Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1663
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: 4423
ACGTcount: A:0.34, C:0.14, G:0.20, T:0.32
Found at i:2234 original size:469 final size:469
Alignment explanation
Indices: 1--4423 Score: 5609
Period size: 469 Copynumber: 9.4 Consensus size: 469
1 ATTTGAGGCACAAAGTTAGACTTTGCAAAAATTGGAGAGAAGAAAGCCTTTCTTGAGAAGCCAAA
1 ATTTGAGGCACAAAGTTAGACTTTGCAAAAATTGGAGAGAAGAAAGCCTTT-TTGAGAAGCCAAA
* * *
66 GCATCAATAT-GTCTATCCTAATGACACA-ACTTTGTTTATGGTGCCAAATCCTGAAAATAATGC
65 GCATCAATATCATCTATCCTAATGACA-AGACTTTGTTTATGGTGCCAAATCCTAAAAAGAATGC
* * * * *
129 GATTAGTATGACTATTCATGTTTGTCTCCTTTGAGGGATGAACTTTGATTCTATCAAAAATGATG
129 GATTAGTATGACTATTCACGTTTGCCTCCTTTGAGGGAGGAACTTTGATTCGATCAAAAACGATG
194 GAAAGAAAAGTTTTTCTTGCGACACCATATCATCAATGTCA-TATCCTAACGAACGCAATGT-TT
194 GAAAGAAAAGTTTTTCTTGCGACACCATATCATCAATGTCAGTATCCTAACGAACGCAATGTGTT
*
257 TTTTTCCCAATCTTTAAAAGAATGGAGACTTTACAAGAATCATTGCTAGTCTTATTTTTGGGATG
259 TTTTTCCCAATCTTTAAAAGAATGGAGACTTTACAAGAATCGTTGCTAGTCTTATTTTTGGGATG
322 AACTTTGATTTTAACGAAAATAAGGCAAGGAAAAGATTTCATGCAAAAGAAAATGATCGGTATCA
324 AACTTTGATTTTAACGAAAATAAGGCAAGGAAAAGATTTCATGCAAAAGAAAATGATCGGTATCA
*
387 TTTATCCTAATGAGGAGATTGTTTTTATAGTGTCTAATCACAAAATGAATGAAGATCATTACTAG
389 TTTATCCTAATGAGGAGAATGTTTTTATAGTGTCTAATCACAAAATGAATGAAGATCATTACTAG
452 AATCTATGTTTGTCTC
454 AATCTATGTTTGTCTC
* * ** * * *
468 ATTTGAGGCACGAAGTTAGGCTTTATAACAATTGGTGGGAAGAAAGCCTTTTTGAGAAGCCAAAG
1 ATTTGAGGCACAAAGTTAGACTTTGCAAAAATTGGAGAGAAGAAAGCCTTTTTGAGAAGCCAAAG
* ** * ** *
533 CATCATTATCATCTATAATAACGGGAAGACTTTGTTTAT-G-G-CATAATCCTAAAAAGAATGAG
66 CATCAATATCATCTATCCTAATGACAAGACTTTGTTTATGGTGCCA-AATCCTAAAAAGAATG-C
* * *
595 GATTAGTATGACTATTCACGTTTGCCTCTTTTGAGGGAGGAACTTTGATTCGATCTAAAACGGTG
129 GATTAGTATGACTATTCACGTTTGCCTCCTTTGAGGGAGGAACTTTGATTCGATCAAAAACGATG
* * * * ** *
660 TAAAGAAAAGCTTTTCTTGCGACACCAAATCATCAATGTCATGTATCCTAATGATGGGAATGTGT
194 GAAAGAAAAGTTTTTCTTGCGACACCATATCATCAATGTCA-GTATCCTAACGAACGCAATGTGT
* * * * ** * * **
725 TTTTGGTT-TCGAT-TTTGGGAAAGAAAGGAGACTGTTATGAGAGTCGATGCTAGTCTTATTTAC
258 TTTT--TTCCCAATCTTT--AAAAGAATGGAGACT-TTACAAGAATCGTTGCTAGTCTTATTTTT
* * * * *
788 GGGATGAACATTGATTTTAAGGAAAATAGGGTAAGGAAAAGATTTCGATGCAAAAGAAAATTATC
318 GGGATGAACTTTGATTTTAACGAAAATAAGGCAAGGAAAAGATTTC-ATGCAAAAGAAAATGATC
** * * * * *
853 AATATCGTTTATCCGAATGAGGAGAATGTTTTTATAGTGTCAAATCA-GAAATGAATGATGATCA
382 GGTATCATTTATCCTAATGAGGAGAATGTTTTTATAGTGTCTAATCACAAAATGAATGAAGATCA
* * *
917 TTGCTAGAATCTATATTTGACTC
447 TTACTAGAATCTATGTTTGTCTC
940 ATTTGAGGCACAAAGTTAGACTTTGCAAAAATTGGAGAGAAGAAAGCCTTTCTTGAGAAGCCAAA
1 ATTTGAGGCACAAAGTTAGACTTTGCAAAAATTGGAGAGAAGAAAGCCTTT-TTGAGAAGCCAAA
* * *
1005 GCATCAATAT-GTCTATCCTAATGACACA-ACTTTGTTTATGGTGCCAAAT-CTGAAAATAATGC
65 GCATCAATATCATCTATCCTAATGACA-AGACTTTGTTTATGGTGCCAAATCCTAAAAAGAATGC
* * * * *
1067 GATTAGTATGACTATTCATGTTTGTCTCCTTTGAGGGATGAACTTTGATTCTATCAAAAATGATG
