genome.fa.s166.2.7.7.80.10.50.1000.3.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: Scaffold166
Parameters: 2 7 7 80 10 50 1000
Length:  2719372

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   

This is table  3  of  18  ( 2078 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)
384388--384459	31	2.4	29	84	11	94	61	0	1	37	1.05
384786--384832	18	2.7	19	84	15	66	36	0	0	63	0.94
385593--385655	26	2.4	28	82	12	71	57	1	0	41	1.08
385616--385691	30	2.5	31	81	12	93	57	0	1	40	1.07
390970--391019	25	2.0	25	100	0	100	24	32	24	20	1.98
394618--394682	33	2.0	33	96	0	121	40	16	13	29	1.88
398563--398618	22	2.5	22	94	0	94	37	3	35	23	1.72
399172--399228	19	2.9	19	86	2	78	33	15	15	35	1.90
404539--404580	21	2.0	21	85	0	57	42	21	9	26	1.83
407594--407636	21	2.1	20	83	12	52	53	6	13	25	1.65
407594--407636	20	2.1	21	83	12	54	53	6	13	25	1.65
411335--411375	22	2.0	21	85	9	57	12	4	21	60	1.50
413443--413484	22	1.9	22	90	0	66	35	4	38	21	1.75
414075--414170	19	4.9	19	87	3	138	31	15	17	35	1.92
414077--414170	39	2.4	39	100	0	188	30	14	18	36	1.91
415514--415539	13	2.0	13	100	0	52	30	15	15	38	1.88
418087--418125	13	3.0	13	100	0	78	38	15	15	30	1.88
422042--422086	21	2.1	21	84	8	56	22	20	4	53	1.63
424308--424333	13	2.0	13	100	0	52	30	15	15	38	1.88
429306--429351	21	2.2	21	84	7	58	69	2	6	21	1.22
433593--433633	21	2.0	21	100	0	82	34	24	4	36	1.77
435862--435886	13	1.9	13	100	0	50	36	16	16	32	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
435841--435906	33	2.0	33	84	0	87	31	16	16	34	1.92
435955--435980	13	2.0	13	100	0	52	30	15	15	38	1.88
436869--436921	19	2.8	18	83	16	63	26	13	15	45	1.82
436888--436973	19	4.8	19	72	17	76	27	13	17	40	1.88
436906--436930	13	1.9	13	100	0	50	32	12	16	40	1.84
436888--436952	32	2.0	32	93	0	112	26	12	16	44	1.83
438634--438670	15	2.5	15	95	0	65	40	0	29	29	1.57
455817--455864	19	2.5	19	96	0	87	37	8	8	45	1.64
456470--456505	18	1.9	18	88	5	54	33	8	0	58	1.28
459732--459784	21	2.6	21	85	8	65	37	15	9	37	1.79
460469--460560	26	3.5	26	66	21	73	15	30	2	52	1.55
460472--460578	54	2.0	54	96	0	196	14	33	2	48	1.59
465658--465723	33	2.0	32	82	8	80	42	9	13	34	1.76
465811--465867	21	2.8	20	76	7	60	40	28	1	29	1.67
466173--466214	22	1.9	22	90	0	66	26	45	16	11	1.82
474936--475037	39	2.6	39	80	9	120	64	1	1	31	1.15
474968--475055	30	3.1	28	81	12	99	62	0	2	35	1.08
474938--475055	50	2.4	49	77	12	120	63	1	1	33	1.14
475118--475169	18	2.8	19	80	14	63	0	26	0	73	0.84
475166--475203	17	2.2	17	95	0	67	0	42	0	57	0.98
475118--475207	18	4.7	20	72	20	59	0	32	0	67	0.91
476275--476346	23	3.2	23	78	9	76	27	4	19	48	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
476802--476832	2	15.5	2	100	0	62	48	0	0	51	1.00
483239--483352	49	2.3	50	90	4	178	27	18	13	41	1.87
485698--486265	79	7.2	78	81	5	570	28	23	13	34	1.92
485698--486249	158	3.5	157	82	4	628	27	24	13	34	1.93
485778--486249	239	2.0	239	88	3	700	27	24	13	34	1.93
488172--488196	13	1.9	13	100	0	50	36	16	16	32	1.90
488185--488237	19	2.7	20	76	2	63	30	16	13	39	1.87
492014--492069	19	2.9	19	89	2	76	35	14	17	32	1.90
492054--492080	13	2.1	13	100	0	54	40	14	14	29	1.86
503357--503405	20	2.5	19	80	3	53	34	20	10	34	1.86
515461--515502	14	2.8	15	82	10	50	78	2	19	0	0.86
519206--519278	20	3.7	20	74	3	67	45	5	15	34	1.69
519212--519321	39	2.8	40	87	5	152	42	10	13	33	1.78
519228--519321	20	4.8	20	74	7	75	41	10	13	34	1.79
519267--519372	20	4.8	20	72	22	77	42	12	15	30	1.83
