oyster.v9_M.fa.s5.2.7.7.80.10.50.500.3.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: scaffold102
Parameters: 2 7 7 80 10 50 500
Length:  1727112

Tables:   1   2   3   4   5   

This is table  3  of  5  ( 549 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)
718379--718555	43	4.2	43	84	4	189	25	14	36	23	1.92
724149--724704	146	3.9	145	89	4	833	28	21	20	28	1.98
724149--724699	286	1.9	287	89	4	851	28	21	20	29	1.98
742875--742927	22	2.4	22	83	0	70	22	26	9	41	1.84
744190--744224	17	2.1	17	100	0	70	22	31	17	28	1.96
746908--746943	3	12.0	3	87	0	54	2	27	0	69	1.02
746964--748282	440	3.0	440	95	0	2358	35	16	13	33	1.89
753034--753103	21	3.4	21	88	2	88	4	44	5	45	1.47
755141--755176	16	2.2	16	95	0	63	0	36	25	38	1.56
765274--765837	38	12.9	39	67	23	176	33	32	7	26	1.85
765298--765967	50	14.9	49	64	21	174	33	32	6	26	1.83
765336--765361	12	2.2	12	100	0	52	30	42	0	26	1.56
765210--765661	88	5.1	88	76	6	416	33	33	7	25	1.84
765320--765395	23	3.2	23	64	29	59	35	34	5	25	1.78
765399--765799	138	2.9	138	85	2	511	33	32	7	26	1.85
765616--766013	88	4.5	88	80	1	431	33	31	6	28	1.83
765619--766019	176	2.3	177	89	2	585	33	31	6	28	1.83
765931--766018	38	2.3	38	82	3	115	28	29	6	35	1.83
790997--791150	42	3.7	42	76	8	138	43	24	10	22	1.84
790969--791211	21	11.6	21	73	11	106	44	23	11	19	1.83
792294--792343	2	25.0	2	100	0	100	0	50	0	50	1.00
797680--797705	13	2.0	13	100	0	52	15	0	0	84	0.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
800765--800804	13	3.1	13	92	0	71	45	15	25	15	1.84
801720--801752	1	33.0	1	100	0	66	0	100	0	0	0.00
802266--802305	21	1.9	21	89	0	62	37	17	20	25	1.94
808759--808842	28	3.0	28	72	8	89	34	16	7	41	1.76
809300--809351	26	2.0	26	92	0	86	51	17	1	28	1.56
809460--809507	20	2.4	20	85	0	69	8	37	18	35	1.81
810023--810047	2	12.5	2	100	0	50	0	48	0	52	1.00
814735--814781	2	23.5	2	100	0	94	0	48	0	51	1.00
815596--815702	4	26.8	4	93	0	169	0	44	2	51	1.22
817986--818396	166	2.5	166	85	2	583	28	22	15	32	1.95
818565--818607	6	7.3	6	82	12	54	48	30	20	0	1.50
823063--823113	2	25.5	2	100	0	102	49	0	50	0	1.00
828128--828216	2	45.5	2	93	4	155	50	0	49	0	1.00
840874--840913	2	20.0	2	100	0	80	0	50	0	50	1.00
842121--842193	2	36.5	2	100	0	146	50	49	0	0	1.00
845261--845314	2	27.0	2	96	0	99	48	0	50	1	1.11
859006--859089	4	21.0	4	100	0	168	50	0	25	25	1.50
859457--859550	21	4.5	21	82	5	109	26	12	20	40	1.88
859459--859550	42	2.2	42	86	0	121	26	11	20	41	1.87
859624--859684	21	3.0	20	83	7	77	39	18	13	29	1.88
859743--859874	21	6.3	21	81	1	131	28	15	19	37	1.92
859951--860042	21	4.4	21	83	0	112	39	20	16	23	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
859951--860042	42	2.2	42	92	0	148	39	20	16	23	1.92
862758--862792	2	17.5	2	100	0	70	48	0	51	0	1.00
864170--864202	11	2.9	11	95	4	57	0	0	12	87	0.53
864172--864202	15	2.1	15	94	5	55	0	0	9	90	0.46
864414--864460	2	23.5	2	100	0	94	51	0	48	0	1.00
865054--865120	16	4.2	16	96	0	125	55	13	11	19	1.69
876070--876104	18	1.9	18	100	0	70	25	11	17	45	1.81
876763--876818	2	28.0	2	100	0	112	50	0	50	0	1.00
876830--876867	2	19.0	2	100	0	76	50	0	50	0	1.00
886012--886046	14	2.5	14	90	0	52	48	14	2	34	1.58
892114--892157	20	2.3	19	88	4	70	18	0	0	81	0.68
897142--897175	17	2.0	17	88	11	52	38	2	11	47	1.55
900336--900422	21	4.2	21	75	4	70	43	14	17	24	1.86
900517--900626	21	5.2	21	72	4	96	32	15	14	37	1.88
900518--900639	42	2.9	41	75	4	120	34	13	15	36	1.86
