genome.fa.s200.2.7.7.80.10.50.1000.3.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: Scaffold200
Parameters: 2 7 7 80 10 50 1000
Length:  649609

Tables:   1   2   3   4   5   

This is table  3  of  5  ( 492 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)
326537--326594	10	5.9	10	76	9	57	81	13	3	1	0.91
327729--327774	10	4.7	10	78	5	58	84	2	13	0	0.71
327729--327774	19	2.4	19	89	10	67	84	2	13	0	0.71
333614--333658	21	2.1	21	84	8	56	53	4	20	22	1.63
337509--337586	20	3.7	20	74	15	75	26	15	15	42	1.87
337710--337756	21	2.3	21	79	20	55	34	19	4	42	1.70
337712--337754	20	2.2	19	84	16	52	32	18	4	44	1.71
340140--340165	13	2.0	13	100	0	52	38	15	15	30	1.88
343283--343530	124	2.0	124	94	0	433	33	16	27	22	1.95
343698--343749	21	2.5	21	75	9	52	59	3	9	26	1.46
344840--344876	19	1.9	19	94	0	65	43	10	8	37	1.69
347380--347404	13	1.9	13	100	0	50	40	16	8	36	1.77
347935--348028	34	2.7	35	81	9	111	34	10	25	29	1.90
348550--348607	23	2.6	24	81	10	61	63	18	5	12	1.46
349436--349531	33	2.9	33	84	7	122	9	21	22	45	1.80
349636--349727	32	2.7	34	80	6	89	9	14	10	65	1.48
349671--349746	32	2.2	32	80	15	82	9	17	10	63	1.51
349753--349832	39	2.1	39	88	4	117	12	21	10	56	1.65
351007--351038	15	2.1	15	100	0	64	18	6	25	50	1.70
350893--351123	125	1.9	124	80	6	270	31	9	9	48	1.68
351190--351239	23	2.2	23	82	7	57	48	18	0	34	1.48
352938--352963	13	2.0	13	100	0	52	30	15	15	38	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
352918--352981	32	2.0	33	90	3	103	28	10	15	45	1.80
353033--353088	20	2.8	20	89	5	78	28	17	16	37	1.91
357608--357638	15	2.1	15	93	0	53	12	22	16	48	1.80
361715--361740	13	2.0	13	100	0	52	30	15	15	38	1.88
361695--361758	32	2.0	33	93	3	112	28	12	15	43	1.83
361695--361758	19	3.6	19	72	25	68	28	12	15	43	1.83
363163--364272	156	7.2	153	73	9	726	25	17	20	36	1.94
363703--364275	154	3.7	153	78	6	483	25	16	20	37	1.94
363247--364068	454	1.8	454	86	3	1199	25	17	20	36	1.94
364951--364975	13	1.9	13	100	0	50	32	16	16	36	1.90
364930--364993	33	2.0	32	87	3	92	28	14	17	40	1.88
372529--372592	17	3.9	16	80	15	69	82	12	4	0	0.81
372539--372652	12	9.8	11	73	13	77	79	5	12	2	0.99
372574--372614	21	2.0	21	85	0	55	80	2	14	2	0.92
372541--372652	6	18.2	6	73	15	68	79	5	12	2	1.00
372598--372648	17	2.9	17	80	11	59	76	1	15	5	1.07
372879--372915	19	1.9	19	94	0	65	75	0	18	5	0.99
373195--373491	112	2.7	112	77	9	246	30	16	15	38	1.89
373775--373976	87	2.3	88	82	2	246	22	18	14	44	1.86
373787--373925	44	3.2	44	70	2	118	23	17	14	44	1.85
374416--374635	89	2.4	90	80	8	234	28	26	15	29	1.96
374943--375049	42	2.5	41	83	5	133	21	25	15	37	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
375019--375153	42	3.2	41	74	5	117	20	30	17	32	1.95
375279--376099	83	9.8	84	71	7	432	20	30	13	35	1.91
375280--376052	335	2.3	335	80	4	851	20	30	13	35	1.91
377467--378307	165	5.1	165	80	6	762	28	10	9	51	1.68
377501--378208	328	2.1	330	80	5	824	28	10	8	52	1.66
377501--378299	328	2.4	328	79	7	814	28	10	9	51	1.68
378520--378573	13	4.0	14	72	15	51	35	0	1	62	1.06
379167--379193	2	13.5	2	100	0	54	51	0	0	48	1.00
380424--381929	156	9.7	153	74	8	994	25	17	19	37	1.93
380423--381928	311	4.9	308	74	9	1046	25	17	19	37	1.93
380423--381871	467	3.1	466	84	3	1873	25	17	19	37	1.93
383721--383831	41	2.7	41	71	1	105	45	16	20	18	1.86
383729--383923	42	4.7	41	74	6	135	41	15	24	18	1.90
383826--384591	42	18.3	42	72	7	387	38	15	27	18	1.91
