genome.fa.s385.2.7.7.80.10.50.1000.8.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: Scaffold385
Parameters: 2 7 7 80 10 50 1000
Length:  1395621

Tables:   1   2   3   4   5   6   7   8   9   10   

This is table  8  of  10  ( 1109 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)
878285--878467	34	5.4	34	88	0	260	25	7	26	39	1.83
882878--883062	34	5.5	34	88	0	264	25	7	26	40	1.82
882878--883062	102	1.8	101	92	1	316	25	7	26	40	1.82
883520--883560	21	2.0	20	86	13	57	41	0	0	58	0.98
884250--884316	22	2.9	23	82	10	84	58	0	1	40	1.07
885705--885775	21	3.4	19	69	17	52	61	0	1	36	1.05
885711--885773	14	4.1	16	75	19	55	63	0	1	34	1.04
885752--885837	39	2.3	36	84	7	102	56	6	0	36	1.26
885780--885839	19	3.1	19	73	20	61	60	6	0	33	1.23
885914--885963	24	2.0	25	92	7	84	24	28	24	24	2.00
886416--886838	210	2.0	209	92	0	702	38	16	12	32	1.86
887014--887077	24	2.6	25	76	16	64	50	1	9	39	1.44
887048--887093	22	2.1	22	84	4	58	58	4	6	30	1.43
887122--887156	18	1.9	18	88	0	52	28	0	0	71	0.86
887384--887449	18	3.6	18	70	25	50	54	0	0	45	0.99
888441--888480	20	2.0	20	90	9	64	62	0	0	37	0.95
889633--889681	26	1.9	25	83	4	62	12	0	12	75	1.05
890156--890209	20	2.7	20	75	11	56	50	1	0	48	1.11
891308--891349	16	2.6	17	81	7	52	57	0	0	42	0.99
900922--900966	20	2.2	20	84	7	56	40	2	0	57	1.11
900994--901019	5	5.2	5	100	0	52	61	0	0	38	0.96
901302--901343	3	14.0	3	100	0	84	66	0	0	33	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
902923--903072	75	2.0	75	100	0	300	34	20	20	25	1.96
904703--904772	35	2.0	35	97	0	131	40	21	11	27	1.87
907203--907298	47	2.0	47	95	0	174	36	5	5	53	1.46
907891--907916	9	2.9	9	100	0	52	34	0	0	65	0.93
910357--910409	27	2.0	27	81	7	63	47	1	0	50	1.12
911784--911826	17	2.7	17	82	13	56	41	0	2	55	1.12
913602--913686	27	3.0	30	77	20	87	58	0	0	41	0.98
913601--913722	26	5.0	25	69	20	73	54	0	0	45	1.00
913645--913683	20	2.0	19	90	5	60	61	0	0	38	0.96
913613--913742	49	2.8	44	76	18	118	51	0	0	48	1.00
914600--914660	2	30.5	2	93	0	104	0	49	1	49	1.10
915541--915587	14	3.5	13	78	18	51	38	2	0	59	1.09
919765--920398	318	2.0	318	99	0	1250	27	17	22	32	1.96
921641--921681	15	2.9	15	78	7	50	43	0	0	56	0.99
924964--925035	16	4.6	16	76	15	69	54	0	0	45	0.99
924964--925056	46	2.0	47	83	10	120	53	1	0	45	1.07
927005--927101	43	2.4	42	79	14	105	60	0	0	39	0.97
927602--927652	17	3.1	17	80	5	68	58	0	0	41	0.98
927895--927925	2	15.5	2	100	0	62	48	0	0	51	1.00
928109--928188	43	1.9	42	82	10	101	50	0	1	48	1.08
928930--928959	5	6.0	5	100	0	60	40	0	0	60	0.97
928930--928985	15	3.3	17	85	9	53	44	0	1	53	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
929523--929559	2	18.5	2	100	0	74	0	48	0	51	1.00
930125--930161	12	3.1	12	88	0	56	56	0	0	43	0.99
931010--931048	13	3.0	13	85	11	53	51	0	0	48	1.00
931134--931172	18	2.1	19	85	4	53	35	0	0	64	0.94
931593--931645	20	2.4	22	78	18	65	43	0	0	56	0.99
931723--931754	7	4.6	7	100	0	64	25	0	0	75	0.81
931679--931750	35	2.0	37	86	5	103	45	0	0	54	0.99
934656--934686	2	15.5	2	100	0	62	51	0	0	48	1.00
934922--934950	2	14.5	2	100	0	58	48	0	0	51	1.00
935698--935733	17	2.1	17	89	5	54	61	2	2	33	1.25
940068--940105	19	2.0	19	94	0	67	50	5	2	42	1.39
940711--940735	2	12.5	2	100	0	50	52	0	0	48	1.00
943394--943436	18	2.3	19	84	15	63	30	0	0	69	0.88
943567--943609	19	2.2	20	91	4	70	37	0	4	58	1.19
