genome.fa.s56.2.7.7.80.10.50.1000.3.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: Scaffold56
Parameters: 2 7 7 80 10 50 1000
Length:  1793205

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

This is table  3  of  11  ( 1274 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)
341798--342551	61	12.5	61	77	6	685	28	17	26	27	1.97
343535--343575	11	3.6	11	80	6	55	2	0	12	85	0.70
343524--343562	20	2.0	20	89	0	60	2	5	7	84	0.84
343519--343575	23	2.4	24	88	5	80	1	5	8	84	0.84
352192--352273	28	2.9	27	82	10	87	26	18	31	23	1.97
352256--352592	51	6.4	51	72	11	245	31	12	25	30	1.92
352408--352480	27	2.7	27	87	6	94	20	20	34	24	1.97
352197--352589	211	1.9	211	88	2	592	31	13	26	29	1.94
354928--354994	33	2.0	33	88	0	98	43	16	14	25	1.86
354949--354974	13	2.0	13	100	0	52	38	15	15	30	1.88
355014--355078	19	3.8	18	76	23	77	35	15	12	36	1.85
355036--355060	13	1.9	13	100	0	50	32	16	16	36	1.90
355017--355078	32	1.9	32	96	0	115	35	16	12	35	1.87
355730--356396	55	12.0	54	84	8	802	23	20	28	27	1.99
355886--356030	26	5.3	26	62	23	75	20	18	32	28	1.96
371545--371611	33	2.0	33	88	0	98	43	16	14	25	1.86
371566--371591	13	2.0	13	100	0	52	38	15	15	30	1.88
371631--371695	19	3.8	18	76	23	77	35	15	12	36	1.85
371653--371677	13	1.9	13	100	0	50	32	16	16	36	1.90
371634--371695	32	1.9	32	96	0	115	35	16	12	35	1.87
372052--372133	33	2.5	33	91	0	128	45	0	42	12	1.41
372061--372128	12	5.9	12	73	22	65	41	0	45	13	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
372082--372162	42	1.9	42	89	0	126	43	1	44	11	1.47
372064--372142	12	6.9	12	71	17	53	43	0	43	13	1.44
372087--372175	42	2.1	42	81	4	99	47	1	40	11	1.47
375774--375844	10	7.0	10	79	7	72	28	28	5	38	1.79
380377--380416	21	2.0	19	85	9	53	32	0	30	37	1.58
381766--381806	2	20.5	2	100	0	82	51	0	48	0	1.00
382048--382094	23	2.0	23	91	0	76	40	4	8	46	1.54
382387--382454	22	2.9	23	76	12	68	67	0	0	32	0.91
382405--382446	11	3.8	12	81	15	54	61	0	0	38	0.96
382543--382598	23	2.5	22	85	8	76	64	8	7	19	1.45
382612--382660	23	2.0	25	88	7	75	28	10	0	61	1.29
382995--383060	29	2.3	29	84	10	82	51	1	3	43	1.26
385467--385504	13	2.9	14	84	11	53	52	0	0	47	1.00
386015--386057	15	2.8	15	82	3	50	67	0	0	32	0.91
389429--389471	21	2.0	21	86	0	59	44	16	9	30	1.79
390575--390648	20	3.7	20	91	7	107	32	17	13	36	1.89
390676--390746	20	3.6	19	87	9	90	35	15	16	32	1.91
392897--393339	155	2.9	152	79	8	454	39	18	16	25	1.91
393432--393574	29	5.0	28	75	6	117	34	21	6	37	1.79
395211--395274	6	10.7	6	75	14	53	68	1	3	26	1.13
396590--397098	66	7.7	66	76	3	418	41	15	23	18	1.89
396742--396846	34	3.2	33	66	10	79	37	13	27	21	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
397002--397151	34	4.5	34	70	15	123	38	22	23	16	1.92
396970--397083	32	3.5	31	71	21	99	37	17	27	17	1.92
396947--397268	166	1.9	167	86	1	459	39	19	22	18	1.93
397014--397202	100	1.9	101	84	1	254	40	20	21	18	1.92
396866--397329	232	2.0	232	81	2	547	40	18	22	17	1.91
397102--397668	198	2.9	197	80	3	631	40	19	22	17	1.92
396828--397394	298	1.9	298	79	5	637	40	18	22	18	1.91
397098--397672	66	8.7	66	79	6	549	39	19	22	17	1.92
397664--398160	66	7.7	65	73	10	254	39	18	24	17	1.92
397573--397771	100	2.0	100	87	2	283	39	18	23	18	1.92
398240--398464	64	3.4	66	78	11	164	40	13	23	22	1.89
398323--398443	64	1.9	64	87	3	181	39	12	23	24	1.89
399631--399685	20	2.7	21	83	11	69	36	18	10	34	1.86
399713--399769	19	2.9	20	85	10	73	33	14	17	35	1.90
