oyster.v9_M.fa.s22.2.7.7.80.10.50.500.3.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: scaffold433
Parameters: 2 7 7 80 10 50 500
Length:  1285081

Tables:   1   2   3   4   

This is table  3  of  4  ( 437 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)
682204--682341	38	3.6	38	95	3	231	36	10	23	28	1.89
682532--682630	35	2.8	35	90	0	162	34	10	24	31	1.88
688410--688453	2	22.0	2	100	0	88	50	0	50	0	1.00
689279--689426	74	2.0	75	93	2	253	34	13	11	40	1.81
692882--692934	2	26.5	2	100	0	106	0	50	0	49	1.00
698457--699496	101	10.3	102	96	1	1855	15	22	29	32	1.95
698457--699496	152	6.9	152	96	0	1838	15	22	29	32	1.95
698457--699494	253	4.1	253	96	0	1868	15	23	29	32	1.95
702084--702178	48	2.0	48	95	0	172	38	7	16	36	1.77
704697--704729	16	2.1	16	100	0	66	42	18	33	6	1.75
704903--705037	35	3.9	35	93	3	227	38	20	15	25	1.92
709333--709405	30	2.3	31	86	6	103	38	15	6	39	1.74
717439--717539	48	2.1	48	96	0	184	32	20	19	26	1.97
717479--717667	59	3.2	59	93	0	315	30	23	19	26	1.98
717652--717720	24	3.0	24	73	14	81	24	23	21	30	1.99
727476--727527	2	26.0	2	100	0	104	0	50	0	50	1.00
729931--730623	20	34.6	20	79	6	625	32	43	8	15	1.77
730248--730441	30	6.1	30	68	15	113	30	46	8	14	1.74
730156--730623	130	3.7	129	85	4	569	31	44	8	15	1.76
741455--741517	2	31.5	2	100	0	126	49	0	0	50	1.00
743178--743209	2	16.0	2	100	0	64	50	0	0	50	1.00
746442--746468	12	2.2	12	100	0	54	48	29	0	22	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
775879--775915	17	2.2	17	90	0	56	43	2	24	29	1.68
781153--781183	15	2.1	15	100	0	62	38	6	6	48	1.55
784512--784542	15	2.1	15	100	0	62	0	0	25	74	0.82
784520--784544	12	2.1	12	100	0	50	0	0	24	76	0.80
794320--794409	45	2.0	45	100	0	180	24	20	31	24	1.98
794927--795026	49	2.0	49	100	0	200	45	12	7	36	1.68
798077--798130	14	3.9	14	73	9	56	46	11	42	0	1.39
799154--799309	10	16.1	10	66	20	66	21	2	16	59	1.48
799133--799311	29	6.2	29	98	0	331	21	2	16	60	1.46
801208--801331	34	3.6	34	83	6	160	42	20	11	25	1.85
804177--804291	2	58.5	2	96	3	216	0	50	0	49	1.00
805420--805457	3	12.7	3	88	0	58	31	0	34	34	1.58
809416--809995	37	15.7	38	84	7	677	32	19	13	34	1.91
816170--816212	18	2.5	17	81	11	52	72	9	6	11	1.29
823021--823112	25	3.7	25	75	10	89	19	14	23	42	1.88
834279--834309	16	1.9	16	93	0	53	41	9	29	19	1.83
837726--837773	23	2.1	23	88	7	71	8	31	12	47	1.71
843750--843777	14	2.0	14	100	0	56	28	7	28	35	1.84
847479--847520	2	21.5	2	95	4	77	47	0	52	0	1.00
860925--860962	20	1.9	20	100	0	76	42	5	21	31	1.75
870158--871022	34	25.0	34	75	6	639	41	19	15	23	1.90
870629--870936	152	2.0	152	80	1	339	40	18	15	24	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
873590--873630	21	2.0	21	85	9	57	36	14	19	29	1.92
873712--873791	21	3.8	21	88	0	115	30	20	12	37	1.89
876145--876940	31	25.7	31	95	2	1402	32	18	7	41	1.78
877660--877760	30	3.4	30	92	0	166	35	0	30	33	1.58
877645--877791	60	2.5	60	82	2	179	37	0	27	35	1.57
878119--879457	32	41.7	32	87	2	1799	27	24	13	35	1.92
878318--878460	51	2.8	51	96	0	259	28	24	15	31	1.95
878267--878520	83	3.1	81	71	12	246	27	25	14	33	1.94
881525--881560	18	2.0	18	88	0	54	41	8	13	36	1.75
889579--889660	41	2.0	41	97	0	155	41	19	25	13	1.88
893093--893224	62	2.1	62	92	0	219	25	12	16	45	1.82
893401--893485	43	2.0	43	92	0	143	35	28	15	21	1.93
894149--894276	21	6.1	21	86	5	179	34	21	18	25	1.96
894149--894270	63	1.9	63	91	3	201	33	22	19	24	1.97
