCTCCATCTT-GTCCTT-CGTC-TCAGGGGTGGC
* * * * * * * * * *
979 ATGCA-AGTTTTTGTGAAGACCCTCACAGGAAAGACTATTA-CCTTGGAAGTTGAGAGTTCTGAT
1 ATGCAGA-TATTTGTGAAAACCCTCACTGGAAAGACCATCACCCTT-GAGGTGGAGAGCTCCGAC
* * * * * * * * *
1042 ACGATTGACAATGTGAAAGCTAAGATCCAGGACAAGGAAGGTATTCCACCGGATCAACAGAGGCT
64 ACAATTGATAATGTCAAGGCCAAGATCCAGGACAAGGAAGGGATCCCACCTGACCAACAGAGGCT
* * * ** * * * *
1107 GATTTTTGCTGGCAAGCAGCTGGAGGATGGGAGGACCCTTGCTGATTATAATATTCAGAAA-GAG
129 TATCTTTGCTGGGAAGCAGCTGGAGGATGGCCGAACCCTTGCTGACTACAACATTCA-AAAGGAG
* * * * *
1171 TCAACCCTCCA-CTTGGTGCTTCGCCTGC-GTGGTGGA
193 TCTACCCTCCATCTT-GTCCTTCGTCT-CAGGGGTGGC
** * * * *
1207 ATGCAGATATTTGTGAAAACTTTGACCGGTAAA-ACCATTA-CGTTGGAGGTGGAGAGCTCCGAC
1 ATGCAGATATTTGTGAAAACCCTCACTGG-AAAGACCATCACCCTT-GAGGTGGAGAGCTCCGAC
** * * *
1270 ACGGTTGATAATGTTAAGGCCAAGATCCAAGATAAGG-AGGGTATCCCACCTGACCAACAGAGG-
64 ACAATTGATAATGTCAAGGCCAAGATCCAGGACAAGGAAGGG-ATCCCACCTGACCAACAGAGGC
* * * * * ** * * *
1333 TTGATTTTTGCCGGAAAGCAGCTCGAGGACGGGAGGACCCTTGCGGACTATAACATTCAAAAGGA
128 TT-ATCTTTGCTGGGAAGCAGCTGGAGGATGGCCGAACCCTTGCTGACTACAACATTCAAAAGGA
* * * * * * * *
1398 GTCGACCCTGCAT-TTGGT-TTTGCGCCTTAGAGGAGGG
192 GTCTACCCTCCATCTT-GTCCTT-CGTCTCAGGGGTGGC
* * * * * * * *
1435 ATGCAGATATTTGTCAAGACCTTGACTGGGAAA-ACCATCACCCTGGAGGTTGAGAGCTCGGATA
1 ATGCAGATATTTGTGAAAACCCTCACT-GGAAAGACCATCACCCTTGAGGTGGAGAGCTCCGACA
* * * * * * * * *
1499 CGATTGACAATGTAAAAGCAAAGATTCAGGACAAGG-AGGGAATTCCC-CCGGATCAGCAGAGG-
65 CAATTGATAATGTCAAGGCCAAGATCCAGGACAAGGAAGGG-A-TCCCACCTGACCAACAGAGGC
* * * * * * *
1561 TTGATCTTTGCTGGGAAGCAGTTGGAGGACGGTCGAACCCTAGCTGACTACAATATCCAGAAGGA
128 TT-ATCTTTGCTGGGAAGCAGCTGGAGGATGGCCGAACCCTTGCTGACTACAACATTCAAAAGGA
* *
1626 GTCTACTCTGCATCTTGTCCTTCG
192 GTCTACCCTCCATCTTGTCCTTCG
1650 CCTCCGTGGT
Statistics
Matches: 1120, Mismatches: 207, Indels: 56
0.81 0.15 0.04
Matches are distributed among these distances:
227 26 0.02
228 1065 0.95
229 29 0.03
ACGTcount: A:0.29, C:0.23, G:0.25, T:0.23
Consensus pattern (228 bp):
ATGCAGATATTTGTGAAAACCCTCACTGGAAAGACCATCACCCTTGAGGTGGAGAGCTCCGACAC
AATTGATAATGTCAAGGCCAAGATCCAGGACAAGGAAGGGATCCCACCTGACCAACAGAGGCTTA
