genome.fa.s3360.2.7.7.80.10.50.1000.3.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

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: scaffold76
Parameters: 2 7 7 80 10 50 1000
Length:  1973630

Tables:   1   2   3   4   5   

This is table  3  of  5  ( 564 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)
829802--829861	30	2.0	30	96	0	111	35	13	15	36	1.86
830118--830161	22	2.0	22	86	4	61	45	13	20	20	1.85
832250--832300	20	2.6	19	87	9	75	43	15	13	27	1.85
839181--839263	3	27.7	3	97	0	157	68	0	31	0	0.90
843282--843356	37	2.0	37	92	0	123	32	17	16	34	1.92
849079--849130	20	2.6	20	78	0	59	32	7	15	44	1.75
849342--849412	30	2.4	29	83	9	81	36	22	18	22	1.95
849366--849424	30	2.0	30	93	0	100	38	23	16	20	1.92
850420--850548	32	4.0	32	100	0	258	27	24	9	37	1.86
850951--850989	20	2.0	20	90	10	62	15	23	5	56	1.59
852556--852785	50	4.6	50	88	0	325	18	30	21	29	1.97
852500--852785	150	1.9	147	82	3	349	20	29	21	29	1.98
852813--852900	44	2.0	44	93	0	149	25	19	11	44	1.84
854450--854587	50	2.6	52	81	9	163	24	31	19	24	1.98
855611--855740	50	2.6	50	78	0	143	25	26	20	28	1.99
858869--858966	49	2.0	49	95	0	178	28	26	11	33	1.91
867259--867295	18	1.9	18	89	10	56	64	0	35	0	0.94
875262--875323	27	2.3	27	83	5	72	32	30	14	22	1.94
880132--880213	41	2.0	43	85	9	116	26	21	6	45	1.75
884485--884611	43	3.0	42	84	3	148	26	14	25	33	1.95
884538--884637	43	2.3	44	84	1	130	28	17	24	31	1.97
887990--888023	18	1.9	17	94	5	59	50	2	0	47	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
889776--889817	10	4.3	10	82	17	61	21	19	2	57	1.52
900377--900474	42	2.4	42	89	1	153	21	23	26	28	1.99
900545--900584	21	1.9	21	89	0	62	27	17	12	42	1.85
912057--913177	558	2.0	558	95	0	2039	33	13	21	31	1.92
914398--914529	50	2.6	50	80	0	147	28	24	26	21	1.99
926786--926813	3	9.3	3	100	0	56	67	0	0	32	0.91
926837--926871	7	5.0	7	89	10	54	74	0	0	25	0.82
926891--927655	88	8.7	88	82	3	822	23	25	24	26	2.00
927063--927552	44	11.1	44	66	12	227	23	25	25	26	2.00
928886--928923	11	3.5	11	92	3	60	10	5	5	78	1.06
928997--929029	14	2.3	15	89	5	50	27	33	12	27	1.92
929852--929912	26	2.3	26	83	5	70	57	4	14	22	1.57
934172--934215	17	2.6	17	82	3	54	45	2	11	40	1.53
934309--934353	3	15.0	3	90	0	72	64	2	2	31	1.18
934692--934743	21	2.6	20	90	6	79	34	15	13	36	1.87
936996--937041	19	2.6	18	80	10	58	73	2	0	23	0.94
940427--940605	43	4.2	42	84	4	186	26	22	21	29	1.99
940443--940591	43	3.5	43	83	8	189	23	20	23	32	1.98
940381--940588	86	2.4	86	84	8	257	28	21	22	27	1.99
940576--940660	44	1.9	44	85	2	116	24	20	18	36	1.95
941023--941080	21	2.8	21	89	0	89	1	43	20	34	1.62
941023--941091	21	3.3	21	82	8	77	2	42	20	34	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
947152--947352	9	23.8	9	75	10	158	31	2	18	46	1.63
947141--947399	25	10.2	25	77	9	174	32	2	17	47	1.60
947161--947342	34	5.4	35	73	12	80	31	2	18	47	1.63
947213--947327	41	2.8	40	88	6	144	32	1	18	47	1.58
947152--947352	16	11.9	18	75	11	158	31	2	18	46	1.63
947643--947675	15	2.2	15	94	0	57	54	3	3	39	1.31
948874--948907	16	2.1	16	88	0	50	35	2	47	14	1.60
950071--950869	257	3.0	263	91	3	1297	29	19	19	32	1.96
950835--951082	112	2.2	111	80	7	257	30	20	19	29	1.97
950918--951168	112	2.2	113	83	4	301	30	20	19	29	1.97
950992--951231	113	2.1	113	83	2	295	29	20	22	28	1.98
957287--957439	6	24.3	6	72	10	83	73	3	4	17	1.15
957323--957432	50	2.2	49	95	1	193	75	1	5	17	1.08
957323--957439	12	9.5	12	75	7	92	76	2	5	16	1.08
