genome.fa.s24.2.7.7.80.10.50.1000.16.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: Scaffold24
Parameters: 2 7 7 80 10 50 1000
Length:  3006277

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

This is table  16  of  19  ( 2215 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)
2353755--2353800	24	1.9	24	81	0	56	43	0	0	56	0.99
2353791--2353821	14	2.1	15	94	5	55	64	0	0	35	0.94
2354650--2354703	16	3.4	16	74	18	51	44	0	3	51	1.19
2354943--2354996	17	3.2	16	76	10	54	64	0	3	31	1.11
2355223--2355287	15	4.2	16	76	11	64	36	0	1	61	1.05
2355224--2355280	8	7.5	8	72	18	50	36	0	1	61	1.07
2355223--2355281	30	2.0	29	87	9	84	37	0	1	61	1.07
2355768--2355794	12	2.2	12	100	0	54	59	0	0	40	0.98
2357498--2357524	13	2.1	13	100	0	54	44	22	7	25	1.79
2358760--2358789	3	10.0	3	100	0	60	33	0	0	66	0.92
2359691--2359738	24	2.0	24	100	0	96	16	12	16	54	1.72
2368703--2368736	10	3.3	10	88	8	50	73	0	26	0	0.83
2368702--2368740	11	3.6	11	82	6	53	74	0	25	0	0.82
2368935--2368989	10	5.7	10	74	8	60	43	0	0	56	0.99
2368939--2369012	19	4.0	18	75	15	53	48	0	0	51	1.00
2368919--2369088	19	9.2	18	65	21	52	41	1	0	56	1.14
2368917--2369090	11	15.9	11	64	19	53	40	1	0	56	1.13
2369023--2369113	41	2.2	40	80	16	98	37	4	3	54	1.37
2369266--2369305	11	3.0	14	75	24	50	42	0	0	57	0.98
2369541--2369574	16	2.1	17	88	5	52	50	0	0	50	1.00
2369549--2369612	27	2.4	28	86	5	96	65	1	0	32	1.02
2369549--2369649	28	3.6	29	78	11	113	60	1	0	37	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2369602--2369645	23	1.9	23	81	9	54	59	2	0	38	1.10
2369809--2369871	10	6.4	10	82	8	76	41	1	1	55	1.19
2369813--2369870	29	1.9	31	86	6	84	43	1	1	53	1.21
2370731--2370800	30	2.4	30	86	11	92	67	2	1	28	1.14
2370779--2370857	30	2.7	30	81	11	101	59	1	0	39	1.06
2370883--2370908	10	2.6	10	100	0	52	88	0	0	11	0.52
2372401--2372515	29	4.0	28	72	15	99	53	1	1	43	1.21
2375968--2375999	16	2.0	16	93	0	55	31	9	12	46	1.73
2376436--2376537	50	2.0	50	100	0	204	35	11	14	38	1.83
2376627--2376655	2	14.5	2	100	0	58	0	48	0	51	1.00
2378541--2378788	125	2.0	124	94	2	435	54	13	15	17	1.72
2382678--2382714	14	2.6	14	100	0	74	32	0	0	67	0.91
2382712--2382758	19	2.5	20	80	13	55	46	0	0	53	1.00
2383491--2383516	12	2.2	12	100	0	52	23	0	0	76	0.78
2384364--2384405	20	2.0	22	90	9	70	42	4	0	52	1.22
2386668--2386767	31	3.2	31	77	13	98	44	0	1	55	1.06
2386688--2386741	17	3.3	17	69	27	53	48	0	0	51	1.00
2386680--2386757	32	2.4	33	87	6	115	44	0	0	55	0.99
2386713--2386798	28	3.1	29	80	5	88	37	0	1	61	1.04
2387208--2387278	9	7.9	9	73	17	67	64	0	0	35	0.94
2387212--2387262	14	3.7	14	77	15	52	64	0	0	35	0.94
2387834--2387967	6	23.0	6	71	15	59	58	0	0	40	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2387869--2387968	10	9.9	10	70	19	66	62	0	0	38	0.96
2388117--2388200	33	2.7	31	78	18	86	36	0	2	60	1.10
2388152--2388237	21	3.8	22	76	19	63	31	2	3	62	1.24
2388632--2388661	14	2.1	14	93	0	51	46	0	0	53	1.00
2388636--2388680	23	2.0	21	83	8	54	57	0	0	42	0.98
2397653--2397690	2	19.0	2	100	0	76	50	0	0	50	1.00
2399431--2399457	13	2.1	13	100	0	54	77	0	0	22	0.76
2401125--2401167	16	2.7	15	79	10	50	37	0	2	60	1.10
2401816--2401848	16	1.9	18	88	11	52	45	3	0	51	1.16
2405301--2405367	16	4.1	16	70	21	50	56	1	0	41	1.08
2405765--2405805	21	1.9	22	85	14	59	48	2	0	48	1.14
2406453--2406488	18	2.0	18	88	0	54	50	0	0	50	1.00
2407253--2407278	2	13.0	2	100	0	52	50	0	0	50	1.00
2408921--2408995	30	2.5	30	80	4	89	37	17	0	45	1.49
