genome.fa.s99.2.7.7.80.10.50.1000.3.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: Scaffold99
Parameters: 2 7 7 80 10 50 1000
Length:  1377724

Tables:   1   2   3   4   5   6   7   8   9   10   

This is table  3  of  10  ( 1130 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)
265735--265883	52	2.9	52	96	0	271	26	20	18	34	1.95
265800--265883	20	4.6	20	65	31	71	23	20	20	35	1.96
267150--267175	13	2.0	13	100	0	52	30	15	15	38	1.88
269730--269768	13	3.0	13	96	0	69	38	15	12	33	1.85
271847--271877	15	2.1	15	93	0	53	12	22	16	48	1.80
275943--275968	13	2.0	13	100	0	52	30	15	15	38	1.88
280041--280083	15	2.9	14	83	10	50	79	4	13	2	1.00
281028--281595	61	9.4	61	80	7	604	26	26	18	28	1.98
281579--281743	41	3.9	41	77	10	163	20	24	13	41	1.88
281579--281718	42	3.3	43	82	4	144	22	24	13	40	1.90
286692--286735	20	2.1	22	91	8	74	29	9	20	40	1.83
286790--286815	13	2.0	13	100	0	52	30	15	15	38	1.88
286769--286833	32	2.0	34	87	6	98	27	13	16	41	1.87
289383--289421	13	3.0	13	92	0	60	35	12	17	33	1.88
295462--295505	20	2.1	22	87	8	65	31	9	18	40	1.81
295560--295585	13	2.0	13	100	0	52	30	15	15	38	1.88
295539--295603	32	2.0	34	87	6	98	27	13	16	41	1.87
296469--296519	19	2.8	18	85	5	68	35	7	7	49	1.61
299785--300043	88	2.9	89	81	7	312	30	25	15	28	1.96
300577--300601	13	1.9	13	100	0	50	32	16	16	36	1.90
300684--300840	63	2.5	63	85	2	199	35	14	15	35	1.87
301220--301309	31	2.9	30	74	8	83	32	10	24	33	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
304092--304164	32	2.3	32	86	6	96	42	12	12	32	1.80
304112--304175	32	2.0	32	100	0	128	37	12	12	37	1.81
304120--304184	19	3.7	19	71	23	70	36	13	10	38	1.80
304114--304182	32	2.2	32	94	0	120	40	14	10	34	1.80
307326--307423	34	2.9	34	87	4	126	33	13	23	29	1.93
307323--307423	36	2.9	34	85	7	132	33	12	24	28	1.92
307943--308192	35	7.1	35	85	2	315	19	20	14	45	1.85
308195--308282	46	1.9	46	92	0	149	20	30	11	37	1.88
308344--308461	41	2.9	41	77	8	98	18	25	14	41	1.88
308390--308898	41	12.1	41	71	10	251	19	23	14	42	1.88
308455--308722	49	6.0	49	69	21	174	21	23	12	42	1.87
308412--308738	89	3.8	89	79	8	375	20	22	13	42	1.87
308501--308898	41	9.6	41	72	9	252	20	22	14	42	1.88
308455--308847	171	2.3	171	89	1	608	20	23	13	42	1.88
308671--308904	40	5.8	41	72	6	145	20	20	15	43	1.88
309191--309314	51	2.4	51	89	0	185	29	10	12	47	1.74
313018--313074	21	2.7	21	97	0	105	33	10	19	36	1.86
313130--313197	19	3.9	19	72	21	67	36	10	13	39	1.78
313132--313194	32	2.0	32	90	0	99	36	11	14	38	1.81
313237--313262	13	2.0	13	100	0	52	30	15	15	38	1.88
313217--313283	33	2.0	33	88	0	98	25	14	16	43	1.86
315620--316016	52	7.6	51	71	11	232	29	25	12	32	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
316004--316075	28	2.6	28	88	0	99	22	34	19	23	1.96
315626--316126	263	1.9	263	89	2	774	27	26	13	31	1.94
316029--316232	78	2.6	78	82	2	221	25	29	16	28	1.97
327473--327532	1	60.0	1	81	0	66	90	6	3	0	0.56
327472--327532	12	5.5	11	85	14	81	88	8	3	0	0.61
327473--327533	27	2.3	27	88	8	90	88	8	3	0	0.61
328518--329152	61	10.9	61	81	9	711	26	31	19	23	1.98
328493--329103	176	3.5	175	83	7	812	26	31	19	23	1.98
328518--329104	237	2.5	233	90	3	907	25	31	19	23	1.98
328494--329152	55	11.4	54	78	13	570	26	30	19	23	1.98
329935--330002	19	3.9	19	78	21	85	35	10	14	39	1.80
329937--329997	32	1.9	32	96	0	113	34	9	16	39	1.82
330042--330067	13	2.0	13	100	0	52	30	15	15	38	1.88
330022--330088	33	2.0	33	88	0	98	25	14	16	43	1.86
