genome.fa.s130.2.7.7.80.10.50.1000.3.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: Scaffold130
Parameters: 2 7 7 80 10 50 1000
Length:  730134

Tables:   1   2   3   4   5   

This is table  3  of  5  ( 494 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)
371166--371228	32	2.0	32	96	0	117	36	15	12	34	1.86
371286--371342	21	2.7	21	94	0	96	36	17	10	35	1.84
374517--374548	11	2.9	11	100	0	64	84	15	0	0	0.63
375649--376079	61	7.5	56	85	7	478	26	25	19	28	1.99
375650--376087	233	1.9	232	87	2	655	26	25	19	28	1.98
376081--376194	45	2.6	43	82	9	142	21	27	14	36	1.92
376175--376257	35	2.5	34	79	14	93	25	26	19	28	1.98
376171--376257	31	2.7	30	78	10	84	24	25	19	31	1.98
376230--376328	41	2.4	41	86	6	130	17	27	12	43	1.84
376891--376920	13	2.3	13	100	0	60	30	16	13	40	1.87
376936--377008	20	3.7	19	82	10	85	28	15	12	43	1.82
379308--379530	78	2.8	78	81	6	227	30	25	12	31	1.93
379470--379582	51	2.2	51	88	0	172	31	27	8	31	1.87
379565--379654	28	3.1	29	84	11	96	22	28	17	31	1.97
379565--379636	28	2.6	28	91	4	110	23	27	20	27	1.99
379441--379749	158	2.0	158	81	5	365	28	26	12	32	1.93
381887--381928	21	2.0	21	90	0	66	40	7	21	30	1.80
382488--382539	18	2.7	19	77	14	54	26	15	15	42	1.87
382584--382614	13	2.4	13	94	0	53	35	12	12	38	1.82
382568--382636	33	2.1	33	86	5	95	33	11	17	37	1.86
384551--384589	17	2.3	17	86	8	53	58	0	0	41	0.98
396646--396682	13	2.8	13	87	0	56	37	13	16	32	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
402897--402947	19	2.6	20	81	3	59	39	7	17	35	1.79
403572--403616	8	5.1	8	84	15	54	4	11	2	82	0.91
403572--403616	18	2.5	17	89	7	63	4	11	2	82	0.91
404016--404338	165	2.0	166	86	3	454	49	9	10	30	1.68
410014--410078	20	3.6	20	73	26	81	27	21	15	35	1.94
410034--410104	13	4.9	13	75	21	61	29	16	16	36	1.92
410014--410092	33	2.4	33	100	0	158	27	20	16	35	1.94
410546--410590	20	2.1	22	92	8	76	20	48	26	4	1.68
412566--412590	13	1.9	13	100	0	50	32	16	16	36	1.90
412672--412696	13	1.9	13	100	0	50	36	16	16	32	1.90
414176--414216	4	10.0	4	84	5	55	68	4	0	26	1.10
415112--415244	41	3.2	41	72	12	126	57	3	13	25	1.50
415148--415273	41	3.0	43	69	13	116	55	3	13	26	1.56
415112--415273	84	1.9	84	89	0	252	55	3	14	26	1.55
417019--417569	155	3.5	155	76	5	486	38	18	16	26	1.92
421013--421068	20	2.8	20	94	0	94	35	12	14	37	1.84
421977--422224	52	4.6	52	77	10	228	35	15	25	23	1.94
421912--422180	113	2.4	112	81	3	290	37	15	23	24	1.93
422008--422125	61	2.0	60	87	1	173	37	15	26	21	1.93
422446--422504	27	2.2	27	84	6	75	30	20	22	27	1.98
422536--422622	13	6.5	14	71	7	65	39	17	9	34	1.81
422948--423033	28	3.0	28	86	1	109	25	13	25	34	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
426283--426334	19	2.7	20	87	6	79	28	13	15	42	1.85
428380--428422	20	2.1	20	82	4	50	9	27	44	18	1.80
430935--430965	15	2.1	15	93	0	53	12	22	16	48	1.80
435022--435047	13	2.0	13	100	0	52	30	15	15	38	1.88
435002--435065	32	2.0	33	90	3	103	28	14	15	42	1.86
438229--438288	20	3.0	20	82	2	75	33	15	11	40	1.83
451753--451811	9	6.6	9	84	7	75	88	8	3	0	0.63
451750--451805	11	4.8	11	81	12	67	87	10	1	0	0.62
451751--451811	1	61.0	1	80	0	59	88	8	3	0	0.61
451762--451811	26	1.9	26	91	0	82	88	10	2	0	0.61
452336--452360	13	1.9	13	100	0	50	32	16	20	32	1.94
452315--452381	34	2.0	34	100	0	134	35	11	19	32	1.88
458508--458535	13	2.2	13	100	0	56	28	14	14	42	1.84
460377--460428	21	2.4	22	90	3	79	32	1	36	28	1.69
