genome.fa.s307.2.7.7.80.10.50.1000.3.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: Scaffold307
Parameters: 2 7 7 80 10 50 1000
Length:  622582

Tables:   1   2   3   4   5   

This is table  3  of  5  ( 481 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)
320144--320240	11	8.9	11	75	15	67	37	2	0	60	1.08
320189--320241	28	2.0	26	88	7	79	37	0	0	62	0.96
320144--320238	16	6.2	16	71	18	76	36	2	0	61	1.08
320190--320247	28	2.2	26	84	6	71	39	0	0	60	0.97
320494--320574	11	7.8	10	76	21	62	67	1	0	30	0.98
320509--320556	3	17.0	3	76	20	50	66	2	0	31	1.03
320506--320540	17	2.1	17	94	0	61	68	0	0	31	0.90
320512--320566	14	3.7	14	79	11	65	67	1	0	30	1.01
320499--320651	19	8.8	17	66	23	70	60	3	0	35	1.13
320547--320643	47	2.1	45	80	10	108	57	4	0	38	1.18
320914--320991	38	2.1	36	83	6	95	58	0	0	41	0.98
321687--321750	28	2.2	29	86	8	85	64	0	0	35	0.94
321678--321744	35	1.9	35	87	6	100	64	0	0	35	0.94
328379--328430	24	2.2	25	83	13	65	26	5	3	63	1.34
328388--328436	22	2.1	22	81	7	53	28	4	4	63	1.31
328431--328470	17	2.3	18	91	4	64	42	0	0	57	0.98
330171--330316	2	73.0	2	100	0	292	50	0	50	0	1.00
331136--331170	18	2.0	17	88	5	52	40	2	0	57	1.14
331376--331516	6	23.7	6	66	23	59	58	1	0	40	1.07
331347--331526	19	9.2	19	68	18	93	60	1	0	37	1.07
331383--331527	8	17.8	8	73	21	97	58	1	0	40	1.07
331369--331522	15	10.2	15	69	22	74	60	1	0	38	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
331389--331459	25	2.7	26	81	16	85	54	1	0	43	1.08
332104--332130	6	4.5	6	100	0	54	0	14	0	85	0.61
333396--333431	10	3.5	10	92	3	54	5	22	58	13	1.56
336526--336553	14	2.0	14	100	0	56	14	28	28	28	1.95
341061--341245	100	1.9	96	84	6	246	60	7	10	21	1.53
341802--341843	20	2.1	20	82	8	50	50	7	0	42	1.30
342109--342138	2	15.0	2	92	0	51	46	3	0	50	1.18
342229--342281	8	6.4	8	75	16	54	83	0	16	0	0.66
342217--342281	17	3.7	17	78	12	69	81	0	16	1	0.77
342216--342274	21	3.0	20	80	14	68	81	0	16	1	0.78
342224--342281	30	1.9	30	89	6	91	81	0	17	1	0.78
342696--342728	16	2.1	16	94	0	57	84	0	15	0	0.61
343218--343254	15	2.4	16	90	4	58	51	0	2	45	1.15
343803--343843	17	2.5	17	84	7	59	43	0	0	56	0.99
343934--343968	18	1.9	18	88	0	52	42	2	5	48	1.41
344047--344085	19	2.0	19	85	5	51	46	5	5	43	1.48
344304--344350	23	2.0	22	88	8	67	59	0	2	38	1.09
348030--348077	15	3.1	16	79	11	55	50	4	14	31	1.62
353737--353768	15	2.1	15	94	0	55	25	12	31	31	1.92
354802--354838	19	2.0	18	94	5	65	37	10	21	29	1.88
357001--357032	15	2.0	17	88	11	50	40	0	0	59	0.97
356995--357056	23	2.8	22	79	11	65	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)
356998--357056	24	2.6	22	75	17	59	38	0	0	61	0.96
358510--358544	18	2.1	18	89	10	56	60	5	0	34	1.21
358945--359023	35	2.3	35	86	4	106	56	0	1	41	1.07
358945--359035	35	2.6	34	84	3	101	56	1	3	39	1.23
358998--359075	28	2.8	28	76	3	77	52	1	5	41	1.32
360319--360376	22	2.9	18	77	20	62	18	0	1	79	0.82
360492--360524	16	2.1	16	88	5	50	48	0	0	51	1.00
361898--361931	10	3.6	10	84	15	54	79	0	0	20	0.73
361891--361931	18	2.2	19	95	4	75	75	0	2	21	0.92
361891--361929	9	4.3	9	84	12	53	76	0	2	20	0.90
370298--370325	2	14.0	2	100	0	56	0	0	50	50	1.00
370325--370357	2	16.5	2	100	0	66	48	0	51	0	1.00
377860--377948	31	2.9	31	94	0	160	51	10	19	19	1.74
379325--379353	13	2.2	13	100	0	58	10	37	6	44	1.65