384497--384614	42	2.8	42	82	5	123	41	14	27	16	1.87
384670--384811	42	3.4	41	77	2	142	38	14	28	17	1.90
384673--384866	42	4.7	42	72	10	130	38	16	27	17	1.91
386426--386463	15	2.6	14	84	8	58	21	0	0	78	0.74
391072--391142	19	3.6	19	92	3	106	42	11	15	30	1.82
393587--393715	51	2.5	50	85	3	177	27	24	12	35	1.91
393651--393902	79	3.2	78	80	9	264	24	27	15	32	1.95
400078--400631	60	9.3	60	83	7	634	25	26	19	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
400463--400631	55	2.8	63	79	7	174	27	27	18	26	1.98
400230--400631	118	3.4	113	84	7	475	26	27	18	27	1.98
400828--400942	57	2.0	57	87	0	167	39	12	20	28	1.88
400893--401092	97	2.1	96	80	2	231	33	16	22	28	1.95
403248--403464	69	3.1	69	94	0	362	31	18	10	39	1.85
407308--407448	52	2.7	52	93	2	239	29	17	18	34	1.94
407437--407461	13	1.9	13	100	0	50	36	16	16	32	1.90
407526--407550	13	1.9	13	100	0	50	32	16	16	36	1.90
407504--407570	33	2.0	33	88	0	98	40	13	11	34	1.81
408359--408753	171	2.3	171	94	1	682	36	14	24	24	1.93
408729--408797	22	3.2	22	63	19	54	30	17	26	26	1.97
408667--409478	49	16.7	49	83	3	1002	30	17	26	25	1.97
408668--409478	98	8.4	98	93	2	1295	30	17	26	25	1.97
409473--409542	33	2.1	35	94	5	126	20	17	37	25	1.94
409547--409683	35	3.9	34	79	8	159	39	12	29	18	1.87
409657--409710	27	2.0	27	92	0	90	25	14	37	22	1.93
409617--409738	61	2.0	60	84	7	158	33	13	32	19	1.91
409579--409906	97	3.3	98	80	9	314	33	12	33	19	1.90
409547--410215	34	20.9	33	77	15	417	31	13	34	20	1.91
409743--410120	98	3.9	97	81	11	376	29	14	35	20	1.92
409980--410058	27	2.9	27	98	0	149	17	17	40	24	1.91
410015--410072	27	2.1	27	80	0	62	29	12	37	20	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
410071--410185	30	3.9	30	84	10	164	25	13	37	23	1.92
410065--410183	58	2.1	58	95	0	211	27	13	36	22	1.92
409745--410180	125	3.4	125	83	8	510	28	13	35	21	1.92
411148--411187	15	2.5	16	88	8	55	2	10	0	87	0.63
411148--411187	18	2.2	18	86	0	53	2	10	0	87	0.63
418433--418573	52	2.7	52	93	2	239	29	17	18	34	1.94
418562--418586	13	1.9	13	100	0	50	36	16	16	32	1.90
418651--418675	13	1.9	13	100	0	50	32	16	16	36	1.90
418629--418695	33	2.0	33	88	0	98	40	13	11	34	1.81
421461--421573	51	2.2	51	96	0	208	29	8	30	31	1.88
421514--422112	79	7.6	78	80	5	537	36	13	23	26	1.92
422660--423008	59	5.8	61	85	2	431	29	19	24	26	1.99
422687--422980	120	2.4	119	87	2	417	28	21	23	26	1.99
423857--424040	63	2.9	63	80	8	212	18	19	39	22	1.92
426313--426338	13	2.0	13	100	0	52	30	15	15	38	1.88
427036--427079	21	2.1	21	83	8	54	25	31	4	38	1.76
428883--428908	13	2.0	13	100	0	52	38	15	15	30	1.88
430986--431016	15	2.1	15	93	0	53	12	22	16	48	1.80
432833--432877	21	2.1	21	84	8	56	22	20	4	53	1.63
435106--435131	13	2.0	13	100	0	52	30	15	15	38	1.88
435170--435242	20	3.6	20	81	9	76	30	16	13	39	1.87
435190--435245	20	2.8	20	89	5	78	30	16	14	39	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
446442--446890	79	5.7	79	78	4	359	36	12	22	27	1.91
452594--452732	67	2.0	69	95	2	255	37	13	15	33	1.87
453045--453147	48	2.2	46	83	8	127	21	19	22	36	1.95
457653--458153	154	3.2	156	74	8	378	40	15	15	28	1.88
458340--458373	18	2.0	18	88	11	54	35	0	0	64	0.94
459240--459291	27	1.9	26	81	14	61	57	9	1	30	1.42
461523--461575	27	2.0	27	96	0	97	24	18	32	24	1.97
464024--464090	33	2.0	33	88	0	98	43	16	14	25	1.86
464045--464070	13	2.0	13	100	0	52	38	15	15	30	1.88
464110--464177	19	3.9	18	76	23	83	38	14	11	35	1.83

Tables:   1   2   3   4   5