genome.fa.s480.2.7.7.80.10.50.1000.4.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: Scaffold480
Parameters: 2 7 7 80 10 50 1000
Length:  956445

Tables:   1   2   3   4   5   6   7   

This is table  4  of  7  ( 736 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)
482895--483378	241	2.0	240	93	5	836	39	9	7	43	1.65
485662--485749	43	2.0	43	82	0	104	35	13	14	36	1.86
488229--488631	199	2.0	200	92	2	677	42	11	16	29	1.83
491342--491392	20	2.5	21	87	3	68	33	17	9	39	1.83
500814--500851	18	2.1	19	85	5	51	52	7	10	28	1.64
510084--510147	30	2.1	30	91	5	103	25	29	18	26	1.98
510709--510744	17	2.2	16	90	5	54	33	0	0	66	0.92
510833--510870	14	2.6	15	87	4	60	60	0	0	39	0.97
511095--511137	15	2.7	15	82	7	50	34	6	0	58	1.25
512754--513047	149	2.0	151	84	4	389	32	8	7	51	1.59
513292--513323	11	2.9	11	100	0	64	18	6	0	75	1.01
514563--515315	329	2.3	328	83	7	917	32	11	12	42	1.80
514617--515294	166	4.1	166	84	5	833	33	11	13	41	1.80
515501--516522	158	6.6	155	79	8	845	26	14	18	40	1.89
515502--516625	300	3.6	299	73	11	785	26	14	18	40	1.89
518734--518758	2	12.5	2	100	0	50	48	0	0	52	1.00
520158--520206	9	5.6	9	86	11	66	87	2	2	8	0.69
520158--520205	18	2.7	18	93	3	80	87	2	2	8	0.70
520164--520221	27	2.1	27	87	6	82	84	3	3	8	0.85
520158--520214	8	7.2	8	82	7	64	85	3	1	8	0.77
520840--521166	111	2.9	111	84	6	403	33	13	14	38	1.85
521739--521859	38	3.0	39	72	17	104	26	19	14	39	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
522547--522927	76	5.0	76	78	4	304	24	14	13	47	1.80
523419--523600	65	2.8	65	79	6	190	16	23	18	41	1.89
523505--523692	98	1.9	97	81	3	225	17	24	16	41	1.89
523579--523692	33	3.5	32	80	5	106	17	24	17	40	1.91
523741--523948	65	3.2	65	81	4	215	16	23	17	43	1.88
523868--524036	90	1.9	90	83	4	225	15	22	18	43	1.87
523961--524577	65	9.4	65	74	9	461	15	21	18	44	1.87
524047--524148	33	3.1	33	68	13	102	14	21	18	45	1.85
523804--524102	155	1.9	155	82	4	379	15	21	18	44	1.86
523962--524454	193	2.5	193	84	3	616	15	22	18	44	1.86
524024--524454	32	13.4	31	66	17	119	15	22	17	44	1.86
524418--524510	36	2.6	35	71	21	84	13	17	18	50	1.78
525560--525984	160	2.7	153	78	10	427	31	7	8	52	1.60
526100--526154	25	2.3	25	81	6	60	27	3	0	69	1.05
527327--528135	166	4.9	166	84	4	969	33	11	12	42	1.79
527338--528135	330	2.4	331	82	5	1006	33	12	12	42	1.79
528257--529383	313	3.6	310	81	5	1191	27	13	18	41	1.88
528265--529441	628	1.9	628	82	2	1470	27	13	18	40	1.88
528271--529389	157	7.1	156	79	6	1055	27	13	18	41	1.87
530719--530763	19	2.5	17	85	10	54	35	2	0	62	1.08
530730--530773	19	2.3	18	81	11	52	40	0	0	59	0.98
530870--530914	19	2.3	20	81	14	58	6	6	22	64	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
531710--531753	22	2.0	22	100	0	88	36	4	9	50	1.55
531943--531992	16	3.1	16	85	0	64	8	10	30	52	1.64
531994--532044	16	3.3	15	74	17	50	17	9	27	45	1.80
532220--532280	25	2.4	26	84	15	76	70	9	0	19	1.15
542668--542724	23	2.5	23	86	8	82	85	5	8	0	0.72
542666--542724	29	2.0	29	90	6	93	83	5	11	0	0.81
542667--542721	27	2.0	26	89	7	74	85	5	9	0	0.74
547696--547722	13	2.1	13	100	0	54	29	14	14	40	1.86
547706--547762	19	2.9	19	89	2	87	31	17	15	35	1.92
549423--549461	9	4.3	9	96	0	60	38	0	33	28	1.57
549427--549463	3	12.3	3	94	0	65	35	0	35	29	1.58
554729--554785	19	2.9	19	89	2	87	31	17	15	35	1.92
554815--554879	33	2.0	33	87	6	96	33	10	20	35	1.87
558984--559468	247	2.0	246	93	1	828	32	9	19	38	1.84
