genome.fa.s129.2.7.7.80.10.50.1000.21.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: Scaffold129
Parameters: 2 7 7 80 10 50 1000
Length:  3652842

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

This is table  21  of  23  ( 2702 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)
3250632--3250746	27	4.0	26	74	21	113	27	14	34	22	1.94
3250460--3250745	95	2.9	93	81	12	296	31	12	34	20	1.91
3250532--3250841	62	5.0	61	88	6	349	30	13	33	22	1.92
3250460--3250854	157	2.4	160	78	16	408	32	13	33	21	1.92
3250812--3250992	62	2.9	62	84	8	212	28	17	29	24	1.97
3250849--3250992	31	4.6	31	85	10	188	25	19	30	25	1.98
3251932--3251957	11	2.4	11	100	0	52	0	7	0	92	0.39
3259119--3259239	52	2.3	52	97	0	224	28	18	18	34	1.94
3259119--3259259	52	2.7	51	90	4	212	30	17	18	33	1.94
3259248--3259272	13	1.9	13	100	0	50	36	16	16	32	1.90
3259313--3259379	33	2.0	33	88	0	98	40	13	11	34	1.81
3259335--3259359	13	1.9	13	100	0	50	32	16	16	36	1.90
3271661--3271789	52	2.5	52	97	0	240	28	18	17	34	1.94
3271661--3271809	52	2.9	52	87	6	212	30	17	18	34	1.94
3271798--3271822	13	1.9	13	100	0	50	36	16	16	32	1.90
3271860--3271960	32	3.1	32	92	1	166	36	18	10	33	1.86
3271884--3271940	13	3.9	13	76	24	60	33	19	14	33	1.91
3273459--3273499	14	2.8	15	85	7	57	4	29	0	65	1.13
3278030--3278067	20	1.9	20	94	0	67	39	7	18	34	1.80
3278050--3278146	50	1.9	50	85	4	133	40	11	18	29	1.86
3277982--3278136	70	2.2	71	89	3	242	40	10	17	30	1.84
3278859--3279146	28	10.2	28	81	6	280	24	19	27	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3278859--3279146	56	5.1	56	81	7	316	24	19	27	28	1.99
3278872--3279146	84	3.3	83	81	5	365	24	18	28	28	1.98
3283752--3283812	13	4.9	13	70	25	51	55	0	0	44	0.99
3283775--3283838	22	3.0	22	80	15	71	62	0	0	37	0.95
3296781--3296806	13	2.0	13	100	0	52	38	15	15	30	1.88
3296762--3296828	33	2.0	33	85	5	91	40	11	16	31	1.85
3296852--3296922	32	2.2	32	94	0	124	38	18	11	32	1.86
3296879--3296903	13	1.9	13	100	0	50	32	16	16	36	1.90
3296860--3296923	19	3.7	19	72	23	68	39	17	10	32	1.84
3297609--3297733	52	2.4	52	97	0	232	28	18	18	35	1.94
3297609--3297753	52	2.8	51	91	4	220	29	17	18	33	1.95
3297742--3297766	13	1.9	13	100	0	50	36	16	16	32	1.90
3297775--3297842	19	3.5	19	91	2	109	38	17	11	32	1.86
3306894--3307353	164	2.8	159	76	12	380	30	12	9	47	1.72
3308299--3308343	19	2.2	20	84	7	56	17	2	17	62	1.43
3309974--3310295	77	4.1	77	73	11	244	41	13	26	18	1.88
3310074--3310327	43	6.2	42	72	12	179	40	13	24	21	1.90
3310008--3310315	160	1.9	160	88	0	463	42	12	25	18	1.86
3310330--3310523	106	1.8	106	85	4	275	25	18	29	26	1.98
3310418--3310810	61	6.5	61	86	2	499	27	18	27	26	1.98
3311706--3311741	14	2.5	15	90	4	56	0	16	0	83	0.65
3316951--3316975	12	2.1	12	100	0	50	24	8	44	24	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3321841--3321904	32	2.0	33	87	3	94	26	14	18	40	1.89
3324386--3324411	13	2.0	13	100	0	52	38	15	15	30	1.88
3326489--3326519	15	2.1	15	93	0	53	12	22	16	48	1.80
3330593--3330618	13	2.0	13	100	0	52	30	15	15	38	1.88
3330573--3330636	32	2.0	33	87	3	94	28	14	17	40	1.88
3333990--3334424	79	5.5	78	80	9	404	32	13	25	28	1.93
3333998--3334428	159	2.7	156	79	8	467	33	13	24	28	1.93
3336774--3336956	50	3.6	50	80	2	208	38	12	20	28	1.89
3338735--3338809	20	3.8	20	78	0	87	34	13	12	40	1.81
3338735--3338812	40	2.0	39	87	2	111	34	12	12	39	1.82
3345860--3345905	23	2.0	24	86	4	67	71	13	10	4	1.27
3345900--3345946	21	2.2	21	85	11	60	76	8	8	6	1.15
3347042--3347504	88	5.3	88	79	4	441	26	18	12	42	1.87
3347042--3347467	175	2.4	176	81	4	459	26	18	12	42	1.86
