genome.fa.s35.2.7.7.80.10.50.1000.3.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: 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  3  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)
377080--377340	116	2.3	110	80	11	333	25	26	20	27	1.99
377974--378003	13	2.3	13	94	0	51	33	16	10	40	1.82
378019--378162	20	6.7	20	79	14	144	30	13	11	44	1.79
380477--380573	51	1.9	51	91	0	158	31	26	9	31	1.88
380557--380630	28	2.6	28	89	8	107	22	29	18	28	1.98
390610--390691	1	82.0	1	77	0	74	87	9	1	1	0.65
390609--390691	14	5.8	14	80	12	89	86	10	1	1	0.68
390617--390691	11	6.6	11	82	11	98	88	9	1	1	0.65
390609--390691	26	3.0	26	86	10	103	86	10	1	1	0.68
390610--390690	31	2.5	33	82	9	105	87	9	1	1	0.65
391869--391966	28	3.4	29	85	5	110	32	29	13	24	1.93
392081--392189	49	2.3	47	85	6	141	22	26	19	32	1.97
392899--392970	20	3.6	20	82	0	99	31	15	13	38	1.87
393920--393966	22	2.1	23	84	11	62	27	21	12	38	1.90
396386--396438	19	2.7	19	88	8	72	35	18	13	32	1.90
396466--396535	20	3.6	19	86	9	88	35	17	15	31	1.91
400633--400676	20	2.2	20	95	0	79	20	15	6	56	1.62
401630--401708	35	2.3	35	84	6	99	22	25	11	40	1.87
401879--401984	43	2.5	42	86	4	133	15	23	15	46	1.83
401875--402687	42	19.5	42	71	11	142	17	24	17	40	1.91
401916--403544	84	19.6	84	73	9	619	17	24	18	39	1.91
401960--403526	125	12.6	126	74	9	613	17	24	18	39	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
402503--402641	75	1.9	75	92	0	233	16	23	20	38	1.92
402453--402677	117	1.9	116	83	4	292	18	25	20	36	1.95
402572--403529	42	23.1	42	72	10	449	17	24	18	38	1.92
402572--403544	83	11.7	83	72	12	416	17	24	18	38	1.92
402836--403216	199	1.9	198	79	6	432	17	23	17	41	1.90
403383--403557	85	2.1	84	81	1	197	15	26	19	38	1.91
409696--409770	36	2.1	36	100	0	150	30	13	5	50	1.63
414308--414338	15	2.1	15	93	0	53	48	16	22	12	1.80
416421--416458	13	2.9	13	96	0	67	34	18	15	31	1.92
420565--420858	152	1.9	152	81	8	357	33	5	7	53	1.52
420766--420807	22	2.1	19	86	13	57	42	4	0	52	1.22
426180--426239	8	7.2	8	75	17	52	85	11	3	0	0.72
426180--426251	16	4.4	16	75	8	56	83	12	4	0	0.79
426180--426239	10	6.0	10	79	12	70	85	11	3	0	0.72
426181--426243	7	9.4	7	75	13	53	84	12	3	0	0.75
426180--426239	12	5.2	11	79	16	59	85	11	3	0	0.72
426192--426251	30	2.0	29	87	3	84	83	13	3	0	0.77
426180--426251	19	3.8	17	79	20	65	83	12	4	0	0.79
427832--428032	32	6.3	31	75	14	171	30	31	18	18	1.95
427842--428043	64	3.1	64	77	10	216	29	33	16	20	1.95
427850--428032	96	1.9	96	87	0	267	31	32	18	17	1.94
428140--428534	49	7.8	49	76	5	297	25	25	16	32	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
428136--428534	150	2.6	151	84	3	496	25	25	16	33	1.96
435443--435503	10	6.2	10	77	9	63	85	6	8	0	0.75
435443--435503	15	4.1	14	83	10	68	85	6	8	0	0.75
436576--437024	34	13.8	33	79	13	370	21	32	13	32	1.92
436653--437009	63	5.5	65	76	14	330	21	33	12	32	1.91
436879--436939	28	2.2	27	85	2	77	22	32	13	31	1.92
436655--437056	131	3.1	135	78	13	382	22	34	13	30	1.92
436655--437008	96	3.6	96	78	13	297	21	33	12	31	1.91
437016--437147	32	4.2	31	89	7	196	28	37	18	15	1.92
437016--437136	63	1.9	63	93	3	208	28	37	19	14	1.91
437140--437843	49	14.7	49	83	7	881	24	25	18	30	1.98
437381--437843	92	4.9	92	89	6	703	23	25	19	31	1.98
437466--437909	195	2.3	196	96	0	818	23	24	18	33	1.97
437717--437842	43	2.8	43	80	7	126	24	24	19	30	1.98
437760--437918	55	3.1	52	74	8	155	23	23	15	36	1.94
