genome.fa.s94.2.7.7.80.10.50.1000.4.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: Scaffold94
Parameters: 2 7 7 80 10 50 1000
Length:  2274668

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

This is table  4  of  13  ( 1461 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)
511633--511684	18	2.9	18	88	0	77	36	1	36	25	1.67
525279--525317	21	1.9	21	89	5	62	46	10	20	23	1.81
530375--530572	79	2.5	79	81	8	240	28	22	13	36	1.91
542914--542994	6	13.7	6	77	19	64	83	8	6	1	0.84
542919--542994	31	2.5	30	80	14	93	82	9	6	1	0.88
543940--544764	55	14.5	55	83	6	943	27	26	19	25	1.99
543943--544764	171	4.8	168	83	6	982	27	27	19	25	1.99
543943--544757	343	2.4	335	86	5	1105	27	26	20	25	1.99
544798--544965	42	3.9	42	76	11	160	19	24	12	44	1.85
545613--545687	20	3.8	20	90	0	114	28	12	12	48	1.76
548155--548390	130	1.8	130	80	9	284	29	25	11	33	1.91
548248--548428	79	2.3	80	85	5	235	28	24	12	34	1.92
548248--548466	79	2.8	79	82	6	232	30	23	12	33	1.92
552607--552702	32	2.9	34	68	12	81	13	27	16	42	1.86
552379--553357	66	14.8	65	70	11	294	19	23	13	43	1.86
558390--558435	24	1.9	24	95	0	83	28	8	26	36	1.86
560468--560582	41	2.7	41	79	4	122	37	20	11	31	1.88
560550--560604	20	2.8	20	80	5	67	38	12	10	38	1.79
560645--560684	21	1.9	21	84	0	53	45	15	12	27	1.82
562596--562621	6	4.3	6	100	0	52	30	0	0	69	0.89
564258--564827	79	7.2	79	82	4	603	35	13	24	27	1.92
564249--564827	237	2.4	236	85	1	773	35	12	24	27	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
568502--568929	156	2.8	155	81	3	400	27	18	16	37	1.92
568502--568947	154	2.9	155	81	3	488	27	18	17	37	1.93
579317--579374	21	2.8	20	75	14	57	63	1	5	29	1.25
579605--579650	23	2.0	23	83	8	58	47	4	13	34	1.62
579892--579939	24	2.0	25	88	12	73	56	2	6	35	1.36
580034--580062	15	1.9	15	100	0	58	72	0	0	27	0.85
580280--580323	3	14.7	3	100	0	88	65	0	0	34	0.93
583821--583889	20	3.3	20	72	13	59	46	0	1	52	1.09
585688--585729	21	2.0	21	81	9	50	40	11	14	33	1.82
586453--586490	12	3.2	12	85	3	51	86	0	13	0	0.56
586453--586502	16	3.1	16	82	11	66	84	0	16	0	0.63
589336--589366	12	2.6	12	94	0	53	0	12	0	87	0.55
596154--596224	35	2.0	34	82	15	83	46	0	0	53	1.00
597492--597520	14	2.1	14	100	0	58	34	13	20	31	1.92
598175--598212	19	1.9	19	89	5	58	71	10	0	18	1.14
598227--598282	10	5.4	10	74	16	51	57	1	0	41	1.09
598228--598280	18	3.3	16	72	27	58	58	1	0	39	1.09
598313--598381	34	2.0	34	97	0	129	49	10	8	31	1.67
598534--598567	7	4.7	7	96	3	59	11	2	0	85	0.71
599757--599817	28	2.2	28	84	0	77	44	1	0	54	1.10
599757--599817	14	4.4	14	77	8	52	44	1	0	54	1.10
601076--601139	33	2.0	32	81	9	76	35	1	3	59	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
601341--601386	20	2.3	20	85	3	58	41	0	0	58	0.98
601455--601489	15	2.3	15	90	5	52	57	0	0	42	0.99
602251--602310	24	2.4	25	78	13	70	40	1	0	58	1.08
602252--602310	25	2.4	25	83	11	77	38	1	0	59	1.08
602277--602341	21	3.0	21	76	10	69	41	0	0	58	0.98
602251--602316	25	2.7	24	77	11	71	40	1	0	57	1.08
602556--602672	29	4.1	28	70	16	64	55	0	0	42	1.11
602686--602724	19	2.2	18	90	9	62	48	0	5	46	1.24
602741--602776	18	2.0	18	88	0	54	33	0	0	66	0.92
602849--602885	2	18.5	2	100	0	74	0	51	0	48	1.00
603108--603137	2	15.0	2	100	0	60	50	0	0	50	1.00
603542--603574	13	2.4	14	90	10	50	42	0	0	57	0.98
603568--603634	28	2.5	26	79	11	71	53	2	1	41	1.25
604389--604487	11	9.8	11	72	22	58	32	1	0	66	0.98
