genome.fa.s263.2.7.7.80.10.50.1000.2.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: Scaffold263
Parameters: 2 7 7 80 10 50 1000
Length:  1338270

Tables:   1   2   3   4   5   6   7   8   9   10   

This is table  2  of  10  ( 1134 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)
173825--173915	23	4.2	22	70	20	59	43	1	0	54	1.07
173803--173873	28	2.5	29	80	13	76	36	0	0	63	0.95
173834--173908	22	3.5	22	77	15	79	42	0	0	57	0.98
173821--173908	11	8.3	11	67	20	62	42	0	0	57	0.98
176871--176900	2	15.0	2	100	0	60	50	0	0	50	1.00
179376--179440	30	2.2	30	97	0	121	47	1	10	40	1.48
179386--179442	17	3.6	17	70	18	50	49	1	8	40	1.44
185326--185375	2	25.0	2	87	0	73	52	0	0	48	1.00
188467--188495	3	9.7	3	100	0	58	68	0	0	31	0.89
194589--194625	14	2.6	15	83	12	51	2	10	2	83	0.84
200062--200108	3	15.7	3	100	0	94	65	0	0	34	0.93
203275--203313	2	19.5	2	100	0	78	48	0	0	51	1.00
205711--205748	14	2.5	15	83	12	51	18	2	0	78	0.86
209341--209365	2	12.5	2	100	0	50	52	0	0	48	1.00
224067--224118	24	2.2	24	82	6	61	11	15	19	53	1.71
227193--227240	23	2.0	24	92	4	80	52	0	8	39	1.32
230019--230074	3	18.7	3	100	0	112	33	0	0	66	0.92
232898--232973	36	2.1	35	85	2	98	30	9	40	19	1.83
238811--238842	3	10.7	3	100	0	64	68	0	0	31	0.90
239454--239506	23	2.3	24	80	9	65	60	0	0	39	0.97
242328--242378	23	2.2	23	90	10	86	41	0	0	58	0.98
242329--242385	24	2.4	24	88	5	89	40	0	0	59	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
243603--243650	23	2.0	24	92	4	80	56	6	4	33	1.44
244488--244512	2	12.5	2	100	0	50	48	0	0	52	1.00
244719--244743	3	8.3	3	100	0	50	32	0	0	68	0.90
245234--245267	16	2.1	16	94	0	59	58	0	14	26	1.36
245658--245694	2	18.5	2	100	0	74	48	0	0	51	1.00
245911--246066	79	2.0	79	94	2	278	39	10	14	35	1.80
246057--246096	5	8.0	5	100	0	80	60	0	0	40	0.97
246609--246663	5	11.0	5	100	0	110	40	0	0	60	0.97
246854--246930	32	2.6	29	87	8	111	53	1	1	44	1.17
246855--246930	14	4.9	17	65	27	53	52	1	1	44	1.17
253426--253451	2	13.0	2	100	0	52	50	0	50	0	1.00
259725--260047	8	40.9	8	84	11	391	50	12	0	37	1.41
259725--260048	42	7.8	42	86	7	412	50	12	0	37	1.41
259723--260048	46	7.2	46	84	8	366	50	12	0	37	1.41
269057--269166	3	36.7	3	89	3	87	6	54	0	39	1.26
269289--269322	12	2.8	12	90	0	50	5	50	0	44	1.26
270678--270728	18	2.7	19	79	11	61	56	0	0	43	0.99
271192--271236	16	2.8	17	87	12	69	48	0	0	51	1.00
273097--273121	2	12.5	2	100	0	50	48	0	0	52	1.00
274021--274052	16	2.0	16	93	0	55	18	3	28	50	1.62
275122--275180	28	2.1	28	96	0	109	40	23	0	35	1.55
281294--281335	17	2.5	17	82	17	61	66	2	0	30	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
281295--281348	11	4.9	11	81	0	63	66	1	0	31	1.02
281295--281348	17	3.2	16	80	15	56	66	1	0	31	1.02
283153--283178	6	4.3	6	100	0	52	61	0	19	19	1.35
289481--289515	2	17.5	2	100	0	70	51	0	48	0	1.00
290697--290730	12	2.8	12	90	0	50	23	26	50	0	1.50
290709--290744	15	2.4	15	95	0	63	25	27	47	0	1.52
293167--293215	20	2.5	19	77	9	53	73	6	10	10	1.25
296904--297026	61	2.0	61	98	0	237	26	34	9	28	1.88
297436--297470	17	2.1	17	94	0	61	31	0	0	68	0.90
297639--297686	23	2.0	23	84	11	62	56	0	0	43	0.99
307865--307890	6	4.3	6	100	0	52	30	19	19	30	1.96
309258--309343	31	2.7	32	80	14	113	52	0	0	47	1.00
309259--309387	64	2.0	61	80	16	140	54	0	0	44	1.11
311079--311140	11	6.0	10	85	9	63	64	0	0	35	0.94
