genome.fa.s501.2.7.7.80.10.50.1000.3.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: Scaffold501
Parameters: 2 7 7 80 10 50 1000
Length:  850550

Tables:   1   2   3   4   5   6   

This is table  3  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)
295097--295158	29	2.1	29	85	5	81	33	3	20	41	1.69
300411--300463	20	2.6	21	81	3	63	37	13	16	32	1.88
301809--301864	20	2.6	22	88	5	80	30	14	12	42	1.82
303670--303724	19	2.8	20	80	5	67	38	20	12	29	1.89
305361--305386	13	2.0	13	100	0	52	46	15	7	30	1.74
309446--310276	416	2.0	416	92	0	1367	24	18	12	44	1.84
310351--310383	3	11.0	3	93	0	57	30	33	0	36	1.58
312083--312107	13	1.9	13	100	0	50	32	16	16	36	1.90
320342--321193	55	15.0	55	83	7	1021	26	29	20	22	1.99
321112--321284	94	1.8	95	88	6	271	27	30	17	23	1.97
321057--321352	149	2.0	145	83	9	364	26	29	18	25	1.98
321207--321633	55	7.5	55	80	8	446	27	27	19	26	1.99
321207--321632	116	3.7	116	83	6	553	27	26	19	26	1.99
321252--321574	177	1.8	177	90	5	519	25	26	19	28	1.99
320769--321912	442	2.6	440	88	3	1649	25	28	19	25	1.99
321648--321960	55	5.5	55	76	12	281	25	27	21	26	1.99
321444--321840	211	1.9	207	83	8	516	25	28	20	24	1.99
321649--321959	116	2.7	117	83	4	389	25	26	21	26	1.99
321976--322232	55	4.6	55	85	7	338	26	27	19	26	1.99
321764--322170	210	1.9	211	88	1	611	25	28	19	27	1.99
321980--322232	116	2.2	117	84	9	348	26	27	20	26	1.99
322242--322446	61	3.4	61	78	9	195	25	23	20	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
323113--323146	6	5.7	6	92	0	59	67	0	0	32	0.91
323158--323269	21	6.0	21	69	26	108	45	5	28	20	1.73
323169--323278	35	3.1	35	97	0	211	40	6	31	20	1.78
324678--325104	79	5.4	79	92	0	701	26	24	15	33	1.95
325063--325146	41	2.0	41	90	4	134	35	26	8	29	1.86
324906--325303	199	2.0	199	89	1	600	29	26	13	31	1.93
324985--325224	120	2.0	120	90	0	381	30	25	12	32	1.92
325105--325385	79	3.5	78	82	5	321	29	26	11	32	1.92
324826--325379	278	2.0	279	86	3	783	28	25	13	32	1.93
327209--327596	166	2.4	163	79	7	392	26	12	11	49	1.75
327896--327939	20	2.2	20	91	0	70	27	11	18	43	1.84
329874--330166	156	1.9	154	82	4	365	22	20	20	35	1.96
329894--330232	156	2.2	154	80	4	360	22	18	20	38	1.94
335440--335506	33	2.0	33	85	5	91	35	14	13	35	1.86
335535--335589	19	2.8	20	80	5	67	38	14	14	32	1.87
336175--336308	71	1.9	70	95	1	241	33	23	4	38	1.75
337539--337617	31	2.5	31	79	8	88	54	20	2	22	1.56
343678--343746	20	3.5	19	84	5	75	40	17	13	28	1.87
351677--351735	18	3.2	19	79	11	61	81	10	0	8	0.88
351675--351732	29	2.0	29	80	12	66	77	12	0	10	0.99
352894--353385	84	5.9	84	78	6	498	18	27	13	41	1.88
352971--353107	43	3.1	45	72	21	128	16	30	12	40	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
352938--353385	41	10.7	41	70	11	223	18	27	13	41	1.87
353275--353385	42	2.7	42	84	1	152	18	27	14	38	1.90
353590--353681	31	3.0	30	79	4	103	27	29	26	17	1.97
353486--353776	149	2.0	149	88	0	438	30	22	24	23	1.99
353739--353820	31	2.6	31	78	5	94	34	28	20	17	1.95
353476--353813	149	2.3	148	82	2	433	30	24	23	21	1.99
357262--357341	25	2.8	29	78	16	87	28	17	10	43	1.81
357327--357403	20	3.8	20	84	6	102	32	15	11	40	1.84
357272--357451	91	1.9	93	85	6	249	31	16	10	42	1.81
376026--376066	22	1.9	21	85	5	55	12	17	4	65	1.42
386612--386685	26	2.8	26	73	15	71	36	14	13	35	1.86
386695--386988	28	10.4	28	82	6	317	26	29	18	25	1.98
386697--386988	29	10.3	29	82	4	328	26	29	18	25	1.98
386697--386988	56	5.1	57	84	5	358	26	29	18	25	1.98
