genome.fa.s50.2.7.7.80.10.50.1000.2.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: Scaffold50
Parameters: 2 7 7 80 10 50 1000
Length:  2541760

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

This is table  2  of  16  ( 1865 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)
367739--369460	474	3.6	474	82	4	2035	30	18	13	36	1.90
371072--371169	51	1.9	51	85	4	135	50	0	34	15	1.44
371105--371186	42	2.0	42	85	0	110	45	1	39	14	1.53
376121--379942	478	8.1	477	84	3	4574	32	17	13	36	1.89
380222--380246	13	1.9	13	100	0	50	32	16	16	36	1.90
380230--380287	19	3.0	19	84	2	80	32	17	15	34	1.91
380330--380354	13	1.9	13	100	0	50	36	16	16	32	1.90
380310--380374	33	2.0	33	85	11	89	33	16	18	30	1.94
383350--383375	13	2.0	13	100	0	52	38	15	15	30	1.88
383332--383395	33	2.0	32	87	3	92	39	18	14	28	1.90
391860--391916	20	3.0	20	84	5	82	35	14	17	33	1.90
394407--394554	74	2.0	74	89	0	224	31	15	24	29	1.96
399658--399709	21	2.6	19	80	14	59	51	0	19	28	1.47
399815--399840	13	2.0	13	100	0	52	30	15	15	38	1.88
407133--407350	79	2.8	77	82	8	269	32	13	24	29	1.93
407286--407400	51	2.3	50	81	14	137	34	9	23	32	1.87
407445--407664	51	4.3	51	76	5	203	33	12	25	29	1.92
409973--410084	20	5.6	19	78	8	116	41	15	18	25	1.89
409973--410085	40	2.8	39	87	2	154	41	15	18	24	1.89
412121--412173	20	2.7	19	75	21	56	24	1	20	52	1.56
414501--414553	19	2.7	20	88	2	72	28	16	18	35	1.93
414481--414553	20	3.7	19	81	7	76	27	16	17	38	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
414582--414635	20	2.7	19	88	11	74	31	14	18	35	1.91
416586--416738	81	1.9	81	93	1	263	32	22	9	35	1.87
418162--418230	20	3.7	20	78	21	78	31	17	14	36	1.90
418260--418333	19	3.7	19	89	5	94	37	18	16	27	1.92
418661--419803	159	7.2	158	68	12	445	31	18	13	36	1.90
420521--420627	20	5.7	19	72	22	84	28	14	14	43	1.83
420558--420588	13	2.4	13	94	0	53	29	12	16	41	1.85
420538--420607	33	2.1	33	94	0	122	27	15	14	42	1.86
422920--423154	102	2.3	102	83	5	278	30	24	11	33	1.91
422922--423151	51	4.5	51	78	7	216	30	23	12	33	1.91
423135--423213	27	2.9	27	83	7	97	26	32	16	24	1.96
423140--423236	28	3.5	27	85	10	117	26	31	15	25	1.96
423195--423369	79	2.2	79	79	6	194	28	24	14	33	1.94
425434--425467	12	2.8	12	90	0	50	17	0	8	73	1.08
435716--435766	19	2.7	18	85	11	59	86	5	1	5	0.78
435716--435778	12	5.1	12	80	14	56	85	4	4	4	0.82
436740--437014	61	4.6	60	79	10	291	26	29	18	26	1.98
436771--437012	121	2.0	122	85	8	332	26	28	19	26	1.99
436914--437089	93	1.8	96	85	9	252	27	31	17	23	1.97
437013--437281	55	4.6	59	81	11	315	25	29	20	24	1.99
436729--437423	269	2.5	268	85	6	896	25	29	19	25	1.98
437157--437583	154	2.8	152	87	4	573	24	29	19	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
437310--437435	60	2.1	60	83	7	157	25	30	17	26	1.97
437466--437754	61	4.9	61	82	7	319	24	28	21	25	1.99
437466--437753	122	2.4	116	86	5	373	24	27	21	25	1.99
437737--437870	42	3.1	42	83	3	151	17	24	14	44	1.85
438726--438751	13	2.0	13	100	0	52	30	15	15	38	1.88
438842--438916	19	3.8	20	85	8	82	32	14	13	40	1.85
438864--438916	19	2.7	20	91	5	90	35	13	11	39	1.80
441201--441438	51	4.6	51	83	3	300	29	24	11	34	1.90
441201--441438	102	2.3	103	87	3	338	29	24	11	34	1.90
441445--441648	79	2.6	78	90	4	311	26	28	15	29	1.96
441526--441756	107	2.2	107	81	4	270	26	26	15	31	1.96
441605--441677	28	2.6	28	91	0	119	20	30	21	27	1.98
441635--441810	79	2.2	79	87	2	246	27	25	15	32	1.95
441369--441803	186	2.3	184	77	9	441	28	26	14	31	1.95
