genome.fa.s176.2.7.7.80.10.50.1000.3.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: Scaffold176
Parameters: 2 7 7 80 10 50 1000
Length:  960511

Tables:   1   2   3   4   5   6   

This is table  3  of  6  ( 647 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)
369539--369591	20	2.7	20	82	5	63	22	37	30	9	1.86
370779--370805	14	1.9	14	100	0	54	44	0	14	40	1.46
371548--371612	33	2.0	32	85	11	87	36	15	16	30	1.90
374299--374349	16	3.2	15	81	10	57	13	5	27	52	1.63
374338--374399	16	3.8	17	74	6	65	12	11	25	50	1.74
374341--374399	17	3.6	17	75	6	59	11	10	27	50	1.71
374325--374400	33	2.3	33	88	0	107	13	9	26	51	1.70
378550--378809	111	2.3	110	79	5	281	32	16	10	41	1.82
378721--378883	84	1.9	84	81	4	195	26	17	12	42	1.85
378847--378908	28	2.2	30	75	16	69	27	24	6	41	1.79
384635--384693	13	4.1	13	75	23	55	32	16	15	35	1.90
384649--384711	19	3.6	19	74	24	75	33	19	12	34	1.89
384636--384711	32	2.4	32	95	0	134	32	18	14	34	1.91
384648--384732	19	4.7	19	73	19	74	30	17	14	37	1.89
387988--388034	20	2.3	21	92	3	78	36	10	19	34	1.86
393417--393441	13	1.9	13	100	0	50	36	16	16	32	1.90
393472--393525	20	2.7	19	83	11	65	31	16	18	33	1.93
395116--395146	3	10.3	3	92	0	53	35	0	35	29	1.58
395672--395712	21	2.0	21	85	9	57	39	12	9	39	1.76
395748--395821	20	3.8	20	77	8	73	43	16	13	27	1.85
395749--395803	20	2.8	19	83	5	74	41	16	14	27	1.87
395791--395927	53	2.6	53	96	1	247	37	18	17	27	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
395951--395981	10	3.1	10	90	0	53	22	29	6	41	1.78
395969--396030	21	2.9	22	85	4	90	27	24	11	37	1.89
396058--396096	13	3.0	13	92	0	69	30	15	17	35	1.91
399849--399873	13	1.9	13	100	0	50	36	16	16	32	1.90
405549--405593	20	2.2	20	82	17	58	28	22	0	48	1.50
405851--405896	20	2.3	20	82	17	60	30	21	0	47	1.51
405502--406100	302	2.0	302	97	0	1135	32	23	6	37	1.80
408338--408389	13	4.5	13	71	26	53	30	13	19	36	1.90
408321--408389	33	2.1	32	86	10	95	28	14	20	36	1.92
413855--414367	162	3.2	162	93	1	854	42	11	11	34	1.78
415276--415327	19	2.5	20	82	14	61	9	19	0	71	1.13
415317--415352	15	2.3	15	90	4	54	0	33	0	66	0.92
415631--415673	4	10.0	4	80	14	50	76	0	0	23	0.78
415631--415674	17	2.5	17	92	3	70	77	0	0	22	0.77
415631--415674	9	5.0	9	86	13	65	77	0	0	22	0.77
415631--415673	13	3.3	12	87	12	59	76	0	0	23	0.78
415863--417366	166	9.1	165	82	6	1558	50	7	12	29	1.67
415863--417292	660	2.2	660	87	2	2072	51	7	12	28	1.67
424737--424855	35	3.4	35	77	11	127	19	22	14	43	1.87
424803--424953	42	3.5	42	76	10	114	17	20	13	48	1.81
424894--424980	42	2.0	43	82	6	106	18	21	11	48	1.79
424683--425074	199	2.0	199	87	1	561	18	21	16	43	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
425002--425158	42	3.7	42	81	5	174	15	24	15	43	1.86
425013--425176	85	2.0	83	83	7	206	17	24	14	43	1.86
425297--425850	31	16.9	32	72	10	232	29	29	24	17	1.97
425297--425481	68	2.7	68	77	3	201	30	28	22	18	1.97
425525--425618	37	2.5	38	82	5	120	28	27	22	21	1.99
425550--425634	37	2.3	37	83	0	107	27	29	24	18	1.98
425559--425864	68	4.7	68	77	10	264	29	29	25	16	1.96
425393--425727	167	2.0	167	79	5	365	27	27	24	20	1.99
425753--425864	37	3.2	36	81	14	153	32	29	25	13	1.93
430778--431074	151	2.0	148	79	8	316	25	19	18	36	1.94
443585--443707	46	2.6	47	74	5	133	20	19	18	41	1.91
443793--444023	44	5.2	43	74	13	155	22	21	15	41	1.90
443643--444004	131	2.7	134	79	10	375	20	20	16	41	1.90
444064--444245	83	2.2	84	83	1	222	18	20	13	46	1.83
