oyster.v9_M.fa.s7.2.7.7.80.10.50.500.3.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: scaffold1532
Parameters: 2 7 7 80 10 50 500
Length:  1715538

Tables:   1   2   3   4   5   

This is table  3  of  5  ( 495 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)
873274--873323	2	25.0	2	100	0	100	0	50	0	50	1.00
875213--875291	4	19.8	4	100	0	158	25	24	0	50	1.49
875322--875371	4	12.5	4	87	8	75	28	46	0	26	1.53
876869--876902	2	17.0	2	93	0	59	0	47	0	52	1.00
890753--890816	22	2.9	22	88	0	101	29	25	20	25	1.99
902064--902088	13	1.9	13	100	0	50	44	0	48	8	1.32
910757--910795	20	1.9	20	90	10	62	17	5	25	51	1.66
921582--921615	13	2.6	13	90	0	59	67	14	5	11	1.39
925722--925758	16	2.3	15	86	13	56	27	16	32	24	1.96
928254--928278	13	1.9	13	100	0	50	40	28	16	16	1.89
928829--928907	21	3.8	21	86	5	106	40	25	7	26	1.82
929415--929458	21	2.1	21	86	0	61	29	31	18	20	1.96
929372--929590	105	2.1	105	85	0	294	29	27	18	24	1.98
929520--930239	21	34.4	21	67	8	212	29	27	18	23	1.98
929599--930033	106	4.1	104	79	5	419	29	28	18	23	1.98
930089--930401	108	3.0	105	80	7	319	25	27	19	27	1.99
930280--930347	21	3.2	21	70	15	59	19	30	20	29	1.97
930885--930970	21	4.0	21	71	13	75	26	25	18	29	1.98
931181--931756	21	27.7	21	66	5	202	23	16	30	28	1.97
933477--933595	19	5.7	20	70	13	71	37	11	10	40	1.76
933479--933609	22	6.2	22	71	11	85	40	12	9	38	1.74
933480--933602	41	3.0	40	82	7	131	38	12	9	39	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
937798--937843	2	23.0	2	100	0	92	0	50	0	50	1.00
938263--938287	13	1.9	13	100	0	50	44	8	16	32	1.76
946722--946778	2	28.5	2	100	0	114	49	0	50	0	1.00
956979--957021	21	2.0	21	82	8	52	46	9	27	16	1.77
963129--963192	20	3.2	20	78	12	69	25	17	40	17	1.90
963199--963280	42	1.9	43	90	2	130	24	18	42	14	1.87
963188--963278	23	4.2	23	72	13	86	25	19	39	15	1.91
963264--963324	10	5.9	10	71	5	50	34	11	44	9	1.74
965236--966145	437	2.1	432	86	4	1240	30	17	15	36	1.91
966730--966793	31	2.1	30	86	11	87	43	15	14	26	1.85
967534--967601	31	2.2	32	84	7	86	47	16	11	25	1.80
968717--969594	437	2.0	436	89	1	1330	30	19	15	34	1.93
970063--970207	59	2.5	58	93	2	238	42	17	24	15	1.89
997472--997543	4	18.0	4	94	0	99	0	43	6	50	1.29
997472--997543	10	7.2	10	90	0	99	0	43	6	50	1.29
997472--997543	14	5.1	14	91	0	99	0	43	6	50	1.29
1000385--1000409	13	1.9	13	100	0	50	40	0	0	60	0.97
1002015--1002052	20	1.9	20	84	10	51	34	0	18	47	1.49
1004783--1004817	9	3.9	9	84	0	52	40	2	0	57	1.14
1033856--1033895	11	3.6	11	89	0	62	30	12	32	25	1.92
1033965--1034016	22	2.4	21	80	3	59	25	21	13	40	1.89
1034394--1034437	2	22.0	2	100	0	88	0	50	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1034656--1035106	112	4.0	112	94	1	778	30	19	19	29	1.97
1036076--1036140	11	5.9	11	92	0	103	32	9	32	26	1.88
1036290--1036328	11	3.6	11	82	6	53	30	23	7	38	1.83
1058818--1058860	15	2.8	16	79	10	54	11	30	20	37	1.89
1060226--1060268	15	2.8	15	82	6	52	34	25	30	9	1.87
1060814--1060886	37	2.0	37	86	0	101	28	15	23	32	1.95
1069491--1069548	2	29.5	2	96	3	109	0	50	0	50	1.00
1072558--1072647	45	2.0	45	88	0	135	28	13	25	32	1.93
1079493--1079628	64	2.1	65	86	4	195	41	20	18	19	1.90
1079493--1079645	63	2.4	63	83	4	173	41	20	18	18	1.91
1085957--1085982	2	13.0	2	100	0	52	50	0	50	0	1.00
1088667--1088725	12	4.8	13	78	14	54	33	6	11	47	1.67
1088660--1088694	12	2.8	13	86	8	54	31	8	11	48	1.69
1088587--1088793	95	2.2	95	85	1	281	35	12	11	40	1.79
1094587--1094662	32	2.4	32	93	0	134	26	17	25	31	1.97