443873--443899	4	6.8	4	100	0	54	22	0	0	77	0.76
455178--455452	61	4.6	60	82	9	284	25	28	19	26	1.99
455178--455452	121	2.3	119	80	13	325	25	28	19	26	1.99
455481--455768	61	4.8	61	86	6	371	26	26	20	26	1.99
455794--456008	119	1.8	116	81	10	267	20	24	13	41	1.88
456560--456613	19	2.7	20	83	13	67	37	11	18	33	1.86
456765--456794	13	2.3	13	94	0	51	30	10	16	43	1.81
459070--459307	51	4.6	51	83	4	302	29	24	11	34	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
459070--459307	102	2.3	103	87	5	340	29	24	11	34	1.91
459314--459519	79	2.6	79	90	4	310	27	29	14	29	1.95
459474--459546	28	2.6	29	91	4	114	23	31	19	26	1.98
459395--459625	107	2.2	107	83	6	281	27	27	14	30	1.95
459504--459672	79	2.1	79	87	2	241	28	24	14	31	1.94
459238--459672	186	2.3	185	78	9	472	28	26	14	31	1.94
460820--460907	20	4.7	20	70	23	75	27	15	14	42	1.87
460837--460907	34	2.1	33	89	2	106	28	16	14	40	1.87
460820--460927	54	2.0	53	84	8	139	28	14	13	42	1.85
463209--463443	51	4.6	51	79	3	242	29	24	12	33	1.92
463426--463478	27	2.0	27	92	0	88	24	30	16	28	1.97
463534--463606	28	2.6	28	88	0	110	20	28	21	28	1.98
463377--463685	107	2.9	107	75	10	310	27	26	14	32	1.95
463564--463736	79	2.2	80	85	4	226	28	24	12	34	1.92
468397--470329	965	2.0	965	94	0	3411	31	20	23	24	1.98
477059--477107	23	2.2	22	85	10	64	85	2	8	4	0.79
477059--477109	11	5.0	10	79	9	50	84	1	9	3	0.83
478097--478331	61	3.9	60	81	8	298	26	27	20	25	1.99
478097--478340	121	2.0	122	85	7	336	25	27	19	27	1.99
478344--478599	55	4.5	56	81	9	254	25	30	19	23	1.98
478061--478751	269	2.5	271	83	6	862	25	29	19	26	1.98
478486--478900	154	2.7	151	85	7	542	25	28	19	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
478764--479018	54	4.5	55	79	12	230	27	26	20	25	1.99
478214--478958	208	3.5	208	75	12	748	25	28	19	25	1.99
478794--479080	60	4.9	61	81	8	294	26	25	20	27	1.99
478214--479021	423	1.9	423	87	4	1182	25	28	19	25	1.99
478792--479079	121	2.5	115	86	7	377	26	25	20	27	1.99
479104--479196	42	2.2	42	86	3	125	16	23	15	45	1.85
479968--480040	21	3.6	21	79	7	96	41	12	16	30	1.85
479967--480059	40	2.3	40	98	0	177	38	11	17	32	1.86
479989--480060	19	3.7	19	78	7	90	36	11	18	34	1.86
480194--480282	20	4.8	20	70	23	68	29	13	14	42	1.84
480212--480241	13	2.3	13	94	0	51	30	10	16	43	1.81
481835--481860	13	2.0	13	100	0	52	30	15	15	38	1.88
487609--487636	13	2.2	13	100	0	56	39	17	14	28	1.89
487591--487656	33	2.0	33	88	5	98	39	13	16	30	1.87
499520--499768	52	5.0	49	80	6	223	31	17	26	24	1.97
499520--499768	101	2.5	101	83	3	299	31	17	26	24	1.97
499616--499768	49	3.1	50	85	5	211	30	16	26	26	1.97
502987--503136	19	8.9	17	73	26	117	36	17	12	34	1.88
503006--503062	13	3.9	13	76	24	60	33	17	14	35	1.90
502985--503081	32	3.0	32	96	0	176	36	16	13	34	1.88
503019--503134	51	2.2	52	98	1	225	35	18	12	33	1.88
503070--503133	32	2.0	33	96	3	121	34	18	12	34	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
503089--503113	13	1.9	13	100	0	50	32	16	16	36	1.90
503486--503782	48	6.9	40	70	18	204	28	18	26	26	1.98
503525--503992	48	9.8	48	74	13	371	29	17	26	26	1.98
503437--503781	87	4.0	87	90	1	539	28	18	26	26	1.98
503700--503995	52	5.8	51	80	10	286	30	17	27	25	1.98
503704--503988	155	1.8	152	86	5	412	30	17	27	24	1.97
503992--504431	33	13.8	32	77	12	372	34	12	32	20	1.90
503992--504506	33	15.8	32	73	15	317	34	13	32	20	1.91
504058--504431	60	6.0	61	79	12	377	34	13	31	20	1.91
504378--504531	75	2.1	75	100	0	308	32	14	30	22	1.94

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