3350852--3350976	52	2.4	52	95	0	223	27	18	18	36	1.94
3350852--3350996	52	2.8	51	88	4	211	28	17	18	34	1.94
3350985--3351009	13	1.9	13	100	0	50	36	16	16	32	1.90
3351050--3351147	32	3.0	32	89	1	151	37	16	11	34	1.84
3353134--3353221	20	4.8	19	71	21	71	39	11	13	35	1.81
3353236--3353313	32	2.4	32	91	0	120	33	16	12	37	1.87
3353878--3354362	60	8.1	60	73	7	267	18	15	18	48	1.82
3353882--3354133	120	2.1	119	81	5	294	18	15	17	48	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3354436--3354538	53	1.9	53	82	3	127	24	21	13	40	1.89
3355723--3355820	19	5.8	18	69	28	81	35	17	12	34	1.87
3355718--3355818	32	3.1	32	94	1	175	34	17	11	35	1.87
3355742--3355798	13	3.9	13	72	24	51	31	17	14	36	1.89
3356608--3356717	58	1.9	58	83	3	141	31	15	30	21	1.94
3356662--3357312	92	7.0	92	95	0	1133	30	18	26	24	1.98
3357309--3357617	32	9.9	32	86	7	313	18	18	34	28	1.95
3357393--3357666	32	8.9	30	85	7	254	22	17	33	26	1.96
3357393--3357666	59	4.5	61	87	4	299	22	17	33	26	1.96
3357560--3357802	30	8.2	29	71	17	101	29	16	30	24	1.96
3357509--3357677	89	1.9	88	81	8	198	23	18	31	26	1.97
3357713--3357801	31	2.9	30	86	1	124	32	15	26	24	1.96
3357901--3357932	9	3.7	9	95	4	57	21	0	25	53	1.46
3357900--3357938	9	4.6	8	90	6	51	25	2	23	48	1.63
3358844--3358877	17	2.0	17	88	0	50	0	11	8	79	0.94
3364226--3364710	60	8.1	60	75	6	331	18	15	17	48	1.82
3364657--3364767	53	2.1	53	83	5	134	16	16	18	49	1.80
3364226--3364723	180	2.8	179	77	6	535	18	15	18	48	1.81
3364640--3364907	113	2.4	111	78	6	236	20	18	16	44	1.87
3364784--3364886	53	1.9	53	82	3	127	24	21	13	40	1.89
3365980--3366065	40	2.2	40	82	2	102	17	19	16	46	1.84
3366098--3366207	41	2.7	39	75	9	105	20	34	10	35	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3366307--3366462	66	2.4	66	84	0	195	18	23	14	44	1.86
3366366--3366568	67	3.0	67	81	3	185	17	19	15	48	1.82
3367856--3367891	13	2.6	15	79	20	51	36	0	2	61	1.11
3371745--3372270	155	3.4	155	78	4	454	25	14	19	40	1.90
3371843--3372330	155	3.2	155	79	4	398	25	15	19	39	1.90
3372326--3372367	18	2.4	17	84	15	50	26	2	9	61	1.39
3375039--3375074	17	2.1	17	100	0	72	44	22	22	11	1.84
3375407--3375433	2	13.5	2	100	0	54	48	0	0	51	1.00
3379165--3379197	7	5.0	7	85	14	52	0	57	0	42	0.98
3381352--3381400	3	16.3	3	100	0	98	67	0	0	32	0.91
3382524--3382571	25	1.9	25	95	0	87	39	6	10	43	1.64
3385024--3385064	18	2.3	18	86	0	55	4	4	46	43	1.46
3388833--3388885	22	2.4	21	75	9	52	7	28	1	62	1.33
3390633--3390688	27	2.1	27	100	0	112	46	3	14	35	1.62
3393464--3393502	2	19.5	2	94	0	69	51	2	0	46	1.14
3393883--3393907	11	2.3	11	100	0	50	28	0	0	72	0.86
3393883--3393922	16	2.4	17	91	8	64	27	0	0	72	0.85
3393882--3393932	24	2.1	24	82	7	59	35	0	0	64	0.94
3394448--3394493	23	1.9	23	82	8	56	36	0	0	63	0.95
3395267--3395348	24	3.4	23	72	14	67	52	0	0	47	1.00
3395267--3395329	22	2.8	23	81	13	69	57	0	0	42	0.99
3395276--3395345	23	3.1	23	79	6	63	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)
3395328--3395369	21	2.0	21	86	13	61	40	0	0	59	0.97
3395514--3395585	31	2.2	31	78	7	72	50	1	0	48	1.09
3396001--3396123	61	2.0	61	91	0	201	39	8	5	46	1.57
3397983--3398198	112	1.9	112	90	0	342	43	13	14	28	1.83
3400421--3400451	13	2.4	13	94	0	53	41	9	16	32	1.80
3400401--3400465	33	2.0	33	87	6	96	36	13	13	35	1.85
3400517--3400543	13	2.1	13	100	0	54	40	14	14	29	1.86
3400498--3400562	32	2.0	33	90	3	105	41	13	15	29	1.86
3401136--3401177	22	1.9	22	95	0	75	21	35	4	38	1.75
3402043--3402067	13	1.9	13	100	0	50	32	16	16	36	1.90

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