444550--444574	13	1.9	13	100	0	50	36	16	16	32	1.90
444530--444591	32	1.9	33	93	3	108	35	11	19	33	1.87
444529--444612	19	4.7	19	77	18	90	34	10	17	36	1.85
444665--444689	13	1.9	13	100	0	50	32	16	16	36	1.90
449539--449567	5	6.0	5	92	8	51	20	0	0	79	0.74
449539--449567	14	2.0	15	93	6	51	20	0	0	79	0.74
450340--450464	40	3.1	40	95	2	216	24	4	26	45	1.70
450827--450860	10	3.4	10	95	0	59	76	0	0	23	0.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
450997--451030	14	2.4	14	95	0	59	70	0	2	26	1.01
453872--453924	19	2.8	20	82	8	74	33	15	16	33	1.90
458052--458115	31	2.1	31	100	0	128	34	15	18	31	1.93
458099--458233	52	2.6	52	78	1	155	40	14	15	29	1.86
458293--458343	20	2.5	21	93	3	86	35	19	5	39	1.76
459103--459324	52	4.3	52	75	4	162	36	14	21	26	1.93
459423--459629	97	2.1	97	100	0	414	26	13	27	32	1.94
459417--459646	32	7.1	32	72	5	176	27	15	26	30	1.96
459643--460410	29	26.2	29	76	9	496	32	14	27	26	1.94
459643--460422	117	6.6	118	74	9	562	32	14	27	26	1.94
459837--459930	31	2.9	33	80	13	124	37	12	26	23	1.91
459837--460292	148	3.1	146	82	7	392	33	14	26	25	1.94
459656--460409	59	12.8	58	75	9	494	32	14	27	26	1.94
464432--464469	20	2.1	18	85	14	51	44	7	23	23	1.79
469090--469227	50	2.7	52	79	3	163	42	11	13	33	1.80
469264--469320	20	2.8	20	89	2	78	35	15	10	38	1.82
470082--470437	52	6.8	52	77	6	292	37	16	22	24	1.93
470113--470437	156	2.1	156	77	9	342	36	16	22	24	1.94
470518--470687	32	5.5	32	82	3	109	27	13	28	30	1.94
470611--471231	29	20.9	29	77	6	404	30	13	28	27	1.94
470611--471230	89	6.9	87	73	11	431	30	12	28	27	1.93
472669--472708	13	2.9	14	85	7	55	0	7	12	80	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
478667--478707	21	2.1	19	86	13	57	41	17	19	21	1.90
479570--479707	53	2.6	53	82	4	165	44	10	14	30	1.79
485977--486358	162	2.4	162	92	0	633	41	12	10	35	1.77
489446--489574	52	2.5	52	92	0	213	31	17	16	34	1.92
489446--489594	52	2.9	51	86	4	201	32	16	16	33	1.92
489583--489607	13	1.9	13	100	0	50	36	16	16	32	1.90
489648--489714	33	2.0	33	85	0	89	40	13	11	34	1.81
490491--490617	67	1.9	68	86	1	184	38	12	25	23	1.90
490622--490948	43	6.9	49	82	10	410	30	18	25	24	1.98
490622--490948	140	2.3	143	89	3	498	30	18	25	24	1.98
490946--491149	33	6.3	33	90	6	310	19	17	34	28	1.95
490950--491149	65	3.0	64	90	5	310	20	17	35	27	1.95
490946--491150	98	2.1	97	93	1	349	19	17	34	28	1.95
491153--491356	34	6.4	33	74	18	189	32	13	33	20	1.91
491189--491402	61	3.3	64	84	7	265	29	13	34	21	1.92
491284--491343	27	2.2	27	93	0	102	30	13	36	20	1.90
492299--492352	21	2.6	21	96	0	99	3	22	25	48	1.67
492396--492447	26	2.0	26	81	7	61	0	13	7	78	0.94
492396--492471	36	2.2	34	81	11	91	0	14	7	77	0.98
492711--492767	10	5.6	11	73	22	54	0	0	14	85	0.59
492711--492764	28	1.9	28	92	7	92	0	0	14	85	0.61
492721--492768	11	4.5	11	81	2	62	0	0	12	87	0.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
499629--499754	52	2.4	52	94	0	216	30	16	17	35	1.92
499629--499777	52	2.9	51	87	4	201	31	16	17	34	1.93
499766--499790	13	1.9	13	100	0	50	36	16	16	32	1.90
499829--499886	20	3.0	20	84	2	73	46	13	10	29	1.77
501239--501281	13	3.4	13	84	9	54	0	27	0	72	0.85
501562--501605	17	2.5	17	89	10	63	75	0	0	25	0.81
501562--501605	9	5.0	9	81	13	56	75	0	0	25	0.81
501829--503298	165	8.9	166	83	6	1652	50	7	12	28	1.68
502080--502115	19	1.9	19	88	5	56	50	2	13	33	1.57
507361--507386	13	2.0	13	100	0	52	30	15	15	38	1.88

Tables:   1   2   3   4   5   6