genome.fa.s40.2.7.7.80.10.50.1000.4.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: Scaffold40
Parameters: 2 7 7 80 10 50 1000
Length:  3440810

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   

This is table  4  of  24  ( 2833 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)
523914--524535	27	22.7	27	90	2	949	23	33	13	28	1.93
523914--524535	82	7.6	82	91	2	957	23	33	13	28	1.93
523914--524535	109	5.7	109	91	1	978	23	33	13	28	1.93
524521--524963	32	13.8	32	93	0	726	31	33	18	16	1.94
526211--526245	16	2.1	17	94	5	63	85	0	14	0	0.59
530275--530346	1	72.0	1	77	0	72	88	11	0	0	0.50
530278--530346	16	4.2	16	84	15	97	88	11	0	0	0.52
530275--530346	21	3.5	20	84	7	99	88	11	0	0	0.50
530277--530346	27	2.6	26	88	8	104	88	11	0	0	0.51
530276--530346	37	1.9	37	91	5	117	88	11	0	0	0.51
531727--531904	29	6.0	30	75	9	141	26	28	16	27	1.97
531789--531841	27	2.0	27	92	0	88	33	33	16	15	1.90
531881--531971	35	2.6	36	83	11	111	19	27	13	39	1.89
531945--532068	28	4.3	29	82	9	130	37	29	15	17	1.91
532088--532317	48	4.8	47	78	9	234	26	23	17	31	1.97
532188--532272	43	2.0	43	92	0	143	29	24	18	27	1.98
532231--532364	52	2.5	54	82	3	164	25	23	16	34	1.95
532235--532380	55	2.7	54	81	3	179	24	23	15	35	1.94
533220--533244	13	1.9	13	100	0	50	36	16	16	32	1.90
533200--533266	33	2.0	33	88	0	98	32	11	14	40	1.83
533307--533331	13	1.9	13	100	0	50	32	16	16	36	1.90
533340--533468	52	2.5	52	92	2	206	33	18	17	30	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
534485--534638	43	3.4	43	85	10	227	27	24	16	31	1.96
534500--534691	52	4.0	49	82	11	252	26	23	16	33	1.95
534592--534745	52	2.9	52	81	8	177	24	24	16	35	1.95
534592--534978	169	2.2	172	82	5	444	22	26	15	35	1.94
535341--535494	43	3.4	43	85	10	227	27	24	16	31	1.96
535356--535547	52	4.0	49	82	11	252	26	23	16	33	1.95
535448--535601	52	2.9	52	81	8	177	24	24	16	35	1.95
535448--535834	169	2.2	172	82	5	444	22	26	15	35	1.94
534398--536276	856	2.2	856	99	0	3740	26	25	17	30	1.97
536437--536503	33	2.0	33	88	0	98	34	11	13	40	1.81
536457--536481	13	1.9	13	100	0	50	36	16	16	32	1.90
536544--536568	13	1.9	13	100	0	50	32	16	16	36	1.90
536577--536701	52	2.4	52	95	0	223	36	18	17	28	1.94
543593--543652	20	2.9	21	80	7	61	33	1	1	63	1.14
544198--544267	36	1.9	36	88	0	104	31	20	15	32	1.94
544821--544907	22	3.9	22	73	10	77	36	1	2	59	1.17
544821--544909	23	3.9	23	69	16	69	37	1	2	59	1.17
544856--544907	24	2.2	24	86	6	72	32	1	1	63	1.16
544929--544974	23	2.0	22	84	12	58	69	0	0	30	0.89
548240--548348	20	5.8	19	76	16	104	30	15	11	43	1.81
548258--548327	33	2.1	33	91	0	113	30	17	11	41	1.84
548240--548347	53	2.0	53	87	3	155	30	15	11	42	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
548278--548308	13	2.4	13	100	0	62	29	16	16	38	1.90
549593--550280	183	3.8	180	83	8	822	25	28	20	26	1.99
549613--550279	247	2.7	244	87	5	930	24	28	20	26	1.99
549614--550280	123	5.4	120	81	7	716	24	28	20	26	1.99
550263--550604	43	7.8	43	76	10	293	21	28	11	38	1.88
550264--550598	46	7.6	45	75	14	240	21	28	11	38	1.88
551313--551406	20	4.7	20	85	5	111	29	17	11	41	1.84
551312--551407	40	2.4	40	84	8	133	30	17	11	40	1.85
553699--553866	51	3.3	51	82	2	221	29	22	13	35	1.91
553853--553918	28	2.4	28	89	0	96	21	28	22	27	1.99
553801--554187	108	3.6	108	84	2	501	26	24	14	34	1.94
553961--554034	28	2.7	27	81	10	96	22	31	20	25	1.98
554070--554140	28	2.6	27	82	8	81	22	29	19	28	1.98
554125--554244	51	2.4	51	87	8	181	29	28	12	30	1.93
