genome.fa.s13.2.7.7.80.10.50.1000.3.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: Scaffold13
Parameters: 2 7 7 80 10 50 1000
Length:  2744999

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   

This is table  3  of  15  ( 1714 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)
489045--489098	20	2.6	21	79	2	65	31	16	9	42	1.80
489901--489991	45	2.0	45	93	0	155	53	9	15	20	1.70
493343--493396	20	2.7	20	91	2	81	35	18	9	37	1.83
501540--501592	20	2.7	19	91	5	79	39	13	13	33	1.83
501491--501624	70	1.9	70	86	3	189	43	12	13	30	1.81
507408--507461	20	2.7	20	88	2	81	35	18	9	37	1.83
507808--508547	155	4.8	155	75	6	649	40	19	15	23	1.90
507738--508528	307	2.6	306	82	3	937	41	20	14	23	1.90
507738--508634	307	2.9	304	80	6	914	41	20	14	23	1.90
510137--510190	23	2.4	22	78	12	56	14	14	5	64	1.45
510679--511110	164	2.6	164	77	6	433	49	10	9	30	1.69
513903--513959	29	2.0	29	92	0	96	35	12	10	42	1.77
515555--515598	21	2.1	21	82	0	52	38	11	11	38	1.77
521367--521410	21	2.1	21	82	0	52	38	11	11	38	1.77
523938--523989	17	3.1	17	81	16	63	44	0	0	55	0.99
523964--524008	23	2.0	23	82	8	56	44	0	0	55	0.99
527402--527444	19	2.3	19	100	0	86	25	4	13	55	1.58
528837--528862	2	13.0	2	100	0	52	50	0	0	50	1.00
530134--530207	35	2.1	35	82	9	89	48	1	1	48	1.18
531016--531059	12	3.7	12	87	0	61	31	4	2	61	1.28
531224--531310	46	1.9	45	90	2	138	60	17	2	19	1.46
535224--535271	16	3.2	16	82	17	75	56	0	0	43	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
535227--535275	14	3.4	14	84	15	73	55	0	0	44	0.99
535227--535281	13	3.9	13	77	15	56	50	0	0	49	1.00
536025--536112	47	1.9	45	86	9	124	48	0	0	51	1.00
536196--536229	14	2.4	14	85	0	50	58	0	0	41	0.98
536683--536732	20	2.5	20	86	3	64	34	2	0	64	1.05
537398--537437	14	2.9	14	80	0	53	55	5	0	40	1.22
537965--538014	21	2.4	21	96	0	91	60	4	8	28	1.43
538099--538125	2	13.5	2	100	0	54	51	0	48	0	1.00
538581--538609	3	9.7	3	100	0	58	31	0	0	68	0.89
543208--543258	3	17.0	3	100	0	102	33	0	0	66	0.92
543542--543596	27	2.0	27	89	0	83	61	3	23	10	1.44
543769--543820	21	2.7	20	85	14	65	59	0	0	40	0.97
544067--544117	17	3.1	15	81	18	57	39	1	1	56	1.22
544067--544114	16	2.8	17	84	12	55	41	2	2	54	1.24
545909--545961	25	2.1	25	82	6	63	56	0	0	43	0.99
549553--549606	26	2.1	26	100	0	108	35	22	12	29	1.91
551477--551527	26	1.9	27	84	4	68	29	17	23	29	1.97
557500--557628	52	2.5	52	94	0	231	28	17	17	35	1.93
557637--557661	13	1.9	13	100	0	50	36	16	16	32	1.90
557702--557765	32	2.0	33	93	3	112	35	15	12	35	1.85
558277--558895	49	12.6	49	81	7	657	31	16	26	25	1.96
558316--558892	149	3.8	150	87	3	727	31	15	26	25	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
558269--558902	198	3.2	199	84	5	790	31	15	26	26	1.96
558968--559614	32	20.2	33	84	4	803	21	16	32	29	1.95
559830--559854	13	1.9	13	100	0	50	24	8	4	64	1.38
560085--560149	19	3.7	19	73	23	70	36	12	16	33	1.87
560105--560187	13	5.5	13	72	27	67	33	13	18	34	1.89
560086--560187	32	3.2	32	95	1	179	35	12	17	34	1.88
560231--560255	13	1.9	13	100	0	50	32	16	16	36	1.90
560264--560392	52	2.5	52	94	0	231	34	18	18	27	1.95
563464--563569	32	3.4	32	81	11	123	20	16	35	27	1.94
564851--564901	7	7.6	7	79	16	54	1	1	9	86	0.73
564851--564903	13	4.0	13	82	4	70	1	1	9	86	0.71
564863--564921	27	2.2	27	84	6	75	1	0	20	77	0.85
576359--576484	52	2.4	52	95	0	225	27	17	18	36	1.93
576359--576503	52	2.8	51	90	4	220	28	17	18	35	1.94
576557--576623	33	2.0	33	88	0	98	40	14	11	32	1.83
