genome.fa.s295.2.7.7.80.10.50.1000.4.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: Scaffold295
Parameters: 2 7 7 80 10 50 1000
Length:  1524207

Tables:   1   2   3   4   5   6   7   8   9   10   

This is table  4  of  10  ( 1174 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)
406106--406177	28	2.6	28	86	4	92	25	18	33	23	1.97
406273--406298	13	2.0	13	100	0	52	38	15	15	30	1.88
406252--406318	33	2.0	33	88	0	98	43	16	14	25	1.86
406338--406405	19	3.9	18	76	23	83	38	14	11	35	1.83
406360--406384	13	1.9	13	100	0	50	32	16	16	36	1.90
406341--406403	32	2.0	32	96	0	117	36	15	12	34	1.86
406461--406517	21	2.7	21	97	0	105	36	19	10	33	1.86
407239--408004	55	13.5	55	86	6	784	24	20	28	26	1.99
407400--407484	26	3.2	26	66	21	75	16	18	35	29	1.93
407239--408004	225	3.4	224	86	5	989	24	20	28	26	1.99
408963--409021	12	5.4	11	76	13	59	0	1	13	84	0.69
408975--409004	9	3.4	9	95	4	53	0	0	20	80	0.72
418952--418977	13	2.0	13	100	0	52	30	15	15	38	1.88
419016--419088	20	3.6	20	81	9	76	30	16	13	39	1.87
419036--419091	20	2.8	20	89	5	78	30	16	14	39	1.88
419676--419719	21	2.1	21	83	8	54	25	31	4	38	1.76
421524--421549	13	2.0	13	100	0	52	38	15	15	30	1.88
423628--423658	15	2.1	15	93	0	53	12	22	16	48	1.80
425461--425505	21	2.1	21	84	8	56	22	20	4	53	1.63
427724--427749	13	2.0	13	100	0	52	30	15	15	38	1.88
431380--431451	28	2.6	28	86	4	92	26	19	31	22	1.97
431440--431724	52	5.4	52	67	16	158	32	12	24	30	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
431369--431717	160	2.2	159	89	4	531	33	13	25	27	1.93
431540--431614	27	2.7	27	85	2	87	25	21	30	22	1.99
431603--431717	51	2.2	53	84	7	146	33	12	22	31	1.91
434074--434099	13	2.0	13	100	0	52	38	15	15	30	1.88
434053--434119	33	2.0	33	88	0	98	43	16	14	25	1.86
434139--434225	19	4.9	19	82	16	114	39	13	11	35	1.81
434161--434185	13	1.9	13	100	0	50	32	16	16	36	1.90
434142--434204	32	2.0	32	96	0	117	36	15	12	34	1.86
434281--434337	21	2.7	21	100	0	114	36	21	10	31	1.87
434692--434722	8	3.8	8	95	4	53	61	25	0	12	1.32
440666--440691	13	2.0	13	100	0	52	30	15	15	38	1.88
440646--440709	33	2.0	32	87	9	94	28	14	20	37	1.91
440792--440830	20	2.0	19	95	5	69	30	10	23	35	1.88
444374--444510	29	4.8	28	65	27	83	51	13	8	27	1.68
444332--444537	113	1.8	113	84	2	279	50	12	8	28	1.70
444331--444588	58	4.5	58	81	5	249	51	12	8	27	1.68
449420--449476	17	3.1	19	73	16	57	78	0	10	10	0.95
450884--450924	12	3.5	12	83	3	57	68	0	2	29	1.03
455346--455377	2	16.0	2	100	0	64	0	50	0	50	1.00
457074--457146	22	3.3	22	84	0	101	38	2	6	52	1.43
457590--457651	22	2.8	22	85	4	72	38	6	4	50	1.50
459582--459625	22	2.0	22	90	0	70	50	6	6	36	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
459742--459823	29	2.8	29	83	1	101	50	18	4	26	1.67
459734--459823	30	3.0	30	81	1	110	50	17	4	27	1.66
460683--460759	22	3.5	22	83	0	91	46	9	3	40	1.54
462022--462062	10	4.1	10	84	12	57	39	0	2	58	1.11
462022--462074	20	2.5	21	87	9	81	37	1	5	54	1.35
463239--463299	21	3.0	21	81	11	72	45	1	0	52	1.10
463270--463301	17	1.9	17	93	6	57	43	0	0	56	0.99
463664--463738	10	7.0	10	71	14	60	45	1	0	53	1.08
463688--463748	16	3.9	16	86	2	88	47	3	0	49	1.18
463686--463753	32	2.2	30	87	7	100	44	2	0	52	1.16
465339--465379	20	2.0	20	95	0	73	36	0	7	56	1.27
465394--465449	20	2.8	19	84	7	76	48	1	7	42	1.41
465536--465592	20	2.9	20	84	7	64	52	1	1	43	1.21
473734--473789	16	3.5	16	73	9	60	55	0	0	44	0.99
