genome.fa.s97.2.7.7.80.10.50.1000.3.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: Scaffold97
Parameters: 2 7 7 80 10 50 1000
Length:  856079

Tables:   1   2   3   4   5   

This is table  3  of  5  ( 572 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)
373542--373580	15	2.5	15	95	4	69	92	7	0	0	0.39
373542--373590	14	3.5	14	81	10	64	89	8	2	0	0.55
374554--375281	54	13.4	55	86	7	917	28	29	20	21	1.98
374554--375281	107	6.7	110	86	8	946	28	29	20	21	1.98
380021--380056	17	2.1	17	94	0	63	41	13	11	33	1.80
380086--380124	13	3.0	13	92	0	69	30	12	15	41	1.85
380232--380281	21	2.4	22	83	9	61	32	20	0	48	1.50
381550--381576	13	2.1	13	100	0	54	29	14	14	40	1.86
381561--381613	19	2.7	20	91	2	81	30	16	15	37	1.90
381646--381708	33	1.9	32	81	12	74	34	11	17	36	1.85
383501--383525	13	1.9	13	100	0	50	32	16	16	36	1.90
383509--383566	19	2.9	19	87	5	80	32	15	17	34	1.91
383611--383641	13	2.4	13	94	0	53	35	16	12	35	1.87
383595--383661	33	2.0	32	88	11	100	35	13	17	32	1.89
385858--385897	21	2.0	21	90	5	64	57	5	12	25	1.55
386015--386071	28	2.0	28	93	0	96	42	8	10	38	1.71
388659--388687	13	2.2	13	100	0	58	27	13	17	41	1.87
390949--390984	12	3.1	12	92	4	56	36	8	11	44	1.70
391183--391239	19	2.9	19	89	5	78	31	15	17	35	1.92
393153--393185	2	16.5	2	100	0	66	0	51	0	48	1.00
394643--394685	8	5.6	8	89	10	72	37	11	0	51	1.39
394637--394685	14	3.4	14	89	10	80	36	12	0	51	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
396685--396733	20	2.6	18	81	9	53	28	2	2	67	1.13
396696--396733	20	1.9	20	88	0	58	31	0	2	65	1.06
396753--396794	18	2.2	20	87	8	61	50	0	0	50	1.00
397199--397223	13	1.9	13	100	0	50	32	16	16	36	1.90
397772--397835	32	1.9	34	90	9	105	29	10	23	35	1.89
399398--399445	21	2.3	21	88	0	69	58	0	22	18	1.39
404063--404111	17	3.0	17	75	19	50	53	0	0	46	1.00
404059--404135	31	2.6	31	76	15	83	55	1	0	42	1.07
406543--406572	4	7.8	4	92	7	53	0	23	0	76	0.78
408136--408176	20	2.0	20	85	4	55	58	2	2	36	1.24
408748--408793	22	2.1	22	84	8	58	41	10	4	43	1.59
417319--417551	52	4.5	52	93	0	385	28	17	18	35	1.93
417622--417689	32	2.1	32	97	0	127	36	17	11	33	1.86
417646--417670	13	1.9	13	100	0	50	32	16	16	36	1.90
417627--417709	19	4.6	19	80	18	106	36	18	12	33	1.87
418412--418735	165	2.0	165	88	3	492	28	9	8	52	1.64
418421--418791	165	2.2	164	84	6	482	27	11	10	50	1.71
428288--428338	20	2.6	20	87	3	77	35	17	9	37	1.83
428370--428420	20	2.6	19	87	12	68	35	13	17	33	1.89
430829--430887	28	2.0	30	87	9	86	30	22	11	35	1.90
430638--431023	158	2.4	158	88	3	569	27	24	12	35	1.92
430638--431023	79	4.9	79	83	5	483	27	24	12	35	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
430987--431052	28	2.3	29	92	5	109	21	22	19	36	1.95
430925--431130	107	1.9	107	86	2	288	26	21	14	37	1.92
430829--431178	186	1.9	186	83	4	465	27	22	13	36	1.92
431029--431178	79	1.9	78	82	8	187	28	21	13	37	1.91
431061--431294	130	1.8	130	80	0	288	28	20	10	40	1.86
437093--437194	30	3.4	30	80	8	125	24	31	13	30	1.94
437225--437528	62	4.9	62	84	2	396	24	24	18	32	1.97
437200--437528	124	2.7	123	83	4	439	25	23	18	32	1.97
437536--437845	42	7.5	42	72	17	197	19	26	12	41	1.86
438480--438632	20	7.6	20	72	12	89	43	15	14	26	1.85
438578--438633	20	2.8	20	97	0	103	46	10	14	28	1.78
440253--440639	79	5.0	78	78	8	405	25	24	14	35	1.94
440253--440633	153	2.5	154	83	6	450	25	24	14	35	1.94
440595--440664	28	2.5	28	80	0	77	24	21	24	30	1.99
