genome.fa.s1952.2.7.7.80.10.50.1000.2.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: scaffold319
Parameters: 2 7 7 80 10 50 1000
Length:  745371

Tables:   1   2   3   

This is table  2  of  3  ( 289 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)
230589--230805	121	1.8	120	82	3	283	24	24	19	30	1.98
232013--232104	7	13.0	7	72	18	66	2	16	0	81	0.79
232013--232123	10	12.4	9	78	12	90	4	14	0	81	0.85
232013--232112	26	4.2	26	68	22	76	3	16	0	81	0.82
232926--232967	22	2.0	21	81	13	50	42	4	21	30	1.73
237877--237920	12	3.6	12	75	6	52	40	9	0	50	1.34
237879--237926	25	1.9	25	100	0	96	35	12	0	52	1.40
251379--251428	15	3.2	15	77	8	55	62	2	0	36	1.07
251379--251428	16	3.2	16	75	13	50	62	2	0	36	1.07
251370--251421	22	2.4	21	81	15	61	65	1	0	32	1.04
254871--254930	18	3.3	18	77	11	59	55	1	1	41	1.20
255031--255129	9	10.4	9	71	20	60	63	2	3	31	1.21
255031--255129	28	3.5	27	78	13	83	63	2	3	31	1.21
255031--255130	10	10.4	10	68	12	50	64	2	3	31	1.20
255096--255144	20	2.4	20	82	3	53	61	0	6	32	1.21
261278--261309	16	2.0	16	100	0	64	25	31	6	37	1.81
264535--264566	13	2.4	14	85	15	50	62	12	0	25	1.30
264545--264652	39	2.8	39	94	1	182	47	12	9	30	1.73
264762--264834	36	2.0	36	83	0	92	26	27	17	28	1.98
269293--269334	22	2.0	22	86	9	61	42	16	4	35	1.69
269954--269985	13	2.4	14	85	15	50	62	12	0	25	1.30
269964--270078	39	3.0	38	90	1	176	49	12	6	31	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
270073--270098	9	2.9	9	100	0	52	69	11	0	19	1.18
273752--273798	25	1.9	24	82	4	58	53	10	17	19	1.72
274093--274131	19	2.1	19	85	9	53	17	10	28	43	1.82
274901--274975	33	2.3	33	88	6	116	44	13	6	36	1.70
278541--278591	25	2.1	24	81	3	57	50	11	15	21	1.76
278886--278924	19	2.1	19	85	9	53	17	10	28	43	1.82
279861--279927	32	2.1	32	86	5	91	26	10	10	52	1.68
294807--294867	30	2.0	30	93	0	104	37	22	22	16	1.93
298955--299999	524	2.0	523	95	0	1883	31	16	22	29	1.96
304493--304617	51	2.5	50	82	5	144	28	15	27	28	1.96
304679--304842	51	3.2	50	82	5	188	28	16	26	28	1.97
317073--317119	13	3.5	13	91	2	67	8	6	4	80	1.00
317073--317119	14	3.4	14	88	8	62	8	6	4	80	1.00
325877--325912	19	1.9	19	88	5	56	44	8	11	36	1.70
329166--329347	54	3.6	50	80	6	181	28	20	25	24	1.99
329166--329356	50	3.7	53	78	9	184	27	20	25	26	1.99
341402--341498	50	2.0	49	91	2	158	29	29	14	25	1.95
358365--358425	23	2.6	24	84	5	88	37	29	4	27	1.78
362778--363202	208	2.0	210	92	1	710	35	20	11	32	1.89
364727--364783	16	3.6	16	95	0	87	29	0	36	33	1.58
365029--365063	18	2.0	17	88	5	52	54	0	0	45	0.99
384184--384245	30	2.1	30	87	6	90	19	19	25	35	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
384360--384431	37	1.9	37	88	0	108	33	6	20	38	1.80
386299--386369	33	2.2	33	80	7	83	49	4	7	39	1.49
387046--387173	65	2.0	65	87	6	188	46	8	7	36	1.63
389302--389549	50	4.8	50	85	6	293	27	22	28	21	1.99
398141--398386	50	4.8	52	80	7	270	26	22	29	21	1.99
402384--406170	759	5.0	761	88	2	5428	29	25	11	33	1.91
409069--409211	77	1.9	76	91	1	232	23	10	20	45	1.82
411011--411232	41	5.4	41	100	0	444	26	21	29	22	1.99
426166--426683	262	2.0	262	100	0	1036	38	6	16	38	1.73
428785--428821	9	4.1	9	85	0	56	32	10	10	45	1.74
428873--428903	9	3.4	9	90	0	53	38	22	12	25	1.90
429653--429704	20	2.6	20	87	0	77	53	0	25	21	1.45
429654--429710	20	2.8	19	84	10	69	50	0	28	21	1.48
433948--434022	32	2.4	31	80	8	80	22	38	16	22	1.92
