genome.fa.s50.2.7.7.80.10.50.1000.15.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: Scaffold50
Parameters: 2 7 7 80 10 50 1000
Length:  2541760

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

This is table  15  of  16  ( 1865 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)
2321351--2321415	19	3.7	19	69	23	61	38	9	16	35	1.81
2321403--2321458	13	3.9	13	77	20	58	35	12	16	35	1.86
2321352--2321484	31	4.2	32	93	0	207	36	10	17	36	1.84
2321506--2321584	13	6.9	12	68	20	62	35	18	12	32	1.89
2321507--2321584	34	2.3	34	100	0	156	34	19	12	33	1.90
2321595--2321723	52	2.5	52	90	0	213	34	17	18	29	1.94
2326475--2326500	13	2.0	13	100	0	52	30	15	15	38	1.88
2328565--2328607	20	2.1	20	82	4	50	9	27	44	18	1.80
2331122--2331152	15	2.1	15	93	0	53	12	22	16	48	1.80
2335212--2335237	13	2.0	13	100	0	52	30	15	15	38	1.88
2335192--2335255	32	2.0	33	87	3	94	29	14	15	40	1.86
2335270--2335513	49	5.2	49	79	12	298	30	16	25	26	1.97
2335266--2335513	92	2.7	92	94	0	417	30	17	25	26	1.97
2335504--2335639	33	4.2	33	83	3	170	20	18	33	27	1.96
2335588--2335704	36	3.3	36	80	12	102	29	16	31	22	1.95
2335646--2335776	65	2.1	62	85	7	174	36	12	30	19	1.90
2335640--2335938	33	9.0	34	82	11	279	35	14	31	18	1.91
2335640--2335938	96	3.0	96	85	8	368	35	14	31	18	1.91
2335645--2335972	33	10.1	31	78	14	226	34	14	31	19	1.92
2335646--2335965	160	2.0	160	84	7	418	34	15	30	19	1.93
2336071--2336108	16	2.3	17	86	4	51	26	5	23	44	1.74
2337267--2337303	5	7.8	5	88	11	60	0	0	16	83	0.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2337254--2337307	18	3.1	17	84	7	72	0	0	20	79	0.73
2337254--2337303	9	5.4	9	81	11	57	0	0	20	80	0.72
2337251--2337302	13	3.8	13	76	16	52	0	0	19	80	0.71
2337261--2337311	9	5.8	9	80	17	54	0	0	19	80	0.71
2337277--2337318	19	2.2	19	86	0	57	2	2	16	78	0.96
2343029--2343666	165	3.9	164	80	8	636	50	9	10	29	1.68
2343029--2343666	330	1.9	329	81	7	758	50	9	10	29	1.68
2346565--2346746	32	5.7	32	77	3	161	34	31	12	20	1.90
2346551--2346746	64	3.1	63	77	8	207	35	30	14	19	1.92
2347625--2347945	166	1.9	165	79	6	353	31	12	9	45	1.75
2348547--2348582	10	3.4	10	85	14	54	83	0	16	0	0.65
2348552--2348589	12	3.1	12	85	14	51	81	0	15	2	0.80
2348547--2348591	22	2.1	21	91	4	72	82	0	15	2	0.77
2352199--2352224	13	2.0	13	100	0	52	30	15	15	38	1.88
2352911--2352954	21	2.1	21	83	8	54	25	31	4	38	1.76
2356840--2356870	15	2.1	15	93	0	53	12	22	16	48	1.80
2358674--2358718	21	2.1	21	84	8	56	22	20	4	53	1.63
2360935--2360960	13	2.0	13	100	0	52	30	15	15	38	1.88
2364438--2364462	13	1.9	13	100	0	50	32	16	16	36	1.90
2364471--2364755	52	5.5	52	97	0	525	35	18	18	27	1.95
2378560--2378640	16	4.9	15	79	14	81	86	9	2	1	0.72
2378561--2378656	15	6.3	15	76	18	76	84	12	2	1	0.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2378558--2378656	23	4.1	23	82	12	110	84	12	2	1	0.75
2378559--2378641	18	4.9	17	77	18	84	86	9	2	1	0.71
2378556--2378644	17	5.2	17	82	9	110	85	11	2	1	0.74
2378593--2378653	9	6.9	9	79	9	63	85	14	0	0	0.60
2378558--2378641	1	84.0	1	75	0	69	86	9	2	1	0.70
2380090--2380402	29	10.7	29	85	2	421	30	29	17	23	1.97
2380086--2380407	59	5.5	59	92	0	488	30	29	16	23	1.96
2380081--2380448	29	12.7	29	81	6	325	30	30	16	22	1.96
2380377--2380458	28	2.9	28	83	12	96	34	29	18	18	1.94
2380081--2380448	118	3.2	115	85	3	463	30	30	16	22	1.96
2380470--2380832	43	8.0	43	82	10	438	25	25	18	30	1.98
2380465--2380885	92	4.5	92	93	1	698	25	25	17	31	1.97
2380786--2380896	52	2.1	55	88	5	165	23	24	14	37	1.92
2384358--2384487	52	2.5	52	94	0	224	29	19	16	34	1.94
