oyster.v9_M.fa.s12.2.7.7.80.10.50.500.4.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: scaffold198
Parameters: 2 7 7 80 10 50 500
Length:  1589021

Tables:   1   2   3   4   5   

This is table  4  of  5  ( 568 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)
1067732--1067789	17	3.4	17	65	25	50	27	10	27	34	1.89
1067574--1067798	34	6.3	34	71	18	181	29	13	19	37	1.90
1067978--1068035	23	2.5	24	78	13	68	41	18	18	20	1.91
1075421--1075509	21	4.2	21	84	5	108	38	14	12	34	1.84
1077502--1077541	21	1.9	21	100	0	80	32	15	20	32	1.93
1081218--1081351	68	2.0	68	90	0	214	26	22	12	38	1.90
1081453--1081527	21	3.6	21	77	13	82	37	32	8	22	1.83
1081449--1081744	42	7.2	41	81	7	286	35	29	10	24	1.89
1081531--1081558	14	2.0	14	100	0	56	28	42	7	21	1.79
1081544--1081938	21	18.6	21	73	9	268	36	27	12	24	1.91
1081632--1081916	151	1.9	152	85	5	398	36	28	11	23	1.90
1082167--1082228	30	2.0	32	87	12	94	35	14	25	24	1.93
1083919--1083994	28	2.6	28	83	10	91	42	22	10	25	1.85
1084710--1084784	38	2.0	38	84	5	98	30	22	13	33	1.92
1087396--1088324	28	33.2	28	94	0	1615	25	7	27	39	1.83
1089120--1089858	80	9.2	80	83	2	815	21	17	24	36	1.94
1089120--1089862	120	6.2	119	80	3	731	21	17	24	36	1.95
1089155--1089878	40	18.1	40	77	5	590	20	17	24	37	1.94
1091902--1092057	34	4.6	34	93	0	249	23	25	16	35	1.95
1092473--1093030	42	13.0	42	87	6	753	28	37	11	22	1.89
1092473--1093030	175	3.2	175	93	3	938	28	37	11	22	1.89
1092485--1093030	217	2.5	211	86	6	799	28	38	11	21	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1098058--1098327	27	10.3	27	75	12	163	28	23	19	29	1.98
1102322--1102346	9	2.8	9	100	0	50	44	0	8	48	1.32
1103012--1103052	21	1.9	21	85	5	55	56	12	9	21	1.65
1106723--1107513	38	20.8	38	99	0	1564	39	20	13	26	1.89
1114824--1114914	44	2.1	44	97	0	173	31	23	8	36	1.85
1118778--1118884	35	3.1	35	94	0	187	32	14	14	37	1.88
1127025--1127599	61	9.4	61	89	3	745	10	8	36	44	1.70
1127025--1127599	183	3.1	183	88	1	823	10	8	36	44	1.70
1127445--1127741	161	1.9	153	86	6	416	9	8	38	43	1.68
1127508--1127699	100	1.9	100	94	0	339	8	8	39	43	1.67
1127541--1127741	53	3.9	53	73	13	186	8	8	38	44	1.66
1131923--1132076	21	7.3	21	92	0	263	37	14	16	31	1.89
1139993--1140063	20	3.6	20	72	14	67	52	14	1	32	1.50
1140032--1140056	13	1.9	13	100	0	50	44	16	0	40	1.47
1140292--1140415	15	7.7	15	71	21	83	46	12	3	37	1.58
1140294--1140494	50	4.1	49	76	10	164	46	11	4	36	1.62
1140372--1140406	18	1.9	18	94	0	61	51	8	0	40	1.33
1140290--1140494	98	2.1	98	87	4	290	46	11	4	36	1.62
1140615--1140649	18	1.9	18	88	11	54	48	17	2	31	1.61
1140715--1140767	20	2.6	20	85	5	72	39	15	3	41	1.65
1141424--1142221	177	4.5	177	86	4	941	33	25	17	24	1.96
1141891--1141930	19	2.1	19	90	0	62	37	37	2	22	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1146513--1146563	21	2.4	21	87	6	68	33	39	15	11	1.84
1146805--1146863	21	2.8	21	77	10	66	18	35	18	27	1.94
1147587--1147646	18	3.3	18	74	6	59	51	8	3	36	1.49
1147807--1147992	15	11.5	15	65	21	65	45	10	4	40	1.58
1147895--1147998	48	2.2	48	78	3	120	43	9	6	40	1.64
1148966--1149882	177	5.2	178	91	1	1244	33	27	15	23	1.95
1149471--1149512	19	2.2	19	86	0	57	40	33	4	21	1.74
1149479--1149518	19	2.1	19	90	0	62	37	37	2	22	1.68
1149656--1149695	19	2.1	19	85	0	53	40	37	2	20	1.66
1148966--1149877	353	2.6	353	87	2	1262	33	27	15	23	1.95
1148966--1149986	353	2.9	351	84	4	1227	33	26	16	23	1.96
1148966--1149986	177	5.8	174	89	2	1119	33	26	16	23	1.96
1152881--1152907	2	13.5	2	100	0	54	48	0	51	0	1.00
1154698--1154733	3	12.0	3	87	0	54	2	27	0	69	1.02
