genome.fa.s339.2.7.7.80.10.50.1000.3.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: Scaffold339
Parameters: 2 7 7 80 10 50 1000
Length:  1314099

Tables:   1   2   3   4   5   6   7   8   9   

This is table  3  of  9  ( 1034 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)
299051--299126	20	3.8	20	79	8	73	28	15	14	40	1.87
301314--301346	11	2.9	11	95	4	57	87	12	0	0	0.53
302585--303720	28	39.5	28	88	3	1545	28	33	17	21	1.96
302585--303720	114	9.9	113	88	4	1587	28	33	17	21	1.96
303359--303775	28	14.1	33	76	17	84	27	30	17	23	1.97
304328--304402	20	3.8	20	78	0	87	33	13	13	40	1.83
304328--304405	40	2.0	39	87	2	111	33	12	14	39	1.84
309275--309329	11	5.1	11	70	12	51	65	1	1	30	1.13
310896--311209	50	6.4	50	77	7	232	30	22	12	35	1.90
310910--311108	99	2.0	100	83	1	247	30	22	12	34	1.91
324743--324793	23	2.2	24	82	10	61	58	9	1	29	1.41
324767--325168	73	5.6	72	77	10	358	54	9	3	31	1.51
324933--325191	139	1.9	140	86	2	378	54	10	3	31	1.51
325136--325218	30	2.8	30	87	3	105	50	9	3	36	1.53
325071--325272	101	2.0	102	90	2	318	51	10	3	33	1.54
325170--326946	73	24.5	73	77	9	1489	54	11	2	30	1.50
325210--326951	365	4.8	356	79	8	1641	55	11	2	30	1.49
325207--326941	507	3.4	500	83	6	1966	55	11	2	30	1.49
325226--326951	143	11.9	147	77	12	735	55	11	2	30	1.49
327074--327117	17	2.8	15	82	6	52	68	0	0	31	0.90
327199--327227	13	2.2	13	100	0	58	58	6	0	34	1.25
328936--328979	11	3.9	11	82	5	52	65	6	0	27	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
331143--331176	15	2.2	16	89	5	52	32	0	0	67	0.91
333338--333408	37	2.0	36	84	13	94	49	0	0	50	1.00
334197--334226	16	1.9	15	93	6	51	50	0	0	50	1.00
334945--334969	2	12.5	2	100	0	50	48	0	0	52	1.00
335009--335044	19	1.9	19	88	5	56	38	0	0	61	0.96
335547--335596	4	11.5	4	80	16	55	46	4	2	48	1.32
335547--335599	9	6.0	9	82	10	56	47	3	1	47	1.31
335827--335899	36	2.1	33	87	7	101	53	2	0	43	1.15
335827--335899	18	4.2	17	77	13	69	53	2	0	43	1.15
335827--335899	17	4.2	17	79	8	76	53	2	0	43	1.15
335926--336001	35	2.4	29	85	14	98	56	3	0	39	1.18
343636--343693	20	2.8	20	76	20	50	60	0	3	36	1.14
344207--344235	3	9.7	3	100	0	58	68	0	0	31	0.89
344673--344704	2	17.0	2	87	12	50	50	0	0	50	1.00
344617--344795	91	2.0	90	94	1	313	48	11	3	35	1.58
346636--346680	3	15.0	3	100	0	90	33	0	0	66	0.92
348280--348321	21	2.0	20	86	4	57	57	0	0	42	0.99
348535--348587	27	2.0	27	88	0	79	37	3	7	50	1.49
349375--349430	20	2.5	24	77	11	66	46	0	0	53	1.00
350251--350353	54	1.9	52	88	3	152	36	8	1	52	1.44
350409--350453	20	2.3	19	88	7	63	66	2	0	31	1.04
350513--350554	2	21.0	2	100	0	84	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)
351527--351589	30	2.1	30	91	2	101	38	0	0	61	0.96
351636--351712	30	2.6	30	89	4	120	55	1	1	41	1.16
351872--351902	16	1.9	16	93	0	53	38	0	9	51	1.35
352335--352367	16	2.0	17	94	5	59	57	0	0	42	0.98
352377--352423	17	2.5	19	77	12	53	48	0	4	46	1.21
352755--352792	20	1.9	20	89	10	60	26	2	0	71	1.00
355714--355756	2	21.5	2	100	0	86	0	48	0	51	1.00
360421--360457	2	18.5	2	100	0	74	48	0	0	51	1.00
361413--361440	13	2.2	13	100	0	56	35	0	0	64	0.94
361604--361628	4	6.2	4	100	0	50	52	48	0	0	1.00
361813--361869	29	2.0	29	86	6	80	71	1	0	26	0.95
361821--361866	14	2.9	17	75	21	55	71	2	0	26	0.97
361829--361877	16	3.2	16	78	21	52	69	0	0	30	0.89
362072--362137	2	35.5	2	71	14	52	43	1	3	51	1.26