460993--461049	19	2.9	19	89	2	87	31	17	17	33	1.93
461099--461123	13	1.9	13	100	0	50	32	16	20	32	1.94
463015--463573	28	19.5	28	86	4	713	28	30	17	22	1.97
463018--463573	57	9.7	57	86	5	687	28	30	17	22	1.97
463015--463648	143	4.4	142	84	5	738	28	29	17	23	1.97
472993--473056	33	2.0	33	87	3	94	39	17	9	34	1.82
483516--483651	68	2.0	68	100	0	272	20	11	17	50	1.77
488528--488562	2	17.5	2	100	0	70	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
494832--494908	21	3.7	21	85	3	102	36	12	15	35	1.86
494944--494998	19	2.9	19	97	0	101	34	10	14	40	1.81
495038--495063	13	2.0	13	100	0	52	30	15	15	38	1.88
495018--495084	33	2.0	33	88	0	98	25	14	16	43	1.86
495599--495624	10	2.6	10	100	0	52	92	7	0	0	0.39
495592--495625	17	2.1	16	88	5	50	91	5	2	0	0.51
495594--495627	11	3.1	11	87	12	52	88	8	2	0	0.62
497597--497766	52	3.3	52	80	4	175	31	25	11	31	1.91
497423--497766	51	6.6	50	68	12	176	30	26	11	31	1.92
497457--497840	211	1.8	210	86	5	560	30	26	11	31	1.91
506500--506561	4	14.8	4	80	9	61	0	33	0	66	0.92
506486--506562	13	5.8	13	83	7	77	1	33	0	64	1.01
506474--506545	21	3.6	21	76	21	82	2	31	0	65	1.07
506494--506560	25	2.6	25	85	2	98	0	35	0	64	0.94
506462--506561	21	4.9	21	76	16	77	2	34	0	64	1.05
506494--506558	9	7.6	9	73	16	57	0	35	0	64	0.94
509370--509414	23	2.0	23	90	0	72	28	20	26	24	1.99
509665--509698	2	17.0	2	100	0	68	50	0	0	50	1.00
513170--513844	88	7.7	88	80	3	696	30	14	14	40	1.86
513174--513844	176	3.8	176	85	2	819	30	15	14	40	1.86
513174--513844	264	2.5	263	83	2	792	30	15	14	40	1.86
517388--517433	8	5.8	8	85	7	58	13	2	4	80	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
518799--521252	635	3.9	628	77	7	1956	36	14	12	36	1.83
521912--522013	53	1.9	53	88	4	152	24	15	24	35	1.94
522781--522827	16	3.1	16	80	14	55	51	8	0	40	1.33
525360--525402	21	2.0	21	86	9	59	34	0	0	65	0.93
525504--525546	8	5.4	8	78	10	52	39	0	2	58	1.11
525728--525772	6	7.7	6	85	14	67	66	0	0	33	0.92
525719--525776	9	5.7	10	83	15	50	62	0	0	37	0.96
525798--525838	11	3.8	11	84	12	50	29	0	0	70	0.87
525795--525853	23	2.5	24	78	5	68	37	0	0	62	0.95
526248--526339	46	2.0	46	95	0	166	31	9	17	41	1.82
526657--526693	17	2.2	17	90	0	56	64	2	8	24	1.34
527702--527740	15	2.5	15	84	16	53	51	2	0	46	1.14
527709--527768	23	2.5	23	86	10	77	50	0	0	50	1.00
527709--527769	24	2.5	24	82	12	72	49	0	0	50	1.00
527884--527925	14	2.9	14	80	16	50	59	2	0	38	1.10
528235--528303	14	4.8	15	74	22	60	62	0	0	37	0.96
528286--528350	26	2.5	27	78	9	73	58	0	0	41	0.98
529328--529392	29	2.2	30	75	2	69	33	1	4	60	1.27
529908--529934	2	13.5	2	100	0	54	51	0	48	0	1.00
530797--530863	25	2.7	26	82	11	79	53	1	4	40	1.30
530797--530859	24	2.6	25	82	9	78	55	1	4	38	1.31
530834--530896	31	2.0	31	87	6	90	53	0	0	46	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
533063--533096	7	4.9	7	96	0	59	23	32	29	14	1.94
538375--538401	7	3.9	7	100	0	54	25	29	29	14	1.95
544765--544803	20	2.1	19	90	9	62	33	5	20	41	1.74
546624--546710	13	7.5	13	71	25	79	34	17	13	34	1.89
546660--546725	20	3.7	20	73	26	83	33	18	15	33	1.92
546624--546726	33	3.1	33	94	4	172	34	18	13	33	1.90
546756--546810	19	2.8	19	91	2	83	34	16	18	30	1.93
549323--549364	13	3.2	13	82	0	57	42	11	11	33	1.78
555533--555586	13	4.5	13	73	21	55	37	16	11	35	1.84
555533--555603	33	2.1	34	87	7	101	36	18	11	33	1.86

Tables:   1   2   3   4   5