genome.fa.s364.2.7.7.80.10.50.1000.3.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: Scaffold364
Parameters: 2 7 7 80 10 50 1000
Length:  2089110

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

This is table  3  of  10  ( 1160 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)
290568--290616	24	2.1	24	85	14	68	71	2	16	10	1.22
293168--293225	27	2.0	30	87	9	86	15	17	29	37	1.90
300962--300986	6	4.2	6	100	0	50	36	0	32	32	1.58
304822--304851	10	3.0	10	95	0	51	43	0	6	50	1.28
312342--312384	20	2.0	22	91	8	72	34	0	0	65	0.93
312336--312409	19	3.8	19	75	15	62	39	0	0	60	0.97
317467--317562	40	2.4	40	94	0	165	25	23	8	42	1.82
320889--320937	19	2.7	19	84	6	66	42	4	0	53	1.20
322976--323003	2	14.0	2	100	0	56	50	0	0	50	1.00
323152--323214	25	2.5	25	100	0	126	25	23	15	34	1.95
334749--334781	3	11.0	3	100	0	66	0	33	0	66	0.92
337996--338020	2	12.5	2	100	0	50	52	0	0	48	1.00
342466--342490	1	25.0	1	100	0	50	0	0	100	0	0.00
342509--342550	21	2.0	21	100	0	84	38	14	4	42	1.66
346719--346751	4	8.5	4	93	6	59	75	0	24	0	0.80
357142--357175	7	4.9	7	96	0	59	0	29	2	67	1.05
357691--357720	2	15.0	2	92	0	51	46	0	0	53	1.00
358220--358283	21	2.9	22	75	17	69	57	1	0	40	1.08
364294--364339	14	3.3	13	80	14	56	78	0	4	17	0.91
366914--366953	2	20.0	2	100	0	80	0	50	0	50	1.00
368404--368433	2	15.0	2	100	0	60	50	0	50	0	1.00
370711--370783	36	2.1	33	82	7	83	4	6	13	75	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
371691--371728	14	2.5	15	83	12	51	55	0	0	44	0.99
373141--373178	18	2.1	19	85	5	51	13	31	39	15	1.86
377510--377550	14	2.8	16	79	20	54	51	0	4	43	1.23
378581--378610	14	2.1	15	93	6	53	53	0	3	43	1.17
378846--378873	2	14.0	2	100	0	56	50	0	0	50	1.00
380135--380202	27	2.4	28	74	13	68	52	0	1	45	1.09
384787--384843	26	2.2	26	83	0	78	36	1	10	50	1.47
386515--386554	6	6.7	6	94	0	71	2	0	80	17	0.83
386552--386597	18	2.4	20	89	10	78	34	0	65	0	0.93
386552--386588	6	6.2	6	93	0	65	35	0	64	0	0.94
388226--388263	3	12.7	3	100	0	76	34	0	0	65	0.93
399491--399540	22	2.3	22	85	0	73	60	2	0	38	1.09
399743--399768	2	13.0	2	100	0	52	0	50	0	50	1.00
406328--406359	10	3.2	10	95	0	55	43	0	6	50	1.27
408187--408218	2	16.0	2	93	0	55	53	0	0	46	1.00
414019--414073	14	3.7	16	72	22	57	32	0	0	67	0.91
414012--414073	21	2.7	23	76	16	67	37	0	0	62	0.95
415263--415293	4	7.8	4	100	0	62	22	0	0	77	0.77
415577--415606	15	2.1	15	93	6	53	43	6	0	50	1.28
415581--415630	15	3.2	16	78	10	59	44	6	0	50	1.26
417124--417171	25	1.9	25	87	8	71	58	0	0	41	0.98
417136--417184	24	2.1	23	81	11	55	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)
417171--417206	18	2.1	17	94	5	63	30	0	0	69	0.89
417175--417215	18	2.3	18	87	8	57	29	0	0	70	0.87
417802--418285	225	2.2	225	85	2	641	49	7	8	35	1.60
418334--418385	24	2.2	23	82	3	59	73	11	1	13	1.19
427008--427032	2	12.5	2	100	0	50	52	0	48	0	1.00
428556--428660	53	2.0	53	94	0	183	26	16	16	40	1.89
428719--428776	29	2.0	29	86	6	82	34	17	13	34	1.89
432519--432559	21	2.0	21	85	9	57	51	0	2	46	1.14
432550--432598	17	2.9	17	75	3	55	36	0	8	55	1.30
432636--432697	18	3.5	18	70	10	56	48	3	0	48	1.17
433667--433709	2	21.0	2	90	4	68	51	0	2	46	1.13
433666--433719	8	6.4	9	82	6	53	48	0	1	50	1.11
434936--434968	17	2.0	17	88	5	50	39	3	0	57	1.14
452169--452220	18	2.9	18	72	16	54	46	0	0	53	1.00
