genome.fa.s396.2.7.7.80.10.50.1000.3.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: Scaffold396
Parameters: 2 7 7 80 10 50 1000
Length:  560635

Tables:   1   2   3   4   

This is table  3  of  4  ( 452 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)
301504--301568	18	3.7	18	79	6	71	61	3	3	32	1.27
301520--301566	24	2.0	24	83	8	60	59	4	4	31	1.36
301704--301749	20	2.2	20	88	11	65	69	8	0	21	1.15
302426--302454	12	2.3	13	88	11	51	75	0	0	24	0.80
302484--302564	26	3.2	26	74	11	78	64	0	0	35	0.94
302480--302562	35	2.5	33	86	9	107	65	0	0	34	0.93
302472--302577	24	4.4	24	68	17	69	66	1	0	32	1.03
302775--302976	11	17.9	11	67	19	64	63	0	0	34	1.05
302775--302823	11	4.6	11	82	7	66	67	0	0	32	0.91
302775--302823	22	2.3	22	89	6	75	67	0	0	32	0.91
302865--302912	12	3.9	13	80	20	59	66	0	0	33	0.92
302861--302979	47	2.5	47	73	9	109	67	1	0	30	1.06
302930--302987	29	2.1	27	87	12	82	67	0	0	32	0.91
302936--302997	27	2.4	24	75	17	61	66	0	0	33	0.92
306362--306426	20	3.1	22	80	10	75	44	1	12	41	1.51
307186--307210	3	8.3	3	100	0	50	64	0	0	36	0.94
307721--307769	19	2.5	20	83	10	64	40	0	0	59	0.98
307721--307769	6	7.6	7	76	15	52	40	0	0	59	0.98
307730--307785	26	2.1	27	83	9	71	46	1	0	51	1.11
307730--307797	26	2.6	26	81	11	68	47	2	0	50	1.16
308440--308508	27	2.5	28	81	9	70	46	0	2	50	1.16
308987--309016	3	10.0	3	92	0	51	0	30	0	70	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
310890--310926	2	18.5	2	100	0	74	0	48	0	51	1.00
311264--311298	2	17.5	2	100	0	70	48	0	0	51	1.00
311596--311769	91	1.9	92	83	8	230	31	16	14	36	1.90
327319--327483	8	21.0	8	67	24	68	38	1	0	60	1.09
327319--327414	7	13.1	7	72	17	63	37	1	1	60	1.11
327342--327490	63	2.4	63	78	17	159	40	0	0	59	1.03
327506--327552	24	1.9	24	82	4	58	70	4	0	25	1.05
327996--328027	2	16.0	2	100	0	64	50	0	0	50	1.00
332458--332494	2	18.5	2	94	0	65	45	0	2	51	1.15
332460--332498	12	3.2	12	96	0	69	43	0	5	51	1.24
334792--334845	12	4.3	12	85	4	63	42	20	5	31	1.75
334770--334857	24	3.7	24	81	6	81	50	17	3	29	1.62
334770--334833	6	10.7	6	86	0	74	51	18	1	28	1.55
334811--334851	20	2.2	19	86	8	57	43	14	7	34	1.73
334948--335096	6	24.8	6	81	0	127	48	21	2	26	1.63
334948--335096	24	6.2	24	77	0	154	48	21	2	26	1.63
336836--336880	16	2.8	16	86	3	54	35	2	4	57	1.31
337516--337588	17	4.7	16	73	14	64	35	0	0	64	0.94
342790--342826	2	18.5	2	94	0	65	0	48	0	51	1.00
350464--350504	15	2.8	15	78	17	50	53	0	0	46	1.00
351407--351432	4	6.5	4	100	0	52	50	0	0	50	1.00
351986--352023	20	1.9	19	89	5	58	26	13	5	55	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
352677--352719	22	1.9	23	85	4	61	60	2	34	2	1.22
353220--353265	2	23.0	2	100	0	92	50	0	0	50	1.00
357810--357867	27	2.2	25	82	11	64	56	0	1	41	1.09
358376--358411	3	12.0	3	100	0	72	66	0	0	33	0.92
359170--359237	32	2.1	33	83	2	84	42	4	1	51	1.31
359181--359251	32	2.2	32	82	10	81	39	4	1	54	1.28
361063--361099	2	18.5	2	94	0	65	48	0	2	48	1.15
361184--361436	134	1.9	134	95	1	456	50	2	3	43	1.32
361307--361355	17	2.9	16	77	16	53	53	0	2	44	1.12
361360--361416	24	2.3	25	81	6	62	47	0	1	50	1.11
362689--362720	4	8.0	4	100	0	64	25	0	0	75	0.81
362964--363021	30	1.9	30	86	6	82	41	1	1	55	1.20
364069--364116	21	2.3	22	75	17	57	43	0	0	56	0.99
364086--364156	35	2.0	35	84	10	92	53	1	0	45	1.09