129 GATTAGTATGACTATTCACGTTTGCCTCCTTTGAGGGAGGAACTTTGATTCGATCAAAAACGATG
*
1132 GAAAGAAAAGTTTTTCTTGCGACACCATATCATCAATGTCATGCATCCTAACGAACGCAA--TGT
194 GAAAGAAAAGTTTTTCTTGCGACACCATATCATCAATGTCA-GTATCCTAACGAACGCAATGTGT
*
1195 TTTTTTCCCAATCTTTAAAAGAATGGAGACTTTACAAGAATCATTGCTAGTCTTATTTTTGGGAT
258 TTTTTTCCCAATCTTTAAAAGAATGGAGACTTTACAAGAATCGTTGCTAGTCTTATTTTTGGGAT
1260 GAACTTTGATTTTAACGAAAATAAGGCAAGGAAAAGATTTCATGCAAAAGAAAATGATCGGTATC
323 GAACTTTGATTTTAACGAAAATAAGGCAAGGAAAAGATTTCATGCAAAAGAAAATGATCGGTATC
1325 ATTTATCCTAATGA-G-GAATGTTTTTATAGTGTCTAATCACAAAATGAATGAAGATCATTACTA
388 ATTTATCCTAATGAGGAGAATGTTTTTATAGTGTCTAATCACAAAATGAATGAAGATCATTACTA
1388 GAATC-ATGTTTGTCTC
453 GAATCTATGTTTGTCTC
* * * * *
1404 ATTTGAGGCACGAAGTTAGGCTTT--AACAATTGGTGGGAAGAAAGCCTTTTTGAGAAGCCAAAG
1 ATTTGAGGCACAAAGTTAGACTTTGCAAAAATTGGAGAGAAGAAAGCCTTTTTGAGAAGCCAAAG
* ** * ** * *
1467 CATCATTATCATCTATAATAACGGGAAGACTTTGTTTAT-G-GCCTAATCCTAAAAAGAATGAGG
66 CATCAATATCATCTATCCTAATGACAAGACTTTGTTTATGGTGCCAAATCCTAAAAAGAATG-CG
* * * *
1530 ATTAGTATGACTATTCACGTTTGCCTCTTTTGAGGGAGGAACTTTGATTCGATCTAAAACGGTGT
130 ATTAGTATGACTATTCACGTTTGCCTCCTTTGAGGGAGGAACTTTGATTCGATCAAAAACGATGG
* * * ** *
1595 AAAGAAAAGCTTTTCTTGCGACACCAAATCATCAATGTCATGTATCCTAATGATGGGAATGTGTT
195 AAAGAAAAGTTTTTCTTGCGACACCATATCATCAATGTCA-GTATCCTAACGAACGCAATGTGTT
* * * * ** * * **
1660 TTTGGTT-TCGAT-TTTGGGAAAGAAAGGAGACTGTTATGAGAGTCGATGCTAGTCTTATTTACG
259 TTT--TTCCCAATCTTT--AAAAGAATGGAGACT-TTACAAGAATCGTTGCTAGTCTTATTTTTG
* * * * * *
1723 GGATGAACATTGATTTTAAGGAAAATAGGGTAAGGAAAAGATTTCGATGCAAAAGAAAATTATCA
319 GGATGAACTTTGATTTTAACGAAAATAAGGCAAGGAAAAGATTTC-ATGCAAAAGAAAATGATCG
* * * * * *
1788 ATATCGTTTATCCGAATGAGGAGAATGTTTTTATAGTGTCAAATCA-GAAATGAATGATGATCAT
383 GTATCATTTATCCTAATGAGGAGAATGTTTTTATAGTGTCTAATCACAAAATGAATGAAGATCAT
* * *
1852 TGCTAGAATCTATATTTGACTC
448 TACTAGAATCTATGTTTGTCTC
1874 ATTTGAGGCACAAAGTTAGACTTTGCAAAAATTGGAGAGAAGAAAGCCTTTCTTGAGAAGCCAAA
1 ATTTGAGGCACAAAGTTAGACTTTGCAAAAATTGGAGAGAAGAAAGCCTTT-TTGAGAAGCCAAA
* * *
1939 GCATCAATATCGTCTATCCTAATGACACA-ACTTTGTTTATGGTGCCAAATCCTGAAAATAATGC
65 GCATCAATATCATCTATCCTAATGACA-AGACTTTGTTTATGGTGCCAAATCCTAAAAAGAATGC
* * * * *
2003 GATTAGTATGACTATTCATGTTTGTCTCCTTTGAGGGATGAACTTTGATTCTATCAAAAATGATG
129 GATTAGTATGACTATTCACGTTTGCCTCCTTTGAGGGAGGAACTTTGATTCGATCAAAAACGATG
* *
2068 GAAAGAAAAGTTTTTCTTGCGACACCATATCATCAATGTCA-CATCCTAACGAACGCAATGTCTT
194 GAAAGAAAAGTTTTTCTTGCGACACCATATCATCAATGTCAGTATCCTAACGAACGCAATGTGTT
*
2132 TTTTTCCCAATCTTTAAAAGAATGGAGACTTTACAAGAATCCTTGCTAGTCTTATTTTTGGGATG
259 TTTTTCCCAATCTTTAAAAGAATGGAGACTTTACAAGAATCGTTGCTAGTCTTATTTTTGGGATG
2197 AACTTTGATTTTAACGAAAATAAGGCAAGGAAAAGATTTACATGCAAAAGAAAATGATCGGTATC
324 AACTTTGATTTTAACGAAAATAAGGCAAGGAAAAGATTT-CATGCAAAAGAAAATGATCGGTATC
*
2262 ATTTATCCTAATGAGGAGATTGTTTTTATAGTGTCTAATCACAAAATGAATGAAGATCATTACTA
388 ATTTATCCTAATGAGGAGAATGTTTTTATAGTGTCTAATCACAAAATGAATGAAGATCATTACTA