576579--576603	13	1.9	13	100	0	50	32	16	16	36	1.90
576854--576878	13	1.9	13	100	0	50	64	4	8	24	1.38
577274--577760	227	2.2	224	82	4	577	37	14	24	23	1.93
577616--578033	49	8.7	49	82	7	493	30	18	26	25	1.98
577628--578033	92	4.3	94	83	8	416	30	18	26	25	1.98
577660--578033	140	2.7	141	89	0	579	29	17	26	25	1.98
578026--578257	32	7.3	31	92	5	342	17	18	34	28	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
578026--578257	65	3.6	63	88	8	344	17	18	34	28	1.94
578268--578815	34	16.8	33	76	12	420	32	13	33	20	1.91
578268--578691	71	6.3	68	85	6	498	34	12	33	19	1.90
578574--578815	27	8.0	27	71	16	115	30	14	34	20	1.92
578273--578907	160	3.9	157	81	8	620	32	13	33	20	1.92
578300--578695	95	4.0	95	80	9	386	33	12	33	19	1.90
578635--578911	121	2.2	124	83	7	348	30	15	32	21	1.94
578372--578943	95	5.9	95	75	14	270	31	14	33	20	1.93
578669--578948	32	9.1	30	79	11	253	30	15	32	22	1.95
578636--578948	32	10.1	30	78	9	238	30	15	32	21	1.94
579885--579933	17	2.8	17	84	9	55	0	14	6	79	0.91
586518--586544	12	2.2	12	100	0	54	37	0	55	7	1.28
586759--586878	52	2.3	52	91	0	195	30	16	17	35	1.92
586759--586898	52	2.7	51	85	4	183	32	16	17	33	1.93
586952--587018	33	2.0	33	88	0	98	40	14	11	32	1.83
586974--586998	13	1.9	13	100	0	50	32	16	16	36	1.90
591061--591122	19	3.2	19	70	21	56	41	11	14	32	1.81
591110--591134	13	1.9	13	100	0	50	36	16	16	32	1.90
591089--591160	32	2.2	32	97	0	135	34	12	16	36	1.87
591068--591153	19	4.7	19	73	19	76	36	11	16	36	1.85
591178--591219	21	2.0	21	90	0	66	42	9	19	28	1.82
591206--591231	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)
593599--593767	51	3.3	51	84	1	205	28	26	11	33	1.92
593703--594004	79	3.9	79	86	4	409	28	26	14	30	1.95
593936--594155	51	4.3	51	91	0	323	30	27	11	30	1.91
594137--594207	28	2.5	29	93	4	119	26	28	19	25	1.99
594197--594315	51	2.3	51	84	5	159	28	27	12	31	1.93
606817--606872	24	2.5	22	88	5	76	85	10	3	0	0.71
606817--606872	27	2.1	26	87	9	78	85	10	3	0	0.71
606818--606872	10	4.9	10	79	20	56	85	10	3	0	0.72
607843--608505	55	11.4	54	83	10	626	27	27	19	25	1.99
607876--608781	171	5.3	170	77	13	880	27	28	19	25	1.99
607843--608519	61	11.6	59	83	7	695	27	28	19	25	1.99
608547--608781	61	3.9	61	85	3	298	27	28	19	25	1.98
608332--608721	215	1.8	216	86	6	576	25	28	19	25	1.99
608523--608789	122	2.3	115	84	9	358	26	27	19	26	1.99
609333--609413	19	4.2	20	74	17	66	40	11	13	34	1.80
609437--609478	21	2.0	21	95	0	75	40	9	21	28	1.84
609467--609507	20	2.0	21	90	4	66	29	14	14	41	1.86
611916--612191	79	3.7	72	81	10	211	26	26	14	32	1.95
611983--612191	79	2.7	78	86	3	289	26	27	14	31	1.95
612123--612353	51	4.5	51	86	4	259	29	25	11	33	1.90
612144--612332	102	1.9	102	88	2	290	31	23	10	34	1.88
612327--612400	28	2.6	28	85	4	96	22	31	21	24	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
612384--612501	51	2.3	50	85	5	155	28	27	12	31	1.93
622869--623320	172	2.6	172	83	6	567	39	9	12	38	1.76
624847--624882	18	1.9	19	88	5	56	47	2	13	36	1.58
624649--625299	165	3.9	165	85	4	819	52	8	10	27	1.65
624650--625299	331	2.0	331	85	3	898	52	8	10	27	1.65
625174--625451	152	1.8	151	83	7	375	52	9	11	26	1.68
628135--628188	20	2.6	21	82	2	65	35	16	7	40	1.77
628075--628698	327	1.9	328	90	0	991	33	15	15	36	1.88
629276--629327	25	2.1	25	100	0	104	32	11	21	34	1.89
634733--634862	52	2.5	52	76	5	120	35	15	22	26	1.94

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15