genome.fa.s89.2.7.7.80.10.50.1000.3.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: Scaffold89
Parameters: 2 7 7 80 10 50 1000
Length:  5168001

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   

This is table  3  of  27  ( 3236 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)
281957--282005	19	2.5	20	77	12	57	46	0	0	53	1.00
281961--282077	60	2.0	60	84	3	157	45	1	0	52	1.17
281968--282087	58	2.1	57	87	6	170	40	1	0	56	1.15
286925--286977	14	4.0	13	78	9	54	45	0	0	54	0.99
286926--287069	62	2.3	65	79	13	158	44	0	0	55	0.99
286971--287062	15	5.8	15	72	19	62	42	0	0	57	0.98
286968--287064	31	3.1	31	80	5	88	42	0	0	57	0.98
289041--289089	17	2.8	18	84	12	75	34	2	0	63	1.06
290084--290126	22	2.0	22	90	0	68	86	0	13	0	0.58
290087--290127	20	2.0	21	90	4	66	85	0	14	0	0.60
290084--290126	13	2.9	15	80	13	54	86	0	13	0	0.58
290084--290117	6	6.0	6	93	6	54	88	0	11	0	0.52
296204--296255	19	2.8	18	82	5	59	23	13	63	0	1.29
299518--299575	20	3.0	20	72	7	57	48	1	0	50	1.11
300043--300108	22	3.0	22	77	4	62	43	0	0	56	0.99
300276--300323	22	2.2	22	100	0	96	35	0	14	50	1.44
300584--300650	8	8.8	8	73	18	54	62	1	0	35	1.04
300811--300876	8	7.8	8	76	18	53	63	0	3	33	1.10
300770--300876	35	3.1	35	73	14	94	64	0	2	32	1.08
300989--301038	20	2.4	21	86	6	66	66	0	2	32	1.03
301002--301049	15	3.1	15	78	3	60	68	0	0	31	0.90
301002--301063	31	2.0	33	87	9	94	64	0	0	35	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
301002--301095	32	2.9	32	78	12	95	62	2	0	35	1.07
302056--302090	18	2.0	17	88	5	52	34	0	0	65	0.93
307427--307497	32	2.2	32	87	0	106	25	30	29	14	1.94
313347--313407	18	3.0	21	75	20	67	57	4	1	36	1.30
313206--313884	143	4.7	142	74	12	386	54	11	2	30	1.51
313423--313629	76	2.8	71	80	8	227	56	10	3	29	1.50
313204--313920	69	9.9	75	75	13	490	53	11	2	31	1.51
313865--313976	58	1.9	58	81	0	134	50	13	2	33	1.56
313922--314242	73	4.4	72	81	5	362	52	12	1	33	1.49
314126--314175	25	2.0	26	88	7	77	58	6	0	36	1.23
314197--314234	20	1.9	20	88	0	58	57	10	0	31	1.32
313926--314242	145	2.2	145	85	3	435	52	11	1	34	1.49
314621--314673	20	2.9	19	82	17	69	33	0	0	66	0.92
315881--315909	6	5.0	6	91	8	51	65	0	0	34	0.93
325012--325040	2	14.5	2	100	0	58	51	48	0	0	1.00
325980--326004	13	1.9	13	100	0	50	68	8	0	24	1.16
330818--330858	19	2.2	19	86	8	57	41	0	0	58	0.98
331221--331256	2	18.0	2	100	0	72	50	0	0	50	1.00
332248--332306	7	8.6	7	76	14	52	55	1	0	42	1.09
336588--336660	26	2.8	26	79	6	67	58	1	1	38	1.15
339693--339809	60	2.0	60	98	0	225	49	19	9	21	1.76
344492--344561	34	2.0	35	81	8	81	38	4	4	52	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
344966--345011	21	2.2	21	88	0	65	32	2	8	56	1.42
348900--348990	26	3.5	26	76	11	89	58	1	2	38	1.18
349984--350057	26	2.9	25	82	8	78	72	1	0	25	0.92
350002--350057	25	2.2	25	87	9	78	75	0	0	25	0.81
350002--350050	11	4.3	11	78	16	55	73	0	0	26	0.83
350130--350222	14	7.1	14	69	20	58	29	19	5	46	1.72
350104--350183	39	2.1	39	85	4	108	28	18	6	46	1.73
350109--350275	64	2.6	64	88	3	246	28	19	6	45	1.75
350189--350220	15	2.1	15	94	0	55	21	18	3	56	1.56
350139--350208	25	2.8	26	81	14	94	30	18	5	45	1.72
350103--350308	64	3.2	64	74	17	173	29	19	7	44	1.77
354786--354869	16	5.5	15	71	20	59	53	2	1	42	1.21
362620--362649	2	15.0	2	100	0	60	50	0	0	50	1.00
364007--364046	18	2.4	16	88	12	55	47	0	0	52	1.00
