genome.fa.s275.2.7.7.80.10.50.1000.4.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: Scaffold275
Parameters: 2 7 7 80 10 50 1000
Length:  1025155

Tables:   1   2   3   4   5   6   7   

This is table  4  of  7  ( 811 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)
466627--466691	32	2.0	34	90	6	107	29	13	15	41	1.86
470359--470448	13	6.0	13	71	26	63	34	14	16	34	1.89
470372--470434	19	3.7	18	76	24	73	33	12	17	36	1.88
470358--470447	32	2.8	32	96	0	162	33	14	16	35	1.89
484495--484559	22	3.0	20	82	15	67	80	12	6	1	0.97
484470--484560	19	4.4	20	73	17	62	80	8	9	1	0.97
486000--486220	29	7.7	29	84	4	297	31	28	18	22	1.97
485997--486240	57	4.3	57	89	1	355	32	28	17	22	1.96
485997--486266	29	9.4	29	82	4	273	32	28	16	21	1.95
486293--486559	43	5.7	48	78	12	232	26	25	17	29	1.97
486283--486606	50	7.1	43	75	14	269	26	25	17	30	1.97
486288--486600	93	3.4	92	89	3	420	27	25	17	29	1.98
486439--486507	22	3.2	21	64	12	50	26	23	18	31	1.97
486524--486600	39	2.0	39	86	0	109	28	24	22	24	1.99
486686--486821	52	2.6	51	81	4	148	27	23	16	33	1.96
487449--487505	13	3.9	13	76	24	60	35	14	17	33	1.90
487462--487524	19	3.7	18	74	24	64	34	12	15	36	1.86
487448--487537	32	2.8	32	94	0	153	34	14	15	35	1.88
487555--487610	21	2.8	20	83	5	76	28	12	14	44	1.81
491928--492115	99	1.9	100	85	3	263	36	6	8	47	1.61
492544--492603	16	3.8	16	77	6	59	43	31	13	11	1.80
492875--492899	10	2.5	10	100	0	50	24	28	20	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
493219--493488	58	4.7	58	73	9	176	45	15	12	26	1.82
493256--493347	29	3.2	29	68	11	71	42	16	14	27	1.86
493396--493471	28	2.7	27	72	13	64	47	17	13	22	1.81
493277--493487	115	1.8	116	81	1	262	45	15	13	26	1.83
493466--493567	47	2.2	47	81	0	114	47	15	9	27	1.77
493506--493667	58	2.8	56	73	12	141	45	13	12	28	1.80
496103--496282	58	3.1	57	76	11	170	46	14	6	32	1.71
496170--496366	108	1.8	109	83	3	263	44	17	7	30	1.76
496329--496527	57	3.5	58	82	4	208	52	12	12	23	1.72
496546--496665	48	2.5	48	86	2	152	47	14	13	25	1.80
499385--499678	56	5.3	56	77	3	245	28	20	11	39	1.87
499352--499699	168	2.1	167	78	3	360	27	21	11	38	1.89
499385--499678	112	2.6	112	79	1	295	28	20	11	39	1.87
499385--499711	56	5.9	56	76	6	225	28	20	11	39	1.87
500704--500771	22	3.1	21	66	14	57	44	4	1	50	1.31
500775--500811	19	1.9	19	88	0	56	40	2	0	56	1.13
500900--500939	19	2.1	20	90	9	66	55	7	0	37	1.29
501257--501299	20	2.2	20	87	8	61	51	0	0	48	1.00
500791--502050	428	2.9	429	76	11	1272	42	5	8	43	1.58
501995--502041	21	2.2	21	84	0	58	44	2	2	51	1.25
505909--505967	21	2.8	22	77	10	61	33	3	13	49	1.59
506397--506468	35	2.1	35	97	0	135	33	11	4	51	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
506665--506711	24	2.0	24	87	4	69	40	2	8	48	1.45
514550--514596	20	2.3	21	85	10	62	53	0	0	46	1.00
515598--515683	6	13.3	6	78	16	66	73	0	23	3	0.99
515894--515939	23	2.0	24	86	4	67	28	4	6	60	1.40
516742--516782	16	2.5	17	76	11	50	36	0	4	58	1.20
518232--518289	20	2.9	20	80	14	66	53	0	0	46	1.00
520017--520061	19	2.3	19	84	3	54	64	2	2	31	1.18
523777--523803	13	2.1	13	100	0	54	29	14	14	40	1.86
525451--525481	12	2.6	12	89	0	53	35	0	38	25	1.56
530036--530060	13	1.9	13	100	0	50	36	16	16	32	1.90
531529--531597	33	2.1	33	86	0	93	23	24	21	30	1.99
532599--532652	20	2.7	19	88	11	74	33	14	18	33	1.92
535793--536487	155	4.5	157	82	3	789	37	22	17	22	1.94
537737--537771	2	17.5	2	100	0	70	51	0	0	48	1.00
