oyster.v9_M.fa.s17.2.7.7.80.10.50.500.2.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.04

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: scaffold1213
Parameters: 2 7 7 80 10 50 500
Length:  1372454

Tables:   1   2   3   

This is table  2  of  3  ( 346 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)
402744--402775	12	2.7	12	95	0	55	0	31	25	43	1.55
402802--403761	166	5.8	166	88	2	1336	28	17	14	38	1.90
409265--409309	17	2.6	17	96	3	81	35	20	0	44	1.51
409551--409612	31	2.0	31	100	0	124	25	9	48	16	1.76
409673--410256	21	27.7	21	81	4	406	31	14	19	35	1.91
409675--410233	42	13.3	42	81	4	565	32	14	19	34	1.91
409675--410233	64	8.9	63	80	5	565	32	14	19	34	1.91
410524--410847	145	2.2	146	84	3	404	32	21	17	28	1.96
411132--411171	11	3.6	11	87	12	55	45	30	10	15	1.78
411135--411180	22	2.1	22	87	0	65	47	28	13	10	1.76
412250--412283	17	2.0	17	100	0	68	23	11	17	47	1.81
412325--413227	168	5.4	167	88	2	1108	32	18	18	31	1.95
412366--413227	336	2.6	336	86	1	1242	32	18	18	30	1.95
415568--416358	168	4.7	167	85	3	938	32	18	19	30	1.96
425710--425734	13	1.9	13	100	0	50	56	12	8	24	1.62
441748--441774	11	2.5	11	100	0	54	55	0	25	18	1.43
454354--454400	15	3.1	16	87	6	62	6	2	17	74	1.12
454640--454707	2	34.0	2	100	0	136	50	0	50	0	1.00
455007--455040	11	3.1	11	100	0	68	35	17	17	29	1.93
456806--457506	146	4.9	146	83	6	826	31	20	17	30	1.96
461743--461816	2	37.0	2	100	0	148	0	0	50	50	1.00
462894--462946	21	2.5	21	84	6	72	39	16	3	39	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
462925--462954	14	2.1	14	100	0	60	40	13	6	40	1.71
462989--463045	21	2.8	20	75	17	62	40	21	7	31	1.80
463211--463621	21	20.0	21	70	12	174	39	14	8	37	1.76
463369--463418	20	2.5	19	84	9	64	44	14	6	36	1.69
463516--463586	22	3.2	22	76	7	72	43	12	9	33	1.76
463569--463614	20	2.2	21	81	14	60	47	10	4	36	1.58
463583--463667	20	4.2	21	77	15	72	38	9	8	43	1.67
463609--463664	21	2.8	19	79	10	76	33	8	12	44	1.73
463859--463975	21	5.7	21	69	8	69	33	15	4	47	1.65
495666--497601	430	4.3	432	72	14	1649	30	16	15	37	1.89
500750--500818	5	14.0	5	80	8	79	57	21	15	4	1.55
500977--501012	1	36.0	1	94	0	63	97	0	0	2	0.18
501095--501137	2	21.5	2	90	0	68	53	0	46	0	1.00
510923--510951	2	14.5	2	100	0	58	0	51	0	48	1.00
512170--512205	2	18.0	2	88	0	54	47	0	2	47	1.17
515431--515463	17	1.9	17	100	0	66	24	21	24	30	1.99
523910--523934	12	2.1	12	100	0	50	24	20	8	48	1.76
532673--532728	18	3.2	18	80	9	55	3	1	16	78	0.97
534803--534879	21	3.7	21	92	0	127	28	12	20	37	1.90
535398--536032	41	15.6	41	83	8	669	28	11	25	35	1.90
535388--536031	82	7.9	82	86	6	755	27	11	24	36	1.89
535650--536032	21	18.5	21	84	8	314	28	11	24	36	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
551710--551734	2	12.5	2	100	0	50	52	48	0	0	1.00
554099--554386	22	13.1	22	100	0	576	36	18	13	31	1.89
555693--555789	50	1.9	50	91	0	158	38	16	20	24	1.93
557706--557774	34	2.0	34	91	0	111	52	10	10	27	1.67
568022--568064	2	21.5	2	100	0	86	51	0	48	0	1.00
586800--586827	14	2.0	14	100	0	56	35	14	14	35	1.86
614993--615039	20	2.3	21	89	10	71	23	42	12	21	1.87
619506--619536	2	15.5	2	93	0	53	0	3	48	48	1.17
624070--624534	177	2.6	176	87	2	657	25	16	23	34	1.95
626566--626621	20	2.8	20	86	5	78	37	3	10	48	1.56
626894--626935	16	2.8	16	89	7	61	30	9	30	28	1.89
634114--634196	35	2.5	31	84	11	96	28	27	15	27	1.96
641924--641977	12	4.7	12	79	9	58	59	7	1	31	1.36