438817--438844	13	2.2	13	100	0	56	28	14	17	39	1.89
445841--445876	18	2.1	17	89	5	54	55	8	0	36	1.30
448924--448970	17	2.8	17	75	12	51	38	2	10	48	1.50
449300--449348	23	2.1	24	84	3	64	55	2	4	38	1.31
450758--450788	14	2.2	14	100	0	62	38	16	16	29	1.90
451389--451413	13	1.9	13	100	0	50	36	16	16	32	1.90
451398--451435	20	1.9	19	89	5	58	39	18	13	28	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
460686--460751	1	66.0	1	81	0	69	89	4	6	0	0.59
460683--460751	35	2.0	34	94	5	120	86	4	8	0	0.68
460686--460749	30	2.2	29	91	8	103	89	4	6	0	0.61
470600--470664	33	2.0	32	88	11	96	33	15	18	32	1.92
470620--470644	13	1.9	13	100	0	50	36	16	16	32	1.90
472229--472365	73	1.9	73	84	6	188	37	13	13	34	1.85
472564--472794	36	6.5	35	79	11	177	39	9	16	34	1.81
472589--472803	72	3.0	71	81	8	263	39	9	17	33	1.82
472581--472792	108	2.0	107	85	2	291	39	9	16	34	1.80
473043--473082	16	2.5	16	91	0	62	25	5	40	30	1.77
477193--477236	17	2.6	17	96	3	81	29	15	6	47	1.72
477806--477858	28	2.0	27	88	7	81	32	16	24	26	1.97
477804--478018	81	2.6	81	80	3	218	33	11	25	29	1.90
477892--478129	109	2.2	109	87	3	327	32	14	25	27	1.94
478157--478236	28	2.9	28	81	5	74	28	17	28	25	1.97
478166--478236	28	2.5	28	86	0	97	22	19	32	25	1.98
478088--478317	109	2.1	108	80	5	250	30	14	23	30	1.95
477814--478426	190	3.2	190	76	4	542	33	13	24	28	1.93
478115--478317	108	1.9	109	82	5	259	32	14	23	30	1.94
478356--478482	28	4.6	28	82	1	157	24	17	29	29	1.97
478356--478482	56	2.3	55	91	1	200	24	17	29	29	1.97
480480--480518	20	1.9	21	94	5	71	43	20	15	20	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
480527--480551	13	1.9	13	100	0	50	36	16	16	32	1.90
480508--480570	32	1.9	33	87	3	92	30	17	15	36	1.91
480641--480665	13	1.9	13	100	0	50	32	16	16	36	1.90
482249--482285	3	12.3	3	94	0	65	37	0	32	29	1.58
486482--486563	41	2.0	41	95	0	146	21	19	19	39	1.93
491055--491374	70	4.5	69	76	11	265	35	16	25	21	1.94
491058--491405	145	2.4	144	87	4	472	36	16	24	22	1.94
491335--491873	128	4.2	125	75	7	406	34	15	21	28	1.94
491334--491873	62	8.4	62	76	7	357	34	15	21	28	1.94
491766--491916	71	2.1	71	98	1	295	28	14	20	36	1.92
497401--497455	21	2.7	20	88	8	76	34	20	12	32	1.90
497539--497592	20	2.7	20	85	0	72	29	11	20	38	1.87
505901--506001	50	2.0	50	100	0	202	41	11	23	22	1.87
506321--506347	13	2.1	13	100	0	54	40	14	14	29	1.86
506299--506365	33	2.0	34	88	8	102	35	19	13	31	1.90
506397--506452	19	2.9	19	89	2	76	37	17	14	30	1.90
508888--509016	52	2.5	52	84	1	170	45	10	13	30	1.77
517636--517683	23	2.1	23	100	0	96	50	16	20	12	1.78
519531--519584	20	2.7	20	91	2	81	31	18	11	38	1.86
520486--520994	167	3.1	166	83	7	607	27	13	8	50	1.70
521643--521681	15	2.6	14	84	11	51	79	0	17	2	0.84
522295--522332	19	2.0	19	100	0	76	26	15	10	47	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
522674--522905	129	1.8	129	84	4	326	29	11	14	43	1.81
522785--523073	150	1.9	151	82	6	363	35	12	13	38	1.81
525006--525400	52	7.6	51	72	12	246	31	12	26	29	1.93
525209--525280	28	2.6	28	82	10	94	26	19	31	22	1.97
524899--525390	262	1.9	262	90	0	779	31	13	26	28	1.93
527754--527778	13	1.9	13	100	0	50	36	16	16	32	1.90
527823--527893	32	2.2	32	92	0	115	36	16	11	35	1.85
527850--527874	13	1.9	13	100	0	50	32	16	16	36	1.90
527931--527988	21	2.7	22	81	7	75	32	15	15	36	1.89
528722--530061	55	23.4	55	84	8	1366	23	19	28	27	1.99

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