genome.fa.s34.2.7.7.80.10.50.1000.2.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: Scaffold34
Parameters: 2 7 7 80 10 50 1000
Length:  1758877

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   

This is table  2  of  12  ( 1352 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)
154077--154127	21	2.3	22	86	6	68	43	0	0	56	0.99
154033--154137	30	3.4	30	74	20	83	40	0	0	57	1.12
154129--154159	2	15.5	2	100	0	62	51	0	0	48	1.00
154592--154624	2	17.0	2	87	6	50	45	3	0	51	1.16
154898--154935	2	19.0	2	88	0	58	52	2	0	44	1.14
155315--155348	18	1.9	17	88	5	50	44	0	2	52	1.16
156324--156422	39	2.5	39	96	0	180	28	20	30	21	1.98
156402--156591	55	3.5	54	85	8	251	24	21	26	27	1.99
157675--157746	18	4.1	17	91	5	108	0	1	9	88	0.56
157675--157746	28	2.6	27	89	6	101	0	1	9	88	0.56
157675--157746	1	72.0	1	77	0	72	0	1	9	88	0.56
170149--170450	79	3.8	78	79	5	331	30	11	29	29	1.91
170149--170455	158	1.9	158	82	5	379	29	12	28	29	1.92
170390--170507	51	2.3	51	82	7	159	28	11	27	32	1.91
170473--170722	108	2.3	108	84	4	319	32	16	25	26	1.96
170600--170671	28	2.6	28	88	0	99	25	19	31	23	1.98
170658--170826	51	3.3	51	83	1	205	32	13	25	28	1.93
174865--174962	19	5.8	18	71	28	90	36	16	12	34	1.86
174884--174940	13	3.9	13	76	24	60	33	17	14	35	1.90
174863--174960	32	3.0	32	95	1	169	35	16	12	35	1.86
176703--176755	19	2.7	20	85	5	72	43	11	15	30	1.81
177172--177292	21	5.3	23	71	15	83	47	0	0	52	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
177182--177292	23	4.8	24	70	15	74	46	0	0	52	1.06
179401--179426	9	2.9	9	100	0	52	34	0	0	65	0.93
179424--179483	25	2.4	25	80	2	66	65	0	0	35	0.93
179424--179483	16	3.6	16	82	8	66	65	0	0	35	0.93
180373--180422	22	2.5	19	80	9	55	50	2	2	46	1.24
184951--184985	2	17.5	2	100	0	70	48	0	0	51	1.00
188495--188550	26	2.2	26	90	0	85	39	7	10	42	1.67
195485--195514	14	2.2	14	94	5	53	50	6	6	36	1.55
195768--196008	97	2.5	97	87	5	378	32	13	26	27	1.94
198105--198316	76	2.7	79	83	5	288	32	16	26	25	1.96
199060--199088	10	2.7	11	89	10	51	72	6	0	20	1.07
200738--200831	20	4.7	19	83	7	107	40	11	15	31	1.84
200738--200829	40	2.3	40	84	0	121	41	11	16	30	1.84
201570--201707	42	3.2	42	83	5	143	40	13	26	18	1.88
201690--202601	61	15.4	61	85	5	1030	26	20	26	25	1.99
201690--202601	182	5.1	182	87	5	1187	26	20	26	25	1.99
201691--202598	243	3.8	243	83	8	1124	26	20	26	25	1.99
202455--202542	26	3.3	26	66	20	72	23	20	28	27	1.99
203578--203670	1	93.0	1	71	0	69	1	2	10	86	0.72
203585--203659	7	10.4	7	80	13	82	0	1	13	85	0.67
203589--203670	30	2.7	30	88	9	130	1	1	10	86	0.68
203585--203658	6	12.5	6	82	14	84	0	1	13	85	0.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
216067--216239	79	2.2	79	86	2	240	29	13	28	28	1.95
216172--216291	51	2.4	51	75	2	134	30	12	27	30	1.93
218665--218773	20	5.8	20	80	14	117	42	11	12	33	1.80
218725--218751	13	2.1	13	100	0	54	40	14	14	29	1.86
218705--218771	33	2.0	33	91	5	109	41	13	14	29	1.85
219528--219559	17	1.9	16	93	6	55	0	15	0	84	0.63
219528--219570	14	3.1	14	80	16	54	0	18	2	79	0.85
219531--219587	17	3.6	16	72	23	50	1	22	1	73	1.02
220918--220982	30	2.1	31	82	5	78	35	12	21	30	1.90
220962--221887	28	33.0	28	88	1	1077	25	17	26	30	1.97
220962--222144	56	21.2	56	86	3	1064	26	16	27	29	1.97
220920--222145	84	14.6	84	83	5	1018	27	16	27	29	1.97
221014--222145	28	40.7	28	86	5	672	27	16	27	29	1.97
221485--222410	55	17.1	55	83	7	753	29	15	29	25	1.96
