oyster.v9_M.fa.s8.2.7.7.80.10.50.500.4.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: scaffold86
Parameters: 2 7 7 80 10 50 500
Length:  1697160

Tables:   1   2   3   4   5   6   

This is table  4  of  6  ( 603 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)
956561--956635	39	1.9	39	97	0	141	36	18	8	37	1.80
959092--959132	22	2.0	22	85	9	59	26	29	9	34	1.88
960695--960719	13	1.9	13	100	0	50	8	8	28	56	1.57
960740--960780	11	3.7	11	87	12	66	9	12	26	51	1.70
960741--960794	22	2.5	22	90	0	81	11	12	24	51	1.72
964377--964418	20	2.0	22	86	9	61	26	9	19	45	1.80
965779--965811	15	2.2	15	100	0	66	33	39	12	15	1.84
965793--966296	28	18.1	28	90	2	777	25	33	13	26	1.93
966913--967016	22	4.8	22	86	1	120	28	11	28	30	1.92
972683--972709	12	2.2	12	100	0	54	51	7	40	0	1.30
975581--975619	2	19.5	2	100	0	78	0	48	0	51	1.00
977943--977976	17	2.1	16	94	5	59	20	35	14	29	1.93
979004--979074	10	6.8	10	92	7	115	42	39	16	1	1.57
979004--979074	21	3.4	21	96	3	126	42	39	16	1	1.57
979229--979749	166	3.1	166	89	4	769	36	27	14	21	1.93
979661--979799	73	1.9	72	82	4	172	41	23	12	22	1.87
979913--979982	2	35.0	2	100	0	140	0	50	0	50	1.00
979986--980456	47	10.0	47	78	5	457	15	28	20	35	1.93
979986--980336	99	3.7	99	81	8	316	15	27	21	35	1.93
980007--980449	239	1.9	239	86	5	637	15	27	20	35	1.93
987151--987198	20	2.4	20	82	0	69	45	2	0	52	1.12
987559--987650	21	4.4	21	85	0	121	22	18	19	39	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
987559--987650	42	2.2	42	90	3	141	22	18	19	39	1.93
987716--987889	21	8.3	21	85	1	215	38	18	14	28	1.90
987926--988024	21	4.7	21	75	0	99	30	11	14	44	1.79
987926--988024	42	2.4	42	87	0	135	30	11	14	44	1.79
988103--988196	21	4.5	21	86	0	107	42	17	14	25	1.87
988103--988196	42	2.2	42	86	0	125	42	17	14	25	1.87
991617--991751	42	3.2	42	70	4	119	31	20	11	37	1.87
991635--991697	21	3.0	21	73	0	63	36	19	3	41	1.67
992560--992605	21	2.1	22	96	4	85	50	0	15	34	1.44
993876--993944	21	3.3	20	76	15	68	46	4	15	33	1.66
993973--994033	21	2.9	21	75	0	68	42	3	18	36	1.66
993875--994033	42	3.8	42	73	3	140	40	6	20	32	1.79
993917--994051	42	3.2	42	69	8	112	37	11	20	31	1.87
993909--994068	84	1.9	84	85	0	221	37	10	20	31	1.86
994235--994278	21	2.1	21	91	4	72	36	6	20	36	1.79
1005328--1005373	2	23.5	2	91	4	76	52	0	47	0	1.00
1006411--1006450	19	2.1	19	90	0	62	37	37	2	22	1.68
1006216--1006632	177	2.4	177	89	0	620	33	26	16	23	1.95
1006216--1006724	177	2.9	174	82	5	529	33	25	16	24	1.96
1008363--1008401	16	2.6	15	88	8	53	28	30	10	30	1.90
1010857--1011382	176	3.0	175	91	2	813	33	26	16	24	1.96
1011166--1011205	19	2.1	19	85	0	53	42	32	5	20	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1011342--1011383	19	2.2	19	86	0	57	40	33	4	21	1.74
1015170--1015220	2	25.5	2	100	0	102	50	0	49	0	1.00
1022552--1022589	2	19.0	2	100	0	76	0	50	0	50	1.00
1022966--1023017	21	2.4	21	96	3	95	23	11	15	50	1.76
1023597--1023627	16	1.9	16	93	0	53	12	3	3	80	0.95
1027705--1027757	2	26.5	2	100	0	106	49	0	50	0	1.00
1032565--1032752	100	1.9	100	98	0	367	26	20	24	28	1.99
1039693--1039840	75	2.0	72	85	3	197	31	31	10	27	1.91
1039009--1040006	382	2.6	375	97	1	1854	36	21	11	29	1.89
1040144--1040196	18	3.0	17	82	17	72	84	13	1	0	0.69
1044544--1044571	14	2.0	14	100	0	56	42	14	21	21	1.88
1047644--1047692	21	2.4	20	79	6	53	46	10	6	36	1.63
1048581--1048640	21	2.9	21	92	0	84	36	21	13	28	1.91
1053586--1053619	17	2.0	17	94	0	59	35	20	23	20	1.96
1060990--1061045	2	28.0	2	88	0	85	50	44	5	0	1.25