520634--521248	61	10.0	61	83	7	694	25	24	18	31	1.98
520664--520759	29	3.2	29	70	18	97	26	21	19	32	1.97
521740--521811	28	2.5	30	93	4	121	27	18	15	38	1.90
524466--524563	50	2.0	50	83	2	126	29	30	11	28	1.91
524499--524909	79	5.2	79	75	2	358	27	23	14	34	1.93
524595--524744	81	1.9	81	81	8	189	30	18	11	40	1.85
524500--524909	160	2.6	158	79	3	439	27	23	13	34	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
526340--526396	25	2.2	25	81	9	60	43	10	8	36	1.70
526734--527104	31	12.0	30	74	5	312	17	23	29	29	1.97
526736--527074	62	5.5	62	83	3	405	17	24	29	29	1.97
526754--527104	93	3.8	93	78	3	366	17	23	29	29	1.97
541416--541446	13	2.4	13	100	0	62	61	16	6	16	1.54
542595--542630	17	2.1	17	94	0	63	47	16	8	27	1.75
542603--542659	25	2.2	25	81	9	60	45	12	7	35	1.69
543935--543994	32	1.9	31	83	10	77	60	10	10	20	1.57
546285--546322	13	2.9	13	96	0	67	31	15	18	34	1.92
552159--552218	32	1.9	31	83	10	77	60	10	10	20	1.57
552498--552523	13	2.0	13	100	0	52	30	15	15	38	1.88
552478--552541	32	2.0	33	93	3	112	28	12	15	43	1.83
552478--552541	19	3.6	19	72	25	68	28	12	15	43	1.83
552593--552648	20	2.8	20	89	5	78	28	17	16	37	1.91
554775--554853	33	2.4	34	89	2	115	27	17	12	41	1.86
554808--554833	13	2.0	13	100	0	52	30	15	15	38	1.88
557303--557377	27	2.7	28	89	6	109	24	33	20	22	1.97
557330--557508	79	2.3	79	93	1	297	26	27	15	30	1.96
557413--557471	28	2.0	30	90	9	95	27	32	15	25	1.95
557441--557660	51	4.3	51	81	2	199	30	24	11	33	1.91
557479--557660	52	3.5	50	81	8	195	30	24	10	34	1.89
557643--557716	28	2.6	29	78	14	75	27	25	17	29	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
568803--568848	20	2.3	20	88	7	67	89	8	2	0	0.57
569718--570052	171	2.0	170	93	1	573	26	27	21	24	1.99
569688--570053	55	6.3	56	83	10	436	26	27	21	25	1.99
569688--570066	116	3.3	115	80	10	452	26	26	20	26	1.99
570837--570862	13	2.0	13	100	0	52	30	15	15	38	1.88
573309--573383	27	2.7	27	85	6	98	24	32	20	24	1.98
573336--573514	79	2.3	79	92	1	297	25	26	16	31	1.96
573447--573665	51	4.3	51	82	2	233	31	25	10	32	1.90
573648--573728	28	2.8	30	87	7	98	24	30	17	27	1.97
581124--581188	33	2.0	33	87	6	96	35	13	13	36	1.85
582427--582478	20	2.6	20	75	6	52	32	15	15	36	1.89
587990--588065	32	2.4	32	93	0	134	26	18	21	34	1.96
588085--588164	21	3.8	21	94	0	133	35	7	16	41	1.76
588183--588267	19	4.7	19	79	18	101	37	17	11	32	1.86
588221--588245	13	1.9	13	100	0	50	32	16	16	36	1.90
588202--588265	32	2.0	33	96	3	121	34	18	12	34	1.89
589169--589901	43	15.6	52	79	12	361	32	18	24	24	1.97
589232--589901	92	7.2	92	91	4	905	31	18	24	25	1.97
589280--589919	135	4.7	131	83	9	775	31	18	25	25	1.97
589688--589755	21	3.2	21	62	25	52	27	19	27	25	1.98
589914--590890	33	30.0	32	82	8	1127	20	18	33	27	1.96
589907--590896	65	15.2	65	84	7	1187	20	18	33	27	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
589907--590892	98	10.1	95	86	6	1209	20	18	33	27	1.96
590896--591326	34	12.9	34	82	7	461	35	12	31	20	1.90
590880--591326	100	4.5	101	82	6	498	34	12	32	21	1.90
591300--591420	31	3.9	31	80	4	118	30	13	29	26	1.94
591323--591478	30	5.1	31	79	6	149	29	14	28	26	1.95
591368--591478	30	3.7	30	85	1	150	26	16	30	27	1.96
592464--592502	21	1.9	20	89	5	60	0	10	5	84	0.76
593276--593395	52	2.3	53	80	5	129	37	17	21	23	1.94
593418--594867	63	22.8	65	74	8	525	23	17	30	29	1.97
593404--594073	32	21.0	32	77	6	471	23	17	30	28	1.97

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18