genome.fa.s436.2.7.7.80.10.50.1000.3.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: Scaffold436
Parameters: 2 7 7 80 10 50 1000
Length:  700632

Tables:   1   2   3   4   5   

This is table  3  of  5  ( 580 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)
285397--285429	17	1.9	17	88	11	50	30	6	15	48	1.69
286992--287024	16	2.1	16	94	0	57	36	6	6	51	1.51
287689--287719	13	2.4	13	94	0	53	35	16	9	38	1.81
290331--290375	19	2.2	20	84	7	56	35	6	0	57	1.25
291038--291148	37	3.0	36	80	11	111	28	17	18	36	1.93
291045--291155	38	2.9	38	81	11	131	28	16	18	36	1.93
292288--292867	157	3.7	156	81	4	652	46	17	9	26	1.79
293826--293882	21	2.7	21	97	0	105	33	10	19	36	1.86
293938--294005	19	3.9	19	78	21	85	35	11	14	38	1.83
293959--293983	13	1.9	13	100	0	50	36	16	16	32	1.90
293940--294002	32	2.0	32	96	0	117	34	12	15	36	1.86
294045--294070	13	2.0	13	100	0	52	30	15	15	38	1.88
294025--294091	33	2.0	33	88	0	98	25	14	16	43	1.86
296542--296610	27	2.5	27	88	2	93	24	31	21	21	1.98
296488--296880	107	3.7	105	74	10	339	27	26	14	31	1.95
296428--296766	52	6.4	52	69	16	200	29	25	12	32	1.92
296430--296767	104	3.2	103	72	12	308	29	25	12	32	1.92
296750--296826	28	2.8	28	87	0	100	23	33	19	23	1.97
296425--296877	212	2.1	212	86	2	651	27	26	13	32	1.94
296780--296983	79	2.6	79	82	2	230	24	29	16	29	1.96
296780--297014	80	2.9	76	76	8	209	25	28	14	31	1.95
304164--304504	52	6.5	52	69	14	189	29	26	12	32	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
304164--304509	104	3.3	102	71	13	265	28	26	12	32	1.92
304279--304347	27	2.5	27	88	2	93	24	31	21	21	1.98
304334--304503	52	3.3	52	79	9	195	29	23	12	34	1.91
304487--304563	28	2.8	28	87	0	100	23	33	19	23	1.97
304517--304721	82	2.6	78	82	6	225	24	29	16	29	1.96
317128--317174	9	5.6	8	80	16	51	85	10	4	0	0.74
317112--317164	12	4.3	12	90	9	72	84	9	5	0	0.76
317111--317174	17	3.8	16	79	10	65	84	9	6	0	0.78
317110--317164	13	4.4	12	84	11	67	83	10	5	0	0.79
318190--319503	59	22.8	59	88	5	1632	27	28	20	24	1.99
318190--319503	172	7.6	172	90	4	1879	27	28	20	24	1.99
318190--319503	231	5.7	229	87	6	1741	27	28	20	24	1.99
318793--318877	25	3.2	25	66	18	73	31	32	16	18	1.94
320231--320287	21	2.7	21	91	0	87	35	12	15	36	1.85
320229--320307	21	3.8	20	78	11	70	37	16	12	32	1.86
320343--320410	19	3.9	19	78	21	85	35	11	14	38	1.83
320364--320388	13	1.9	13	100	0	50	36	16	16	32	1.90
320345--320407	32	2.0	32	96	0	117	34	12	15	36	1.86
320450--320475	13	2.0	13	100	0	52	30	15	15	38	1.88
320430--320496	33	2.0	33	88	0	98	25	14	16	43	1.86
322826--323167	52	6.5	53	70	17	212	29	25	12	32	1.93
322943--323011	27	2.5	27	88	2	93	24	31	21	21	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
322831--323166	104	3.2	103	71	11	304	30	25	12	31	1.93
323151--323227	28	2.8	28	87	0	100	23	33	19	23	1.97
322829--323235	212	1.9	212	90	3	649	28	26	13	31	1.94
322889--323306	107	3.9	107	73	8	303	27	27	14	30	1.95
324402--324439	20	1.9	20	94	0	67	0	5	7	86	0.69
324401--324432	17	1.9	17	93	6	57	0	6	6	87	0.67
324897--325318	154	2.7	154	78	5	406	50	8	8	32	1.63
325209--325246	19	2.0	20	85	15	53	50	7	0	42	1.31
325040--325329	155	1.9	152	84	6	388	51	7	7	32	1.60
325655--325706	20	2.6	20	87	0	68	40	11	13	34	1.81
325760--325784	13	1.9	13	100	0	50	32	16	16	36	1.90
325740--325807	33	2.1	33	88	2	102	38	17	11	32	1.86
329419--329444	13	2.0	13	100	0	52	30	15	15	38	1.88
330143--330186	21	2.1	21	83	8	54	27	31	2	38	1.69
