oyster.v9_M.fa.s41.2.7.7.80.10.50.500.5.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: scaffold334
Parameters: 2 7 7 80 10 50 500
Length:  1116604

Tables:   1   2   3   4   5   6   

This is table  5  of  6  ( 617 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)
746341--746397	22	2.5	23	88	8	82	36	12	0	50	1.40
749920--751443	180	8.5	180	90	0	2264	29	15	17	37	1.91
749920--751443	359	4.2	359	89	1	2262	29	15	17	37	1.91
751333--751552	109	2.0	109	99	0	431	30	16	19	34	1.93
751153--751737	289	2.0	291	87	3	854	29	15	18	36	1.92
751442--751818	180	2.0	183	90	4	589	31	13	17	37	1.89
763010--763077	29	2.4	28	85	2	82	19	11	25	44	1.84
767484--767529	2	23.0	2	100	0	92	0	50	0	50	1.00
773298--773391	21	4.5	21	83	0	107	26	13	18	41	1.88
773470--773608	21	6.7	21	80	4	149	42	17	13	26	1.86
773470--773608	42	3.4	41	91	4	217	42	17	13	26	1.86
773660--773824	21	7.9	21	80	1	179	29	13	20	36	1.90
773896--773987	21	4.4	21	80	5	105	39	19	16	25	1.92
773896--773987	42	2.2	42	90	3	141	39	19	16	25	1.92
774404--774440	18	2.2	16	90	9	56	0	2	13	83	0.74
777648--778211	21	26.9	21	86	1	756	9	26	22	42	1.83
787443--787482	18	2.3	18	86	4	55	80	0	12	7	0.91
791388--791452	21	3.1	21	97	0	121	12	24	27	35	1.91
792009--792518	179	2.8	178	90	2	761	39	17	16	27	1.90
811053--811093	11	3.7	11	80	0	55	31	9	31	26	1.89
811156--811204	11	4.6	10	80	12	53	30	20	10	38	1.86
811156--811204	22	2.3	22	89	3	73	30	20	10	38	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
811599--811644	2	23.0	2	100	0	92	0	50	0	50	1.00
811855--812070	112	1.9	110	94	1	378	33	18	17	29	1.94
814513--814552	11	3.6	11	100	0	80	30	10	32	27	1.89
814569--814609	11	3.7	11	80	0	55	21	26	9	41	1.84
818891--819043	83	1.8	83	82	0	198	26	24	18	30	1.98
818675--819133	244	1.9	244	79	1	526	23	24	18	33	1.96
819324--819613	92	3.1	92	84	3	386	34	17	21	26	1.95
820130--820155	13	2.0	13	100	0	52	23	23	7	46	1.78
824269--825676	176	8.0	176	82	5	1597	30	18	16	34	1.93
824269--825675	361	4.0	352	83	5	1635	30	18	16	34	1.93
824269--825674	177	7.9	177	83	5	1531	30	18	16	34	1.93
828821--828865	2	22.5	2	100	0	90	51	0	48	0	1.00
833671--833714	18	2.4	18	96	3	79	29	63	0	6	1.20
833675--833720	10	4.9	10	79	12	53	30	65	0	4	1.12
836812--836862	20	2.5	20	90	6	77	29	0	17	52	1.45
837919--837969	21	2.4	21	86	0	66	17	17	29	35	1.93
859890--859938	21	2.3	21	82	0	71	40	20	18	20	1.91
864768--864835	2	34.0	2	96	0	127	48	0	51	0	1.00
865694--865782	47	1.9	47	90	4	137	46	12	20	21	1.83
869009--869068	19	3.2	19	100	0	120	30	31	5	33	1.79
869105--869265	13	12.4	13	98	0	313	38	14	16	30	1.89
869979--870020	2	21.0	2	100	0	84	50	0	50	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
875231--875255	12	2.1	12	100	0	50	0	44	24	32	1.54
877522--877559	19	2.0	19	100	0	76	26	26	15	31	1.96
881130--881213	2	42.0	2	100	0	168	50	50	0	0	1.00
881215--881240	2	13.0	2	100	0	52	50	0	0	50	1.00
881781--881826	22	2.1	22	84	4	58	43	28	17	10	1.82
884511--884538	2	14.0	2	100	0	56	0	50	0	50	1.00
894679--894734	2	28.0	2	100	0	112	0	50	0	50	1.00
900692--900732	17	2.6	16	88	7	57	41	19	17	21	1.90
902886--902958	2	38.0	2	91	8	125	49	0	50	0	1.00
912248--912356	56	1.9	56	96	0	200	44	17	20	18	1.88
915613--915639	14	1.9	14	100	0	54	0	33	7	59	1.25
924157--924235	32	2.4	32	91	2	131	26	17	27	27	1.98
943283--943338	27	2.1	27	100	0	112	26	32	10	30	1.90
946441--946475	17	2.1	16	89	5	52	20	37	17	25	1.94