TCTTTGCTGGGAAGCAGCTGGAGGATGGCCGAACCCTTGCTGACTACAACATTCAAAAGGAGTCT
ACCCTCCATCTTGTCCTTCGTCTCAGGGGTGGC
Found at i:1375 original size:684 final size:679
Alignment explanation
Indices: 67--1649 Score: 1583
Period size: 684 Copynumber: 2.3 Consensus size: 679
57 CTCGCGAAAG
* * * * * *
67 ATGCAGATCTTTGTAAAAACTCTTACTGGTAAGACCATCACCCTCGAGGTGGAAAGCTCCGACAC
1 ATGCAGATCTTTGTAAAAAC-CTCACTGGAAAAACCATCACCCTAGAGGTGGAGAGCTCCGATAC
* * * * *
132 AATTGATAATGTCAAGGCCAAGATCCAAGACAAGGAAGGGATCCCCCCTGACCAACAGAGGCTTA
65 AATTGATAATGT-AAAGCCAAGATTCAGGACAAGG-AGGGAT-CCCCCAGACCAGCAGAGG-TTA
* * * * * * *
197 TCTTCGCTGGGAAACAGCTAGAGGATGGCCGTACCCTTGCTGACTACAACATCCAAAAGGAGTCC
126 TCTTTGCTGGGAAACAACTAGAAGATGGCAGAACCCTTGCAGACTACAACATCCAAAAGGAATCC
* *
262 ACCCTCCATCTTGTCCTTCGTCTCAGGGGTGGCATGCAGATCTTCGTGAAAACCCTCACTGGCAA
191 ACCCTCCATCTTGTCCTTCGTCTCAGGGGTGGCATGCAGATCTTCGTGAAAACCCTCACAGGAAA
* * * *
327 GACAATCACCCTTGAGGTTGAAAGCTCCGACACAATTGATAATGTCAAGGCTAAGATCCAGGATA
256 GACAATCACCCTTGAAGTTGAAAGCTCCGACACAATTGACAATGTCAAAGCTAAGATCCAGGACA
* * * * **
392 AGGAAGGGATCCCTCCTGACCAACAGAGGCTTATCTTTGCCGGTAAGCAACTGGAAGATGGTCGC
321 AGGAAGGGATCCCACCGGACCAACAGAGGCTGATCTTTGCCGGCAAGCAACTGGAAGATGGGAGC
* *
457 ACCCTTGCTGACTACAACATTCAAAAAGAGTCTACCCTCCACCTTGTGCTTCGTCTCAGGGGTGG
386 ACCCTTGCTGACTACAACATTCAAAAAGAGTCAACCCTCCACCTTGTGCTTCGCCTCAGGGGTGG
* * *
522 CATGCAAATATTTGTCAAAACTCTTACTGGCAAGACAATCACCCTTGAAGTGGAAAGCTCCGACA
451 AATGCAAATATTTGTCAAAACTCTTACCGGCAAAACAATCACCCTTGAAGTGGAAAGCTCCGACA
*
587 CAATTGATAATGTCAAGGCCAAGATCCAAGACAAAGAAGGTATCCCTCCTGACCAACAGAGGCTT
516 CAATTGATAATGTCAAGGCCAAGATCCAAGACAAAGAAGGTATCCCACCTGACCAACAGAGGCTT
* * * * * *
652 ATCTTTGCTGGAAAACAATTGGAGGATGGCCGCACCCTTGCTGACTACAACATCCAGAAA-GAGT
581 ATCTTTGCCGGAAAACAACTCGAGGACGGCAGCACCCTTGCGGACTACAACATCCA-AAAGGAGT
* * * *
716 CTACCCTCCACCTT-GTCCTT-CGTCTTAGGGGTGGC
645 CGACCCTCCA-CTTGGT-CTTGCGCCTTAGAGGAGGC
** * *
751 ATGCAGATCTTTGTAAAAACGCTCACTGGAAAAACCATCACTTTAGAGGTGGAGAGTTCTGATAC
1 ATGCAGATCTTTGTAAAAAC-CTCACTGGAAAAACCATCACCCTAGAGGTGGAGAGCTCCGATAC
* *
816 AATTGATAACGTTAAGTCCAAGATTCAGGACAAGGAGGGCATCCCACCAGACCAGCAGAGGTTAA
65 AATTGATAATGTAAAG-CCAAGATTCAGGACAAGGAGGG-ATCCC-CCAGACCAGCAGAGGTT-A
