genome.fa.s381.2.7.7.80.10.50.1000.4.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: Scaffold381
Parameters: 2 7 7 80 10 50 1000
Length:  1193157

Tables:   1   2   3   4   5   6   7   8   

This is table  4  of  8  ( 878 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)
475148--475173	13	2.0	13	100	0	52	38	15	15	30	1.88
477067--477108	22	1.9	22	85	9	59	40	0	0	59	0.97
477255--477288	6	5.7	6	100	0	68	29	0	0	70	0.87
480222--480286	16	4.0	16	75	9	60	38	3	7	50	1.47
480197--480285	32	2.8	32	81	8	99	34	3	10	51	1.52
483521--483567	23	2.0	23	92	8	78	46	19	0	34	1.50
487260--487323	28	2.3	28	97	0	119	28	3	25	43	1.69
490939--491027	32	2.8	32	75	6	99	43	28	19	8	1.80
490934--491054	16	7.6	16	76	2	75	45	31	16	6	1.73
491549--491578	16	1.9	15	93	6	51	53	3	16	26	1.59
492488--492561	16	4.6	16	84	0	94	41	29	16	12	1.84
492488--492586	48	2.1	48	81	7	112	46	24	16	13	1.82
497175--497440	145	1.8	146	86	4	385	27	12	9	50	1.70
498357--498400	13	3.2	13	78	12	52	79	2	18	0	0.83
499844--500183	155	2.2	155	82	2	396	26	13	16	43	1.85
499905--500251	155	2.2	155	81	2	383	26	14	17	41	1.88
503265--503450	79	2.3	77	80	6	219	36	12	24	27	1.91
503295--503471	79	2.2	79	82	5	223	31	16	26	25	1.96
503512--503731	51	4.3	51	81	4	210	31	11	25	30	1.91
503615--503921	157	1.9	158	88	0	463	30	13	26	28	1.94
503823--504168	79	4.4	79	95	0	606	30	13	27	28	1.94
505552--505706	35	4.5	35	94	3	264	18	30	5	45	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
505616--505681	21	3.5	21	67	26	65	19	31	6	42	1.76
505713--505741	12	2.3	13	94	5	51	27	0	3	68	1.05
509262--509311	16	2.6	20	70	29	54	26	14	12	48	1.78
509273--509306	16	2.1	16	100	0	68	20	14	11	52	1.73
510605--511438	426	2.0	415	87	6	1165	39	8	11	40	1.73
513011--513052	18	2.3	18	87	4	57	57	0	0	42	0.99
513574--513613	2	20.0	2	84	0	53	42	0	7	50	1.30
513698--513727	2	15.0	2	100	0	60	50	0	0	50	1.00
520744--520813	16	4.4	16	75	8	72	48	4	10	37	1.56
521031--521061	2	15.0	2	93	6	53	48	3	0	48	1.17
521361--521400	17	2.4	16	83	4	53	55	2	0	42	1.13
522798--522869	20	3.5	20	72	12	67	20	8	29	41	1.81
523187--523222	14	2.6	14	91	8	56	58	0	0	41	0.98
523217--523257	21	1.9	22	95	5	75	36	0	0	63	0.95
525326--525383	23	2.5	24	75	13	59	31	5	3	60	1.35
525725--525752	2	14.0	2	100	0	56	50	0	0	50	1.00
526181--526220	17	2.3	19	79	16	50	45	2	0	52	1.14
526691--526740	18	2.7	18	82	11	57	52	2	2	44	1.24
531290--531504	119	1.8	119	93	0	376	50	8	6	34	1.58
531558--531611	23	2.4	22	81	3	72	40	3	9	46	1.54
533093--533130	20	1.9	20	94	0	67	36	23	10	28	1.88
533931--533961	16	1.9	16	93	0	53	25	19	9	45	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
542535--542570	17	2.2	16	90	5	54	33	0	0	66	0.92
543101--543161	17	3.5	18	80	10	65	65	1	32	0	1.02
545523--545586	23	2.7	23	82	2	65	1	21	1	75	0.98
546912--546938	2	13.5	2	100	0	54	48	0	0	51	1.00
547798--547838	22	1.9	21	90	5	64	60	0	0	39	0.96
549278--549335	27	2.1	27	83	0	71	36	5	1	56	1.32
549570--549607	20	1.9	20	88	0	58	52	2	2	42	1.29
552336--552382	18	2.7	18	80	9	53	40	2	2	55	1.24
552593--552638	20	2.2	22	84	7	60	34	0	2	63	1.07
552861--552901	15	2.9	15	75	17	52	51	0	4	43	1.23
554618--554677	29	2.1	27	87	6	84	50	0	0	50	1.00
555196--555264	19	3.6	19	78	3	68	46	7	1	44	1.40
555194--555331	2	70.0	2	72	5	75	40	5	5	47	1.51
555465--555515	21	2.5	20	80	6	57	62	1	0	35	1.06