364515--364541	2	13.5	2	100	0	54	51	0	0	48	1.00
365398--365439	2	21.0	2	100	0	84	50	0	0	50	1.00
365939--365982	20	2.1	22	87	8	65	38	0	2	59	1.10
367480--367518	2	19.5	2	100	0	78	48	0	0	51	1.00
368255--368304	2	25.5	2	95	4	93	48	0	0	52	1.00
368834--368883	18	3.1	16	76	15	50	58	0	4	38	1.17
369835--369876	19	2.0	21	86	13	61	45	2	0	52	1.13
370122--370162	21	1.9	21	85	5	55	60	0	0	39	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
370400--370476	30	2.5	31	83	8	88	36	2	0	61	1.10
370400--370476	31	2.6	30	83	8	86	36	2	0	61	1.10
370861--370900	2	20.0	2	89	0	62	47	2	2	47	1.29
371038--371124	41	2.2	36	80	17	86	47	0	1	51	1.08
371092--371144	18	3.0	17	76	15	54	45	0	0	54	0.99
371830--371943	26	3.9	29	75	20	87	43	0	0	56	0.99
371831--371924	29	3.2	28	81	14	95	43	0	0	56	0.99
381612--381649	15	2.4	16	82	8	51	63	10	0	26	1.27
383394--383428	3	11.7	3	100	0	70	34	0	0	65	0.93
386938--386977	19	2.1	19	100	0	80	22	30	12	35	1.91
391910--391952	2	21.5	2	100	0	86	48	0	51	0	1.00
395602--395643	15	2.8	15	85	0	57	45	21	7	26	1.77
402889--402933	23	1.9	24	82	13	58	55	0	4	40	1.20
403560--403600	20	2.1	20	78	17	50	17	0	7	75	1.02
403562--403600	19	2.1	19	85	9	53	15	0	7	76	0.99
403696--403755	24	2.5	23	78	10	66	43	0	3	53	1.17
403696--403746	25	2.1	25	85	7	70	47	0	1	50	1.12
412349--412410	29	2.1	29	96	0	115	37	20	20	20	1.95
414364--414567	103	2.0	104	91	2	333	43	19	14	23	1.87
423484--423516	2	16.5	2	100	0	66	51	48	0	0	1.00
424473--424500	11	2.5	11	100	0	56	71	0	0	28	0.86
425816--425910	20	4.9	20	68	16	67	41	0	0	58	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
425801--425932	18	7.2	18	73	13	92	36	0	0	63	0.95
425801--425896	38	2.6	36	76	16	106	40	0	0	59	0.97
425870--425919	10	5.3	10	77	17	54	28	0	0	72	0.86
425816--425931	27	4.0	30	75	13	93	37	0	0	62	0.96
425878--425931	11	5.5	11	74	26	50	25	0	0	74	0.83
430435--430467	16	2.1	16	94	0	57	12	0	87	0	0.53
432714--432750	17	2.0	19	85	15	51	21	10	24	43	1.84
438926--438981	2	28.5	2	85	3	69	50	3	46	0	1.19
439671--439795	30	4.3	29	80	7	128	44	3	1	50	1.27
439760--439810	17	2.9	18	80	11	61	45	0	1	52	1.12
440249--440281	3	10.7	3	93	6	57	36	0	0	63	0.95
440242--440281	9	4.2	10	90	6	57	37	2	0	60	1.11
441450--441550	33	3.1	33	63	16	82	45	8	7	37	1.65
441419--441550	66	2.0	66	93	0	228	46	9	8	35	1.67
450700--450724	13	1.9	13	100	0	50	40	12	0	48	1.40
453512--453613	37	2.7	38	77	8	111	40	17	13	28	1.88
461226--461272	16	3.1	16	82	17	55	72	8	12	6	1.27
461966--462012	16	3.1	16	82	17	55	72	8	12	6	1.27
463342--463741	27	14.6	27	86	3	487	24	32	12	30	1.93
463342--463741	55	7.3	53	83	6	464	24	32	12	30	1.93
463342--463745	82	4.9	80	86	4	506	24	32	13	30	1.93
463755--464399	32	21.6	31	80	8	448	31	28	17	22	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
463947--464650	28	24.5	29	74	12	337	30	29	16	23	1.96
463944--464650	56	12.3	57	74	11	459	30	29	16	23	1.96
464778--464956	95	1.9	95	85	2	252	21	27	16	35	1.94
464778--464956	48	3.8	48	85	3	227	21	27	16	35	1.94
469584--469715	44	3.0	44	98	0	255	39	13	19	27	1.89
472226--472282	22	2.6	22	72	8	53	70	17	8	3	1.28
472922--473053	20	6.7	20	75	12	112	37	0	3	59	1.16
472928--473019	41	2.2	41	100	0	184	33	0	4	61	1.15
472928--473031	41	2.6	39	92	5	149	34	0	3	61	1.14
473438--473480	18	2.5	16	82	17	59	46	0	0	53	1.00

Tables:   1   2   3   4