895132--895262	21	6.2	21	91	2	192	25	19	23	30	1.98
897227--897258	13	2.6	12	90	9	55	37	15	3	43	1.63
898687--898713	2	13.5	2	100	0	54	0	48	0	51	1.00
903085--903169	41	2.1	41	97	0	161	24	7	32	35	1.83
903906--904028	60	2.0	60	93	0	210	27	16	13	43	1.85
910372--910451	41	2.0	41	92	0	133	27	7	31	33	1.85
911075--911147	2	36.5	2	100	0	146	0	49	0	50	1.00
914271--914328	20	2.9	20	86	0	80	43	13	5	37	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
915374--915410	19	1.9	19	88	0	56	37	35	8	18	1.81
917771--917797	12	2.2	12	100	0	54	25	37	7	29	1.83
925947--926004	4	14.5	4	85	0	62	34	22	41	1	1.64
925938--925997	16	4.0	16	81	16	83	36	23	40	0	1.55
926534--926587	12	4.5	11	86	13	63	85	14	0	0	0.61
926547--926591	17	2.6	17	92	3	72	84	15	0	0	0.62
926533--926591	30	1.9	31	86	10	86	84	15	0	0	0.62
927559--927594	18	2.0	18	100	0	72	38	5	27	27	1.79
935418--935452	3	11.7	3	100	0	70	68	31	0	0	0.90
944810--944942	66	2.0	66	94	0	230	35	14	12	37	1.84
946812--946945	66	2.0	66	89	0	205	35	15	12	35	1.86
950279--950303	11	2.3	11	100	0	50	16	28	8	48	1.74
950512--950570	2	29.5	2	100	0	118	0	49	0	50	1.00
972505--972566	2	31.0	2	100	0	124	50	0	0	50	1.00
973053--973177	22	5.7	22	84	0	178	32	16	17	33	1.93
973055--973175	44	2.8	44	98	0	233	32	17	18	32	1.94
973053--973205	66	2.3	66	82	3	180	35	15	16	32	1.90
974362--974812	165	2.7	166	81	4	510	31	16	25	26	1.96
976322--976353	15	2.1	16	94	5	57	18	12	3	65	1.38
981334--981544	88	2.4	88	91	1	334	33	18	18	30	1.95
981924--981969	22	2.0	23	91	4	76	26	2	21	50	1.60
994409--994515	21	5.1	21	84	0	142	36	24	20	18	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
996007--996087	21	3.8	21	81	3	81	28	32	17	22	1.96
996002--996066	21	3.0	21	84	4	85	23	35	20	21	1.96
996058--996148	21	4.3	21	87	0	137	38	26	17	17	1.92
997126--997400	54	5.1	54	97	0	487	22	12	36	28	1.91
1000441--1000508	31	2.2	31	100	0	136	42	8	32	16	1.79
1015593--1016106	63	8.2	63	97	0	949	33	32	14	19	1.92
1020388--1020729	166	2.0	165	87	6	492	26	26	14	31	1.95
1042745--1042771	2	13.5	2	100	0	54	0	51	0	48	1.00
1046782--1047149	46	8.9	45	81	12	335	22	30	13	33	1.92
1046912--1047431	35	14.2	35	85	6	553	23	31	10	33	1.90
1071387--1071513	63	2.0	63	100	0	254	33	17	18	30	1.94
1072917--1072942	13	2.0	13	100	0	52	30	0	0	69	0.89
1076279--1076326	18	2.7	18	77	6	53	43	18	20	16	1.88
1077365--1077423	27	2.2	27	96	0	109	62	16	11	8	1.52
1080507--1081279	389	2.0	388	99	0	1519	32	12	12	42	1.79
1082638--1082704	31	2.2	31	97	0	125	32	17	7	41	1.78
1085465--1085499	16	2.2	16	94	0	61	28	20	22	28	1.98
1085472--1085510	16	2.6	16	88	8	55	28	25	12	33	1.93
1085851--1085888	10	3.8	10	80	13	51	52	5	7	34	1.53
1085980--1086060	35	2.3	35	85	4	101	41	11	6	40	1.65
1086001--1086047	15	3.1	15	81	0	58	40	10	2	46	1.50
1085995--1086084	15	5.7	15	72	12	54	44	13	3	38	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1086120--1086163	20	2.2	20	87	0	61	43	11	2	43	1.53
1086140--1086180	15	2.7	15	80	0	55	41	9	9	39	1.71
1085980--1086178	50	4.0	50	74	6	170	42	12	5	40	1.64
1086318--1086379	15	4.3	15	68	25	53	43	6	4	45	1.51
1086364--1086417	20	2.7	20	82	5	56	44	12	7	35	1.71
1087314--1087350	19	1.9	19	88	0	56	40	32	5	21	1.76
1087089--1087811	177	4.2	174	86	6	909	33	24	16	24	1.96
1087294--1087801	163	3.0	165	83	9	591	33	25	16	24	1.96
1087477--1087513	19	1.9	19	88	0	56	40	32	5	21	1.76
1087650--1087691	19	2.2	19	86	0	57	38	33	4	23	1.76

Tables:   1   2   3   4