genome.fa.s508.2.7.7.80.10.50.1000.3.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: scaffold235
Parameters: 2 7 7 80 10 50 1000
Length:  1667838

Tables:   1   2   3   4   5   

This is table  3  of  5  ( 518 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)
817906--818090	51	3.7	50	77	5	158	24	17	24	32	1.97
818293--818365	37	1.9	38	83	2	94	43	2	20	32	1.66
823025--823151	44	3.0	43	82	8	152	29	17	22	30	1.97
834273--834333	6	9.7	6	79	10	68	77	6	3	13	1.09
834368--834410	12	3.5	12	81	6	50	60	2	9	27	1.40
836561--836607	23	2.0	23	92	8	78	57	14	12	14	1.66
837299--838315	339	3.0	340	97	0	1910	32	15	13	38	1.87
842203--842382	89	2.0	89	98	0	351	32	21	10	36	1.87
843982--844042	6	10.5	6	91	8	83	72	0	13	14	1.13
844076--844119	12	3.5	12	79	11	52	63	2	9	25	1.35
844086--844118	14	2.3	15	89	5	50	69	3	3	24	1.16
844209--844257	14	3.5	15	78	13	59	75	0	2	22	0.90
844209--844257	15	3.5	14	81	13	57	75	0	2	22	0.90
844209--844251	17	2.7	16	83	16	54	74	0	2	23	0.93
846811--846858	22	2.2	23	85	14	66	35	0	6	58	1.23
849701--849774	22	3.3	22	73	5	60	41	17	21	18	1.90
849766--849965	32	6.3	32	79	5	190	41	20	17	21	1.91
849793--849968	64	2.8	64	84	1	228	40	21	16	21	1.91
850139--850249	24	4.6	24	82	4	107	45	20	7	26	1.77
853458--853482	11	2.3	11	100	0	50	16	16	20	48	1.82
858880--858913	18	1.9	18	88	5	52	58	0	2	38	1.13
861506--861530	7	3.6	7	100	0	50	28	12	0	60	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
865930--866000	28	2.5	28	83	0	97	32	21	22	23	1.98
866119--866183	26	2.5	26	92	0	112	38	13	21	26	1.91
866405--866468	27	2.4	27	89	0	92	23	15	21	39	1.92
866405--866484	27	3.0	27	83	3	72	23	18	20	37	1.94
885089--885113	6	4.2	6	100	0	50	68	0	32	0	0.90
886230--886293	30	2.1	30	82	0	74	18	28	28	25	1.98
887283--887322	19	2.1	19	100	0	80	32	27	5	35	1.79
888034--888091	20	2.9	20	77	10	64	37	20	29	12	1.89
890772--890852	29	2.9	29	83	12	91	17	24	13	44	1.85
890627--890899	116	2.3	117	86	3	379	23	24	11	40	1.87
890627--890899	30	9.2	30	75	11	188	23	24	11	40	1.87
899062--899133	25	2.9	25	83	6	101	29	19	23	27	1.98
912161--912201	11	3.6	11	87	6	55	9	2	4	82	0.89
913547--913611	20	3.3	19	73	16	60	36	9	29	24	1.86
922164--922212	20	2.5	20	81	15	66	12	24	6	57	1.58
923358--923382	11	2.3	11	100	0	50	76	8	0	16	1.02
924994--925018	13	1.9	13	100	0	50	44	8	8	40	1.63
930400--930444	19	2.3	20	85	14	60	77	0	4	17	0.92
935076--935108	11	3.1	11	86	4	50	60	12	0	27	1.32
939018--939138	64	1.9	64	94	0	215	20	15	28	34	1.94
939365--939421	21	2.7	21	76	10	71	17	24	33	24	1.96
953361--953407	21	2.2	21	84	0	58	51	12	19	17	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
954242--954311	6	10.7	6	75	17	50	78	8	1	11	1.02
954245--954320	28	2.7	29	82	13	97	77	9	1	11	1.05
954262--954305	20	2.2	20	87	4	61	79	9	0	11	0.93
954258--954321	32	1.9	33	81	12	78	76	9	1	12	1.08
954314--954386	3	24.7	3	83	8	87	65	4	2	27	1.24
954012--954756	370	2.0	372	98	0	1458	57	9	11	21	1.62
954612--954681	6	10.7	6	75	17	50	78	8	1	11	1.02
954615--954690	28	2.7	29	82	13	97	77	9	1	11	1.05
954632--954675	20	2.2	20	87	4	61	79	9	0	11	0.93
954628--954691	32	1.9	33	81	12	78	76	9	1	12	1.08
954684--954775	3	30.7	3	77	12	91	65	3	4	27	1.27
954746--954781	18	2.0	18	88	0	54	66	0	8	25	1.19
954904--954940	5	7.4	5	88	11	58	78	0	0	21	0.75
954863--954940	15	4.9	15	74	15	61	73	2	5	19	1.14
968335--968382	23	2.0	24	84	8	62	41	12	12	33	1.80
