genome.fa.s49.2.7.7.80.10.50.1000.2.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: Scaffold49
Parameters: 2 7 7 80 10 50 1000
Length:  1668912

Tables:   1   2   3   4   5   6   7   8   9   

This is table  2  of  9  ( 1071 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)
144063--144105	9	4.4	10	83	11	54	46	0	0	53	1.00
144338--144365	2	14.0	2	100	0	56	50	0	0	50	1.00
153880--154367	249	2.0	248	85	5	673	39	19	12	28	1.88
160380--160424	16	2.9	16	83	6	58	53	0	0	46	1.00
162152--162185	11	3.0	11	83	8	50	26	0	5	67	1.13
162152--162184	12	2.8	12	90	4	50	27	0	3	69	1.03
163007--163073	14	4.9	13	75	13	55	46	0	0	53	1.00
163050--163101	21	2.4	22	84	12	72	42	0	0	57	0.98
168875--168920	22	2.0	24	87	8	69	60	8	4	26	1.44
169241--169299	28	2.1	28	81	6	66	44	8	10	37	1.69
174163--174215	17	3.1	16	75	20	54	47	1	0	50	1.12
174852--174893	15	2.7	16	82	14	52	40	30	14	14	1.85
174852--174902	16	3.2	16	80	5	59	43	27	13	15	1.85
175314--175411	29	3.4	29	76	10	76	39	5	21	33	1.75
178102--178173	12	6.5	11	75	16	53	40	1	47	11	1.48
178092--178171	42	1.9	42	92	0	133	43	1	46	8	1.42
178131--178201	33	2.2	33	92	0	115	40	1	46	11	1.48
178092--178180	42	2.1	42	87	0	124	44	1	43	10	1.45
190657--190681	11	2.3	11	100	0	50	72	0	0	28	0.86
193960--193995	3	12.0	3	100	0	72	66	0	0	33	0.92
195622--195654	3	11.0	3	100	0	66	33	0	0	66	0.92
195954--196002	14	3.3	15	76	21	57	40	0	2	57	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
195989--196034	20	2.3	20	78	10	51	50	0	0	50	1.00
195954--196041	17	5.3	16	71	26	60	45	0	1	53	1.07
195987--196063	28	2.8	28	76	11	86	50	0	0	49	1.00
196335--196365	2	15.5	2	93	0	53	51	0	48	0	1.00
198926--199044	46	2.6	45	80	9	125	47	0	0	52	1.00
198967--199038	35	2.0	35	86	7	101	45	0	0	54	0.99
200006--200033	2	14.0	2	100	0	56	50	0	0	50	1.00
204781--204847	24	2.9	23	82	10	84	1	23	0	74	0.90
204781--204854	30	2.6	29	79	12	82	1	25	0	72	0.92
209728--209794	24	3.0	23	70	12	59	46	1	0	52	1.09
214831--214888	21	2.7	21	79	12	64	39	5	17	37	1.72
215658--215726	29	2.3	30	85	5	95	56	2	4	36	1.34
216650--216696	14	3.4	14	85	11	62	55	4	2	38	1.31
221077--221215	70	2.0	68	92	2	233	40	23	12	24	1.88
226070--226126	2	28.5	2	90	0	87	52	1	45	0	1.11
226070--226126	18	3.2	18	94	0	96	52	1	45	0	1.11
226998--227349	182	2.0	177	89	2	533	43	15	13	27	1.84
230327--230377	25	2.1	23	82	13	59	49	0	0	50	1.00
231025--231055	3	10.3	3	100	0	62	64	0	35	0	0.94
231412--231449	12	3.2	12	85	3	51	44	2	0	52	1.14
231699--231764	22	3.0	21	73	18	62	42	0	0	57	0.98
233964--234010	23	2.1	22	84	4	58	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
234217--234261	17	2.5	19	89	7	67	48	0	2	48	1.13
236063--236107	7	5.8	8	80	15	58	42	0	0	57	0.98
236063--236108	16	2.9	16	90	6	67	41	0	0	58	0.98
236063--236113	23	2.2	23	86	6	68	39	0	0	60	0.97
238628--238664	2	18.5	2	100	0	74	51	48	0	0	1.00
240076--240109	13	2.6	14	90	9	54	47	0	0	52	1.00
240341--240388	18	2.7	18	75	15	55	50	0	0	50	1.00
240549--240615	17	3.8	18	72	20	61	58	1	2	37	1.23
240790--240850	26	2.3	26	77	5	70	55	1	1	40	1.19
241061--241096	3	12.0	3	100	0	72	33	0	0	66	0.92
241233--241276	15	2.9	15	77	12	54	50	0	4	45	1.22
241322--241423	40	2.5	41	77	14	113	59	0	0	39	1.04
241324--241419	18	4.9	18	70	20	52	59	1	0	39	1.04
241583--241634	22	2.4	22	83	3	61	67	0	0	32	0.91