2327 GAATCTATGTTTGTCTC
453 GAATCTATGTTTGTCTC
* ** * * *
2344 ATTTGAGGCAC-AAGTTAGGCTTTATAACAATTGGTGGGAAGAAAGCCTTTTTGAGAAGCCAAAG
1 ATTTGAGGCACAAAGTTAGACTTTGCAAAAATTGGAGAGAAGAAAGCCTTTTTGAGAAGCCAAAG
* ** * ** ** * *
2408 CATCATTATCATCTATAATAACGGGAAGACTTTGTTTATGGCACCTAATCCTAAAAAGAATGAGG
66 CATCAATATCATCTATCCTAATGACAAGACTTTGTTTATGGTGCCAAATCCTAAAAAGAATG-CG
* * * *
2473 ATTAGTATGACTATTCACGTTTGCCTCTTTTGAGGGAGGAACTTTGATTCGATCTAAAACGGTGT
130 ATTAGTATGACTATTCACGTTTGCCTCCTTTGAGGGAGGAACTTTGATTCGATCAAAAACGATGG
* * * ** *
2538 AAAGAAAAGCTTTTCTTGCGACACCAAATCATCAATGTCATGTATCCTAATGATGGGAATGTGTT
195 AAAGAAAAGTTTTTCTTGCGACACCATATCATCAATGTCA-GTATCCTAACGAACGCAATGTGTT
* * * * ** * * **
2603 TTTGGTT-TCGAT-TTTGGGAAAGAAAGGAGACTGTTATGAGAGTCGATGCTAGTCTTATTTACG
259 TTT--TTCCCAATCTTT--AAAAGAATGGAGACT-TTACAAGAATCGTTGCTAGTCTTATTTTTG
* * * * * *
2666 GGATGAACATTGATTTTAAGGAAAATAGGGTAAGGAAAAGATTTCGATGCAAAAGAAAATTATCA
319 GGATGAACTTTGATTTTAACGAAAATAAGGCAAGGAAAAGATTTC-ATGCAAAAGAAAATGATCG
* * * * * * *
2731 ATATCGTTTATCCGAATAAGGAGAATGTTTTTATAGTGTCAAATCA-GAAATGAATGATGATCAT
383 GTATCATTTATCCTAATGAGGAGAATGTTTTTATAGTGTCTAATCACAAAATGAATGAAGATCAT
* * *
2795 TGCTAGAATCTATATTTGACTC
448 TACTAGAATCTATGTTTGTCTC
2817 ATTTGAGGCACAAAGTTAGACTTTGCAAAAATTGGAGAGAAGAAAGCCTTTCTTGAGAAGCCAAA
1 ATTTGAGGCACAAAGTTAGACTTTGCAAAAATTGGAGAGAAGAAAGCCTTT-TTGAGAAGCCAAA
* *
2882 GCATCAATATCATCTATCCTAATGACACA-ACTTTGTTTATGGTGCCAAATCCTGAAAATAATGC
65 GCATCAATATCATCTATCCTAATGACA-AGACTTTGTTTATGGTGCCAAATCCTAAAAAGAATGC
* * * * *
2946 GATTAGTATGACTATTCATGTTTGTCTCCTTTGAGGGATGAACTTTGATTCTATCAAAAATGATG
129 GATTAGTATGACTATTCACGTTTGCCTCCTTTGAGGGAGGAACTTTGATTCGATCAAAAACGATG
*
3011 GAAAGAAAAGTTTTTCTTGCGACACCATATCATCAATGTCA-TACATCCTAACGAACGCAATGTC
194 GAAAGAAAAGTTTTTCTTGCGACACCATATCATCAATGTCAGT--ATCCTAACGAACGCAATGTG
*
3075 TTTTTTTCCCAATCTTTAAAAGAATGGAGACTTTACAAGAATCCTTGCTAGTCTTATTTTTGGGA
257 TTTTTTTCCCAATCTTTAAAAGAATGGAGACTTTACAAGAATCGTTGCTAGTCTTATTTTTGGGA
3140 TGAACTTTGATTTTAACGAAAATAAGGCAAGGAAAAGATTTACATGCAAAAGAAAATGATCGGTA
322 TGAACTTTGATTTTAACGAAAATAAGGCAAGGAAAAGATTT-CATGCAAAAGAAAATGATCGGTA
*
3205 TCATTTATCCTAATGAGGAGATTGTTTTTATAGTGTCTAATCACAAAATGAATGAAGATCATTAC
386 TCATTTATCCTAATGAGGAGAATGTTTTTATAGTGTCTAATCACAAAATGAATGAAGATCATTAC
3270 TAGAATCTATGTTTGTCTC
451 TAGAATCTATGTTTGTCTC
* * ** ** *
3289 ATTTGAGGCACGAAGTTAGGCTTTATAGCAATTGGTG-GAAAGAAAGCCTTTTTGAGAAGCCAAA
1 ATTTGAGGCACAAAGTTAGACTTTGCAAAAATTGGAGAG-AAGAAAGCCTTTTTGAGAAGCCAAA
** ** * *
3353 GCATC-AT-T-ATC-AT-CT-ATGGGAAGACTTTGTTTATGGCACCTAATCCTAAAAAGAATGAG
65 GCATCAATATCATCTATCCTAATGACAAGACTTTGTTTATGGTGCCAAATCCTAAAAAGAATG-C
* * *
3412 GATTAGTATGACTATTCACGTTTGCCTCTTTTGAGGGAGGAACTTTGATTCGATCTAAAACGGTG
129 GATTAGTATGACTATTCACGTTTGCCTCCTTTGAGGGAGGAACTTTGATTCGATCAAAAACGATG
* * * * ** *
3477 TAAAGAAAAGCTTTTCTTGCGACACCAAATCATCAATGTCATGTATCCTAATGATGGGAATGTGT
