genome.fa.s479.2.7.7.80.10.50.1000.3.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: Scaffold479
Parameters: 2 7 7 80 10 50 1000
Length:  1265690

Tables:   1   2   3   4   5   6   7   8   9   

This is table  3  of  9  ( 1016 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)
290558--291532	49	19.8	49	85	4	1223	24	26	17	31	1.97
290558--291532	98	9.9	98	90	4	1385	24	26	17	31	1.97
292403--292469	33	2.0	33	88	0	98	34	11	13	40	1.81
292423--292447	13	1.9	13	100	0	50	36	16	16	32	1.90
292513--292537	13	1.9	13	100	0	50	32	16	16	36	1.90
292546--292666	52	2.3	52	97	0	224	34	18	18	28	1.94
302824--302874	19	2.6	19	81	3	57	29	17	13	39	1.88
302842--302895	19	2.8	19	85	2	63	29	14	18	37	1.91
303355--303399	23	2.0	23	82	8	56	31	8	22	37	1.85
305667--305739	29	2.7	28	81	10	80	34	0	1	64	1.02
306126--306150	13	1.9	13	100	0	50	32	16	16	36	1.90
306138--306189	20	2.6	20	87	0	77	40	13	15	30	1.86
308330--308359	16	1.9	15	93	6	51	43	0	16	40	1.48
312591--312631	22	2.0	21	86	13	59	31	21	4	41	1.74
314240--314300	26	2.3	26	97	0	113	45	0	24	29	1.53
314944--314968	13	1.9	13	100	0	50	32	16	16	36	1.90
314956--315007	20	2.6	20	87	0	77	40	13	15	30	1.86
315723--315820	48	2.0	48	100	0	196	20	20	8	51	1.73
316162--316246	27	3.2	28	77	9	90	51	0	0	48	1.00
316191--316246	13	4.5	13	76	12	55	55	0	0	44	0.99
317488--317517	15	2.0	15	93	0	51	56	0	0	43	0.99
318799--318826	12	2.3	12	100	0	56	28	0	21	50	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
321073--321117	14	3.4	14	82	14	51	4	15	2	77	1.02
321245--321287	21	2.1	20	86	4	59	46	0	0	53	1.00
321732--321806	30	2.5	31	87	10	102	29	16	14	40	1.88
324108--324261	79	1.9	79	84	2	202	26	26	14	32	1.94
324237--324292	28	2.0	28	89	0	85	25	26	17	30	1.97
324169--324362	107	1.8	107	82	6	250	26	22	17	33	1.96
324247--325015	79	9.8	78	79	4	681	27	23	14	35	1.93
326536--326580	22	2.0	23	87	12	67	51	0	0	48	1.00
326541--326622	38	2.2	39	88	4	132	46	0	2	51	1.14
327084--327137	20	2.7	20	83	13	58	18	1	9	70	1.23
339694--339754	22	2.7	22	78	16	72	44	0	1	54	1.10
339953--339995	14	2.7	18	70	30	51	51	0	2	46	1.13
342518--342873	158	2.3	157	79	10	379	32	19	12	36	1.89
345565--345603	19	2.0	20	85	5	53	23	15	25	35	1.94
346370--346652	81	3.5	82	84	5	312	33	10	24	31	1.90
346504--346749	131	1.9	133	84	5	340	35	10	24	30	1.88
349825--352550	158	17.5	159	68	16	532	37	14	17	30	1.90
349701--351266	466	3.4	461	80	7	1554	36	14	18	30	1.90
350039--352476	158	15.7	152	69	13	709	37	14	17	30	1.90
351611--352752	159	7.4	152	73	12	533	38	14	17	30	1.89
352372--353170	398	2.0	400	81	3	941	36	13	18	30	1.90
353080--353460	151	2.5	151	82	3	410	36	16	16	30	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
354697--354756	24	2.5	24	88	0	84	16	11	5	66	1.40
356682--356749	32	2.1	32	83	5	84	52	5	14	26	1.64
364029--364280	79	3.2	78	82	5	310	31	15	27	25	1.96
364292--364414	52	2.4	52	86	5	160	30	11	26	31	1.91
366424--366465	21	2.0	21	90	0	66	28	19	9	42	1.82
367329--367566	55	4.3	55	87	5	329	23	21	26	28	1.99
367491--367666	94	1.9	95	90	1	282	22	19	31	26	1.97
367694--367782	28	3.2	28	65	16	69	30	20	22	26	1.98
367646--368080	61	7.3	60	82	9	554	29	19	25	25	1.99
367588--368080	116	4.2	116	89	2	675	27	19	25	26	1.99
367329--367811	265	1.8	260	85	4	682	24	20	27	27	1.99
367646--368047	177	2.3	170	85	7	520	28	19	25	26	1.99
369034--369095	26	2.4	26	83	5	72	0	9	8	82	0.85
369048--369100	18	3.1	16	86	8	61	0	3	9	86	0.68