2418423--2418480	16	3.5	17	74	23	61	43	0	0	56	0.99
2419454--2419494	21	1.9	22	85	14	59	75	0	2	21	0.92
2419569--2419616	16	3.0	16	90	0	69	54	4	2	39	1.32
2419570--2419706	37	3.6	38	75	13	104	51	6	2	39	1.40
2419712--2419773	16	3.9	15	83	8	70	66	0	1	32	1.02
2419732--2419801	33	2.2	33	87	7	99	70	0	1	28	0.96
2419722--2419792	16	4.4	16	77	7	63	66	0	2	30	1.06
2419763--2419835	25	3.2	20	75	22	65	64	2	1	31	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2420494--2420540	25	1.9	24	91	4	76	61	0	0	38	0.96
2420560--2420625	21	3.2	20	79	10	62	62	0	1	36	1.05
2420525--2420609	42	2.0	42	81	4	100	60	0	1	38	1.05
2421543--2421704	74	2.2	73	86	9	222	51	1	3	43	1.25
2424735--2424789	18	3.2	17	78	14	60	67	1	0	30	1.01
2424737--2424790	26	2.2	24	87	12	74	66	1	0	31	1.02
2424767--2424803	15	2.5	15	90	0	56	62	0	0	37	0.96
2426076--2426100	5	5.0	5	100	0	50	20	40	0	40	1.52
2426307--2426374	25	2.7	25	86	4	84	54	0	0	45	0.99
2426327--2426366	12	3.2	12	86	6	62	60	0	0	40	0.97
2427012--2427056	18	2.5	19	82	10	60	57	0	0	42	0.98
2431914--2431990	29	2.6	28	73	15	75	51	0	0	48	1.00
2432263--2432301	13	2.9	13	85	7	51	35	0	0	64	0.94
2432261--2432290	14	2.1	14	93	0	51	33	0	0	66	0.92
2432239--2432391	67	2.3	66	80	14	154	40	1	0	56	1.15
2432526--2432593	17	4.1	17	74	25	65	57	0	0	42	0.98
2432526--2432605	32	2.7	32	85	12	100	56	0	0	43	0.99
2437169--2437281	42	2.7	42	82	2	131	46	7	7	38	1.60
2437443--2437521	16	4.8	17	75	21	71	64	7	2	25	1.33
2437473--2437521	15	3.3	14	78	21	55	65	8	0	26	1.20
2437742--2437776	2	17.5	2	93	0	61	45	0	2	51	1.16
2439615--2439646	2	16.0	2	100	0	64	0	50	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2440942--2440990	22	2.2	23	89	7	75	34	0	12	53	1.39
2441420--2441462	2	21.5	2	90	0	68	48	4	0	46	1.22
2442077--2442134	19	3.1	19	85	14	93	48	0	0	51	1.00
2442083--2442147	18	3.6	18	83	4	85	50	0	0	49	1.00
2442198--2442265	23	2.8	25	76	10	61	44	1	1	52	1.19
2442234--2442284	21	2.4	21	80	6	59	41	3	1	52	1.31
2442504--2442602	29	3.4	29	81	15	93	42	2	1	54	1.18
2442530--2442652	30	4.2	30	75	16	107	41	0	1	56	1.15
2442984--2443038	12	4.1	13	76	19	51	41	1	3	52	1.29
2443047--2443094	16	2.9	16	79	11	53	56	0	0	43	0.99
2443029--2443093	29	2.3	28	75	17	64	53	0	0	46	1.00
2443157--2443200	23	2.0	23	86	4	63	50	20	4	25	1.67
2443528--2443590	20	3.2	21	74	17	64	52	0	1	46	1.10
2443745--2443799	26	2.1	26	83	12	69	56	3	3	36	1.34
2444700--2444729	9	3.2	9	90	9	51	60	0	0	40	0.97
2444674--2444745	19	3.9	19	70	24	57	54	0	1	44	1.08
2444697--2444730	5	7.0	5	93	6	61	58	0	0	41	0.98
2445708--2445732	3	8.3	3	100	0	50	36	0	0	64	0.94
2445871--2445942	28	2.4	30	84	15	89	62	1	0	36	1.04
2445896--2445943	25	2.0	23	84	15	62	62	0	0	37	0.95
2446969--2447028	22	2.8	22	80	16	72	35	0	0	65	0.93
2447968--2448010	21	1.9	21	81	13	50	39	2	0	58	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2448513--2448552	2	20.5	2	94	5	73	50	0	0	50	1.00
2449180--2449204	10	2.5	10	100	0	50	44	0	0	56	0.99
2450682--2450846	84	2.0	84	98	0	321	35	26	9	29	1.88
2452510--2452568	10	5.5	10	78	17	57	69	1	0	28	0.98
2453447--2453518	16	4.6	16	72	14	60	45	1	0	52	1.09
2455346--2455386	3	13.7	3	100	0	82	68	0	0	31	0.90
2459311--2459346	18	2.0	19	89	10	58	47	0	0	52	1.00
2459311--2459358	15	2.8	18	78	15	57	43	0	0	56	0.99
2459348--2459391	22	2.0	22	86	8	63	54	0	0	45	0.99
2463762--2463792	4	7.8	4	100	0	62	51	22	0	25	1.48

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