genome.fa.s153.2.7.7.80.10.50.1000.19.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: Scaffold153
Parameters: 2 7 7 80 10 50 1000
Length:  3137677

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   

This is table  19  of  24  ( 2803 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)
2482567--2482591	13	1.9	13	100	0	50	96	0	4	0	0.24
2482770--2482822	16	3.2	16	68	5	52	47	1	0	50	1.12
2482768--2482841	33	2.2	34	90	7	116	55	1	0	43	1.08
2483638--2483675	19	2.0	20	85	15	53	31	21	7	39	1.82
2486884--2486925	2	21.0	2	100	0	84	0	50	0	50	1.00
2486986--2487011	13	2.0	13	100	0	52	38	0	0	61	0.96
2487298--2487336	20	2.0	20	90	10	62	64	0	0	35	0.94
2487665--2487689	4	6.2	4	100	0	50	24	0	0	76	0.80
2488124--2488187	21	3.0	22	73	11	62	60	0	0	39	0.97
2488665--2488706	22	2.0	22	85	4	59	42	2	2	52	1.27
2489421--2489449	10	2.7	11	94	5	51	17	0	0	82	0.66
2490751--2491058	164	1.9	167	82	4	401	23	16	21	38	1.93
2494595--2494622	14	2.0	14	100	0	56	57	0	0	42	0.99
2496232--2496281	21	2.3	23	80	13	61	44	0	0	56	0.99
2505248--2505341	1	94.0	1	76	0	71	86	5	8	0	0.71
2505248--2505341	38	2.5	37	92	3	152	86	5	8	0	0.71
2505286--2505339	27	1.9	29	92	7	94	87	5	7	0	0.68
2505246--2505341	37	3.0	30	77	21	104	84	5	10	0	0.77
2507518--2507570	13	3.7	14	78	14	63	32	0	3	64	1.12
2507540--2507584	13	3.3	14	84	9	58	37	0	2	60	1.09
2508260--2508346	29	2.9	29	69	17	72	47	0	1	51	1.08
2510926--2510950	8	3.1	8	100	0	50	24	12	28	36	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2511163--2511205	20	2.2	20	83	8	52	62	0	0	37	0.95
2511765--2511797	15	2.2	15	94	0	57	36	18	6	39	1.75
2515807--2515865	17	3.6	17	77	15	61	37	0	0	62	0.95
2515821--2515867	16	2.9	16	81	6	60	34	0	0	65	0.93
2518855--2518885	15	2.1	15	100	0	62	48	0	6	45	1.28
2519249--2519309	26	2.4	25	81	10	63	60	0	1	37	1.07
2527986--2528030	23	2.1	22	88	12	67	44	0	0	55	0.99
2528217--2528280	18	3.4	19	78	6	67	37	0	0	62	0.95
2528363--2528401	12	3.2	12	83	16	53	43	0	0	56	0.99
2528363--2528412	26	2.0	25	84	4	64	46	2	0	52	1.12
2528784--2528808	9	2.8	9	100	0	50	60	0	0	40	0.97
2529195--2529363	29	6.0	29	68	17	88	40	0	0	58	1.02
2529196--2529248	19	2.6	21	80	17	67	49	0	0	50	1.00
2529214--2529288	31	2.4	31	82	10	89	46	0	0	53	1.00
2530517--2530579	22	2.8	22	81	11	74	61	0	0	38	0.96
2533884--2533917	17	2.1	17	94	5	61	47	0	0	52	1.00
2534286--2534401	23	5.2	23	67	24	63	49	1	1	47	1.22
2536386--2536497	32	3.4	34	75	10	99	50	2	0	47	1.15
2538006--2538049	3	14.7	3	100	0	88	31	0	0	68	0.90
2540808--2540842	18	1.9	18	88	0	52	48	17	17	17	1.81
2543968--2543999	2	16.0	2	93	0	55	50	3	0	46	1.17
2548994--2549028	17	2.1	17	88	0	52	42	8	2	45	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2549480--2549543	20	3.1	20	78	14	67	71	0	20	7	1.10
2549481--2549540	25	2.4	25	83	8	68	71	0	21	6	1.08
2549771--2549810	20	2.0	20	85	0	53	32	5	2	60	1.32
2552190--2552249	30	2.0	29	84	9	77	46	0	0	53	1.00
2552228--2552274	22	2.1	22	88	7	69	59	0	0	40	0.97
2552206--2552262	30	1.9	30	82	7	71	50	0	0	49	1.00
2553199--2553241	17	2.6	16	80	20	52	37	0	0	62	0.95
2553197--2553248	19	2.7	19	72	21	54	40	0	0	59	0.97
2554005--2554070	32	2.1	34	86	11	95	34	1	0	63	1.04
2553998--2554084	30	2.9	30	80	11	99	37	1	0	60	1.04
2555081--2555160	32	2.5	32	76	13	83	42	5	3	48	1.42
2555567--2555594	2	14.0	2	100	0	56	50	0	0	50	1.00
2559323--2559358	18	2.1	16	90	10	54	33	11	5	50	1.61
2560578--2560628	3	17.0	3	83	0	66	41	58	0	0	0.98
