genome.fa.s258.2.7.7.80.10.50.1000.3.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: Scaffold258
Parameters: 2 7 7 80 10 50 1000
Length:  5730937

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   25   

This is table  3  of  25  ( 2900 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)
400592--400627	18	2.0	18	94	0	63	30	13	50	5	1.65
401264--401294	2	15.5	2	100	0	62	51	0	0	48	1.00
408307--408369	11	5.7	11	74	10	58	57	0	1	41	1.08
408963--409006	16	2.8	16	82	6	54	13	9	29	47	1.74
409321--409442	57	2.2	54	80	11	122	45	3	6	45	1.46
409687--409727	21	2.0	20	85	4	55	58	0	0	41	0.98
409763--409812	19	2.7	18	81	9	55	52	6	0	42	1.26
409913--409958	16	2.9	16	76	0	56	21	15	21	41	1.90
411460--411543	39	2.2	40	83	12	104	54	1	1	42	1.15
411489--411562	27	2.7	28	76	14	82	58	1	0	40	1.07
411489--411539	18	2.6	20	76	20	54	52	0	0	47	1.00
413511--413562	17	3.2	17	82	15	58	65	0	0	34	0.93
416857--416895	2	19.5	2	94	0	69	46	2	51	0	1.14
417065--417100	16	2.2	16	90	5	54	63	0	0	36	0.94
425984--426041	29	2.0	29	83	6	73	36	5	0	58	1.20
426058--426088	16	1.9	16	93	0	53	58	0	0	41	0.98
428473--428559	26	3.2	26	66	15	75	39	8	13	39	1.75
428447--428561	57	2.0	57	98	0	221	40	7	10	41	1.68
430391--430415	13	1.9	13	100	0	50	36	8	0	56	1.29
432186--432211	4	6.5	4	100	0	52	50	0	0	50	1.00
435556--435663	54	2.0	54	94	0	189	43	11	8	37	1.70
437479--437515	20	1.9	18	89	10	56	62	5	0	32	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
447286--447351	24	2.9	22	80	10	71	40	0	1	57	1.08
448570--448625	20	2.7	21	74	20	55	57	1	1	39	1.20
449469--449506	9	4.2	9	80	12	51	60	0	0	39	0.97
449466--449527	18	3.4	18	77	12	65	53	1	1	43	1.20
450634--450698	27	2.4	28	94	2	114	53	29	3	13	1.55
462979--463020	20	2.1	20	90	0	66	47	0	0	52	1.00
463061--463095	18	1.9	18	88	0	52	34	0	2	62	1.10
463149--463189	22	1.9	22	85	5	57	48	2	0	48	1.14
463134--463197	27	2.4	25	80	14	74	51	1	0	46	1.10
464537--464566	2	15.0	2	92	0	51	50	3	0	46	1.18
465123--465152	2	15.0	2	100	0	60	50	0	0	50	1.00
467072--467130	25	2.4	25	75	11	59	59	1	1	37	1.18
467230--467287	19	2.9	19	78	19	57	67	0	0	32	0.91
467266--467414	48	3.2	46	75	16	123	55	1	0	43	1.08
467324--467381	27	2.0	29	81	15	68	50	1	0	48	1.11
467360--467415	27	2.1	27	83	6	69	62	1	0	35	1.06
467359--467421	24	2.7	25	79	16	64	58	1	0	39	1.07
467359--467422	26	2.6	23	73	20	58	57	1	0	40	1.08
472767--472793	2	13.5	2	100	0	54	51	0	48	0	1.00
473559--473589	9	3.6	9	91	8	55	16	0	0	83	0.64
473553--473594	17	2.4	17	88	4	66	21	0	0	78	0.75
475682--475728	22	2.2	21	88	3	67	63	8	2	25	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
475679--475750	27	2.6	25	81	16	81	66	8	1	23	1.27
475732--475806	37	2.0	39	82	10	93	62	2	0	34	1.09
475777--475816	22	1.9	20	90	10	62	70	0	0	30	0.88
488084--488127	2	22.0	2	100	0	88	50	0	0	50	1.00
490005--490031	2	13.5	2	100	0	54	51	0	0	48	1.00
493195--493293	49	2.0	49	98	0	189	28	16	13	42	1.85
495238--495311	5	14.4	5	75	23	57	32	1	1	64	1.10
495243--495312	12	6.1	12	81	6	83	32	1	0	65	1.01
495243--495312	17	4.1	17	82	15	90	32	1	0	65	1.01
495210--495311	40	2.5	40	84	9	120	32	1	1	63	1.16
495216--495314	23	4.6	22	75	19	84	33	1	2	63	1.12
495269--495320	12	4.4	12	75	4	52	36	1	0	61	1.07
495488--495522	18	1.9	18	88	0	52	62	0	0	37	0.95
495800--495826	6	4.5	6	100	0	54	81	0	0	18	0.69
