genome.fa.s66.2.7.7.80.10.50.1000.2.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: Scaffold66
Parameters: 2 7 7 80 10 50 1000
Length:  4623749

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   

This is table  2  of  26  ( 3105 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)
161149--161203	26	2.1	26	83	6	67	45	0	7	47	1.30
164960--165088	52	2.5	52	94	0	222	31	17	15	34	1.92
164960--165108	52	2.9	51	88	4	210	32	17	16	33	1.92
165097--165121	13	1.9	13	100	0	50	36	16	16	32	1.90
169912--169945	2	17.0	2	100	0	68	50	0	0	50	1.00
170307--170339	2	16.5	2	100	0	66	48	0	0	51	1.00
171547--171576	2	15.0	2	100	0	60	50	0	0	50	1.00
172191--172226	2	18.0	2	100	0	72	50	0	0	50	1.00
174302--174740	236	1.9	237	93	0	763	31	13	21	33	1.92
175617--175644	5	5.6	5	100	0	56	0	21	17	60	1.36
180509--180538	2	15.0	2	100	0	60	50	0	0	50	1.00
182597--182635	2	19.5	2	100	0	78	0	48	0	51	1.00
190890--190927	17	2.2	17	86	9	51	2	10	0	86	0.66
192196--192225	6	5.0	6	91	0	51	30	0	53	16	1.44
192658--192684	2	13.5	2	100	0	54	51	0	0	48	1.00
192930--192963	2	17.0	2	93	0	50	44	0	5	50	1.26
193515--193543	3	10.0	3	92	7	51	65	0	0	34	0.93
194394--194424	2	15.5	2	93	0	53	48	0	0	51	1.00
204172--204208	2	18.5	2	100	0	74	51	0	0	48	1.00
208095--208135	2	20.5	2	100	0	82	51	0	0	48	1.00
214569--214599	7	4.4	7	100	0	62	29	29	0	41	1.56
218328--218355	3	9.3	3	100	0	56	35	0	0	64	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
224239--224270	2	16.0	2	93	0	55	53	0	0	46	1.00
226143--226200	21	2.8	21	71	10	55	39	3	22	34	1.71
226318--226351	9	3.8	9	92	0	59	23	38	0	38	1.55
227755--227788	16	2.1	16	94	0	59	38	11	20	29	1.88
229646--229675	9	3.3	9	90	0	51	23	36	0	40	1.55
230242--230273	2	15.5	2	93	6	55	46	3	0	50	1.17
242549--242612	21	3.2	21	68	18	55	51	0	0	48	1.00
242565--242617	16	3.5	16	73	19	51	56	0	0	43	0.99
242564--242608	16	2.9	16	81	12	58	51	0	0	48	1.00
245395--245428	2	17.0	2	100	0	68	50	0	50	0	1.00
248741--248765	2	12.5	2	100	0	50	48	0	0	52	1.00
254571--254600	3	10.0	3	92	0	51	63	0	3	33	1.11
255537--255569	14	2.3	15	89	5	50	81	0	18	0	0.68
256436--256501	27	2.4	27	78	17	64	62	3	0	34	1.11
257167--257235	15	4.5	15	70	20	52	56	0	0	43	0.99
257168--257216	16	3.0	15	80	14	53	57	0	0	42	0.99
257166--257213	23	2.0	25	92	8	82	56	0	0	43	0.99
257433--257467	7	4.9	7	89	3	52	40	0	0	60	0.97
257393--257446	25	2.2	25	83	12	67	50	0	0	50	1.00
257433--257487	15	3.6	15	80	7	58	40	0	1	58	1.09
257494--257558	10	6.9	9	74	22	53	52	0	1	46	1.10
257488--257551	21	3.2	20	77	16	71	46	0	1	51	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
257099--257541	165	2.7	160	77	14	485	45	1	1	51	1.20
257517--257555	16	2.3	16	86	8	51	53	0	0	46	1.00
257497--257551	19	2.8	21	81	15	73	49	0	1	49	1.11
261371--261631	145	1.8	143	89	0	387	34	11	13	40	1.81
265322--265378	29	2.0	29	89	0	87	50	0	12	36	1.40
270943--270972	2	15.0	2	100	0	60	50	0	0	50	1.00
271021--271055	5	7.0	5	93	0	61	20	57	0	22	1.41
276861--276899	20	1.9	20	85	15	53	12	17	2	66	1.35
279722--279978	132	2.0	125	87	6	372	34	17	15	32	1.92
280888--280916	2	14.5	2	100	0	58	0	48	0	51	1.00
294165--294215	21	2.4	22	76	23	56	43	1	1	52	1.23
316495--316539	14	3.2	13	81	12	54	60	0	0	40	0.97
317905--317934	13	2.4	13	94	5	53	33	6	13	46	1.69
321835--321881	22	2.1	22	92	0	76	23	19	21	36	1.95
