genome.fa.s430.2.7.7.80.10.50.1000.3.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: Scaffold430
Parameters: 2 7 7 80 10 50 1000
Length:  426104

Tables:   1   2   3   4   

This is table  3  of  4  ( 402 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)
261301--261352	28	1.9	26	92	7	86	40	0	0	59	0.97
261298--261355	7	8.4	7	76	16	59	43	0	0	56	0.99
263475--263504	2	15.0	2	100	0	60	50	0	0	50	1.00
266431--266455	12	2.1	12	100	0	50	16	8	8	68	1.38
266459--266558	31	3.2	31	87	2	139	21	12	17	50	1.77
266675--266721	24	2.0	24	86	0	67	40	4	2	53	1.32
266975--267018	11	4.1	10	83	13	52	18	18	0	63	1.31
266975--267018	5	8.2	5	83	14	52	18	18	0	63	1.31
268431--268500	36	1.9	36	88	0	104	47	11	8	32	1.70
272574--272705	50	2.6	51	87	1	194	41	10	16	31	1.82
273416--273826	52	8.0	51	78	5	285	34	15	24	25	1.94
273425--273826	104	3.9	101	78	6	346	34	15	24	25	1.95
273902--274085	32	5.8	30	73	8	116	23	17	28	29	1.97
273898--274075	64	2.8	63	78	4	187	23	19	27	29	1.98
274258--274322	28	2.4	28	84	2	78	26	20	27	26	1.99
275655--275704	15	3.6	14	89	5	66	0	2	16	82	0.77
275667--275704	12	3.3	11	89	10	58	0	0	15	84	0.63
292527--292567	21	2.0	20	90	4	64	51	17	12	19	1.76
296738--296781	19	2.4	19	80	3	54	63	9	6	20	1.46
300686--300724	17	2.3	17	86	0	60	64	0	12	23	1.28
301310--301349	22	1.9	20	85	10	53	60	0	0	40	0.97
303006--303055	3	16.7	3	100	0	100	32	0	0	68	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
303054--303097	3	14.7	3	100	0	88	0	0	31	68	0.90
304442--304532	42	2.1	44	82	8	107	43	0	2	53	1.12
304911--304985	9	8.2	9	74	22	52	49	0	0	50	1.00
305281--305332	23	2.2	23	83	12	70	46	0	0	53	1.00
305649--305682	14	2.4	14	90	0	50	29	0	0	70	0.87
306467--306530	29	2.3	28	82	12	78	37	6	0	56	1.25
306484--306541	30	2.0	29	86	3	80	41	5	0	53	1.23
306523--306556	16	2.1	17	89	10	54	52	0	0	47	1.00
307676--307706	14	2.1	14	94	5	53	67	0	9	22	1.19
308091--308139	2	24.5	2	95	0	89	46	0	0	53	1.00
308501--308542	18	2.3	18	87	0	57	54	4	7	33	1.49
308570--308613	22	2.0	22	86	8	63	59	2	0	38	1.10
308921--309095	30	5.7	30	71	19	121	54	3	0	41	1.21
308924--309095	95	1.9	89	82	11	213	54	3	0	41	1.22
310222--310263	22	2.0	21	86	13	59	57	2	0	40	1.12
310456--310490	3	11.7	3	100	0	70	34	0	0	65	0.93
310760--310805	3	15.3	3	90	0	74	34	2	0	63	1.07
310758--310798	21	2.0	21	100	0	82	34	2	0	63	1.08
314390--314431	22	2.0	21	90	4	66	40	0	0	59	0.97
316654--316691	19	2.1	18	85	14	51	68	0	0	31	0.90
321291--321342	22	2.4	22	86	0	77	75	13	11	0	1.06
321590--321662	4	18.5	4	80	8	78	50	2	46	0	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
321590--321662	6	12.3	6	81	8	78	50	2	46	0	1.15
321590--321662	10	7.4	10	83	7	78	50	2	46	0	1.15
321591--321649	14	4.4	14	85	8	68	49	3	47	0	1.18
323103--323169	20	3.7	20	70	25	76	29	13	16	40	1.87
323106--323182	33	2.3	33	100	0	154	29	15	15	38	1.89
323125--323185	13	5.2	12	68	28	51	31	16	16	36	1.91
323252--323292	21	2.0	21	100	0	82	34	9	26	29	1.88
323288--323318	10	3.1	10	90	0	53	41	6	29	22	1.78
323342--323478	53	2.6	53	94	1	238	27	17	17	37	1.92
323448--323518	20	3.5	20	77	11	74	29	14	16	39	1.88
323558--323598	21	2.0	21	85	9	57	39	9	12	39	1.76
325141--325202	27	2.3	27	82	0	79	20	19	33	25	1.96
330641--330806	83	2.0	83	89	2	253	34	21	16	28	1.94
336174--336277	54	1.9	54	90	0	163	34	9	12	43	1.75
