genome.fa.s501.2.7.7.80.10.50.1000.4.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: Scaffold501
Parameters: 2 7 7 80 10 50 1000
Length:  850550

Tables:   1   2   3   4   5   6   

This is table  4  of  6  ( 622 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)
500135--500160	13	2.0	13	100	0	52	38	15	15	30	1.88
506403--506453	20	2.6	20	90	3	77	35	15	17	31	1.92
507137--507187	20	2.5	21	87	9	70	35	15	5	43	1.71
512092--512118	2	13.5	2	100	0	54	0	48	0	51	1.00
513798--513835	18	2.2	18	85	4	51	52	10	0	36	1.36
514788--514827	18	2.3	18	91	4	64	37	5	2	55	1.35
520507--520570	20	3.6	19	72	25	68	28	15	14	42	1.86
520509--520570	32	1.9	33	93	3	108	29	16	12	41	1.85
520619--520656	13	2.9	13	88	0	58	31	13	18	36	1.89
523643--523668	13	2.0	13	100	0	52	30	15	15	38	1.88
532193--532287	35	2.8	35	93	3	158	47	0	18	33	1.49
533118--533151	13	2.6	13	85	0	50	32	14	17	35	1.91
537119--537147	7	4.1	7	100	0	58	27	0	0	72	0.85
537704--537758	25	2.1	26	83	12	69	43	1	0	54	1.10
537776--537801	7	3.7	7	100	0	52	38	0	0	61	0.96
538481--538528	18	2.8	18	84	9	64	54	0	4	41	1.20
538481--538527	16	2.8	17	87	6	60	53	0	4	42	1.20
538679--539020	171	2.0	170	95	1	614	36	11	9	42	1.74
542685--542738	19	2.7	21	82	5	76	40	12	14	31	1.84
549807--549840	12	2.9	11	91	8	50	88	8	2	0	0.62
549807--549853	14	3.3	14	82	14	60	85	12	2	0	0.70
549807--549842	16	2.3	16	90	4	56	88	8	2	0	0.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
551051--551553	33	15.8	33	85	6	594	22	28	14	34	1.93
551051--551547	95	5.2	96	86	5	588	22	28	14	34	1.93
551039--551615	128	4.6	128	88	3	764	21	28	14	35	1.92
551552--551619	34	2.0	33	91	2	109	17	26	14	41	1.88
551050--551615	33	17.9	32	82	9	535	21	28	14	35	1.93
551637--551736	36	2.8	36	95	0	182	14	43	8	35	1.74
551802--552803	49	21.2	49	72	14	691	25	26	17	30	1.97
551759--552731	87	10.5	91	81	11	610	26	26	17	29	1.98
551759--552168	187	2.3	185	88	5	606	25	25	18	30	1.98
552179--552431	39	6.0	39	72	16	182	28	24	19	27	1.99
551759--552258	187	2.7	175	83	11	480	26	25	18	30	1.98
551954--552305	140	2.6	139	83	4	418	25	25	19	29	1.98
552144--552785	175	3.4	176	78	10	575	26	27	17	28	1.98
552174--552480	88	3.5	87	91	0	479	27	25	19	28	1.98
551848--552629	315	2.4	316	88	5	1102	26	26	18	29	1.98
552402--552784	102	3.8	100	86	5	472	25	27	16	30	1.97
553512--553562	21	2.5	21	84	6	70	39	11	15	33	1.84
556822--556863	16	2.4	19	81	18	56	61	4	14	19	1.49
558142--558185	19	2.3	19	84	4	52	29	13	20	36	1.91
558134--558185	20	2.7	20	81	3	61	30	13	19	36	1.90
558208--558260	20	2.6	21	84	3	72	28	16	15	39	1.89
558248--558272	13	1.9	13	100	0	50	36	16	16	32	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
560709--560749	13	3.2	13	96	0	73	34	17	17	31	1.93
566858--566906	20	2.5	20	90	3	73	26	10	22	40	1.86
566784--567002	93	2.3	93	96	2	404	31	15	18	33	1.93
566951--567002	20	2.7	20	90	3	79	28	11	21	38	1.88
567036--567088	20	2.6	21	84	3	72	28	16	15	39	1.89
567076--567100	13	1.9	13	100	0	50	36	16	16	32	1.90
567090--567141	20	2.6	21	84	9	72	32	13	15	38	1.86
567599--567637	15	2.6	15	88	8	53	43	0	5	51	1.24
576360--576462	17	6.0	17	74	11	77	65	1	3	29	1.21
576354--576467	5	22.8	5	69	16	58	64	1	3	30	1.21
576367--576473	11	9.5	11	70	20	69	65	1	2	29	1.17
576539--576698	77	2.1	77	80	6	173	66	12	5	15	1.42
576557--576699	77	1.9	77	85	8	202	65	13	5	15	1.43
576770--576914	59	2.4	60	82	3	166	19	12	8	59	1.59
