oyster.v9_M.fa.s25.2.7.7.80.10.50.500.3.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: scaffold393
Parameters: 2 7 7 80 10 50 500
Length:  1263635

Tables:   1   2   3   4   

This is table  3  of  4  ( 399 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)
665934--665982	17	3.0	17	79	11	66	36	16	28	18	1.92
666030--666069	17	2.5	16	88	8	55	35	17	27	20	1.95
674782--674815	11	3.1	11	86	0	50	14	47	20	17	1.83
674811--674917	21	5.1	21	84	0	142	32	28	21	17	1.96
675419--675453	16	2.2	16	94	0	61	48	17	11	22	1.79
684353--684402	11	4.5	11	82	0	55	38	24	22	16	1.93
684353--684401	22	2.2	22	88	0	71	38	24	20	16	1.92
685340--685379	21	1.9	21	89	0	62	37	10	7	45	1.66
685905--686182	37	7.4	37	92	1	439	26	16	18	38	1.92
692964--693028	21	3.1	21	72	10	71	29	12	16	41	1.85
694297--694341	1	45.0	1	81	0	54	2	0	6	91	0.50
694454--694542	21	4.2	21	72	5	72	37	17	15	29	1.91
699897--699962	21	3.1	21	80	8	80	39	16	15	28	1.89
720579--720622	16	2.8	16	89	0	70	36	22	38	2	1.67
721276--721301	13	2.0	13	100	0	52	92	7	0	0	0.39
726055--726562	146	3.5	146	87	2	702	28	19	21	30	1.97
729075--729119	2	22.5	2	100	0	90	0	51	0	48	1.00
743064--743108	21	2.1	21	91	0	72	17	31	24	26	1.97
744945--745514	171	3.4	165	77	8	496	30	18	18	32	1.95
744945--745518	163	3.4	164	77	8	545	30	18	18	32	1.95
756119--756184	31	2.1	31	100	0	132	9	15	34	40	1.78
756463--756847	144	2.7	145	94	0	655	30	18	21	30	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
759028--759158	34	3.9	33	71	16	99	34	17	17	30	1.93
759381--759418	18	2.1	18	100	0	76	34	10	15	39	1.82
767313--767338	12	2.2	12	100	0	52	30	15	15	38	1.88
778954--778996	4	10.8	4	94	0	77	25	25	0	48	1.51
788495--788582	46	1.9	46	86	4	124	27	19	20	32	1.97
801303--802142	168	5.0	167	84	2	1083	31	17	19	31	1.95
813817--813893	34	2.3	34	100	0	154	40	9	11	38	1.73
818231--818279	24	2.0	25	84	4	64	34	8	12	44	1.71
820170--820214	2	22.5	2	100	0	90	0	48	0	51	1.00
821066--821106	19	2.2	19	86	0	55	82	0	4	12	0.81
821070--821108	15	2.5	15	87	4	51	79	0	5	15	0.90
831895--832287	165	2.4	164	96	1	714	35	16	19	28	1.93
843626--843676	24	2.1	24	100	0	102	0	41	25	33	1.56
843623--843672	20	2.5	20	90	0	82	0	44	24	32	1.54
843623--843668	4	11.5	4	95	0	74	0	45	23	30	1.53
844197--844591	163	2.4	163	88	2	580	36	13	17	32	1.89
844639--844937	134	2.2	135	84	6	392	27	20	26	26	1.99
847865--847899	16	2.2	16	100	0	70	37	5	20	37	1.76
848516--848548	16	2.0	17	94	5	59	0	36	15	48	1.45
857198--857262	2	32.5	2	100	0	130	49	0	50	0	1.00
861067--861123	2	28.5	2	100	0	114	50	0	49	0	1.00
876559--876614	2	28.0	2	92	0	94	50	0	46	3	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
876612--876639	4	7.0	4	100	0	56	50	25	25	0	1.50
880488--880525	20	1.9	20	88	0	58	47	7	5	39	1.55
880579--880734	44	3.5	44	82	1	186	23	9	20	46	1.80
880886--880981	44	2.2	44	88	0	138	28	18	17	35	1.94
884149--884185	2	18.5	2	94	0	65	0	48	0	51	1.00
887270--887299	12	2.5	12	100	0	60	43	0	23	33	1.54
888886--889614	366	2.0	365	87	2	1054	31	17	19	31	1.95
893066--893128	2	32.0	2	96	3	119	0	50	0	49	1.00
893234--893695	52	8.9	52	93	0	692	34	13	25	26	1.93
899247--899297	2	25.5	2	95	0	93	1	49	0	49	1.12
900517--900575	2	29.5	2	76	6	57	49	5	44	1	1.34
900517--900569	12	4.6	12	79	9	65	50	5	41	1	1.36
900678--900718	2	20.5	2	100	0	82	51	0	48	0	1.00
902567--902600	2	17.0	2	93	0	59	50	0	47	2	1.16
907893--907926	9	4.0	8	88	11	50	82	17	0	0	0.67
