genome.fa.s175.2.7.7.80.10.50.1000.4.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: Scaffold175
Parameters: 2 7 7 80 10 50 1000
Length:  1254584

Tables:   1   2   3   4   5   6   7   8   

This is table  4  of  8  ( 923 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)
508454--508486	13	2.5	13	95	0	57	33	15	15	36	1.88
510075--510103	15	1.9	15	100	0	58	13	0	6	79	0.93
510075--510116	15	3.0	14	82	10	50	16	0	9	73	1.08
510351--510403	27	2.0	27	81	7	63	35	7	9	47	1.64
510489--510514	13	2.0	13	100	0	52	15	0	0	84	0.62
515738--515789	2	26.0	2	96	0	95	50	0	1	48	1.12
519114--519144	2	15.5	2	100	0	62	48	0	0	51	1.00
522006--522065	16	3.8	16	82	4	59	45	6	0	48	1.29
522103--522165	30	2.1	30	96	0	117	25	30	15	28	1.96
522465--522515	27	1.9	26	84	11	68	25	1	0	72	0.95
523606--523648	19	2.5	16	75	17	50	65	4	0	30	1.13
523606--523653	18	2.7	18	78	15	55	64	4	0	31	1.12
524563--524615	2	27.0	2	88	3	81	49	3	0	47	1.19
525806--525831	6	4.3	6	100	0	52	30	0	0	69	0.89
530147--530187	20	2.0	21	90	9	66	46	7	7	39	1.60
530283--530348	33	2.0	33	88	5	98	30	16	13	39	1.87
530397--530427	14	2.2	14	94	0	53	25	22	9	41	1.84
530892--530963	36	2.0	36	94	2	128	34	11	27	26	1.90
530894--530988	36	2.9	31	83	12	86	32	12	24	30	1.92
534856--534955	28	3.6	28	83	8	132	24	19	34	23	1.97
534967--535067	52	1.9	53	91	2	168	34	9	24	30	1.88
537460--537486	13	2.1	13	100	0	54	40	14	14	29	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
537440--537507	34	2.0	34	97	0	127	38	16	11	33	1.85
538437--538490	20	2.7	20	91	0	81	40	14	11	33	1.82
551221--551287	31	2.2	31	97	0	125	46	2	0	50	1.16
551229--551300	31	2.3	31	90	4	110	51	4	0	44	1.20
551503--551545	7	6.4	7	97	2	72	25	0	0	74	0.82
551512--551571	26	2.4	23	83	10	66	26	0	3	70	1.03
551509--551574	20	3.4	19	78	18	55	27	0	3	69	1.03
551516--551580	26	2.5	24	76	14	58	27	1	3	67	1.14
552806--552853	19	2.4	21	83	13	57	62	2	4	31	1.26
553297--553372	38	2.0	38	97	0	143	44	10	9	35	1.71
553767--553810	15	2.8	16	82	6	63	31	0	2	65	1.05
553902--553936	18	2.0	18	94	5	63	31	0	0	68	0.90
559184--559234	19	2.7	19	73	11	59	39	0	0	60	0.97
559221--559271	25	2.0	26	81	14	61	41	0	7	50	1.31
559849--559892	23	2.0	22	86	8	63	70	0	6	22	1.11
559857--559913	20	2.7	20	81	8	60	71	0	7	21	1.08
559878--559948	24	2.8	25	85	8	90	64	0	2	32	1.08
559984--560024	19	2.2	18	86	4	55	60	2	4	31	1.30
562156--562281	51	2.4	53	85	5	175	33	25	11	30	1.90
562323--562544	52	4.3	50	75	6	156	29	24	12	33	1.92
562532--562603	28	2.6	28	86	0	90	22	33	19	25	1.97
562155--562654	263	1.9	263	88	3	756	28	26	13	31	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
562557--562761	79	2.6	79	83	1	241	23	30	17	28	1.97
576451--576475	13	1.9	13	100	0	50	36	16	16	32	1.90
576516--576582	33	2.0	33	88	0	98	40	14	11	32	1.83
576538--576562	13	1.9	13	100	0	50	32	16	16	36	1.90
578663--578756	1	94.0	1	69	0	53	84	6	8	1	0.84
578664--578756	9	9.6	9	78	16	62	83	6	8	1	0.84
578664--578756	10	9.6	9	81	10	87	83	6	8	1	0.84
578663--578750	12	7.6	12	74	20	64	84	6	7	1	0.84
578663--578756	21	4.7	18	76	17	71	84	6	8	1	0.84
579720--581537	55	32.4	54	84	9	2104	27	28	21	22	1.99
580316--580403	29	3.1	29	59	15	67	25	34	20	20	1.97
580347--580429	26	3.1	26	62	16	60	31	32	20	15	1.94
579747--581538	452	4.0	449	92	3	2638	27	28	21	23	1.99
579719--581514	507	3.5	507	93	3	2826	27	28	21	22	1.99
580787--580874	26	3.3	26	66	20	72	25	31	21	21	1.98