1157717--1157758	21	2.0	22	85	4	59	26	16	23	33	1.96
1162220--1162538	166	1.9	166	85	5	437	23	18	24	34	1.96
1164700--1165151	172	2.6	172	93	1	773	29	18	15	36	1.92
1166593--1166637	19	2.3	20	88	3	65	8	33	31	26	1.87
1168104--1168148	2	22.5	2	100	0	90	51	0	48	0	1.00
1168473--1168524	2	26.0	2	100	0	104	0	50	0	50	1.00
1169838--1170208	180	2.1	180	91	0	600	29	15	18	35	1.92
1173822--1174639	38	21.6	38	92	2	1317	32	35	10	21	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1181025--1181057	17	1.9	17	93	0	57	42	0	6	51	1.26
1190598--1190639	2	21.0	2	100	0	84	50	0	50	0	1.00
1195106--1195131	12	2.2	12	100	0	52	42	7	7	42	1.62
1195669--1195697	11	2.7	11	94	5	51	10	0	0	89	0.48
1195661--1195695	17	2.1	16	89	5	52	11	0	0	88	0.51
1195669--1195694	10	2.6	10	100	0	52	7	0	0	92	0.39
1196891--1197059	22	7.5	22	81	3	194	30	12	28	28	1.93
1196897--1197059	45	3.6	45	94	0	274	29	12	29	28	1.93
1196881--1197018	67	2.0	68	90	1	215	29	11	28	30	1.92
1196881--1197059	67	2.7	67	84	2	198	30	11	27	29	1.92
1197223--1197265	17	2.5	17	92	3	68	79	13	4	2	1.00
1197235--1197282	15	3.1	15	85	8	53	79	10	0	10	0.95
1220399--1220434	1	36.0	1	100	0	72	100	0	0	0	0.00
1223962--1223997	18	2.0	18	100	0	72	50	11	0	38	1.38
1226256--1226341	39	2.2	39	82	2	100	32	17	12	37	1.88
1227206--1227257	2	26.0	2	96	0	95	0	48	0	51	1.00
1227257--1227298	2	21.0	2	100	0	84	50	50	0	0	1.00
1227662--1227714	12	4.4	12	81	9	63	5	3	33	56	1.41
1227779--1227825	24	2.0	24	83	8	60	12	27	21	38	1.90
1228214--1228343	63	2.1	63	97	0	242	29	13	22	34	1.93
1229424--1229471	13	3.7	13	85	0	69	50	2	12	35	1.52
1230892--1230948	2	29.0	2	92	3	98	1	47	0	50	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1231159--1231338	36	5.0	36	100	0	360	50	19	16	13	1.79
1236362--1236395	15	2.2	16	89	5	52	32	20	8	38	1.84
1243391--1243556	21	7.6	21	71	14	113	34	10	13	41	1.79
1243393--1243556	43	3.7	42	77	15	170	34	10	13	41	1.79
1244059--1244254	22	8.8	22	74	9	130	40	12	8	38	1.74
1244061--1244294	43	5.3	43	71	12	145	38	11	8	41	1.71
1244200--1244294	22	4.4	21	80	11	86	38	8	8	44	1.65
1244057--1244339	21	13.0	21	70	11	106	38	10	8	43	1.68
1248411--1250128	169	10.2	166	88	5	2368	26	26	15	31	1.95
1248411--1250128	340	5.1	339	87	6	2482	26	26	15	31	1.95
1255889--1256266	32	11.7	32	83	3	427	25	25	14	34	1.94
1255889--1256266	162	2.3	162	94	0	650	25	25	14	34	1.94
1260544--1260709	38	4.4	38	100	0	332	39	28	13	18	1.88
1275012--1275187	28	6.3	28	88	0	262	25	14	19	39	1.90
1276813--1276852	2	20.0	2	100	0	80	50	0	50	0	1.00
1282683--1282748	34	1.9	34	87	0	96	27	15	21	36	1.93
1286722--1286748	13	2.1	13	100	0	54	55	14	22	7	1.64
1286735--1286787	27	1.9	28	96	3	99	43	11	22	22	1.85
1303115--1303204	38	2.4	38	100	0	180	44	18	5	31	1.73
1303191--1303481	20	14.7	20	71	12	127	36	19	12	31	1.89
1303227--1303371	58	2.4	62	85	7	183	39	19	9	31	1.84
1303361--1303471	40	2.8	40	85	0	150	31	17	18	33	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1303448--1303592	63	2.4	60	84	7	179	37	17	9	34	1.83
1303220--1303681	221	2.1	221	95	0	836	36	17	12	33	1.88
1303582--1303671	20	4.5	20	83	1	110	31	14	20	34	1.92
1303663--1303751	45	2.0	45	93	0	151	34	20	7	37	1.82
1303666--1303751	25	3.7	24	72	15	81	36	19	6	37	1.79
1303711--1303760	25	1.9	25	84	8	64	38	22	8	32	1.83
1312534--1312724	47	4.1	47	89	0	283	25	13	23	37	1.91
1315106--1315277	85	2.0	85	100	0	344	34	22	20	22	1.96
1315775--1316060	33	8.7	33	93	0	493	37	17	22	22	1.94
1316749--1317375	166	3.8	166	88	1	911	40	15	16	27	1.89

Tables:   1   2   3   4   5