oyster.v9_M.fa.s16.2.7.7.80.10.50.500.4.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: scaffold501
Parameters: 2 7 7 80 10 50 500
Length:  1397941

Tables:   1   2   3   4   5   

This is table  4  of  5  ( 512 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)
1021403--1021451	2	24.5	2	100	0	98	0	0	51	48	1.00
1023425--1023467	3	14.3	3	90	0	68	37	27	0	34	1.57
1023523--1023565	15	2.7	16	89	7	61	2	20	30	46	1.63
1023734--1024344	166	3.7	163	82	5	711	32	17	22	27	1.96
1024226--1024480	127	2.0	128	89	0	386	29	17	24	28	1.97
1024069--1024646	293	2.0	284	81	6	680	31	17	23	28	1.97
1024389--1024870	157	3.0	162	77	12	488	34	16	20	28	1.95
1024353--1024860	166	3.1	160	78	12	466	33	16	20	28	1.95
1023903--1024763	450	1.9	450	88	2	1309	32	17	21	28	1.96
1027955--1027985	14	2.2	14	94	0	53	45	16	12	25	1.83
1028167--1028197	14	2.2	14	94	0	53	45	16	12	25	1.83
1027883--1028302	212	2.0	211	99	0	831	36	21	15	26	1.93
1030676--1030708	9	3.7	9	100	0	66	21	48	9	21	1.77
1030694--1030762	33	2.1	33	91	0	111	20	52	8	18	1.72
1030940--1030989	24	2.0	24	88	11	75	50	0	0	48	1.01
1030940--1030997	26	2.2	25	85	11	73	50	1	0	46	1.11
1031738--1031793	29	1.9	29	88	0	85	48	10	25	16	1.78
1036852--1036907	2	28.0	2	100	0	112	0	50	0	50	1.00
1042638--1042976	114	3.0	114	100	0	678	37	12	11	38	1.80
1047356--1047382	6	4.5	6	100	0	54	51	14	14	18	1.76
1064681--1065092	20	18.8	20	80	14	401	30	34	16	18	1.93
1064730--1064948	26	9.1	26	81	14	258	31	34	17	16	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1064681--1065092	66	6.2	66	77	13	429	30	34	16	18	1.93
1064690--1065092	46	9.0	46	79	14	425	31	33	16	18	1.93
1067383--1067419	18	2.1	17	90	10	56	29	2	0	67	1.04
1080448--1080501	23	2.3	23	96	0	99	42	7	7	42	1.61
1081942--1081972	16	1.9	16	93	0	53	41	12	19	25	1.87
1086946--1087047	39	2.6	39	92	0	159	15	26	8	49	1.74
1089466--1089519	28	1.9	28	92	0	90	31	14	12	40	1.84
1095127--1095171	22	1.9	25	86	13	69	46	0	6	46	1.29
1097211--1097278	2	34.5	2	97	2	129	48	0	51	0	1.00
1117640--1117837	42	4.7	43	89	0	256	21	17	37	23	1.93
1117640--1117752	32	3.6	31	78	13	108	17	20	39	22	1.92
1117640--1117838	10	18.9	10	73	12	89	21	17	38	23	1.93
1120644--1120670	13	2.1	13	100	0	54	37	7	14	40	1.74
1123830--1124009	4	45.0	4	94	0	297	1	46	2	50	1.24
1130178--1130209	16	2.0	16	93	0	55	25	3	31	40	1.71
1134983--1135054	36	2.0	35	94	2	126	44	18	12	25	1.84
1137767--1137822	9	6.1	9	85	2	76	1	21	35	41	1.64
1137767--1137822	18	3.1	18	92	2	85	1	21	35	41	1.64
1140859--1140891	2	16.5	2	100	0	66	0	48	0	51	1.00
1140937--1140963	14	1.9	14	100	0	54	44	0	14	40	1.46
1145992--1146066	36	2.1	36	97	0	141	40	20	16	24	1.91
1151235--1151260	13	2.0	13	100	0	52	23	23	15	38	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1151994--1152040	21	2.2	21	85	7	60	31	10	21	36	1.88
1165682--1166803	166	6.8	166	86	2	1456	39	15	16	28	1.89
1165682--1166803	331	3.4	331	85	2	1479	39	15	16	28	1.89
1168010--1168050	20	2.0	20	90	0	64	36	29	12	21	1.90
1172796--1172838	2	21.5	2	100	0	86	51	0	48	0	1.00
1174967--1175678	152	4.9	146	85	5	940	29	21	19	29	1.97
1174967--1175678	298	2.5	290	85	6	923	29	21	19	29	1.97
1174990--1175678	145	4.7	146	85	4	908	29	20	19	29	1.98
1184389--1184462	26	2.8	26	85	0	103	36	27	13	22	1.92
1185620--1185653	10	3.4	10	87	0	50	20	8	29	41	1.82
1185620--1185653	15	2.3	15	94	0	59	20	8	29	41	1.82
1185847--1185934	21	4.2	20	88	4	122	27	13	22	36	1.92
1192481--1192872	200	2.0	200	99	0	775	33	15	12	38	1.86
1192966--1193090	10	11.9	11	82	8	136	37	32	8	21	1.84
