genome.fa.s5.2.7.7.80.10.50.1000.3.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: Scaffold5
Parameters: 2 7 7 80 10 50 1000
Length:  1536239

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   

This is table  3  of  14  ( 1571 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)
339608--339721	50	2.3	51	93	3	196	30	16	9	42	1.80
343666--343700	18	1.9	18	88	0	52	45	0	0	54	0.99
343691--343735	14	3.2	14	80	0	54	46	0	0	53	1.00
344891--344932	2	21.0	2	100	0	84	50	0	0	50	1.00
345657--345842	50	3.7	50	85	1	248	30	18	19	31	1.96
345657--345842	100	1.9	100	88	0	282	30	18	19	31	1.96
350185--350387	50	4.1	50	86	1	273	37	19	14	29	1.91
351670--351700	2	15.5	2	93	0	53	48	3	0	48	1.17
352069--352112	20	2.2	20	84	8	54	31	4	0	63	1.14
353105--353148	2	22.0	2	90	0	70	50	4	0	45	1.22
355450--355513	27	2.3	27	81	5	74	62	0	0	37	0.95
355461--355493	16	1.9	18	88	11	52	54	0	0	45	0.99
356311--356354	3	14.7	3	100	0	88	31	0	0	68	0.90
357614--357660	11	4.2	11	78	10	51	29	0	2	68	1.02
357623--357676	25	2.1	27	83	10	69	35	0	1	62	1.06
357656--357719	17	3.8	17	71	22	55	48	1	0	50	1.10
359112--359140	2	14.5	2	100	0	58	51	0	0	48	1.00
362197--362238	2	21.0	2	95	0	75	47	0	0	52	1.00
362690--362761	25	2.8	25	85	10	85	36	0	1	62	1.04
362682--362767	10	9.4	9	70	17	54	37	0	1	61	1.04
362692--362808	32	3.8	32	74	15	97	39	0	0	59	1.03
363782--363811	2	15.0	2	100	0	60	50	0	50	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
363962--364031	29	2.4	29	79	6	81	45	0	1	52	1.09
366097--366136	16	2.5	17	84	11	50	32	0	2	65	1.06
367153--367204	24	2.2	24	83	13	63	51	0	0	48	1.00
367187--367231	19	2.4	19	81	3	56	48	0	4	46	1.22
368737--368787	22	2.3	22	77	12	52	66	1	1	29	1.13
369294--369329	13	2.9	12	84	8	54	61	0	0	38	0.96
369370--369409	19	2.1	19	86	9	55	62	2	0	35	1.09
378423--378475	21	2.5	22	80	17	67	30	0	0	69	0.88
378459--378498	15	2.7	15	96	0	71	27	0	0	72	0.85
378438--378500	29	2.1	31	85	5	85	31	0	0	68	0.90
378448--378500	14	3.6	14	87	7	70	32	0	0	67	0.91
378728--378764	3	12.3	3	100	0	74	64	0	0	35	0.94
379167--379209	21	2.0	21	86	9	59	62	0	0	37	0.95
380043--380076	17	2.0	17	94	0	59	67	0	0	32	0.91
384849--384940	30	3.1	31	74	10	95	57	0	4	38	1.19
384868--384915	13	3.4	13	78	18	51	60	0	6	33	1.22
385887--385916	2	15.0	2	100	0	60	0	50	0	50	1.00
387701--387734	2	17.0	2	100	0	68	50	0	0	50	1.00
394328--394371	17	2.4	18	77	11	54	68	0	0	31	0.90
394337--394380	17	2.6	17	81	0	52	65	0	0	34	0.93
394434--394490	23	2.5	22	81	10	71	43	0	0	56	0.99
394441--394482	16	2.6	16	88	3	57	38	0	0	61	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
394479--394528	14	3.4	14	78	8	55	62	4	0	34	1.14
394631--394671	21	2.0	21	86	9	59	39	0	0	60	0.96
394633--394678	14	3.4	14	70	11	51	32	0	0	67	0.91
394632--394690	26	2.2	27	84	6	84	33	0	0	66	0.92
394633--394690	14	4.4	14	72	10	50	32	0	0	67	0.91
396788--396853	12	4.9	14	75	19	68	25	0	6	68	1.13
396792--396839	13	3.6	13	78	15	62	22	0	4	72	1.01
396805--396855	14	3.7	14	80	15	70	27	0	7	64	1.21
396790--396853	27	2.4	27	100	0	128	25	0	6	68	1.12
396975--397015	21	2.0	21	85	9	57	63	0	0	36	0.95
396983--397025	20	2.0	22	82	8	54	65	0	0	34	0.93
397039--397094	23	2.4	23	80	11	60	46	3	0	50	1.19
397672--397698	3	9.0	3	100	0	54	0	33	0	66	0.92
400915--400946	2	16.0	2	100	0	64	50	0	0	50	1.00
