genome.fa.s171.2.7.7.80.10.50.1000.3.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: Scaffold171
Parameters: 2 7 7 80 10 50 1000
Length:  2364178

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

This is table  3  of  13  ( 1521 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)
354089--354141	19	2.8	19	85	5	63	15	0	7	77	0.98
354080--354139	13	4.3	14	78	16	54	15	0	8	76	1.00
354071--354149	16	4.9	16	77	10	63	17	0	6	75	1.00
359521--359560	18	2.2	18	86	0	53	72	0	22	5	1.04
359527--359572	18	2.6	18	89	0	74	69	0	26	4	1.07
360649--360921	142	1.9	142	86	6	394	32	11	12	43	1.78
360903--360932	11	2.7	11	100	0	60	73	0	0	26	0.84
361712--362016	150	2.0	150	89	2	461	26	16	19	38	1.92
363032--363084	21	2.6	20	82	8	63	35	18	11	33	1.87
365491--365707	80	2.7	80	81	0	256	26	28	11	33	1.91
370918--370943	13	2.0	13	100	0	52	30	15	15	38	1.88
370898--370961	33	2.0	32	90	3	101	26	14	20	39	1.90
371043--371067	13	1.9	13	100	0	50	36	16	16	32	1.90
373752--373781	16	1.9	16	93	6	53	63	16	0	20	1.31
386459--386483	13	1.9	13	100	0	50	36	16	16	32	1.90
390605--390749	61	2.4	61	78	2	157	35	16	24	24	1.95
390755--390868	52	2.2	52	80	0	138	34	16	24	24	1.96
391271--391376	52	2.1	51	96	1	194	33	18	11	36	1.87
393460--393519	21	2.9	21	79	20	72	53	1	25	20	1.55
398794--400648	928	2.0	927	98	0	3593	32	24	15	28	1.95
404694--404812	42	2.8	42	92	0	193	8	46	2	42	1.47
404727--404802	12	6.9	11	75	15	52	9	48	2	39	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
404718--404803	24	3.8	24	72	17	85	10	45	2	41	1.51
404709--404779	18	3.6	18	69	20	52	9	43	2	43	1.52
410444--410493	18	2.8	18	77	17	50	10	42	2	46	1.49
410468--410559	24	4.2	23	75	18	88	8	44	2	44	1.47
410454--410568	42	2.7	42	89	2	178	9	43	1	45	1.47
415259--415333	20	3.8	20	81	0	105	30	12	14	42	1.82
418091--418191	52	2.0	51	86	2	139	33	15	24	25	1.95
418093--418207	52	2.2	52	83	4	135	38	15	24	21	1.92
421632--421688	20	2.8	20	81	2	69	31	14	12	42	1.82
435706--435776	10	7.0	10	85	7	99	85	9	2	1	0.75
435706--435768	1	63.0	1	79	0	54	87	9	3	0	0.65
436968--437015	13	3.7	13	83	8	62	35	10	12	41	1.77
437024--437476	28	15.8	28	79	7	369	26	30	18	24	1.98
437023--437530	56	8.8	56	77	9	371	27	30	17	24	1.97
437026--437467	114	3.9	114	79	4	446	27	30	18	24	1.98
437094--437551	28	15.7	32	77	11	125	27	30	18	23	1.97
437434--437554	63	1.9	63	83	6	156	30	30	17	21	1.96
438505--438543	20	2.0	20	89	0	60	30	15	5	48	1.66
443557--443637	42	1.9	42	85	5	110	12	43	1	43	1.50
446016--446233	108	2.0	108	90	1	348	22	29	12	35	1.91
446918--447463	273	2.0	274	98	0	1058	32	17	25	24	1.96
448936--448970	3	11.7	3	100	0	70	68	0	0	31	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
450301--450530	83	2.7	84	77	3	203	20	23	16	38	1.93
450310--450741	125	3.4	127	72	9	323	18	25	18	37	1.93
450521--450742	85	2.6	83	78	6	232	16	26	18	37	1.92
450301--450757	42	10.9	43	72	7	237	19	26	18	36	1.94
451940--452366	163	2.6	161	81	9	454	31	10	8	49	1.67
453624--454239	164	3.8	162	81	6	665	37	11	12	39	1.79
458201--458245	21	2.1	22	87	4	65	35	0	4	60	1.17
459085--459114	6	5.2	6	96	4	53	0	13	16	70	1.18
463966--464017	28	2.0	25	85	11	68	38	7	7	46	1.61
465901--465976	12	6.9	11	75	15	52	39	2	48	9	1.49
465900--465985	24	3.8	24	72	17	85	41	2	45	10	1.51
465891--466009	42	2.8	42	92	0	193	42	2	46	8	1.47
476811--476881	34	2.1	35	91	2	117	18	8	18	54	1.67
480099--480522	164	2.6	165	87	1	589	33	8	14	43	1.76