1192967--1193090	21	6.0	21	83	4	137	37	32	8	20	1.84
1192966--1193090	42	3.0	43	81	9	159	37	32	8	21	1.84
1194866--1194944	2	39.5	2	97	0	149	48	0	51	0	1.00
1195224--1195265	2	21.0	2	100	0	84	50	0	50	0	1.00
1198003--1198087	11	8.0	11	88	7	131	17	9	35	37	1.82
1198003--1198087	21	4.0	21	90	6	111	17	9	35	37	1.82
1198003--1198086	32	2.7	32	94	1	143	16	9	35	38	1.81
1209722--1209798	33	2.4	33	89	10	131	27	15	24	32	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1224876--1224919	11	4.0	11	81	0	52	25	22	20	31	1.98
1226718--1226777	20	3.1	19	78	7	66	45	5	11	38	1.63
1242422--1242473	22	2.4	22	87	6	70	11	34	13	40	1.81
1243676--1243720	10	4.5	10	82	0	54	46	13	4	35	1.63
1243688--1243730	20	2.1	20	86	0	59	46	11	0	41	1.40
1246230--1247183	181	5.3	181	91	0	1453	23	23	27	25	2.00
1247851--1247941	31	2.9	31	85	3	112	26	16	26	30	1.97
1251315--1251345	15	2.1	15	93	0	53	90	0	9	0	0.46
1252927--1252952	13	2.0	13	100	0	52	0	46	0	53	1.00
1252924--1252952	15	1.9	15	100	0	58	0	44	0	55	0.99
1253647--1253698	4	13.0	4	87	0	68	30	25	42	1	1.66
1253638--1253689	16	3.2	16	94	0	86	34	25	40	0	1.56
1255393--1255424	16	2.0	16	100	0	64	37	25	37	0	1.56
1256781--1256813	17	1.9	17	100	0	66	24	21	24	30	1.99
1260137--1260515	189	2.0	189	98	1	742	28	29	16	25	1.96
1268583--1268620	18	2.1	18	95	0	67	18	47	23	10	1.79
1269347--1269371	2	12.5	2	100	0	50	52	0	0	48	1.00
1269599--1270402	146	5.5	145	89	2	1128	29	21	18	29	1.97
1269599--1270404	293	2.7	291	89	2	1179	30	21	18	29	1.97
1270412--1270463	12	4.3	12	87	0	68	38	25	36	0	1.56
1270409--1270458	16	3.1	16	88	0	73	40	26	34	0	1.56
1270639--1270678	18	2.2	18	90	0	62	67	5	2	25	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1274851--1274970	21	5.8	21	94	1	206	28	22	5	43	1.76
1275280--1275313	17	2.0	17	88	0	50	26	44	8	20	1.81
1275375--1275415	2	20.5	2	89	0	64	51	2	2	43	1.28
1275596--1275664	21	3.3	21	79	0	75	31	15	8	43	1.78
1275647--1275734	42	2.1	42	87	4	124	36	12	13	37	1.83
1275669--1275764	21	4.6	21	80	0	84	34	10	14	40	1.80
1275711--1275788	21	3.8	21	89	5	99	33	7	15	43	1.75
1275791--1275864	21	3.6	21	85	3	105	31	21	6	40	1.79
1275862--1275934	20	3.6	20	86	1	101	42	5	20	31	1.75
1276202--1276231	4	7.8	4	92	7	53	23	0	0	76	0.78
1276202--1276231	11	2.6	12	89	10	53	23	0	0	76	0.78
1280494--1280662	91	1.9	90	90	3	268	28	13	24	33	1.93
1281126--1281168	21	2.0	21	90	0	68	41	6	11	39	1.68
1291411--1291477	4	16.8	4	83	6	73	49	41	1	7	1.40
1291414--1291465	10	5.2	10	85	0	68	50	40	0	9	1.35
1291411--1291477	14	4.6	14	85	10	91	49	41	1	7	1.40
1298043--1298335	162	1.8	161	89	3	464	32	14	18	34	1.91
1298658--1298706	25	2.0	25	100	0	98	32	4	24	38	1.74
1314748--1314772	1	25.0	1	100	0	50	0	100	0	0	0.00
1315601--1316221	168	3.7	166	82	4	730	30	19	19	30	1.97
1315601--1316221	335	1.9	335	83	4	813	30	19	19	30	1.97
1318230--1318497	135	2.0	135	81	6	312	26	20	26	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1321693--1321734	21	2.0	21	100	0	84	42	9	4	42	1.58
1326296--1326320	2	12.5	2	100	0	50	48	0	52	0	1.00
1327386--1327421	2	18.0	2	100	0	72	50	0	50	0	1.00
1327525--1327562	11	3.5	11	85	0	58	26	21	0	52	1.47
1328119--1328180	32	1.9	33	93	3	108	45	4	11	38	1.61
1328278--1328304	2	13.5	2	100	0	54	48	0	51	0	1.00
1348509--1349089	165	3.5	165	86	4	796	28	16	16	39	1.90
1348510--1349108	331	1.8	331	87	3	893	27	17	16	39	1.90
1349686--1349742	2	29.0	2	96	3	107	0	50	0	49	1.00
1349962--1350010	20	2.4	20	79	3	53	30	32	26	10	1.89

Tables:   1   2   3   4   5