genome.fa.s101.2.7.7.80.10.50.1000.3.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: Scaffold101
Parameters: 2 7 7 80 10 50 1000
Length:  827217

Tables:   1   2   3   4   5   6   

This is table  3  of  6  ( 650 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)
255491--255531	19	2.3	19	87	8	59	31	0	4	63	1.15
255532--255562	16	1.9	16	93	0	53	29	3	16	51	1.59
255667--255743	32	2.4	33	82	6	95	32	6	11	49	1.65
255658--255734	16	4.8	16	69	6	57	29	6	12	50	1.66
255695--255741	16	2.9	16	77	0	58	34	4	8	53	1.51
261958--262017	29	2.0	30	83	3	77	25	6	3	65	1.33
263263--263331	32	2.2	32	89	0	102	42	1	13	43	1.52
264480--264522	16	2.6	16	88	3	59	37	0	2	60	1.10
265066--265119	25	2.1	26	89	3	83	38	5	3	51	1.43
265110--265206	12	8.2	12	78	12	87	30	1	3	64	1.15
265310--265552	16	16.2	15	66	16	78	53	2	3	40	1.32
265492--265558	22	3.1	22	85	12	86	53	0	0	46	1.00
265474--265557	37	2.3	37	85	4	107	48	1	1	48	1.16
265616--265659	2	22.0	2	100	0	88	50	0	0	50	1.00
267604--267649	22	2.1	21	84	4	56	23	8	13	54	1.66
270338--270373	12	2.9	12	91	4	54	50	5	5	38	1.49
273722--273941	42	5.5	42	81	9	232	7	16	36	40	1.76
273722--273909	36	4.9	37	86	3	173	6	15	36	41	1.74
274702--274756	17	3.1	19	82	10	64	40	0	3	56	1.17
274702--274744	19	2.4	17	88	7	59	39	0	4	55	1.20
277733--277771	2	19.5	2	94	0	69	53	0	0	46	1.00
279971--280004	2	17.5	2	93	6	61	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
282905--282936	14	2.3	14	100	0	64	25	0	21	53	1.46
283206--283230	5	5.0	5	100	0	50	60	0	0	40	0.97
284153--284205	25	2.1	26	86	10	74	60	0	1	37	1.08
286508--286582	29	2.5	30	78	10	73	53	2	1	42	1.23
287903--287948	22	2.1	22	84	8	58	28	4	0	67	1.10
290037--290074	16	2.3	17	86	4	51	0	13	2	84	0.73
291380--291525	73	2.0	73	94	0	256	28	10	18	42	1.84
292462--292493	14	2.3	14	94	0	55	46	0	3	50	1.17
292932--292963	9	3.4	9	91	8	55	59	0	0	40	0.97
292955--292996	12	3.7	12	81	9	52	45	0	0	54	0.99
292959--293009	22	2.3	23	80	10	61	50	1	0	47	1.12
293412--293460	18	2.9	17	80	19	59	57	6	0	36	1.24
293752--293803	19	2.8	18	80	8	59	48	1	3	46	1.31
294017--294093	15	4.9	15	74	16	66	66	5	2	25	1.26
294042--294086	21	2.1	21	84	15	58	68	2	4	24	1.19
294630--294673	21	2.1	21	95	0	79	45	11	0	43	1.40
294745--294835	31	2.9	32	78	17	102	50	2	5	41	1.37
300463--300498	17	2.1	17	100	0	72	11	11	5	72	1.28
301009--301043	15	2.3	15	95	0	61	54	2	0	42	1.15
302314--302354	22	1.9	22	85	5	57	51	2	0	46	1.14
304926--304971	2	23.0	2	100	0	92	50	0	0	50	1.00
307133--307182	18	2.7	19	75	12	59	44	0	0	56	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
307608--307711	51	2.0	51	100	0	208	35	7	17	39	1.78
308744--308785	23	1.9	22	85	9	59	54	0	0	45	0.99
309605--309637	2	16.5	2	100	0	66	48	0	0	51	1.00
310268--310338	32	2.2	33	87	2	99	42	2	2	52	1.31
317651--317748	50	1.9	51	91	2	162	27	9	14	48	1.73
318012--318044	3	11.0	3	100	0	66	66	0	0	33	0.92
318367--318470	47	2.2	45	78	20	108	42	3	0	53	1.19
318421--318466	13	3.3	15	82	14	55	43	2	0	54	1.12
333840--333866	2	13.5	2	100	0	54	51	0	0	48	1.00
334563--334603	2	20.5	2	100	0	82	51	0	48	0	1.00
335746--335789	19	2.2	20	88	4	63	50	0	0	50	1.00
335880--335917	14	2.8	14	88	4	51	42	2	5	50	1.39
338764--338799	11	3.2	11	92	7	63	0	13	0	86	0.58
338760--338798	13	3.1	13	85	7	53	0	12	0	87	0.55
338760--338799	12	3.3	12	89	10	64	0	15	0	85	0.61
