genome.fa.s370.2.7.7.80.10.50.1000.4.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: Scaffold370
Parameters: 2 7 7 80 10 50 1000
Length:  857924

Tables:   1   2   3   4   5   6   

This is table  4  of  6  ( 617 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)
459289--459353	21	3.6	19	73	26	70	44	15	12	27	1.82
459307--459332	13	2.0	13	100	0	52	38	15	15	30	1.88
459289--459353	34	2.0	33	93	6	114	44	15	12	27	1.82
464598--464628	10	3.1	10	100	0	62	90	9	0	0	0.46
465546--465764	31	6.9	31	77	12	212	21	35	15	27	1.94
465678--465850	90	2.0	87	87	7	251	22	35	15	26	1.93
465747--465911	62	2.7	60	88	7	237	22	36	15	26	1.93
465646--465979	152	2.2	150	85	7	433	21	35	14	28	1.93
465799--465973	89	2.0	89	84	4	228	22	35	14	27	1.93
465858--465944	27	3.2	27	86	0	129	19	37	16	26	1.92
465912--465995	35	2.5	34	80	3	98	22	33	10	33	1.89
465912--466005	33	2.8	35	77	9	97	22	31	13	31	1.93
465991--466111	33	3.7	33	92	4	201	28	34	18	19	1.95
465991--466118	65	2.0	63	92	6	213	28	35	17	17	1.94
466111--466292	49	3.8	49	82	8	241	26	25	18	29	1.98
466157--466339	43	4.1	43	78	8	186	27	24	18	30	1.97
466106--466333	92	2.5	92	91	0	366	27	25	17	29	1.98
467154--467220	33	2.0	33	88	0	98	34	11	13	40	1.81
467174--467198	13	1.9	13	100	0	50	36	16	16	32	1.90
467276--467420	52	2.8	50	84	6	182	34	17	17	31	1.93
471518--471568	20	2.6	20	87	3	68	27	13	19	39	1.90
471999--472429	108	4.0	108	91	0	646	29	18	18	33	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
473067--473108	11	3.8	11	81	9	50	0	38	0	61	0.96
474479--474512	13	2.6	13	95	0	59	52	0	14	32	1.42
475204--475237	12	2.8	12	90	0	59	38	0	0	61	0.96
475198--475255	24	2.4	25	77	13	68	34	0	0	65	0.93
475924--476003	26	3.3	26	75	17	66	40	0	0	60	0.97
475923--476010	18	4.5	20	68	19	69	39	0	0	60	0.97
475948--476032	12	7.2	12	70	22	65	34	0	0	65	0.93
475976--476026	19	2.6	19	81	9	59	33	0	0	66	0.92
475971--476031	28	2.0	31	84	12	83	34	0	0	65	0.93
478033--478072	2	19.0	2	90	10	62	47	0	47	5	1.24
478374--478438	27	2.3	29	77	15	73	29	1	7	61	1.33
479974--480008	14	2.5	14	90	0	61	54	0	0	45	0.99
480244--480272	7	4.3	7	95	4	51	58	0	0	41	0.98
480876--480903	2	14.0	2	100	0	56	50	0	0	50	1.00
481744--481793	16	3.1	16	85	0	64	30	14	12	44	1.81
484543--484615	12	5.9	12	79	9	58	61	1	0	36	1.05
484553--484612	12	4.8	12	80	10	66	63	0	0	36	0.95
484553--484615	24	2.5	26	79	7	76	61	0	0	38	0.96
484563--484613	8	6.4	8	76	14	52	62	0	0	37	0.95
485700--485833	70	1.9	70	87	3	198	22	14	14	48	1.80
491213--491453	97	2.5	97	89	0	374	28	13	30	28	1.94
491561--492542	488	2.0	487	95	0	1750	35	14	20	29	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
494122--494238	20	5.8	20	90	4	148	41	15	11	31	1.82
494165--494218	12	5.2	12	68	32	52	35	18	11	35	1.86
495222--495271	9	5.6	9	86	9	75	2	2	8	88	0.68
506763--506968	97	2.1	96	93	0	349	29	12	30	28	1.93
506763--507002	97	2.5	97	88	2	322	30	12	29	28	1.93
509072--509147	20	3.8	19	78	10	71	38	14	11	35	1.83
510195--510271	21	3.8	21	89	6	122	32	18	14	35	1.91
510257--510283	13	2.1	13	100	0	54	40	14	14	29	1.86
510821--510854	16	2.1	17	89	10	54	29	35	0	35	1.58
512939--512975	8	4.5	8	93	3	56	59	27	0	13	1.35
513096--513127	14	2.3	14	94	0	55	40	3	25	31	1.71
519022--519078	19	2.9	19	89	5	78	31	17	15	35	1.92
519064--519088	13	1.9	13	100	0	50	32	16	16	36	1.90
519045--519109	33	2.0	32	87	3	94	33	16	18	30	1.94