332428--332558	51	2.5	53	81	8	169	31	25	10	32	1.90
332600--332821	52	4.3	51	80	2	228	28	25	13	32	1.93
332433--332821	52	7.4	50	69	14	205	29	26	13	31	1.93
332809--332880	28	2.6	28	88	0	99	22	34	19	23	1.96
332431--332931	263	1.9	263	90	2	801	27	27	13	30	1.94
332755--332959	107	1.9	108	81	3	252	26	28	16	28	1.97
332834--333037	79	2.6	79	81	1	221	25	30	15	28	1.96
334558--334585	13	2.2	13	100	0	56	39	17	14	28	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
334635--334705	20	3.6	19	85	9	81	35	15	18	30	1.92
336714--336759	20	2.3	20	96	0	83	21	30	32	15	1.94
343362--343410	13	4.2	13	73	24	54	38	18	10	32	1.84
343362--343431	33	2.1	34	86	7	99	37	20	10	32	1.85
343460--343514	19	2.8	21	86	10	80	34	14	16	34	1.89
343500--343526	13	2.1	13	100	0	54	40	14	14	29	1.86
343481--343545	32	2.0	32	90	3	103	38	15	18	27	1.91
345088--345464	140	2.7	142	86	3	512	33	11	10	44	1.75
345780--346107	154	2.1	156	82	7	402	24	15	18	41	1.89
347320--347345	13	2.0	13	100	0	52	30	15	15	38	1.88
348049--348092	21	2.1	21	83	8	54	25	31	4	38	1.76
349729--349775	21	2.3	21	82	10	62	44	4	19	31	1.70
351400--351944	34	15.9	35	84	10	659	19	33	12	34	1.89
351400--351944	70	8.0	70	86	7	641	19	33	12	34	1.89
351946--352151	33	6.2	33	90	5	319	27	36	17	18	1.93
351946--352150	65	3.1	65	88	8	315	27	36	17	18	1.93
351946--352151	98	2.1	100	89	7	330	27	36	17	18	1.93
352151--352725	49	11.7	49	85	6	747	25	26	17	30	1.97
352146--352725	247	2.4	242	89	4	866	25	27	17	30	1.97
357905--357949	21	2.1	21	84	8	56	22	20	4	53	1.63
360175--360200	13	2.0	13	100	0	52	30	15	15	38	1.88
364259--364310	20	2.6	20	81	6	61	34	13	13	38	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
364360--364412	20	2.6	20	85	8	72	30	15	13	41	1.85
369638--369663	13	2.0	13	100	0	52	38	15	15	30	1.88
369620--369683	32	2.0	32	87	9	94	37	17	15	29	1.91
373738--373768	15	2.1	15	93	0	53	48	16	22	12	1.80
375833--375870	13	2.9	13	92	0	67	31	18	18	31	1.95
378408--378433	13	2.0	13	100	0	52	38	15	15	30	1.88
379567--379603	19	1.9	19	94	0	65	48	10	8	32	1.67
380541--381108	28	20.0	27	79	8	385	25	17	28	28	1.97
380541--381108	56	10.0	56	82	5	507	25	17	28	28	1.97
380541--381108	84	6.7	85	80	6	569	25	17	28	28	1.97
381139--381217	14	5.9	14	73	10	51	34	16	11	37	1.85
396972--397055	20	3.7	20	72	27	78	41	10	17	29	1.84
398102--398142	19	2.2	19	91	8	66	41	0	9	48	1.36
398324--398375	22	2.4	22	100	0	104	59	0	0	40	0.97
398324--398382	22	2.7	22	94	2	93	62	0	1	35	1.05
398505--398540	13	2.8	13	95	0	63	52	8	0	38	1.32
398957--399172	120	1.8	120	85	2	308	37	7	8	45	1.63
399111--400236	431	2.6	432	82	7	1272	41	9	6	42	1.64
401160--401224	33	2.0	33	87	6	96	33	21	9	35	1.85
401751--401784	17	2.0	17	100	0	68	35	17	5	41	1.74
409158--409225	33	2.1	33	88	2	102	30	10	19	39	1.85
409257--409309	20	2.6	21	84	3	72	28	16	15	39	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
409298--409348	20	2.5	20	81	6	59	37	15	13	33	1.87
409786--409848	20	3.5	20	72	28	77	30	17	12	39	1.87
409807--409831	13	1.9	13	100	0	50	32	16	16	36	1.90
409882--409953	20	3.7	19	83	9	83	38	13	16	30	1.88
410943--410982	19	2.0	20	85	4	55	25	5	2	67	1.23
411370--411411	11	3.8	11	81	9	50	66	0	4	28	1.12
411524--411687	53	3.1	53	69	14	133	60	14	7	17	1.55
411795--411832	19	2.0	19	85	10	51	63	13	10	13	1.53
415622--415691	31	2.3	31	89	0	104	40	12	18	28	1.88
416626--416736	32	3.5	31	84	7	136	23	27	14	34	1.94

Tables:   1   2   3   4   5   6   7   8   9   10