genome.fa.s123.2.7.7.80.10.50.1000.3.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: Scaffold123
Parameters: 2 7 7 80 10 50 1000
Length:  1422801

Tables:   1   2   3   4   5   6   7   8   9   

This is table  3  of  9  ( 1028 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
377525--377601	32	2.4	33	86	4	104	27	15	27	29	1.96
377556--378564	28	35.5	28	85	6	1230	23	17	29	30	1.97
378623--378660	14	2.7	14	91	0	58	31	21	7	39	1.82
379855--379911	24	2.4	23	85	5	78	0	0	17	82	0.67
379855--379910	12	4.8	12	82	10	62	0	0	17	82	0.68
381205--381230	13	2.0	13	100	0	52	38	15	15	30	1.88
395410--395467	10	5.5	11	76	17	52	82	10	5	1	0.89
395425--395467	15	2.9	15	76	13	52	83	11	2	2	0.83
395423--395468	23	2.0	23	83	8	58	82	10	4	2	0.89
396490--396574	37	2.3	37	95	0	161	27	15	14	43	1.85
396939--397719	29	27.3	29	77	11	656	30	30	19	19	1.96
396932--397719	57	13.8	56	80	8	781	30	30	18	19	1.96
396932--397719	86	9.2	83	79	8	667	30	30	18	19	1.96
397460--397693	28	8.2	29	78	6	99	32	29	18	19	1.96
397644--397729	28	3.0	27	83	10	84	33	27	19	18	1.96
397756--397972	49	4.4	49	87	1	299	26	26	15	32	1.95
397756--397968	99	2.2	98	88	4	313	26	26	15	31	1.96
397942--398072	52	2.5	51	76	7	138	25	25	16	32	1.96
399347--399372	13	2.0	13	100	0	52	38	15	15	30	1.88
411277--411324	15	3.2	15	75	0	60	18	2	39	39	1.63
415691--415746	20	2.8	19	83	5	67	37	16	16	30	1.90
415805--415830	13	2.0	13	100	0	52	38	15	15	30	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
418058--418102	21	2.1	21	84	8	56	53	4	20	22	1.63
419906--419936	15	2.1	15	93	0	53	48	16	22	12	1.80
422015--422040	13	2.0	13	100	0	52	30	15	15	38	1.88
422161--422207	21	2.3	20	82	10	60	31	19	4	44	1.70
424466--424521	20	2.8	19	83	5	67	37	16	16	30	1.90
424580--424605	13	2.0	13	100	0	52	38	15	15	30	1.88
429736--429852	35	3.3	35	85	0	144	25	23	11	39	1.88
429838--430108	94	2.9	93	81	3	294	21	19	15	43	1.88
429838--430108	47	5.8	47	80	0	256	21	19	15	43	1.88
433312--433424	56	2.0	56	96	0	208	47	11	20	20	1.80
433776--434042	141	1.9	140	87	5	396	32	11	13	42	1.80
434283--434308	13	2.0	13	100	0	52	38	15	15	30	1.88
439523--439587	31	2.1	31	88	2	96	24	15	12	47	1.79
445879--445904	13	2.0	13	100	0	52	30	15	15	38	1.88
448449--448486	13	2.9	13	96	0	67	31	15	18	34	1.92
448475--448551	20	3.6	20	74	19	66	44	15	14	25	1.84
452401--452445	21	2.1	21	84	8	56	22	20	4	53	1.63
454661--454686	13	2.0	13	100	0	52	30	15	15	38	1.88
454725--454800	21	3.7	21	82	3	109	28	18	11	40	1.86
454745--454818	20	3.7	20	81	3	103	31	20	13	35	1.91
454725--454818	41	2.3	41	100	0	188	29	19	12	38	1.89
457257--457295	13	3.0	13	96	0	69	35	15	17	30	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
457281--457359	20	3.7	20	75	15	68	45	15	15	24	1.84
461198--461242	21	2.1	21	84	8	56	22	20	4	53	1.63
463458--463483	13	2.0	13	100	0	52	30	15	15	38	1.88
463522--463597	21	3.7	21	80	3	100	30	18	10	40	1.84
463542--463615	20	3.7	20	78	3	94	32	20	12	35	1.89
463522--463615	41	2.3	41	98	0	179	30	19	11	38	1.87
468963--469012	19	2.6	19	93	0	82	36	12	14	38	1.83
469044--469069	13	2.0	13	100	0	52	30	15	15	38	1.88
471043--471079	18	2.1	18	100	0	74	37	5	16	40	1.71
471452--471574	52	2.4	52	86	2	167	32	26	10	30	1.90
475303--475347	19	2.4	19	100	0	90	22	22	26	28	1.99
483972--484017	16	3.1	15	84	9	67	91	8	0	0	0.43
483972--484028	19	2.9	21	82	10	75	89	8	1	0	0.55
483972--484028	1	57.0	1	78	0	60	89	8	1	0	0.55