943849--943876	1	28.0	1	100	0	56	0	100	0	0	0.00
946006--946066	5	11.8	5	80	13	61	37	0	3	59	1.14
946007--946051	11	4.2	11	78	16	58	40	0	0	60	0.97
946181--946226	23	2.0	23	91	4	76	54	0	0	45	0.99
946296--946338	22	2.0	22	81	9	52	53	2	0	44	1.13
946379--946416	14	2.9	14	88	7	53	50	0	0	50	1.00
951866--951903	2	20.0	2	89	10	62	47	0	0	52	1.00
952013--952044	2	16.0	2	100	0	64	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
952074--952137	22	2.8	22	77	13	60	43	0	0	56	0.99
952087--952143	21	2.6	21	84	13	71	42	1	0	56	1.10
952081--952143	22	2.9	20	79	13	63	42	1	0	55	1.09
958163--958200	18	2.2	18	90	4	60	65	2	2	28	1.19
961774--962219	231	1.9	231	86	3	630	21	27	18	32	1.96
962940--963013	37	2.0	37	84	5	96	41	16	16	25	1.88
970289--970317	3	9.7	3	100	0	58	31	0	0	68	0.89
971061--971116	28	2.0	27	82	3	67	55	0	0	44	0.99
975101--975127	2	13.5	2	100	0	54	51	0	48	0	1.00
980176--980214	20	2.0	20	90	5	62	35	2	0	61	1.10
981488--981541	11	5.1	11	78	14	51	68	0	3	27	1.06
981975--982006	16	1.9	17	93	6	57	68	0	6	25	1.12
982968--983001	5	6.4	5	96	3	50	55	0	0	44	0.99
984596--984643	25	1.9	25	91	0	78	41	4	6	47	1.48
984665--984691	2	13.5	2	100	0	54	51	0	0	48	1.00
985576--985636	23	2.7	22	82	2	59	24	0	19	55	1.43
987106--987130	3	8.3	3	100	0	50	68	0	0	32	0.90
987821--987845	13	1.9	13	100	0	50	68	0	0	32	0.90
996145--996169	5	5.0	5	100	0	50	40	0	0	60	0.97
1005321--1005347	2	13.5	2	100	0	54	48	0	0	51	1.00
1006111--1006175	33	1.9	33	84	12	87	58	1	0	40	1.07
1009879--1009937	29	2.1	28	81	6	66	40	3	5	50	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1011455--1011800	107	3.3	103	80	5	327	47	3	4	45	1.39
1012515--1012566	22	2.4	22	83	6	61	53	5	9	30	1.57
1012683--1012738	28	2.0	27	86	3	76	50	7	3	39	1.47
1014479--1014520	22	2.0	21	90	4	66	54	7	7	30	1.54
1014563--1014619	25	2.3	25	82	11	73	61	0	3	35	1.13
1017108--1017137	9	3.3	9	100	0	60	56	0	0	43	0.99
1017135--1017181	12	4.3	12	72	22	50	61	0	0	38	0.96
1017396--1017441	21	2.3	21	78	17	53	54	8	0	36	1.32
1017472--1017520	18	2.5	21	78	18	61	46	0	0	53	1.00
1017472--1017521	19	2.7	17	79	14	55	46	0	0	54	1.00
1017581--1017618	19	2.1	19	90	5	60	57	0	0	42	0.98
1017740--1017795	18	3.1	18	78	12	53	37	1	1	58	1.19
1018630--1018685	25	2.2	25	78	12	62	57	1	0	41	1.09
1018808--1018852	23	2.0	23	91	4	74	35	20	11	33	1.88
1026150--1026181	15	2.1	15	100	0	64	37	0	0	62	0.95
1026617--1026668	22	2.4	21	84	12	70	53	0	0	46	1.00
1028290--1028320	3	10.3	3	100	0	62	35	0	0	64	0.94
1028463--1028515	23	2.2	24	77	12	56	37	0	1	60	1.08
1032730--1032779	25	2.0	25	100	0	100	32	8	4	56	1.47
1042466--1042491	13	2.0	13	100	0	52	30	0	0	69	0.89
1042856--1042905	6	8.7	6	77	14	52	36	0	0	64	0.94
1042861--1042890	11	2.6	11	94	5	51	40	0	0	60	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1042833--1042895	17	3.8	17	79	6	67	41	0	0	58	0.98
1042922--1042991	21	3.3	22	74	13	74	54	1	0	44	1.09
1043114--1043158	22	2.0	22	86	0	63	40	0	2	57	1.11
1046032--1046092	32	1.9	32	86	6	88	60	0	1	37	1.07
1047036--1047077	11	4.0	11	87	6	61	26	7	0	66	1.17
1047112--1047161	23	2.2	23	85	7	66	54	0	0	46	1.00
1047394--1047499	28	3.8	26	77	19	85	52	1	1	43	1.23
1049264--1049298	2	17.5	2	100	0	70	0	48	0	51	1.00
1054870--1054904	2	18.0	2	94	5	63	48	0	0	51	1.00
1056001--1056030	5	6.0	5	100	0	60	80	0	20	0	0.72

Tables:   1   2   3   4   5   6   7   8   9   10