genome.fa.s439.2.7.7.80.10.50.1000.3.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: Scaffold439
Parameters: 2 7 7 80 10 50 1000
Length:  1094049

Tables:   1   2   3   4   5   6   7   

This is table  3  of  7  ( 799 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)
322723--322767	20	2.2	20	96	0	81	33	17	8	40	1.81
324964--325582	208	3.0	208	92	0	1008	29	18	10	42	1.83
338823--338866	20	2.1	22	83	8	56	70	4	9	15	1.30
338819--339122	166	1.8	167	87	2	461	55	6	7	29	1.53
338988--339040	21	2.4	22	81	9	72	69	0	3	26	1.05
338819--339146	167	2.0	165	85	2	451	54	7	7	30	1.56
338768--339261	165	3.0	166	81	5	480	52	8	10	29	1.64
341467--341506	20	2.0	20	100	0	80	35	20	10	35	1.86
341562--341612	19	2.6	20	87	3	68	37	13	15	33	1.87
341603--341627	13	1.9	13	100	0	50	32	16	16	36	1.90
342642--342667	13	2.0	13	100	0	52	30	15	15	38	1.88
345206--345282	20	3.6	20	73	19	66	44	15	12	27	1.83
347299--347329	15	2.1	15	93	0	53	12	22	16	48	1.80
351370--351395	13	2.0	13	100	0	52	30	15	15	38	1.88
351350--351413	32	2.0	33	87	3	94	28	14	17	40	1.88
351739--351798	30	2.0	30	96	0	111	40	21	6	31	1.79
355066--355099	12	2.9	11	91	8	50	88	8	2	0	0.62
355064--355113	14	3.7	13	86	5	64	88	6	6	0	0.65
355064--355116	19	2.8	19	82	5	63	86	5	7	0	0.69
355064--355116	9	5.9	9	81	14	56	86	5	7	0	0.69
355064--355113	13	3.8	12	84	12	55	88	6	6	0	0.65
356181--356426	55	4.4	54	81	9	269	28	25	21	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
356180--356426	110	2.2	110	82	5	298	27	25	21	25	1.99
356086--356575	265	1.9	259	86	4	705	25	26	20	27	1.99
356290--356739	149	3.0	150	84	6	550	25	26	19	28	1.99
356616--356803	61	3.1	60	86	5	238	22	27	18	31	1.97
356811--356938	42	3.0	42	77	12	118	18	26	14	39	1.90
356956--357052	40	2.5	39	83	8	108	18	26	10	44	1.82
357654--357683	13	2.3	13	94	0	51	33	16	10	40	1.82
357699--357752	19	2.8	20	86	11	76	25	16	14	42	1.87
357735--357764	13	2.3	13	94	0	51	26	16	16	40	1.90
360039--360181	50	2.8	51	76	2	162	30	23	12	33	1.92
360170--360241	28	2.6	28	84	0	99	26	33	15	25	1.95
360273--360346	28	2.6	28	81	8	89	22	28	20	28	1.99
360119--360396	108	2.6	107	81	5	328	28	25	13	32	1.93
360332--360449	51	2.3	50	84	9	150	31	23	11	33	1.91
360305--360548	131	1.9	130	84	5	332	28	23	13	34	1.93
362655--362684	13	2.3	13	100	0	60	40	16	13	30	1.87
362732--362821	29	3.0	28	78	13	99	37	16	14	31	1.89
362782--362806	13	1.9	13	100	0	50	32	16	16	36	1.90
362734--362826	32	3.0	33	82	13	110	37	16	13	32	1.88
365423--365673	83	3.0	84	81	5	271	31	21	9	37	1.85
369336--369386	19	2.6	20	90	6	86	39	7	0	52	1.30
371452--371528	20	3.8	20	78	10	86	31	12	11	44	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
383712--383761	20	2.5	20	100	0	100	36	16	10	38	1.82
383775--383852	40	2.0	39	87	2	111	39	12	12	34	1.82
383778--383852	20	3.8	20	76	0	87	40	12	13	34	1.81
384431--386107	55	29.4	57	80	10	882	23	16	32	27	1.95
384492--386134	28	57.9	28	83	6	1279	23	15	32	27	1.95
384612--386148	82	18.1	82	81	8	1146	23	15	32	27	1.95
385038--386153	450	2.5	450	92	0	1846	25	15	32	26	1.95
385039--386148	27	39.7	27	84	4	1076	24	15	32	26	1.95
387485--387528	16	2.8	16	79	10	54	4	15	11	68	1.36
394063--394092	11	2.7	11	100	0	60	10	0	26	63	1.26
394577--394651	20	3.8	20	78	0	78	40	12	14	33	1.83
394574--394651	40	2.0	39	87	2	111	39	12	14	33	1.84
395741--395814	20	3.7	19	80	7	85	31	16	12	40	1.85
398109--398294	102	1.8	102	91	0	309	28	25	11	34	1.91