* * * * *
881 TTTTTGCTGGGAAACAACTTGAAGATGGCAGAACCCTTGCAGACTATAACATTCAAAAGGAATCT
126 TCTTTGCTGGGAAACAACTAGAAGATGGCAGAACCCTTGCAGACTACAACATCCAAAAGGAATCC
* * * * * *
946 ACCCTCCAT-TTGGT-GTTGCGTCTTC-GTGGTGGTATGCA-AGTTTTTGTGAAGACCCTCACAG
191 ACCCTCCATCTT-GTCCTT-CGTC-TCAGGGGTGGCATGCAGA-TCTTCGTGAAAACCCTCACAG
* * * * * * * *
1007 GAAAGACTATTA-CCTTGGAAGTTGAGAGTTCTGATACGATTGACAATGTGAAAGCTAAGATCCA
252 GAAAGACAATCACCCTT-GAAGTTGAAAGCTCCGACACAATTGACAATGTCAAAGCTAAGATCCA
* * * * * * *
1071 GGACAAGGAAGGTATTCCACCGGATCAACAGAGGCTGATTTTTGCTGGCAAGCAGCTGGAGGATG
316 GGACAAGGAAGGGATCCCACCGGACCAACAGAGGCTGATCTTTGCCGGCAAGCAACTGGAAGATG
* * * * *
1136 GGAGGACCCTTGCTGATTATAATATTCAGAAAGAGTCAACCCTCCA-CTTGGTGCTTCGCCTGC-
381 GGAGCACCCTTGCTGACTACAACATTCAAAAAGAGTCAACCCTCCACCTT-GTGCTTCGCCT-CA
* * * * * * * * *
1199 GTGGTGGAATGCAGATATTTGTGAAAACT-TTGACCGGTAAAACCATTA-CGTTGGAGGTGGAGA
444 GGGGTGGAATGCAAATATTTGTCAAAACTCTT-ACCGGCAAAACAATCACCCTT-GAAGTGGAAA
** * * * *
1262 GCTCCGACACGGTTGATAATGTTAAGGCCAAGATCCAAGATAAGGAGGGTATCCCACCTGACCAA
507 GCTCCGACACAATTGATAATGTCAAGGCCAAGATCCAAGACAAAGAAGGTATCCCACCTGACCAA
* * * * * * *
1327 CAGAGG-TTGATTTTTGCCGGAAAGCAGCTCGAGGACGGGAGGACCCTTGCGGACTATAACATTC
572 CAGAGGCTT-ATCTTTGCCGGAAAACAACTCGAGGACGGCAGCACCCTTGCGGACTACAACATCC
* * * *
1391 AAAAGGAGTCGACCCTGCATTTGGTTTTGCGCCTTAGAGGAGGG
636 AAAAGGAGTCGACCCTCCACTTGGTCTTGCGCCTTAGAGGAGGC
* * * * * * * *
1435 ATGCAGATATTTGTCAAGACCTTGACTGGGAAAACCATCACCCTGGAGGTTGAGAGCTCGGATAC
1 ATGCAGATCTTTGTAAAAACC-TCACTGGAAAAACCATCACCCTAGAGGTGGAGAGCTCCGATAC
* * * * *
1500 GATTGACAATGTAAAAGCAAAGATTCAGGACAAGGAGGGAATTCCCCCGGATCAGCAGAGGTTGA
65 AATTGATAATGT-AAAGCCAAGATTCAGGACAAGGAGGG-A-TCCCCCAGACCAGCAGAGGTT-A
* ** * * * * * * * *
1565 TCTTTGCTGGGAAGCAGTTGGAGGACGGTC-GAACCCTAGCTGACTACAATATCCAGAAGGAGTC
126 TCTTTGCTGGGAAACAACTAGAAGATGG-CAGAACCCTTGCAGACTACAACATCCAAAAGGAATC
* * *
1629 TACTCTGCATCTTGTCCTTCG
190 CACCCTCCATCTTGTCCTTCG
1650 CCTCCGTGGT
Statistics
Matches: 729, Mismatches: 147, Indels: 46
0.79 0.16 0.05
Matches are distributed among these distances:
683 38 0.05
684 676 0.93
685 15 0.02