519699--519734	2	18.5	2	94	5	65	50	0	0	50	1.00
521298--521339	20	2.0	21	86	4	59	33	19	7	40	1.78
528683--528726	22	2.0	22	95	0	79	38	2	9	50	1.47
529105--529264	86	1.9	86	80	2	187	36	10	21	31	1.87
529262--529305	22	2.0	22	100	0	88	36	0	9	54	1.32
529266--529315	23	2.2	22	89	3	73	44	0	6	50	1.26
531961--532010	20	2.5	20	80	9	57	28	16	16	40	1.89
548998--549022	13	1.9	13	100	0	50	32	16	16	36	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
554481--554962	240	2.0	240	95	0	874	32	19	14	32	1.92
555565--555632	35	1.9	35	96	0	127	38	14	19	27	1.91
558034--558071	20	1.9	20	94	0	67	34	18	10	36	1.85
558110--558147	20	1.9	20	94	0	67	36	10	5	47	1.61
563408--563461	20	2.7	20	94	2	90	37	11	18	33	1.86
567383--567408	12	2.2	12	100	0	52	26	30	23	19	1.98
574999--575044	22	2.1	22	84	8	58	63	4	4	28	1.33
576493--576532	2	21.0	2	85	10	57	50	2	0	47	1.14
576556--576619	33	1.9	33	83	0	83	34	21	14	29	1.93
579759--579786	1	28.0	1	100	0	56	100	0	0	0	0.00
580328--580375	24	2.0	24	88	4	71	56	16	12	14	1.68
582300--582342	21	2.0	21	95	0	77	48	0	2	48	1.14
582294--582341	21	2.5	18	75	18	51	50	2	2	45	1.25
582346--582385	21	1.9	21	85	10	55	45	0	0	55	0.99
582338--582411	29	2.6	28	81	16	89	47	1	0	51	1.09
582572--582605	16	2.1	17	88	5	52	44	0	2	52	1.16
583266--583303	20	1.9	19	89	5	58	15	10	23	50	1.75
587586--587734	72	2.1	72	94	0	262	21	16	18	43	1.88
590736--590818	42	2.0	42	81	9	98	28	1	4	65	1.21
597131--597169	20	2.0	19	95	5	69	30	10	23	35	1.88
602639--602664	13	2.0	13	100	0	52	38	15	15	30	1.88
606880--606905	13	2.0	13	100	0	52	30	15	15	38	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
607039--607077	20	2.0	19	95	5	69	30	10	23	35	1.88
607515--607923	202	2.0	201	97	0	764	34	10	22	32	1.88
609132--609172	21	2.0	20	85	4	55	48	17	12	21	1.79
610099--610140	20	2.1	20	90	0	66	50	11	11	26	1.74
611631--611691	31	1.9	32	86	3	88	59	0	0	40	0.98
615659--615695	18	2.1	18	90	10	58	35	0	0	64	0.94
617180--617234	28	1.9	29	85	3	76	58	3	1	36	1.26
617300--617354	11	5.2	11	77	16	62	36	1	0	61	1.06
617307--617356	13	4.0	13	75	17	52	38	2	0	60	1.09
617445--617499	15	3.7	15	82	7	58	43	0	1	54	1.10
618813--618853	2	20.5	2	94	0	73	0	51	0	48	1.00
622080--622107	2	14.0	2	100	0	56	50	0	0	50	1.00
622886--622914	12	2.4	12	100	0	58	31	10	6	51	1.62
624415--624443	13	2.2	13	100	0	58	31	17	13	37	1.89
624431--624483	20	2.6	20	84	3	70	41	16	16	24	1.89
625986--626048	32	1.9	32	87	3	90	31	14	12	41	1.83
626009--626070	20	3.2	20	84	11	83	37	12	14	35	1.85
626098--626136	20	2.0	20	89	0	60	30	12	17	38	1.88
626100--626163	33	1.9	33	90	6	103	34	14	18	32	1.91
634686--634712	13	2.1	13	100	0	54	29	14	14	40	1.86
634666--634731	33	2.0	32	91	2	105	28	15	15	40	1.87
634697--634733	19	1.9	19	100	0	74	32	16	16	35	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
634761--634825	19	3.7	19	75	23	79	30	15	18	35	1.92
634778--634802	13	1.9	13	100	0	50	24	16	20	40	1.91
634761--634860	32	3.1	32	89	4	148	31	15	20	34	1.93
635114--635151	19	2.0	19	100	0	76	84	0	5	10	0.77
635117--635154	20	1.9	20	100	0	76	86	0	2	10	0.66
635157--635213	21	2.7	21	97	0	105	33	10	19	36	1.86
635269--635336	19	3.9	19	78	21	85	35	11	14	38	1.83
635290--635314	13	1.9	13	100	0	50	36	16	16	32	1.90
635271--635333	32	2.0	32	96	0	117	34	12	15	36	1.86
635376--635401	13	2.0	13	100	0	52	30	15	15	38	1.88

Tables:   1   2   3   4   5   6