380341--380643	104	3.0	103	82	6	366	22	20	20	36	1.95
381734--381783	27	1.9	25	84	15	66	56	0	0	44	0.99
382165--382234	21	3.6	20	75	17	67	67	0	12	20	1.23
382476--382541	27	2.5	28	78	16	77	53	1	0	45	1.09
382514--382552	21	1.9	20	89	5	60	51	0	0	48	1.00
384182--384229	6	7.8	6	86	13	71	35	0	0	64	0.94
386926--386965	2	20.0	2	100	0	80	50	0	0	50	1.00
388380--388417	20	1.9	20	88	0	58	39	0	0	60	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
389681--389710	2	15.0	2	100	0	60	0	0	50	50	1.00
394888--395320	216	2.0	216	100	0	866	30	21	18	29	1.97
400053--400085	15	2.1	16	88	5	50	60	0	0	39	0.97
400190--400241	22	2.3	22	80	6	59	55	0	1	42	1.10
402636--402705	32	2.2	33	86	2	97	55	2	2	38	1.29
403148--403211	34	1.9	33	84	9	85	51	1	1	45	1.20
403609--403673	19	3.5	20	77	14	57	38	1	0	60	1.07
403609--403686	9	8.7	9	70	19	56	37	2	0	60	1.11
403642--403698	14	4.6	13	77	12	50	33	3	0	63	1.12
404043--404076	14	2.6	13	90	9	52	38	0	0	61	0.96
404053--404142	18	4.9	18	66	16	60	36	1	0	62	1.03
404052--404142	34	2.6	33	78	13	85	37	1	0	61	1.03
404056--404134	34	2.3	35	80	14	92	36	1	0	62	1.04
404642--404703	18	3.4	18	86	8	65	75	1	12	9	1.11
404657--404703	9	5.3	9	78	14	53	76	2	10	10	1.10
404658--404703	18	2.6	18	93	3	76	76	2	10	10	1.12
405754--405808	17	3.4	16	80	9	58	47	0	0	52	1.00
405754--405794	17	2.5	17	84	7	59	43	0	0	56	0.99
405877--405901	10	2.5	10	100	0	50	44	0	0	56	0.99
405888--405928	20	2.0	22	85	9	59	39	0	4	56	1.21
413380--413413	17	2.0	17	88	11	52	44	0	0	55	0.99
413548--413579	3	10.7	3	93	0	55	28	0	3	68	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
415300--415369	27	2.7	26	85	12	90	41	0	1	57	1.08
416553--416627	32	2.3	33	86	4	100	46	0	0	53	1.00
416572--416627	8	8.1	7	83	16	57	44	0	0	55	0.99
416978--417015	14	2.5	15	83	12	51	50	0	0	50	1.00
421597--421627	16	1.9	16	100	0	62	32	0	0	67	0.91
423484--423574	47	2.0	46	82	2	110	27	1	13	58	1.42
423979--424008	11	2.9	10	90	9	51	36	0	0	63	0.95
424508--424542	16	2.1	16	89	10	52	37	0	0	62	0.95
424536--424575	20	2.0	21	85	14	57	47	0	0	52	1.00
425015--425047	15	2.1	16	88	5	50	42	0	0	57	0.98
425124--425186	27	2.3	28	78	5	67	47	0	0	52	1.00
426232--426283	17	3.3	15	81	10	59	38	0	1	59	1.08
426207--426306	26	3.8	27	79	17	88	37	1	4	58	1.24
426303--426347	20	2.1	22	84	8	58	26	2	6	64	1.30
426563--426597	15	2.3	15	95	0	61	51	2	0	45	1.16
426739--426786	23	2.1	22	85	11	62	31	0	0	68	0.90
427391--427427	19	1.9	19	88	0	56	5	8	5	81	0.99
430636--430692	3	19.3	3	81	3	62	59	0	36	3	1.14
437347--437446	30	3.3	29	78	4	101	35	20	6	39	1.77
437958--438048	30	3.1	28	78	12	92	37	7	23	31	1.83
441854--441884	16	1.9	16	100	0	62	51	3	0	45	1.17
441927--442006	17	4.6	17	70	22	51	53	2	0	43	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
441917--441970	21	2.6	20	78	16	65	57	1	0	40	1.09
441914--442050	52	2.6	52	85	8	174	55	2	0	41	1.17
441934--442034	13	7.9	13	69	21	63	54	0	0	43	1.13
441934--442018	27	3.2	26	75	14	84	52	1	1	44	1.16
442011--442062	10	5.0	10	72	9	50	59	1	0	38	1.08
441955--442068	16	6.8	16	77	12	104	55	2	0	41	1.20
441917--442068	32	4.8	32	75	17	115	55	2	0	41	1.19
442604--442658	22	2.6	22	75	16	53	58	3	1	36	1.26
442625--442668	14	3.1	14	80	6	54	61	4	0	34	1.16
442622--442681	27	2.2	28	82	14	72	61	5	0	33	1.17

Tables:   1   2   3   4   5