222126--222162	17	2.2	17	100	0	74	18	16	43	21	1.88
222143--222271	27	4.7	27	92	1	222	30	14	32	22	1.94
222017--222393	126	3.0	126	94	1	630	30	14	31	23	1.94
222252--222288	17	2.2	17	95	0	65	18	13	43	24	1.86
222073--222370	99	3.0	98	85	3	366	29	14	32	23	1.94
222225--222370	44	3.1	44	73	19	157	28	13	34	23	1.93
222269--222410	27	5.2	27	87	3	194	32	12	30	23	1.92
223788--223836	22	2.2	22	78	7	55	6	20	6	67	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
228529--228774	97	2.5	96	90	1	402	30	13	28	28	1.94
231783--231820	3	12.7	3	100	0	76	31	0	0	68	0.90
241534--241605	20	3.7	20	80	7	67	37	16	12	33	1.86
247366--247418	20	2.5	22	85	8	67	33	16	9	39	1.81
247475--247515	20	2.0	20	85	0	55	34	12	17	36	1.87
252632--252662	3	10.3	3	100	0	62	35	32	0	32	1.58
258965--259039	20	3.8	20	76	0	87	34	13	10	41	1.79
265590--265635	3	15.3	3	95	0	83	34	2	0	63	1.07
266508--266540	14	2.3	15	89	5	50	24	6	6	63	1.40
267254--267310	23	2.5	24	83	8	66	66	1	29	1	1.12
267276--267330	27	2.1	27	86	3	76	67	0	32	0	0.91
267655--267706	26	2.0	26	88	7	79	0	50	1	48	1.12
267765--267826	28	2.1	31	85	8	85	27	0	1	70	0.96
267906--267968	18	3.6	17	77	12	56	31	1	0	66	1.01
267918--267960	18	2.3	19	88	4	61	34	2	0	62	1.08
269177--269225	23	2.2	23	85	7	66	42	12	8	36	1.72
273671--273737	33	2.0	33	88	0	98	34	11	13	40	1.81
273691--273715	13	1.9	13	100	0	50	36	16	16	32	1.90
273778--273802	13	1.9	13	100	0	50	32	16	16	36	1.90
273811--273934	52	2.4	52	94	1	214	35	18	17	28	1.94
278073--278099	10	2.7	10	100	0	54	0	0	22	77	0.76
284056--284127	20	3.7	20	80	7	67	37	16	12	33	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
289888--289940	20	2.5	22	85	8	67	33	16	9	39	1.81
289997--290037	20	2.0	20	85	0	55	34	12	17	36	1.87
295154--295184	3	10.3	3	100	0	62	35	32	0	32	1.58
301486--301560	20	3.8	20	74	0	78	36	12	10	41	1.77
311142--311166	13	1.9	13	100	0	50	36	16	16	32	1.90
311122--311191	33	2.1	33	86	0	95	35	11	14	38	1.82
311233--311257	13	1.9	13	100	0	50	32	16	16	36	1.90
311266--311394	52	2.5	52	97	0	240	34	17	17	29	1.94
320961--321034	20	3.7	20	75	0	85	35	13	10	40	1.80
327584--327632	3	16.3	3	95	0	89	34	2	0	63	1.06
329230--329256	8	3.4	8	100	0	54	77	0	11	11	0.99
329246--329302	23	2.5	24	83	8	66	66	1	29	1	1.12
329268--329322	27	2.1	27	86	3	76	67	0	32	0	0.91
329647--329698	26	2.0	26	88	7	79	0	50	1	48	1.12
329757--329818	28	2.1	31	85	8	85	27	0	1	70	0.96
329897--329959	18	3.6	17	77	12	56	31	1	0	66	1.01
329909--329951	18	2.3	19	88	4	61	34	2	0	62	1.08
331168--331216	23	2.2	23	85	7	66	42	12	8	36	1.72
335548--335672	52	2.4	52	95	0	223	28	17	18	36	1.94
335548--335692	52	2.8	51	89	4	211	29	17	18	34	1.94
335681--335705	13	1.9	13	100	0	50	36	16	16	32	1.90
335750--335909	13	9.6	19	65	30	98	36	17	11	35	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
335750--335908	32	4.9	32	95	0	264	35	17	11	35	1.86
336757--337278	49	10.9	52	78	14	431	32	16	24	26	1.96
336864--337279	43	9.1	43	79	12	465	31	17	25	25	1.97
336820--337279	92	5.0	92	94	0	776	31	17	25	26	1.97
337284--337380	32	3.0	32	89	1	140	19	18	32	28	1.96
337382--337513	36	3.9	33	80	11	135	34	13	32	19	1.91
337362--337512	69	2.2	68	83	8	191	31	12	34	21	1.91
337362--337482	36	3.4	36	79	10	142	32	11	34	21	1.89
337568--337659	35	2.7	35	83	5	116	34	10	32	21	1.88
337418--337784	156	2.4	152	87	4	520	27	14	32	24	1.95

Tables:   1   2   3   4   5   6   7   8   9   10   11   12