genome.fa.s179.2.7.7.80.10.50.1000.4.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: Scaffold179
Parameters: 2 7 7 80 10 50 1000
Length:  2991183

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

This is table  4  of  18  ( 2159 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)
479421--479514	41	2.3	41	100	0	188	29	19	12	38	1.89
481964--482002	13	3.0	13	92	0	60	38	15	15	30	1.88
481988--482026	20	2.0	20	89	0	60	53	10	12	23	1.69
485915--485959	21	2.1	21	84	8	56	22	20	4	53	1.63
488174--488199	13	2.0	13	100	0	52	30	15	15	38	1.88
488238--488310	20	3.6	20	81	9	76	30	16	13	39	1.87
488258--488313	20	2.8	20	89	5	78	30	16	14	39	1.88
493351--493392	21	2.0	22	85	4	59	40	16	14	28	1.88
495511--495568	29	2.0	29	89	0	89	48	1	5	44	1.35
496721--496754	2	17.0	2	100	0	68	50	0	0	50	1.00
498365--498391	2	13.5	2	100	0	54	51	0	0	48	1.00
502628--502680	20	2.6	21	82	8	65	32	18	11	37	1.87
502606--502680	21	3.7	20	75	12	71	32	17	12	38	1.86
506707--506731	13	1.9	13	100	0	50	32	16	16	36	1.90
506740--506864	52	2.4	52	94	0	214	36	18	16	28	1.93
513885--514009	52	2.4	52	95	0	223	28	17	18	36	1.94
513885--514030	52	2.8	51	89	4	213	29	17	18	34	1.94
514093--514117	13	1.9	13	100	0	50	32	16	16	36	1.90
514071--514137	33	2.0	33	88	0	98	40	13	11	34	1.81
514972--515091	42	2.9	42	88	0	168	8	45	2	43	1.47
514989--515058	18	3.6	18	68	20	50	10	44	2	42	1.52
514997--515082	24	3.8	24	70	17	76	10	46	2	40	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
519111--519564	156	2.9	156	83	2	563	41	14	11	33	1.81
521372--521396	11	2.3	11	100	0	50	48	8	0	44	1.32
523000--523308	79	3.9	79	78	6	313	33	15	26	25	1.95
523248--523371	50	2.5	50	87	1	167	40	15	20	24	1.90
526201--526253	6	8.0	6	80	15	52	1	18	1	77	0.96
534132--534194	22	3.0	22	81	6	78	42	1	20	34	1.62
534754--534780	13	2.1	13	100	0	54	29	14	14	40	1.86
534764--534820	19	2.9	19	78	2	69	31	19	17	31	1.95
534865--534895	13	2.4	13	94	0	53	35	16	12	35	1.87
534849--534915	33	2.0	32	88	11	100	35	13	17	32	1.89
536291--536636	167	2.1	167	79	8	393	50	8	11	29	1.69
539625--539696	20	3.7	19	85	7	83	30	16	15	37	1.90
539730--539779	20	2.5	20	90	6	75	34	12	18	36	1.87
541365--541398	9	3.8	9	88	11	52	44	0	26	29	1.55
546107--546145	21	1.9	21	89	5	62	33	23	0	43	1.54
556430--556643	79	2.7	79	81	4	218	32	15	26	25	1.96
556597--556668	28	2.6	28	100	0	144	25	23	31	19	1.98
556521--556746	107	2.1	107	84	6	289	30	16	27	25	1.97
556625--556800	79	2.2	79	83	4	230	30	15	26	27	1.96
556754--556862	50	2.2	50	88	1	157	41	12	22	23	1.88
557874--557898	13	1.9	13	100	0	50	36	16	16	32	1.90
557963--557987	13	1.9	13	100	0	50	32	16	16	36	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
563369--563722	42	8.5	41	70	13	206	39	12	25	21	1.89
563369--563722	41	8.5	41	71	12	222	39	12	25	21	1.89
563476--563727	85	2.9	85	80	5	267	41	10	25	22	1.86
563694--564244	61	9.1	61	83	3	639	27	19	27	25	1.99
563694--564244	243	2.3	243	83	5	693	27	19	27	25	1.99
564132--564323	55	3.4	54	80	10	181	25	19	26	28	1.99
565397--565449	1	53.0	1	76	0	52	1	7	1	88	0.65
565397--565449	18	2.9	17	86	13	63	1	7	1	88	0.65
565397--565449	10	5.3	10	84	6	63	1	7	1	88	0.65
574067--574412	79	4.4	79	78	8	330	35	15	22	27	1.93
574145--574203	28	2.0	28	87	9	82	33	16	23	25	1.96
574067--574413	158	2.2	158	80	8	393	35	14	22	27	1.94
576757--576884	62	2.0	63	86	4	179	42	16	13	28	1.85
580106--580169	31	2.1	31	82	11	78	75	6	6	12	1.19
