genome.fa.s165.2.7.7.80.10.50.1000.1.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: Scaffold165
Parameters: 2 7 7 80 10 50 1000
Length:  1947055

Tables:   1   2   3   4   5   6   7   8   9   10   11   

This is table  1  of  11  ( 1218 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)
1828--6117	476	9.0	477	88	2	5967	36	14	18	31	1.91
1830--6116	951	4.5	950	89	3	6028	36	14	18	31	1.91
10810--10916	42	2.5	42	90	0	178	9	45	2	42	1.51
16501--16607	42	2.5	42	90	0	178	9	45	2	42	1.51
18154--30321	476	25.8	476	87	2	16563	35	14	18	31	1.91
18154--30321	951	12.9	951	88	2	16742	35	14	18	31	1.91
35469--35544	12	6.9	11	75	15	52	39	2	48	9	1.49
35468--35553	24	3.8	24	72	17	85	41	2	45	10	1.51
35459--35577	42	2.8	42	92	0	193	42	2	46	8	1.47
42516--42633	42	2.8	41	89	3	182	7	46	2	43	1.45
44190--49539	476	11.2	476	89	1	7719	34	14	18	31	1.92
48006--48654	159	4.1	160	66	16	353	33	15	19	31	1.93
51165--51265	42	2.4	41	91	1	157	41	2	44	10	1.55
54313--55618	476	2.7	475	89	1	1969	34	14	19	31	1.91
61930--61990	9	7.1	9	72	10	56	11	44	1	42	1.50
61935--61969	12	2.9	12	84	16	54	11	48	0	40	1.39
61902--62020	42	2.8	42	90	0	184	9	46	1	42	1.46
61926--62011	24	3.8	24	73	17	85	11	45	1	41	1.48
63861--82541	476	39.4	477	87	3	24893	35	14	18	31	1.92
83387--83426	15	2.7	15	80	0	53	82	2	12	2	0.87
84173--84248	12	6.9	11	75	15	52	39	2	48	9	1.49
84172--84257	24	3.8	24	72	17	85	41	2	45	10	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
84163--84281	42	2.8	42	92	0	193	42	2	46	8	1.47
89255--92700	476	7.2	475	89	1	4834	30	18	15	35	1.92
89255--92692	953	3.6	950	89	2	5003	30	18	15	35	1.92
92287--93100	408	2.0	408	88	1	1211	30	19	14	36	1.91
92695--97307	476	9.7	476	90	0	6697	30	18	14	35	1.91
102309--102427	42	2.8	42	92	0	193	8	46	2	42	1.47
102342--102417	12	6.9	11	75	15	52	9	48	2	39	1.49
102333--102418	24	3.8	24	72	17	85	10	45	2	41	1.51
102324--102394	18	3.6	18	69	20	52	9	43	2	43	1.52
104043--112764	476	18.4	475	88	1	12673	35	15	18	30	1.92
114389--114464	12	6.9	11	75	15	52	39	2	48	9	1.49
114388--114473	24	3.8	24	72	17	85	41	2	45	10	1.51
114379--114497	42	2.8	42	92	0	193	42	2	46	8	1.47
119473--142447	476	48.4	476	88	2	31416	35	14	18	31	1.91
139744--139794	25	2.0	25	100	0	102	60	11	15	11	1.58
140644--141307	159	4.2	155	65	17	358	34	15	19	31	1.92
144071--144146	12	6.9	11	75	15	52	39	2	48	9	1.49
144061--144179	42	2.8	42	93	0	202	42	1	46	9	1.46
144136--144185	18	2.8	18	81	6	57	44	2	46	8	1.44
147159--147234	12	6.9	11	75	15	52	39	2	48	9	1.49
147158--147243	24	3.8	24	72	17	85	41	2	45	10	1.51
147149--147267	42	2.8	42	92	0	193	42	2	46	8	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
155420--173716	476	38.5	475	90	1	26937	35	14	19	31	1.92
171684--172804	159	7.1	154	63	12	354	33	14	19	32	1.92
175237--175344	42	2.6	42	89	0	171	40	3	45	10	1.56
180318--190624	476	21.7	476	90	0	15231	35	14	18	30	1.92
211449--234751	476	49.1	476	89	2	33893	34	15	19	30	1.92
211449--314698	951	106.8	952	76	10	47133	35	14	18	30	1.92
236388--236495	42	2.6	42	87	0	153	41	4	44	9	1.57
236401--236467	21	3.2	21	70	16	66	43	5	40	10	1.63
241469--246235	476	10.0	476	90	1	7190	35	14	19	31	1.92
245823--246634	403	2.0	398	94	1	1437	35	14	18	31	1.91
246226--251935	476	12.0	476	90	1	8427	35	14	18	30	1.92
251513--252361	423	2.0	423	99	0	1662	34	16	18	30	1.93
251037--252837	899	2.0	899	94	0	3147	34	15	18	30	1.93
251936--285175	476	70.0	476	89	1	46230	35	14	18	31	1.91
263963--265101	158	7.2	157	64	15	395	34	15	18	30	1.92
