genome.fa.s35.2.7.7.80.10.50.1000.26.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: Scaffold35
Parameters: 2 7 7 80 10 50 1000
Length:  4812169

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   

This is table  26  of  30  ( 3549 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)
4063750--4063808	26	2.3	26	82	5	66	18	3	5	72	1.17
4063762--4063831	18	3.5	20	77	16	65	20	2	4	72	1.14
4067207--4067281	20	3.8	19	84	8	105	41	13	14	30	1.84
4068184--4068303	32	3.8	32	80	5	118	26	17	28	27	1.98
4068193--4068893	28	24.5	28	78	8	583	24	18	28	28	1.98
4070195--4070243	10	5.0	10	82	5	55	4	0	12	83	0.77
4081278--4081354	20	3.8	20	77	3	75	42	11	14	31	1.81
4082700--4082956	79	3.2	78	77	7	250	36	12	23	27	1.91
4082915--4082991	28	2.8	28	80	4	93	27	18	31	23	1.97
4085500--4085542	13	3.3	13	87	12	70	39	13	16	30	1.87
4085524--4085620	20	4.8	20	79	9	117	44	15	15	24	1.85
4085761--4086062	153	2.0	154	95	0	552	29	25	18	26	1.98
4086377--4086537	45	3.7	43	80	4	189	41	12	27	18	1.86
4086393--4086490	42	2.6	36	72	20	90	45	11	26	16	1.80
4086539--4086790	61	4.3	60	81	7	218	25	20	27	26	1.99
4086667--4086793	55	2.3	55	90	0	209	23	21	27	27	1.99
4086595--4087008	210	2.0	211	85	3	566	27	18	27	26	1.98
4086671--4086950	155	1.8	149	84	6	382	26	18	27	26	1.98
4086820--4087060	55	4.3	54	83	6	239	26	19	25	29	1.98
4086662--4087321	265	2.5	258	86	4	871	25	19	26	27	1.99
4086838--4087060	110	2.0	112	83	8	283	26	19	24	29	1.99
4086874--4087263	204	1.9	203	87	1	575	25	20	24	29	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4086930--4087209	149	1.9	149	84	0	380	26	20	25	28	1.99
4087079--4087373	109	2.7	109	87	3	405	24	21	24	29	1.99
4086838--4087444	313	1.9	316	88	2	923	25	19	26	28	1.99
4087076--4087373	164	1.8	164	88	1	463	24	21	24	29	1.99
4087079--4087375	55	5.4	54	86	2	389	24	21	24	29	1.99
4088442--4088524	1	83.0	1	75	0	76	1	1	9	87	0.64
4088443--4088517	29	2.6	28	89	10	107	0	1	10	88	0.59
4088442--4088517	20	3.9	19	86	10	109	0	1	10	88	0.58
4088443--4088517	9	7.8	9	89	10	105	0	1	10	88	0.59
4098813--4098843	4	7.8	4	100	0	62	77	0	0	22	0.77
4100923--4101165	78	3.0	81	78	8	219	35	16	21	25	1.94
4101122--4101193	28	2.6	28	86	10	103	29	20	27	22	1.99
4105991--4106113	52	2.4	52	94	0	228	26	18	18	36	1.94
4107007--4108696	97	17.5	97	87	6	2323	31	17	25	26	1.97
4107007--4108696	194	8.7	194	91	3	2600	31	17	25	26	1.97
4108302--4108343	21	2.0	21	100	0	84	28	19	23	28	1.98
4108326--4108697	49	8.0	48	79	11	434	31	18	24	25	1.97
4108216--4108435	113	1.9	113	93	0	377	30	17	25	26	1.98
4108323--4108696	92	4.1	92	94	0	642	31	18	24	25	1.97
4108124--4108527	205	2.0	205	93	1	693	29	17	26	26	1.98
4108703--4108928	64	3.5	64	93	1	371	17	17	35	29	1.93
4108703--4108928	32	7.0	32	89	1	335	17	17	35	29	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4108930--4109465	33	16.6	32	75	15	402	32	13	34	20	1.91
4108935--4109470	100	5.5	99	77	13	407	31	13	34	20	1.91
4108970--4109385	164	2.5	164	91	3	660	32	12	34	19	1.90
4109323--4109441	27	4.2	27	78	11	103	30	14	34	21	1.93
4109462--4109602	32	4.5	31	84	6	158	31	16	28	24	1.96
4109462--4109602	64	2.2	63	86	5	187	31	16	28	24	1.96
4109719--4109747	8	3.6	8	100	0	58	27	10	24	37	1.88
4110535--4110560	9	2.9	9	100	0	52	0	0	7	92	0.39
4110534--4110563	10	3.1	10	90	9	53	0	0	10	90	0.47
4127469--4127533	19	3.7	19	75	23	79	38	16	12	32	1.86
4127464--4127531	32	2.1	32	97	0	127	36	17	11	33	1.86
4127488--4127512	13	1.9	13	100	0	50	32	16	16	36	1.90
4130504--4130537	12	2.8	12	95	0	59	23	0	32	44	1.54
4141004--4141261	128	2.0	128	95	0	462	39	17	22	20	1.92
