genome.fa.s60.2.7.7.80.10.50.1000.3.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: Scaffold60
Parameters: 2 7 7 80 10 50 1000
Length:  3815296

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   

This is table  3  of  21  ( 2419 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)
321772--323047	150	8.8	148	85	5	1363	31	18	25	24	1.97
322363--322706	39	7.8	39	65	22	130	29	19	25	25	1.99
322266--322960	136	5.0	136	88	4	985	30	18	25	24	1.98
322116--322960	272	3.0	276	85	5	1025	30	18	26	24	1.98
323166--323739	33	17.9	32	73	15	356	34	13	29	22	1.92
323171--323224	27	2.0	27	92	0	90	27	14	33	24	1.94
323227--323799	190	3.0	187	80	11	547	34	13	28	23	1.93
323224--323865	31	20.2	31	73	16	349	34	13	28	23	1.93
323746--323829	30	2.7	30	81	7	89	30	17	23	27	1.97
325089--325129	6	6.8	6	82	17	50	2	0	12	85	0.70
325086--325138	26	2.0	26	88	3	79	1	0	15	83	0.74
325086--325137	14	3.9	14	78	16	58	1	0	13	84	0.70
325089--325138	20	2.6	19	84	6	57	2	0	16	82	0.77
325086--325130	12	3.7	12	84	3	63	2	0	11	86	0.65
332909--333685	49	15.7	49	78	7	700	32	16	25	24	1.96
332959--333685	101	7.4	98	81	8	719	32	17	25	24	1.97
332904--333685	150	5.3	147	82	5	769	32	16	25	24	1.96
333510--333588	39	2.0	39	92	0	131	25	21	25	27	1.99
333413--333686	136	2.0	137	90	0	433	31	19	24	24	1.98
339357--339383	13	2.1	13	100	0	54	40	14	14	29	1.86
339421--339478	13	4.0	13	74	23	53	32	17	15	34	1.91
343646--343873	122	1.9	122	87	3	334	32	13	25	28	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
343931--344007	28	2.8	29	82	11	99	24	22	31	22	1.98
344038--344109	28	2.6	28	86	0	90	23	19	31	25	1.98
343930--344124	107	1.8	106	83	3	257	29	17	27	25	1.98
346418--346471	20	2.7	20	85	5	65	44	16	12	25	1.84
348381--348615	61	3.9	61	78	6	237	26	21	26	25	2.00
348382--348635	122	2.1	121	82	6	315	25	22	25	25	2.00
348655--349035	61	6.4	61	83	7	427	25	19	28	26	1.99
348387--349355	394	2.5	384	84	6	1240	25	20	28	26	1.99
349051--349355	55	5.3	55	82	11	348	23	20	27	27	1.99
348828--349246	210	2.0	212	87	3	605	24	18	29	26	1.98
348783--349269	265	1.8	267	87	5	732	24	19	28	27	1.98
349052--349355	116	2.7	109	85	8	369	23	21	27	27	1.99
350305--350409	1	105.0	1	73	0	84	0	3	9	86	0.68
350305--350409	15	7.3	14	82	9	106	0	3	9	86	0.68
350333--350409	21	3.7	21	91	0	127	0	0	11	88	0.52
363007--363103	51	1.9	51	83	12	128	34	7	24	34	1.83
362843--363183	122	2.7	122	81	10	359	33	11	25	29	1.91
363291--363363	28	2.6	28	89	4	103	27	20	28	23	1.99
363105--363378	106	2.6	106	75	11	258	32	17	25	25	1.97
365670--365777	20	5.8	19	78	18	111	41	12	16	29	1.84
365691--365760	33	2.1	33	94	0	122	40	11	18	30	1.86
365671--365775	53	2.0	53	87	7	151	40	11	17	30	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
365711--365740	13	2.3	13	94	0	51	40	10	16	33	1.82
365981--366019	21	1.9	20	94	5	69	35	12	15	35	1.86
368828--368857	11	2.7	11	100	0	60	40	13	20	26	1.89
369033--369277	60	4.1	60	79	5	246	43	12	19	24	1.86
369030--369277	120	2.1	119	83	2	300	43	12	19	24	1.85
369081--369322	119	2.0	120	84	2	317	44	12	18	24	1.85
369325--370656	45	30.0	45	69	9	409	43	13	23	20	1.87
369726--370053	165	2.0	164	90	1	523	41	10	25	21	1.85
369890--370653	269	2.8	269	91	1	1219	42	12	23	20	1.87
369894--370658	90	8.5	89	74	5	565	42	12	24	21	1.87
370952--370986	16	2.1	17	89	10	54	14	14	0	71	1.15
371234--371557	92	3.5	92	83	1	373	29	11	29	30	1.92
372456--372667	112	1.9	112	84	3	284	38	13	15	33	1.86
372924--372964	17	2.4	17	87	0	55	9	21	0	68	1.18
