genome.fa.s277.2.7.7.80.10.50.1000.3.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: Scaffold277
Parameters: 2 7 7 80 10 50 1000
Length:  582610

Tables:   1   2   3   4   

This is table  3  of  4  ( 427 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)
337451--337476	13	2.0	13	100	0	52	38	15	15	30	1.88
337430--337496	33	2.0	33	88	0	98	43	16	14	25	1.86
337516--337583	19	3.9	18	76	23	83	38	14	11	35	1.83
337538--337562	13	1.9	13	100	0	50	32	16	16	36	1.90
337519--337581	32	2.0	32	96	0	117	36	15	12	34	1.86
337639--337695	21	2.7	21	97	0	105	36	19	10	33	1.86
337699--337739	1	41.0	1	92	0	55	4	2	0	92	0.44
337697--337737	21	2.0	21	100	0	82	9	2	0	87	0.62
337699--337742	23	1.9	23	100	0	88	9	4	0	86	0.70
338380--338993	79	7.8	77	71	12	358	33	13	24	27	1.94
338582--338655	28	2.6	28	89	10	116	24	20	32	22	1.98
338638--338742	51	2.1	51	88	0	156	31	10	28	29	1.90
338691--338993	157	1.9	158	84	7	411	31	14	26	27	1.95
338925--339111	102	1.8	102	87	4	279	31	11	27	29	1.92
338930--339110	51	3.5	51	84	3	238	32	11	26	29	1.92
342656--342708	21	2.5	21	82	11	72	28	0	5	66	1.15
344702--344726	2	12.5	2	100	0	50	52	0	0	48	1.00
345324--345403	31	2.6	31	100	0	160	12	26	23	37	1.90
345726--345791	21	3.2	21	79	10	66	37	0	0	62	0.96
345768--345832	14	4.3	15	75	14	62	29	0	0	70	0.87
345760--345819	20	3.0	21	85	4	72	28	0	0	71	0.86
354341--354378	20	1.9	20	88	0	58	39	10	5	44	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
354700--354853	22	7.0	22	79	2	150	29	9	14	46	1.76
360154--360275	52	2.3	52	92	0	208	26	20	18	35	1.95
360154--360295	52	2.7	52	89	2	187	28	19	18	33	1.95
360284--360308	13	1.9	13	100	0	50	36	16	16	32	1.90
362327--362386	21	2.9	21	75	22	63	30	11	8	50	1.68
364464--364538	22	3.4	22	88	3	98	42	10	16	30	1.81
364817--364875	21	2.7	23	79	12	79	49	11	13	25	1.76
373961--374124	43	3.8	43	75	6	161	18	25	12	43	1.86
373897--374173	85	3.3	85	77	9	282	22	23	11	42	1.86
374305--374580	31	8.9	31	75	4	225	30	29	23	17	1.97
374305--374586	93	3.0	93	82	3	318	30	29	23	17	1.97
376914--376943	2	15.0	2	100	0	60	50	0	0	50	1.00
378065--378130	22	3.0	22	81	0	78	45	9	6	39	1.61
378397--378450	22	2.4	23	84	9	76	46	12	9	31	1.74
380255--380279	10	2.5	10	100	0	50	0	8	0	92	0.40
381047--381083	19	2.0	19	89	5	58	27	10	18	43	1.83
384973--385027	19	2.8	20	76	15	69	38	14	14	32	1.87
385925--386008	34	2.4	36	84	6	100	47	15	11	25	1.79
386069--386103	18	1.9	18	88	0	52	48	17	2	31	1.61
392207--392240	3	11.3	3	100	0	68	32	32	0	35	1.58
393893--393946	19	2.8	20	74	5	56	37	11	16	35	1.84
393932--393956	13	1.9	13	100	0	50	36	16	16	32	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
393914--393977	33	2.0	33	87	3	94	39	15	14	31	1.87
398398--398473	30	2.6	30	85	8	111	65	6	19	7	1.41
403642--403686	18	2.6	18	78	3	56	20	6	11	62	1.50
405973--406011	7	5.6	7	87	0	60	43	0	2	53	1.14
408222--408278	26	2.2	28	81	15	77	45	0	0	54	0.99
408681--408750	12	5.8	12	77	15	56	67	0	0	32	0.91
408681--408760	17	4.6	17	80	13	92	66	0	0	33	0.92
408681--408779	50	2.0	50	82	7	121	62	0	0	37	0.95
408724--408784	20	3.0	20	79	13	61	55	0	0	44	0.99
408695--408798	27	3.8	26	70	24	72	60	0	0	39	0.97
409273--409317	5	9.0	5	85	9	65	0	20	2	77	0.87
411247--411283	14	2.6	14	86	4	56	56	0	2	40	1.13
413241--413283	22	2.0	22	81	9	52	65	4	6	23	1.37
413782--413825	3	14.7	3	95	0	79	29	0	2	68	1.02