325464--325515	27	2.0	27	84	3	70	61	3	3	30	1.32
325690--325734	13	3.4	13	79	14	56	77	0	15	6	0.96
325863--325913	21	2.5	20	79	17	59	29	3	3	62	1.31
325863--325919	20	2.8	20	78	7	60	31	3	3	61	1.30
326615--326664	23	2.1	23	85	3	64	26	6	2	66	1.26
326741--326787	20	2.3	21	82	7	53	57	0	0	42	0.98
327359--327387	2	14.5	2	100	0	58	48	0	0	51	1.00
327389--327435	23	2.0	23	87	0	67	27	21	12	38	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
328069--328094	3	8.7	3	100	0	52	65	0	0	34	0.93
328276--328308	16	2.1	16	88	11	50	39	0	3	57	1.14
328365--328413	25	1.9	26	87	4	73	22	0	4	73	1.00
328501--328569	32	2.2	31	89	5	111	49	4	1	44	1.31
329169--329209	21	2.0	21	85	0	55	46	0	0	53	1.00
330073--330138	27	2.4	28	79	5	71	39	0	1	59	1.07
330099--330144	18	2.5	19	75	10	51	45	0	0	54	0.99
330119--330152	15	2.3	15	90	10	52	52	0	0	47	1.00
337857--337921	27	2.4	26	77	10	76	53	0	1	44	1.09
338590--338620	13	2.3	14	94	5	55	48	6	12	32	1.67
338915--339013	38	2.6	39	85	4	130	33	22	9	35	1.86
338982--339068	31	2.8	31	84	1	104	34	21	9	34	1.86
343648--343723	38	2.0	38	89	5	118	38	10	3	47	1.57
345893--346008	22	5.2	21	70	16	65	54	0	1	43	1.16
345900--345940	22	1.9	22	90	5	66	51	0	2	46	1.14
345909--345978	31	2.2	31	82	7	86	52	0	1	45	1.09
345914--345975	14	3.9	15	76	17	63	54	0	0	45	0.99
345889--346015	34	3.5	34	75	17	98	54	0	1	43	1.15
345947--346003	25	2.3	25	76	14	64	56	0	1	42	1.10
346502--346555	28	1.9	28	88	0	81	53	7	0	38	1.29
347156--347202	12	4.2	12	84	10	55	0	42	0	57	0.98
347156--347194	2	19.5	2	89	0	60	0	43	0	56	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
353913--353948	2	18.0	2	100	0	72	50	0	50	0	1.00
358815--358849	5	7.4	5	87	12	56	37	0	0	62	0.95
358824--358853	13	2.3	13	100	0	60	36	0	0	63	0.95
359593--359848	131	2.0	131	99	0	503	28	17	17	35	1.93
361778--361899	37	3.2	38	69	19	117	47	4	4	43	1.44
361738--361901	77	2.1	77	96	1	301	47	5	6	40	1.51
362132--362163	2	16.5	2	93	6	57	53	0	0	46	1.00
366373--366402	13	2.2	14	94	5	53	63	0	0	36	0.95
366387--366440	20	2.7	19	85	5	63	59	0	5	35	1.21
366469--366530	27	2.3	29	83	10	78	37	0	1	61	1.06
366636--366695	29	2.0	29	81	15	70	61	1	1	35	1.16
369641--369666	2	13.0	2	100	0	52	50	0	0	50	1.00
372977--373018	2	21.5	2	85	4	59	47	0	0	52	1.00
373594--373795	99	2.0	99	97	0	377	32	7	11	47	1.69
373725--374929	81	14.9	81	93	2	2026	37	10	6	45	1.63
373725--375905	162	13.4	162	91	3	3450	37	9	6	46	1.62
373725--375905	243	8.9	243	92	3	3468	37	9	6	46	1.62
374958--375905	81	11.7	81	93	2	1539	38	10	5	46	1.61
374778--375109	180	1.8	180	90	1	540	36	8	7	47	1.63
376331--376382	24	2.2	24	86	6	70	65	0	1	32	1.04
376390--376479	15	6.0	15	72	21	64	51	1	1	46	1.15
376371--376467	31	3.2	31	74	24	91	52	0	1	46	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
376372--376439	14	4.6	14	76	18	57	51	0	0	48	1.00
376372--376478	44	2.4	44	80	16	105	51	0	0	46	1.13
376696--376815	32	3.8	32	70	15	97	45	1	0	53	1.10
376923--376955	11	2.8	12	86	9	50	33	0	0	66	0.92
380085--380119	2	17.5	2	100	0	70	48	0	0	51	1.00
389276--389330	2	27.5	2	96	0	101	0	50	0	49	1.00
393104--393274	85	2.0	85	96	0	315	48	9	7	34	1.64
394012--394107	5	16.3	6	69	24	55	34	1	1	63	1.08
394051--394118	23	3.0	23	78	8	68	30	2	1	64	1.17
403229--403286	26	2.3	25	79	8	64	56	0	1	41	1.09

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26