genome.fa.s273.2.7.7.80.10.50.1000.3.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: Scaffold273
Parameters: 2 7 7 80 10 50 1000
Length:  1282806

Tables:   1   2   3   4   5   6   7   8   9   

This is table  3  of  9  ( 977 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)
302865--302965	32	3.1	32	95	1	175	35	16	11	35	1.86
302889--302945	13	3.9	13	74	24	51	33	15	14	36	1.88
303284--303339	20	2.8	19	76	7	67	26	19	12	41	1.87
306745--306783	3	13.0	3	100	0	78	33	0	0	66	0.92
308218--308465	98	2.5	97	81	4	268	27	27	13	30	1.94
309947--310017	21	3.4	21	94	0	124	30	12	21	35	1.91
310044--310114	20	3.5	20	77	7	63	47	12	7	32	1.68
313248--313519	28	9.7	28	74	5	165	32	27	15	24	1.96
313298--313504	56	3.7	56	76	7	186	32	28	16	22	1.96
313461--313557	28	3.5	27	73	9	79	35	28	15	20	1.93
314148--314172	2	12.5	2	100	0	50	52	0	0	48	1.00
314186--314229	4	12.0	4	81	13	51	79	0	0	20	0.73
314197--314230	11	2.9	12	91	8	61	82	0	0	17	0.67
314187--314230	19	2.3	18	88	7	61	81	0	0	18	0.68
321560--321596	14	2.5	15	86	4	58	37	0	0	62	0.96
321681--321722	18	2.4	18	88	4	59	52	0	0	47	1.00
321984--322030	24	2.1	22	84	11	60	61	0	0	38	0.96
321747--322368	125	4.9	128	83	12	750	53	2	2	42	1.24
322065--322092	14	2.0	14	100	0	56	64	0	0	35	0.94
322855--323164	161	1.9	162	84	4	421	42	7	16	32	1.77
323304--323672	84	4.0	93	78	8	382	43	6	16	33	1.73
323261--323672	189	2.3	177	82	7	472	41	6	16	34	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
325814--325881	33	2.1	32	86	8	93	36	16	13	33	1.87
331790--331815	8	3.2	8	100	0	52	15	0	23	61	1.33
334490--334514	13	1.9	13	100	0	50	32	16	16	36	1.90
334595--334662	33	2.1	32	86	2	91	35	19	13	32	1.90
336488--336536	2	24.5	2	100	0	98	48	0	0	51	1.00
336989--337029	2	20.5	2	100	0	82	48	0	0	51	1.00
341364--341430	28	2.5	28	80	9	77	67	1	0	31	1.00
341370--341429	19	3.1	19	78	7	59	66	1	0	31	1.01
341388--341508	33	3.6	33	72	12	111	54	0	0	44	1.05
341391--341480	20	4.9	19	67	17	57	53	0	0	46	1.00
344061--344090	15	2.0	15	100	0	60	66	26	0	6	1.16
345280--345334	21	2.7	21	88	5	78	36	12	16	34	1.87
345390--345414	13	1.9	13	100	0	50	32	20	16	32	1.94
346880--346919	20	2.0	21	85	14	57	52	0	2	45	1.14
353829--353984	34	4.7	33	82	10	156	19	34	14	32	1.91
353829--353987	68	2.4	66	82	7	178	18	33	13	33	1.91
354035--354111	39	2.0	39	89	0	118	27	27	22	23	1.99
353986--355236	101	13.0	88	86	7	974	23	25	18	31	1.97
354074--355276	52	24.5	51	77	11	1126	23	25	18	32	1.97
354535--355340	101	7.9	103	88	3	908	22	26	18	32	1.97
353984--355233	254	5.2	251	81	9	1401	23	25	18	31	1.98
356028--356120	19	5.6	17	70	29	76	34	13	17	34	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
356026--356128	32	3.2	32	95	0	179	33	13	18	34	1.90
356173--356200	13	2.2	13	100	0	56	28	14	17	39	1.89
360260--360368	43	2.5	43	75	7	114	34	14	10	40	1.80
367079--367517	78	5.6	77	74	10	324	29	22	10	37	1.88
367077--367517	232	1.9	234	80	6	529	29	22	10	37	1.88
368411--368461	20	2.6	20	81	3	59	39	11	15	33	1.84
370321--370358	14	2.5	16	87	8	53	15	2	0	81	0.80
372582--372624	21	2.0	21	100	0	86	48	13	9	27	1.73
376869--376902	13	2.5	14	90	4	52	58	0	0	41	0.98
377333--377385	22	2.5	22	84	3	72	47	0	1	50	1.12
377316--377379	16	4.1	16	79	16	62	46	0	1	51	1.10
377423--377456	15	2.3	15	89	0	50	50	0	0	50	1.00
378040--378083	24	1.9	23	86	9	63	52	0	0	47	1.00
378512--378565	5	11.2	5	73	15	51	61	0	0	38	0.96
