genome.fa.s109.2.7.7.80.10.50.1000.3.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: Scaffold109
Parameters: 2 7 7 80 10 50 1000
Length:  1855911

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   

This is table  3  of  13  ( 1516 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)
270017--270074	22	2.5	24	83	13	68	56	0	0	43	0.99
270021--270093	23	3.3	22	81	11	69	52	0	1	46	1.09
270532--270572	14	3.1	14	79	6	50	70	0	0	29	0.87
270635--270693	21	2.7	21	75	15	57	27	0	0	72	0.84
270623--270671	16	3.1	15	88	8	62	24	2	2	71	1.07
270637--270693	16	3.5	17	79	11	57	26	0	0	73	0.83
270635--270687	11	5.0	11	75	22	51	26	0	0	73	0.83
273063--273106	16	2.6	17	82	13	56	56	0	2	40	1.11
273765--273806	22	1.9	22	90	9	68	61	0	0	38	0.96
274704--274735	3	10.7	3	100	0	64	34	0	0	65	0.93
274981--275012	15	2.1	15	100	0	64	46	0	0	53	1.00
276418--276464	3	15.7	3	91	8	78	70	0	0	29	0.88
276624--276671	23	2.2	23	85	10	66	50	2	0	47	1.12
282154--282203	2	25.0	2	100	0	100	50	0	50	0	1.00
282332--282378	3	15.7	3	95	0	85	31	0	0	68	0.90
293285--293319	2	17.5	2	93	0	61	45	0	0	54	0.99
301318--301425	38	2.8	38	87	0	153	30	27	12	29	1.92
301364--301474	38	2.9	38	80	0	123	32	27	9	30	1.89
306014--306161	38	3.9	38	81	3	127	35	19	6	38	1.77
307276--307316	19	2.2	19	91	4	66	46	0	0	53	1.00
309457--309497	22	2.0	22	85	9	59	41	0	7	51	1.30
309752--309776	2	12.5	2	100	0	50	52	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
311908--311955	19	2.5	20	86	3	62	41	0	2	56	1.11
314302--314331	14	2.1	14	100	0	60	33	20	0	46	1.51
314473--314513	22	1.9	22	85	14	59	39	2	0	58	1.11
320882--320911	15	1.9	16	93	6	53	50	0	6	43	1.28
321708--321750	16	2.8	16	82	3	52	34	13	4	46	1.65
321747--321799	16	3.2	16	81	2	70	35	0	7	56	1.28
322355--322408	24	2.3	23	84	12	74	42	3	0	53	1.18
322714--322745	3	10.7	3	100	0	64	65	0	0	34	0.93
322862--322890	14	2.1	14	100	0	58	44	13	13	27	1.82
323643--323878	75	3.1	75	89	1	375	38	20	9	31	1.84
324181--324237	27	2.1	27	86	0	78	28	1	42	28	1.66
325333--325383	16	3.0	17	74	8	50	64	3	0	31	1.11
326006--326209	102	2.0	102	99	0	399	31	17	22	28	1.96
329554--329604	22	2.3	21	83	12	59	39	0	9	50	1.35
329636--329685	17	2.9	16	79	5	55	38	0	2	60	1.09
331499--331528	2	15.0	2	100	0	60	50	0	0	50	1.00
333758--333823	21	3.1	22	79	12	68	60	0	0	39	0.97
335080--335142	34	1.9	33	90	6	101	41	0	26	31	1.56
337774--337815	16	2.6	16	88	0	57	33	2	9	54	1.46
338950--338987	3	12.7	3	88	0	58	26	0	5	68	1.11
340596--340634	15	2.6	15	95	0	69	30	0	7	61	1.24
345232--345281	21	2.4	21	79	0	55	48	4	2	46	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
346578--346619	3	14.3	3	95	5	77	30	0	0	69	0.89
346718--346749	2	16.0	2	100	0	64	50	0	0	50	1.00
346774--346816	10	4.1	10	80	11	50	62	4	0	32	1.15
346774--346814	22	1.9	21	90	5	64	60	4	0	34	1.18
348454--348496	21	2.0	21	81	4	50	60	9	2	27	1.40
352028--352067	20	2.0	20	95	0	71	42	10	10	37	1.72
352031--352078	20	2.5	20	86	3	62	43	10	8	37	1.69
352831--352864	6	5.7	6	100	0	68	17	47	17	17	1.84
356512--356555	16	2.8	16	75	10	54	54	0	0	45	0.99
356514--356567	17	3.3	17	80	15	69	55	0	0	44	0.99
372085--372153	35	2.0	33	86	10	95	49	0	0	50	1.00
372179--372221	20	2.2	20	87	8	61	69	0	0	30	0.88
373659--373729	16	4.7	16	67	18	53	35	4	4	56	1.38
373653--373744	45	2.0	45	95	0	166	40	4	6	48	1.49
