genome.fa.s221.2.7.7.80.10.50.1000.3.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: Scaffold221
Parameters: 2 7 7 80 10 50 1000
Length:  2539808

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   

This is table  3  of  19  ( 2279 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)
341832--341862	12	2.6	12	94	0	53	29	0	6	64	1.18
342008--342040	17	1.9	17	93	0	57	45	0	0	54	0.99
344456--344562	35	3.1	35	93	0	160	21	19	14	44	1.85
344497--344555	18	3.3	18	68	13	59	22	18	16	42	1.89
348203--348250	20	2.4	21	79	10	55	39	0	2	58	1.10
348254--348285	17	1.9	16	93	6	55	59	0	0	40	0.97
348281--348318	17	2.3	17	86	4	51	39	0	0	60	0.97
352123--352166	22	2.0	22	90	0	70	27	13	18	40	1.88
353539--353650	29	3.9	29	66	20	74	48	0	0	50	1.06
353679--353741	21	3.2	20	79	4	56	31	0	1	66	1.01
353666--353792	47	2.6	45	79	13	121	38	0	2	59	1.11
353710--353788	25	3.2	24	76	11	81	41	0	2	55	1.13
353796--353856	24	2.6	25	75	12	58	32	0	6	60	1.22
369105--369171	26	2.4	27	80	14	73	44	1	1	52	1.19
369109--369166	27	2.2	27	84	9	75	44	1	1	51	1.21
369185--369254	28	2.5	28	78	15	74	50	1	2	45	1.25
369673--369780	47	2.3	49	78	16	120	57	1	3	37	1.27
373496--373537	22	1.9	22	90	9	68	61	0	0	38	0.96
381854--381900	11	4.4	11	81	2	60	34	0	2	63	1.06
381838--381900	30	2.0	32	84	6	85	36	0	1	61	1.05
382361--382432	37	2.0	35	83	5	90	43	0	1	55	1.08
382394--382437	22	2.0	23	86	13	65	54	0	0	45	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
382397--382452	19	2.8	21	74	20	57	53	1	0	44	1.11
383293--383383	31	2.9	30	83	3	101	36	9	2	51	1.47
383494--383534	21	2.0	21	85	0	55	75	9	2	12	1.13
383565--383619	27	2.1	26	86	10	76	43	0	0	56	0.99
389113--389144	16	2.0	16	93	0	55	53	0	0	46	1.00
389860--389914	25	2.1	25	86	10	74	50	1	3	43	1.30
390191--390237	15	3.1	15	82	11	53	55	2	0	42	1.12
390206--390272	12	5.2	13	73	19	61	61	0	1	37	1.05
390206--390272	26	2.5	28	79	13	79	61	0	1	37	1.05
393441--393498	20	2.9	21	78	17	70	53	1	0	44	1.10
393462--393526	25	2.6	24	79	13	60	58	1	1	38	1.17
393484--393531	25	2.0	24	87	4	69	60	0	2	37	1.09
393571--393604	16	2.1	16	89	10	52	61	0	0	38	0.96
398355--398386	15	2.1	15	100	0	64	56	0	12	31	1.37
398470--398563	30	3.3	29	68	20	90	53	1	4	41	1.27
398466--398576	55	2.0	55	96	0	204	55	0	3	39	1.23
398971--399029	17	3.5	17	76	17	59	47	0	1	50	1.11
399020--399116	14	7.4	14	69	19	59	59	0	1	39	1.04
399020--399116	5	19.2	5	68	21	51	59	0	1	39	1.04
399067--399100	17	1.9	18	94	5	61	58	0	0	41	0.98
399022--399110	27	3.2	29	67	19	71	60	0	1	38	1.04
399649--399678	14	2.1	14	93	0	51	10	10	0	80	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
401232--401271	8	5.1	8	90	6	64	10	0	22	67	1.20
401988--402017	2	15.0	2	100	0	60	50	0	0	50	1.00
404337--404363	2	13.5	2	100	0	54	48	0	0	51	1.00
406764--406817	28	2.0	28	96	3	101	46	11	12	29	1.77
407422--407457	2	18.0	2	100	0	72	50	0	0	50	1.00
407571--407603	13	2.5	13	90	9	50	48	3	3	45	1.33
409115--409146	5	6.8	5	96	3	50	87	0	12	0	0.54
411760--411791	11	2.9	11	90	0	55	43	0	0	56	0.99
412015--412046	2	16.0	2	100	0	64	50	0	0	50	1.00
412619--412678	16	3.7	16	75	2	66	65	0	0	35	0.93
416221--416325	54	1.9	54	88	0	156	17	14	7	60	1.56
419376--419419	21	2.0	22	82	8	54	45	0	2	52	1.13
421432--421473	16	2.4	18	80	11	61	61	0	0	38	0.96
427712--427737	2	13.0	2	100	0	52	50	50	0	0	1.00
