genome.fa.s189.2.7.7.80.10.50.1000.3.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: Scaffold189
Parameters: 2 7 7 80 10 50 1000
Length:  2243555

Tables:   1   2   3   4   5   6   7   8   9   

This is table  3  of  9  ( 1067 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)
557661--557699	12	3.2	12	85	3	51	28	0	0	71	0.86
557723--557818	35	2.6	37	79	9	99	26	3	4	66	1.24
559373--559416	17	2.8	16	83	12	56	50	0	0	50	1.00
560169--560217	16	3.0	16	81	3	53	44	2	0	53	1.12
560207--560245	16	2.4	17	83	12	55	43	0	0	56	0.99
560406--560455	16	2.9	17	71	28	52	58	2	0	40	1.10
563922--563969	21	2.3	20	82	3	69	52	0	0	47	1.00
563964--563994	16	1.9	16	93	0	53	67	0	0	32	0.91
569667--569795	23	5.6	23	69	16	79	53	0	0	46	1.00
569678--569752	21	3.8	21	72	15	61	52	0	0	48	1.00
569676--569752	39	2.0	39	82	10	95	50	0	0	49	1.00
569702--569799	16	5.8	18	71	23	79	56	0	0	43	0.99
569709--569791	32	2.6	33	84	9	109	56	0	0	43	0.99
569717--569791	30	2.4	33	82	10	104	58	0	0	41	0.98
569678--569816	46	2.8	47	78	14	113	53	0	0	45	1.05
569678--569769	39	2.4	39	73	7	91	52	0	0	47	1.00
571289--571324	18	1.9	18	88	5	54	22	0	8	69	1.15
572624--572650	13	2.1	13	100	0	54	37	14	0	48	1.45
574530--574575	22	2.0	23	95	4	85	30	0	21	47	1.51
576225--576289	19	3.3	20	76	6	62	56	0	4	38	1.20
577120--577162	17	2.6	18	85	10	56	39	0	0	60	0.97
577143--577203	14	4.1	14	74	12	59	36	0	1	62	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
577798--577870	32	2.2	33	79	11	87	43	0	2	53	1.15
578223--578422	28	6.3	32	73	18	143	44	1	1	53	1.16
578225--578422	34	6.2	33	73	15	150	44	1	1	53	1.16
578358--578412	18	3.2	18	68	17	53	45	0	0	54	0.99
578322--578445	34	3.6	34	81	12	114	44	1	0	53	1.16
579775--579828	21	2.5	20	80	16	56	57	3	0	38	1.17
583058--583131	21	3.5	21	83	0	94	55	5	4	35	1.42
583931--583957	2	13.5	2	100	0	54	48	0	0	51	1.00
584710--584976	78	3.4	78	79	3	261	48	12	4	34	1.60
594568--594599	2	16.0	2	100	0	64	50	0	0	50	1.00
596406--596445	20	2.1	19	90	9	64	45	0	5	50	1.23
598118--598147	12	2.5	12	94	0	51	30	0	0	70	0.88
598351--598392	3	13.7	3	90	5	66	61	2	0	35	1.09
617511--617551	21	2.0	21	85	9	57	58	2	0	39	1.11
617625--617673	18	2.8	18	81	9	57	51	2	2	44	1.24
618483--618518	17	2.2	17	90	5	56	19	8	0	72	1.10
618686--618726	18	2.2	19	91	4	66	63	0	0	36	0.95
619305--619344	20	1.9	20	85	10	53	52	2	2	42	1.28
619701--619736	3	12.0	3	100	0	72	66	0	0	33	0.92
620149--620174	2	13.0	2	100	0	52	50	0	0	50	1.00
623149--623182	17	2.0	17	94	0	59	52	0	2	44	1.16
627802--627893	10	9.3	10	76	18	52	58	2	0	39	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
627800--627843	18	2.5	17	89	10	63	56	0	0	43	0.99
627809--627895	9	9.0	9	76	15	59	59	2	0	37	1.10
627809--627895	30	3.0	30	73	15	85	59	2	0	37	1.10
627854--627908	21	2.7	21	81	13	62	61	0	1	36	1.06
630770--630813	19	2.2	20	96	4	81	34	4	27	34	1.77
635067--635091	13	1.9	13	100	0	50	48	20	8	24	1.76
644164--644200	2	18.5	2	100	0	74	48	0	0	51	1.00
649808--649851	2	22.0	2	100	0	88	50	0	50	0	1.00
650217--650256	18	2.2	18	91	8	64	42	0	0	57	0.98
651795--651819	2	12.5	2	100	0	50	52	0	0	48	1.00
660512--660559	17	2.9	17	87	3	62	64	0	0	35	0.94
660533--660596	34	1.9	33	81	9	76	53	0	0	46	1.00
661526--661562	17	2.2	17	90	0	56	51	0	0	48	1.00
662656--662684	14	2.0	15	93	6	51	44	0	0	55	0.99