2384442--2384519	32	2.4	32	97	0	147	28	23	19	29	1.98
2384391--2384571	84	2.2	84	96	0	335	27	20	18	33	1.96
2384362--2384622	136	1.9	136	96	0	477	27	19	18	34	1.96
2384475--2384622	52	2.8	52	98	0	287	27	19	19	33	1.96
2384631--2384655	13	1.9	13	100	0	50	36	16	16	32	1.90
2384693--2384793	32	3.1	32	94	1	166	34	15	11	37	1.85
2384717--2384773	13	3.9	13	72	24	51	33	15	14	36	1.88
2387171--2387222	21	2.5	21	96	0	95	9	23	11	55	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2389281--2389350	27	2.6	27	90	0	104	20	10	42	27	1.83
2391557--2391617	13	5.2	13	70	22	62	39	14	13	32	1.85
2391538--2391618	33	2.5	32	86	9	110	40	13	13	32	1.84
2391558--2391620	33	1.9	33	96	0	117	38	12	12	36	1.82
2391649--2391701	21	2.6	21	88	5	74	33	18	11	35	1.87
2393232--2393713	49	10.0	49	78	12	437	32	17	26	24	1.96
2393353--2393722	92	4.0	92	91	2	544	32	17	25	24	1.97
2393264--2393722	141	3.2	140	80	11	472	32	17	25	24	1.97
2393818--2393925	34	3.2	34	82	6	114	36	14	33	15	1.89
2393906--2393975	35	2.1	33	83	5	86	37	12	27	22	1.91
2393953--2394096	28	5.0	28	79	5	162	20	14	31	32	1.93
2393949--2394096	58	2.6	57	87	4	208	22	14	31	31	1.94
2395527--2395558	8	3.9	8	92	8	55	0	0	12	87	0.54
2395526--2395559	9	3.9	9	84	7	52	0	0	11	88	0.52
2409413--2409480	20	3.8	20	67	25	60	38	10	13	38	1.78
2409634--2409658	12	2.1	12	100	0	50	44	8	16	32	1.76
2410095--2410207	51	2.2	51	87	0	154	40	11	24	23	1.87
2415995--2416117	40	3.1	41	81	10	148	33	14	12	39	1.83
2416003--2416116	20	5.8	20	74	9	108	33	13	12	41	1.81
2420303--2420501	92	2.2	92	91	1	328	30	18	13	38	1.88
2420466--2420503	20	1.9	20	100	0	76	31	15	10	42	1.81
2427323--2427375	13	4.5	13	69	26	55	35	16	13	33	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2427326--2427388	33	1.9	33	90	6	101	33	17	14	34	1.90
2427359--2427555	81	2.4	81	87	2	259	34	15	19	30	1.93
2427501--2427554	19	2.8	20	85	5	74	35	16	18	29	1.93
2428127--2428170	21	2.2	21	88	8	65	38	20	4	36	1.73
2429585--2429629	20	2.1	22	88	8	67	13	28	40	17	1.88
2429981--2430005	6	4.2	6	100	0	50	32	0	48	20	1.50
2430148--2430190	18	2.2	20	84	15	56	51	20	2	25	1.60
2439271--2439349	23	3.5	23	74	10	81	40	6	29	24	1.79
2439261--2439326	22	3.0	22	76	10	80	36	4	24	34	1.76
2439261--2439354	45	2.1	45	93	0	161	35	6	24	34	1.81
2439955--2440011	19	2.9	19	89	5	87	31	14	17	36	1.89
2439956--2440010	20	2.8	20	91	2	85	30	12	18	38	1.88
2440042--2440092	20	2.5	20	90	0	75	33	15	15	35	1.90
2440810--2440878	29	2.4	29	76	9	79	56	23	8	11	1.62
2442244--2442283	21	2.0	21	90	5	64	47	0	20	32	1.50
2442410--2442521	50	2.3	50	86	4	158	31	13	18	36	1.90
2448628--2448652	13	1.9	13	100	0	50	44	16	16	24	1.86
2448606--2448645	20	2.0	20	90	0	62	37	15	12	35	1.85
2448606--2448669	20	3.6	18	72	27	57	37	15	14	32	1.87
2454577--2454606	13	2.3	13	100	0	60	36	13	16	33	1.88
2454652--2454723	19	3.7	19	90	1	99	34	18	19	27	1.95
2455906--2455977	28	2.6	28	88	0	99	23	19	34	22	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2455966--2456302	52	6.4	52	68	17	185	31	12	26	29	1.93
2456122--2456192	27	2.6	27	88	2	97	22	21	32	23	1.98
2455852--2456244	107	3.7	106	72	11	343	30	14	27	27	1.95
2455899--2456304	212	1.9	212	89	3	629	31	13	27	27	1.94
2458664--2458689	13	2.0	13	100	0	52	38	15	15	30	1.88
2458820--2458876	21	2.7	21	100	0	114	36	21	10	31	1.87
2458888--2458919	16	2.0	16	100	0	64	12	6	0	81	0.87
2465231--2465255	3	8.3	3	100	0	50	36	32	0	32	1.58
2468543--2468587	21	2.1	21	87	0	63	46	11	8	33	1.70
2470172--2470197	9	2.9	9	100	0	52	11	19	0	69	1.18

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