genome.fa.s330.2.7.7.80.10.50.1000.5.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: Scaffold330
Parameters: 2 7 7 80 10 50 1000
Length:  1763736

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

This is table  5  of  14  ( 1568 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)
488417--488455	20	2.1	18	85	9	51	25	12	10	51	1.71
489378--489474	1	97.0	1	69	0	59	84	0	13	2	0.71
489378--489473	7	13.6	7	80	13	83	84	0	13	2	0.71
489379--489474	17	5.4	17	81	14	106	84	0	13	2	0.71
489378--489474	38	2.7	34	79	15	124	84	0	13	2	0.71
489377--489471	18	5.0	19	79	14	83	83	0	14	2	0.75
489587--489960	90	4.2	89	82	1	408	26	25	16	31	1.97
490204--490285	36	2.3	35	79	6	92	17	23	12	47	1.80
490330--490496	88	1.9	87	82	3	212	22	22	13	41	1.88
490457--490554	44	2.2	44	82	7	119	21	20	18	39	1.92
490619--492369	42	41.3	42	72	5	840	18	26	17	36	1.93
490611--492336	85	20.4	84	71	9	596	18	26	17	36	1.93
490608--492336	127	13.6	127	78	5	1310	18	26	17	36	1.93
491849--492266	172	2.4	168	78	8	403	17	27	17	37	1.93
492350--492604	83	3.1	83	71	10	207	19	29	16	34	1.94
492361--493222	42	20.6	42	72	8	262	20	29	16	34	1.94
492621--493137	84	6.2	85	76	9	355	19	28	16	35	1.94
492526--493244	126	5.7	126	72	9	367	19	29	16	34	1.94
493468--493795	85	3.9	84	81	4	320	15	26	14	43	1.85
493653--493787	42	3.1	43	64	15	98	17	29	11	42	1.83
493474--493830	171	2.1	171	83	4	434	16	27	14	41	1.87
493510--493839	85	3.9	86	80	7	323	16	27	13	42	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
494512--494559	21	2.3	21	85	0	60	35	39	14	10	1.80
494511--494550	21	1.9	21	94	0	71	32	42	12	12	1.80
498216--498267	19	2.6	21	90	6	81	42	13	15	28	1.85
498320--498345	13	2.0	13	100	0	52	30	15	15	38	1.88
500703--500877	51	3.4	50	82	7	208	30	26	12	31	1.92
500855--501227	79	4.7	79	93	0	604	25	26	16	31	1.96
501182--501254	28	2.6	28	86	0	92	21	28	20	28	1.98
501212--501361	79	1.9	79	86	2	212	27	26	12	34	1.92
500765--501305	237	2.3	238	72	11	523	27	26	14	32	1.95
503759--503783	13	1.9	13	100	0	50	36	16	16	32	1.90
503739--503805	33	2.0	33	85	0	89	35	11	11	40	1.79
503846--503870	13	1.9	13	100	0	50	32	16	16	36	1.90
503879--504006	52	2.5	52	94	3	224	33	17	17	30	1.94
517677--517749	12	6.9	11	76	13	57	83	10	1	4	0.84
517690--517753	6	10.3	6	80	12	76	84	14	0	1	0.70
517690--517749	19	3.1	19	84	13	86	85	13	0	1	0.69
517690--517752	33	1.9	32	90	3	99	84	14	0	1	0.71
517800--517829	15	2.0	15	100	0	60	20	13	46	20	1.83
518845--519270	110	3.7	110	79	11	455	27	27	20	24	1.99
518847--519280	55	7.5	59	79	10	402	27	27	20	25	1.99
522127--522168	12	3.5	12	93	0	75	23	23	0	52	1.47
522538--522724	51	3.6	51	83	6	243	29	26	12	31	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
522735--523014	79	3.6	78	92	3	465	25	28	16	29	1.97
522968--523040	28	2.6	28	91	0	110	21	31	19	27	1.97
522998--523173	79	2.2	79	83	6	214	28	25	13	32	1.94
527506--527539	15	2.3	15	90	5	52	32	14	2	50	1.58
527968--528011	3	14.7	3	85	0	61	27	31	2	38	1.69
528894--529482	166	3.6	165	84	5	717	31	10	7	50	1.64
528983--529619	330	1.9	330	83	4	809	32	9	8	49	1.65
531447--531477	15	2.0	16	93	6	55	64	0	3	32	1.09
535687--535817	52	2.5	52	84	0	163	30	19	10	38	1.86
538015--538177	70	2.3	70	81	0	191	27	20	9	41	1.84
539057--539129	20	3.6	21	81	5	78	39	9	17	32	1.82
542283--542307	13	1.9	13	100	0	50	32	16	16	36	1.90
543837--544103	90	3.0	90	90	2	409	30	16	15	37	1.90
546455--546522	19	3.9	19	78	21	85	35	11	14	38	1.83