971625--971723	20	4.9	20	75	3	101	38	20	28	13	1.90
971625--971725	40	2.5	40	88	0	148	38	20	27	12	1.90
972362--972400	16	2.5	15	84	15	53	43	7	0	48	1.31
986284--986402	26	4.5	26	87	1	130	36	26	18	19	1.94
986283--986819	27	20.1	27	84	2	559	34	21	21	22	1.97
986283--986796	107	4.8	106	82	4	532	34	21	21	22	1.97
986293--986794	161	3.1	161	84	2	616	34	21	21	23	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
986961--987025	27	2.4	27	85	14	91	21	24	20	33	1.97
987069--987335	32	8.4	32	80	5	218	21	20	20	37	1.95
991586--991684	44	2.3	44	94	1	173	26	23	23	27	2.00
997162--997216	27	2.0	27	100	0	110	32	10	14	41	1.81
1031051--1031085	17	2.0	18	88	5	54	34	11	11	42	1.77
1031964--1031989	9	2.9	9	100	0	52	23	0	0	76	0.78
1032612--1032648	17	2.2	17	95	0	65	43	10	27	18	1.83
1039040--1039079	14	2.8	14	84	3	53	30	5	2	62	1.29
1039170--1039209	20	1.9	19	85	14	53	40	0	35	25	1.56
1048578--1048649	27	2.7	26	79	14	83	36	16	8	38	1.79
1048916--1048953	20	1.9	20	94	0	67	42	10	5	42	1.62
1050075--1050111	19	2.0	18	89	5	56	45	0	2	51	1.15
1051120--1051169	14	3.6	14	71	12	50	14	4	48	34	1.62
1051111--1051189	12	6.2	12	73	16	52	11	5	44	39	1.62
1051156--1051198	12	3.5	12	80	3	50	9	9	46	34	1.68
1051461--1051513	21	2.5	21	72	6	54	24	5	3	66	1.31
1052271--1052307	6	6.5	6	96	3	60	51	0	0	48	1.00
1060690--1060883	69	2.8	69	82	1	174	35	24	22	18	1.96
1063886--1063971	44	2.0	44	97	0	163	31	20	25	22	1.98
1065042--1065071	7	4.3	7	95	0	51	83	0	0	16	0.65
1065328--1065367	19	2.2	19	86	4	55	60	0	7	32	1.25
1076601--1076667	18	3.8	17	84	11	82	76	7	2	13	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1082066--1082178	51	2.2	51	93	3	192	29	21	15	34	1.93
1083613--1083711	43	2.3	44	89	3	155	32	24	16	27	1.96
1083679--1083873	33	5.7	33	71	7	113	29	25	16	28	1.97
1083683--1083878	101	1.9	102	94	1	349	29	25	15	29	1.96
1090690--1090753	30	2.1	30	85	5	85	14	25	34	26	1.94
1097099--1097149	23	2.3	22	83	10	68	41	17	5	35	1.74
1102250--1102288	20	2.0	20	89	0	60	38	23	25	12	1.90
1107062--1107353	50	5.7	50	83	2	289	22	27	22	27	1.99
1107697--1107754	30	1.9	30	85	0	80	32	22	3	41	1.71
1122476--1122532	29	1.9	30	85	3	80	66	8	10	14	1.44
1132727--1132766	20	2.0	20	95	0	71	17	10	25	47	1.78
1133514--1133576	31	2.1	30	93	3	108	38	9	17	34	1.82
1136225--1136305	19	4.1	20	87	9	94	29	2	13	54	1.52
1136225--1136656	21	20.2	21	74	16	338	30	0	14	54	1.46
1136338--1136628	103	3.0	92	76	13	241	30	0	15	53	1.47
1136437--1136656	70	3.4	64	73	14	202	30	0	14	55	1.43
1136225--1136669	173	2.6	173	94	3	777	30	0	13	54	1.46
1136718--1136784	29	2.3	29	82	5	73	22	14	17	44	1.86
1137839--1137880	16	2.7	15	85	7	57	38	2	2	57	1.25
1139492--1139520	6	4.8	6	100	0	58	17	34	34	13	1.89
1142694--1142746	22	2.3	23	81	12	65	3	28	1	66	1.20
1144719--1144762	17	2.6	17	88	0	70	40	2	13	43	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1145336--1145392	29	2.0	29	82	0	69	49	10	8	31	1.68
1148506--1148547	20	2.1	20	100	0	84	23	40	0	35	1.55
1148510--1148555	20	2.3	20	92	0	74	21	45	0	32	1.52
1169935--1169963	14	2.0	15	93	6	51	0	41	0	58	0.98
1175934--1175967	16	2.1	17	94	5	61	61	8	17	11	1.54
1181291--1182336	44	23.0	44	70	13	474	31	18	20	28	1.96
1181338--1181815	92	5.3	91	70	11	252	31	18	20	29	1.96
1181338--1181718	181	2.1	182	87	0	539	30	18	20	30	1.96
1181967--1182144	52	3.6	50	75	13	181	33	18	19	29	1.95
1182058--1182161	51	2.0	51	87	3	147	36	21	16	25	1.94

Tables:   1   2   3   4   5