907892--907926	17	2.0	18	94	5	63	82	17	0	0	0.66
914853--914891	4	9.8	4	88	0	51	0	25	41	33	1.56
914839--914892	20	2.7	20	88	0	81	0	29	35	35	1.58
914853--914891	12	3.2	12	88	0	60	0	25	41	33	1.56
915441--915489	18	3.0	16	78	21	57	42	2	12	42	1.53
919545--919582	2	19.0	2	88	0	58	44	50	5	0	1.24
923037--923079	20	2.1	20	95	0	77	37	9	6	46	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
929487--929527	2	20.5	2	100	0	82	48	0	51	0	1.00
930742--930917	21	8.3	21	75	0	127	36	15	6	40	1.73
930742--930884	63	2.3	63	79	4	155	38	16	4	39	1.70
931166--931214	21	2.3	22	78	3	55	34	18	2	44	1.61
931268--931308	21	2.0	21	90	0	64	39	17	4	39	1.71
932257--932332	21	3.7	21	77	10	75	39	14	2	43	1.59
933054--933080	14	1.9	14	100	0	54	29	14	7	48	1.71
934925--935516	21	28.1	21	67	13	162	38	7	15	38	1.75
935894--935923	11	2.7	11	89	0	51	26	30	10	33	1.89
935954--935988	11	3.2	11	87	0	52	25	31	8	34	1.86
935953--936004	21	2.4	21	81	9	61	28	25	9	36	1.87
936389--936422	2	17.0	2	87	0	50	5	44	0	50	1.26
936640--936866	112	2.0	112	92	0	373	32	18	19	29	1.96
939863--940025	52	3.1	53	89	6	260	17	15	20	46	1.84
954144--954175	16	1.9	17	93	6	57	34	6	28	31	1.82
957022--957053	16	1.9	17	93	6	57	34	6	28	31	1.82
959365--959429	31	2.1	30	83	8	78	44	15	12	27	1.82
960039--960260	108	2.1	108	95	0	399	37	18	23	20	1.94
962089--962153	31	2.1	30	83	8	78	44	15	12	27	1.82
967198--967222	13	1.9	13	100	0	50	32	0	24	44	1.54
968818--968900	39	2.1	39	86	0	112	32	8	15	43	1.77
969650--969861	39	5.5	39	72	11	161	33	9	16	40	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
969618--969858	114	2.1	113	87	2	340	33	9	17	39	1.82
987963--988027	31	2.1	30	82	2	76	26	12	16	44	1.83
997379--997550	49	3.5	48	85	6	227	33	20	19	25	1.97
997379--997572	26	7.7	26	80	8	224	34	21	18	25	1.96
997379--997572	49	3.9	49	85	6	221	34	21	18	25	1.96
1000317--1000350	10	3.5	10	84	8	52	79	11	0	8	0.94
1005192--1005231	17	2.3	18	82	4	55	35	10	2	52	1.48
1007050--1007109	2	30.0	2	100	0	120	0	50	0	50	1.00
1009072--1009499	214	2.0	213	99	0	847	37	14	14	32	1.88
1010932--1010995	21	3.0	21	78	13	69	32	7	17	42	1.78
1011251--1011316	21	3.1	21	84	4	80	31	12	22	33	1.91
1011259--1011320	21	3.0	21	90	0	88	30	14	19	35	1.92
1011564--1011817	21	12.1	21	91	0	393	35	23	19	22	1.96
1012581--1012786	21	9.8	21	83	8	267	24	21	22	32	1.98
1012602--1012786	42	4.4	42	92	4	311	23	21	22	32	1.98
1012577--1012787	63	3.3	63	87	6	320	23	21	22	32	1.98
1012602--1012786	84	2.2	84	97	1	345	23	21	22	32	1.98
1030008--1030550	61	8.8	61	96	0	951	34	19	12	33	1.89
1031547--1031585	19	2.1	18	86	13	53	66	10	2	20	1.33
1045171--1045235	32	2.0	33	90	3	105	27	18	20	33	1.96
1045818--1045899	40	2.0	40	97	0	155	50	7	8	34	1.61
1047880--1047920	17	2.6	16	85	11	57	36	21	17	24	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1049352--1049392	17	2.6	16	85	11	57	36	21	17	24	1.94
1050807--1051488	177	3.8	176	81	5	796	23	16	25	34	1.95
1050791--1051488	359	2.0	354	83	4	886	23	16	25	34	1.95
1052448--1052496	2	24.5	2	95	0	89	48	2	48	0	1.12
1052944--1052981	14	2.6	14	88	12	51	34	7	10	47	1.67
1056183--1056251	23	3.0	23	82	2	84	37	10	14	37	1.80
1063853--1063887	16	2.2	16	94	0	61	31	17	8	42	1.79
1066016--1068312	18	126.8	18	68	8	818	32	20	9	37	1.85
1066276--1066368	47	2.0	47	100	0	186	41	19	4	34	1.71
1066821--1066866	23	2.0	23	86	0	65	30	21	10	36	1.88

Tables:   1   2   3   4