250619--250650	2	17.0	2	87	12	50	46	0	0	53	1.00
251680--251723	2	22.0	2	100	0	88	0	0	50	50	1.00
255360--255401	22	1.9	22	85	9	59	28	14	2	54	1.52
266825--266873	2	24.0	2	83	4	53	42	4	2	51	1.32
268398--268534	55	2.5	55	88	5	199	38	1	3	56	1.26
271928--271990	19	3.7	18	72	24	64	36	12	15	34	1.86
271926--272113	33	5.8	32	81	8	150	37	13	15	32	1.88
272018--272088	20	3.9	20	75	24	93	38	11	15	35	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
272042--272101	13	5.1	13	80	19	78	33	13	15	38	1.86
272022--272117	33	2.9	33	96	0	174	36	11	15	36	1.84
272020--272117	20	5.6	20	63	30	62	37	11	15	35	1.83
272959--273000	20	2.2	19	86	4	57	23	21	11	42	1.86
276547--276584	18	2.2	18	90	4	60	15	2	2	78	0.97
276999--277046	3	16.0	3	79	16	55	62	0	0	37	0.95
277903--277998	29	3.4	27	85	9	115	51	0	6	42	1.27
277905--278073	29	6.0	28	73	15	91	55	1	8	35	1.38
279069--279123	21	2.7	21	80	8	60	38	7	1	52	1.40
279278--279332	20	2.9	19	84	12	69	54	0	0	45	0.99
279286--279333	20	2.3	21	89	7	80	58	0	0	41	0.98
281438--281477	2	20.0	2	89	0	62	50	0	2	47	1.14
282076--282152	20	3.8	20	86	3	93	24	25	18	31	1.97
283998--284043	16	2.9	16	78	15	51	41	0	2	56	1.11
284032--284074	21	2.1	19	87	12	59	65	0	2	32	1.06
284032--284085	20	2.7	20	80	13	65	57	0	1	40	1.09
284239--284284	18	2.6	18	82	3	58	47	15	6	30	1.70
290481--290551	36	2.0	36	97	0	133	25	18	14	42	1.87
290474--290559	36	2.3	37	88	8	129	24	19	11	44	1.84
293255--293381	41	3.0	42	90	3	211	46	7	11	35	1.67
293946--293971	1	26.0	1	100	0	52	0	0	0	100	0.00
297062--297104	12	3.3	12	78	15	50	46	0	0	53	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
297078--297116	20	2.0	20	90	10	62	48	0	0	51	1.00
296977--297116	46	3.0	46	75	15	128	46	0	0	52	1.05
297243--297319	19	4.1	18	74	11	73	37	1	2	58	1.20
298807--298831	2	12.5	2	100	0	50	0	48	0	52	1.00
302608--302657	22	2.3	22	92	0	82	40	10	8	42	1.68
302708--302736	14	2.0	15	93	6	51	44	0	0	55	0.99
303867--303896	16	1.9	15	93	6	51	40	13	6	40	1.71
307628--307661	2	17.0	2	100	0	68	50	0	50	0	1.00
310672--310717	2	23.0	2	95	0	83	47	0	2	50	1.13
311549--311617	16	4.1	17	76	14	72	46	0	0	53	1.00
312154--312196	12	3.7	12	81	15	54	74	2	0	23	0.93
314817--314864	18	2.7	18	83	0	60	29	0	4	66	1.10
314836--314873	12	3.1	12	79	20	51	28	0	0	71	0.87
314845--314886	10	4.1	10	77	17	50	33	0	0	66	0.92
315264--315325	15	3.9	15	78	8	61	58	0	0	41	0.98
315267--315345	32	2.5	32	82	15	101	58	0	0	41	0.98
315865--315890	10	2.6	10	100	0	52	19	0	0	80	0.71
316122--316161	16	2.5	17	84	12	57	35	0	0	65	0.93
316103--316164	23	2.7	23	82	5	63	35	0	1	62	1.05
316175--316225	21	2.4	23	75	15	56	41	0	7	50	1.31
316646--316681	17	2.1	18	94	5	65	47	0	0	52	1.00
318025--318056	2	16.0	2	93	0	55	0	46	3	50	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
321200--321389	93	2.0	94	89	5	296	28	14	23	33	1.94
324138--324191	27	1.9	27	82	14	65	46	0	5	48	1.25
324667--324701	3	11.7	3	100	0	70	68	0	0	31	0.90
325090--325116	3	9.0	3	100	0	54	66	0	0	33	0.92
325246--325280	3	11.7	3	100	0	70	68	0	0	31	0.90
325276--325303	4	7.0	4	100	0	56	75	0	0	25	0.81
326575--326652	16	4.9	16	78	6	68	42	32	17	7	1.78
326551--326652	32	3.2	32	79	5	100	42	31	15	10	1.82
327619--327671	19	2.7	20	85	2	72	37	13	16	32	1.88
327641--327705	32	2.0	32	85	8	87	38	13	15	32	1.87

Tables:   1   2   3   4   5   6   7   8   9