398111--398307	51	3.9	50	73	5	162	28	24	10	35	1.89
398109--398331	102	2.2	102	85	1	286	28	26	12	33	1.92
398314--398387	28	2.6	28	79	10	89	22	31	20	25	1.98
398371--398497	51	2.5	50	81	10	145	30	26	10	32	1.90
398499--398611	52	2.2	51	80	4	120	28	27	14	30	1.95
411032--411108	1	77.0	1	71	0	55	85	9	5	0	0.73
411042--411095	16	3.3	16	81	2	63	85	11	3	0	0.73
411032--411108	11	6.8	11	80	11	84	85	9	5	0	0.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
412105--412503	55	6.9	55	82	10	442	27	27	20	25	1.99
412074--412500	116	3.7	115	84	8	503	26	26	19	26	1.99
412223--412308	27	3.1	27	61	9	66	27	25	19	26	1.99
412074--412503	61	7.4	59	81	10	485	26	26	20	26	1.99
412078--412503	171	2.4	174	87	5	581	27	27	20	25	1.99
412596--412695	42	2.4	42	81	8	116	18	29	11	42	1.84
413433--413458	13	2.0	13	100	0	52	30	15	15	38	1.88
413497--413610	20	5.7	20	90	4	160	27	16	14	42	1.86
415898--416079	51	3.6	51	71	7	163	27	24	12	35	1.92
415935--416275	51	6.6	52	70	13	193	29	24	12	33	1.92
415898--416275	102	3.7	102	76	8	325	28	24	12	33	1.92
418685--418751	33	2.0	33	85	5	91	35	16	13	34	1.88
425390--425462	32	2.3	32	90	0	110	36	10	16	35	1.84
425479--425520	21	2.0	21	95	0	75	42	7	19	30	1.78
428040--428108	28	2.5	28	90	2	104	24	28	18	27	1.98
428067--428226	79	2.0	78	82	5	189	29	22	15	33	1.94
431664--431712	19	2.5	20	90	3	73	36	12	18	32	1.88
432943--433114	20	8.7	20	67	24	91	29	14	13	41	1.85
432960--432990	13	2.4	13	100	0	62	29	16	16	38	1.90
433037--433075	13	3.2	13	78	14	55	30	12	15	41	1.85
435445--435588	51	2.8	51	79	0	171	31	22	11	34	1.89
435575--435648	28	2.6	28	89	0	103	22	32	20	24	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
435687--435752	28	2.4	27	87	12	98	25	31	12	30	1.92
435563--435834	107	2.5	106	82	5	309	26	25	14	33	1.94
437683--437764	29	2.8	29	86	3	119	36	4	23	35	1.76
438628--438673	17	2.7	17	82	0	56	45	13	4	36	1.63
443517--443571	29	1.9	30	85	7	78	58	9	3	29	1.46
450114--450213	34	2.9	34	88	8	141	36	10	24	30	1.88
451792--451831	20	2.0	20	85	5	53	62	0	15	22	1.32
451828--451876	21	2.4	19	78	18	53	63	8	10	18	1.50
453997--454052	25	2.2	26	84	9	71	50	1	26	21	1.59
454707--454771	33	2.0	33	84	6	87	35	13	12	38	1.83
455284--455749	233	2.0	232	93	0	797	33	14	19	33	1.92
456207--456257	2	25.5	2	100	0	102	50	0	0	49	1.00
457327--457365	19	2.1	19	100	0	78	56	0	0	43	0.99
459436--459473	17	2.2	17	86	13	51	31	0	13	55	1.38
465704--465739	15	2.4	15	90	0	54	41	2	27	27	1.70
466049--466090	7	5.9	7	78	15	50	85	0	2	11	0.68
466047--466130	8	10.5	8	72	12	50	80	0	9	9	0.89
466048--466134	39	2.3	37	84	4	102	81	0	9	9	0.87
466048--466091	8	5.9	8	84	10	58	86	0	2	11	0.66
466048--466134	9	9.2	9	71	14	50	81	0	9	9	0.87
466085--466152	28	2.3	31	85	10	88	76	1	11	10	1.09
466085--466153	32	2.4	28	85	11	86	75	1	11	11	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
468801--468850	16	3.2	16	80	8	59	62	4	6	28	1.37
480387--480435	19	2.4	19	80	13	53	30	20	4	44	1.70
486687--486712	13	2.0	13	100	0	52	69	0	15	15	1.20
486554--486829	141	2.0	141	100	0	552	38	11	25	24	1.89
488708--489453	42	17.7	42	84	4	905	13	29	18	38	1.89
488708--489453	127	5.9	127	84	5	838	13	29	18	38	1.89
489748--489794	11	4.1	11	76	17	51	76	2	0	21	0.89
489748--489795	12	4.1	12	75	5	53	77	2	0	20	0.88
491449--491503	27	2.0	27	82	6	67	54	5	16	23	1.63
496301--496345	14	3.2	14	80	0	54	55	6	0	37	1.26

Tables:   1   2   3   4   5   6   7