362081--362151	34	2.0	34	86	5	97	38	1	4	56	1.28
362490--362534	19	2.2	20	84	7	56	31	2	4	62	1.27
362973--363110	64	2.1	65	90	4	217	52	9	1	36	1.43
370600--370631	15	2.0	17	88	11	50	53	0	0	46	1.00
370709--370739	16	1.9	16	93	0	53	61	0	3	35	1.12
379662--379695	17	1.9	18	88	5	52	23	2	5	67	1.26
383064--383108	22	2.0	23	83	12	58	51	0	0	48	1.00
384477--384516	16	2.4	18	80	12	50	42	0	0	57	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
385270--385299	16	1.9	16	93	6	53	36	0	0	63	0.95
385555--385587	15	2.1	16	94	5	59	42	3	0	54	1.15
385785--385828	14	3.2	13	81	12	61	52	0	0	47	1.00
386247--386287	9	4.6	9	87	0	55	70	2	0	26	0.99
386245--386286	18	2.3	18	87	0	66	73	2	0	23	0.94
387923--387959	14	2.6	14	86	4	56	18	0	0	81	0.70
388753--388840	24	3.7	23	70	18	65	38	1	4	55	1.28
388741--388797	22	2.8	20	80	12	62	42	0	3	54	1.17
389356--389401	21	2.3	20	85	10	60	43	4	0	52	1.21
389804--389843	19	2.0	20	86	13	57	62	0	0	37	0.95
389927--389972	18	2.3	20	82	17	53	32	0	2	65	1.05
389927--389972	19	2.3	20	85	10	60	32	0	2	65	1.05
390033--390083	15	3.7	14	73	21	54	60	0	0	39	0.97
390040--390088	15	3.1	17	80	14	59	63	0	0	36	0.95
391099--391136	20	2.0	20	89	5	60	36	0	0	63	0.95
391111--391152	17	2.5	17	81	18	52	35	0	0	64	0.94
391715--391758	20	2.0	23	87	12	67	52	0	2	45	1.13
391895--391933	20	2.0	20	85	10	53	48	2	0	48	1.15
393230--393280	22	2.3	23	77	16	63	54	0	0	45	0.99
394315--394344	15	1.9	16	93	6	53	36	0	6	56	1.26
399447--399498	22	2.4	22	80	0	59	71	1	0	26	0.97
399774--399953	43	4.0	43	81	12	198	25	21	8	45	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
399851--399943	29	3.4	29	74	17	108	26	22	8	41	1.82
399846--399946	52	1.9	52	95	0	184	26	22	7	42	1.81
400040--400075	15	2.5	15	91	8	58	19	19	13	47	1.83
401186--401253	22	3.2	21	80	10	68	64	14	17	2	1.40
401884--401920	9	4.0	9	89	3	56	10	2	32	54	1.49
404780--404807	9	3.1	9	100	0	56	42	0	0	57	0.99
404780--404819	18	2.2	19	86	4	55	42	2	0	55	1.13
407322--407837	154	3.4	151	74	11	458	25	14	17	42	1.88
410349--410413	30	2.1	31	85	2	87	33	6	3	56	1.39
411096--411150	12	4.6	12	72	17	51	41	0	0	58	0.98
411056--411177	35	3.3	35	80	17	117	38	0	0	60	1.02
411080--411184	39	2.7	39	80	15	121	39	0	0	59	1.11
411931--411958	13	2.2	13	100	0	56	32	7	32	28	1.84
416010--416063	27	2.0	28	89	10	85	40	0	3	55	1.17
418076--418145	36	1.9	36	94	0	122	31	10	15	42	1.80
418658--418787	65	2.0	65	95	0	233	42	1	11	44	1.50
419381--419481	32	3.1	31	80	4	112	13	15	28	41	1.86
419380--419481	16	6.3	16	77	5	98	13	16	28	41	1.87
419655--419696	20	2.1	20	86	0	57	35	0	4	59	1.19
420338--420375	2	19.0	2	100	0	76	50	0	0	50	1.00
422964--423025	22	3.2	20	74	19	53	53	0	0	46	1.00
423331--423397	24	2.8	24	88	0	107	28	0	7	64	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
424000--424039	21	1.9	21	89	0	62	50	2	0	47	1.14
426488--426530	22	2.0	22	82	13	54	53	2	2	41	1.26
435060--435098	2	20.0	2	94	5	71	48	0	0	51	1.00
436820--436865	22	2.1	21	84	4	56	69	0	21	8	1.15
437408--437454	2	23.5	2	95	0	85	46	0	2	51	1.13
441209--441234	13	2.0	13	100	0	52	38	15	15	30	1.88
441191--441255	32	2.0	32	87	6	94	40	18	13	27	1.89
442877--442924	19	2.5	20	96	3	89	14	43	31	10	1.79
445010--445035	13	2.0	13	100	0	52	38	15	15	30	1.88
446876--446950	20	3.7	20	80	3	87	34	12	14	38	1.83

Tables:   1   2   3   4   5   6   7   8   9