genome.fa.s1432.2.7.7.80.10.50.1000.2.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: scaffold40
Parameters: 2 7 7 80 10 50 1000
Length:  1915636

Tables:   1   2   3   4   5   6   

This is table  2  of  6  ( 644 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)
267466--267615	67	2.2	68	83	3	196	21	19	18	41	1.91
270362--270415	11	5.1	10	81	14	56	24	27	1	46	1.63
271592--271617	7	3.7	7	100	0	52	26	0	15	57	1.38
272272--272314	18	2.4	18	88	0	59	18	30	9	41	1.82
275922--276194	126	2.2	126	97	0	510	26	22	20	31	1.98
286490--286522	18	1.9	17	88	11	50	24	12	21	42	1.86
287063--287141	20	4.0	20	71	15	65	13	34	18	32	1.91
287334--287371	16	2.4	16	100	0	76	39	5	13	42	1.66
290014--290054	19	2.2	19	86	4	57	4	2	4	87	0.72
290434--290458	13	1.9	13	100	0	50	56	0	16	28	1.41
309930--310212	42	6.7	42	88	1	397	24	30	21	24	1.99
309930--310254	43	7.7	43	87	0	406	25	30	19	24	1.98
315501--315554	7	7.6	7	77	4	54	48	29	0	22	1.51
315501--315612	14	7.4	14	69	20	64	48	29	1	20	1.60
315501--315549	14	3.4	14	88	5	71	46	32	0	20	1.51
315782--316021	41	5.9	41	92	1	365	32	29	20	17	1.96
316101--316194	40	2.3	40	85	3	118	21	22	20	36	1.95
320239--320290	19	2.8	18	82	8	68	21	26	0	51	1.47
326100--326148	7	6.9	7	95	4	89	0	12	0	87	0.54
327186--327245	6	9.7	6	79	13	68	80	13	5	1	0.96
327201--327250	11	4.4	11	87	7	64	80	14	4	2	0.95
327250--327283	17	2.0	17	88	0	50	70	0	2	26	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
327305--327336	15	2.2	14	94	5	55	84	6	6	3	0.86
327791--327824	8	4.1	8	96	3	59	14	0	2	82	0.79
330040--330082	19	2.2	20	88	8	63	74	2	0	23	0.93
331841--331901	31	2.0	31	96	0	113	36	14	4	44	1.67
332353--332377	11	2.3	11	100	0	50	76	8	0	16	1.02
332366--332401	19	1.9	19	88	5	56	55	2	2	38	1.29
332618--332674	19	2.9	20	75	15	64	61	3	3	31	1.30
332619--332666	20	2.5	19	80	12	53	58	2	4	35	1.29
332815--332871	20	2.9	20	74	12	55	28	8	5	57	1.50
345291--345318	14	2.0	14	100	0	56	28	35	7	28	1.84
346788--346829	21	2.0	21	82	13	52	35	23	11	28	1.91
351882--351925	23	1.9	23	90	0	70	31	22	22	22	1.98
355328--355398	28	2.5	28	76	15	67	53	4	2	39	1.35
364845--364876	6	5.3	6	96	0	55	56	28	0	15	1.40
369579--369810	94	2.5	94	83	0	284	36	11	19	32	1.87
379035--379059	10	2.5	10	100	0	50	16	12	0	72	1.13
385929--385961	3	11.0	3	100	0	66	66	0	0	33	0.92
388196--388275	41	2.0	39	90	4	124	21	21	16	41	1.90
388315--388360	14	3.3	13	80	14	56	78	13	0	8	0.97
389495--389613	61	2.0	61	86	6	170	15	21	15	47	1.81
389817--389842	3	8.7	3	100	0	52	0	0	30	69	0.89
402193--402546	44	8.0	44	74	10	247	33	19	19	27	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
402196--402520	88	3.6	88	74	12	275	31	19	19	29	1.96
404103--404137	3	11.7	3	100	0	70	0	0	31	68	0.90
421756--421791	2	18.0	2	100	0	72	0	50	0	50	1.00
428540--428601	31	2.0	31	96	0	115	41	17	8	32	1.79
435489--435551	31	2.0	32	93	3	110	42	17	7	31	1.78
438769--438807	20	1.9	21	89	5	62	43	0	12	43	1.42
443023--443116	46	2.0	47	95	4	172	30	22	14	31	1.94
452156--452188	10	3.0	11	86	13	50	18	36	0	45	1.49
452173--452228	22	2.5	22	94	2	94	28	30	0	41	1.57
452251--452301	22	2.3	22	93	0	93	27	31	0	41	1.56
452171--452315	73	2.0	72	95	1	263	28	27	0	43	1.55
453211--453236	7	3.7	7	100	0	52	26	0	15	57	1.38
454380--455714	29	46.4	29	86	2	1769	45	30	0	22	1.58
454380--455714	87	15.5	87	92	3	2031	45	30	0	22	1.58