386952--387013	32	2.0	31	84	9	81	27	29	19	24	1.98
393530--393563	11	3.1	11	100	0	68	91	8	0	0	0.43
394886--395304	28	14.7	28	84	3	451	28	30	17	23	1.97
395229--395312	32	2.8	30	84	8	93	28	30	17	22	1.97
396247--396284	20	1.9	20	84	10	51	28	13	7	50	1.69
396290--396344	20	2.8	20	97	0	101	34	14	7	43	1.73
404637--404867	88	2.6	86	81	7	286	30	21	12	35	1.90
404873--405036	88	1.8	89	79	5	188	29	20	12	37	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
405695--405750	21	2.8	21	78	5	71	39	10	16	33	1.83
406454--406482	12	2.3	13	94	5	51	68	3	0	27	1.05
406489--406797	35	8.9	35	93	2	532	42	5	32	19	1.75
408192--408267	27	2.8	28	89	2	109	23	34	21	21	1.97
408219--408795	79	7.3	79	90	1	881	26	25	14	33	1.94
414575--415015	158	2.8	158	87	4	611	39	13	11	35	1.80
416454--416851	164	2.4	167	80	3	423	48	9	11	30	1.71
425078--425126	20	2.4	20	96	3	89	44	18	4	32	1.68
426904--426929	13	2.0	13	100	0	52	38	15	15	30	1.88
433050--433074	13	1.9	13	100	0	50	32	20	16	32	1.94
434539--434657	51	2.4	51	86	1	177	29	15	27	26	1.96
434640--434716	28	2.7	30	86	7	108	25	20	29	23	1.99
434700--434815	51	2.3	51	79	5	128	29	11	26	32	1.91
434506--434842	158	2.1	157	81	5	394	31	14	27	27	1.95
434829--435097	51	5.3	51	77	4	274	34	11	24	29	1.91
434669--434945	130	2.1	130	84	5	346	32	11	25	30	1.91
434830--435097	102	2.6	102	85	3	326	34	11	24	29	1.91
437395--437469	20	3.8	19	81	10	80	44	12	16	28	1.83
437518--437555	20	1.9	20	88	0	58	39	7	13	39	1.73
445764--445789	13	2.0	13	100	0	52	30	15	15	38	1.88
445850--445922	20	3.6	20	81	3	101	31	19	13	35	1.91
445828--445922	41	2.3	42	96	1	174	29	17	12	40	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
446408--446432	13	1.9	13	100	0	50	32	16	16	36	1.90
446476--446533	19	3.1	19	73	11	57	36	15	13	34	1.87
448712--449231	28	18.4	28	80	6	521	28	29	18	24	1.98
448712--449201	141	3.5	141	80	8	514	28	29	18	24	1.98
449141--449256	28	3.9	31	82	7	93	28	28	18	25	1.98
449787--449812	13	2.0	13	100	0	52	30	15	15	38	1.88
449767--449834	33	2.1	33	94	2	120	36	17	14	30	1.90
454389--454433	21	2.1	21	84	8	56	53	4	20	22	1.63
456237--456267	15	2.1	15	93	0	53	48	16	22	12	1.80
458327--458351	13	1.9	13	100	0	50	32	20	16	32	1.94
460161--460373	101	2.1	101	100	0	426	36	5	28	30	1.80
460995--461020	13	2.0	13	100	0	52	38	15	15	30	1.88
464430--464570	52	2.7	52	86	2	203	32	17	15	34	1.92
464559--464583	13	1.9	13	100	0	50	36	16	16	32	1.90
464626--464692	33	2.0	33	85	0	89	40	14	13	31	1.85
478450--478560	1	111.0	1	72	0	51	82	12	3	0	0.84
478449--478560	13	8.5	13	76	8	77	82	13	3	0	0.85
478450--478558	44	2.4	45	83	10	134	82	12	3	0	0.85
478452--478560	24	4.6	24	70	17	86	82	12	3	0	0.85
478458--478559	35	2.9	35	78	11	102	82	12	3	0	0.86
479807--480155	28	12.2	28	81	7	362	30	31	15	21	1.95
479809--480148	58	5.9	56	82	4	358	30	32	16	20	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
479807--480155	86	4.1	85	80	7	285	30	31	15	21	1.95
480278--480400	49	2.6	45	78	7	120	21	26	20	31	1.98
481112--481367	20	11.8	20	67	16	134	30	16	11	41	1.84
481101--481398	91	3.3	91	87	0	445	29	16	12	41	1.84
483044--483072	10	2.7	11	94	5	51	34	13	0	51	1.42
485716--485834	34	3.5	34	92	0	202	21	7	29	42	1.80
490274--490391	34	3.5	34	91	0	200	22	9	28	39	1.85
493570--493618	24	2.0	24	96	0	89	38	22	8	30	1.83
496084--496127	20	2.3	18	88	11	61	43	18	18	20	1.89
498220--498305	44	2.0	44	92	0	145	38	13	2	45	1.57

Tables:   1   2   3   4   5   6