584325--584498	52	3.3	52	95	0	303	29	18	17	35	1.94
584325--584518	104	1.9	104	87	2	291	30	18	17	34	1.94
584507--584531	13	1.9	13	100	0	50	36	16	16	32	1.90
584574--584629	20	2.6	22	80	11	71	44	14	10	30	1.79
585447--586556	92	12.0	92	90	4	1669	31	18	25	25	1.97
586211--586283	22	3.1	22	64	21	58	30	20	26	23	1.99
586561--586763	33	6.2	33	88	7	299	19	17	35	27	1.94
586554--586755	65	3.1	64	88	9	295	18	17	34	29	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
586554--586755	99	2.1	96	91	7	329	18	17	34	29	1.94
586766--588029	34	37.8	34	78	12	1060	33	12	33	20	1.90
586901--586961	28	2.2	28	84	0	86	32	13	31	22	1.92
586771--588029	167	7.5	166	78	10	1023	33	12	33	20	1.90
586746--587831	470	2.3	470	86	5	1520	33	12	34	20	1.90
586771--587751	96	9.8	96	75	13	544	33	12	33	20	1.90
586766--588000	432	2.8	434	85	7	1561	33	12	33	20	1.90
587805--587865	27	2.3	27	85	0	86	31	11	36	21	1.89
587567--588059	98	4.9	98	80	7	453	32	13	34	20	1.91
587452--588033	198	2.9	197	84	8	623	31	12	34	20	1.90
587865--588173	31	9.6	34	82	9	151	33	16	30	20	1.94
587941--588343	63	6.4	64	87	4	475	29	17	30	22	1.97
588003--588342	31	10.9	31	83	3	382	29	17	29	24	1.97
587904--588343	31	14.0	30	77	13	343	30	17	30	22	1.96
589276--589317	12	3.4	12	81	12	50	0	9	7	83	0.81
589285--589318	17	2.0	17	88	0	50	0	8	8	82	0.85
596505--596737	52	4.5	52	96	0	394	30	17	15	36	1.91
599765--600057	60	5.0	54	75	16	183	27	27	19	25	1.99
599741--600207	183	2.6	182	84	5	581	26	27	18	27	1.98
599741--600237	61	8.2	61	80	6	528	26	27	18	27	1.98
600265--600464	61	3.3	60	87	3	267	27	25	19	28	1.98
600100--600415	163	2.0	161	85	2	436	25	27	17	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
601056--601085	13	2.3	13	94	0	51	33	16	10	40	1.82
603416--603803	79	4.9	75	78	11	285	26	25	15	32	1.95
603464--603803	160	2.1	158	80	8	370	25	25	16	32	1.96
607385--607468	13	5.5	13	71	28	60	35	17	13	33	1.89
607393--607489	19	5.8	18	72	27	97	37	17	12	32	1.87
607385--607487	32	3.2	32	98	0	197	35	18	12	33	1.89
607519--607566	21	2.3	22	78	10	64	35	16	16	31	1.92
610359--610384	13	2.0	13	100	0	52	38	15	15	30	1.88
612608--612657	21	2.3	22	79	3	57	58	4	16	22	1.55
614455--614485	15	2.1	15	93	0	53	48	16	22	12	1.80
616563--616601	13	3.0	13	92	0	69	35	17	15	30	1.91
616721--616766	21	2.2	20	81	11	58	32	19	4	43	1.71
620998--621068	31	2.6	25	73	23	70	38	2	5	53	1.39
621000--621059	31	1.9	31	96	0	111	40	3	3	53	1.34
624448--624484	4	9.2	4	100	0	74	0	24	0	75	0.80
625260--625290	2	15.5	2	100	0	62	48	0	0	51	1.00
626936--626973	12	3.0	13	84	3	51	65	0	0	34	0.93
628676--628751	37	2.1	37	92	0	125	38	13	14	34	1.85
630244--630287	4	11.5	4	83	9	56	77	0	20	2	0.88
630251--630287	15	2.5	15	90	0	56	81	0	18	0	0.70
630702--630754	28	1.9	27	85	11	72	64	7	5	22	1.41
636643--636676	15	2.3	15	89	0	50	23	8	14	52	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
638130--638301	76	2.3	74	81	7	179	44	16	13	25	1.84
638139--638301	74	2.2	75	81	8	181	44	16	13	25	1.84
641186--641250	33	2.0	33	87	6	96	33	16	13	35	1.89
646936--647855	61	15.1	60	80	5	884	25	27	19	28	1.98
646936--647855	244	3.8	244	89	1	1301	25	27	19	28	1.98
647905--648139	42	5.5	42	74	9	188	21	22	14	41	1.89
647847--648140	87	3.4	85	75	10	256	20	24	13	42	1.87
648753--648883	49	2.7	50	85	2	176	24	18	16	41	1.90
650380--650436	13	3.9	13	76	24	60	35	14	17	33	1.90
650360--650457	32	3.0	32	96	1	178	34	12	17	35	1.87

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