662853--662877	2	12.5	2	100	0	50	52	0	0	48	1.00
667627--667655	13	2.1	14	93	6	51	58	3	0	37	1.15
667636--667692	25	2.2	26	81	3	71	45	3	0	50	1.18
670859--670982	65	1.9	65	98	0	239	21	7	16	54	1.67
673700--673749	22	2.3	22	85	0	64	44	2	4	50	1.32
674016--674050	2	17.5	2	93	0	61	51	2	0	45	1.16
675949--676043	24	4.0	23	80	15	79	33	1	2	63	1.13
675968--676010	15	2.9	15	80	16	54	32	0	0	67	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
675967--676043	24	3.2	22	84	14	91	36	0	0	63	0.95
675997--676024	10	2.8	10	100	0	56	39	0	0	60	0.97
680479--680929	89	5.0	89	83	2	517	29	20	23	25	1.99
680481--680929	179	2.5	178	82	3	515	29	20	23	25	1.99
701780--701833	20	2.4	23	76	20	69	48	1	1	48	1.23
702740--702839	32	3.4	28	74	15	78	53	1	2	44	1.19
702810--702845	16	2.2	16	90	0	54	52	0	0	47	1.00
702802--703014	106	2.0	106	95	1	383	50	7	4	37	1.52
708459--708545	11	8.6	11	70	23	75	65	0	0	34	0.93
708456--708548	19	4.7	19	77	11	71	64	0	0	35	0.94
708458--708532	39	1.9	38	86	2	105	66	0	0	33	0.92
708485--708541	24	2.5	23	84	15	75	68	0	0	31	0.90
711830--711941	32	3.2	32	80	10	98	61	0	0	37	1.02
711843--711902	15	3.8	15	73	18	50	58	0	1	40	1.08
711865--711940	26	3.3	23	72	20	68	61	0	0	38	0.96
711868--711924	17	3.2	17	78	12	53	59	0	0	40	0.97
711830--711905	32	2.3	34	84	4	102	60	0	1	38	1.05
712659--712695	14	2.7	15	88	12	53	72	0	27	0	0.84
716426--716487	31	2.0	31	90	0	97	40	17	12	29	1.87
720511--720543	12	2.6	13	90	9	59	45	0	0	54	0.99
720956--721006	26	2.0	26	85	14	70	68	0	27	3	1.07
720962--721018	20	3.0	20	85	10	66	64	0	31	3	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
721461--721518	12	4.4	14	75	16	61	13	32	0	53	1.40
721460--721518	26	2.3	26	84	0	82	13	33	0	52	1.41
721752--721922	40	4.3	40	90	1	236	34	28	8	28	1.87
721887--721920	10	3.4	10	91	0	59	38	23	8	29	1.85
721748--721922	20	8.8	20	64	9	79	33	28	8	29	1.87
725894--725951	12	4.4	14	75	16	61	13	32	0	53	1.40
725893--725951	26	2.3	26	84	0	82	13	33	0	52	1.41
726199--726338	40	3.5	40	92	0	226	32	25	10	30	1.90
727220--727253	18	1.9	17	88	5	50	11	32	26	29	1.92
727592--727619	2	14.0	2	100	0	56	0	50	0	50	1.00
727911--727964	24	2.2	24	83	6	65	33	0	3	62	1.12
727936--727971	17	2.1	18	90	10	58	33	0	0	66	0.92
727936--727979	16	2.8	17	83	13	58	31	0	0	68	0.90
728561--728593	2	16.5	2	100	0	66	48	0	51	0	1.00
729762--729810	18	3.1	16	83	16	66	57	0	2	40	1.10
735039--735095	16	4.0	14	72	19	55	43	0	0	56	0.99
741941--741965	2	12.5	2	100	0	50	52	0	0	48	1.00
744325--744356	16	2.0	16	93	0	55	65	0	0	34	0.93
744381--744437	30	1.9	30	85	7	80	61	1	0	36	1.07
744646--744696	18	2.8	19	76	8	61	43	0	0	56	0.99
748471--748595	8	15.2	8	71	14	78	39	1	0	58	1.13
748454--748532	20	4.2	20	71	22	71	36	2	0	60	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
748991--749032	22	1.9	22	85	9	59	45	4	0	50	1.23
749887--749925	3	13.0	3	100	0	78	66	0	33	0	0.92
752349--752385	4	9.2	4	87	0	56	48	21	2	27	1.63
757354--757380	14	1.9	14	100	0	54	55	0	7	37	1.28
757361--757411	20	2.4	21	90	6	77	54	3	3	37	1.37
757403--757460	14	4.4	14	80	12	77	58	0	5	36	1.20
757404--757457	25	2.2	25	96	0	99	59	0	5	35	1.21
757542--757650	15	6.8	16	70	26	63	59	0	0	39	1.04
757587--757659	14	5.8	12	73	21	53	63	0	0	36	0.95
757599--757652	14	3.8	13	83	11	63	59	0	0	40	0.98

Tables:   1   2   3   4   5   6   7   8   9