499702--499759	14	4.0	15	73	22	52	41	3	8	46	1.51
499960--499999	19	2.1	19	85	0	53	45	5	0	50	1.23
500808--500841	17	1.9	18	94	5	61	67	0	0	32	0.91
503429--503459	4	7.8	4	100	0	62	77	0	22	0	0.77
504022--504062	6	6.8	6	94	0	73	17	65	14	2	1.37
507138--507163	2	13.0	2	100	0	52	50	0	0	50	1.00
507163--507207	2	22.5	2	86	0	63	4	2	44	48	1.35
509001--509035	6	6.2	6	87	12	56	0	14	0	85	0.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
509004--509035	11	2.9	11	95	0	55	0	12	0	87	0.54
513470--513584	57	2.0	57	93	0	194	24	6	22	46	1.76
514885--514919	2	17.5	2	100	0	70	0	48	0	51	1.00
514919--514957	2	19.5	2	100	0	78	48	0	0	51	1.00
515157--515212	29	2.0	27	82	6	67	60	0	1	37	1.07
515848--515890	20	2.2	20	100	0	86	13	20	39	25	1.90
523929--523973	17	2.6	17	89	0	63	44	0	0	55	0.99
531591--531664	32	2.3	32	85	2	94	52	4	1	41	1.28
534457--534490	10	3.3	11	92	8	54	35	0	0	64	0.94
543894--543934	2	20.5	2	100	0	82	51	0	0	48	1.00
548868--548929	31	2.0	30	84	9	81	66	4	4	24	1.31
549379--549405	6	4.5	6	100	0	54	14	0	66	18	1.25
551577--551609	2	16.5	2	100	0	66	48	0	0	51	1.00
555385--555431	18	2.6	17	75	21	51	57	0	0	42	0.98
555395--555451	24	2.4	24	85	11	73	52	0	0	47	1.00
555395--555464	24	2.9	24	83	10	63	54	1	0	44	1.09
556017--556059	22	2.0	23	86	9	63	27	6	13	51	1.67
557436--557470	15	2.2	17	90	10	56	45	5	5	42	1.51
563145--563179	18	1.9	18	88	0	52	31	2	0	65	1.07
563637--563666	14	2.1	14	93	0	51	33	3	0	63	1.11
564520--564551	2	16.5	2	93	6	57	53	0	0	46	1.00
564993--565034	2	21.0	2	95	0	75	47	0	50	2	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
565896--565930	17	2.0	18	88	5	54	31	2	0	65	1.07
567201--567247	21	2.1	23	85	14	64	36	0	2	61	1.08
567790--567814	12	2.1	12	100	0	50	0	60	0	40	0.97
571317--571416	33	3.0	33	92	0	164	24	11	36	29	1.89
571346--571403	20	3.2	20	64	31	58	25	10	34	29	1.89
571715--571754	19	2.0	20	86	13	57	57	0	0	42	0.98
571718--571802	23	3.4	24	79	9	82	56	3	0	40	1.16
571705--571779	23	3.3	22	77	19	66	52	0	0	48	1.00
571880--571949	26	2.6	27	79	4	70	57	2	0	40	1.14
584264--584533	106	2.5	105	82	4	319	45	6	4	43	1.50
587326--587695	186	2.0	186	99	0	731	22	19	13	44	1.85
591847--591880	12	2.8	12	86	4	50	32	0	11	55	1.36
591871--591928	30	1.9	31	89	3	91	37	1	10	50	1.47
591935--592027	43	2.3	41	88	7	136	46	7	3	43	1.48
595712--595789	14	5.6	14	73	15	72	50	0	0	50	1.00
595712--595789	25	3.3	25	79	15	78	50	0	0	50	1.00
598177--598214	19	2.0	20	89	5	60	55	0	0	44	0.99
598387--598438	24	2.0	24	85	10	68	44	0	0	55	0.99
599796--599837	6	7.0	6	97	0	57	23	0	59	16	1.37
599797--599837	12	3.4	12	93	0	64	24	0	58	17	1.38
604554--604597	23	1.9	24	90	9	74	52	0	4	43	1.22
606952--606997	20	2.3	20	85	7	58	60	0	4	34	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
610381--610420	15	2.5	16	88	8	55	57	0	2	40	1.12
610381--610423	16	2.6	17	85	10	63	55	0	2	41	1.12
610993--611065	20	3.6	20	81	3	101	35	13	19	31	1.91
611011--611086	21	3.7	21	80	3	100	42	11	17	28	1.84
610993--611086	41	2.3	41	98	0	179	39	12	18	29	1.88
611125--611150	13	2.0	13	100	0	52	38	15	15	30	1.88
615213--615243	15	2.1	15	93	0	53	48	16	22	12	1.80
617258--617335	20	3.6	21	73	15	70	25	12	16	44	1.83
617322--617360	13	3.0	13	96	0	69	30	17	15	35	1.91
617481--617527	21	2.3	21	79	20	55	34	23	4	38	1.74

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   25