564107--564177	17	4.1	17	90	3	97	73	0	12	14	1.11
564111--564177	9	7.6	9	76	8	66	71	0	13	14	1.14
564131--564177	8	5.6	8	80	9	58	70	0	12	17	1.17
574104--574153	21	2.3	22	83	10	59	54	4	2	40	1.31
574375--574422	16	3.1	15	80	19	62	45	0	0	54	0.99
587518--587567	25	2.1	23	85	7	64	24	2	4	70	1.15
587739--587791	3	17.7	3	100	0	106	67	0	0	32	0.91
588471--588937	164	2.8	164	82	6	577	28	7	14	49	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
589730--590105	155	2.4	155	82	3	420	24	15	18	42	1.89
589843--590142	155	1.9	154	81	2	352	24	14	18	43	1.86
591248--591635	165	2.3	167	83	6	475	29	10	8	51	1.66
591239--591965	166	4.4	164	76	9	570	31	11	8	48	1.69
591239--591964	329	2.2	332	80	7	746	31	11	8	48	1.69
591447--592023	166	3.5	166	76	10	423	33	12	7	46	1.70
592325--592364	12	3.3	13	90	10	59	82	0	17	0	0.67
592327--592384	10	5.4	10	80	15	55	75	1	20	1	0.97
593228--593287	11	5.6	11	74	20	56	75	0	1	23	0.90
593232--593286	19	2.8	19	82	17	69	74	0	1	23	0.91
596845--596878	17	2.0	17	88	0	50	47	0	5	47	1.26
597544--597616	20	3.7	20	85	3	94	30	16	10	42	1.82
603375--603418	15	2.9	15	86	10	54	61	0	0	38	0.96
603732--603777	22	2.1	22	84	8	58	52	8	4	34	1.52
606152--606290	51	2.7	52	86	1	181	29	16	11	42	1.83
611335--611391	13	4.5	13	72	24	59	38	17	12	31	1.87
611337--611407	20	3.7	19	74	11	65	38	16	12	32	1.87
611436--611491	19	2.9	19	91	2	85	35	17	16	30	1.92
611476--611502	13	2.1	13	100	0	54	40	14	14	29	1.86
613836--613875	21	2.0	21	90	5	64	47	0	20	32	1.50
620095--620150	20	2.8	20	86	5	78	37	19	12	30	1.89
620179--620233	19	2.8	20	80	5	67	38	14	12	34	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
624133--624177	21	2.2	21	88	4	65	75	4	15	4	1.12
624857--625019	58	2.8	57	83	0	200	30	11	14	44	1.79
624916--624998	29	2.9	28	65	19	64	33	8	14	43	1.76
624853--625068	115	1.9	115	80	1	254	29	10	12	46	1.76
626623--626672	7	6.7	7	84	8	55	78	2	2	18	0.95
627909--627948	17	2.3	17	91	4	62	37	0	0	62	0.95
627920--627955	17	2.2	17	90	5	56	36	0	0	63	0.94
628275--628792	108	4.8	108	74	8	401	34	15	16	32	1.91
630400--630433	17	2.1	17	88	5	52	70	2	14	11	1.27
636525--636650	20	5.8	20	75	18	117	40	13	15	30	1.86
637206--638695	28	51.6	28	80	9	1353	24	17	29	28	1.97
637206--638695	57	26.3	57	83	6	1656	24	17	29	28	1.97
637468--638695	85	14.4	85	84	5	1441	25	17	28	28	1.97
638659--638911	127	2.0	128	95	0	454	25	17	24	32	1.97
647156--647211	20	2.8	20	86	5	78	37	14	14	33	1.86
647763--649209	28	50.7	28	83	7	1607	23	16	30	28	1.97
647763--649209	57	25.4	57	84	5	1679	23	16	30	28	1.97
647767--649209	85	16.8	85	86	3	1768	23	16	30	28	1.97
649180--649431	127	2.0	128	91	0	407	27	17	25	30	1.97
651062--651309	33	7.8	32	85	5	324	28	32	18	20	1.97
651060--651309	65	3.9	64	86	6	355	28	32	18	21	1.97
651302--651631	43	6.8	49	80	10	342	25	24	17	32	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
651297--651582	92	3.1	92	91	2	464	25	25	17	31	1.97
651483--651636	52	2.9	53	81	4	193	24	23	15	36	1.94
652427--652451	13	1.9	13	100	0	50	36	16	16	32	1.90
652407--652472	32	2.0	33	94	2	116	34	12	16	36	1.86
652491--652640	52	2.9	50	87	5	201	34	17	17	30	1.93
660852--660942	31	2.9	31	90	6	139	24	32	16	26	1.96
660852--661201	63	5.5	62	83	7	289	22	30	14	31	1.94
660854--661167	30	10.1	30	72	13	197	22	29	15	31	1.95
660852--661196	126	2.7	125	80	7	374	22	30	15	31	1.95
661142--661622	34	14.8	34	75	13	417	19	34	13	32	1.91

Tables:   1   2   3   4   5   6   7