900615--900675	29	2.1	29	96	0	113	34	9	22	32	1.87
900697--900862	21	7.9	21	84	0	197	36	13	16	33	1.88
900694--900862	63	2.7	63	85	0	230	36	14	15	33	1.88
900960--901043	21	4.0	21	85	0	96	28	20	13	38	1.90
902614--902644	14	2.2	14	100	0	62	48	12	0	38	1.42
910854--911069	29	7.4	29	95	2	389	47	17	10	25	1.79
917935--917985	16	3.1	16	82	5	66	45	19	15	19	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
917939--917984	9	5.3	9	79	10	60	47	19	17	15	1.82
918070--918124	18	3.1	17	84	7	65	38	12	16	32	1.86
918282--918326	18	2.5	18	88	0	63	37	15	17	28	1.91
918463--918503	18	2.3	18	86	0	55	36	14	19	29	1.92
918176--918646	177	2.7	177	94	1	820	35	11	15	38	1.84
932725--932777	15	3.5	15	76	19	65	1	35	5	56	1.34
932726--932795	30	2.3	30	85	0	86	4	34	5	55	1.43
936720--936775	11	5.1	11	76	8	60	33	35	26	3	1.74
936720--936775	22	2.5	22	83	11	78	33	35	26	3	1.74
937057--937158	42	2.5	42	82	10	129	34	15	13	36	1.87
937061--937175	21	5.6	20	76	14	85	36	14	13	35	1.85
937396--937488	39	2.4	40	85	1	116	33	15	12	38	1.85
937517--937676	84	1.9	84	86	0	230	37	15	10	36	1.82
937659--937710	20	2.5	20	82	11	54	38	11	11	38	1.78
937999--938093	39	2.4	40	91	1	147	35	12	17	33	1.88
942522--942552	16	1.9	16	93	0	53	25	6	22	45	1.76
943041--943081	19	2.2	19	90	0	64	39	21	0	39	1.54
968673--968706	2	17.0	2	93	0	59	52	0	47	0	1.00
972920--973009	42	2.2	41	86	4	128	44	14	15	25	1.84
981958--982000	2	21.5	2	100	0	86	0	51	0	48	1.00
986202--986226	2	12.5	2	100	0	50	48	0	0	52	1.00
993135--993169	2	17.5	2	100	0	70	51	48	0	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
994480--994514	2	17.5	2	100	0	70	51	48	0	0	1.00
998526--998617	34	2.7	33	78	9	89	50	19	15	15	1.79
998866--998930	32	2.0	32	100	0	130	21	30	15	32	1.94
1009638--1009671	12	2.8	12	95	0	59	44	14	32	8	1.76
1009633--1009671	16	2.4	16	82	0	51	46	15	30	7	1.74
1020673--1020705	16	2.0	17	88	5	50	27	6	18	48	1.71
1020765--1020999	54	4.3	54	93	1	373	25	10	16	47	1.79
1020797--1020997	26	7.4	28	66	10	103	25	10	15	48	1.77
1022326--1022356	15	2.0	16	93	6	55	64	9	6	19	1.45
1023939--1023975	2	18.5	2	100	0	74	0	48	0	51	1.00
1025723--1025784	4	15.8	4	83	3	63	1	38	25	33	1.66
1025730--1025784	16	3.4	16	89	0	74	1	38	25	34	1.67
1025722--1025780	20	3.0	20	95	2	102	1	37	25	35	1.66
1033814--1034188	166	2.3	167	85	6	489	34	16	24	25	1.95
1035716--1035749	17	2.0	17	100	0	68	41	17	0	41	1.50
1036156--1036199	16	2.8	16	96	0	79	13	22	27	36	1.92
1037672--1037716	23	2.0	22	82	4	54	0	0	22	77	0.76
1043561--1043586	13	2.0	13	100	0	52	53	15	0	30	1.42
1044018--1044057	16	2.5	16	87	0	53	17	22	22	37	1.94
1047116--1047177	30	2.1	30	93	0	106	27	29	20	22	1.99
1050554--1050587	17	2.0	17	100	0	68	41	17	0	41	1.50
1072165--1072205	20	2.0	20	100	0	82	41	14	4	39	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1072680--1072996	96	3.2	96	76	15	361	35	20	11	32	1.89
1073697--1073726	14	2.1	14	93	0	51	36	20	13	30	1.90
1074174--1074199	12	2.2	12	100	0	52	34	11	7	46	1.69
1081674--1081734	31	2.0	30	90	0	86	37	9	18	32	1.83
1090620--1090706	5	17.8	5	77	9	90	56	24	17	2	1.52
1090864--1090989	5	25.4	5	80	7	132	3	16	23	55	1.58
1090865--1090981	20	6.0	20	87	6	159	4	15	23	56	1.57
1091430--1091505	39	1.9	39	100	0	152	34	23	31	10	1.89
1097850--1097899	4	12.8	4	87	4	66	0	42	26	32	1.56
1097856--1097902	12	3.9	12	94	0	76	0	40	25	34	1.56

Tables:   1   2   3   4   5