genome.fa.s92.2.7.7.80.10.50.1000.7.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: Scaffold92
Parameters: 2 7 7 80 10 50 1000
Length:  2337674

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   

This is table  7  of  19  ( 2187 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)
966373--966447	9	8.4	9	71	20	52	36	0	0	64	0.94
966401--966467	34	2.0	33	82	2	80	38	0	0	61	0.96
966385--966425	3	14.3	3	80	10	50	34	0	0	65	0.93
967208--967264	28	2.0	29	82	3	71	54	1	3	40	1.28
971958--972002	22	2.2	22	84	11	60	51	0	6	42	1.28
972071--972114	16	2.6	17	82	7	54	34	2	0	63	1.07
972074--972114	17	2.4	18	80	12	50	31	2	0	65	1.05
974861--974902	20	2.0	21	90	9	68	54	2	0	42	1.13
975484--975576	37	2.6	37	81	10	95	33	8	13	44	1.75
974617--975886	429	3.0	428	86	4	1673	35	9	10	44	1.70
975719--975759	20	2.0	20	85	9	55	56	2	2	39	1.26
977039--977187	77	2.0	74	89	6	230	26	24	9	40	1.85
977948--978007	29	2.1	28	82	11	70	40	1	3	55	1.27
978279--978349	14	4.5	17	75	23	59	39	0	1	59	1.06
978279--978362	43	1.9	45	83	7	111	41	0	1	57	1.06
980314--980360	13	3.7	13	77	2	51	36	0	14	48	1.44
980812--980850	18	2.1	19	90	9	62	46	0	0	53	1.00
981703--981758	30	1.9	29	85	7	78	46	0	0	53	1.00
982071--982107	2	19.0	2	94	5	67	51	0	0	48	1.00
982425--982458	18	1.9	17	88	5	50	44	0	5	50	1.26
982446--982488	14	3.2	14	77	12	54	58	0	0	41	0.98
982581--982640	21	2.8	21	73	14	59	28	5	0	66	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
982977--983009	12	2.9	12	86	13	52	69	0	0	30	0.88
983232--983293	29	2.1	30	82	8	74	51	0	0	48	1.00
983556--983594	2	19.5	2	100	0	78	51	0	0	48	1.00
983653--983698	16	3.1	15	78	18	51	58	4	2	34	1.30
989860--989910	25	2.1	24	85	10	68	47	0	0	52	1.00
989860--989910	24	2.1	25	85	10	70	47	0	0	52	1.00
989876--989933	28	2.0	28	83	12	73	43	0	1	55	1.10
993929--993954	2	13.0	2	100	0	52	50	0	0	50	1.00
994185--994498	157	2.0	157	100	0	628	42	9	9	38	1.70
994760--994801	21	2.0	20	86	4	57	45	0	2	52	1.13
995022--995078	13	4.6	13	69	20	50	64	1	0	33	1.04
995841--995870	12	2.5	12	94	0	51	56	6	3	33	1.42
996132--996158	2	13.5	2	100	0	54	0	0	48	51	1.00
998257--998327	34	2.1	34	100	0	142	16	15	2	64	1.40
1000483--1000551	30	2.3	30	82	5	77	44	0	2	52	1.16
1000582--1000648	21	3.1	22	79	10	68	50	0	1	47	1.10
1000590--1000637	24	2.0	24	84	4	62	54	0	0	45	0.99
1000629--1000676	9	5.2	9	78	11	53	56	0	0	43	0.99
1000635--1000682	15	3.3	15	85	11	64	54	0	0	45	0.99
1002743--1002838	41	2.4	38	83	14	131	48	2	2	46	1.25
1003081--1003138	22	2.7	21	78	7	64	55	0	1	43	1.10
1003158--1003191	16	2.1	16	88	0	50	55	0	0	44	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1003260--1003298	20	1.9	20	89	5	60	33	5	0	61	1.18
1003676--1003723	19	2.4	19	82	10	51	43	2	0	54	1.12
1004132--1004167	2	18.5	2	94	5	65	50	0	0	50	1.00
1007591--1007630	19	2.2	18	95	4	71	60	0	0	40	0.97
1007592--1007627	9	3.9	9	85	7	54	63	0	0	36	0.94
1008112--1008191	32	2.5	33	85	4	92	43	0	0	56	0.99
1008112--1008180	26	2.6	25	80	8	75	42	0	0	57	0.98
1008093--1008190	16	6.0	17	70	21	59	39	0	2	58	1.10
1008126--1008177	27	1.9	27	84	7	70	44	0	0	55	0.99
1008693--1008731	3	13.0	3	84	10	53	33	0	0	66	0.92
1009586--1009612	2	13.5	2	100	0	54	51	48	0	0	1.00
1009612--1009643	2	16.0	2	93	0	55	46	0	3	50	1.17
1009621--1009660	14	2.9	14	88	0	53	40	2	10	47	1.50
1010098--1010173	38	2.0	38	84	5	100	53	0	0	46	1.00
1010110--1010186	15	5.3	15	68	20	56	51	0	0	48	1.00