ACGTcount: A:0.29, C:0.23, G:0.25, T:0.23
Consensus pattern (679 bp):
ATGCAGATCTTTGTAAAAACCTCACTGGAAAAACCATCACCCTAGAGGTGGAGAGCTCCGATACA
ATTGATAATGTAAAGCCAAGATTCAGGACAAGGAGGGATCCCCCAGACCAGCAGAGGTTATCTTT
GCTGGGAAACAACTAGAAGATGGCAGAACCCTTGCAGACTACAACATCCAAAAGGAATCCACCCT
CCATCTTGTCCTTCGTCTCAGGGGTGGCATGCAGATCTTCGTGAAAACCCTCACAGGAAAGACAA
TCACCCTTGAAGTTGAAAGCTCCGACACAATTGACAATGTCAAAGCTAAGATCCAGGACAAGGAA
GGGATCCCACCGGACCAACAGAGGCTGATCTTTGCCGGCAAGCAACTGGAAGATGGGAGCACCCT
TGCTGACTACAACATTCAAAAAGAGTCAACCCTCCACCTTGTGCTTCGCCTCAGGGGTGGAATGC
AAATATTTGTCAAAACTCTTACCGGCAAAACAATCACCCTTGAAGTGGAAAGCTCCGACACAATT
GATAATGTCAAGGCCAAGATCCAAGACAAAGAAGGTATCCCACCTGACCAACAGAGGCTTATCTT
TGCCGGAAAACAACTCGAGGACGGCAGCACCCTTGCGGACTACAACATCCAAAAGGAGTCGACCC
TCCACTTGGTCTTGCGCCTTAGAGGAGGC
Found at i:1661 original size:456 final size:453
Alignment explanation
Indices: 66--1653 Score: 1535
Period size: 456 Copynumber: 3.5 Consensus size: 453
56 CCTCGCGAAA
* * * * * *
66 GATGCAGATCTTTGTAAAAACTCTTACTGGTAAGACCATCACCCTCGAGGTGGAAAGCTCCGACA
1 GATGCAGATATTTGTCAAAACTCTTACTGGGAAAACCATCACCCTGGAAGTGGAAAGCTCCGACA
* * * * *
131 CAATTGATAATGTCAAGGCCAAGATCCAAGACAAGGAAGGGATCCCCCCTGACCAACAGAGGCTT
66 CAATTGACAATGTCAAAGCCAAGATCCAAGACAAGGAAGGTATTCCCCCGGACCAACAGAGGCTT
* * *
196 ATCTTCGCTGGGAAACAGCTAGAGGATGGCCGTACCCTTGCTGACTACAACATCCA-AAAGGAGT
131 ATCTTTGCTGGGAAACAGCTGGAGGATGGCCGAACCCTTGCTGACTACAACATCCAGAAA-GAGT
* * * *
260 CCACCCTCCATCTTGTCCTTCGTCTCAGGGGTGGCATGCAGATCTTCGTGAAAACCCTCACTGGC
195 CTACCCTCCATCTTGTCCTTCGCCTCAGGGGTGGCATGCAGATCTTTGTGAAAACCCTCACTGGA
* * * * * *
325 AAGACAATCACCCTTGAGGTTGAAAGCTCCGACACAATTGATAATGTCAAGGCTAAGATCCAGGA
260 AAAACCATCA-CCTTGAGGTGGAGAGCTCCGACACAATTGATAATGTTAAGGCCAAGATCCAGGA
* * * *
390 TAAGGAAGGGATCCCTCCTGACCAACAGAGGCTTATCTTTGCCGGTAAGCAACTGGAAGATGGTC
324 TAAGG-AGGGATCCCACCTGACCAACAGAGG-TTATTTTTGCCGGAAAGCAACTCGAAGATGG-C
* * * * * * *
455 -GCACCCTTGCTGACTACAACATTCAAAAAGAGTCTACCCTCCACCTT-GTGCTT-CGTCTCAGG
386 AGAACCCTTGCAGACTATAACATTCAAAAGGAGTCTACCCTCCA-TTTGGT-CTTGCGTCTTAGA
517 GGTGG
449 GGTGG
* * * * * *
522 CATGCAAATATTTGTCAAAACTCTTACTGGCAAGACAATCACCCTTGAAGTGGAAAGCTCCGACA
