genome.fa.s117.2.7.7.80.10.50.1000.3.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: Scaffold117
Parameters: 2 7 7 80 10 50 1000
Length:  3231771

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

This is table  3  of  18  ( 2101 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)
272343--272386	16	2.8	15	83	10	61	45	0	0	54	0.99
275725--275756	2	16.0	2	100	0	64	50	0	0	50	1.00
276580--276636	18	3.3	18	82	4	64	8	17	0	73	1.07
277095--277130	17	2.1	17	89	0	54	72	0	0	27	0.85
277211--277265	15	3.9	14	75	15	60	47	0	1	50	1.11
278905--278929	1	25.0	1	100	0	50	100	0	0	0	0.00
281828--281855	6	4.7	6	100	0	56	14	17	0	67	1.22
282124--282167	16	2.6	17	82	13	56	63	0	0	36	0.95
289533--289566	2	17.0	2	100	0	68	50	0	0	50	1.00
292752--292810	18	3.2	19	81	16	54	47	8	0	44	1.33
292754--292815	17	3.5	17	79	20	65	46	8	0	45	1.32
292997--293048	25	2.1	25	96	0	95	51	7	5	34	1.54
300335--300360	13	2.0	13	100	0	52	46	0	0	53	1.00
301205--301301	20	4.8	20	89	0	131	31	13	14	40	1.85
301225--301278	12	5.2	12	68	32	52	35	11	18	35	1.86
315208--315266	16	3.8	15	74	17	50	83	8	0	8	0.83
315213--315264	21	2.4	20	78	15	59	82	9	0	7	0.84
316476--316836	28	12.7	27	87	3	344	30	28	16	24	1.96
316520--316943	56	7.4	56	80	6	415	29	27	16	25	1.97
316548--316943	84	4.6	84	83	5	447	29	28	17	25	1.97
316548--316936	28	13.4	30	82	7	269	29	27	17	25	1.97
316549--316983	28	14.8	32	81	8	164	29	27	17	26	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
317107--317528	215	2.0	215	97	0	790	23	28	16	30	1.97
318054--318182	20	5.9	20	70	21	89	30	14	12	42	1.83
318054--318223	51	3.6	50	74	17	180	30	15	11	42	1.82
318049--318223	91	1.9	91	91	2	289	29	14	12	42	1.83
322311--322353	19	2.3	19	95	0	77	72	0	0	27	0.85
323304--323380	27	2.8	26	80	13	66	2	35	1	61	1.18
325886--325955	1	70.0	1	79	0	77	0	2	7	90	0.56
325886--325949	11	5.6	11	87	7	92	0	1	7	90	0.51
325887--325948	21	3.0	21	86	13	92	0	1	8	90	0.52
325887--325955	32	2.2	32	92	5	113	0	2	7	89	0.56
325886--325955	21	3.4	19	84	11	86	0	2	7	90	0.56
337815--337839	4	6.2	4	100	0	50	76	0	0	24	0.80
342050--342079	14	2.1	14	93	0	51	43	0	0	56	0.99
342534--342575	14	2.9	14	80	20	50	26	0	2	71	0.98
342670--342761	27	3.3	28	76	11	84	34	3	0	61	1.12
343282--343335	20	2.7	20	100	0	108	25	14	14	44	1.84
343416--343440	13	1.9	13	100	0	50	32	8	16	44	1.76
343397--343465	33	2.1	33	86	5	95	31	7	18	42	1.78
351352--351376	13	1.9	13	100	0	50	36	16	16	32	1.90
351361--351415	19	2.8	20	78	8	69	36	16	14	32	1.89
351446--351499	20	2.7	20	88	0	72	35	14	14	35	1.88
353843--354332	271	1.8	271	81	3	619	27	24	23	24	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
358928--358991	32	2.1	32	85	5	87	50	7	1	40	1.41
358842--359033	73	2.7	72	90	2	289	54	7	2	34	1.43
360863--360937	20	3.8	19	82	3	87	34	12	12	41	1.79
360863--360940	40	2.0	39	85	7	104	34	11	12	41	1.80
374946--375005	8	7.6	8	78	17	72	86	8	1	3	0.74
374946--375015	15	4.5	15	81	13	79	87	7	2	2	0.74
374945--375015	32	2.3	31	87	2	97	85	8	2	2	0.78
374946--375015	1	70.0	1	75	0	59	87	7	2	2	0.74
374960--375030	10	7.2	10	79	7	56	83	5	5	5	0.92
376249--377789	28	53.9	29	89	2	2177	28	32	17	21	1.96
376249--377801	86	18.1	86	88	3	2197	28	32	17	22	1.96
378315--378389	20	3.8	19	82	3	87	34	12	12	41	1.79
378315--378392	40	2.0	39	85	7	104	34	11	12	41	1.80
384188--384230	21	2.1	20	82	4	50	65	2	25	6	1.30
384937--384972	3	12.0	3	100	0	72	33	0	0	66	0.92
