genome.fa.s412.2.7.7.80.10.50.1000.24.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: Scaffold412
Parameters: 2 7 7 80 10 50 1000
Length:  4645160

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   25   26   27   28   29   30   31   32   

This is table  24  of  32  ( 3728 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)
3389447--3389978	49	10.8	49	80	4	503	24	23	16	34	1.96
3389452--3389961	97	5.2	96	80	6	459	24	24	17	33	1.96
3389444--3389978	247	2.2	246	82	4	655	24	24	16	34	1.96
3389447--3389964	150	3.5	149	80	2	594	24	24	17	33	1.96
3389447--3390007	101	5.7	101	81	4	439	24	24	16	34	1.96
3394206--3394231	13	2.0	13	100	0	52	38	15	15	30	1.88
3394185--3394251	33	2.0	33	88	0	98	43	16	14	25	1.86
3394271--3394338	19	3.9	18	73	23	74	39	14	10	35	1.80
3394274--3394336	32	2.0	32	93	0	108	38	15	11	34	1.83
3394393--3394450	21	2.8	21	94	0	98	36	18	10	34	1.85
3394989--3395200	119	1.8	116	81	11	261	39	15	25	19	1.91
3395231--3395371	28	5.1	27	62	15	65	21	19	30	27	1.98
3395184--3395954	55	13.3	59	89	3	865	25	20	28	26	1.99
3409776--3409801	13	2.0	13	100	0	52	38	15	15	30	1.88
3409755--3409821	33	2.0	33	88	0	98	43	16	14	25	1.86
3409841--3409908	19	3.9	18	76	23	83	38	14	11	35	1.83
3409863--3409887	13	1.9	13	100	0	50	32	16	16	36	1.90
3409844--3409906	32	2.0	32	96	0	117	36	15	12	34	1.86
3409944--3410020	21	3.7	21	82	3	93	37	15	11	35	1.84
3412815--3413118	158	1.9	158	83	4	389	32	14	25	27	1.95
3412815--3413119	79	3.9	79	81	5	339	32	14	25	27	1.95
3417787--3417836	20	2.5	20	100	0	100	40	10	20	30	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3418264--3419548	28	45.0	28	84	4	1507	22	17	32	27	1.96
3418264--3419548	113	11.2	112	84	5	1493	22	17	32	27	1.96
3418264--3419545	601	2.1	598	91	2	2054	22	17	32	27	1.96
3420609--3420649	21	2.0	21	85	9	57	39	12	9	39	1.76
3420729--3420865	53	2.6	53	94	1	229	37	17	16	27	1.92
3420910--3420960	21	2.4	22	93	6	95	27	23	11	37	1.90
3425659--3426152	246	2.0	246	98	0	952	34	14	21	29	1.93
3434766--3434791	13	2.0	13	100	0	52	38	15	15	30	1.88
3434745--3434811	33	2.0	33	88	0	98	43	16	14	25	1.86
3434831--3434898	19	3.9	18	76	23	83	38	14	11	35	1.83
3434853--3434877	13	1.9	13	100	0	50	32	16	16	36	1.90
3434834--3434896	32	2.0	32	96	0	117	36	15	12	34	1.86
3434934--3435010	21	3.7	21	82	3	93	37	15	11	35	1.84
3437805--3438108	158	1.9	158	83	4	389	32	14	25	27	1.95
3437805--3438109	79	3.9	79	81	5	339	32	14	25	27	1.95
3442778--3442827	20	2.5	20	100	0	100	40	10	20	30	1.85
3443255--3444539	28	45.0	28	84	4	1507	22	17	32	27	1.96
3443255--3444539	113	11.2	112	84	5	1493	22	17	32	27	1.96
3443255--3444536	601	2.1	598	91	2	2054	22	17	32	27	1.96
3445600--3445640	21	2.0	21	85	9	57	39	12	9	39	1.76
3445720--3445856	53	2.6	53	94	1	229	37	17	16	27	1.92
3445900--3445951	21	2.4	22	90	6	88	26	21	11	40	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3450650--3451143	246	2.0	246	98	0	952	34	14	21	29	1.93
3455083--3455121	18	2.2	18	100	0	78	46	28	5	20	1.72
3457592--3457648	20	2.8	20	82	7	71	38	12	15	33	1.85
3458342--3458370	14	2.1	14	100	0	58	20	44	0	34	1.52
3458737--3458792	20	2.8	20	88	0	85	46	12	12	28	1.78
3469782--3470107	130	2.5	126	76	11	293	34	13	23	28	1.92
3470084--3470138	28	2.0	28	92	0	92	32	18	25	23	1.97
3470122--3470237	51	2.3	51	86	3	162	29	12	27	31	1.92
3470173--3470469	79	3.8	78	82	6	352	31	14	25	28	1.95
3470407--3470587	51	3.5	51	83	3	222	33	12	25	29	1.92
3473743--3473802	13	4.8	12	78	15	59	83	10	1	5	0.87
3473742--3473818	21	3.6	20	81	8	73	81	12	1	3	0.88
3473756--3473818	14	4.5	13	80	13	63	84	11	1	3	0.81
3475411--3475512	52	1.9	53	90	2	161	20	28	16	34	1.95