580768--580910	29	5.1	29	59	16	77	25	32	21	20	1.97
580854--580936	26	3.1	26	62	16	60	31	32	20	15	1.94
581275--581362	29	3.1	28	62	15	65	23	32	21	21	1.98
582249--582305	21	2.7	21	97	0	105	33	10	19	36	1.86
582436--582461	13	2.0	13	100	0	52	30	15	15	38	1.88
584831--584956	51	2.4	53	84	5	166	34	25	11	29	1.90
584998--585219	52	4.3	52	78	4	207	29	25	12	32	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
584831--585219	52	7.4	50	68	14	178	29	26	12	31	1.93
585207--585278	28	2.6	28	84	0	81	23	31	19	25	1.98
584830--585329	263	1.9	263	88	2	754	28	26	13	30	1.94
595832--596214	190	2.0	190	100	0	766	27	21	24	25	1.99
598027--598054	10	2.8	10	100	0	56	85	7	7	0	0.73
599023--599715	55	12.4	54	85	8	790	27	28	20	22	1.99
599023--599715	109	6.2	107	82	11	795	27	28	20	22	1.99
599024--599715	164	4.1	165	84	9	870	27	28	20	22	1.99
600657--600698	1	42.0	1	87	0	57	92	2	4	0	0.44
601664--602971	55	23.4	54	84	9	1564	27	28	20	22	1.99
602257--602344	29	3.1	29	59	15	67	25	34	20	20	1.97
602288--602370	26	3.1	26	62	16	60	31	32	20	15	1.94
601691--602948	451	2.8	452	95	2	2241	27	28	20	22	1.99
602709--602796	29	3.1	29	59	15	67	25	34	20	20	1.97
603684--603740	21	2.7	21	97	0	105	33	10	19	36	1.86
603796--603863	19	3.9	19	78	21	85	35	11	14	38	1.83
603817--603841	13	1.9	13	100	0	50	36	16	16	32	1.90
603798--603860	32	2.0	32	96	0	117	34	12	15	36	1.86
603883--603938	21	2.8	20	80	2	67	25	14	16	44	1.84
606287--606648	52	6.9	51	70	11	221	29	25	12	32	1.93
606393--606468	27	2.8	27	88	6	100	23	31	22	22	1.98
606662--606731	28	2.5	28	83	0	77	24	34	15	25	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
606283--606782	263	1.9	263	87	2	745	28	26	13	31	1.94
606690--606889	79	2.5	79	82	1	222	25	30	15	29	1.95
609504--609547	21	2.1	21	83	8	54	25	31	4	38	1.76
611349--611374	13	2.0	13	100	0	52	38	15	15	30	1.88
613130--613160	15	2.1	15	93	0	53	12	22	16	48	1.80
614964--615008	21	2.1	21	84	8	56	22	20	4	53	1.63
617227--617252	13	2.0	13	100	0	52	30	15	15	38	1.88
619827--619899	20	3.7	19	80	7	67	39	17	13	28	1.88
619827--619880	19	2.8	20	82	2	65	38	18	12	29	1.88
627495--627547	19	2.7	21	88	8	76	41	16	15	26	1.88
628385--628451	22	3.2	20	72	21	57	67	16	10	5	1.40
629877--630091	27	7.7	28	77	5	127	26	29	12	32	1.92
629839--629942	33	3.1	33	88	2	136	26	25	9	37	1.87
629910--630104	27	7.2	26	77	5	147	25	29	12	32	1.93
630055--630770	86	8.4	84	82	5	642	30	29	15	25	1.96
630055--630783	28	25.6	28	79	7	700	30	28	15	25	1.96
630724--630785	32	1.9	33	90	3	99	30	25	17	25	1.97
632416--632453	2	19.0	2	94	0	67	47	0	2	50	1.15
634542--634664	63	2.0	63	88	3	185	34	22	11	31	1.90
635611--635635	13	1.9	13	100	0	50	32	16	16	36	1.90
635590--635653	33	2.0	33	90	3	103	29	14	17	39	1.88
635710--635768	21	2.9	21	82	2	75	32	16	15	35	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
636749--636801	21	2.6	21	79	5	65	37	5	15	41	1.70
640888--640930	3	14.3	3	95	0	77	37	0	32	30	1.58
647997--648021	13	1.9	13	100	0	50	32	16	16	36	1.90
647976--648039	33	2.0	33	90	3	103	29	15	15	39	1.89
648089--648113	13	1.9	13	100	0	50	32	16	16	36	1.90
648098--648154	20	2.8	21	78	2	71	29	14	17	38	1.89
648172--649603	717	2.0	711	87	3	2029	32	17	15	34	1.91
650189--650250	24	2.5	25	89	7	99	38	1	6	53	1.37
652760--652849	37	2.5	36	82	7	103	40	3	1	55	1.24
653454--653478	6	4.2	6	100	0	50	36	32	16	16	1.90

Tables:   1   2   3   4   5   6   7   8