311073--311174	14	7.0	14	70	24	61	59	0	0	39	1.04
314040--314075	18	2.0	18	88	0	54	83	0	16	0	0.65
317347--317379	16	2.1	15	94	5	57	51	0	0	48	1.00
317465--317512	19	2.6	17	77	22	53	31	0	4	64	1.12
317519--317575	24	2.4	23	82	8	69	43	1	1	52	1.21
318005--318061	22	2.7	21	84	7	80	61	0	0	38	0.96
318905--318941	14	2.4	16	82	8	51	59	0	2	37	1.12
319496--319541	21	2.2	21	85	11	60	43	0	0	56	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
319492--319539	16	3.1	16	75	3	53	41	0	0	58	0.98
319486--319541	21	2.8	19	78	10	58	39	0	0	60	0.97
319565--319597	14	2.2	16	89	10	52	27	0	3	69	1.03
319571--319637	18	3.6	20	78	17	90	31	0	0	68	0.90
319575--319657	37	2.2	36	81	8	87	34	1	0	63	1.02
319846--319885	20	2.0	20	85	9	55	50	0	0	50	1.00
319876--319937	32	1.9	33	93	6	110	41	1	0	56	1.09
320122--320157	3	12.3	3	88	5	56	36	2	0	61	1.11
321085--321145	30	2.0	31	84	9	81	59	1	0	39	1.08
321089--321139	19	2.8	19	75	16	54	62	0	0	37	0.95
321231--321270	15	2.5	17	80	19	50	60	0	0	40	0.97
331333--331357	10	2.5	10	100	0	50	24	0	0	76	0.80
332476--332518	21	2.0	21	82	8	52	48	0	11	39	1.40
332576--332628	27	1.9	28	85	11	74	67	0	0	32	0.91
332593--332649	23	2.5	23	75	13	64	57	0	0	42	0.98
332623--332658	17	2.1	17	89	0	54	50	0	2	47	1.15
333044--333100	23	2.6	21	82	15	71	40	0	0	59	0.97
333002--333105	11	9.8	11	66	29	50	38	0	1	59	1.08
333037--333136	17	5.7	18	68	20	59	41	1	1	57	1.12
338875--338932	30	1.9	30	85	0	80	37	12	5	44	1.64
345516--345558	2	21.5	2	100	0	86	48	0	0	51	1.00
354774--354806	17	1.9	17	93	0	57	69	0	3	27	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
355399--355430	2	16.0	2	93	0	55	50	3	0	46	1.17
356261--356301	11	3.8	11	80	6	57	34	2	0	63	1.08
358856--358882	2	13.5	2	100	0	54	0	0	48	51	1.00
359568--359615	20	2.3	21	85	3	62	52	2	0	45	1.12
359570--359615	21	2.2	20	84	3	56	54	2	0	43	1.12
359605--359688	14	6.1	13	72	20	64	39	1	0	59	1.05
359615--359667	23	2.5	22	81	9	65	37	1	0	60	1.08
359606--359667	23	2.8	21	80	11	63	37	1	0	61	1.06
359604--359689	28	3.1	29	77	15	92	40	1	0	58	1.06
359603--359692	29	3.2	29	72	23	84	41	1	0	57	1.06
359607--359703	28	3.6	28	76	15	80	39	1	0	59	1.04
359633--359727	14	6.2	17	68	30	63	38	1	0	60	1.04
359666--359735	32	2.2	33	84	7	99	42	1	0	55	1.08
360275--360301	2	13.5	2	100	0	54	0	48	0	51	1.00
360686--360722	2	18.5	2	100	0	74	0	51	0	48	1.00
367153--367222	20	3.5	20	76	7	88	60	2	0	37	1.12
367144--367232	40	2.2	40	94	2	153	56	4	0	39	1.20
368224--368662	180	2.4	179	83	3	535	36	19	16	28	1.93
372394--372420	3	9.0	3	100	0	54	66	0	33	0	0.92
372573--372638	20	3.4	18	75	19	62	42	0	0	57	0.98
373149--373188	16	2.5	16	83	0	53	42	5	2	50	1.37
378137--378169	16	2.1	16	88	5	50	60	0	0	39	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
378232--378259	6	4.7	6	100	0	56	85	0	0	14	0.59
379363--379389	14	1.9	14	100	0	54	29	0	0	70	0.88
379695--379742	25	1.9	25	83	8	62	41	0	0	58	0.98
384129--384184	28	2.1	28	87	9	82	46	0	0	53	1.00
384136--384232	39	2.5	38	79	12	108	42	2	0	55	1.11
384758--384804	16	2.8	18	81	12	57	59	8	0	31	1.27
386104--386176	15	5.0	15	74	11	62	69	0	1	28	0.96
386165--386217	24	2.4	22	78	12	56	60	0	1	37	1.08
386165--386285	22	5.8	21	71	17	67	59	1	1	37	1.17
386191--386257	20	3.3	20	80	16	68	59	2	1	35	1.22

Tables:   1   2   3   4   5   6   7   8   9   10