484948--485435	55	8.5	56	83	10	544	26	26	20	26	1.99
485100--485187	28	3.2	28	63	15	74	26	26	20	27	1.99
484948--485435	116	4.2	115	88	5	697	26	26	20	26	1.99
486297--486346	19	2.6	19	96	0	91	32	12	18	38	1.87
488748--488873	52	2.4	52	82	3	173	31	26	10	30	1.90
488807--489014	107	1.9	108	85	6	289	27	28	13	30	1.94
494975--495932	28	33.5	28	86	3	1058	27	31	18	22	1.97
494969--495932	85	11.2	85	84	4	1059	27	31	18	22	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
494975--495932	113	8.4	113	83	4	1059	27	31	18	22	1.97
496994--497108	51	2.3	51	92	1	187	26	17	11	44	1.82
497024--497108	20	3.7	20	71	28	71	29	15	10	44	1.80
501816--502260	31	14.2	31	82	4	473	31	31	16	20	1.95
502326--502491	52	3.2	52	76	5	149	28	21	11	37	1.88
502326--502525	102	2.0	101	81	4	233	27	21	13	39	1.90
502478--502704	113	2.0	113	82	6	273	23	22	13	40	1.89
502618--502765	61	2.4	61	80	4	156	26	24	12	37	1.90
503412--503466	20	2.8	20	97	0	101	40	9	18	32	1.82
503509--503566	20	2.9	21	75	17	68	48	8	8	34	1.65
503509--503586	40	2.0	40	84	0	102	43	10	7	38	1.67
507707--508075	153	2.4	155	80	2	386	24	17	19	38	1.92
507795--508075	155	1.8	153	82	4	359	23	19	19	37	1.94
509420--509509	8	10.5	8	74	18	67	1	2	16	80	0.88
509423--509509	11	7.8	11	72	23	58	1	2	17	79	0.90
509419--509499	14	6.0	14	70	18	73	0	2	18	79	0.85
509419--509509	26	3.6	25	76	14	80	1	2	17	79	0.90
509454--509529	22	3.2	22	75	17	55	7	1	13	77	1.04
509494--509544	10	5.0	10	77	13	50	19	0	3	76	0.94
511852--511877	13	2.0	13	100	0	52	30	15	15	38	1.88
532179--532269	14	6.6	14	81	7	98	83	14	2	0	0.74
532182--532269	32	2.7	32	82	10	92	82	14	2	0	0.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
532176--532267	18	5.1	18	78	11	98	82	15	2	0	0.76
532178--532257	1	80.0	1	69	0	52	85	12	2	0	0.71
533649--533812	28	5.8	28	80	9	197	32	29	17	19	1.95
533635--533818	57	3.2	57	92	1	296	29	29	17	23	1.97
533797--533882	32	2.7	32	85	7	111	19	31	12	36	1.90
533921--534030	35	3.2	35	83	2	134	17	30	12	39	1.87
534003--534072	30	2.4	28	85	4	86	35	28	17	18	1.93
534087--534691	101	6.3	99	82	7	582	25	24	17	32	1.97
534087--534602	49	10.8	49	74	13	398	25	25	17	31	1.97
534238--534400	39	3.9	39	75	16	157	27	25	20	26	1.99
534190--534553	87	4.0	87	84	7	424	25	26	18	29	1.98
535541--535568	13	2.2	13	100	0	56	28	14	17	39	1.89
538800--538853	22	2.3	24	84	6	67	70	5	3	20	1.23
541204--541587	158	2.5	153	80	7	375	40	21	15	22	1.91
542999--543043	22	2.0	24	86	8	67	0	17	2	80	0.82
543700--544327	332	1.9	329	86	3	902	51	9	9	29	1.65
543664--544327	166	4.0	165	82	6	781	51	9	9	29	1.65
543698--544378	165	4.1	163	80	7	678	51	9	9	29	1.66
547018--547065	24	1.9	25	87	8	71	29	12	27	31	1.93
548218--548259	22	1.9	22	85	9	59	38	16	4	40	1.70
548369--548454	16	5.4	16	75	6	68	40	30	15	13	1.86
548410--548463	16	3.4	16	84	0	72	42	27	16	12	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
548372--548476	32	3.3	32	76	5	77	43	27	13	15	1.84
549394--549431	2	19.5	2	94	5	69	50	0	0	50	1.00
549397--549430	17	2.0	17	100	0	68	47	0	0	52	1.00
550347--550607	126	2.1	126	83	2	337	15	31	16	36	1.91
550740--551003	138	1.9	138	80	0	312	19	22	15	42	1.88
558658--558684	11	2.5	11	100	0	54	88	0	11	0	0.50
561741--561790	20	2.5	20	96	0	91	36	12	14	38	1.83
565116--565169	20	2.6	21	79	5	65	33	18	11	37	1.86
565136--565189	20	2.7	20	91	2	81	33	20	9	37	1.84
566617--566690	27	2.8	27	73	22	77	51	1	2	44	1.24

Tables:   1   2   3   4   5   6   7   8   9