285445--285500	20	2.8	19	89	5	76	41	16	16	26	1.88
285559--285584	13	2.0	13	100	0	52	38	15	15	30	1.88
285541--285604	32	2.0	33	90	3	103	39	18	14	28	1.90
289644--289674	15	2.1	15	93	0	53	48	16	22	12	1.80
291758--291795	13	2.9	13	92	0	58	34	15	15	34	1.90
291916--291961	21	2.2	20	81	11	58	32	21	2	43	1.65
294326--294351	13	2.0	13	100	0	52	38	15	15	30	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
295104--314698	476	41.3	476	86	1	26736	36	14	18	31	1.91
299218--299859	159	4.0	157	66	10	322	37	14	18	30	1.90
314827--320658	476	12.3	476	88	1	8382	35	13	18	32	1.90
314827--327990	952	13.9	952	88	1	18822	35	14	18	31	1.90
320663--327986	476	15.4	476	90	1	10590	35	14	18	31	1.91
327940--336434	476	17.9	472	87	1	11269	35	14	18	31	1.91
327186--328783	794	2.0	794	88	1	2366	36	14	18	31	1.90
327662--328358	318	2.2	317	87	1	772	36	13	18	31	1.90
327192--328835	793	2.1	793	86	2	2115	36	14	18	30	1.90
338049--338124	12	6.9	11	78	15	70	39	0	46	14	1.45
338069--338129	9	7.1	9	72	10	56	42	0	42	14	1.46
338039--338157	42	2.8	42	89	0	175	43	0	43	11	1.46
338114--338163	18	2.7	19	79	11	52	46	2	44	8	1.44
342603--342906	153	2.0	153	97	0	572	26	10	24	38	1.88
343286--345222	476	4.1	476	88	1	2902	35	14	18	31	1.91
348307--348427	52	2.3	52	97	0	224	28	18	18	34	1.94
348307--348447	52	2.7	51	90	4	212	30	17	18	33	1.94
348436--348460	13	1.9	13	100	0	50	36	16	16	32	1.90
348501--348570	33	2.1	33	89	0	104	40	14	11	34	1.82
348526--348550	13	1.9	13	100	0	50	32	16	16	36	1.90
349446--349724	49	5.8	49	86	7	383	30	18	25	25	1.98
349435--349725	97	3.0	94	86	7	399	31	17	25	24	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
349753--369892	475	42.4	476	90	1	28602	35	14	18	31	1.91
374901--374976	12	6.9	11	75	15	52	9	48	2	39	1.49
374892--374977	24	3.8	24	72	17	85	10	45	2	41	1.51
374868--374986	42	2.8	42	89	0	175	8	46	2	42	1.47
374879--374956	9	9.0	9	69	8	54	10	43	2	43	1.52
374879--374953	18	3.8	18	71	19	60	10	42	2	44	1.53
376599--382710	475	12.9	475	90	1	9433	35	14	18	31	1.91
376599--382710	949	6.4	948	90	2	9391	35	14	18	31	1.91
383896--384005	42	2.6	42	89	0	166	41	2	45	10	1.52
388005--389280	426	3.0	426	97	0	2387	23	16	19	39	1.91
389691--390828	476	2.4	474	92	1	1864	35	14	18	31	1.91
391180--395367	476	8.8	477	87	2	5855	36	14	18	30	1.91
391180--395367	953	4.4	952	88	2	6073	36	14	18	30	1.91
395030--395685	318	2.1	319	92	2	1090	36	13	18	31	1.90
397449--397582	51	2.6	51	81	8	162	29	26	11	32	1.92
397569--397637	27	2.5	27	86	6	86	24	28	21	24	1.99
397515--397805	108	2.7	109	84	4	367	27	27	15	29	1.96
397678--397749	28	2.6	28	79	0	72	25	31	18	25	1.97
397784--397838	28	1.9	29	88	3	85	20	23	20	36	1.95
410318--410369	18	2.9	18	83	16	65	84	9	5	0	0.77
410317--410359	13	3.4	12	90	6	59	83	11	4	0	0.78
411349--412276	55	16.4	54	83	9	959	26	28	20	24	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
411728--411813	27	3.1	29	62	21	74	26	30	18	24	1.98
411707--411790	27	3.1	27	62	21	66	32	32	17	17	1.94
411349--412222	343	2.5	343	94	1	1536	27	28	20	24	1.99
411348--412276	398	2.3	394	87	5	1316	26	28	20	24	1.99
412998--413072	21	3.6	21	89	3	107	33	13	17	36	1.88
413129--413153	13	1.9	13	100	0	50	36	16	16	32	1.90
413176--413230	20	2.8	20	82	0	74	23	14	16	45	1.84
415564--415697	51	2.6	51	81	8	162	31	25	11	32	1.91
415627--415801	80	2.2	82	85	2	255	29	26	13	30	1.94
416972--418290	478	2.8	476	91	2	2087	35	14	18	31	1.91

Tables:   1   2   3   4   5   6   7   8   9   10   11