3475432--3475549	52	2.3	52	86	0	155	23	27	15	33	1.95
3475567--3475819	52	4.9	53	75	9	209	24	24	15	35	1.94
3475786--3475903	61	1.9	61	85	0	164	27	22	11	38	1.88
3476558--3476583	13	2.0	13	100	0	52	38	15	15	30	1.88
3479220--3479306	27	3.2	27	80	0	102	19	32	14	33	1.92
3479274--3479340	34	2.0	34	84	0	89	17	31	14	35	1.91
3479314--3479408	28	3.3	28	85	2	127	33	30	17	17	1.94
3479437--3479597	87	1.9	84	86	6	227	27	23	19	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3479523--3479751	52	4.6	49	79	5	235	24	26	18	30	1.98
3479512--3479751	101	2.4	100	83	3	277	25	26	18	30	1.98
3480498--3480583	32	2.4	36	75	22	99	37	12	16	33	1.87
3480520--3480582	19	3.6	19	74	24	75	33	12	17	36	1.88
3480538--3480564	13	2.1	13	100	0	54	29	14	14	40	1.86
3480518--3480595	32	2.4	32	91	0	129	34	14	16	34	1.89
3480614--3480641	13	2.2	13	100	0	56	28	14	17	39	1.89
3484601--3484667	33	2.0	33	88	0	98	34	11	13	40	1.81
3484621--3484645	13	1.9	13	100	0	50	36	16	16	32	1.90
3484711--3484735	13	1.9	13	100	0	50	32	16	16	36	1.90
3484744--3484864	52	2.3	52	94	0	215	33	19	18	28	1.95
3486931--3488058	564	2.0	564	100	0	2256	29	21	13	34	1.92
3488272--3488736	233	2.0	234	89	1	718	25	27	20	25	1.99
3488505--3490217	739	2.3	739	94	0	2982	29	21	17	30	1.97
3492552--3492584	16	2.0	17	88	5	50	66	0	0	33	0.92
3499419--3499446	13	2.2	13	100	0	56	28	14	17	39	1.89
3499401--3499464	33	1.9	33	87	6	94	31	15	12	40	1.85
3501956--3501981	13	2.0	13	100	0	52	30	15	15	38	1.88
3502995--3503861	28	30.0	28	87	4	1068	28	30	17	23	1.97
3502996--3503860	143	6.0	141	88	5	1162	28	30	17	23	1.97
3502995--3503861	115	7.5	115	90	2	1296	28	30	17	23	1.97
3504425--3504498	20	3.7	20	79	0	94	33	13	12	40	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3507841--3507900	21	2.9	21	90	5	86	78	1	18	1	0.92
3507845--3507900	15	3.8	16	71	20	50	76	1	19	1	0.96
3507843--3507889	11	4.3	11	89	8	69	78	0	21	0	0.75
3509590--3509829	97	2.5	96	84	2	309	30	29	12	28	1.93
3513982--3514033	22	2.4	22	80	6	61	36	21	13	28	1.91
3514376--3514501	53	2.4	53	81	4	146	35	7	14	42	1.75
3514581--3514648	21	3.2	21	93	2	109	35	25	5	33	1.80
3517130--3517171	9	4.7	9	77	11	50	76	2	0	21	0.90
3517358--3517430	36	2.0	37	94	2	130	32	4	2	60	1.30
3517431--3517658	124	1.8	123	80	6	273	33	8	7	50	1.62
3519053--3519107	27	2.0	27	96	0	101	45	3	12	38	1.60
3519206--3519256	19	2.5	19	79	17	50	43	1	1	52	1.23
3519978--3520003	13	2.0	13	100	0	52	38	15	15	30	1.88
3522190--3522234	21	2.1	21	84	8	56	53	4	20	22	1.63
3524029--3524058	15	2.0	15	93	0	51	50	13	23	13	1.77
3526137--3526175	13	3.0	13	100	0	78	30	15	15	38	1.88
3526296--3526341	21	2.2	20	81	11	58	32	19	4	43	1.71
3528719--3528744	13	2.0	13	100	0	52	38	15	15	30	1.88
3537110--3537143	12	2.8	12	90	4	50	35	2	2	58	1.28
3545452--3545491	9	4.8	9	76	17	50	10	0	45	45	1.37
3545467--3545550	34	2.5	34	92	0	141	20	0	40	39	1.52
3548772--3548950	88	2.0	88	96	0	331	27	16	13	42	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3553958--3554007	24	2.3	21	83	16	66	46	0	0	54	1.00
3554198--3554241	21	2.1	21	83	8	54	31	0	0	68	0.90
3555320--3555402	16	5.2	16	71	5	51	15	8	28	46	1.75
3558968--3559036	31	2.2	31	89	0	102	26	14	10	49	1.75
3564082--3564123	16	2.6	16	96	0	75	28	11	0	59	1.33
3564864--3565294	227	1.9	227	95	0	781	32	15	17	34	1.91
3567950--3567974	13	1.9	13	100	0	50	32	16	16	36	1.90
3567930--3567994	33	2.0	33	87	6	96	38	13	15	32	1.87
3568687--3568922	49	4.9	49	79	8	225	33	16	25	25	1.96
3568694--3568882	101	1.9	101	92	0	315	34	15	24	25	1.95

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   25   26   27   28   29   30   31   32