1011349--1011378	2	15.0	2	92	0	51	46	3	0	50	1.18
1011450--1011521	26	2.8	26	89	6	112	45	0	0	54	0.99
1011705--1011793	31	2.9	28	75	20	72	56	1	0	42	1.06
1015633--1015685	27	2.0	27	88	0	79	28	1	15	54	1.51
1026422--1026496	22	3.5	22	71	16	59	53	0	2	44	1.14
1027142--1027188	21	2.2	21	77	7	51	44	0	2	53	1.12
1028365--1028403	19	2.1	19	95	0	69	43	10	17	28	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1028450--1028481	2	16.0	2	100	0	64	50	0	0	50	1.00
1036664--1036700	2	19.0	2	84	15	51	51	2	0	45	1.15
1036978--1037013	2	18.0	2	100	0	72	50	0	0	50	1.00
1038511--1038582	2	35.5	2	87	8	92	50	2	1	45	1.25
1039797--1039855	30	2.0	30	87	12	86	62	6	0	30	1.21
1039797--1039855	29	2.0	31	87	12	88	62	6	0	30	1.21
1040569--1040615	23	2.0	23	83	4	58	51	0	0	48	1.00
1044725--1044777	21	2.7	20	82	8	72	32	15	13	39	1.85
1045165--1045194	2	15.0	2	100	0	60	50	0	0	50	1.00
1046717--1046743	2	13.5	2	100	0	54	48	0	0	51	1.00
1046984--1047022	2	20.0	2	84	5	53	46	2	2	48	1.29
1048238--1048270	16	2.1	16	88	5	50	69	3	0	27	1.03
1048719--1048753	16	2.2	16	89	0	52	48	0	0	51	1.00
1048825--1048873	19	2.5	20	77	12	57	30	0	0	69	0.89
1048825--1048873	10	5.0	10	77	5	55	30	0	0	69	0.89
1048905--1048952	18	2.7	18	80	6	62	54	0	0	45	0.99
1049905--1049943	17	2.2	18	81	13	53	58	0	0	41	0.98
1049898--1049943	18	2.6	17	80	6	56	60	0	0	39	0.97
1051010--1051039	14	2.1	15	93	6	53	30	0	0	70	0.88
1051078--1051112	17	2.1	16	89	5	52	71	0	0	28	0.86
1052295--1052346	12	4.3	12	77	15	54	61	0	34	3	1.14
1053429--1053496	23	3.2	23	60	23	58	61	2	0	35	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1056826--1056853	2	14.0	2	100	0	56	50	0	0	50	1.00
1057009--1057042	17	2.0	17	88	11	52	35	2	11	50	1.54
1059223--1059321	39	2.6	38	80	7	103	40	0	2	57	1.10
1059288--1059321	6	5.7	6	96	0	59	44	0	0	55	0.99
1059262--1059311	26	1.9	26	84	8	66	40	0	0	60	0.97
1059260--1059321	12	5.0	12	83	9	63	41	0	0	58	0.98
1059260--1059321	18	3.3	18	76	12	63	41	0	0	58	0.98
1059389--1059443	16	3.7	15	72	18	51	47	1	0	50	1.11
1059742--1059796	25	2.2	26	87	9	78	58	0	0	41	0.98
1059747--1059796	16	3.1	16	82	5	64	58	0	0	42	0.98
1059775--1059832	23	2.5	22	81	13	64	51	0	0	48	1.00
1060128--1060162	12	2.9	12	84	16	54	57	0	0	42	0.99
1060153--1060196	14	2.9	15	80	12	54	50	0	0	50	1.00
1060146--1060229	31	2.7	33	77	20	92	51	2	0	46	1.14
1061085--1061154	26	3.0	22	76	17	61	52	0	0	47	1.00
1061102--1061153	26	2.0	27	92	3	88	53	0	0	46	1.00
1061355--1061394	17	2.4	16	83	4	53	55	0	0	45	0.99
1062036--1062079	23	1.9	23	85	0	61	38	2	0	59	1.10
1066629--1066665	16	2.2	18	90	9	60	43	0	5	51	1.24
1067533--1067567	11	3.1	11	84	8	52	40	2	0	57	1.14
1067525--1067567	23	2.0	21	90	9	68	41	4	0	53	1.21
1068376--1068426	19	2.5	20	78	15	61	60	1	5	31	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1069121--1069159	18	2.2	18	85	0	51	43	0	0	56	0.99
1069904--1069957	18	2.8	20	80	20	62	44	3	1	50	1.30
1070184--1070221	13	2.7	15	80	19	55	42	0	0	57	0.98
1070229--1070294	20	3.3	19	69	10	60	39	0	6	54	1.25
1070240--1070280	17	2.6	16	82	17	50	41	0	7	51	1.30
1070217--1070305	40	2.3	40	84	7	121	43	0	5	50	1.25
1070547--1070591	16	2.9	15	78	12	54	40	0	0	60	0.97
1071710--1071789	32	2.4	33	87	4	108	42	2	0	55	1.13
1071739--1071798	17	3.6	17	72	18	54	41	0	0	58	0.98
1071700--1071808	32	3.2	33	78	13	105	41	1	0	56	1.10

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19