genome.fa.s340.2.7.7.80.10.50.1000.2.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: Scaffold340
Parameters: 2 7 7 80 10 50 1000
Length:  358576

Tables:   1   2   3   

This is table  2  of  3  ( 241 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)
206105--206160	23	2.5	23	83	13	73	76	0	23	0	0.78
206105--206159	21	2.7	20	79	20	60	78	0	21	0	0.76
207769--207802	11	3.4	10	88	11	52	2	17	0	79	0.86
208116--209064	167	5.8	163	84	4	948	52	8	9	30	1.62
208116--209131	165	6.2	165	84	4	995	52	8	9	29	1.63
211401--211555	80	1.9	79	84	6	206	34	7	21	36	1.81
212790--212814	13	1.9	13	100	0	50	36	16	16	32	1.90
212767--212834	33	2.1	33	88	2	102	32	14	17	35	1.91
212909--212936	13	2.2	13	100	0	56	39	14	14	32	1.86
212920--212970	20	2.5	20	87	6	68	33	13	15	37	1.87
215150--215190	22	2.0	21	86	13	59	41	4	21	31	1.74
219230--219259	15	2.0	15	93	0	51	56	6	10	26	1.57
219452--219481	16	1.9	15	93	6	51	40	16	0	43	1.48
221661--221686	13	2.0	13	100	0	52	38	15	15	30	1.88
221672--221722	20	2.5	20	87	0	66	33	15	15	35	1.90
224973--225014	19	2.2	19	91	0	66	28	2	7	61	1.35
227310--227353	21	2.0	22	91	4	72	59	0	2	38	1.10
227492--227531	15	2.6	16	84	4	55	37	0	2	60	1.11
227683--227715	16	2.0	17	88	5	50	57	0	0	42	0.98
228743--228824	16	5.1	16	75	5	67	36	7	8	47	1.62
228780--228866	16	5.4	16	75	5	59	37	14	8	39	1.76
230085--230219	68	2.0	68	98	0	261	32	7	20	40	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
231786--231852	24	2.6	27	79	15	88	59	2	0	37	1.13
239742--239851	33	3.3	33	80	0	121	31	12	11	43	1.79
246917--247251	97	3.5	97	89	1	494	29	12	29	28	1.93
248354--248445	45	2.0	45	97	0	175	25	17	22	34	1.96
248999--249038	19	2.0	19	85	9	53	0	17	0	82	0.67
249013--249038	9	2.9	9	100	0	52	0	7	0	92	0.39
250521--250869	28	12.4	28	84	5	343	23	16	27	32	1.96
250540--250869	57	5.9	55	83	5	351	23	17	26	33	1.96
251654--251803	50	2.8	53	82	12	175	28	17	11	42	1.84
252661--252701	21	2.0	22	85	9	59	21	19	9	48	1.77
253966--254194	98	2.4	94	86	6	325	26	26	13	33	1.94
258786--258852	33	2.0	33	88	0	98	34	11	13	40	1.81
258806--258830	13	1.9	13	100	0	50	36	16	16	32	1.90
258893--258917	13	1.9	13	100	0	50	32	16	16	36	1.90
262702--262847	73	2.0	73	100	0	292	24	16	21	36	1.94
264097--264163	33	2.0	33	85	0	89	34	10	13	41	1.79
264117--264141	13	1.9	13	100	0	50	36	16	16	32	1.90
264204--264344	52	2.7	53	88	2	189	34	19	16	29	1.93
264225--264353	52	2.5	52	89	5	206	36	17	16	30	1.91
279066--279194	52	2.5	52	96	0	240	29	17	17	35	1.93
279203--279227	13	1.9	13	100	0	50	36	16	16	32	1.90
279288--279314	13	2.1	13	100	0	54	40	14	14	29	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
279270--279334	33	2.0	33	93	3	114	38	16	12	32	1.86
284773--284887	51	2.3	50	83	4	133	31	13	11	43	1.80
287154--287206	27	2.0	26	88	3	79	26	28	15	30	1.96
289856--290198	28	12.1	28	83	8	392	29	30	16	23	1.96
289862--290210	57	6.1	56	86	5	452	29	30	16	23	1.96
289856--290266	57	7.1	56	83	6	448	28	30	16	24	1.96
290214--290276	32	2.0	32	83	0	81	28	26	15	28	1.96
291422--291495	20	3.7	20	73	10	71	33	14	13	37	1.86
292624--294652	678	3.0	676	92	1	3232	29	17	14	38	1.89
295045--295293	98	2.5	97	92	2	417	26	26	14	32	1.95
305570--305900	97	3.4	97	90	0	482	28	14	29	27	1.95
307597--307641	10	4.3	11	88	8	51	0	20	0	80	0.72
307606--307645	19	2.0	19	90	9	62	0	15	0	85	0.61
307606--307645	9	4.1	9	87	12	53	0	15	0	85	0.61