378512--378575	20	2.9	23	77	15	80	60	0	0	39	0.97
378510--378558	9	5.2	9	76	9	53	63	0	0	36	0.95
378510--378582	38	1.9	38	83	5	94	60	0	0	39	0.97
378907--378978	27	2.6	28	80	6	83	36	6	5	51	1.52
378907--378984	28	2.8	28	78	5	86	37	6	5	51	1.50
380168--380236	16	4.5	15	75	7	66	55	1	1	42	1.18
383572--383622	26	2.0	26	92	7	86	52	0	0	47	1.00
383573--383631	26	2.3	26	85	5	75	55	0	0	44	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
384306--384342	2	18.5	2	100	0	74	48	0	0	51	1.00
384681--384740	30	2.0	31	83	9	79	40	0	0	60	0.97
384681--384776	18	5.2	18	71	20	65	42	0	0	57	0.98
384709--384789	14	5.3	14	73	23	58	44	0	0	55	0.99
384682--384845	18	9.9	17	69	23	61	41	0	0	57	1.03
385435--385493	28	2.0	30	81	12	70	47	0	1	50	1.11
388150--388195	21	2.1	22	88	4	67	54	4	2	39	1.32
388150--388195	22	2.1	22	92	4	76	54	4	2	39	1.32
388156--388202	22	2.2	22	88	3	69	61	2	4	31	1.27
388267--388313	20	2.3	20	75	7	51	46	2	4	46	1.34
389296--389401	27	3.9	27	71	7	79	48	6	8	36	1.60
393540--393583	22	2.0	23	86	4	63	18	11	4	65	1.40
394716--394745	2	15.0	2	100	0	60	50	0	0	50	1.00
394992--395053	27	2.3	24	75	21	61	20	1	16	61	1.43
395039--395156	45	2.6	45	89	5	166	19	8	16	55	1.67
401509--401549	20	2.2	19	86	8	57	34	0	2	63	1.08
403204--403260	25	2.3	25	90	0	87	57	12	5	24	1.55
412992--413149	7	22.3	7	97	2	298	13	28	28	29	1.95
418391--418544	7	21.9	7	97	1	290	14	28	29	27	1.96
421830--421862	16	2.1	16	88	5	50	30	6	12	51	1.63
423598--423659	2	31.5	2	84	9	74	48	6	0	45	1.28
423936--423986	21	2.6	19	77	20	59	58	3	25	11	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
432126--432152	12	2.2	12	100	0	54	0	7	0	92	0.38
434380--434415	2	18.0	2	100	0	72	50	0	0	50	1.00
438893--439062	79	2.1	79	90	1	259	30	15	26	27	1.96
439018--439091	28	2.6	28	97	0	139	24	20	29	25	1.99
438939--439142	107	1.9	107	84	4	277	29	16	28	25	1.97
439077--439193	51	2.3	51	83	5	139	29	15	28	26	1.96
439125--439274	81	1.9	80	83	5	196	32	16	24	26	1.96
442300--442629	41	7.8	41	75	8	261	42	13	24	20	1.87
442297--442688	41	9.5	40	72	10	159	41	13	25	19	1.88
442344--442630	85	3.4	85	78	6	296	43	12	24	19	1.85
442608--442679	37	1.9	37	88	5	110	47	13	29	9	1.75
442675--443023	61	5.8	61	84	5	419	29	19	25	25	1.98
442658--443023	121	3.0	121	83	5	431	30	19	24	25	1.98
442909--443030	55	2.2	55	86	0	163	27	19	25	27	1.99
442850--443042	55	3.4	55	76	10	158	27	19	25	26	1.99
443068--443241	61	2.8	61	90	0	267	28	18	27	25	1.98
442857--443358	217	2.4	210	85	3	650	27	17	27	26	1.98
443191--443376	99	1.9	95	81	10	225	28	15	30	26	1.96
444352--444401	1	50.0	1	79	0	55	0	2	8	90	0.54
444335--444401	9	7.1	9	79	14	55	0	8	5	85	0.75
444353--444402	17	3.0	16	91	2	73	0	2	10	88	0.61
444352--444399	25	2.0	25	91	4	80	0	2	8	89	0.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
444362--444402	8	5.0	8	88	5	64	0	0	12	87	0.53
456844--457026	79	2.3	79	83	7	221	34	15	25	25	1.95
456959--457078	51	2.4	51	80	5	136	33	14	26	25	1.94
456931--457204	130	2.1	129	83	6	349	35	13	24	26	1.92
457009--457156	79	1.9	79	85	0	206	33	14	24	27	1.94
457096--457219	50	2.5	50	89	1	176	41	12	20	25	1.88
459976--460037	31	2.0	31	100	0	124	32	22	12	32	1.92
466938--466966	14	2.1	14	93	6	51	72	0	0	27	0.85
469280--469326	2	23.5	2	100	0	94	0	48	0	51	1.00
472196--472222	2	13.5	2	100	0	54	0	48	0	51	1.00

Tables:   1   2   3   4   5   6   7   8   9