369051--369097	13	3.5	13	88	11	69	0	4	10	85	0.74
369048--369097	26	2.0	25	92	4	82	0	4	10	86	0.71
381402--381658	79	3.3	78	81	6	286	31	17	26	25	1.97
381615--381689	28	2.7	28	85	0	96	24	18	32	25	1.97
381673--381795	52	2.4	53	83	2	151	31	11	25	31	1.91
384176--384217	21	2.0	21	95	0	75	28	21	9	40	1.84
386063--386287	86	2.6	85	79	6	242	40	22	8	28	1.83
386063--386318	85	3.0	84	77	5	246	39	22	8	29	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
388954--389006	20	2.7	20	79	5	54	39	9	15	35	1.79
388974--389036	33	1.9	33	86	0	90	36	11	14	38	1.81
392034--392084	20	2.5	20	84	9	59	29	17	7	45	1.77
392843--393487	53	12.2	53	74	9	257	36	14	22	26	1.92
392843--393586	52	14.0	52	73	8	405	36	14	22	26	1.93
392896--393280	159	2.4	159	75	5	393	36	14	21	27	1.92
393124--393487	105	3.5	103	79	6	408	36	15	21	25	1.93
393658--393776	32	3.7	32	88	0	166	17	20	30	31	1.96
395274--395339	20	3.2	20	81	16	73	7	12	3	77	1.09
395283--395320	19	2.0	19	89	0	58	7	7	5	78	1.07
404785--404809	13	1.9	13	100	0	50	32	16	16	36	1.90
404797--404849	20	2.6	21	82	8	65	37	16	16	28	1.91
409312--409343	13	2.5	13	100	0	64	46	21	21	9	1.79
410231--410264	1	34.0	1	87	0	50	94	0	5	0	0.32
410219--410264	21	2.1	21	88	8	65	89	0	8	2	0.57
411195--411288	29	3.2	29	81	12	111	21	29	15	32	1.95
411232--412269	34	31.9	34	73	18	732	21	32	12	33	1.91
411195--411383	59	3.1	59	76	14	161	20	32	14	32	1.92
411322--411624	28	10.0	28	63	16	95	22	32	13	31	1.92
411295--412257	62	14.9	62	89	6	1077	21	32	12	32	1.91
411761--411812	27	1.9	27	96	0	95	23	38	17	21	1.93
412037--412090	27	2.0	27	88	0	81	25	35	16	22	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
411966--412262	98	3.0	97	84	11	406	20	33	13	32	1.91
411894--412228	169	2.0	166	89	6	516	21	33	13	32	1.91
411722--412282	104	5.5	101	80	12	541	20	33	12	33	1.90
412336--412897	49	11.7	49	83	8	674	24	25	17	32	1.97
412535--412897	92	3.9	92	97	1	645	24	24	18	32	1.97
412336--412897	184	2.9	187	91	5	860	24	25	17	32	1.97
413824--413890	33	2.0	33	88	0	98	34	11	13	40	1.81
413844--413868	13	1.9	13	100	0	50	36	16	16	32	1.90
413934--413958	13	1.9	13	100	0	50	32	16	16	36	1.90
413967--414087	52	2.3	52	97	0	224	34	18	18	28	1.94
421328--421362	1	35.0	1	88	0	52	94	0	5	0	0.32
421316--421362	21	2.2	21	88	0	67	89	0	8	2	0.57
422293--422386	29	3.2	29	81	12	111	21	29	15	32	1.95
422293--422481	59	3.1	59	76	14	161	20	32	14	32	1.92
422420--422722	28	10.0	28	63	16	95	22	32	13	31	1.92
422393--423356	62	14.9	62	89	6	1077	21	32	12	32	1.91
422355--423363	34	30.9	34	74	17	821	21	32	12	33	1.91
422859--422910	27	1.9	27	96	0	95	23	38	17	21	1.93
422889--423363	37	13.8	34	84	12	566	20	33	12	33	1.90
423135--423188	27	2.0	27	88	0	81	25	35	16	22	1.95
423064--423361	99	3.0	99	83	11	396	20	33	13	32	1.91
423159--423368	35	6.0	35	86	8	268	20	31	11	36	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
422820--423381	104	5.5	101	80	13	534	20	33	12	33	1.90
423435--423996	49	11.7	49	83	8	674	24	25	17	32	1.97
423634--423996	92	3.9	92	97	1	645	24	24	18	32	1.97
423435--423996	184	2.9	187	91	5	860	24	25	17	32	1.97
424923--424989	33	2.0	33	88	0	98	34	11	13	40	1.81
424943--424967	13	1.9	13	100	0	50	36	16	16	32	1.90
425033--425057	13	1.9	13	100	0	50	32	16	16	36	1.90
425066--425186	52	2.3	52	97	0	224	34	18	18	28	1.94
429186--429254	21	3.3	21	79	4	95	33	18	11	36	1.87
429179--429274	41	2.3	41	98	0	183	31	17	12	38	1.87

Tables:   1   2   3   4   5   6   7   8   9