genome.fa.s31.2.7.7.80.10.50.1000.3.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: Scaffold31
Parameters: 2 7 7 80 10 50 1000
Length:  2401195

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

This is table  3  of  16  ( 1858 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)
335363--335412	19	2.6	19	90	0	73	32	18	16	34	1.92
335383--335426	19	2.3	19	88	0	61	27	20	20	31	1.97
339492--339709	34	6.5	34	88	1	296	24	7	27	40	1.82
339492--339711	67	3.3	67	88	1	323	24	7	27	40	1.82
344464--344509	10	4.4	11	83	10	53	73	2	2	21	1.04
353085--353138	18	2.8	20	78	15	60	37	12	7	42	1.72
353389--353425	18	2.1	18	89	0	56	32	8	18	40	1.80
356098--356138	17	2.6	16	82	14	50	63	0	0	36	0.95
356107--356138	17	1.9	17	93	6	57	59	0	0	40	0.97
356136--356171	15	2.3	16	90	4	56	66	2	0	30	1.06
359438--359632	107	1.8	106	85	1	273	37	10	12	39	1.78
359712--359739	2	14.0	2	100	0	56	50	0	0	50	1.00
360228--360282	20	2.5	22	85	11	78	54	0	5	40	1.23
361326--361367	10	4.3	10	78	6	50	45	2	2	50	1.27
363161--363213	20	2.7	20	87	0	70	32	15	11	41	1.82
364986--365021	18	2.1	16	90	10	54	58	8	8	25	1.55
367884--368084	110	1.8	110	84	0	276	40	9	10	39	1.72
368976--369030	20	2.7	21	86	11	78	29	16	10	43	1.82
372308--372495	79	2.4	79	79	7	195	35	13	23	27	1.92
372432--372538	51	2.1	51	87	3	153	31	10	25	32	1.89
372561--372677	51	2.3	51	86	0	153	33	14	24	27	1.94
372352--372737	130	3.0	128	79	2	423	33	12	25	29	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
375139--375195	20	2.8	21	86	2	89	49	12	14	24	1.77
375794--375893	41	2.5	40	82	8	112	44	11	27	18	1.83
375897--376062	42	3.9	41	79	12	156	40	14	25	18	1.89
375924--376090	42	4.0	43	78	13	163	41	14	25	19	1.89
376068--376442	61	6.3	60	81	9	362	28	20	25	25	1.99
376251--376439	55	3.3	55	85	7	261	25	21	25	27	1.99
376059--376440	116	3.2	115	80	8	455	28	20	25	25	1.99
376460--376687	61	3.8	60	82	8	243	27	19	25	27	1.99
376305--376589	155	1.8	155	84	4	396	26	19	27	26	1.99
376485--376687	55	3.4	58	81	10	196	28	18	25	27	1.98
376181--376961	271	2.9	270	86	2	1104	27	19	27	25	1.99
376720--377169	61	7.6	60	82	11	536	27	18	28	25	1.98
376730--377174	178	2.5	177	91	2	732	26	18	28	26	1.98
378127--378188	8	7.5	8	80	7	52	1	8	6	83	0.86
378149--378188	17	2.4	17	91	0	62	2	0	10	87	0.63
390642--390824	77	2.4	77	85	1	249	33	12	26	27	1.92
390608--390824	79	2.8	79	82	3	253	32	12	26	28	1.92
390763--390865	51	2.1	49	83	7	127	34	7	24	33	1.84
390572--390955	207	1.9	207	85	5	544	32	11	26	29	1.92
390887--391006	51	2.4	51	85	2	152	33	14	25	27	1.94
390734--391066	130	2.6	130	82	4	388	33	12	25	28	1.92
394843--394898	13	3.8	13	75	24	58	33	14	17	33	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
394823--394920	32	3.0	32	95	1	169	33	12	18	35	1.88
394821--394918	19	5.8	18	70	28	81	32	12	18	36	1.88
394992--395120	52	2.5	51	94	2	222	34	18	18	28	1.95
403400--404004	162	3.8	161	84	8	647	20	36	13	30	1.90
403342--404054	61	11.1	64	80	12	532	20	36	12	30	1.90
403440--404054	288	2.1	288	95	0	1097	20	37	13	29	1.90
403338--404054	162	4.4	159	83	10	636	20	36	12	30	1.90
403332--404031	126	5.4	125	82	12	632	20	36	13	30	1.90
404045--404146	32	3.2	32	83	8	138	31	35	16	16	1.92
404185--404593	43	9.1	43	84	9	530	25	24	18	31	1.98
404139--404593	92	5.0	90	89	4	602	25	25	18	30	1.98
404277--404344	22	3.1	22	62	26	54	26	25	17	30	1.97
404139--404593	135	3.3	135	88	5	625	25	25	18	30	1.98
404547--404700	52	2.9	53	81	4	193	24	23	15	36	1.94