480099--480624	164	3.2	165	79	6	559	32	8	14	44	1.76
480850--481310	152	3.0	151	80	7	500	29	15	16	38	1.90
480933--481310	155	2.5	152	82	7	485	28	15	16	39	1.90
481661--481790	34	3.9	34	81	4	147	23	27	13	35	1.93
481778--482648	32	28.8	31	77	9	495	27	31	17	23	1.97
481778--482520	28	24.8	28	75	10	525	27	32	17	23	1.96
481779--482616	210	4.0	210	82	6	914	27	31	17	23	1.96
481791--482305	266	1.9	268	86	1	730	28	31	16	23	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
482236--482533	155	2.0	150	85	4	400	26	33	18	21	1.96
482030--482565	182	2.9	183	79	6	502	27	32	17	22	1.97
482480--482711	96	2.4	97	87	5	328	26	31	18	22	1.97
482480--482711	32	7.2	32	87	6	296	26	31	18	22	1.97
482699--482960	113	2.3	113	82	0	317	24	22	16	36	1.94
482862--483002	61	2.3	61	80	0	156	25	24	12	37	1.90
492973--493571	156	3.8	157	82	6	682	28	16	17	37	1.91
495743--495818	12	6.9	11	75	15	52	39	2	48	9	1.49
495742--495827	24	3.8	24	72	17	85	41	2	45	10	1.51
495763--495840	9	9.0	9	69	8	54	43	2	43	10	1.52
495766--495840	18	3.8	18	71	19	60	44	2	42	10	1.53
495733--495857	42	2.9	42	89	3	178	44	2	44	8	1.48
495808--495857	18	2.8	18	85	11	59	46	4	42	8	1.52
503129--503247	42	2.8	42	92	0	193	8	46	2	42	1.47
503162--503237	12	6.9	11	75	15	52	9	48	2	39	1.49
503153--503238	24	3.8	24	72	17	85	10	45	2	41	1.51
503144--503214	18	3.6	18	69	20	52	9	43	2	43	1.52
510200--510315	51	2.3	51	89	0	178	31	31	9	27	1.88
510088--510479	158	2.5	157	86	1	534	27	28	12	31	1.93
510296--510370	28	2.7	28	91	6	118	24	34	17	24	1.96
510354--510473	51	2.4	51	82	2	152	28	27	13	30	1.94
510088--510479	157	2.5	158	86	1	500	27	28	12	31	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
510445--510634	79	2.4	79	86	1	247	26	25	15	32	1.95
511811--512440	315	2.0	315	97	0	1179	33	11	27	27	1.92
512967--513003	15	2.5	15	90	0	65	81	2	16	0	0.81
513750--513825	12	6.9	11	75	15	52	39	2	48	9	1.49
513749--513834	24	3.8	24	72	17	85	41	2	45	10	1.51
513740--513858	42	2.8	42	92	0	193	42	2	46	8	1.47
516442--516517	12	6.9	11	76	20	70	40	0	46	13	1.43
516432--516563	42	3.1	42	89	2	185	44	0	43	10	1.44
516462--516522	9	7.1	9	70	10	56	44	0	42	13	1.43
516444--516531	12	7.9	12	75	17	59	43	0	43	13	1.44
527365--527483	42	2.8	42	90	0	184	8	45	2	43	1.47
527398--527473	12	6.9	11	75	15	52	9	48	2	39	1.49
527389--527474	24	3.8	24	72	17	85	10	45	2	41	1.51
527376--527453	9	9.0	9	69	8	54	10	43	2	43	1.52
527376--527450	18	3.8	18	71	19	60	10	42	2	44	1.53
529504--529867	182	2.0	181	96	0	674	36	15	28	20	1.92
535574--535692	42	2.8	42	92	0	193	8	46	2	42	1.47
535607--535682	12	6.9	11	75	15	52	9	48	2	39	1.49
535598--535683	24	3.8	24	72	17	85	10	45	2	41	1.51
535589--535659	18	3.6	18	69	20	52	9	43	2	43	1.52
537228--537393	83	2.0	83	91	2	271	14	30	16	37	1.89
538112--538213	38	2.7	38	95	1	188	36	21	12	29	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
547659--547740	28	2.9	29	82	7	98	59	7	19	13	1.57
555803--555878	12	6.9	11	75	15	52	39	2	48	9	1.49
555802--555887	24	3.8	24	72	17	85	41	2	45	10	1.51
555793--555911	42	2.8	42	92	0	193	42	2	46	8	1.47
560228--560808	290	2.0	290	100	0	1162	30	13	27	28	1.94
563131--563249	42	2.8	42	92	0	193	8	46	2	42	1.47
563164--563239	12	6.9	11	75	15	52	9	48	2	39	1.49
563155--563240	24	3.8	24	72	17	85	10	45	2	41	1.51
563146--563216	18	3.6	18	69	20	52	9	43	2	43	1.52
567005--567123	42	2.8	42	90	0	184	8	45	2	43	1.47

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