4144633--4145191	55	10.0	55	84	6	732	28	27	19	24	1.99
4144634--4145191	225	2.5	225	95	0	992	28	27	19	24	1.99
4144637--4145189	280	2.0	275	86	5	779	28	27	20	23	1.99
4144637--4145191	116	5.0	114	84	7	737	28	27	20	23	1.99
4145684--4145751	19	3.9	19	78	21	85	35	11	14	38	1.83
4145686--4145748	32	2.0	32	96	0	117	34	12	15	36	1.86
4145705--4145729	13	1.9	13	100	0	50	36	16	16	32	1.90
4145771--4145824	20	2.7	20	100	0	108	22	14	14	48	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4145811--4145836	13	2.0	13	100	0	52	30	15	15	38	1.88
4145791--4145857	33	2.0	33	88	0	98	25	14	16	43	1.86
4148320--4148388	27	2.5	27	85	2	84	26	31	20	21	1.98
4148375--4148544	52	3.3	51	77	11	175	28	24	13	33	1.93
4148205--4148612	212	1.9	212	87	3	606	27	26	13	31	1.94
4148265--4148678	107	3.9	107	73	8	268	27	27	14	30	1.95
4148558--4148760	79	2.6	79	80	3	221	24	29	16	29	1.96
4155475--4155508	17	2.0	17	88	0	50	50	17	26	5	1.69
4161173--4161215	16	2.7	15	89	7	59	83	4	11	0	0.78
4161173--4161216	17	2.6	17	89	7	63	84	4	11	0	0.77
4162183--4163137	55	17.0	55	83	7	1170	28	26	19	25	1.99
4162184--4163137	225	4.2	220	91	3	1206	28	26	19	25	1.99
4162209--4163137	396	2.4	396	96	1	1695	28	26	19	25	1.99
4163630--4163697	19	3.9	19	78	21	85	35	11	14	38	1.83
4163632--4163694	32	2.0	32	96	0	117	34	12	15	36	1.86
4163651--4163675	13	1.9	13	100	0	50	36	16	16	32	1.90
4163737--4163761	13	1.9	13	100	0	50	32	20	16	32	1.94
4163717--4163781	33	2.0	33	87	0	94	26	16	16	40	1.90
4166246--4166314	27	2.5	27	88	2	93	24	31	21	21	1.98
4166191--4166584	107	3.7	105	72	10	323	27	27	14	30	1.95
4166133--4166469	104	3.2	103	70	12	279	29	25	12	32	1.93
4166133--4166470	52	6.4	51	69	15	204	29	25	12	31	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4166131--4166526	212	1.9	212	89	3	618	28	26	13	31	1.94
4166484--4166686	79	2.6	79	82	3	230	24	30	16	29	1.96
4168123--4168191	10	6.7	10	81	8	77	85	8	1	4	0.78
4168126--4168191	19	3.3	20	83	8	73	86	7	1	4	0.76
4168123--4168191	29	2.3	30	90	2	104	85	8	1	4	0.78
4168125--4168170	1	46.0	1	82	0	56	91	4	0	4	0.51
4168437--4168461	13	1.9	13	100	0	50	16	48	0	36	1.46
4169408--4169909	28	17.9	27	85	2	583	30	29	17	22	1.97
4169402--4169924	84	6.2	84	86	1	652	30	29	17	23	1.97
4169408--4169895	56	8.7	56	86	2	658	30	29	17	22	1.96
4169979--4170062	35	2.5	35	90	3	127	42	25	15	16	1.87
4169979--4170076	35	2.8	35	82	11	121	38	25	17	18	1.92
4170933--4171006	20	3.7	20	85	0	112	31	14	12	41	1.83
4176776--4176872	20	4.8	20	68	14	81	34	16	13	36	1.88
4176798--4176823	13	2.0	13	100	0	52	30	15	15	38	1.88
4182479--4182587	51	2.1	51	86	3	148	40	14	16	28	1.88
4183394--4183486	21	4.7	20	73	7	82	38	10	17	33	1.84
4183393--4183486	40	2.3	40	92	0	161	38	10	17	34	1.84
4183415--4183485	19	3.6	19	75	7	79	35	9	18	36	1.84
4190574--4190642	23	2.7	25	78	15	79	72	11	11	4	1.25
4191886--4192304	30	13.7	30	81	7	466	23	31	16	29	1.96
4191883--4192304	61	6.9	61	80	8	380	23	31	16	29	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4192295--4192529	61	3.8	61	85	6	242	24	31	9	35	1.87
4191886--4192304	123	3.4	121	82	6	407	23	31	16	29	1.96
4192329--4192443	27	4.0	26	72	16	77	26	32	8	33	1.87
4192295--4192618	34	10.0	33	72	11	208	21	30	10	37	1.87
4192621--4192763	43	3.2	43	78	11	169	27	23	15	32	1.95
4192624--4193314	49	14.5	49	73	13	514	25	25	17	31	1.97
4192607--4193048	153	3.0	152	85	6	572	25	24	16	33	1.96
4192976--4193136	39	3.9	39	70	16	126	26	26	19	27	1.99
4192928--4193283	87	4.0	87	81	7	415	25	25	19	29	1.99
4193721--4193848	52	2.5	51	92	1	211	33	17	18	30	1.94

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