554175--554321	79	1.9	79	81	5	181	26	29	14	29	1.95
554097--554334	130	1.8	130	83	3	318	26	26	13	32	1.94
556027--556367	123	2.8	123	86	7	462	42	2	1	53	1.26
557517--557665	79	1.9	79	90	0	235	36	14	22	26	1.93
557621--557697	28	2.8	27	92	7	120	24	19	32	23	1.97
557542--557744	107	1.9	107	81	2	246	32	14	26	26	1.95
557681--557796	51	2.3	51	90	0	187	31	12	25	30	1.93
560165--560240	30	2.5	30	89	4	118	40	19	15	23	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
560951--561136	89	2.1	90	88	3	277	44	5	15	34	1.71
561092--561207	57	2.0	58	93	1	198	38	9	20	31	1.85
561000--561289	144	2.0	146	87	2	415	42	7	17	31	1.78
561147--561489	88	3.9	87	85	3	418	41	8	15	33	1.78
561426--561596	67	2.5	70	93	2	285	42	8	18	30	1.81
561428--561605	70	2.6	69	87	6	245	42	8	17	30	1.80
564912--564986	20	3.8	20	83	0	105	32	13	13	41	1.83
570749--570966	79	2.8	79	83	4	278	36	14	23	25	1.93
570921--570994	28	2.6	29	85	8	91	31	17	27	24	1.97
570844--571041	107	1.9	107	82	4	256	33	13	25	27	1.94
570978--571093	51	2.3	51	82	5	137	31	11	26	31	1.91
571029--571202	79	2.2	79	83	2	215	29	14	28	27	1.96
573488--573595	20	5.8	19	76	18	102	42	14	14	27	1.85
573488--573595	53	2.0	53	87	3	155	42	14	14	27	1.85
573512--573577	33	2.0	33	100	0	132	39	15	18	27	1.90
573527--573557	13	2.4	13	100	0	62	38	16	16	29	1.90
577401--577455	20	2.7	22	89	10	82	32	12	12	41	1.81
586585--586693	9	11.9	9	74	16	82	80	13	3	1	0.92
586587--586683	28	3.3	29	83	11	108	80	13	4	2	0.95
586585--586692	17	6.1	17	74	18	71	80	13	3	1	0.93
586585--586693	53	2.2	48	81	8	119	80	13	3	1	0.92
587942--588468	28	18.5	28	86	4	669	29	30	17	22	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
588405--588473	32	2.2	32	89	5	106	30	30	17	21	1.96
588459--588538	38	2.1	39	88	2	117	41	16	11	31	1.83
588465--588549	38	2.2	38	83	4	109	38	17	11	31	1.86
588634--588811	48	3.8	48	86	1	225	20	25	17	35	1.95
588600--588811	94	2.3	95	82	4	252	20	25	18	35	1.95
589474--589534	20	3.0	20	82	2	77	32	13	13	40	1.82
597329--597356	2	14.0	2	100	0	56	50	0	0	50	1.00
597448--597504	19	2.9	19	82	15	55	33	0	5	61	1.18
599209--599242	16	2.1	17	88	5	52	88	0	8	2	0.62
599375--599553	87	2.1	85	81	6	213	25	7	51	15	1.69
599573--599733	42	4.0	42	90	6	244	21	6	48	22	1.74
599573--599757	42	4.7	39	89	5	202	21	7	48	22	1.74
599573--599733	78	2.0	81	87	7	238	21	6	48	22	1.74
600586--600626	2	20.5	2	100	0	82	51	0	0	48	1.00
601449--601508	24	2.6	23	81	7	68	61	1	0	36	1.06
601977--602019	22	2.0	22	86	9	61	41	0	0	58	0.98
602190--602219	13	2.3	13	100	0	60	56	0	0	43	0.99
602527--602559	16	2.1	16	94	0	57	15	0	0	84	0.61
603309--603336	13	2.2	13	100	0	56	53	0	7	39	1.28
603971--604003	16	2.2	15	89	10	50	57	3	0	39	1.14
604171--604228	23	2.6	21	78	8	62	44	1	1	51	1.21
604174--604228	11	4.9	11	77	4	56	47	1	1	49	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
604241--604348	50	2.2	49	81	8	121	43	0	6	50	1.28
604285--604338	21	2.6	21	85	8	67	44	0	3	51	1.19
604313--604368	15	3.8	15	75	20	55	44	0	7	48	1.30
604305--604377	28	2.6	28	86	4	103	45	0	5	49	1.25
604486--604527	20	2.1	20	90	0	66	40	0	2	57	1.12
604517--604549	16	2.1	16	88	11	50	39	0	12	48	1.40
604497--604639	10	15.2	10	63	27	55	43	0	4	51	1.26
604539--604656	18	6.4	18	79	10	105	44	1	4	50	1.31
604725--604783	18	3.2	18	73	20	59	61	3	1	33	1.23
605038--605091	18	3.0	18	71	10	56	50	0	5	44	1.25

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24