440626--440794	78	2.2	76	78	12	175	28	24	10	35	1.89
440517--440744	106	2.1	107	83	4	282	25	23	17	34	1.96
440733--440849	50	2.3	51	86	2	166	30	26	5	36	1.80
441861--442013	32	4.8	32	86	4	200	19	18	30	30	1.96
442096--442441	130	2.7	129	87	2	487	28	13	31	26	1.94
442328--442403	33	2.3	32	82	8	89	23	14	31	30	1.94
443530--443858	79	4.2	78	81	6	276	31	13	26	28	1.94
443811--443886	28	2.7	28	85	0	98	23	18	32	25	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
443870--443984	50	2.3	51	89	3	178	31	12	26	29	1.92
446965--447783	61	13.9	60	81	8	882	25	19	28	26	1.98
446986--447808	115	7.0	116	85	6	917	25	19	28	26	1.98
451937--452065	52	2.5	52	92	0	222	27	18	19	34	1.95
451937--452085	52	2.9	51	81	9	185	29	18	19	32	1.95
452074--452098	13	1.9	13	100	0	50	36	16	16	32	1.90
452170--452194	13	1.9	13	100	0	50	32	16	16	36	1.90
452143--452213	32	2.2	32	92	0	115	36	18	12	32	1.88
452797--452936	65	2.2	65	94	0	244	35	12	29	22	1.92
453004--453195	102	1.9	102	90	0	303	33	17	25	23	1.96
452951--453195	53	4.7	51	81	6	260	33	17	24	23	1.96
453215--453684	28	16.4	28	85	7	597	17	17	32	32	1.93
453215--453684	86	5.5	85	87	6	610	17	17	32	32	1.93
453215--453689	58	8.3	58	91	3	605	17	17	32	32	1.94
469130--469225	41	2.3	42	80	5	106	33	17	14	34	1.91
469907--469936	14	2.2	14	94	5	53	33	23	13	30	1.93
471670--472571	311	2.9	308	93	3	1541	51	13	2	32	1.55
471670--472571	157	5.9	154	93	3	1523	51	13	2	32	1.55
472592--472627	18	2.0	18	100	0	72	50	5	5	38	1.49
479390--479424	14	2.4	15	85	9	54	57	20	5	17	1.60
485132--485426	79	3.7	79	85	1	360	32	15	26	25	1.96
485380--485454	28	2.7	28	91	0	114	24	18	33	24	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
485438--485534	51	1.9	51	91	4	160	29	8	26	35	1.86
487682--487783	52	2.0	52	84	3	134	35	16	24	23	1.95
495243--495305	20	3.2	20	100	0	126	23	36	14	25	1.93
499128--499152	13	1.9	13	100	0	50	32	16	16	36	1.90
499211--499249	21	1.9	20	94	5	69	35	12	15	35	1.86
510543--510597	20	2.7	21	91	2	85	41	12	16	29	1.85
510543--510610	20	3.3	20	85	8	84	39	13	16	30	1.86
513055--513268	80	2.7	80	83	4	245	30	26	9	33	1.88
513120--513507	132	2.9	132	81	3	388	30	23	8	36	1.85
513337--513447	53	2.1	53	88	3	163	29	26	9	35	1.87
513386--513687	79	3.8	78	83	6	349	31	24	9	34	1.87
520486--520943	170	2.7	170	78	6	453	38	22	12	26	1.89
522140--522201	28	2.2	28	82	8	72	53	20	9	16	1.71
522515--523172	138	4.8	136	76	7	594	40	15	13	30	1.86
522517--523247	34	21.2	35	69	8	308	39	15	13	30	1.86
523071--523240	33	5.0	32	80	5	153	38	17	14	28	1.90
523057--523248	67	2.8	67	78	12	205	40	16	14	29	1.88
524846--524880	18	1.9	18	94	0	61	8	11	0	80	0.92
525236--525276	16	2.6	16	84	0	55	14	9	0	75	1.04
531344--531374	13	2.4	13	94	0	53	35	12	16	35	1.87
531323--531390	33	2.1	33	88	5	102	36	17	13	32	1.89
540088--540156	33	2.1	33	86	5	95	37	18	11	31	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
540205--540231	13	2.1	13	100	0	54	40	14	14	29	1.86
545575--545613	19	2.2	19	86	9	55	53	7	0	38	1.30
545579--545625	17	2.6	17	81	15	51	51	8	0	40	1.33
547890--547933	11	3.9	11	87	3	61	4	18	6	70	1.27
547891--547933	22	1.9	22	90	4	68	4	16	6	72	1.24
548523--548562	21	1.9	21	94	0	71	37	20	12	30	1.89
554582--554765	79	2.3	80	82	2	201	39	10	22	27	1.87
554543--554830	80	3.6	80	80	6	275	38	10	22	28	1.88
557223--557280	20	2.8	21	77	15	66	32	15	20	31	1.94
557360--557401	20	2.1	20	90	0	66	42	14	0	42	1.45

Tables:   1   2   3   4   5