373662--373760	45	2.2	45	83	3	119	39	5	8	47	1.55
374638--374721	8	10.5	8	72	16	50	44	0	1	54	1.07
374642--374678	11	3.2	11	85	14	56	43	0	0	56	0.99
375413--375446	14	2.5	14	90	4	52	38	0	0	61	0.96
376378--376405	14	2.0	14	100	0	56	64	0	0	35	0.94
376834--376877	16	2.8	16	78	21	56	45	0	0	54	0.99
377092--377124	17	1.9	17	93	0	57	78	0	0	21	0.75
377365--377420	18	3.1	18	80	15	62	64	1	3	30	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
378574--378712	69	2.0	69	91	0	224	24	7	22	46	1.77
382618--382647	2	15.0	2	100	0	60	0	50	0	50	1.00
382624--382977	180	2.0	180	80	7	405	25	35	13	24	1.92
383417--383465	24	2.0	25	92	4	82	26	8	10	55	1.61
383675--383730	16	3.4	16	78	4	58	42	0	1	55	1.10
386810--386886	16	4.9	15	72	10	57	54	5	1	38	1.31
387286--387326	2	21.0	2	87	5	57	0	48	4	46	1.23
387371--387419	6	8.2	6	76	0	53	22	2	16	59	1.47
388219--388268	19	2.6	21	76	20	56	50	2	2	46	1.24
388456--388507	16	3.3	16	76	13	54	38	0	0	61	0.96
388470--388520	20	2.6	20	81	3	59	39	0	0	60	0.97
388483--388522	20	2.0	20	90	4	64	37	0	0	62	0.95
388875--388931	19	3.1	19	73	12	55	56	0	3	40	1.17
388836--389075	132	1.8	132	93	0	417	50	1	5	42	1.32
395280--395354	32	2.6	27	77	22	89	45	0	0	54	0.99
395288--395342	16	3.4	17	75	25	64	43	0	0	56	0.99
395285--395348	32	2.0	33	90	3	103	46	0	0	53	1.00
395298--395349	14	3.4	14	73	19	50	50	0	0	50	1.00
395365--395401	14	2.6	15	83	8	51	37	2	0	59	1.12
396298--396360	18	3.6	17	74	19	58	33	0	1	65	1.03
397683--397750	14	5.1	14	74	10	54	54	0	0	45	0.99
398155--398190	2	18.0	2	100	0	72	0	50	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
403010--403963	69	13.8	69	91	1	1432	23	25	24	26	2.00
406331--406374	20	2.2	21	80	8	56	50	0	2	47	1.13
407636--407676	22	2.0	21	90	9	66	56	2	0	41	1.13
407777--407833	22	2.6	23	83	13	75	71	0	0	28	0.86
407759--407834	38	2.0	37	85	7	100	72	0	0	27	0.85
407758--407835	11	7.6	11	72	24	64	70	0	0	29	0.87
409539--409644	54	2.0	54	90	3	169	28	8	17	45	1.78
412094--412159	34	1.9	34	100	0	132	33	15	18	33	1.92
412637--412711	33	2.3	34	80	13	86	54	1	2	41	1.23
414380--414430	26	1.9	27	81	18	63	45	1	0	52	1.12
425065--425170	48	2.3	45	75	15	110	43	0	3	52	1.19
426559--426600	18	2.3	18	84	8	59	59	0	2	38	1.10
426644--426691	2	24.0	2	100	0	96	50	0	0	50	1.00
427035--427065	2	15.5	2	100	0	62	51	0	0	48	1.00
432181--432219	2	19.5	2	100	0	78	51	0	48	0	1.00
432745--432785	21	2.0	21	85	9	57	53	0	4	41	1.22
433140--433200	27	2.3	26	78	13	72	50	3	0	45	1.17
433506--433644	40	3.5	40	85	3	138	28	14	7	49	1.69
433541--433665	40	3.2	39	87	4	128	28	15	10	46	1.78
440611--440645	9	3.9	9	100	0	70	34	11	8	45	1.71
441177--441402	93	2.4	93	85	1	301	25	29	26	18	1.98
442771--442796	2	13.0	2	100	0	52	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
443213--443481	114	2.4	114	98	0	511	24	28	26	20	1.99
447323--447386	28	2.2	31	86	10	91	62	0	0	37	0.95
447590--447670	32	2.6	31	77	18	87	58	0	0	41	0.98
449108--449141	17	2.0	17	88	0	50	32	2	0	64	1.08
449185--449270	27	3.2	28	75	21	85	39	3	0	56	1.16
449963--450025	26	2.4	26	81	0	72	52	0	1	46	1.10
450357--450386	9	3.2	9	90	9	51	30	10	13	46	1.75
451644--452607	120	8.1	120	89	1	1348	35	8	17	38	1.80
451644--452607	357	2.7	356	88	2	1351	35	8	17	38	1.80
453125--453649	120	4.4	119	83	3	606	36	7	15	39	1.76

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13