473719--473788	27	2.7	27	82	12	101	52	0	0	47	1.00
476231--476283	3	17.7	3	100	0	106	33	0	0	66	0.92
476373--476436	8	8.0	8	89	0	74	34	0	15	50	1.45
476373--476436	32	2.0	32	100	0	128	34	0	15	50	1.45
476377--476435	28	2.1	28	96	0	109	33	0	15	50	1.44
476385--476441	4	14.2	4	92	0	78	31	0	19	49	1.49
476937--476981	2	22.5	2	86	0	63	42	0	0	57	0.98
476936--476981	12	3.8	12	88	0	74	41	0	0	58	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
482931--482959	13	2.2	13	100	0	58	27	13	17	41	1.87
484964--485004	21	2.0	21	90	9	66	9	12	36	41	1.76
490007--490333	169	1.9	169	96	0	600	36	15	18	29	1.92
492905--493036	20	6.1	20	73	17	102	43	12	12	30	1.80
492909--493065	50	3.4	48	75	17	170	43	13	14	28	1.82
493747--494209	30	15.5	28	80	12	446	19	16	33	30	1.94
493747--494209	60	7.8	60	88	3	641	19	16	33	30	1.94
509479--509516	13	2.9	13	96	0	67	31	15	18	34	1.92
511597--511627	15	2.1	15	93	0	53	12	22	16	48	1.80
513423--513467	22	2.1	21	84	8	56	22	15	6	55	1.63
513412--513467	21	2.7	21	75	13	62	23	14	7	55	1.63
515678--515703	13	2.0	13	100	0	52	30	15	15	38	1.88
515658--515722	32	2.0	33	87	3	96	27	13	16	41	1.87
519265--519410	50	2.9	51	85	6	215	45	10	15	27	1.80
520483--520539	20	2.8	20	81	0	60	38	12	15	33	1.85
520525--520553	13	2.2	13	100	0	58	31	17	13	37	1.89
520541--520593	20	2.6	21	84	3	72	39	13	16	30	1.87
520628--520691	33	2.0	32	87	3	92	42	18	7	31	1.79
524439--524503	32	2.0	32	90	0	103	33	12	13	40	1.82
524458--524482	13	1.9	13	100	0	50	36	16	16	32	1.90
524545--524569	13	1.9	13	100	0	50	32	16	16	36	1.90
524578--524754	52	3.4	51	90	3	282	36	17	16	29	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
527997--528039	21	2.0	21	100	0	86	27	23	20	27	1.99
531687--531719	16	2.1	16	88	11	50	87	12	0	0	0.53
531691--531719	15	2.0	15	93	6	51	89	10	0	0	0.48
531957--532002	16	2.9	16	78	12	51	84	6	6	2	0.84
532044--532082	1	39.0	1	89	0	60	94	5	0	0	0.29
533098--533260	33	4.8	34	84	8	197	19	33	12	34	1.90
533098--533280	71	2.7	72	83	6	211	20	34	12	32	1.90
533301--533966	49	14.2	48	83	10	846	25	24	17	31	1.97
533445--533950	43	11.1	43	80	11	562	24	25	18	31	1.97
533301--533966	141	4.7	141	84	8	874	25	24	17	31	1.97
533348--533964	92	6.7	91	93	4	791	25	24	17	31	1.97
534691--534715	13	1.9	13	100	0	50	36	16	16	32	1.90
534671--534737	33	2.0	33	88	0	98	34	11	13	40	1.81
534779--534803	13	1.9	13	100	0	50	32	16	16	36	1.90
534812--534988	52	3.4	51	93	3	300	35	18	17	29	1.94
540781--540819	13	3.0	13	88	0	60	33	20	15	30	1.94
540951--540991	22	2.0	20	86	13	57	31	21	4	41	1.74
543254--543311	20	2.9	20	81	0	62	39	13	13	32	1.85
543313--543363	20	2.5	21	87	3	68	39	13	17	29	1.88
543417--543441	13	1.9	13	100	0	50	32	16	16	36	1.90
543397--543464	33	2.1	33	94	2	120	36	19	13	30	1.90
546003--546069	33	2.0	33	85	5	91	28	17	14	38	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
546097--546149	19	2.7	20	85	2	63	41	13	13	32	1.82
550339--550378	19	2.1	19	85	4	53	55	0	5	40	1.22
550737--550827	12	7.8	12	68	18	57	16	6	1	75	1.06
550787--550841	29	1.9	29	85	10	78	16	1	3	78	0.98
550730--550826	34	2.7	35	76	10	92	17	7	1	74	1.10
559238--559271	16	2.1	16	88	0	50	35	2	0	61	1.11
572152--572257	53	2.0	53	90	0	167	30	17	13	38	1.88
573892--573945	20	2.7	20	85	0	63	35	20	12	31	1.90
574577--574772	106	1.8	106	90	2	313	30	20	8	40	1.82
575518--575548	16	1.9	16	93	0	53	35	9	0	54	1.33

Tables:   1   2   3   4   5   6   7   8   9   10