307606--307645	10	4.0	10	87	9	55	0	15	0	85	0.61
309315--309699	165	2.3	164	78	9	390	29	11	11	47	1.75
312386--312456	28	2.4	30	83	13	101	40	11	18	29	1.85
312214--312445	79	2.9	79	79	4	270	36	13	22	28	1.92
312405--312461	28	2.0	28	100	0	114	35	14	22	28	1.93
312494--312567	28	2.6	28	84	0	112	28	21	27	22	1.99
312382--312554	93	1.9	94	82	6	226	36	12	23	26	1.91
312524--312873	79	4.4	78	81	6	382	34	14	24	26	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
313808--314108	159	1.9	158	80	4	347	34	11	23	30	1.91
313793--314107	79	4.0	79	72	8	185	34	11	23	29	1.90
314064--314135	28	2.6	28	90	0	108	31	18	25	25	1.97
313988--314213	107	2.1	107	85	1	292	32	12	26	27	1.93
314093--314433	79	4.3	78	77	7	323	34	14	23	26	1.94
313828--314372	266	2.0	266	81	5	629	34	13	23	28	1.92
314094--314439	158	2.2	158	82	4	414	34	14	23	27	1.94
313810--314766	342	2.8	338	81	5	1007	35	13	22	28	1.92
314453--314823	79	4.7	80	79	6	314	35	12	23	28	1.91
314270--314628	184	1.9	186	82	4	449	35	13	22	28	1.92
314434--314790	156	2.3	157	79	5	373	34	13	22	29	1.93
314602--314804	78	2.6	77	80	7	214	34	14	23	28	1.93
315893--315949	19	2.9	19	84	2	78	31	17	17	33	1.93
315978--316037	13	5.1	13	71	22	60	31	15	15	38	1.88
315987--316024	20	1.9	20	88	0	58	34	15	13	36	1.87
315978--316059	33	2.4	34	87	4	121	31	13	17	37	1.88
322212--322238	13	2.1	13	100	0	54	29	14	14	40	1.86
324122--324226	22	5.2	22	64	28	72	44	2	20	31	1.66
324111--324227	39	3.0	39	96	0	216	45	2	19	32	1.64
324127--324227	19	5.2	19	65	13	62	44	2	21	30	1.67
324814--324840	13	2.1	13	100	0	54	29	14	14	40	1.86
324821--324865	20	2.2	21	88	11	76	35	13	17	33	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
324891--324928	20	1.9	20	94	0	67	31	10	18	39	1.85
324911--324936	13	2.0	13	100	0	52	30	15	15	38	1.88
324890--324958	33	2.1	34	91	2	113	33	11	17	37	1.86
327249--327290	20	2.1	20	90	0	66	45	9	16	28	1.79
328034--328275	122	2.0	121	82	3	297	41	13	22	22	1.88
328174--328476	44	7.1	44	78	7	272	42	11	26	19	1.86
328449--329140	62	11.1	62	80	6	672	32	18	23	24	1.97
330101--330130	6	5.0	6	91	0	51	0	0	13	86	0.57
330356--330416	10	5.7	10	72	14	50	6	11	8	73	1.24
330337--330393	19	3.0	18	77	10	60	7	8	7	77	1.13
334383--334536	69	2.2	70	87	1	229	40	11	20	27	1.86
335240--335524	155	1.8	154	81	2	356	24	14	19	41	1.89
338376--338400	13	1.9	13	100	0	50	32	16	16	36	1.90
338573--338597	13	1.9	13	100	0	50	32	16	20	32	1.94
341781--341838	21	2.8	21	86	0	71	65	0	17	17	1.27
345215--345239	13	1.9	13	100	0	50	32	16	16	36	1.90
347345--347396	20	2.6	20	87	0	68	36	13	21	28	1.91
351700--351743	18	2.6	16	89	10	61	36	34	18	11	1.86
351774--351829	16	3.5	16	75	0	58	48	26	12	12	1.77
351740--351832	32	2.9	32	82	3	107	46	26	12	13	1.80
352520--352552	2	16.5	2	93	0	57	51	3	45	0	1.16
352879--352934	16	3.4	17	74	16	55	50	1	0	48	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
352889--352986	32	2.9	34	74	16	96	51	2	0	46	1.12
352875--352950	32	2.5	32	72	19	72	52	1	0	46	1.08
353622--353700	16	4.9	16	90	0	122	41	1	0	56	1.07
354010--354295	72	4.0	72	77	7	287	33	10	24	31	1.90
355308--355381	9	8.1	9	73	8	60	4	16	1	78	0.97
355340--355382	15	3.0	15	80	19	56	0	20	0	79	0.74
355301--355387	26	3.7	24	74	21	69	4	18	1	75	1.03
355623--355703	8	11.0	7	74	20	51	46	1	0	51	1.08
355621--355704	30	2.7	29	78	14	80	47	1	0	51	1.08
356554--356579	13	2.0	13	100	0	52	30	15	23	30	1.95

Tables:   1   2   3