genome.fa.s484.2.7.7.80.10.50.1000.2.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: Scaffold484
Parameters: 2 7 7 80 10 50 1000
Length:  1030986

Tables:   1   2   3   4   5   6   

This is table  2  of  6  ( 680 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)
236574--236635	19	3.6	18	72	24	53	51	0	0	48	1.00
238131--238155	2	12.5	2	100	0	50	48	0	0	52	1.00
238721--238762	15	2.8	15	81	0	57	64	0	0	35	0.94
239709--239734	6	4.3	6	100	0	52	30	34	15	19	1.93
240574--240620	24	2.0	24	87	4	69	48	2	0	48	1.13
240674--240709	5	7.2	5	93	0	63	55	0	0	44	0.99
240674--240724	10	4.8	11	90	7	54	52	0	0	47	1.00
241249--241280	3	10.7	3	100	0	64	65	0	0	34	0.93
241283--241321	4	9.5	4	84	15	53	69	5	0	25	1.09
241812--241927	38	3.0	39	74	19	109	51	0	0	47	1.06
241848--241879	14	2.3	15	89	10	50	62	0	0	37	0.95
242453--242497	22	2.0	23	86	4	65	46	0	0	53	1.00
242475--242521	17	2.8	17	80	6	51	42	0	0	57	0.98
243999--244166	88	1.9	88	85	4	232	41	7	22	29	1.80
249208--249331	40	3.1	40	97	1	230	45	22	7	24	1.77
249758--249816	2	29.5	2	96	0	109	47	0	52	0	1.00
256498--256548	20	2.6	19	78	6	57	54	0	0	45	0.99
256751--256789	20	2.0	20	100	0	78	66	0	0	33	0.92
256883--256921	18	2.1	18	85	4	51	76	2	0	20	0.90
257365--257416	14	3.6	14	94	2	86	42	0	0	57	0.98
257331--257422	14	6.0	15	80	13	82	41	0	0	58	0.98
257454--257487	14	2.4	14	90	0	50	67	0	0	32	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
257520--257562	19	2.2	20	83	4	52	44	0	0	55	0.99
257521--257571	14	3.6	14	76	7	50	43	0	1	54	1.11
257981--258012	2	16.0	2	100	0	64	0	50	0	50	1.00
264077--264118	22	1.9	22	90	9	68	38	0	0	61	0.96
266358--266400	11	3.5	11	77	22	50	51	2	27	18	1.59
271111--271219	53	2.1	53	94	0	191	35	22	6	34	1.80
276418--276462	22	2.0	22	82	4	54	46	2	0	51	1.13
277077--277178	26	4.0	25	76	12	91	64	0	0	35	0.94
277117--277194	6	11.6	7	71	23	53	70	1	0	28	0.95
277136--277194	10	5.9	10	75	15	59	71	1	0	27	0.96
277117--277195	33	2.5	33	82	10	92	69	1	0	29	0.96
277137--277194	17	3.5	17	81	11	66	70	1	0	27	0.97
277091--277157	24	2.7	23	84	13	80	68	0	0	31	0.90
288271--288332	22	2.6	23	82	14	65	40	0	1	58	1.08
288798--288885	45	2.0	45	88	0	131	47	1	15	35	1.53
289449--289480	5	6.4	5	96	0	55	34	40	0	25	1.56
291724--291750	2	13.5	2	100	0	54	0	0	48	51	1.00
291959--292071	56	2.0	56	100	0	226	20	31	7	40	1.79
293326--293359	17	2.0	17	94	0	59	44	0	0	55	0.99
293687--293716	2	15.0	2	100	0	60	50	0	0	50	1.00
295653--295743	43	2.1	43	93	0	155	30	8	21	38	1.84
306393--306452	26	2.3	27	77	13	63	51	1	0	46	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
306688--306733	23	1.9	24	86	8	67	50	2	0	47	1.13
309353--309392	13	3.0	14	82	17	50	47	2	0	50	1.14
310470--310504	15	2.2	16	90	5	54	51	0	0	48	1.00
310867--310911	21	2.1	21	84	15	58	55	2	0	42	1.12
311203--311264	33	1.9	32	83	9	81	50	9	1	38	1.45
311570--311598	15	2.0	15	93	6	51	41	0	0	58	0.98
317895--317921	2	13.5	2	100	0	54	0	0	48	51	1.00
348463--348504	22	1.9	22	85	0	57	66	2	2	28	1.16
348953--348989	2	18.5	2	94	0	65	51	2	0	45	1.15
356706--356841	67	2.0	67	98	0	263	33	24	11	30	1.91
360487--360679	99	2.0	97	91	2	314	52	15	7	25	1.68
362631--362666	2	18.0	2	100	0	72	50	0	50	0	1.00
362860--362931	33	2.2	33	87	5	101	29	13	27	29	1.95
366654--366685	6	4.9	7	92	7	50	56	0	0	43	0.99