194 GAAAGAAAAGTTTTTCTTGCGACACCATATCATCAATGTCA-GTATCCTAACGAACGCAATGTGT
* * * * ** * * **
3542 TTTTGGTT-TCGAT-TTTGGGAAAGAAAGGAGACTGTTATGAGAGTCGATGCTAGTCTTATTTAC
258 TTTT--TTCCCAATCTTT--AAAAGAATGGAGACT-TTACAAGAATCGTTGCTAGTCTTATTTTT
* * * * *
3605 GGGATGAACATTGATTTTAAGGAAAATAGGGTAAGGAAAAGATTTCGATGCAAAAGAAAATTATC
318 GGGATGAACTTTGATTTTAACGAAAATAAGGCAAGGAAAAGATTTC-ATGCAAAAGAAAATGATC
** * * * * *
3670 AATATCGTTTATCCGAA--AGGAGAATGTTTTTATAGTGTCAAATCA-GAAATGAATGATGATCA
382 GGTATCATTTATCCTAATGAGGAGAATGTTTTTATAGTGTCTAATCACAAAATGAATGAAGATCA
* * *
3732 TTGCTAGAATCTATATTTGACTC
447 TTACTAGAATCTATGTTTGTCTC
3755 ATTTGAGGCACAAAGTTAGACTTTGCAAAAATTGGAGAGAAGAAAGCCTTTCTTGAGAAGCCAAA
1 ATTTGAGGCACAAAGTTAGACTTTGCAAAAATTGGAGAGAAGAAAGCCTTT-TTGAGAAGCCAAA
* *
3820 GCATC-A-AT-ATCTATCCTAATGACACA-ACTTTGTTTATGGTGCCAAATCCTGAAAATAATGC
65 GCATCAATATCATCTATCCTAATGACA-AGACTTTGTTTATGGTGCCAAATCCTAAAAAGAATGC
* * * * *
3881 GATTAGTATGACTATTCATGTTTGTCTCCTTTGAGGGATGAACTTTGATTCTATCAAAAATGATG
129 GATTAGTATGACTATTCACGTTTGCCTCCTTTGAGGGAGGAACTTTGATTCGATCAAAAACGATG
* *
3946 GAAAGAAAAGTTTTTCTTGCGACACCATATCATCAATGTCATGCATCCTAACGAACGCAATGTCT
194 GAAAGAAAAGTTTTTCTTGCGACACCATATCATCAATGTCA-GTATCCTAACGAACGCAATGTGT
4011 TTTTTTCCCAATCTTTAAAAGAATGGAGACTTTACAAGAATC-TTGCTAGTCTTATTTTTGGGAT
258 TTTTTTCCCAATCTTTAAAAGAATGGAGACTTTACAAGAATCGTTGCTAGTCTTATTTTTGGGAT
4075 GAACTTTGATTTTAACGAAAATAAGGCAAGGAAAAGATTTACATGCAAAAGAAAATGATCGGTAT
323 GAACTTTGATTTTAACGAAAATAAGGCAAGGAAAAGATTT-CATGCAAAAGAAAATGATCGGTAT
*
4140 CATTTATCCTAATGAGGAGATTGTTTTTATAGTGTCTAATCACAAAATGAATGAAGATCATTACT
387 CATTTATCCTAATGAGGAGAATGTTTTTATAGTGTCTAATCACAAAATGAATGAAGATCATTACT
4205 AGAATCTATGTTTGTCTC
452 AGAATCTATGTTTGTCTC
* * ** * * *
4223 ATTTGAGGCACGAAGTTAGGCTTTATAACAATTGGTGGGAAGAAAGCCTTTTTGAGAAGCCAAAG
1 ATTTGAGGCACAAAGTTAGACTTTGCAAAAATTGGAGAGAAGAAAGCCTTTTTGAGAAGCCAAAG
* ** * ** ** *
4288 CATCATTATCATCTATAATAACGGGAAGACTTTGTTTATGGCACCTAATCCTAAAAAGAATG-GA
66 CATCAATATCATCTATCCTAATGACAAGACTTTGTTTATGGTGCCAAATCCTAAAAAGAATGCGA
* * * *
4352 TTAGTATGACTATTCACGTTTGCCTCTTTTGAGGGAGGAACTTTGATTCGATCTAAAACGGTGTA
131 TTAGTATGACTATTCACGTTTGCCTCCTTTGAGGGAGGAACTTTGATTCGATCAAAAACGATGGA
4417 AAGAAAA
196 AAGAAAA
Statistics
Matches: 3358, Mismatches: 505, Indels: 184
0.83 0.12 0.05
Matches are distributed among these distances:
460 6 0.00
461 34 0.01
462 152 0.05
464 67 0.02
465 162 0.05
466 373 0.11
467 308 0.09
468 230 0.07
469 570 0.17
470 204 0.06
471 181 0.05
472 415 0.12
473 201 0.06
474 372 0.11
475 82 0.02
476 1 0.00
ACGTcount: A:0.34, C:0.14, G:0.20, T:0.32
Consensus pattern (469 bp):
ATTTGAGGCACAAAGTTAGACTTTGCAAAAATTGGAGAGAAGAAAGCCTTTTTGAGAAGCCAAAG
CATCAATATCATCTATCCTAATGACAAGACTTTGTTTATGGTGCCAAATCCTAAAAAGAATGCGA
TTAGTATGACTATTCACGTTTGCCTCCTTTGAGGGAGGAACTTTGATTCGATCAAAAACGATGGA
AAGAAAAGTTTTTCTTGCGACACCATATCATCAATGTCAGTATCCTAACGAACGCAATGTGTTTT
TTTCCCAATCTTTAAAAGAATGGAGACTTTACAAGAATCGTTGCTAGTCTTATTTTTGGGATGAA