373637--373675	15	2.5	15	87	4	51	0	7	7	84	0.77
378328--378631	148	2.0	147	79	6	319	40	17	16	25	1.90
379074--379359	139	2.0	142	81	4	339	45	10	10	34	1.72
381228--381738	167	3.1	167	84	6	635	31	10	8	49	1.67
381226--381801	165	3.4	167	83	6	510	32	10	8	49	1.66
382246--382295	22	2.1	24	85	10	68	70	0	28	2	0.99
382256--382316	10	6.1	9	78	17	50	72	0	22	4	1.04
382258--382318	30	2.0	30	87	6	88	72	0	21	6	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
383087--383498	163	2.5	164	82	6	469	35	13	11	40	1.80
384517--384557	21	1.9	22	85	5	57	58	2	36	2	1.24
391452--391506	20	2.8	20	86	5	76	38	14	12	34	1.84
392500--393058	28	19.6	29	81	6	538	24	17	30	28	1.97
393065--393152	14	6.6	13	75	13	81	36	17	11	35	1.85
393066--393137	26	2.8	26	77	12	76	37	15	12	34	1.85
400174--400204	15	2.1	15	93	0	53	19	0	35	45	1.51
408999--409057	32	1.9	31	89	6	93	22	18	28	30	1.97
408999--409113	28	3.9	30	75	12	94	25	18	26	29	1.98
409014--409276	28	9.2	28	77	6	163	24	20	28	25	1.99
409027--409277	56	4.4	56	83	3	297	24	19	29	25	1.99
409062--409277	84	2.6	84	82	2	247	24	20	29	25	1.99
409063--409298	28	8.4	29	77	6	180	25	19	29	25	1.98
416569--416615	15	3.1	15	72	9	51	19	0	38	42	1.51
421714--421744	13	2.4	13	100	0	62	38	12	16	32	1.86
421692--421760	33	2.1	33	86	5	95	40	18	10	30	1.84
421793--421841	19	2.5	20	90	3	73	36	18	14	30	1.90
426412--426483	28	2.6	28	84	4	83	22	20	36	20	1.96
426471--426860	51	7.4	51	72	15	276	31	12	25	30	1.92
426471--426693	52	4.3	51	81	9	236	32	11	25	30	1.91
426471--426693	105	2.1	103	85	3	286	32	11	25	30	1.91
426361--426860	264	1.9	263	89	2	788	31	13	26	28	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
426676--426751	27	2.8	27	90	6	109	22	21	32	23	1.98
426472--426857	52	7.3	52	73	10	160	32	12	25	30	1.92
429229--429254	13	2.0	13	100	0	52	38	15	15	30	1.88
429208--429274	33	2.0	33	88	0	98	43	16	14	25	1.86
429294--429361	19	3.9	18	76	23	83	38	14	11	35	1.83
429316--429340	13	1.9	13	100	0	50	32	16	16	36	1.90
429297--429359	32	2.0	32	96	0	117	36	15	12	34	1.86
429416--429473	21	2.8	21	94	5	100	39	17	10	32	1.83
430238--430320	27	3.1	26	64	16	69	22	19	27	30	1.98
430130--431082	59	16.3	59	91	3	1311	25	20	28	25	1.99
431933--432019	1	87.0	1	72	0	66	0	1	12	86	0.64
431940--432016	9	7.9	9	79	17	75	0	0	14	85	0.59
431939--432013	21	3.7	20	86	10	107	0	0	14	85	0.60
431942--432020	32	2.3	32	87	12	106	0	0	15	84	0.61
431933--432020	45	1.9	46	86	6	126	0	1	13	85	0.66
452160--452209	21	2.3	21	80	10	57	58	4	14	24	1.53
454006--454036	15	2.1	15	93	0	53	48	16	22	12	1.80
456119--456143	13	1.9	13	100	0	50	36	16	16	32	1.90
456255--456300	21	2.2	20	81	11	58	32	19	4	43	1.71
460189--460952	378	2.0	378	99	0	1519	49	9	11	28	1.71
462165--462483	31	10.2	31	64	16	86	46	12	19	21	1.82
462162--462998	95	8.9	94	72	11	432	46	13	18	21	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
462351--462416	31	2.2	31	86	2	89	42	15	22	19	1.88
462735--463388	31	21.0	31	68	12	124	47	13	17	21	1.82
462337--462979	188	3.4	189	75	9	449	46	13	18	21	1.83
462720--463133	30	13.3	30	71	9	138	46	13	18	21	1.84
462929--463047	61	1.9	62	85	11	165	44	16	16	21	1.86
463079--463379	94	3.2	94	78	8	283	48	13	15	21	1.80
467106--467132	13	2.1	13	100	0	54	29	14	14	40	1.86
469474--469499	13	2.0	13	100	0	52	30	15	15	38	1.88
469454--469517	32	2.0	33	90	3	103	28	14	18	39	1.90
469454--469524	19	4.0	18	72	25	62	26	12	21	39	1.89

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21