555472--555514	20	2.1	21	86	4	61	58	2	0	39	1.11
557405--557454	16	2.9	16	80	13	55	48	0	0	52	1.00
561419--561457	16	2.4	16	83	8	53	69	2	0	28	1.02
564298--564336	5	7.4	5	91	2	51	76	0	20	2	0.90
564994--565035	22	1.9	22	85	9	59	38	0	2	59	1.10
565775--565808	2	17.0	2	100	0	68	50	0	0	50	1.00
566504--566544	18	2.3	18	86	0	55	39	0	4	56	1.21
571339--571407	20	3.3	20	76	11	68	55	0	4	40	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
572230--572256	4	6.8	4	100	0	54	22	0	0	77	0.76
572888--572919	13	2.5	13	95	5	57	71	0	0	28	0.86
572959--572989	2	15.5	2	100	0	62	48	0	0	51	1.00
573304--573331	8	3.5	8	100	0	56	67	0	0	32	0.91
573333--573375	21	2.0	21	86	0	59	37	0	0	62	0.95
573358--573418	25	2.6	25	82	15	85	54	0	0	45	1.00
573370--573430	12	4.9	12	74	20	54	57	1	0	40	1.08
573901--573955	21	2.6	21	74	8	58	47	0	0	52	1.00
574417--574459	19	2.3	19	88	4	61	51	2	0	46	1.13
574458--574496	16	2.5	16	88	12	55	71	0	0	28	0.86
574489--574527	20	2.0	20	90	10	62	51	2	0	46	1.14
578359--578409	21	2.4	22	96	3	95	15	0	11	72	1.12
578688--578720	13	2.5	13	90	0	57	66	0	0	33	0.92
578704--578736	16	1.9	17	88	11	50	69	0	0	30	0.88
578704--578737	17	1.9	18	88	5	52	70	0	0	29	0.87
581197--581243	23	2.0	22	88	8	67	40	4	0	55	1.19
581270--581312	19	2.3	19	88	4	61	55	0	0	44	0.99
581441--581480	21	1.9	21	85	10	55	40	2	0	57	1.12
587903--587981	42	1.9	42	87	7	117	34	7	1	56	1.35
589225--589299	20	3.8	20	78	0	87	30	13	16	40	1.86
589225--589302	40	2.0	39	87	2	111	30	12	16	39	1.86
592857--592902	15	3.0	15	90	3	65	76	2	0	21	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
592863--592942	8	9.7	9	80	15	52	73	3	0	22	0.99
592852--592942	7	11.2	8	77	20	68	71	3	0	25	1.01
592853--592942	22	4.1	23	70	24	70	72	3	0	24	1.00
592853--592946	23	4.0	23	68	27	63	72	3	0	24	0.99
593102--593264	88	1.9	88	93	0	281	28	17	10	43	1.82
594937--595094	68	2.3	69	87	4	230	31	20	8	39	1.84
595970--595999	14	2.1	14	100	0	60	26	23	23	26	2.00
601636--601711	32	2.4	32	97	0	143	26	19	21	32	1.97
601720--601744	13	1.9	13	100	0	50	36	16	16	32	1.90
601789--601840	13	3.5	13	73	26	50	36	17	13	32	1.89
601797--601861	19	3.7	19	75	23	79	38	16	12	32	1.86
601789--601859	32	2.2	32	97	0	133	36	18	12	32	1.88
602624--603070	49	9.0	49	86	2	554	33	16	25	24	1.96
602531--603070	98	5.4	98	82	3	575	33	16	25	24	1.96
602625--603070	147	3.0	150	85	2	630	33	16	25	23	1.96
603077--603181	29	3.6	29	72	13	99	19	19	29	32	1.96
603182--603340	34	4.6	36	79	6	152	39	11	30	18	1.86
603350--603813	30	16.1	29	81	9	479	18	16	33	31	1.93
603351--603809	57	8.0	57	89	5	622	18	16	33	32	1.93
603350--603812	87	5.4	85	85	7	478	18	16	33	31	1.93
605251--605311	6	9.7	6	86	10	61	0	0	18	81	0.68
605251--605323	7	8.9	8	81	15	71	1	0	16	82	0.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
605270--605327	19	3.1	19	83	14	75	1	0	13	84	0.70
605269--605325	15	4.2	13	81	16	62	1	0	12	85	0.66
619179--619411	52	4.5	52	89	2	378	28	18	18	34	1.94
619497--619548	19	2.7	19	93	0	95	40	17	11	30	1.85
621695--621809	19	6.7	19	76	22	119	33	11	18	37	1.86
621715--621817	32	3.2	32	98	0	197	33	12	17	36	1.88
621734--621790	13	3.9	13	76	24	60	35	14	15	35	1.88
621837--621875	20	2.0	20	100	0	78	41	12	15	30	1.85
628404--628946	79	6.9	79	88	1	750	33	13	25	27	1.94
628404--628946	157	3.4	156	90	2	782	33	13	25	27	1.94

Tables:   1   2   3   4   5   6   7   8