337861--337914	21	2.6	20	85	2	63	42	3	20	33	1.70
337878--337921	20	2.1	21	87	4	63	38	6	18	36	1.77
337878--337920	21	2.0	21	86	8	61	39	6	16	37	1.75
338638--338667	4	7.5	4	92	0	51	23	0	3	73	0.98
338633--338666	16	2.1	16	94	0	59	23	0	5	70	1.09
338857--338907	15	3.3	15	73	13	50	56	0	0	43	0.99
338857--338907	8	6.6	8	75	8	52	56	0	0	43	0.99
338882--338924	15	2.8	15	85	3	50	51	2	0	46	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
339082--339165	27	3.0	29	76	10	77	57	0	2	40	1.12
339113--339165	18	3.0	19	75	22	53	60	0	0	39	0.97
339082--339151	29	2.5	29	81	9	74	57	0	2	40	1.14
339819--339885	27	2.5	27	80	11	75	41	0	1	56	1.08
339900--339937	19	2.0	19	90	10	60	36	2	2	57	1.26
340350--340401	17	2.9	18	71	23	56	51	0	3	44	1.19
340346--340404	18	3.3	18	73	17	61	52	0	3	44	1.17
341052--341093	17	2.4	18	84	8	59	35	0	0	64	0.94
341725--341786	23	2.6	24	74	5	72	22	1	4	70	1.14
342717--342747	16	1.9	16	100	0	62	38	41	12	6	1.69
345622--345670	2	24.5	2	91	0	80	46	0	2	51	1.12
346161--346207	24	2.0	24	87	8	69	8	36	6	48	1.59
351483--351723	88	2.7	86	75	5	221	32	16	12	39	1.85
354979--355015	13	3.0	13	84	7	51	43	0	0	56	0.99
355652--355684	3	11.0	3	93	0	57	63	0	0	36	0.95
355987--356035	16	3.4	16	73	23	54	44	0	0	55	0.99
355981--356027	21	2.3	21	82	7	53	44	0	0	55	0.99
355996--356054	27	2.2	27	82	11	68	44	1	0	54	1.10
356314--356715	206	2.0	206	88	0	606	28	16	15	39	1.89
363121--363288	84	2.0	84	100	0	336	28	14	20	36	1.91
363439--363463	13	1.9	13	100	0	50	36	16	16	32	1.90
363450--363508	21	2.8	21	100	0	118	33	10	16	38	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
363548--363572	13	1.9	13	100	0	50	32	16	16	36	1.90
365967--366003	2	18.5	2	100	0	74	51	48	0	0	1.00
366969--367030	31	2.0	31	100	0	124	16	16	19	48	1.81
369440--369483	23	1.9	23	90	0	70	25	6	20	47	1.74
370655--370692	14	2.7	15	88	8	53	55	0	0	44	0.99
370727--370790	18	3.6	17	74	21	60	51	1	1	45	1.20
372080--372128	14	3.3	15	75	24	50	48	0	0	51	1.00
372427--372461	16	2.2	16	94	0	61	48	0	0	51	1.00
380631--380681	18	2.7	18	82	11	50	56	3	0	39	1.18
380653--380719	23	3.0	22	79	12	66	58	1	0	40	1.07
380686--380721	18	1.9	18	88	5	54	66	2	0	30	1.06
385555--385592	2	19.0	2	100	0	76	50	0	0	50	1.00
386410--386481	32	2.2	32	82	2	81	37	4	8	50	1.52
387858--387884	4	6.8	4	100	0	54	74	0	0	25	0.83
388134--388204	5	13.8	5	73	5	52	53	0	0	46	1.00
388135--388204	31	2.3	31	87	5	97	52	0	0	47	1.00
388231--388289	21	2.8	21	80	10	59	55	0	1	42	1.09
389899--389960	22	2.9	22	70	15	58	48	1	1	48	1.21
389941--390012	16	4.5	17	73	13	64	48	0	0	51	1.00
389943--390002	31	2.0	30	86	3	84	48	0	0	51	1.00
390803--390870	31	2.2	31	81	5	75	35	1	2	60	1.21
391420--391474	24	2.3	23	75	9	56	52	0	1	45	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
391634--391676	21	2.0	21	100	0	86	55	0	0	44	0.99
392215--392250	16	2.2	16	90	0	54	52	16	5	25	1.65
393572--393612	20	2.1	19	86	4	55	58	2	0	39	1.11
395410--395453	21	2.0	23	86	8	65	38	0	0	61	0.96
395843--395885	20	2.0	20	86	8	59	60	0	0	39	0.97
395836--395972	51	2.8	48	79	15	138	49	0	0	48	1.11
396751--396779	2	14.5	2	100	0	58	48	0	0	51	1.00
397936--397973	20	2.1	18	85	14	51	36	5	0	57	1.21
399194--399219	3	8.7	3	100	0	52	0	30	0	69	0.89
399958--399991	6	5.7	6	100	0	68	32	17	32	17	1.94

Tables:   1   2   3   4