604360--604431	28	2.6	27	85	8	92	43	1	0	55	1.08
604416--604487	9	8.1	9	75	18	55	29	0	0	70	0.87
604413--604506	40	2.4	39	75	10	102	31	0	0	68	0.90
604461--604515	17	3.3	17	75	24	55	34	0	0	65	0.93
605036--605081	13	3.5	13	84	3	65	54	0	0	45	0.99
606217--606283	27	2.4	27	73	9	64	41	0	1	56	1.08
606260--606325	25	2.7	25	79	13	66	43	1	0	54	1.09
606280--606336	25	2.3	24	85	14	80	43	1	0	54	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
607036--607072	16	2.3	16	90	0	56	29	0	5	64	1.15
609541--609591	21	2.4	21	80	6	59	50	0	13	35	1.42
612487--612511	12	2.1	12	100	0	50	44	8	8	40	1.63
623585--623634	14	3.5	15	78	10	61	48	4	4	44	1.40
625538--625623	16	5.4	16	77	5	93	43	24	16	16	1.87
625538--625621	32	2.6	32	84	3	107	42	25	15	16	1.87
625538--625640	48	2.1	48	85	3	136	42	23	15	18	1.88
626332--626378	22	2.2	22	92	3	78	46	17	4	31	1.67
628466--628508	19	2.1	21	87	8	63	55	2	4	37	1.33
628509--628537	13	2.3	13	94	5	51	51	0	0	48	1.00
630744--630785	2	22.5	2	81	13	54	52	2	0	45	1.13
641835--641866	17	1.9	16	93	6	55	81	6	3	9	0.97
641955--642030	38	2.0	38	94	0	134	35	2	21	40	1.67
642619--642666	3	16.3	3	86	4	71	62	4	0	33	1.14
642610--642661	17	3.2	17	78	15	65	57	7	0	34	1.27
642626--642664	20	2.0	20	94	0	69	58	5	0	35	1.20
643788--643822	11	3.1	12	88	12	56	85	0	14	0	0.59
643788--643822	6	6.2	6	90	9	56	85	0	14	0	0.59
643791--643823	17	1.9	17	93	0	57	87	0	12	0	0.53
645408--645462	26	2.2	25	83	9	67	63	3	1	30	1.22
645840--646080	132	1.8	132	100	0	482	31	13	23	31	1.93
648620--648664	23	2.0	23	86	4	65	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)
649118--649262	11	13.1	11	69	17	68	55	0	0	44	0.99
649113--649262	29	5.0	30	74	24	83	56	0	0	43	1.04
649165--649259	15	5.7	18	69	27	68	55	0	0	44	0.99
649118--649269	27	5.7	27	72	18	106	55	0	0	43	1.04
649467--649497	16	1.9	16	93	0	53	61	12	9	16	1.56
650020--650061	17	2.5	17	80	3	50	40	0	0	59	0.97
650632--650667	2	18.0	2	88	0	54	44	0	2	52	1.15
652953--652998	24	1.9	24	86	0	65	45	26	6	21	1.76
653007--653056	27	1.9	25	88	8	73	50	20	12	18	1.78
657495--657560	24	2.7	23	77	13	60	53	9	3	34	1.48
657547--657614	28	2.4	28	85	11	102	60	4	0	35	1.17
658664--658700	19	1.9	19	94	0	65	27	5	18	48	1.70
658986--659020	15	2.4	15	90	4	54	71	0	11	17	1.14
662342--662569	115	2.0	117	80	4	264	39	10	11	38	1.76
662894--663049	51	3.1	51	74	5	147	26	17	22	33	1.96
663099--663491	51	7.6	52	81	3	267	24	17	22	35	1.95
663099--663491	103	3.8	103	77	5	323	24	17	22	35	1.95
663153--663497	51	6.7	52	83	4	288	25	17	21	35	1.95
663222--663506	53	5.5	53	83	4	251	25	17	20	35	1.95
663478--663555	40	1.9	41	86	2	113	26	23	16	33	1.96
663568--663698	51	2.5	52	79	8	151	27	22	16	33	1.95
663798--664004	46	4.4	48	75	9	144	25	9	21	42	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
664286--664354	34	2.0	35	88	2	104	33	11	23	31	1.90
664840--664870	16	1.9	16	93	0	53	35	9	22	32	1.87
664901--664963	32	2.0	32	90	0	99	39	11	22	26	1.87
683452--683620	20	7.9	20	75	18	153	30	15	12	40	1.85
683493--683668	51	3.7	50	75	18	194	28	17	11	42	1.83
683442--683668	91	2.5	91	94	0	391	29	17	11	41	1.84
688952--688991	2	20.5	2	94	5	73	50	0	0	50	1.00
689470--689517	24	2.0	24	84	11	64	27	4	2	66	1.21
690191--690226	2	18.0	2	100	0	72	50	0	0	50	1.00
690460--690512	21	2.6	21	82	11	65	28	1	16	52	1.54

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