2564134--2564548	208	2.0	204	82	3	492	36	27	7	27	1.84
2566098--2566181	16	5.5	16	69	24	56	57	3	0	39	1.16
2566047--2566117	20	3.8	20	68	19	53	54	4	0	40	1.20
2566077--2566179	31	3.3	30	80	10	93	56	3	0	39	1.18
2566098--2566180	7	11.0	7	69	18	51	56	3	0	39	1.17
2566094--2566195	30	3.4	30	78	11	102	55	3	0	40	1.18
2566504--2566574	17	4.2	17	73	8	56	46	0	0	53	1.00
2566504--2566574	33	2.1	34	84	7	92	46	0	0	53	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2566567--2566615	16	3.2	16	72	24	52	36	0	0	63	0.95
2566597--2566630	11	3.2	10	88	12	50	38	2	0	58	1.13
2566734--2566785	18	2.8	19	74	11	63	51	0	0	48	1.00
2566732--2566795	18	3.5	18	72	16	60	53	0	0	46	1.00
2576728--2576782	8	6.3	9	78	21	64	63	0	1	34	1.05
2576731--2576782	19	2.8	19	86	11	65	63	0	1	34	1.06
2576685--2576764	42	1.9	41	80	14	92	65	1	3	30	1.18
2576681--2576844	11	14.6	11	67	21	74	61	1	2	34	1.17
2578471--2578505	17	2.0	18	88	5	54	17	0	2	80	0.84
2578811--2578863	24	2.1	26	82	6	65	41	0	0	58	0.98
2581045--2581119	29	2.6	29	82	2	87	32	22	6	38	1.80
2581181--2581247	30	2.2	30	91	0	107	31	7	25	35	1.84
2585999--2586026	2	14.0	2	100	0	56	50	0	0	50	1.00
2586199--2586233	2	17.5	2	100	0	70	48	0	0	51	1.00
2586761--2586824	29	2.2	29	82	2	74	59	12	15	12	1.61
2587988--2588078	18	4.3	20	71	25	64	59	0	0	40	0.97
2587995--2588059	8	7.8	8	77	14	51	56	0	0	43	0.99
2587992--2588044	17	3.1	16	77	17	54	58	0	0	41	0.98
2588004--2588097	20	4.8	20	75	17	74	58	1	0	40	1.05
2587957--2588096	65	2.1	65	78	12	144	54	1	0	43	1.14
2588004--2588095	27	3.2	27	77	17	80	58	1	0	40	1.05
2588429--2588472	15	2.9	15	83	9	54	54	0	0	45	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2590136--2590173	20	1.9	20	88	0	58	39	2	5	52	1.38
2590391--2590453	24	2.7	23	80	9	65	52	0	0	47	1.00
2591961--2591997	18	2.1	18	90	10	58	78	0	2	18	0.87
2594752--2594785	2	17.0	2	93	0	59	50	2	0	47	1.16
2595140--2595185	24	2.0	23	91	4	74	39	2	0	58	1.10
2595373--2595470	44	2.2	44	94	1	169	53	1	3	42	1.23
2595556--2595613	27	2.1	29	84	12	77	63	0	0	36	0.94
2597399--2597429	2	15.5	2	100	0	62	51	0	48	0	1.00
2607654--2607751	18	5.3	18	67	19	58	36	1	0	62	1.02
2607737--2607770	14	2.3	15	90	5	52	41	0	0	58	0.98
2607774--2607798	7	3.6	7	100	0	50	72	0	0	28	0.86
2607822--2607863	11	4.1	10	81	12	50	42	0	2	54	1.13
2607861--2607911	24	2.0	26	88	7	79	43	0	0	56	0.99
2607886--2607920	17	2.0	18	94	5	63	48	0	0	51	1.00
2609177--2609258	6	13.7	6	73	18	64	41	2	0	56	1.13
2609190--2609221	16	1.9	17	93	6	57	46	0	0	53	1.00
2609348--2609389	21	2.0	21	86	13	61	59	0	0	40	0.97
2609815--2609861	22	2.0	22	84	8	58	57	0	0	42	0.98
2609818--2609879	21	3.0	20	72	9	52	56	0	0	43	0.99
2609834--2609877	16	2.8	17	80	16	51	54	0	0	45	0.99
2609845--2609877	15	2.1	16	88	5	50	54	0	0	45	0.99
2610096--2610135	20	2.1	18	90	9	62	37	0	0	62	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2610490--2610567	38	2.1	38	83	13	99	48	1	1	48	1.17
2610588--2610633	23	2.0	24	83	12	60	34	0	0	65	0.93
2610773--2610803	2	15.5	2	93	0	53	0	45	3	51	1.17
2610769--2610799	14	2.2	14	100	0	62	0	41	6	51	1.27
2610980--2611006	2	13.5	2	100	0	54	48	0	0	51	1.00
2611187--2611276	18	4.9	18	70	11	67	48	0	0	51	1.00
2612065--2612131	18	3.8	18	75	15	68	56	0	0	43	0.99
2612349--2612448	24	4.7	21	68	27	68	54	1	1	44	1.13
2612308--2612438	17	8.1	17	71	21	86	55	0	0	43	1.05
2612380--2612457	26	3.2	25	75	17	65	51	1	3	43	1.28

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24