946532--946566	17	2.1	16	89	5	52	25	17	37	20	1.94
947416--947452	18	2.1	18	100	0	74	40	0	27	32	1.57
947861--948665	166	4.9	166	85	1	1082	28	21	14	34	1.94
947897--948665	332	2.3	331	92	1	1274	29	21	15	34	1.93
952694--952732	8	4.5	8	82	17	51	46	12	2	38	1.56
955039--955119	41	2.0	40	85	4	110	24	19	22	33	1.97
956167--956225	21	2.8	21	78	0	64	27	5	6	61	1.43
957742--957822	41	2.0	39	88	4	117	35	22	18	23	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
963330--963389	21	2.9	21	85	5	77	40	15	16	28	1.89
963465--963600	21	6.5	21	73	5	114	31	18	11	38	1.86
963465--963600	42	3.2	42	75	6	141	31	18	11	38	1.86
963523--963610	21	4.2	21	85	2	97	29	21	10	38	1.86
963518--963610	42	2.2	41	81	5	114	29	21	10	38	1.87
963585--963679	42	2.3	42	83	0	109	29	15	20	34	1.93
963694--963803	21	5.2	21	79	4	105	37	13	14	34	1.86
963694--963803	42	2.6	42	82	2	123	37	13	14	34	1.86
964699--964764	2	33.0	2	93	0	114	0	46	1	51	1.10
971930--971961	15	2.1	15	100	0	64	56	18	6	18	1.62
973985--974097	4	28.5	4	96	1	210	48	0	26	24	1.51
974102--974168	24	2.8	24	83	0	80	40	7	31	20	1.80
977736--977775	11	3.6	11	82	0	53	77	20	0	2	0.88
978223--978258	14	2.6	15	87	12	51	61	27	0	11	1.30
981163--981211	19	2.5	20	90	6	75	77	14	4	4	1.06
981163--981211	20	2.5	21	90	9	77	77	14	4	4	1.06
987876--987924	21	2.3	20	86	10	62	79	20	0	0	0.73
988885--989265	189	2.0	189	97	0	717	36	18	14	30	1.91
992702--992763	2	31.0	2	100	0	124	0	50	0	50	1.00
998943--999036	8	11.8	8	87	0	125	0	26	41	31	1.56
998933--999041	8	13.6	8	85	0	110	0	30	39	30	1.57
998933--999041	24	4.5	24	88	0	128	0	30	39	30	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
999050--999846	172	4.6	172	94	0	1319	28	19	15	36	1.92
999964--1000033	33	2.1	33	97	0	131	30	11	5	52	1.60
1001019--1001052	17	2.0	17	100	0	68	47	11	5	35	1.65
1015801--1015832	16	2.0	16	100	0	64	18	12	18	50	1.78
1019903--1019952	21	2.4	21	86	0	64	30	18	8	44	1.78
1021593--1021624	13	2.5	13	100	0	64	46	12	9	31	1.73
1030824--1030876	2	27.0	2	96	3	99	0	49	0	50	1.00
1034627--1034660	3	11.7	3	87	6	52	0	0	32	67	0.91
1035407--1035470	5	13.6	5	75	18	50	0	1	20	78	0.84
1035435--1035470	13	2.8	13	84	16	56	0	0	16	83	0.65
1035406--1035483	37	2.1	37	81	9	88	1	1	19	78	0.90
1037133--1037194	8	7.4	8	76	16	63	1	35	24	38	1.65
1037140--1037191	12	4.3	12	82	0	59	1	38	23	36	1.66
1043744--1043777	15	2.1	17	89	10	54	47	0	11	41	1.40
1045078--1045113	9	3.9	9	89	7	54	58	19	0	22	1.40
1045078--1045113	19	1.9	19	88	5	56	58	19	0	22	1.40
1045888--1045920	17	2.0	17	88	5	50	42	9	15	33	1.78
1045896--1045929	17	2.0	17	88	0	50	41	8	20	29	1.82
1057726--1057842	32	3.7	32	93	1	182	40	12	20	26	1.88
1059209--1059241	14	2.4	14	100	0	66	27	24	21	27	1.99
1059223--1059365	37	3.9	37	80	7	182	39	15	22	22	1.91
1060047--1060866	166	4.9	166	84	2	959	29	22	15	33	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1060056--1060867	333	2.4	329	85	3	1045	29	22	15	33	1.94
1061041--1061086	9	4.7	9	82	17	56	45	32	21	0	1.52
1061044--1061072	12	2.4	12	100	0	58	41	34	24	0	1.55
1061404--1062400	48	20.9	48	86	3	1341	21	25	18	34	1.96
1065891--1066289	39	10.2	39	85	0	465	30	17	17	34	1.93
1066511--1066648	39	3.5	39	88	2	195	34	17	12	35	1.87
1066146--1067008	364	2.4	366	92	0	1408	33	16	17	33	1.92
1066887--1067331	39	11.4	39	83	1	550	32	16	15	35	1.90
1067554--1067810	39	6.6	39	81	3	266	31	14	16	36	1.89
1067803--1067985	25	7.3	25	93	0	312	27	9	26	35	1.88

Tables:   1   2   3   4   5   6