CTTTGATTTTAACGAAAATAAGGCAAGGAAAAGATTTCATGCAAAAGAAAATGATCGGTATCATT
TATCCTAATGAGGAGAATGTTTTTATAGTGTCTAATCACAAAATGAATGAAGATCATTACTAGAA
TCTATGTTTGTCTC
Found at i:2882 original size:943 final size:943
Alignment explanation
Indices: 1--4423 Score: 8499
Period size: 934 Copynumber: 4.7 Consensus size: 943
1 ATTTGAGGCACAAAGTTAGACTTTGCAAAAATTGGAGAGAAGAAAGCCTTTCTTGAGAAGCCAAA
1 ATTTGAGGCACAAAGTTAGACTTTGCAAAAATTGGAGAGAAGAAAGCCTTTCTTGAGAAGCCAAA
66 GCATCAATATGTCTATCCTAATGACACAACTTTGTTTATGGTGCCAAATCCTGAAAATAATGCGA
66 GCATCAATATGTCTATCCTAATGACACAACTTTGTTTATGGTGCCAAATCCTGAAAATAATGCGA
131 TTAGTATGACTATTCATGTTTGTCTCCTTTGAGGGATGAACTTTGATTCTATCAAAAATGATGGA
131 TTAGTATGACTATTCATGTTTGTCTCCTTTGAGGGATGAACTTTGATTCTATCAAAAATGATGGA
*
196 AAGAAAAGTTTTTCTTGCGACACCATATCATCAATGTCATATCCTAACGAACGCAATGT-TTTTT
196 AAGAAAAGTTTTTCTTGCGACACCATATCATCAATGTCACATCCTAACGAACGCAATGTCTTTTT
*
260 TTCCCAATCTTTAAAAGAATGGAGACTTTACAAGAATCATTGCTAGTCTTATTTTTGGGATGAAC
261 TTCCCAATCTTTAAAAGAATGGAGACTTTACAAGAATCCTTGCTAGTCTTATTTTTGGGATGAAC
325 TTTGATTTTAACGAAAATAAGGCAAGGAAAAGATTT-CATGCAAAAGAAAATGATCGGTATCATT
326 TTTGATTTTAACGAAAATAAGGCAAGGAAAAGATTTACATGCAAAAGAAAATGATCGGTATCATT
389 TATCCTAATGAGGAGATTGTTTTTATAGTGTCTAATCACAAAATGAATGAAGATCATTACTAGAA
391 TATCCTAATGAGGAGATTGTTTTTATAGTGTCTAATCACAAAATGAATGAAGATCATTACTAGAA
454 TCTATGTTTGTCTCATTTGAGGCACGAAGTTAGGCTTTATAACAATTGGTGGGAAGAAAGCCTTT
456 TCTATGTTTGTCTCATTTGAGGCACGAAGTTAGGCTTTATAACAATTGGTGGGAAGAAAGCCTTT
519 TTGAGAAGCCAAAGCATCATTATCATCTATAATAACGGGAAGACTTTGTTTATGGCA--TAATCC
521 TTGAGAAGCCAAAGCATCATTATCATCTATAATAACGGGAAGACTTTGTTTATGGCACCTAATCC
582 TAAAAAGAATGAGGATTAGTATGACTATTCACGTTTGCCTCTTTTGAGGGAGGAACTTTGATTCG
586 TAAAAAGAATGAGGATTAGTATGACTATTCACGTTTGCCTCTTTTGAGGGAGGAACTTTGATTCG
647 ATCTAAAACGGTGTAAAGAAAAGCTTTTCTTGCGACACCAAATCATCAATGTCATGTATCCTAAT
651 ATCTAAAACGGTGTAAAGAAAAGCTTTTCTTGCGACACCAAATCATCAATGTCATGTATCCTAAT
712 GATGGGAATGTGTTTTTGGTTTCGATTTTGGGAAAGAAAGGAGACTGTTATGAGAGTCGATGCTA
716 GATGGGAATGTGTTTTTGGTTTCGATTTTGGGAAAGAAAGGAGACTGTTATGAGAGTCGATGCTA
777 GTCTTATTTACGGGATGAACATTGATTTTAAGGAAAATAGGGTAAGGAAAAGATTTCGATGCAAA
781 GTCTTATTTACGGGATGAACATTGATTTTAAGGAAAATAGGGTAAGGAAAAGATTTCGATGCAAA
*
842 AGAAAATTATCAATATCGTTTATCCGAATGAGGAGAATGTTTTTATAGTGTCAAATCAGAAATGA
846 AGAAAATTATCAATATCGTTTATCCGAATAAGGAGAATGTTTTTATAGTGTCAAATCAGAAATGA
907 ATGATGATCATTGCTAGAATCTATATTTGACTC
911 ATGATGATCATTGCTAGAATCTATATTTGACTC
940 ATTTGAGGCACAAAGTTAGACTTTGCAAAAATTGGAGAGAAGAAAGCCTTTCTTGAGAAGCCAAA
1 ATTTGAGGCACAAAGTTAGACTTTGCAAAAATTGGAGAGAAGAAAGCCTTTCTTGAGAAGCCAAA
1005 GCATCAATATGTCTATCCTAATGACACAACTTTGTTTATGGTGCCAAAT-CTGAAAATAATGCGA
66 GCATCAATATGTCTATCCTAATGACACAACTTTGTTTATGGTGCCAAATCCTGAAAATAATGCGA
1069 TTAGTATGACTATTCATGTTTGTCTCCTTTGAGGGATGAACTTTGATTCTATCAAAAATGATGGA
131 TTAGTATGACTATTCATGTTTGTCTCCTTTGAGGGATGAACTTTGATTCTATCAAAAATGATGGA
1134 AAGAAAAGTTTTTCTTGCGACACCATATCATCAATGTCATGCATCCTAACGAACGCAATG--TTT