957900--957931	16	1.9	17	93	6	57	25	0	0	75	0.81
957910--957954	11	4.4	10	84	13	56	22	4	2	71	1.15
983613--983867	107	2.4	107	82	5	307	43	19	17	18	1.88
983602--983867	27	9.9	26	80	7	266	43	20	16	19	1.88
990670--990723	19	2.8	19	91	2	81	22	9	24	44	1.81
991156--991234	27	2.9	28	83	7	101	43	18	20	17	1.89
991584--991647	28	2.3	28	88	0	92	28	25	18	28	1.98
1000370--1000412	22	2.0	22	85	0	59	16	6	48	27	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1004404--1004495	48	1.9	47	84	2	121	40	20	14	25	1.90
1006784--1006820	17	2.2	17	90	0	56	32	18	5	43	1.73
1015404--1015436	16	2.1	16	88	11	50	42	9	9	39	1.68
1021645--1021689	21	2.1	21	87	4	63	40	22	11	26	1.87
1021658--1021697	21	1.9	21	85	10	55	45	22	10	22	1.82
1029547--1029574	14	2.0	14	100	0	56	64	7	14	14	1.48
1051428--1051471	17	2.8	16	80	10	54	56	13	4	25	1.56
1057181--1057279	42	2.4	42	86	1	128	22	23	30	24	1.99
1061062--1061112	26	1.9	27	92	4	86	25	21	21	31	1.98
1066863--1066897	17	2.1	17	88	0	52	68	14	2	14	1.32
1070722--1070746	10	2.5	10	100	0	50	8	20	0	72	1.10
1075184--1075297	27	4.0	27	77	13	129	18	21	28	31	1.97
1075216--1075403	33	5.6	33	70	19	129	19	18	26	35	1.95
1075191--1075325	60	2.2	60	93	0	225	19	20	26	33	1.97
1075272--1075473	75	2.6	77	88	1	309	21	17	27	33	1.96
1075272--1075484	77	2.8	75	87	2	302	22	18	27	31	1.97
1081842--1081867	13	2.0	13	100	0	52	23	7	38	30	1.83
1089753--1089897	70	2.1	69	93	1	245	44	9	14	31	1.77
1093689--1093731	20	2.2	20	86	0	59	60	4	2	32	1.30
1108856--1108891	9	3.9	10	86	13	51	0	16	0	83	0.65
1124585--1124622	12	3.1	12	82	17	51	78	0	5	15	0.91
1131599--1131623	12	2.1	12	100	0	50	76	0	24	0	0.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1136106--1136149	17	2.8	16	80	10	54	56	13	4	25	1.56
1137886--1137941	28	2.0	28	96	0	103	44	1	25	28	1.64
1141256--1141296	21	1.9	22	85	5	57	60	12	4	21	1.50
1141873--1141974	42	2.5	41	83	1	132	23	23	29	23	1.99
1145820--1145870	26	1.9	27	88	4	77	27	21	19	31	1.97
1175784--1175928	70	2.1	69	94	1	254	45	11	14	28	1.80
1193817--1193848	16	2.0	16	93	0	55	25	15	0	59	1.36
1196920--1197026	50	2.1	50	85	0	151	20	29	21	28	1.98
1196931--1197052	50	2.3	52	80	11	140	22	31	20	26	1.98
1203562--1203700	50	2.8	50	82	3	163	20	28	21	28	1.98
1215958--1216066	41	2.7	41	84	1	130	34	13	28	22	1.93
1224474--1224545	29	2.5	29	81	0	72	19	33	29	18	1.95
1225064--1225109	5	9.6	5	82	17	62	80	0	19	0	0.71
1225064--1225109	14	3.2	14	90	9	67	80	0	19	0	0.71
1231526--1231604	32	2.4	32	82	2	95	20	35	24	20	1.96
1231970--1232009	20	2.0	20	90	9	64	82	0	17	0	0.67
1231971--1231999	15	2.0	15	93	6	51	86	0	13	0	0.58
1237642--1237748	50	2.1	50	82	3	135	18	33	21	26	1.96
1242086--1242160	28	2.7	28	78	0	78	28	25	16	30	1.96
1243595--1243659	29	2.2	31	84	15	84	43	1	9	46	1.45
1246662--1246827	72	2.3	72	97	1	316	35	12	15	37	1.84
1248938--1249026	44	2.0	44	100	0	178	35	28	8	26	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1251198--1251226	9	3.0	10	90	10	51	58	0	20	20	1.39
1254844--1254981	27	5.1	28	78	6	97	23	21	17	38	1.93
1285715--1285758	20	2.2	20	87	0	61	38	0	25	36	1.56
1296123--1296158	18	1.9	19	88	5	56	38	16	8	36	1.79
1301712--1301761	18	2.9	16	85	11	64	26	32	0	42	1.56
1316707--1316740	18	1.9	17	94	5	59	73	0	8	17	1.08
1326924--1326988	20	3.2	20	74	8	69	16	33	13	35	1.89
1328407--1328435	12	2.3	13	94	5	51	27	34	20	17	1.95
1328510--1328536	12	2.2	12	100	0	54	29	18	44	7	1.77
1328441--1328721	121	2.3	121	87	1	393	23	20	32	23	1.98

Tables:   1   2   3   4   5