1097219--1097599	197	1.9	196	100	0	753	43	14	7	34	1.74
1097994--1098025	16	2.0	16	93	0	55	46	18	12	21	1.82
1114237--1114926	350	2.0	353	88	3	1034	33	21	14	30	1.93
1115592--1115624	16	2.1	16	88	5	50	69	12	0	18	1.18
1126532--1126594	21	3.0	21	79	9	74	25	25	33	15	1.95
1144266--1144324	2	29.5	2	100	0	118	0	49	0	50	1.00
1145023--1145598	168	3.4	168	87	1	782	31	19	18	30	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1152000--1152056	28	2.0	28	100	0	114	50	7	31	10	1.63
1168230--1168271	22	1.9	22	95	0	75	30	14	35	19	1.91
1169133--1169173	22	1.9	21	95	5	73	19	36	17	26	1.94
1169156--1169186	13	2.4	13	94	0	53	25	38	12	22	1.90
1169127--1169206	34	2.3	36	84	6	110	23	32	15	28	1.95
1172608--1172693	2	43.0	2	92	0	145	50	2	47	0	1.14
1182682--1183111	223	1.9	222	98	0	824	40	12	13	34	1.81
1183531--1183607	21	3.7	21	92	0	127	16	18	32	32	1.93
1183531--1183632	42	2.4	42	85	3	125	17	20	29	32	1.96
1184102--1184133	15	2.1	15	100	0	64	46	6	18	28	1.73
1190060--1190696	168	3.8	166	81	3	751	30	19	18	31	1.96
1190060--1190698	336	1.9	334	85	3	881	30	19	18	30	1.96
1192031--1192080	16	3.1	16	91	2	73	36	12	30	22	1.90
1195648--1195687	11	3.4	11	81	18	53	42	0	20	37	1.52
1195651--1195689	14	3.0	14	89	10	57	38	0	20	41	1.53
1201231--1201268	10	3.8	10	96	0	67	50	7	2	39	1.46
1201860--1201894	1	35.0	1	100	0	70	0	0	0	100	0.00
1204211--1204241	4	7.8	4	92	0	53	0	45	25	29	1.54
1204253--1204534	146	1.9	146	94	0	501	29	20	21	28	1.98
1205777--1205932	21	7.4	21	68	11	77	30	19	21	27	1.98
1205850--1205932	42	2.0	42	85	0	112	34	19	19	26	1.95
1206825--1206880	2	29.0	2	92	7	98	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)
1207085--1207162	2	39.0	2	97	0	147	0	48	0	51	1.00
1211478--1211524	2	23.5	2	91	0	76	0	44	0	55	0.99
1212866--1213036	34	5.0	34	92	2	290	29	28	26	15	1.96
1217039--1217065	14	1.9	14	100	0	54	51	7	11	29	1.64
1218179--1218237	30	2.0	30	100	0	118	49	16	6	27	1.71
1221778--1221812	17	2.1	17	94	0	61	14	8	5	71	1.29
1239743--1239776	16	2.1	16	94	0	59	26	23	23	26	2.00
1241755--1241800	4	11.8	4	90	4	67	30	26	43	0	1.55
1256974--1257046	2	36.5	2	100	0	146	50	0	49	0	1.00
1257044--1257076	4	8.2	4	100	0	66	51	24	24	0	1.48
1259384--1259852	170	2.8	166	87	4	631	32	17	17	31	1.94
1259709--1259981	148	1.8	148	82	1	350	30	18	20	30	1.96
1267667--1267999	166	2.0	169	89	3	512	27	26	13	32	1.94
1270494--1270625	49	2.7	48	78	10	133	36	12	15	36	1.84
1275299--1275349	25	2.0	25	92	0	84	50	11	9	27	1.70
1276517--1276551	16	2.2	16	94	0	61	25	25	22	25	2.00
1278966--1279040	18	4.2	18	83	6	89	41	13	18	26	1.87
1279689--1279750	31	2.0	31	93	0	106	32	11	16	40	1.83
1280282--1280309	2	14.0	2	100	0	56	0	50	0	50	1.00
1287097--1287131	2	17.5	2	100	0	70	0	48	0	51	1.00
1287561--1287589	4	7.2	4	100	0	58	75	0	24	0	0.80
1299075--1299135	30	2.0	30	93	0	104	24	26	24	24	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1306884--1306925	2	21.0	2	100	0	84	50	0	50	0	1.00
1308893--1309005	32	3.5	32	95	0	208	26	13	8	51	1.70
1308893--1309024	64	2.1	63	92	1	219	25	15	9	49	1.74
1314445--1314477	4	8.5	4	86	6	50	0	30	21	48	1.50
1314445--1314487	19	2.3	18	92	4	68	0	32	18	48	1.48
1315741--1315768	1	28.0	1	100	0	56	0	0	100	0	0.00
1327962--1328012	23	2.2	23	100	0	102	21	15	19	43	1.88
1331470--1331505	18	2.0	18	94	0	63	16	13	22	47	1.82
1331439--1331528	43	2.0	44	85	10	119	25	15	20	38	1.91
1331512--1331616	31	3.5	31	76	10	137	30	20	15	34	1.93

Tables:   1   2   3   4   5