365037--365090	18	2.9	19	71	15	58	44	0	0	55	0.99
365037--365133	37	2.6	38	75	6	101	43	0	0	56	0.99
365041--365091	17	2.7	19	74	20	54	43	0	0	56	0.99
365100--365152	23	2.3	23	83	3	61	32	0	1	66	1.03
365098--365132	18	2.0	17	88	5	52	42	0	0	57	0.99
365515--365584	30	2.6	26	73	13	61	47	0	1	51	1.09
365594--365635	15	2.8	16	79	20	54	54	0	4	40	1.21
367619--367663	14	3.2	14	81	18	58	42	0	0	57	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
369126--369159	16	2.1	16	88	5	50	38	0	0	61	0.96
374358--374432	37	2.1	35	87	5	105	45	0	0	54	0.99
374372--374437	18	3.6	18	77	18	66	48	0	0	51	1.00
374717--374765	19	2.7	18	71	6	53	44	0	2	53	1.12
375192--375231	16	2.5	16	84	11	55	40	0	7	52	1.30
378046--378099	28	1.9	28	100	0	108	38	22	16	22	1.93
381415--381456	12	3.7	12	81	9	52	38	0	0	61	0.96
383542--383568	2	13.5	2	100	0	54	51	0	0	48	1.00
385863--385925	18	3.5	17	79	12	56	53	0	0	46	1.00
389810--389859	25	2.0	25	96	3	93	12	28	16	44	1.83
390218--390249	13	2.4	14	94	5	57	31	0	0	68	0.90
396183--396207	8	3.1	8	100	0	50	0	12	0	88	0.53
400098--400137	6	6.7	6	97	0	62	37	0	45	17	1.49
407525--407552	4	7.0	4	100	0	56	75	0	25	0	0.81
408270--408304	19	1.9	19	88	11	56	54	0	0	45	0.99
408539--408584	18	2.4	19	76	20	51	71	10	2	15	1.23
410177--410222	2	23.0	2	95	0	83	47	0	2	50	1.13
414562--414588	3	9.0	3	100	0	54	66	0	0	33	0.92
417181--417516	168	2.0	168	99	0	663	31	25	15	27	1.96
419394--419441	25	1.9	25	83	8	62	35	0	0	64	0.94
419415--419454	10	4.0	10	83	0	53	37	0	0	62	0.95
419417--419459	20	2.2	20	91	8	70	44	0	0	55	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
419417--419453	11	3.5	11	82	10	51	37	0	0	62	0.96
419479--419526	21	2.3	22	82	10	64	62	0	0	37	0.95
419455--419527	29	2.5	28	78	10	74	58	0	0	41	0.98
420342--420374	14	2.4	14	90	5	50	36	3	6	54	1.41
423439--423502	28	2.3	28	76	10	69	32	1	6	59	1.32
423473--423516	22	2.0	22	81	0	52	29	2	9	59	1.41
423991--424051	30	2.0	30	96	0	113	29	32	13	24	1.93
426397--426463	32	2.1	32	83	5	82	43	5	16	34	1.72
428722--428747	11	2.4	11	100	0	52	11	7	7	73	1.26
428993--429035	8	5.0	9	82	5	54	20	0	2	76	0.89
429679--429737	25	2.3	25	97	2	109	42	15	0	42	1.46
429679--429755	25	3.1	25	88	3	93	41	15	2	40	1.61
429815--429865	26	1.9	27	84	4	68	49	1	0	49	1.12
431642--431693	27	2.0	27	85	11	72	48	0	0	51	1.00
431656--431698	18	2.3	19	80	19	54	44	0	0	55	0.99
431661--431709	17	3.1	14	76	23	53	44	0	0	55	0.99
431668--431740	18	3.8	18	72	20	67	42	0	0	57	0.98
431684--431752	21	3.3	21	71	15	70	39	0	0	60	0.97
431670--431754	42	2.0	42	97	0	161	38	0	0	61	0.96
431672--431782	42	2.6	42	87	5	136	42	0	1	55	1.10
434525--434594	31	2.3	31	78	14	81	55	0	0	44	0.99
436324--436458	70	1.9	70	84	3	182	45	3	11	39	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
437332--437356	9	2.8	9	100	0	50	0	16	60	24	1.36
440269--440356	43	2.0	42	82	10	106	42	1	1	55	1.14
440875--440952	23	3.3	25	81	12	78	61	1	0	37	1.04
440877--440945	24	3.4	21	78	19	67	62	1	0	36	1.04
441645--441690	19	2.4	18	77	22	58	50	0	0	50	1.00
442526--442612	27	3.3	26	79	9	95	62	1	3	33	1.20
442494--442612	22	5.6	23	69	24	66	57	1	3	36	1.25
442599--442632	12	2.9	12	91	4	52	55	5	0	38	1.24
442852--442886	13	2.6	14	90	4	54	48	0	0	51	1.00
443539--443579	18	2.3	18	91	4	66	31	0	0	68	0.90

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