452177--452237	28	2.2	28	82	11	72	44	0	0	55	0.99
457366--457392	2	13.5	2	100	0	54	48	0	0	51	1.00
461535--461569	18	1.9	18	88	0	52	28	2	0	68	1.04
461546--461608	30	2.1	31	88	8	94	38	0	0	61	0.96
461560--461606	24	2.0	24	83	8	60	40	0	0	59	0.97
461596--461645	21	2.5	21	90	6	77	56	2	0	42	1.11
466571--466609	3	13.0	3	100	0	78	66	0	33	0	0.92
474547--474572	2	13.0	2	100	0	52	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)
474572--474601	2	15.0	2	92	0	51	0	3	50	46	1.18
474864--474921	2	29.0	2	81	6	55	43	3	3	50	1.36
475446--475478	2	16.5	2	93	0	57	51	0	3	45	1.16
487024--487150	63	2.0	63	96	0	236	41	9	15	33	1.80
488008--488107	50	2.0	50	98	0	191	29	20	16	35	1.94
498983--499015	17	2.0	17	94	5	59	54	6	0	39	1.25
506812--506849	2	19.0	2	100	0	76	50	0	50	0	1.00
507898--507943	20	2.3	20	85	10	60	39	2	0	58	1.10
509581--509606	2	13.0	2	100	0	52	50	0	0	50	1.00
511627--511653	3	9.0	3	100	0	54	33	33	33	0	1.58
512029--512070	21	2.1	19	86	13	57	38	0	2	59	1.10
514617--514645	2	14.5	2	100	0	58	0	48	0	51	1.00
516510--516799	118	2.4	119	77	15	298	39	7	6	46	1.57
516749--516791	22	1.9	22	86	13	61	34	0	0	65	0.93
516959--517034	26	2.8	26	84	9	82	48	1	0	50	1.09
530173--530202	2	15.0	2	100	0	60	50	0	0	50	1.00
530834--530875	18	2.3	19	80	12	61	71	0	0	28	0.86
530842--530877	18	2.0	18	94	0	63	69	0	0	30	0.89
530844--531057	118	1.8	118	93	0	374	51	6	2	39	1.43
533839--534023	34	5.5	34	86	3	248	40	25	7	26	1.82
538089--538151	19	3.3	19	90	0	90	34	19	17	28	1.94
538457--538639	34	5.4	34	83	3	226	39	25	7	27	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
539859--539898	10	4.1	10	80	6	55	45	0	7	47	1.31
542646--542683	14	2.5	15	87	12	60	50	0	0	50	1.00
545316--545498	34	5.4	34	82	3	217	40	24	7	27	1.82
545316--545498	68	2.7	68	86	0	242	40	24	7	27	1.82
546718--546757	10	4.1	10	80	6	55	45	0	7	47	1.31
549505--549542	14	2.5	15	87	12	60	50	0	0	50	1.00
560098--560124	2	13.5	2	100	0	54	51	0	0	48	1.00
560124--560164	2	20.5	2	100	0	82	51	0	48	0	1.00
565518--565542	2	12.5	2	100	0	50	48	0	0	52	1.00
574315--574340	3	8.7	3	100	0	52	34	0	0	65	0.93
574796--574841	2	23.0	2	100	0	92	50	0	0	50	1.00
576250--576288	2	19.5	2	100	0	78	51	0	0	48	1.00
590437--590645	50	4.2	50	92	0	337	29	21	19	29	1.97
595011--595205	50	3.9	50	91	2	311	29	21	17	30	1.97
599378--599424	3	15.7	3	95	0	85	0	31	2	65	1.04
599541--599575	12	2.7	13	86	13	54	82	2	14	0	0.77
599979--600005	3	9.0	3	100	0	54	33	0	0	66	0.92
601540--601595	24	2.2	27	81	9	73	57	0	1	41	1.09
605237--605267	2	15.5	2	100	0	62	48	0	0	51	1.00
606462--606505	2	22.0	2	88	0	52	40	0	6	52	1.28
613231--613419	50	3.8	50	87	5	256	32	21	14	32	1.93
617767--617916	50	3.0	50	82	3	176	38	16	10	35	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
632342--632370	2	14.5	2	100	0	58	48	0	0	51	1.00
633175--633202	2	14.0	2	100	0	56	50	0	0	50	1.00
639145--639176	3	10.7	3	93	0	55	65	0	3	31	1.08
639272--639298	2	13.5	2	100	0	54	0	48	0	51	1.00
642004--642050	22	2.1	22	84	4	58	51	0	2	46	1.13
644425--644472	19	2.5	19	96	0	87	50	4	0	45	1.21
644723--644769	2	23.5	2	95	0	85	51	0	48	0	1.00
650051--650101	16	3.1	17	77	11	61	60	0	0	39	0.97
650145--650193	19	2.5	20	80	16	57	48	0	0	51	1.00
650131--650193	18	3.4	19	76	14	69	49	0	0	50	1.00

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