576997--577129	35	3.8	34	74	11	106	21	6	9	62	1.49
577673--577743	29	2.4	28	80	13	72	50	5	1	42	1.34
578975--579030	20	2.7	22	86	10	75	44	0	0	55	0.99
578986--579025	12	3.6	11	83	10	55	50	0	0	50	1.00
579079--579118	19	2.0	20	90	4	64	55	0	0	45	0.99
579134--579173	20	2.0	20	85	0	53	25	45	22	7	1.78
581376--581581	63	3.2	64	84	0	245	33	15	16	33	1.90
581547--581589	20	2.2	20	92	8	72	30	9	20	39	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
587809--587839	16	1.9	16	100	0	62	45	6	0	48	1.28
589255--589289	16	2.1	17	89	5	54	28	0	0	71	0.86
589490--589573	34	2.3	35	82	14	89	32	8	2	57	1.41
590114--590222	38	2.9	38	74	15	95	54	1	0	44	1.11
593317--593356	21	1.9	21	84	0	53	37	2	2	57	1.26
593335--593365	14	2.1	15	94	5	55	41	0	0	58	0.98
594304--594335	16	2.0	16	93	0	55	46	18	3	31	1.65
595314--595367	21	2.6	21	79	5	65	44	16	12	25	1.84
597877--598147	77	3.5	77	81	8	278	28	21	11	39	1.87
598147--599408	315	4.0	315	97	0	2366	29	20	9	40	1.84
598147--599408	631	2.0	630	97	0	2366	29	20	9	40	1.84
612632--612684	20	2.7	20	90	0	79	33	11	15	39	1.83
614189--614236	24	2.0	24	95	0	87	27	25	6	41	1.79
619606--619634	13	2.1	14	93	6	51	20	3	0	75	0.94
620131--620288	71	2.2	72	84	6	212	27	15	18	37	1.91
622637--622684	21	2.4	19	79	6	51	35	6	16	41	1.74
623349--623400	12	3.9	13	80	11	61	84	0	15	0	0.62
623349--623403	21	2.8	20	83	8	69	85	0	14	0	0.60
623350--623407	5	11.6	5	80	10	57	84	0	15	0	0.62
624047--624311	58	4.6	58	74	6	225	27	13	11	47	1.77
624047--624300	116	2.2	116	80	5	282	27	12	11	48	1.76
639071--639105	1	35.0	1	88	0	52	94	5	0	0	0.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
641070--641121	26	2.0	26	92	0	86	19	7	17	55	1.65
645754--645783	16	1.9	15	93	6	51	60	10	0	30	1.30
646413--646456	19	2.4	19	88	3	63	36	2	4	56	1.32
646786--646825	20	2.0	20	100	0	80	45	20	0	35	1.51
647572--647607	19	1.9	19	88	5	56	41	0	11	47	1.39
648404--648455	23	2.2	24	80	16	65	55	1	0	42	1.10
648408--648455	21	2.3	21	82	7	62	54	2	0	43	1.12
651184--651208	13	1.9	13	100	0	50	36	16	16	32	1.90
651164--651230	33	2.0	33	88	0	98	32	11	14	40	1.83
651271--651295	13	1.9	13	100	0	50	32	16	16	36	1.90
651304--651432	52	2.5	52	94	0	222	34	16	17	31	1.92
657136--657210	16	4.7	16	78	6	80	42	26	14	16	1.86
659553--659604	21	2.4	21	84	9	70	59	0	1	38	1.08
663873--663897	1	25.0	1	100	0	50	0	0	100	0	0.00
670941--670980	18	2.3	17	86	4	53	65	5	2	27	1.27
671774--671809	3	12.0	3	93	0	63	2	0	63	33	1.08
672434--672496	13	5.2	12	77	7	56	50	1	4	42	1.32
677762--677805	2	22.0	2	100	0	88	50	0	0	50	1.00
679610--679645	18	2.0	18	94	0	63	44	19	5	30	1.73
682588--682629	2	21.0	2	90	0	66	47	2	2	47	1.28
684521--684690	92	1.8	92	82	7	220	45	7	11	35	1.68
686830--686859	11	2.6	12	94	5	53	16	3	0	80	0.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
688178--688307	51	2.6	50	84	4	165	30	12	27	29	1.93
688111--688597	130	3.8	130	83	2	613	32	12	26	28	1.93
688321--688437	51	2.3	51	89	2	173	33	13	23	29	1.93
688371--688516	79	1.8	79	86	0	211	31	14	26	27	1.95
688116--688617	259	1.9	260	87	1	729	32	12	25	29	1.92
690973--691102	49	2.6	50	91	3	201	38	15	19	26	1.91
691953--692057	31	3.4	30	77	10	97	60	2	9	26	1.41
692008--692061	18	3.2	19	73	24	57	59	0	14	25	1.36
691938--692103	62	2.7	62	76	8	160	59	5	9	25	1.49
692179--692212	14	2.4	14	95	0	59	50	8	8	32	1.64

Tables:   1   2   3   4   5   6