366654--366704	26	1.9	27	84	4	68	52	0	1	45	1.12
366644--366710	20	3.3	20	77	12	66	55	0	1	43	1.09
372010--372049	18	2.1	19	86	9	55	77	0	2	20	0.88
372756--372827	38	1.9	38	86	8	103	18	18	9	54	1.70
372756--372835	37	2.2	37	84	8	101	20	16	8	55	1.67
376674--376702	14	2.1	14	100	0	58	20	34	6	37	1.80
387912--387969	21	2.7	21	81	10	64	63	0	0	36	0.94
388206--388279	29	2.8	26	72	21	73	45	0	0	54	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
388220--388265	20	2.3	20	81	3	58	50	0	0	50	1.00
388223--388277	28	1.9	29	85	10	78	49	0	0	50	1.00
388260--388288	14	2.0	15	93	6	51	34	0	0	65	0.93
393221--393245	2	12.5	2	100	0	50	48	0	0	52	1.00
393657--393742	4	21.5	4	85	0	109	44	2	5	47	1.39
393657--393742	14	6.1	14	87	0	109	44	2	5	47	1.39
393869--393908	21	1.9	21	84	0	53	12	5	2	80	0.98
395430--395468	2	19.5	2	100	0	78	51	0	0	48	1.00
395468--395494	2	13.5	2	100	0	54	51	48	0	0	1.00
396247--396300	16	3.5	15	78	16	58	48	1	1	48	1.23
396274--396321	21	2.2	23	82	14	66	43	8	0	47	1.33
396309--396348	22	1.9	22	90	10	66	32	15	5	47	1.66
396376--396404	15	2.0	15	93	6	51	55	3	6	34	1.44
397439--397482	13	3.2	13	80	20	54	72	2	0	25	0.96
400370--400420	17	2.8	18	85	11	68	54	0	0	45	0.99
400383--400428	17	2.7	17	90	6	67	50	0	0	50	1.00
400434--400476	16	2.6	16	79	17	52	34	0	2	62	1.08
401047--401090	2	22.0	2	100	0	88	50	0	0	50	1.00
403890--403991	16	6.4	16	71	8	73	53	1	0	43	1.18
403877--403997	32	3.9	30	81	10	138	55	1	0	42	1.15
403876--403997	64	2.0	61	88	11	185	54	2	0	41	1.19
403973--404011	19	2.0	20	90	5	62	56	0	0	43	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
405343--405399	28	2.0	28	93	0	96	42	15	10	31	1.81
406943--406969	2	13.5	2	100	0	54	0	0	48	51	1.00
407960--407988	15	1.9	15	100	0	58	31	13	0	55	1.39
411303--411338	18	1.9	18	88	5	54	33	2	0	63	1.08
413657--413685	3	9.7	3	100	0	58	0	0	68	31	0.89
416932--416985	27	2.0	26	82	10	65	59	0	1	38	1.08
417105--417129	2	12.5	2	100	0	50	0	48	0	52	1.00
417129--417164	2	18.0	2	94	0	63	47	0	2	50	1.15
417926--417955	14	2.1	14	100	0	60	20	0	0	80	0.72
418043--418092	18	2.6	19	81	12	57	44	2	2	52	1.24
418432--418486	24	2.2	25	80	3	67	54	5	1	38	1.34
419605--419639	18	1.9	18	88	11	54	62	0	2	34	1.10
419600--419664	30	2.2	30	86	5	87	63	1	3	32	1.19
419797--419840	21	2.1	21	87	4	63	68	2	4	25	1.20
419866--419916	18	2.8	18	84	0	57	52	0	0	47	1.00
419875--419919	23	2.0	23	82	8	56	53	0	0	46	1.00
419908--419962	16	3.2	18	77	12	62	61	1	0	36	1.06
420407--420456	25	2.1	25	85	10	70	52	0	0	48	1.00
420436--420487	13	4.2	13	74	18	56	53	0	0	46	1.00
420461--420494	13	2.7	13	86	4	52	44	0	0	55	0.99
421198--421228	6	5.0	6	96	4	53	0	32	0	67	0.91
422047--422078	3	10.7	3	100	0	64	0	0	34	65	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
431319--431343	6	4.2	6	100	0	50	48	0	0	52	1.00
431625--431649	12	2.1	12	100	0	50	64	0	0	36	0.94
432286--432368	31	2.6	32	71	9	80	39	1	1	57	1.14
434338--434384	14	3.4	14	85	2	69	51	0	0	48	1.00
438324--438355	2	16.0	2	100	0	64	50	0	0	50	1.00
438763--438829	28	2.2	30	82	15	77	50	0	0	49	1.00
438905--438950	2	23.5	2	88	4	67	47	2	47	2	1.26
442286--442384	10	10.8	10	71	18	58	58	0	1	40	1.05
442287--442353	33	2.0	33	88	8	100	58	0	0	41	0.98
443007--443056	25	2.1	24	85	10	68	64	0	0	36	0.94

Tables:   1   2   3   4   5   6