404650--404776	67	1.9	68	88	1	193	23	24	12	39	1.89
404565--404978	227	1.8	228	86	3	611	23	24	14	37	1.92
404717--404913	52	3.7	53	77	7	143	25	24	14	35	1.93
405553--405650	32	3.0	32	95	1	169	34	11	17	36	1.85
405551--405648	19	5.8	18	71	28	90	33	11	17	37	1.85
405573--405629	13	3.9	13	74	24	51	35	12	17	35	1.87
405726--405852	52	2.5	51	92	2	200	36	18	17	28	1.93
411512--411538	13	2.1	13	100	0	54	40	14	14	29	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
411583--411653	32	2.2	32	92	0	115	35	16	14	33	1.89
412416--413091	52	13.9	49	80	9	670	32	17	25	24	1.97
412416--413091	101	6.9	101	88	5	880	32	17	25	24	1.97
412768--413039	43	6.1	43	78	9	292	31	17	24	26	1.97
413138--413288	70	2.2	69	83	9	182	34	10	31	23	1.89
413138--413291	35	4.4	35	79	9	163	35	10	31	22	1.88
413328--413409	30	2.7	30	86	1	110	28	17	26	28	1.97
413280--413409	31	4.3	31	74	12	117	30	15	27	26	1.96
419184--419228	22	2.1	21	88	8	65	48	6	11	33	1.65
421593--421665	20	3.7	20	87	3	112	32	17	15	34	1.91
430059--430087	13	2.2	13	100	0	58	27	13	17	41	1.87
439598--439683	44	2.0	44	97	0	163	48	3	10	37	1.55
440021--440095	20	3.8	20	78	0	87	34	13	10	41	1.79
443776--443801	13	2.0	13	100	0	52	30	15	15	38	1.88
443786--443840	19	2.8	19	80	2	65	34	16	14	34	1.89
443872--443934	33	1.9	33	90	0	99	34	11	17	36	1.85
447138--447178	21	2.0	21	90	0	64	31	4	7	56	1.48
447681--447790	54	2.0	54	89	0	166	33	19	10	37	1.85
448016--448061	22	2.2	22	92	7	78	41	8	10	39	1.71
448823--448880	29	2.0	29	89	0	89	29	17	5	48	1.68
448849--448898	20	2.5	20	86	0	73	28	16	6	50	1.68
449923--449947	13	1.9	13	100	0	50	72	0	0	28	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
449941--449986	16	2.8	17	86	3	67	76	8	0	15	1.02
449941--449992	24	2.2	24	92	0	86	75	9	0	15	1.05
449940--449986	9	5.6	9	82	10	55	76	8	0	14	1.01
449936--449987	16	3.2	16	75	5	59	73	7	0	19	1.07
450185--450264	25	3.2	25	67	10	74	55	5	22	17	1.61
450167--450265	49	2.0	49	98	0	189	54	6	24	15	1.63
450177--450253	24	3.2	23	68	10	73	50	6	25	16	1.69
450186--450268	26	3.3	25	67	16	73	54	4	22	18	1.62
450606--450692	33	2.6	33	87	5	113	29	34	19	16	1.93
450639--450753	51	2.3	51	89	0	167	31	37	17	13	1.89
450550--450732	84	2.2	84	90	0	294	29	37	17	15	1.91
456594--456642	19	2.4	19	80	13	53	30	20	4	44	1.70
461036--461085	25	2.0	25	96	3	93	50	12	18	20	1.78
462400--462425	13	2.0	13	100	0	52	38	15	15	30	1.88
464642--464686	21	2.1	21	84	8	56	53	4	20	22	1.63
468599--468637	13	3.0	13	100	0	78	30	15	15	38	1.88
468758--468803	21	2.2	20	81	11	58	32	19	4	43	1.71
471187--471245	13	4.0	13	73	26	55	42	15	13	28	1.85
471201--471265	20	3.6	20	73	26	81	44	15	12	27	1.82
471188--471265	33	2.4	33	100	0	156	43	15	12	28	1.83
474841--475938	42	26.3	42	81	5	1084	13	29	18	37	1.90
474839--475953	168	6.7	167	83	3	1235	13	29	18	37	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
476392--476416	13	1.9	13	100	0	50	72	0	0	28	0.86
476410--476452	16	2.7	17	89	7	56	81	9	0	9	0.88
476411--476461	16	3.2	16	81	13	52	78	7	0	13	0.96
476646--476725	25	3.2	25	65	16	67	55	5	21	18	1.62
476628--476726	49	2.0	49	98	0	189	54	6	23	16	1.64
476638--476714	24	3.2	23	66	10	64	50	6	24	18	1.70
476976--477076	51	2.0	51	88	3	150	25	34	21	17	1.96
478496--478533	16	2.4	16	86	4	60	81	2	0	15	0.80
482164--482292	52	2.5	52	94	0	231	29	18	17	34	1.94
482301--482325	13	1.9	13	100	0	50	36	16	16	32	1.90

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