399754--399780	13	2.1	13	100	0	54	40	7	14	37	1.74
400350--400396	23	2.0	24	91	4	78	27	34	0	38	1.57
404111--404160	21	2.3	21	80	10	57	56	4	18	22	1.58
405958--405988	15	2.1	15	93	0	53	48	16	22	12	1.80
408062--408100	13	3.0	13	100	0	78	30	15	15	38	1.88
408221--408266	21	2.2	20	81	11	58	32	19	4	43	1.71
411950--411975	13	2.0	13	100	0	52	30	15	15	38	1.88
412633--412787	78	2.0	78	97	0	292	23	34	4	38	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
414598--414649	13	4.0	13	100	0	104	38	15	15	30	1.88
416727--416757	15	2.1	15	93	0	53	12	22	16	48	1.80
418561--418605	21	2.1	21	88	8	65	22	17	4	55	1.60
420824--420849	13	2.0	13	100	0	52	30	15	15	38	1.88
421562--421603	13	3.2	13	86	0	57	40	14	14	30	1.85
428551--428675	52	2.4	52	94	0	214	28	17	17	36	1.93
428556--428695	52	2.7	51	88	4	201	31	17	17	33	1.93
428684--428708	13	1.9	13	100	0	50	36	16	16	32	1.90
428747--428804	20	3.0	20	84	2	73	46	12	10	31	1.74
432234--432545	76	4.1	76	81	8	305	42	11	18	26	1.85
432291--432618	76	4.3	75	79	5	295	42	12	19	25	1.86
433988--434022	17	2.1	17	88	0	52	68	20	2	8	1.29
435178--435294	51	2.3	51	92	1	191	34	27	10	28	1.89
435228--435503	132	2.1	130	82	2	329	27	25	11	34	1.91
435356--435750	160	2.5	157	83	7	485	25	25	13	35	1.93
435357--435787	80	5.4	79	80	5	438	25	25	14	34	1.94
437830--437860	4	7.8	4	92	0	53	22	3	0	74	0.96
443113--443138	13	2.0	13	100	0	52	30	23	15	30	1.95
443235--443276	21	2.0	21	100	0	84	38	9	23	28	1.86
443326--443462	53	2.6	53	95	1	247	27	17	18	37	1.93
443432--443502	20	3.5	20	77	11	74	29	14	16	39	1.88
443542--443582	21	2.0	21	85	9	57	39	9	12	39	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
445224--445248	13	1.9	13	100	0	50	32	16	16	36	1.90
449010--449035	13	2.0	13	100	0	52	30	23	15	30	1.95
449132--449173	21	2.0	21	100	0	84	38	9	23	28	1.86
449276--449346	20	3.5	20	77	11	74	29	14	16	39	1.88
452460--452501	22	1.9	22	90	0	66	38	0	33	28	1.58
472405--472515	1	111.0	1	72	0	87	0	9	86	2	0.71
472405--472514	18	5.9	17	80	17	114	0	10	86	2	0.72
474620--474682	32	2.0	32	96	0	117	26	26	9	36	1.87
476338--476379	13	3.2	13	86	0	57	40	14	14	30	1.85
476894--478343	724	2.0	724	98	0	2828	31	18	17	33	1.94
484093--484362	76	3.6	76	87	4	350	42	12	18	26	1.85
484093--484416	151	2.1	151	80	5	350	42	12	19	25	1.86
484105--484416	76	4.1	76	86	1	335	42	12	19	25	1.86
485857--485891	17	2.1	17	100	0	70	65	22	5	5	1.36
487043--487161	51	2.4	51	91	1	186	32	27	12	26	1.93
487094--487370	132	2.1	130	81	2	313	27	25	12	34	1.92
487224--487617	160	2.5	160	85	6	480	25	25	13	35	1.93
487224--487653	80	5.4	79	80	7	433	25	25	14	34	1.93
487223--487664	159	2.8	159	82	6	418	26	24	13	35	1.93
489678--489708	4	7.8	4	92	0	53	22	3	0	74	0.96
496802--496864	10	6.1	10	73	14	56	38	9	28	23	1.86
496794--496856	32	2.0	32	93	0	108	36	11	26	25	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
500063--500181	52	2.3	51	94	1	202	30	17	17	34	1.93
500190--500214	13	1.9	13	100	0	50	36	16	16	32	1.90
500255--500321	33	2.0	33	88	0	98	40	13	11	34	1.81
500277--500301	13	1.9	13	100	0	50	32	16	16	36	1.90
504866--504923	11	5.2	11	84	12	64	86	8	5	0	0.71
504869--504926	28	2.1	29	80	9	75	84	8	6	0	0.78
504866--504923	17	3.5	15	84	11	62	86	8	5	0	0.71
505897--506470	61	9.4	60	89	2	808	27	28	17	27	1.98
505897--506470	183	3.1	183	92	1	936	27	28	17	27	1.98
509420--509535	50	2.3	50	82	4	126	34	25	11	28	1.90

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