402261--402341	43	1.9	42	85	5	110	55	2	2	39	1.26
402544--402586	17	2.4	18	84	7	61	32	2	0	65	1.06
402848--402891	8	5.5	8	91	0	52	50	11	0	38	1.39
402848--402890	12	3.6	12	87	0	59	51	11	0	37	1.39
404946--405002	22	2.5	23	75	11	64	59	0	0	40	0.97
405981--406023	21	2.0	21	81	0	50	44	0	0	55	0.99
408103--408137	18	1.9	18	88	0	52	60	11	0	28	1.32
409388--409420	2	16.5	2	100	0	66	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
411472--411654	34	5.4	34	86	0	251	26	7	26	39	1.83
411959--412021	19	3.3	19	90	0	90	28	17	19	34	1.94
416087--416271	34	5.5	34	88	0	264	25	7	26	40	1.82
417557--417611	22	2.6	22	80	13	62	54	0	0	45	0.99
417834--417863	16	1.9	15	93	6	51	30	0	3	66	1.07
418349--418401	25	2.2	24	83	9	65	41	0	1	56	1.10
418909--419020	57	1.9	58	87	5	165	22	25	3	49	1.66
419456--419485	16	1.9	16	93	6	53	23	6	3	66	1.30
421907--421934	2	14.0	2	100	0	56	50	0	0	50	1.00
422818--422848	14	2.1	15	94	5	55	32	0	3	64	1.09
429519--429574	22	2.5	23	91	2	87	35	39	3	21	1.71
429539--429606	35	2.0	34	85	2	91	38	36	2	22	1.69
429574--429633	22	2.7	22	77	10	59	38	25	5	31	1.77
440527--440606	1	80.0	1	84	0	97	91	7	1	0	0.48
440527--440606	25	3.2	24	89	5	124	91	7	1	0	0.48
440533--440606	39	1.9	37	91	5	121	90	8	1	0	0.51
443350--443383	17	1.9	18	88	5	52	17	11	29	41	1.85
444136--444217	35	2.4	34	87	4	119	35	34	6	24	1.80
445818--445880	20	3.1	20	73	8	56	44	1	0	53	1.10
446073--446116	2	22.0	2	100	0	88	50	0	0	50	1.00
446692--446730	17	2.2	18	86	4	53	35	2	0	61	1.10
446692--446755	18	3.5	19	80	18	57	39	1	0	59	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
447054--447105	2	26.0	2	81	14	63	48	0	5	46	1.26
447053--447114	30	2.1	30	100	0	124	48	0	9	41	1.36
449063--449100	2	19.0	2	100	0	76	50	0	0	50	1.00
449273--449320	18	2.4	20	86	13	64	47	0	0	52	1.00
449319--449357	21	1.9	21	89	5	62	53	0	0	46	1.00
449321--449364	19	2.2	20	88	4	63	50	0	0	50	1.00
453028--453074	18	2.5	19	82	6	60	55	2	0	42	1.12
453947--453986	21	1.9	21	90	10	64	60	2	0	37	1.11
455592--455621	14	2.1	14	93	0	51	13	20	6	60	1.55
459739--459770	16	2.0	16	93	0	55	34	6	9	50	1.60
461388--461437	2	26.5	2	84	11	70	46	0	0	54	1.00
462879--462952	30	2.5	30	86	2	96	50	1	9	39	1.44
463025--463069	22	2.0	22	100	0	90	35	8	0	55	1.31
468891--469091	52	3.9	52	95	1	341	29	17	19	33	1.95
469080--469104	13	1.9	13	100	0	50	36	16	16	32	1.90
469167--469191	13	1.9	13	100	0	50	32	16	16	36	1.90
469249--469290	21	2.0	21	90	0	66	35	14	14	35	1.86
470076--470234	52	3.2	52	76	16	192	33	16	25	24	1.96
470130--470219	43	2.1	43	91	0	144	30	17	25	26	1.98
470225--470758	88	6.1	87	79	8	510	24	16	29	29	1.97
470615--470761	29	5.1	27	80	9	105	23	18	29	28	1.97
470472--470747	121	2.3	117	80	5	304	27	16	29	27	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
470223--470756	30	18.1	30	79	9	465	24	16	28	29	1.97
472195--472343	1	149.0	1	77	0	109	2	3	8	85	0.77
472195--472344	17	8.6	17	79	12	137	2	3	9	85	0.79
472205--472338	28	4.7	29	84	10	134	2	3	8	85	0.79
482033--482059	10	2.7	10	100	0	54	77	22	0	0	0.76
486188--486388	52	3.9	52	95	1	341	29	17	19	33	1.95
486377--486401	13	1.9	13	100	0	50	36	16	16	32	1.90
486464--486488	13	1.9	13	100	0	50	32	16	16	36	1.90
486546--486587	21	2.0	21	90	0	66	35	14	14	35	1.86
487602--487647	20	2.2	21	88	3	67	65	4	0	30	1.12

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14