196 AAGAAAAGTTTTTCTTGCGACACCATATCATCAATGTCA--CATCCTAACGAACGCAATGTCTTT
*
1197 TTTTCCCAATCTTTAAAAGAATGGAGACTTTACAAGAATCATTGCTAGTCTTATTTTTGGGATGA
259 TTTTCCCAATCTTTAAAAGAATGGAGACTTTACAAGAATCCTTGCTAGTCTTATTTTTGGGATGA
1262 ACTTTGATTTTAACGAAAATAAGGCAAGGAAAAGATTT-CATGCAAAAGAAAATGATCGGTATCA
324 ACTTTGATTTTAACGAAAATAAGGCAAGGAAAAGATTTACATGCAAAAGAAAATGATCGGTATCA
1326 TTTATCCTAATGAGGA-A-TGTTTTTATAGTGTCTAATCACAAAATGAATGAAGATCATTACTAG
389 TTTATCCTAATGAGGAGATTGTTTTTATAGTGTCTAATCACAAAATGAATGAAGATCATTACTAG
1389 AATC-ATGTTTGTCTCATTTGAGGCACGAAGTTAGGC-TT-TAACAATTGGTGGGAAGAAAGCCT
454 AATCTATGTTTGTCTCATTTGAGGCACGAAGTTAGGCTTTATAACAATTGGTGGGAAGAAAGCCT
1451 TTTTGAGAAGCCAAAGCATCATTATCATCTATAATAACGGGAAGACTTTGTTTATGG--CCTAAT
519 TTTTGAGAAGCCAAAGCATCATTATCATCTATAATAACGGGAAGACTTTGTTTATGGCACCTAAT
1514 CCTAAAAAGAATGAGGATTAGTATGACTATTCACGTTTGCCTCTTTTGAGGGAGGAACTTTGATT
584 CCTAAAAAGAATGAGGATTAGTATGACTATTCACGTTTGCCTCTTTTGAGGGAGGAACTTTGATT
1579 CGATCTAAAACGGTGTAAAGAAAAGCTTTTCTTGCGACACCAAATCATCAATGTCATGTATCCTA
649 CGATCTAAAACGGTGTAAAGAAAAGCTTTTCTTGCGACACCAAATCATCAATGTCATGTATCCTA
1644 ATGATGGGAATGTGTTTTTGGTTTCGATTTTGGGAAAGAAAGGAGACTGTTATGAGAGTCGATGC
714 ATGATGGGAATGTGTTTTTGGTTTCGATTTTGGGAAAGAAAGGAGACTGTTATGAGAGTCGATGC
1709 TAGTCTTATTTACGGGATGAACATTGATTTTAAGGAAAATAGGGTAAGGAAAAGATTTCGATGCA
779 TAGTCTTATTTACGGGATGAACATTGATTTTAAGGAAAATAGGGTAAGGAAAAGATTTCGATGCA
*
1774 AAAGAAAATTATCAATATCGTTTATCCGAATGAGGAGAATGTTTTTATAGTGTCAAATCAGAAAT
844 AAAGAAAATTATCAATATCGTTTATCCGAATAAGGAGAATGTTTTTATAGTGTCAAATCAGAAAT
1839 GAATGATGATCATTGCTAGAATCTATATTTGACTC
909 GAATGATGATCATTGCTAGAATCTATATTTGACTC
1874 ATTTGAGGCACAAAGTTAGACTTTGCAAAAATTGGAGAGAAGAAAGCCTTTCTTGAGAAGCCAAA
1 ATTTGAGGCACAAAGTTAGACTTTGCAAAAATTGGAGAGAAGAAAGCCTTTCTTGAGAAGCCAAA
1939 GCATCAATATCGTCTATCCTAATGACACAACTTTGTTTATGGTGCCAAATCCTGAAAATAATGCG
66 GCATCAATAT-GTCTATCCTAATGACACAACTTTGTTTATGGTGCCAAATCCTGAAAATAATGCG
2004 ATTAGTATGACTATTCATGTTTGTCTCCTTTGAGGGATGAACTTTGATTCTATCAAAAATGATGG
130 ATTAGTATGACTATTCATGTTTGTCTCCTTTGAGGGATGAACTTTGATTCTATCAAAAATGATGG
2069 AAAGAAAAGTTTTTCTTGCGACACCATATCATCAATGTCACATCCTAACGAACGCAATGTCTTTT
195 AAAGAAAAGTTTTTCTTGCGACACCATATCATCAATGTCACATCCTAACGAACGCAATGTCTTTT
2134 TTTCCCAATCTTTAAAAGAATGGAGACTTTACAAGAATCCTTGCTAGTCTTATTTTTGGGATGAA
260 TTTCCCAATCTTTAAAAGAATGGAGACTTTACAAGAATCCTTGCTAGTCTTATTTTTGGGATGAA
2199 CTTTGATTTTAACGAAAATAAGGCAAGGAAAAGATTTACATGCAAAAGAAAATGATCGGTATCAT
325 CTTTGATTTTAACGAAAATAAGGCAAGGAAAAGATTTACATGCAAAAGAAAATGATCGGTATCAT
2264 TTATCCTAATGAGGAGATTGTTTTTATAGTGTCTAATCACAAAATGAATGAAGATCATTACTAGA
390 TTATCCTAATGAGGAGATTGTTTTTATAGTGTCTAATCACAAAATGAATGAAGATCATTACTAGA
2329 ATCTATGTTTGTCTCATTTGAGGCAC-AAGTTAGGCTTTATAACAATTGGTGGGAAGAAAGCCTT
455 ATCTATGTTTGTCTCATTTGAGGCACGAAGTTAGGCTTTATAACAATTGGTGGGAAGAAAGCCTT
2393 TTTGAGAAGCCAAAGCATCATTATCATCTATAATAACGGGAAGACTTTGTTTATGGCACCTAATC
520 TTTGAGAAGCCAAAGCATCATTATCATCTATAATAACGGGAAGACTTTGTTTATGGCACCTAATC