413942--413980	4	9.8	4	85	0	51	53	5	0	41	1.23
413942--413976	10	3.5	10	88	0	52	54	5	0	40	1.24
414466--414492	2	13.5	2	100	0	54	51	0	0	48	1.00
415166--415196	2	15.5	2	100	0	62	51	0	0	48	1.00
415196--415231	2	18.0	2	100	0	72	50	0	50	0	1.00
415478--415520	2	22.5	2	81	9	54	46	2	2	48	1.27
415520--415555	2	18.0	2	100	0	72	50	0	50	0	1.00
416298--416364	6	10.7	6	81	15	66	53	0	0	46	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
417096--417128	17	1.9	17	100	0	66	51	0	0	48	1.00
418172--418225	22	2.5	22	87	6	65	55	7	1	35	1.39
418357--418394	3	13.0	3	86	5	51	31	2	2	63	1.22
422680--422870	63	3.0	63	96	1	348	24	23	20	32	1.98
424351--424389	21	1.9	20	89	5	60	56	5	2	35	1.35
424355--424460	11	9.8	11	68	23	57	53	2	1	41	1.26
424367--424473	21	5.1	20	81	8	115	55	2	0	41	1.21
424507--424594	21	4.1	21	80	10	90	57	9	5	27	1.52
424538--424594	11	5.4	11	74	19	50	56	10	3	29	1.50
424626--424667	21	2.0	21	86	9	59	45	4	7	42	1.52
424675--424727	22	2.5	22	87	3	72	58	7	5	28	1.48
424708--424773	27	2.4	27	92	5	105	54	9	4	31	1.52
424737--424817	39	2.1	38	84	6	101	51	11	4	32	1.58
424804--424890	31	2.9	29	78	14	95	55	8	3	33	1.46
424916--424967	20	2.6	20	78	6	52	57	5	5	30	1.46
424912--425142	11	23.2	9	67	23	69	55	8	4	31	1.50
424943--425118	68	2.5	68	78	12	178	56	8	3	31	1.48
425031--425142	10	11.2	9	71	20	66	53	10	4	31	1.55
425063--425140	21	3.8	21	79	18	76	55	10	3	30	1.51
425058--425142	42	2.0	42	84	13	113	54	10	3	31	1.52
425202--425244	21	2.0	21	90	0	68	55	6	2	34	1.39
425205--425250	21	2.2	21	84	0	56	58	6	2	32	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
425363--425490	21	6.2	21	75	5	100	50	9	7	33	1.62
425545--425593	24	2.1	23	84	3	62	48	2	2	46	1.25
425999--426079	10	7.8	10	76	13	56	54	7	3	34	1.46
425950--426099	42	3.6	42	81	4	135	54	8	3	34	1.46
425950--426101	21	7.3	20	75	6	115	53	7	3	34	1.46
426647--426674	2	14.0	2	100	0	56	50	0	0	50	1.00
427168--427197	15	1.9	16	93	6	53	20	30	13	36	1.90
432870--432924	20	2.8	19	81	10	58	30	10	1	56	1.44
432870--432910	20	2.0	20	90	9	66	34	7	0	58	1.26
432874--432916	20	2.2	20	87	8	61	32	9	0	58	1.30
432937--432979	19	2.1	21	87	8	63	76	2	0	20	0.89
432930--432981	19	2.8	18	85	11	61	73	3	0	23	1.00
437520--437552	12	2.8	12	90	0	57	45	0	42	12	1.41
437509--437604	42	2.3	42	88	0	138	47	0	39	12	1.41
437518--437594	12	6.9	12	75	19	53	44	0	42	12	1.43
437531--437629	42	2.4	42	84	1	128	45	2	38	14	1.56
443760--443845	19	4.8	18	73	21	74	34	12	16	36	1.87
443802--443859	13	4.0	13	74	23	53	34	15	15	34	1.89
443783--443858	32	2.4	32	95	0	134	32	14	17	35	1.90
443879--443919	20	2.0	21	90	4	66	29	14	14	41	1.86
446276--446457	76	2.4	75	88	4	260	26	23	15	34	1.95
446538--446651	51	2.2	52	89	4	178	32	26	8	32	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
461035--461083	21	2.3	21	78	3	53	4	10	12	73	1.22
461950--462017	33	2.1	33	88	2	102	35	14	14	35	1.87
464057--464099	20	2.1	20	86	4	59	9	30	44	16	1.79
464542--464580	13	3.0	13	96	0	69	35	15	17	30	1.91
470737--470805	34	2.1	32	89	5	102	33	14	15	36	1.89
471179--471218	14	2.7	15	85	14	57	40	0	0	60	0.97
471648--472242	303	2.0	303	84	5	783	48	9	9	31	1.69
471495--472265	153	5.1	154	79	7	711	49	8	9	31	1.66
476248--476362	40	2.9	40	85	6	137	57	0	0	40	1.11
476293--476392	41	2.4	41	83	5	121	64	0	0	36	0.94

Tables:   1   2   3   4