1063041--1063071	11	2.8	11	90	0	53	22	9	9	58	1.59
1064268--1064298	2	15.5	2	93	0	53	54	0	45	0	0.99
1065172--1066122	331	2.9	330	83	5	1230	39	15	17	28	1.90
1065189--1066122	166	5.7	166	84	3	1154	38	15	17	28	1.90
1076501--1076634	70	1.9	70	96	3	252	34	5	15	44	1.71
1078690--1079130	223	2.0	222	100	0	873	24	23	14	36	1.93
1092412--1092468	17	3.4	17	92	0	96	26	14	12	47	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1092423--1092468	9	5.3	9	74	10	51	26	13	13	47	1.78
1109403--1109438	14	2.6	14	91	8	56	77	22	0	0	0.76
1113333--1113444	53	2.1	53	98	0	215	43	16	19	20	1.88
1118148--1118202	2	27.5	2	100	0	110	50	0	49	0	1.00
1121576--1121604	2	14.5	2	100	0	58	0	51	0	48	1.00
1127664--1127708	21	2.1	21	100	0	90	17	8	28	44	1.79
1134897--1135121	113	2.0	112	100	0	441	32	16	22	28	1.95
1135010--1135717	173	4.2	168	89	5	1052	32	14	25	27	1.94
1135010--1135717	165	4.2	166	88	5	1053	32	14	25	27	1.94
1135010--1135717	338	2.1	338	93	1	1195	32	14	25	27	1.94
1143889--1143923	4	8.8	4	87	0	52	22	28	0	48	1.51
1144870--1144933	4	16.0	4	80	0	74	25	32	1	40	1.65
1144870--1144933	12	5.3	12	83	7	85	25	32	1	40	1.65
1147653--1147729	38	2.1	38	85	2	102	33	16	23	25	1.96
1147925--1148042	38	3.2	35	78	7	110	36	11	24	27	1.89
1147976--1148118	38	3.8	38	76	3	110	38	11	20	29	1.88
1153578--1153709	53	2.5	53	86	2	176	21	20	19	37	1.94
1167445--1167497	2	26.5	2	100	0	106	0	50	0	49	1.00
1169000--1169068	33	2.1	33	100	0	138	30	11	10	47	1.73
1169512--1169556	21	2.1	21	87	0	63	20	28	24	26	1.99
1172612--1172677	17	3.9	17	97	0	123	34	12	22	30	1.91
1173519--1173704	40	4.6	40	74	12	173	13	21	10	53	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1174416--1174488	36	2.0	36	89	0	110	27	6	19	46	1.75
1181293--1181339	15	3.1	15	93	0	85	40	12	6	40	1.69
1189135--1189176	18	2.4	18	96	4	77	26	16	4	52	1.63
1191645--1191716	35	2.1	35	91	0	117	37	22	12	27	1.90
1193802--1193858	28	2.0	28	100	0	114	31	7	35	26	1.83
1193830--1194192	40	9.1	40	91	0	591	32	7	34	25	1.84
1194322--1194772	20	22.1	20	68	15	172	24	7	34	33	1.83
1194491--1194768	40	6.8	40	72	13	190	25	6	34	33	1.82
1194558--1194782	80	2.8	80	85	2	247	25	6	33	33	1.82
1196104--1196286	92	2.0	91	100	0	357	45	19	16	17	1.84
1196327--1196351	1	25.0	1	100	0	50	0	100	0	0	0.00
1197619--1197666	4	12.0	4	81	0	51	39	25	35	0	1.56
1197622--1197666	8	5.6	8	89	0	72	37	24	37	0	1.56
1197619--1197666	12	4.0	12	88	0	69	39	25	35	0	1.56
1199352--1199811	165	2.8	166	87	4	660	40	15	16	28	1.88
1199837--1199870	16	2.1	16	94	0	59	35	26	38	0	1.57
1199837--1199874	20	1.9	20	100	0	76	36	26	36	0	1.57
1227477--1227519	2	21.5	2	95	0	77	0	51	0	48	1.00
1232577--1232613	16	2.3	16	90	0	56	37	37	5	18	1.74
1233443--1233481	16	2.4	16	91	0	60	25	12	25	35	1.92
1235241--1235266	13	2.0	13	100	0	52	30	23	0	46	1.53
1236953--1237443	21	23.1	21	82	3	563	40	10	17	31	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1236953--1237442	64	7.7	63	84	3	554	40	10	17	31	1.83
1236954--1237443	85	5.8	85	85	4	578	40	10	17	31	1.83
1241377--1241408	2	16.0	2	100	0	64	0	50	0	50	1.00
1251139--1251178	2	20.5	2	94	5	73	50	0	50	0	1.00
1257672--1258395	362	2.0	361	99	0	1439	30	17	16	34	1.93
1259518--1259586	35	2.0	35	97	0	129	24	18	10	46	1.80
1260700--1260738	16	2.4	16	82	0	51	58	20	15	5	1.55
1266660--1267565	180	5.0	180	94	1	1532	37	18	14	29	1.90
1272112--1272136	12	2.1	12	100	0	50	68	0	8	24	1.16
1278875--1278916	13	3.3	13	73	6	50	4	26	2	66	1.23

Tables:   1   2   3   4   5   6