432960--432994	14	2.6	14	86	4	54	57	0	0	42	0.99
433250--433286	20	1.9	20	88	5	58	67	0	0	32	0.91
433266--433299	17	1.9	18	88	5	52	64	0	0	35	0.94
439062--439092	2	15.5	2	93	0	53	45	0	3	51	1.17
439708--439754	17	2.8	16	90	6	67	25	0	0	74	0.82
439751--439785	18	1.9	18	88	11	54	40	2	0	57	1.14
440039--440136	49	2.0	48	81	13	112	50	1	1	47	1.14
451822--451915	32	2.9	33	74	4	102	47	11	8	31	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
452576--452872	147	2.0	148	96	0	551	29	28	11	30	1.91
453762--453809	20	2.3	20	80	13	53	45	0	0	54	0.99
453783--453848	28	2.4	28	78	19	75	48	0	0	51	1.00
453803--453866	12	5.6	12	77	15	64	56	0	0	43	0.99
453803--453887	17	4.8	18	71	19	72	55	0	0	44	0.99
453966--453996	15	2.0	16	93	6	55	58	3	0	38	1.15
454098--454131	15	2.1	17	89	10	54	38	5	0	55	1.24
454220--454260	14	2.7	15	79	20	50	46	0	2	51	1.14
455011--455059	25	2.0	25	87	0	71	57	0	0	42	0.99
454987--455057	32	2.2	30	77	18	72	53	0	0	46	1.00
456949--457054	32	3.4	31	79	5	115	37	8	9	44	1.67
458935--458979	22	2.0	23	86	4	65	46	0	0	53	1.00
460565--460607	20	2.1	21	83	12	63	58	6	0	34	1.25
460685--460754	23	2.8	23	76	20	70	60	1	1	37	1.15
460706--460766	31	2.0	31	87	3	88	60	1	0	37	1.07
460778--460914	6	22.3	6	66	20	61	37	0	0	61	1.01
460788--460865	23	3.0	28	71	21	87	41	0	0	58	0.98
460824--460882	30	2.0	30	83	9	77	44	0	1	54	1.10
460790--460883	50	1.9	50	84	6	129	40	0	1	58	1.05
461054--461090	2	18.5	2	100	0	74	48	0	0	51	1.00
461183--461207	9	2.8	9	100	0	50	60	0	0	40	0.97
461434--461486	12	3.9	12	77	22	52	33	0	1	64	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
461433--461486	21	2.6	21	80	13	60	35	0	1	62	1.06
461817--461867	28	1.9	25	84	11	66	45	0	1	52	1.12
461872--461912	19	2.2	18	86	4	55	34	0	2	63	1.08
461971--462020	5	9.4	5	79	12	55	66	0	0	34	0.92
461970--462020	11	4.7	11	83	11	70	66	0	0	33	0.92
461968--462097	22	5.9	23	68	20	75	68	2	0	29	1.02
461976--462075	27	3.7	27	80	11	116	70	1	0	29	0.94
461971--462123	38	4.0	37	70	21	109	67	1	0	30	1.02
461940--462015	11	7.0	11	73	21	63	65	1	0	32	1.01
461972--462099	53	2.3	56	79	16	151	67	2	0	29	1.03
462529--462835	158	1.9	160	86	3	431	33	13	17	34	1.90
468061--468095	18	1.9	18	88	0	52	31	2	5	60	1.35
468320--468355	18	2.0	18	100	0	72	44	5	5	44	1.50
471929--472021	26	3.4	27	73	22	79	61	0	0	38	0.96
472326--472382	14	4.1	14	74	21	57	35	0	0	64	0.93
472327--472382	21	2.6	22	75	18	64	33	0	0	66	0.92
472334--472400	31	2.2	31	84	15	86	34	0	0	65	0.93
472347--472400	15	3.4	16	80	17	67	33	0	0	66	0.92
472328--472383	20	2.7	21	79	20	64	32	0	0	67	0.91
472385--472447	30	2.1	30	82	11	76	46	1	1	50	1.20
472574--472626	18	2.9	18	81	13	56	33	0	0	66	0.92
472589--472631	18	2.4	18	88	3	61	32	0	0	67	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
472589--472633	17	2.6	17	86	6	65	33	0	0	66	0.92
475124--475196	17	4.4	18	73	23	63	30	1	1	67	1.08
475312--475348	15	2.4	16	82	13	51	40	0	0	59	0.97
480746--480800	26	2.1	27	96	3	103	45	10	7	36	1.67
481021--481068	24	2.2	21	85	14	62	47	2	0	50	1.12
481063--481101	19	2.1	19	90	0	60	41	0	0	58	0.98
481039--481132	21	4.7	21	71	15	67	46	1	1	51	1.15
484783--484855	36	2.0	36	89	0	110	31	23	15	30	1.95
485809--485857	2	24.5	2	91	0	80	55	0	0	44	0.99
488042--488069	13	2.2	13	100	0	56	42	0	0	57	0.99

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19