1 GATGCAGATATTTGTCAAAACTCTTACTGGGAAAACCATCACCCTGGAAGTGGAAAGCTCCGACA
* * * *
587 CAATTGATAATGTCAAGGCCAAGATCCAAGACAAAGAAGGTA-TCCCTCCTGACCAACAGAGGCT
66 CAATTGACAATGTCAAAGCCAAGATCCAAGACAAGGAAGGTATTCCC-CCGGACCAACAGAGGCT
* ** *
651 TATCTTTGCTGGAAAACAATTGGAGGATGGCCGCACCCTTGCTGACTACAACATCCAGAAAGAGT
130 TATCTTTGCTGGGAAACAGCTGGAGGATGGCCGAACCCTTGCTGACTACAACATCCAGAAAGAGT
* * * * *
716 CTACCCTCCACCTTGTCCTTCGTCTTAGGGGTGGCATGCAGATCTTTGTAAAAACGCTCACTGGA
195 CTACCCTCCATCTTGTCCTTCGCCTCAGGGGTGGCATGCAGATCTTTGTGAAAACCCTCACTGGA
* * * * * * *
781 AAAACCATCACTTTAGAGGTGGAGAGTTCTGATACAATTGATAACGTTAAGTCCAAGATTCAGGA
260 AAAACCATCACCTT-GAGGTGGAGAGCTCCGACACAATTGATAATGTTAAGGCCAAGATCCAGGA
* * * * *
846 CAAGGAGGGCATCCCACCAGACCAGCAGAGGTTAATTTTTGCTGGGAAA-CAACTTGAAGATGGC
324 TAAGGAGGG-ATCCCACCTGACCAACAGAGGTT-ATTTTTGC-CGGAAAGCAACTCGAAGATGGC
* * * *
910 AGAACCCTTGCAGACTATAACATTCAAAAGGAATCTACCCTCCATTTGGTGTTGCGTCTTCGTGG
386 AGAACCCTTGCAGACTATAACATTCAAAAGGAGTCTACCCTCCATTTGGTCTTGCGTCTTAGAGG
975 TGG
451 TGG
* * * * * * * * * * * * * *
978 TATGCA-AGTTTTTGTGAAGACCCTCAC-AGGAAAGACTATTACCTTGGAAGTTGAGAGTTCTGA
1 GATGCAGA-TATTTGTCAAAACTCTTACTGGGAAA-ACCATCACCCTGGAAGTGGAAAGCTCCGA
* * * * * * *
1041 TACGATTGACAATGTGAAAGCTAAGATCCAGGACAAGGAAGGTATTCCACCGGATCAACAGAGGC
64 CACAATTGACAATGTCAAAGCCAAGATCCAAGACAAGGAAGGTATTCCCCCGGACCAACAGAGGC
* * * * ** * * * * *
1106 TGATTTTTGCTGGCAAGCAGCTGGAGGATGGGAGGACCCTTGCTGATTATAATATTCAGAAAGAG
129 TTATCTTTGCTGGGAAACAGCTGGAGGATGGCCGAACCCTTGCTGACTACAACATCCAGAAAGAG
* * * * * ** * *
1171 TCAACCCTCCA-CTTGGTGCTTCGCCTGC-GTGGTGGAATGCAGATATTTGTGAAAACTTTGACC
194 TCTACCCTCCATCTT-GTCCTTCGCCT-CAGGGGTGGCATGCAGATCTTTGTGAAAACCCTCACT
* * * **
1234 GGTAAAACCATTACGTTGGAGGTGGAGAGCTCCGACACGGTTGATAATGTTAAGGCCAAGATCCA
257 GGAAAAACCATCACCTT-GAGGTGGAGAGCTCCGACACAATTGATAATGTTAAGGCCAAGATCCA
* * * *
1299 AGATAAGGAGGGTATCCCACCTGACCAACAGAGGTTGATTTTTGCCGGAAAGCAGCTCGAGGACG
321 GGATAAGGAGGG-ATCCCACCTGACCAACAGAGGTT-ATTTTTGCCGGAAAGCAACTCGAAGATG
* * * * * * *
1364 GGAGGACCCTTGCGGACTATAACATTCAAAAGGAGTCGACCCTGCATTTGGTTTTGCGCCTTAGA
384 GCAGAACCCTTGCAGACTATAACATTCAAAAGGAGTCTACCCTCCATTTGGTCTTGCGTCTTAGA
*
1429 GGAGG
449 GGTGG
* * * * * *