537875--537915	21	2.0	21	95	4	75	68	7	4	19	1.32
538872--539159	147	2.0	145	85	7	361	53	6	11	27	1.62
540774--540801	14	2.0	14	100	0	56	78	0	7	14	0.95
540813--540869	21	2.7	21	97	0	105	33	10	19	36	1.86
540925--540992	19	3.9	19	78	21	85	35	11	14	38	1.83
540946--540970	13	1.9	13	100	0	50	36	16	16	32	1.90
540927--540989	32	2.0	32	96	0	117	34	12	15	36	1.86
541032--541057	13	2.0	13	100	0	52	30	15	15	38	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
541012--541078	33	2.0	33	88	0	98	25	14	16	43	1.86
543473--543545	27	2.7	27	87	6	94	23	34	21	20	1.97
543528--543698	51	3.3	51	80	4	198	28	26	11	33	1.91
543681--543762	28	2.9	28	82	7	96	24	31	17	26	1.97
545310--545343	11	3.1	11	95	0	59	85	0	14	0	0.60
547060--547305	97	2.5	97	88	1	343	28	26	13	32	1.94
552385--552410	13	2.0	13	100	0	52	30	15	15	38	1.88
552449--552522	20	3.7	19	83	7	85	28	14	14	41	1.86
554823--554940	51	2.3	51	86	5	159	29	27	11	30	1.92
554876--555227	79	4.5	79	87	2	467	28	26	13	30	1.94
554876--555229	155	2.3	155	85	2	467	28	26	13	31	1.94
555242--555358	51	2.3	51	84	8	157	29	23	11	34	1.91
555242--555497	130	2.0	130	81	6	304	27	23	11	37	1.89
555111--555489	181	2.1	181	78	5	392	29	23	11	35	1.91
565999--566043	22	2.1	21	84	8	56	22	17	4	55	1.60
568253--568278	13	2.0	13	100	0	52	30	15	15	38	1.88
574798--574924	52	2.5	52	93	2	213	29	18	17	35	1.93
574933--574957	13	1.9	13	100	0	50	36	16	16	32	1.90
574998--575064	33	2.0	33	88	0	98	40	14	11	32	1.83
575020--575044	13	1.9	13	100	0	50	32	16	16	36	1.90
575862--577018	43	24.7	52	76	16	476	32	17	25	24	1.97
575926--577029	92	12.0	92	95	0	1947	31	17	25	24	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
577022--577155	64	2.1	65	91	4	220	19	17	33	29	1.94
577017--577157	32	4.4	32	85	7	198	19	17	34	29	1.94
577142--577280	65	2.1	65	90	2	217	28	12	37	21	1.90
577142--577280	34	4.3	33	75	11	144	28	12	37	21	1.90
577260--577336	27	2.9	27	92	0	127	15	20	40	23	1.91
577314--577464	31	4.8	32	83	11	150	28	15	31	24	1.96
577361--577473	31	3.6	31	88	10	160	29	15	30	25	1.95
577328--577464	63	2.2	64	85	6	181	29	15	30	24	1.96
577567--577612	8	5.6	8	92	5	65	26	4	23	45	1.71
578420--578458	16	2.6	14	85	14	60	0	0	10	89	0.48
578774--578814	11	3.7	11	90	0	64	0	2	9	87	0.62
578783--578832	23	2.2	22	82	3	55	4	4	12	80	1.00
578782--578832	22	2.2	22	82	6	57	3	3	11	80	0.98
585149--585173	13	1.9	13	100	0	50	36	16	16	32	1.90
585214--585280	33	2.0	33	88	0	98	40	14	11	32	1.83
585236--585260	13	1.9	13	100	0	50	32	16	16	36	1.90
587115--587161	6	7.7	6	88	4	58	87	8	2	2	0.71
587113--587172	19	3.2	19	83	2	68	86	6	3	3	0.77
587113--587161	25	1.9	25	88	12	73	87	8	2	2	0.69
590579--590628	19	2.6	19	96	0	91	36	18	12	34	1.87
591311--591481	53	3.2	54	78	4	143	33	15	24	26	1.95
591606--591870	87	3.0	88	85	5	336	30	19	23	26	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
591604--592262	235	2.8	237	80	10	683	32	17	24	25	1.97
591930--592164	43	5.1	43	74	16	204	32	17	24	25	1.97
592020--592316	52	5.9	52	81	7	362	35	16	24	23	1.95
591797--592316	95	5.3	94	83	8	544	34	16	24	24	1.95
592115--592319	103	2.0	104	92	0	340	35	16	24	23	1.95
592324--592446	33	3.9	33	82	12	168	36	11	32	19	1.87
592447--592537	33	2.8	33	79	8	100	36	17	29	16	1.92
592513--592648	31	4.4	31	79	9	152	34	14	29	21	1.93
592514--592647	64	2.1	63	86	4	191	34	14	29	21	1.94
593937--594000	6	11.0	6	85	9	71	0	0	18	81	0.70

Tables:   1   2   3   4   5   6   7