331822--331868	21	2.3	20	76	23	53	42	4	19	34	1.70
331989--332027	13	3.0	13	96	0	69	35	15	17	30	1.91
332013--332091	20	3.7	20	78	15	77	44	15	15	25	1.85
334107--334137	15	2.1	15	93	0	53	12	22	16	48	1.80
335941--335985	21	2.1	21	84	8	56	22	20	4	53	1.63
338216--338412	93	2.1	93	99	0	385	29	19	16	34	1.94
342001--342036	13	2.8	13	95	0	63	33	19	13	33	1.91
343875--343918	21	2.0	21	86	4	61	36	2	29	31	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
344517--344580	33	2.0	32	90	3	101	39	20	12	28	1.89
348345--348375	16	1.9	16	93	0	53	35	9	12	41	1.76
349136--349169	18	1.9	18	88	5	52	41	5	20	32	1.76
351062--351086	2	12.5	2	100	0	50	48	0	0	52	1.00
353439--353597	86	1.9	85	86	4	230	55	2	3	38	1.29
357159--357183	2	12.5	2	100	0	50	48	0	0	52	1.00
357482--357508	13	2.1	13	100	0	54	29	0	7	62	1.22
358444--358480	18	1.9	19	89	10	58	35	2	5	56	1.36
358538--358774	92	2.6	92	86	1	332	37	12	16	33	1.86
358824--358862	20	2.0	20	85	10	53	43	12	10	33	1.77
359785--359823	20	2.0	20	85	5	53	30	15	12	41	1.85
363610--363657	19	2.5	20	83	13	64	12	10	6	70	1.32
367958--368030	20	3.6	20	81	3	101	35	13	19	31	1.91
367976--368051	21	3.7	21	78	7	93	40	11	18	28	1.86
367958--368051	41	2.3	41	96	3	172	38	12	19	29	1.89
368090--368115	13	2.0	13	100	0	52	38	15	15	30	1.88
372177--372207	15	2.1	15	93	0	53	48	16	22	12	1.80
373997--374048	1	52.0	1	100	0	104	100	0	0	0	0.00
374254--374331	20	3.6	21	73	15	70	25	12	16	44	1.83
374318--374356	13	3.0	13	96	0	69	30	17	15	35	1.91
376162--376208	17	2.7	17	93	3	76	27	2	38	31	1.69
376813--376885	20	3.6	20	81	3	101	35	13	19	31	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
376831--376906	21	3.7	21	78	7	93	40	11	18	28	1.86
376813--376906	41	2.3	41	96	3	172	38	12	19	29	1.89
376945--376970	13	2.0	13	100	0	52	38	15	15	30	1.88
379163--379187	5	5.0	5	100	0	50	80	0	0	20	0.72
379284--379360	28	2.8	28	84	7	104	22	29	19	28	1.98
379346--379461	51	2.3	51	89	0	178	29	26	11	32	1.91
383722--383798	31	2.5	31	91	0	118	42	11	20	24	1.86
383785--383817	17	1.9	17	100	0	66	36	15	12	36	1.84
383946--383998	20	2.7	20	96	0	97	43	9	15	32	1.78
384027--384054	13	2.2	13	100	0	56	28	14	14	42	1.84
385324--385375	20	2.7	20	90	3	79	44	13	13	28	1.82
385891--385938	25	2.0	24	84	12	62	27	31	12	29	1.93
385954--386132	96	1.9	97	86	1	261	28	26	11	32	1.92
392814--393135	80	4.1	80	80	7	327	26	29	11	32	1.91
392827--393155	160	2.1	160	82	5	398	26	28	10	34	1.90
398510--398555	21	2.2	20	81	11	58	34	17	4	43	1.69
399397--399422	13	2.0	13	100	0	52	38	15	15	30	1.88
401643--401687	22	2.1	21	84	8	56	55	4	17	22	1.60
403491--403521	15	2.1	15	93	0	53	48	16	22	12	1.80
405563--405600	13	2.9	13	96	0	67	31	18	15	34	1.92
405721--405767	21	2.3	21	79	20	55	34	19	4	42	1.70
405723--405765	20	2.2	19	84	16	52	32	18	4	44	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
408108--408133	13	2.0	13	100	0	52	38	15	15	30	1.88
410540--410805	132	2.0	132	99	0	523	35	10	14	39	1.81
410833--410913	20	4.1	20	83	4	85	40	12	17	29	1.86
410943--411007	21	3.6	19	73	26	70	44	15	12	27	1.82
410961--410986	13	2.0	13	100	0	52	38	15	15	30	1.88
410943--411007	34	2.0	33	93	6	114	44	15	12	27	1.82
412400--412798	166	2.4	165	79	8	384	30	11	7	50	1.66
413309--413347	11	3.7	10	86	10	51	82	2	15	0	0.79
415625--416552	167	5.6	163	75	9	487	30	11	8	49	1.68
415786--416600	167	4.9	164	77	8	654	30	11	8	49	1.69

Tables:   1   2   3   4   5