642839--642890	2	26.0	2	100	0	104	0	50	0	50	1.00
648835--648870	18	2.0	18	94	0	63	44	19	5	30	1.73
678326--678389	2	32.0	2	100	0	128	0	50	0	50	1.00
678807--678841	2	17.5	2	93	0	61	51	2	0	45	1.16
679441--680165	365	2.0	366	87	1	1040	29	18	20	31	1.96
681261--681317	2	28.5	2	100	0	114	0	50	0	49	1.00
681996--682028	9	3.7	9	95	0	57	60	21	6	12	1.53
682819--682999	89	2.0	89	98	0	353	36	21	12	29	1.90
685000--685052	21	2.5	21	84	0	79	33	0	18	47	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
689873--689971	43	2.3	43	92	0	162	37	18	8	36	1.80
690606--690652	23	2.1	22	88	7	69	42	14	6	36	1.72
696558--696595	18	2.0	19	85	10	51	39	21	7	31	1.82
697184--697236	2	27.0	2	96	3	99	0	49	0	50	1.00
707373--707445	33	2.2	33	97	2	139	46	10	8	34	1.69
712847--712894	11	4.3	11	81	5	60	45	29	12	12	1.78
723337--723654	21	15.3	21	79	5	297	41	22	6	29	1.79
723340--723654	85	3.8	84	71	10	250	41	21	6	29	1.79
725935--725974	2	20.0	2	100	0	80	0	50	0	50	1.00
727044--727086	2	21.5	2	100	0	86	0	48	0	51	1.00
740306--740394	31	2.9	31	98	0	169	33	16	7	41	1.78
746347--746450	52	2.0	52	100	0	208	36	5	15	42	1.71
749345--749373	10	2.9	10	100	0	58	17	20	20	41	1.90
757339--757375	2	19.0	2	88	5	58	51	0	48	0	1.00
766209--766273	20	3.0	23	76	21	84	32	21	16	29	1.96
768928--768965	20	1.9	20	84	10	51	31	7	13	47	1.71
778878--778913	17	2.1	17	94	0	63	19	25	8	47	1.77
779329--779388	2	30.0	2	100	0	120	50	0	50	0	1.00
796594--796669	2	39.0	2	86	5	111	50	1	48	0	1.09
805744--805808	2	33.0	2	89	3	96	49	0	50	0	1.00
812576--812600	1	25.0	1	100	0	50	0	100	0	0	0.00
827187--827247	2	30.5	2	100	0	122	0	50	0	49	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
829172--829407	129	1.8	129	87	1	357	27	22	18	32	1.97
829383--829584	101	2.0	102	90	0	316	28	20	15	35	1.93
829489--829549	29	2.1	29	81	6	70	34	21	18	26	1.96
829674--829751	25	3.3	24	68	17	74	21	28	11	38	1.88
829664--829804	45	3.1	44	90	6	205	18	29	14	36	1.91
829545--829876	164	2.0	164	90	1	522	21	27	15	36	1.93
829515--829759	119	2.1	119	86	3	350	23	26	15	34	1.94
829955--830072	57	2.1	57	85	3	157	29	16	21	32	1.95
846473--846507	16	2.2	16	94	0	61	5	37	22	34	1.78
852471--852496	13	2.0	13	100	0	52	69	7	15	7	1.35
854723--854772	25	2.0	25	92	0	82	42	22	12	24	1.87
863646--863866	31	7.5	31	68	14	117	24	18	22	33	1.96
864749--866377	31	52.9	31	82	2	1724	21	16	26	35	1.94
866588--866775	32	5.8	33	73	9	129	34	5	34	26	1.79
866593--867181	33	18.2	32	71	14	205	36	5	31	26	1.79
866958--867169	34	6.3	33	86	3	257	37	3	31	27	1.73
866958--867169	67	3.2	65	83	7	255	37	3	31	27	1.73
867034--867091	19	3.3	19	65	34	56	37	0	31	31	1.58
867600--867712	21	5.4	21	85	0	154	30	30	12	26	1.93
867608--867712	42	2.5	42	95	0	183	30	29	12	27	1.93
867578--867710	63	2.1	62	86	4	178	30	31	11	26	1.91
867754--867803	19	2.6	20	75	9	59	42	18	4	36	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
871358--871394	2	18.5	2	100	0	74	0	51	0	48	1.00
871394--871421	2	14.0	2	100	0	56	50	50	0	0	1.00
875638--875706	2	34.5	2	100	0	138	50	0	49	0	1.00
877620--877676	30	1.9	30	96	0	105	28	24	22	24	2.00
885771--886053	156	1.8	157	86	3	410	32	16	10	40	1.83
888904--889701	172	4.6	172	93	0	1317	36	15	19	28	1.92
889710--889778	8	8.6	8	88	0	84	27	40	31	0	1.57
889715--889776	16	3.9	16	93	0	97	29	41	29	0	1.56
889710--889776	24	2.8	24	93	0	107	28	40	31	0	1.57
896701--896725	7	3.6	7	100	0	50	16	32	28	24	1.96

Tables:   1   2   3