genome.fa.s200.2.7.7.80.10.50.1000.4.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: Scaffold200
Parameters: 2 7 7 80 10 50 1000
Length:  649609

Tables:   1   2   3   4   5   

This is table  4  of  5  ( 492 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)
464132--464156	13	1.9	13	100	0	50	32	16	16	36	1.90
464113--464175	32	2.0	32	96	0	117	36	15	12	34	1.86
465544--465635	7	12.7	7	72	19	55	77	0	22	0	0.77
465546--465635	31	3.0	29	82	11	101	76	0	23	0	0.78
465551--465632	16	4.9	17	75	11	62	75	0	24	0	0.80
465583--465635	17	3.1	17	78	7	63	79	0	20	0	0.74
465544--465629	46	1.9	47	84	13	119	76	0	23	0	0.78
465574--465635	14	4.5	14	80	8	65	77	0	22	0	0.77
468604--468708	18	5.8	18	81	6	131	41	12	10	35	1.77
468587--468714	37	3.6	36	83	11	165	44	12	10	32	1.76
468587--468714	36	3.6	36	83	8	163	44	12	10	32	1.76
473436--473466	10	3.1	10	90	0	53	22	29	6	41	1.78
473454--473509	21	2.6	22	94	5	105	26	25	10	37	1.88
473476--473560	34	2.6	32	87	8	127	29	23	9	37	1.86
473572--473597	13	2.0	13	100	0	52	30	15	23	30	1.95
473904--474124	93	2.4	92	80	7	225	33	28	9	28	1.88
477110--477172	19	3.6	19	72	24	66	34	11	17	36	1.85
477129--477153	13	1.9	13	100	0	50	36	16	16	32	1.90
477110--477178	32	2.2	32	94	0	120	34	10	17	37	1.83
484228--484291	11	5.7	11	81	3	83	84	15	0	0	0.63
484219--484282	20	3.1	20	82	12	85	82	17	0	0	0.66
484219--484291	34	2.1	35	90	7	114	83	16	0	0	0.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
484219--484289	23	3.2	22	84	9	92	83	16	0	0	0.66
485477--485846	30	12.0	30	84	5	413	23	29	15	31	1.95
485477--485965	61	8.1	61	82	6	469	23	30	15	30	1.95
485477--485846	91	4.0	92	85	4	471	23	29	15	31	1.95
485735--485931	30	6.8	28	87	2	144	25	33	14	25	1.94
485910--486000	33	2.7	33	83	5	112	24	32	13	29	1.93
485976--486046	28	2.4	29	81	11	74	39	29	14	16	1.88
486060--486680	49	12.9	49	78	10	577	24	25	17	32	1.97
486304--486737	102	4.3	101	78	10	455	23	26	17	32	1.97
486060--486737	290	2.3	289	89	3	1013	24	25	17	32	1.97
486550--486628	39	2.0	39	90	0	122	29	26	18	25	1.98
486502--486676	87	2.0	87	84	1	224	26	25	18	30	1.98
487029--487101	20	3.6	20	81	3	101	35	13	19	31	1.91
487047--487122	21	3.7	21	80	3	100	42	11	17	28	1.84
487029--487122	41	2.3	41	98	0	179	39	12	18	29	1.88
487161--487186	13	2.0	13	100	0	52	38	15	15	30	1.88
491240--491276	15	2.4	16	82	17	51	51	18	16	13	1.76
493100--493130	15	2.1	15	93	0	53	48	16	22	12	1.80
495145--495222	20	3.6	21	73	15	70	25	12	16	44	1.83
495209--495247	13	3.0	13	96	0	69	30	17	15	35	1.91
497041--497101	30	2.0	30	100	0	122	26	3	26	44	1.69
497720--497792	20	3.6	20	81	3	101	35	13	19	31	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
497738--497813	21	3.7	21	80	3	100	42	11	17	28	1.84
497720--497813	41	2.3	41	98	0	179	39	12	18	29	1.88
497852--497877	13	2.0	13	100	0	52	38	15	15	30	1.88
498625--499166	49	11.0	49	80	8	557	24	25	17	32	1.97
498625--499166	101	5.5	101	82	6	587	24	25	17	32	1.97
498941--499019	39	2.0	39	97	0	149	26	26	20	26	1.99
498893--499067	88	2.0	87	87	1	251	25	25	20	29	1.99
499851--499904	21	2.8	18	83	13	63	38	12	14	33	1.85
499892--499924	13	2.5	13	100	0	66	33	15	18	33	1.92
499968--499995	13	2.2	13	100	0	56	28	14	17	39	1.89
499948--500014	33	2.0	33	88	5	100	29	16	13	40	1.87
505901--505972	28	2.6	29	86	6	103	26	25	18	30	1.98
505929--506256	80	4.1	81	82	5	371	27	22	13	36	1.92
505929--506256	161	2.0	160	85	4	437	27	22	13	36	1.92
505948--506295	160	2.2	161	83	4	443	27	22	13	36	1.92