444086--444222	71	1.9	71	87	0	202	33	21	17	27	1.96
445211--445263	19	2.8	19	77	11	54	47	7	1	43	1.42
450330--450364	15	2.4	14	90	4	52	37	0	42	20	1.52
453193--453243	25	2.1	24	92	3	84	21	25	3	49	1.67
465784--465988	68	3.0	68	96	0	365	18	31	14	35	1.91
470068--470183	39	2.9	39	90	1	169	31	2	22	43	1.67
489094--489120	13	2.1	13	100	0	54	44	7	7	40	1.60
493762--493809	11	4.5	11	80	12	55	27	2	0	70	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
493762--493810	22	2.2	22	88	0	71	26	2	0	71	0.97
493762--493815	10	5.1	10	78	12	54	27	1	1	68	1.10
495016--495054	18	2.3	16	86	8	51	30	7	0	61	1.24
495374--495656	140	2.0	141	99	0	559	48	7	6	38	1.57
496212--496311	31	3.3	31	90	2	141	19	15	14	52	1.75
496236--496337	31	3.4	29	77	13	91	22	13	13	50	1.77
496487--496526	21	2.0	20	85	5	53	57	0	37	5	1.21
498526--498550	13	1.9	13	100	0	50	40	28	0	32	1.57
502454--502546	37	2.5	37	87	1	123	50	2	1	46	1.20
502649--502702	16	3.4	16	77	10	65	33	22	1	42	1.64
504708--504750	17	2.5	17	88	3	68	72	0	0	27	0.85
504708--504768	17	3.4	18	81	6	61	70	3	0	26	1.02
505095--505962	432	2.0	433	99	0	1720	46	13	9	30	1.76
506071--506161	41	2.2	41	92	1	148	31	18	5	43	1.73
516929--517175	132	1.9	132	84	0	332	28	23	17	30	1.97
524427--524498	21	3.4	21	84	3	99	34	8	23	33	1.85
527051--527097	16	3.0	16	79	14	53	80	4	0	14	0.85
527046--527092	23	2.0	25	84	16	64	76	4	0	19	0.95
527178--527228	26	1.9	27	92	4	86	41	41	3	13	1.63
527608--527675	20	3.6	19	79	11	68	1	23	5	69	1.19
528359--528404	24	1.9	24	81	0	56	34	8	4	52	1.52
528657--528738	28	2.9	28	70	21	73	31	9	1	57	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
540874--541283	44	9.4	44	66	13	125	32	18	19	29	1.96
540822--541520	175	4.1	175	89	4	1077	32	19	19	28	1.96
541209--541514	161	1.9	162	91	2	508	33	18	19	28	1.95
541559--541689	50	2.6	51	67	13	119	32	22	19	25	1.97
541911--541963	28	1.9	27	85	11	72	77	3	0	18	0.92
543221--543266	24	1.9	24	81	0	56	34	8	4	52	1.52
543528--543605	28	2.8	28	84	7	104	32	11	1	55	1.44
546304--546330	8	3.4	8	100	0	54	25	14	37	22	1.93
547924--547973	12	4.1	12	76	5	55	46	6	16	32	1.71
548040--548077	18	2.1	18	85	9	51	60	7	15	15	1.57
549406--549466	22	3.1	20	84	13	74	73	0	8	18	1.07
554107--554144	18	2.1	18	85	9	51	60	7	15	15	1.57
556713--556840	30	4.3	30	84	4	143	34	25	4	35	1.77
561669--562411	4	185.8	4	100	0	1486	25	0	25	49	1.50
562507--562599	42	2.2	42	86	1	125	29	20	21	29	1.98
568995--569362	76	5.0	75	72	8	220	29	19	22	27	1.98
568982--569240	71	3.6	70	71	11	207	30	21	22	25	1.99
568998--569316	147	2.2	147	80	0	370	29	20	22	27	1.98
571326--572005	3	226.7	3	99	0	1351	66	0	33	0	0.92
587113--587174	26	2.4	26	94	2	108	46	16	4	32	1.68
590893--590944	21	2.8	17	74	20	50	21	11	3	63	1.43
590958--590982	13	1.9	13	100	0	50	16	4	0	80	0.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
593041--593273	90	2.6	89	87	8	278	57	3	4	33	1.36
593145--593189	20	2.2	21	92	4	74	62	0	0	37	0.96
593235--593272	20	1.9	20	94	0	67	57	0	0	42	0.98
593243--593284	18	2.2	20	83	8	52	61	2	2	33	1.21
593749--593792	16	2.6	17	82	7	63	29	2	0	68	1.02
595002--595067	20	3.4	19	83	8	71	34	0	10	54	1.35
595002--595067	19	3.3	20	79	12	75	34	0	10	54	1.35
596182--596232	11	4.6	11	87	4	68	21	33	1	43	1.64
596236--596277	11	3.8	11	87	0	66	19	19	7	54	1.66
597429--597453	7	3.6	7	100	0	50	28	0	12	60	1.32

Tables:   1   2   3