546457--546519	32	2.0	32	96	0	117	34	12	15	36	1.86
546476--546500	13	1.9	13	100	0	50	36	16	16	32	1.90
546562--546587	13	2.0	13	100	0	52	30	15	15	38	1.88
546542--546608	33	2.0	33	88	0	98	25	14	16	43	1.86
548944--549321	51	7.4	51	73	11	274	30	24	12	32	1.92
549054--549087	17	2.0	17	94	0	59	23	38	23	14	1.92
549305--549379	27	2.7	28	87	2	98	25	34	18	21	1.96
549332--549536	78	2.6	79	85	2	270	24	28	16	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
558717--559290	79	7.3	78	80	2	504	36	9	22	30	1.87
561903--561965	33	1.9	33	86	0	90	26	12	19	41	1.87
562025--562062	20	1.9	20	100	0	76	31	10	21	36	1.87
562494--562628	34	3.9	35	87	9	188	35	10	23	30	1.88
562494--562628	69	1.9	69	86	10	195	35	10	23	30	1.88
562980--563101	51	2.4	52	83	4	149	42	11	16	29	1.83
563180--563235	20	2.7	21	86	5	78	32	12	10	44	1.77
563180--563253	21	3.6	20	85	3	76	31	13	12	43	1.81
566706--566763	20	2.7	22	76	5	66	37	10	20	31	1.86
566813--566863	20	2.5	21	83	3	68	31	15	9	43	1.80
572982--573226	124	2.0	124	96	0	454	25	20	27	26	1.99
574741--574901	51	3.2	51	85	0	198	41	11	14	31	1.82
575671--575767	48	2.0	48	100	0	194	36	14	14	35	1.87
575801--575872	33	2.2	33	82	5	83	37	19	11	31	1.87
577681--577744	20	3.5	20	68	27	70	37	14	15	32	1.87
577680--577744	33	2.0	33	96	0	121	36	13	15	33	1.87
579021--579134	51	2.2	50	80	13	135	31	7	28	31	1.86
578838--579300	130	3.6	130	83	8	592	32	11	25	30	1.91
579361--579437	28	2.8	30	77	15	85	27	19	29	23	1.98
579239--579554	108	3.0	107	90	0	463	33	16	24	25	1.96
579470--579545	28	2.7	28	85	4	91	27	19	30	22	1.98
579529--579707	51	3.5	51	79	2	191	34	13	24	27	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
582036--582063	13	2.2	13	100	0	56	39	14	14	32	1.86
582015--582084	33	2.1	33	86	0	95	40	14	18	27	1.89
582048--582101	20	2.7	20	83	13	67	46	12	16	24	1.82
582117--582146	13	2.3	13	94	0	51	40	16	16	26	1.90
582721--582820	41	2.4	41	85	6	123	44	11	27	18	1.83
582810--582940	42	3.1	40	76	10	118	44	13	23	18	1.85
582851--582979	45	3.0	43	78	8	129	42	12	24	20	1.86
582978--583214	61	4.0	60	82	5	286	28	20	25	25	1.99
583147--583405	94	2.7	94	89	1	376	28	18	27	26	1.98
583330--583610	116	2.4	118	84	7	364	27	20	24	27	1.99
583330--583631	55	5.3	56	82	8	351	26	20	25	27	1.99
584706--584758	16	3.2	16	83	2	52	0	9	9	81	0.89
584720--584787	8	7.9	8	76	15	64	1	2	13	82	0.86
584720--584777	25	2.2	25	84	6	71	0	3	13	82	0.79
584731--584787	17	3.3	17	80	11	62	1	1	14	82	0.83
584731--584783	25	2.2	24	83	10	63	1	1	13	83	0.82
595073--595101	4	7.2	4	100	0	58	75	0	0	24	0.80
597167--597626	130	3.6	130	83	8	566	32	11	26	29	1.92
597487--597593	51	2.1	51	85	3	144	30	9	28	31	1.88
597692--597766	27	2.7	29	83	8	102	25	20	32	22	1.98
597567--597829	107	2.5	105	84	6	332	33	14	24	27	1.94
597850--597947	51	1.9	50	83	4	124	35	12	25	26	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
600277--600305	13	2.2	13	100	0	58	37	13	17	31	1.89
600256--600363	33	3.1	33	77	16	117	41	16	15	25	1.88
600292--600363	20	3.6	20	78	14	85	41	16	16	25	1.89
604843--604868	13	2.0	13	100	0	52	38	15	7	38	1.76
608321--611846	740	4.8	739	89	1	5235	32	14	19	33	1.92
613162--613204	21	2.0	21	86	0	59	13	4	27	53	1.60
615280--615325	21	2.3	21	81	7	51	19	13	17	50	1.78
622006--622059	20	2.7	20	88	5	74	37	20	11	31	1.88
624188--624330	31	4.6	30	84	9	182	25	30	18	25	1.98
624188--624363	62	2.8	60	82	9	194	25	28	17	27	1.98

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