462486--462534	22	2.1	25	81	11	59	44	4	2	48	1.33
465471--465643	46	3.8	46	88	0	258	28	24	8	38	1.85
469173--469200	2	14.0	2	100	0	56	50	0	50	0	1.00
473767--473834	11	6.2	11	85	8	86	23	23	1	51	1.57
473760--473836	22	3.4	21	82	12	84	23	24	1	50	1.57
473760--473836	11	6.9	11	78	14	63	23	24	1	50	1.57
474779--474846	11	6.2	11	85	8	86	23	23	1	51	1.57
474772--474848	22	3.4	21	82	12	84	23	24	1	50	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
474772--474848	11	6.9	11	78	14	63	23	24	1	50	1.57
476495--476537	18	2.4	18	80	0	50	13	30	9	46	1.75
477099--477146	15	3.4	15	75	16	57	41	33	0	25	1.55
477099--477150	27	1.9	27	96	0	95	42	34	0	23	1.54
477120--477638	21	24.2	21	78	10	489	45	29	0	24	1.58
477650--478021	126	3.0	126	89	1	568	27	23	17	31	1.97
479114--479146	15	2.4	14	90	10	50	63	3	0	33	1.10
487028--487074	14	3.5	14	75	21	55	72	17	4	6	1.22
491765--491930	84	2.0	85	92	1	280	22	10	23	42	1.85
495408--495456	21	2.3	21	86	13	66	2	28	36	32	1.69
495712--495751	18	2.2	18	95	0	71	40	7	30	22	1.81
497513--497608	51	1.9	50	84	4	122	44	4	22	28	1.71
497573--497626	11	4.8	11	76	19	58	40	1	29	27	1.67
497573--497626	23	2.4	21	82	17	65	40	1	29	27	1.67
513366--513510	42	3.5	42	78	1	175	28	17	21	31	1.96
513366--513528	42	3.9	42	74	7	138	28	17	22	31	1.96
515616--515693	27	3.0	24	74	9	66	32	16	12	38	1.87
518631--518859	51	4.5	50	84	3	273	28	27	16	27	1.97
523554--523589	18	2.1	18	89	5	56	75	0	0	25	0.81
523782--523825	9	4.9	9	88	0	61	45	0	34	20	1.51
523791--523829	9	4.3	9	83	0	51	38	0	38	23	1.55
523791--523829	18	2.2	18	95	0	69	38	0	38	23	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
524755--524786	7	4.6	7	100	0	64	25	0	12	62	1.30
525274--525316	21	2.0	21	82	8	52	32	16	16	34	1.91
532278--532318	19	2.2	19	100	0	82	41	0	48	9	1.36
536841--536868	2	14.0	2	100	0	56	50	0	0	50	1.00
544740--544803	25	2.6	25	94	0	110	0	21	26	51	1.48
546857--547081	43	5.3	43	81	2	193	24	14	21	40	1.90
546855--547080	86	2.6	86	78	0	238	23	15	21	39	1.91
549406--549535	69	1.9	69	83	0	170	26	23	15	33	1.95
552389--552433	18	2.4	18	85	10	56	28	0	4	66	1.11
554142--554181	13	3.1	13	77	0	53	35	27	5	32	1.79
557678--557748	23	3.0	24	73	8	74	36	14	18	30	1.90
557661--557785	23	5.5	23	69	11	71	36	10	19	33	1.86
557661--557770	47	2.4	47	85	8	138	36	11	20	31	1.88
557745--557786	22	1.9	22	85	0	57	38	7	19	35	1.79
557824--558397	75	7.7	75	82	1	510	40	14	20	24	1.90
557824--558099	39	7.3	39	69	7	156	41	13	20	24	1.89
557818--558397	150	3.9	149	81	1	581	40	14	21	24	1.90
557882--558373	224	2.2	225	82	2	578	41	13	20	24	1.89
558193--558404	39	5.6	39	70	12	145	40	15	20	24	1.90
558421--558488	27	2.5	27	97	0	127	41	17	17	23	1.90
558473--558671	36	5.4	36	66	12	107	39	14	20	26	1.90
558507--558718	39	5.6	39	67	6	139	40	13	20	26	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
558496--558714	75	2.9	75	84	0	294	40	12	20	26	1.88
572710--572763	26	2.1	26	92	0	90	59	7	9	24	1.54
574293--574353	31	1.9	32	86	3	88	31	9	16	42	1.81
577548--577599	23	2.3	23	89	0	77	23	25	19	32	1.97
582199--582321	31	3.9	31	75	10	79	52	17	2	27	1.57
582215--582313	34	3.0	33	78	5	103	54	15	2	28	1.52
588964--589002	17	2.2	18	86	4	53	61	0	5	33	1.18
588951--589023	21	3.5	21	71	17	53	57	1	8	32	1.37
590431--590898	44	10.5	45	74	7	314	27	25	17	30	1.97
590478--590813	89	3.8	89	76	7	317	26	24	19	29	1.98

Tables:   1   2   3   4   5   6