2458 CTAAAAAGAATGAGGATTAGTATGACTATTCACGTTTGCCTCTTTTGAGGGAGGAACTTTGATTC
585 CTAAAAAGAATGAGGATTAGTATGACTATTCACGTTTGCCTCTTTTGAGGGAGGAACTTTGATTC
2523 GATCTAAAACGGTGTAAAGAAAAGCTTTTCTTGCGACACCAAATCATCAATGTCATGTATCCTAA
650 GATCTAAAACGGTGTAAAGAAAAGCTTTTCTTGCGACACCAAATCATCAATGTCATGTATCCTAA
2588 TGATGGGAATGTGTTTTTGGTTTCGATTTTGGGAAAGAAAGGAGACTGTTATGAGAGTCGATGCT
715 TGATGGGAATGTGTTTTTGGTTTCGATTTTGGGAAAGAAAGGAGACTGTTATGAGAGTCGATGCT
2653 AGTCTTATTTACGGGATGAACATTGATTTTAAGGAAAATAGGGTAAGGAAAAGATTTCGATGCAA
780 AGTCTTATTTACGGGATGAACATTGATTTTAAGGAAAATAGGGTAAGGAAAAGATTTCGATGCAA
2718 AAGAAAATTATCAATATCGTTTATCCGAATAAGGAGAATGTTTTTATAGTGTCAAATCAGAAATG
845 AAGAAAATTATCAATATCGTTTATCCGAATAAGGAGAATGTTTTTATAGTGTCAAATCAGAAATG
2783 AATGATGATCATTGCTAGAATCTATATTTGACTC
910 AATGATGATCATTGCTAGAATCTATATTTGACTC
2817 ATTTGAGGCACAAAGTTAGACTTTGCAAAAATTGGAGAGAAGAAAGCCTTTCTTGAGAAGCCAAA
1 ATTTGAGGCACAAAGTTAGACTTTGCAAAAATTGGAGAGAAGAAAGCCTTTCTTGAGAAGCCAAA
*
2882 GCATCAATATCATCTATCCTAATGACACAACTTTGTTTATGGTGCCAAATCCTGAAAATAATGCG
66 GCATCAATAT-GTCTATCCTAATGACACAACTTTGTTTATGGTGCCAAATCCTGAAAATAATGCG
2947 ATTAGTATGACTATTCATGTTTGTCTCCTTTGAGGGATGAACTTTGATTCTATCAAAAATGATGG
130 ATTAGTATGACTATTCATGTTTGTCTCCTTTGAGGGATGAACTTTGATTCTATCAAAAATGATGG
3012 AAAGAAAAGTTTTTCTTGCGACACCATATCATCAATGTCATACATCCTAACGAACGCAATGTCTT
195 AAAGAAAAGTTTTTCTTGCGACACCATATCATCAATGTC--ACATCCTAACGAACGCAATGTCTT
3077 TTTTTCCCAATCTTTAAAAGAATGGAGACTTTACAAGAATCCTTGCTAGTCTTATTTTTGGGATG
258 TTTTTCCCAATCTTTAAAAGAATGGAGACTTTACAAGAATCCTTGCTAGTCTTATTTTTGGGATG
3142 AACTTTGATTTTAACGAAAATAAGGCAAGGAAAAGATTTACATGCAAAAGAAAATGATCGGTATC
323 AACTTTGATTTTAACGAAAATAAGGCAAGGAAAAGATTTACATGCAAAAGAAAATGATCGGTATC
3207 ATTTATCCTAATGAGGAGATTGTTTTTATAGTGTCTAATCACAAAATGAATGAAGATCATTACTA
388 ATTTATCCTAATGAGGAGATTGTTTTTATAGTGTCTAATCACAAAATGAATGAAGATCATTACTA
* *
3272 GAATCTATGTTTGTCTCATTTGAGGCACGAAGTTAGGCTTTATAGCAATTGGTGGAAAGAAAGCC
453 GAATCTATGTTTGTCTCATTTGAGGCACGAAGTTAGGCTTTATAACAATTGGTGGGAAGAAAGCC
3337 TTTTTGAGAAGCCAAAGCATCATTATCATC--T-AT---GGGAAGACTTTGTTTATGGCACCTAA
518 TTTTTGAGAAGCCAAAGCATCATTATCATCTATAATAACGGGAAGACTTTGTTTATGGCACCTAA
3396 TCCTAAAAAGAATGAGGATTAGTATGACTATTCACGTTTGCCTCTTTTGAGGGAGGAACTTTGAT
583 TCCTAAAAAGAATGAGGATTAGTATGACTATTCACGTTTGCCTCTTTTGAGGGAGGAACTTTGAT
3461 TCGATCTAAAACGGTGTAAAGAAAAGCTTTTCTTGCGACACCAAATCATCAATGTCATGTATCCT
648 TCGATCTAAAACGGTGTAAAGAAAAGCTTTTCTTGCGACACCAAATCATCAATGTCATGTATCCT
3526 AATGATGGGAATGTGTTTTTGGTTTCGATTTTGGGAAAGAAAGGAGACTGTTATGAGAGTCGATG
713 AATGATGGGAATGTGTTTTTGGTTTCGATTTTGGGAAAGAAAGGAGACTGTTATGAGAGTCGATG
3591 CTAGTCTTATTTACGGGATGAACATTGATTTTAAGGAAAATAGGGTAAGGAAAAGATTTCGATGC
778 CTAGTCTTATTTACGGGATGAACATTGATTTTAAGGAAAATAGGGTAAGGAAAAGATTTCGATGC
3656 AAAAGAAAATTATCAATATCGTTTATCCG-A-AAGGAGAATGTTTTTATAGTGTCAAATCAGAAA
843 AAAAGAAAATTATCAATATCGTTTATCCGAATAAGGAGAATGTTTTTATAGTGTCAAATCAGAAA
3719 TGAATGATGATCATTGCTAGAATCTATATTTGACTC
