genome.fa.s93.2.7.7.80.10.50.1000.5.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: Scaffold93
Parameters: 2 7 7 80 10 50 1000
Length:  1685797

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   

This is table  5  of  14  ( 1563 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)
485418--485512	23	4.1	22	80	14	88	0	4	9	86	0.70
485427--485512	8	10.6	8	87	10	97	0	3	10	86	0.70
487309--487440	51	2.6	52	84	7	175	29	10	26	33	1.90
487085--487387	79	3.8	79	79	4	299	32	13	25	29	1.93
487244--487514	130	2.1	127	82	5	321	31	12	25	29	1.93
489813--489919	20	5.7	19	71	18	82	42	12	16	28	1.85
489852--489883	13	2.5	13	89	0	55	43	15	15	25	1.86
489813--489919	53	2.0	53	82	7	128	42	12	16	28	1.85
490629--490697	35	2.1	33	81	8	86	40	13	21	24	1.89
490668--490948	42	6.5	43	77	10	272	38	13	27	20	1.90
490711--490948	87	2.7	87	96	1	424	36	13	28	21	1.91
490561--490947	129	3.1	127	78	9	327	39	12	27	20	1.89
490920--491135	61	3.5	61	80	2	245	29	18	26	24	1.98
490833--491334	273	1.8	271	83	5	672	31	16	28	23	1.96
491193--491344	63	2.5	60	83	9	182	28	19	27	24	1.98
491161--491502	166	2.1	166	89	0	522	29	17	28	24	1.97
491375--491541	63	2.7	61	80	6	176	29	17	26	25	1.98
491422--491566	56	2.5	56	79	9	157	26	20	26	26	1.99
491427--491823	155	2.6	154	89	3	575	26	19	28	25	1.98
491646--491924	100	2.8	100	87	4	383	26	18	29	25	1.98
491840--492354	61	8.4	61	81	8	568	28	18	27	25	1.98
491840--492354	126	4.2	122	82	7	566	28	18	27	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
491900--492323	189	2.2	188	88	2	620	29	18	26	25	1.98
492368--492573	60	3.3	62	85	4	292	25	20	28	25	1.99
500137--500162	13	2.0	13	100	0	52	38	23	15	23	1.92
509684--509866	79	2.3	79	83	3	226	33	14	23	27	1.94
509684--509904	79	2.8	78	79	10	184	33	14	23	28	1.94
509839--509955	51	2.3	50	79	7	128	33	13	24	28	1.93
509941--510014	28	2.6	28	82	4	87	25	18	29	25	1.98
509808--510138	158	2.1	158	83	5	418	31	13	26	28	1.94
509994--510111	51	2.3	51	89	0	182	32	11	26	29	1.92
510045--510271	79	2.9	77	82	5	274	30	14	26	27	1.95
516134--516391	32	8.3	32	74	10	196	35	12	16	35	1.87
516097--516367	124	2.2	124	77	9	277	35	14	17	32	1.89
516431--516535	53	2.0	53	83	3	131	33	18	16	32	1.93
516465--516537	27	2.8	26	67	22	62	34	15	17	32	1.91
517688--518064	160	2.4	158	84	4	481	35	10	24	30	1.89
517655--518081	81	5.4	79	82	3	410	34	10	24	30	1.89
521269--521565	103	2.8	104	80	3	283	35	14	23	26	1.93
521269--521565	52	5.7	51	75	6	204	35	14	23	26	1.93
521671--521875	88	2.3	88	82	5	238	33	12	27	26	1.92
521712--522248	30	17.7	30	76	9	252	32	13	28	25	1.93
521773--522036	33	8.5	32	78	11	214	34	12	27	26	1.92
521773--522064	63	4.7	62	80	9	319	33	12	28	26	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
522012--522244	59	3.9	59	81	6	249	28	15	29	26	1.96
522012--522247	89	2.7	88	85	2	294	29	15	29	25	1.96
531035--531059	13	1.9	13	100	0	50	32	16	16	36	1.90
531049--531099	19	2.6	19	87	3	66	31	19	13	35	1.91
531129--531180	20	2.6	20	84	6	70	36	13	19	30	1.90
534999--535032	11	3.1	11	86	0	50	11	8	14	64	1.49
538696--538733	18	2.1	19	85	5	51	28	5	28	36	1.79
541563--541782	96	2.2	96	78	7	235	32	24	10	33	1.89
547404--547519	51	2.3	51	96	0	214	41	8	18	31	1.81
548376--548464	32	2.7	34	77	7	101	21	19	28	31	1.97
548408--548765	59	6.1	57	77	10	301	22	16	29	32	1.95
548455--548762	87	3.5	86	80	7	307	22	15	29	32	1.95
548403--548732	149	2.2	148	84	5	434	23	16	28	31	1.96
548404--548765	28	12.3	28	78	11	316	22	16	29	31	1.95