1434 GATGCAGATATTTGTCAAGAC-CTTGACTGGGAAAACCATCACCCTGGAGGTTGAGAGCTCGGAT
1 GATGCAGATATTTGTCAAAACTCTT-ACTGGGAAAACCATCACCCTGGAAGTGGAAAGCTCCGAC
* * * * * * * * *
1498 ACGATTGACAATGTAAAAGCAAAGATTCAGGACAAGGAGGGAATTCCCCCGGATCAGCAGAGG-T
65 ACAATTGACAATGTCAAAGCCAAGATCCAAGACAAGGAAGGTATTCCCCCGGACCAACAGAGGCT
* * * * * * *
1562 TGATCTTTGCTGGGAAGCAGTTGGAGGACGGTCGAACCCTAGCTGACTACAATATCCAGAAGGAG
130 T-ATCTTTGCTGGGAAACAGCTGGAGGATGGCCGAACCCTTGCTGACTACAACATCCAGAAAGAG
* *
1627 TCTACTCTGCATCTTGTCCTTCGCCTC
194 TCTACCCTCCATCTTGTCCTTCGCCTC
1654 CGTGGTGGTT
Statistics
Matches: 935, Mismatches: 177, Indels: 41
0.81 0.15 0.04
Matches are distributed among these distances:
455 33 0.04
456 883 0.94
457 19 0.02
ACGTcount: A:0.29, C:0.23, G:0.25, T:0.23
Consensus pattern (453 bp):
GATGCAGATATTTGTCAAAACTCTTACTGGGAAAACCATCACCCTGGAAGTGGAAAGCTCCGACA
CAATTGACAATGTCAAAGCCAAGATCCAAGACAAGGAAGGTATTCCCCCGGACCAACAGAGGCTT
ATCTTTGCTGGGAAACAGCTGGAGGATGGCCGAACCCTTGCTGACTACAACATCCAGAAAGAGTC
TACCCTCCATCTTGTCCTTCGCCTCAGGGGTGGCATGCAGATCTTTGTGAAAACCCTCACTGGAA
AAACCATCACCTTGAGGTGGAGAGCTCCGACACAATTGATAATGTTAAGGCCAAGATCCAGGATA
AGGAGGGATCCCACCTGACCAACAGAGGTTATTTTTGCCGGAAAGCAACTCGAAGATGGCAGAAC
CCTTGCAGACTATAACATTCAAAAGGAGTCTACCCTCCATTTGGTCTTGCGTCTTAGAGGTGG
Found at i:1912 original size:87 final size:87
Alignment explanation
Indices: 1761--1943 Score: 321
Period size: 87 Copynumber: 2.1 Consensus size: 87
1751 TTTTTTAAGG
1761 TAATGATACTTTGGTGTGAAGTGGTTAGAGAGCCACAACTCACTTACTATATTAAATAAGGTTCG
1 TAAT-ATACTTTGGTGTGAAGTGGTTAGAGAGCCACAACTCACTTACTATATTAAATAAGGTTCG
1826 GACTATTTCATAATCTCCTATCC
65 GACTATTTCATAATCTCCTATCC
* * *
1849 TAATATACTTTGGTGTGAAGTGGTTAGAGAGCTACAACTCAGTTACTATATTAATTAAGGTTCGG
1 TAATATACTTTGGTGTGAAGTGGTTAGAGAGCCACAACTCACTTACTATATTAAATAAGGTTCGG
*
1914 ACTATTTCATAATCTCGTATCC
66 ACTATTTCATAATCTCCTATCC
1936 TAATATAC
1 TAATATAC
1944 ATTCATCTTG
Statistics
Matches: 91, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
87 87 0.96
88 4 0.04
ACGTcount: A:0.31, C:0.16, G:0.17, T:0.36
Consensus pattern (87 bp):
TAATATACTTTGGTGTGAAGTGGTTAGAGAGCCACAACTCACTTACTATATTAAATAAGGTTCGG
ACTATTTCATAATCTCCTATCC
Done.