339272--339345	38	2.0	38	84	12	100	51	0	0	48	1.00
339408--339459	27	1.9	27	88	0	77	26	1	28	42	1.66
339411--339468	27	2.1	27	80	0	62	32	3	29	34	1.74
346454--346500	21	2.2	22	88	3	69	51	4	4	40	1.41
346578--346623	22	2.2	22	88	11	71	50	0	0	50	1.00
346855--346887	16	2.1	16	88	11	50	60	6	0	33	1.21
346953--347012	14	4.4	14	72	18	54	41	0	1	56	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
347374--347435	32	1.9	32	83	6	81	54	14	3	27	1.55
347384--347427	16	2.8	16	86	3	63	56	9	4	29	1.50
348676--348830	77	2.0	77	100	0	310	29	16	12	41	1.85
348920--349002	15	5.9	14	72	13	62	46	1	1	50	1.16
348971--349015	5	8.4	5	88	11	63	35	0	0	64	0.94
348971--349015	15	2.8	16	90	10	74	35	0	0	64	0.94
348992--349074	37	2.2	38	81	14	93	46	0	0	53	1.00
351011--351056	13	3.3	14	82	14	51	54	0	0	45	0.99
354734--354775	21	2.0	21	100	0	84	23	9	23	42	1.83
354956--354992	19	1.9	19	88	0	56	21	2	0	75	0.92
356261--356320	16	3.8	16	79	0	75	13	10	30	46	1.75
356283--356335	16	3.3	16	81	0	52	11	9	30	49	1.70
357522--357568	23	2.1	21	84	7	58	76	0	6	17	0.98
363643--363688	23	2.0	24	91	4	76	52	2	0	45	1.13
365005--365041	18	2.1	18	90	10	58	29	0	0	70	0.88
365025--365094	25	3.0	25	82	10	78	47	1	0	51	1.09
365509--365550	22	1.9	22	90	9	68	38	0	0	61	0.96
366018--366051	2	17.0	2	100	0	68	50	0	0	50	1.00
366467--366498	15	2.2	15	94	5	57	53	6	15	25	1.65
368067--368104	11	3.5	11	85	10	51	50	0	2	47	1.15
370212--370257	22	2.0	22	83	4	56	69	10	6	13	1.35
370479--371023	78	6.9	79	80	6	554	33	13	25	27	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
370498--371042	157	3.5	157	82	5	663	33	13	24	28	1.93
370479--371023	237	2.3	236	85	2	704	33	13	25	27	1.93
371747--372104	183	2.0	183	90	0	572	28	18	18	34	1.95
374528--374570	2	22.5	2	86	9	63	53	2	0	44	1.13
374527--374575	24	2.1	23	92	3	80	57	2	0	40	1.10
374945--375000	23	2.7	21	84	15	73	1	17	0	80	0.80
376228--376665	32	13.8	32	86	2	605	18	18	32	30	1.95
376228--376856	64	9.8	64	84	8	789	18	19	32	30	1.96
376654--376678	13	1.9	13	100	0	50	20	40	16	24	1.91
376624--376708	43	2.0	44	86	6	120	18	24	28	28	1.98
376591--376740	74	2.0	77	90	3	243	18	22	30	28	1.97
376667--376856	30	6.2	31	86	10	243	18	20	32	28	1.96
376667--376856	61	3.1	64	88	11	292	18	20	32	28	1.96
376851--377314	27	16.7	27	86	6	633	28	14	33	24	1.94
376851--377314	82	5.6	81	87	4	633	28	14	33	24	1.94
376851--377314	109	4.2	108	88	5	635	28	14	33	24	1.94
378332--378364	12	2.8	12	90	0	57	0	0	12	87	0.53
378335--378364	11	2.7	11	94	0	51	0	0	10	90	0.47
387103--387177	20	3.8	20	90	0	123	42	9	16	32	1.79
387194--387248	20	2.8	20	94	0	92	50	12	12	23	1.74
388858--388919	31	2.0	31	93	0	106	9	22	32	35	1.87
388952--389077	43	2.9	43	97	0	243	11	29	13	45	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
389254--389292	13	3.1	12	82	10	51	41	0	0	58	0.98
389252--389285	13	2.7	13	86	4	52	44	0	0	55	0.99
391166--391378	34	6.5	34	81	5	233	26	7	26	38	1.84
391166--391378	67	3.2	67	79	8	233	26	7	26	38	1.84
418562--418610	26	1.9	26	91	4	82	63	0	0	36	0.95
418564--418610	13	3.8	12	78	15	51	61	0	0	38	0.96
418547--418610	32	2.0	31	85	14	87	62	0	0	37	0.95
418555--418610	6	9.3	6	81	11	62	62	0	0	37	0.95
421469--421506	2	19.0	2	100	0	76	50	0	0	50	1.00
422617--422658	16	2.5	17	84	7	50	38	0	0	61	0.96

Tables:   1   2   3   4   5   6