549994--550048	7	7.9	7	88	9	69	1	0	10	87	0.63
549993--550048	25	2.3	24	87	6	85	1	0	10	87	0.62
564020--564087	20	3.4	20	79	0	91	41	11	11	35	1.78
569968--570021	29	1.9	27	85	14	74	48	0	0	51	1.00
569994--570044	17	2.7	18	83	16	68	45	0	0	54	0.99
572858--572890	2	16.5	2	100	0	66	48	0	0	51	1.00
578926--578979	23	2.3	23	100	0	108	64	9	9	16	1.47
579879--579953	20	3.8	20	80	3	80	40	12	13	34	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
579876--579953	40	2.0	39	87	2	111	39	12	12	34	1.82
593245--593315	28	2.5	28	86	0	88	22	18	36	22	1.95
593304--593632	52	6.3	50	71	10	228	31	12	27	28	1.92
593171--593581	107	3.9	107	75	7	406	29	14	28	27	1.95
593197--593641	211	2.1	211	91	1	748	31	13	27	28	1.94
596829--596923	42	2.3	42	81	3	111	44	14	24	16	1.86
596955--597236	61	4.8	57	81	10	284	28	21	25	24	1.99
596952--597236	122	2.4	117	88	6	407	27	21	25	24	1.99
597063--597262	55	3.6	55	82	8	244	25	21	27	26	1.99
597275--597485	55	3.7	55	84	9	280	27	18	27	27	1.98
597275--597521	55	4.3	56	88	5	268	27	18	27	26	1.98
598491--598542	21	2.3	23	83	6	63	1	5	7	84	0.84
598491--598543	23	2.3	23	83	6	63	1	5	9	83	0.89
598500--598544	11	4.0	11	86	11	56	4	2	11	82	0.91
598511--598543	13	2.8	12	90	9	50	3	0	12	84	0.72
604845--605182	52	6.4	53	69	17	186	28	25	12	32	1.93
604959--605034	27	2.8	28	89	2	109	23	34	21	21	1.97
604908--605300	107	3.7	104	72	10	301	27	26	13	31	1.95
604845--605294	212	2.1	211	86	3	620	28	26	13	31	1.93
617776--617815	11	3.5	11	83	12	53	85	12	2	0	0.71
617779--617825	9	5.6	8	80	16	51	85	10	4	0	0.74
617777--617825	16	3.1	15	82	11	53	85	10	4	0	0.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
617779--617824	13	3.5	13	88	11	60	84	10	4	0	0.75
618536--618560	13	1.9	13	100	0	50	36	16	16	32	1.90
618516--618582	33	2.0	33	88	0	98	34	11	13	40	1.81
618623--618764	52	2.7	50	88	6	203	33	17	17	30	1.94
618644--618764	52	2.3	52	97	0	224	34	18	18	28	1.94
625686--625762	16	4.6	16	80	12	84	85	10	3	0	0.71
625688--625745	10	5.6	10	88	8	89	89	10	0	0	0.48
625688--625745	1	58.0	1	78	0	62	89	10	0	0	0.48
625686--625761	22	3.4	22	85	8	100	85	10	3	0	0.72
625686--625762	10	8.0	9	79	15	66	85	10	3	0	0.71
626001--626050	14	3.4	16	81	15	63	86	8	6	0	0.72
626002--626047	24	2.0	24	91	4	76	86	6	6	0	0.69
626970--627291	27	10.5	31	77	11	156	20	34	14	29	1.93
626977--627131	31	4.8	33	76	12	103	19	33	15	31	1.93
627068--627212	27	5.2	27	85	6	191	20	37	15	26	1.92
627068--627208	54	2.5	55	89	4	212	20	39	16	24	1.92
627180--627280	33	2.9	35	79	5	125	18	33	13	33	1.91
627259--627385	65	2.0	62	90	7	202	27	36	18	18	1.94
627259--627378	32	3.7	33	91	5	192	26	35	18	19	1.94
627378--627887	49	10.7	49	85	8	662	25	25	18	30	1.98
627373--627843	92	5.1	92	87	7	648	25	26	17	29	1.98
627797--627950	52	2.9	53	81	4	193	24	24	15	35	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
627900--628026	67	1.9	68	86	1	184	23	25	12	38	1.90
628768--628792	13	1.9	13	100	0	50	36	16	16	32	1.90
628748--628814	33	2.0	33	88	0	98	34	11	13	40	1.81
628856--628887	13	2.5	13	95	5	57	28	15	18	37	1.92
628889--629009	52	2.3	52	95	0	215	35	18	17	28	1.93
632665--633163	55	9.0	55	88	4	630	27	29	20	22	1.99
633907--633984	21	3.7	21	86	8	97	38	12	14	34	1.84
634020--634087	19	3.9	19	78	21	85	35	10	14	39	1.80
634022--634082	32	1.9	32	96	0	113	34	9	16	39	1.82
634127--634152	13	2.0	13	100	0	52	30	15	15	38	1.88

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14