908 TGAATGATGATCATTGCTAGAATCTATATTTGACTC
3755 ATTTGAGGCACAAAGTTAGACTTTGCAAAAATTGGAGAGAAGAAAGCCTTTCTTGAGAAGCCAAA
1 ATTTGAGGCACAAAGTTAGACTTTGCAAAAATTGGAGAGAAGAAAGCCTTTCTTGAGAAGCCAAA
3820 GCATCAATA--TCTATCCTAATGACACAACTTTGTTTATGGTGCCAAATCCTGAAAATAATGCGA
66 GCATCAATATGTCTATCCTAATGACACAACTTTGTTTATGGTGCCAAATCCTGAAAATAATGCGA
3883 TTAGTATGACTATTCATGTTTGTCTCCTTTGAGGGATGAACTTTGATTCTATCAAAAATGATGGA
131 TTAGTATGACTATTCATGTTTGTCTCCTTTGAGGGATGAACTTTGATTCTATCAAAAATGATGGA
3948 AAGAAAAGTTTTTCTTGCGACACCATATCATCAATGTCATGCATCCTAACGAACGCAATGTCTTT
196 AAGAAAAGTTTTTCTTGCGACACCATATCATCAATGTCA--CATCCTAACGAACGCAATGTCTTT
4013 TTTTCCCAATCTTTAAAAGAATGGAGACTTTACAAGAAT-CTTGCTAGTCTTATTTTTGGGATGA
259 TTTTCCCAATCTTTAAAAGAATGGAGACTTTACAAGAATCCTTGCTAGTCTTATTTTTGGGATGA
4077 ACTTTGATTTTAACGAAAATAAGGCAAGGAAAAGATTTACATGCAAAAGAAAATGATCGGTATCA
324 ACTTTGATTTTAACGAAAATAAGGCAAGGAAAAGATTTACATGCAAAAGAAAATGATCGGTATCA
4142 TTTATCCTAATGAGGAGATTGTTTTTATAGTGTCTAATCACAAAATGAATGAAGATCATTACTAG
389 TTTATCCTAATGAGGAGATTGTTTTTATAGTGTCTAATCACAAAATGAATGAAGATCATTACTAG
4207 AATCTATGTTTGTCTCATTTGAGGCACGAAGTTAGGCTTTATAACAATTGGTGGGAAGAAAGCCT
454 AATCTATGTTTGTCTCATTTGAGGCACGAAGTTAGGCTTTATAACAATTGGTGGGAAGAAAGCCT
4272 TTTTGAGAAGCCAAAGCATCATTATCATCTATAATAACGGGAAGACTTTGTTTATGGCACCTAAT
519 TTTTGAGAAGCCAAAGCATCATTATCATCTATAATAACGGGAAGACTTTGTTTATGGCACCTAAT
4337 CCTAAAAAGAAT--GGATTAGTATGACTATTCACGTTTGCCTCTTTTGAGGGAGGAACTTTGATT
584 CCTAAAAAGAATGAGGATTAGTATGACTATTCACGTTTGCCTCTTTTGAGGGAGGAACTTTGATT
4400 CGATCTAAAACGGTGTAAAGAAAA
649 CGATCTAAAACGGTGTAAAGAAAA
Statistics
Matches: 3449, Mismatches: 8, Indels: 55
0.98 0.00 0.02
Matches are distributed among these distances:
933 1 0.00
934 786 0.23
935 261 0.08
936 257 0.07
937 94 0.03
938 339 0.10
939 322 0.09
940 396 0.11
941 81 0.02
943 600 0.17
944 1 0.00
945 247 0.07
946 64 0.02
ACGTcount: A:0.34, C:0.14, G:0.20, T:0.32
Consensus pattern (943 bp):
ATTTGAGGCACAAAGTTAGACTTTGCAAAAATTGGAGAGAAGAAAGCCTTTCTTGAGAAGCCAAA
GCATCAATATGTCTATCCTAATGACACAACTTTGTTTATGGTGCCAAATCCTGAAAATAATGCGA
TTAGTATGACTATTCATGTTTGTCTCCTTTGAGGGATGAACTTTGATTCTATCAAAAATGATGGA
AAGAAAAGTTTTTCTTGCGACACCATATCATCAATGTCACATCCTAACGAACGCAATGTCTTTTT
TTCCCAATCTTTAAAAGAATGGAGACTTTACAAGAATCCTTGCTAGTCTTATTTTTGGGATGAAC
TTTGATTTTAACGAAAATAAGGCAAGGAAAAGATTTACATGCAAAAGAAAATGATCGGTATCATT
TATCCTAATGAGGAGATTGTTTTTATAGTGTCTAATCACAAAATGAATGAAGATCATTACTAGAA
TCTATGTTTGTCTCATTTGAGGCACGAAGTTAGGCTTTATAACAATTGGTGGGAAGAAAGCCTTT
TTGAGAAGCCAAAGCATCATTATCATCTATAATAACGGGAAGACTTTGTTTATGGCACCTAATCC
TAAAAAGAATGAGGATTAGTATGACTATTCACGTTTGCCTCTTTTGAGGGAGGAACTTTGATTCG
ATCTAAAACGGTGTAAAGAAAAGCTTTTCTTGCGACACCAAATCATCAATGTCATGTATCCTAAT
GATGGGAATGTGTTTTTGGTTTCGATTTTGGGAAAGAAAGGAGACTGTTATGAGAGTCGATGCTA
GTCTTATTTACGGGATGAACATTGATTTTAAGGAAAATAGGGTAAGGAAAAGATTTCGATGCAAA
AGAAAATTATCAATATCGTTTATCCGAATAAGGAGAATGTTTTTATAGTGTCAAATCAGAAATGA
ATGATGATCATTGCTAGAATCTATATTTGACTC
Done.