386131--386233	43	2.4	43	85	7	140	37	14	24	23	1.92
386131--386246	42	2.7	41	79	11	119	40	12	25	21	1.89
386257--386943	61	11.3	61	86	4	856	28	18	26	26	1.98
386258--386920	181	3.7	180	86	5	856	29	18	26	26	1.98
387894--387946	7	7.3	7	81	14	63	1	13	3	81	0.92
397646--397740	19	5.7	18	72	27	93	33	12	17	35	1.88
397632--397748	32	3.7	32	97	0	216	33	13	17	35	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
397665--397721	13	3.9	13	76	24	60	35	14	17	33	1.90
397793--397817	13	1.9	13	100	0	50	32	16	16	36	1.90
397826--397954	52	2.5	52	87	0	195	36	15	17	31	1.91
404158--404256	51	1.9	51	93	4	173	33	6	26	34	1.81
404192--404495	79	3.8	79	83	3	380	30	11	26	30	1.92
404195--404494	158	1.9	158	88	2	460	31	11	26	31	1.91
404431--404547	51	2.3	50	89	4	180	30	10	29	29	1.90
406947--407049	20	4.8	20	76	17	107	44	15	13	26	1.83
406897--407049	68	2.2	70	88	2	238	44	15	13	26	1.84
411150--411222	20	3.6	20	81	3	101	35	13	19	31	1.91
411168--411243	21	3.7	21	80	3	100	42	11	17	28	1.84
411150--411243	41	2.3	41	98	0	179	39	12	18	29	1.88
411282--411307	13	2.0	13	100	0	52	38	15	15	30	1.88
413521--413565	21	2.1	21	84	8	56	53	4	20	22	1.63
417478--417515	13	2.9	13	96	0	67	34	18	15	31	1.92
419944--420016	20	3.6	20	81	3	101	35	13	19	31	1.91
419962--420037	21	3.7	21	80	3	100	42	11	17	28	1.84
419944--420037	41	2.3	41	98	0	179	39	12	18	29	1.88
420076--420101	13	2.0	13	100	0	52	38	15	15	30	1.88
421372--421396	13	1.9	13	100	0	50	32	16	16	36	1.90
422385--422409	13	1.9	13	100	0	50	36	16	16	32	1.90
422365--422430	32	2.0	33	88	2	98	34	12	13	39	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
422471--422495	13	1.9	13	100	0	50	32	16	16	36	1.90
422504--422631	52	2.5	52	94	1	222	34	17	17	30	1.93
425762--425800	20	1.9	21	84	5	53	43	20	2	33	1.65
427565--427636	13	6.0	13	76	18	84	41	13	16	27	1.87
427589--427655	20	3.7	20	74	25	85	49	11	14	23	1.77
427578--427655	33	2.4	33	100	0	156	46	12	15	25	1.81
429707--429737	15	2.1	15	93	0	53	12	22	16	48	1.80
433813--433838	13	2.0	13	100	0	52	30	15	15	38	1.88
433793--433856	32	2.0	33	90	3	103	28	14	15	42	1.86
436779--436848	31	2.3	31	100	0	140	31	15	15	37	1.89
438177--438241	20	3.4	19	67	16	53	32	12	13	41	1.82
440535--440715	97	1.9	97	82	2	229	25	28	12	33	1.92
450394--450418	13	1.9	13	100	0	50	36	16	16	32	1.90
450374--450443	33	2.1	33	89	0	104	34	11	14	40	1.82
450482--450506	13	1.9	13	100	0	50	32	16	16	36	1.90
460065--460129	21	3.6	19	69	26	61	44	15	10	29	1.80
460065--460129	34	2.0	33	90	6	105	44	15	10	29	1.80
462329--462378	21	2.3	21	80	10	57	56	4	18	22	1.58
464176--464206	15	2.1	15	93	0	53	48	16	22	12	1.80
466287--466324	13	2.9	13	96	0	67	34	18	15	31	1.92
468865--468929	34	2.0	33	87	6	96	46	15	9	29	1.77
471969--472007	20	1.9	21	89	5	62	64	0	0	35	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
472367--472398	2	16.0	2	93	0	55	50	3	0	46	1.17
474009--474036	6	4.7	6	100	0	56	46	0	0	53	1.00
474471--474500	7	4.3	7	95	0	51	16	3	10	70	1.29
475093--475148	25	2.1	27	81	12	64	53	0	0	46	1.00
475338--475421	31	3.0	27	81	13	105	52	0	1	46	1.08
475348--475432	36	2.3	36	82	11	102	52	0	1	45	1.08
475350--475441	31	3.1	31	77	17	106	50	0	3	46	1.17
475351--475403	15	3.5	15	74	23	56	45	0	1	52	1.11
475443--475543	20	4.9	21	75	14	79	22	0	5	71	1.08
475443--475492	18	2.7	19	88	11	77	18	0	6	76	0.99

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