505947--506294	80	4.3	81	80	5	357	27	22	13	36	1.92
506339--506591	79	3.2	76	81	7	238	27	21	11	39	1.88
506464--506709	131	1.9	131	80	5	291	28	24	10	36	1.89
508283--508629	36	10.1	36	70	15	178	34	18	10	37	1.85
508397--508487	32	2.7	33	88	6	121	27	19	12	40	1.87
508398--508525	68	1.9	68	80	3	150	32	19	11	36	1.88
509244--509460	50	4.3	51	77	4	197	33	18	21	26	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
511459--511508	24	2.1	24	96	0	91	24	22	12	42	1.87
511974--512000	14	1.9	14	100	0	54	22	22	7	48	1.75
515930--515984	27	2.1	26	83	6	67	27	14	32	25	1.95
518150--518203	20	2.7	20	82	8	65	31	20	11	37	1.88
523733--523759	13	2.1	13	100	0	54	29	14	14	40	1.86
526263--526335	20	3.7	19	87	7	85	28	15	17	38	1.90
532287--536764	944	4.8	942	80	5	5267	31	18	13	36	1.90
536767--542255	475	11.6	475	79	5	5470	31	18	13	35	1.90
543010--543035	13	2.0	13	100	0	52	30	15	15	38	1.88
542990--543053	32	2.0	33	87	3	94	28	15	14	42	1.86
545581--545606	13	2.0	13	100	0	52	38	15	15	30	1.88
547685--547715	15	2.1	15	93	0	53	12	22	16	48	1.80
549519--549563	21	2.1	21	84	8	56	22	20	4	53	1.63
552180--554772	473	5.4	475	81	4	2830	31	17	13	37	1.88
552181--554767	951	2.7	944	81	4	2971	31	17	13	37	1.88
555708--556263	291	1.9	291	82	5	694	31	17	14	36	1.90
557812--557863	19	2.7	20	84	6	70	28	13	17	40	1.87
557812--557869	19	3.0	18	80	12	62	25	12	20	41	1.87
558664--558706	22	2.0	20	91	8	68	60	18	9	11	1.57
564245--564289	21	2.1	21	84	8	56	22	20	4	53	1.63
565448--565506	32	1.9	30	83	13	75	59	10	10	20	1.58
565766--565817	19	2.7	20	84	6	70	28	13	17	40	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
565766--565823	19	3.0	18	80	12	62	25	12	20	41	1.87
566175--570282	475	8.7	475	80	5	4023	31	18	13	36	1.90
571075--573205	475	4.5	473	81	4	2293	31	17	15	36	1.90
573236--574780	454	3.3	462	80	6	1546	37	14	17	31	1.90
576306--576349	20	2.3	19	84	11	54	47	18	2	31	1.61
576314--576362	20	2.4	20	89	3	71	42	20	4	32	1.71
577492--577516	13	1.9	13	100	0	50	32	16	16	36	1.90
580543--580581	15	2.6	15	79	0	51	82	2	12	2	0.89
581306--581416	42	2.6	42	89	0	177	42	2	45	9	1.51
581321--581387	21	3.2	21	66	16	57	43	2	41	11	1.57
587837--587888	19	2.7	20	90	3	79	30	13	15	40	1.86
588264--590741	476	5.2	472	82	4	2615	36	14	17	31	1.90
590397--591058	316	2.1	317	83	5	831	34	15	17	32	1.91
592960--593095	67	2.0	67	97	0	254	27	27	3	41	1.73
594896--594934	13	3.0	13	96	0	69	35	15	15	33	1.89
597013--597043	15	2.1	15	93	0	53	12	22	16	48	1.80
598847--598891	21	2.1	21	84	8	56	22	20	4	53	1.63
600857--601293	216	2.0	216	98	0	838	20	14	19	45	1.86
601327--601352	13	2.0	13	100	0	52	30	15	15	38	1.88
603160--604405	444	2.8	444	89	2	1806	35	14	17	31	1.91
604530--605157	316	2.0	316	81	4	748	34	14	17	33	1.90
604812--606493	475	3.5	471	79	4	1709	36	14	17	31	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
606660--607330	158	4.2	159	67	11	406	35	15	17	31	1.91
606490--611173	475	9.9	474	85	2	5181	36	14	17	31	1.90
611236--614093	474	6.1	475	79	6	2665	36	14	16	32	1.89
613665--614531	436	2.0	434	82	3	1044	37	13	16	32	1.88
614098--616393	474	4.9	474	79	6	2300	36	14	17	32	1.90
616398--621014	475	9.7	474	78	7	3938	35	14	17	32	1.90
620159--620245	45	1.9	45	95	0	156	22	18	20	37	1.94
624231--624258	13	2.2	13	100	0	56	39	17	14	28	1.89
624309--624362	13	3.7	13	74	25	54	35	18	12	33	1.89
624319--624381	19	3.6	19	76	24	84	34	19	12	33	1.89

Tables:   1   2   3   4   5