genome.fa.s42.2.7.7.80.10.50.1000.4.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: Scaffold42
Parameters: 2 7 7 80 10 50 1000
Length:  3911082

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   

This is table  4  of  24  ( 2843 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)
483974--484041	27	2.5	26	81	11	75	57	8	5	27	1.52
484558--484787	32	7.2	32	75	6	180	36	13	12	38	1.82
484540--485090	64	9.0	64	69	13	253	37	13	11	38	1.81
484540--484787	127	1.9	128	83	7	317	36	12	13	37	1.83
484679--485007	117	2.8	116	77	5	349	38	14	10	36	1.81
485495--485525	12	2.5	13	94	5	55	83	6	0	9	0.79
491067--491133	37	1.9	35	88	11	102	29	25	11	32	1.92
491760--491784	13	1.9	13	100	0	50	36	16	16	32	1.90
494968--494993	13	2.0	13	100	0	52	38	15	15	30	1.88
494950--495013	32	2.0	33	90	3	103	39	18	14	28	1.90
497212--497261	21	2.3	21	80	10	57	56	4	18	22	1.58
501301--501346	21	2.2	20	81	11	58	32	19	4	43	1.71
503676--503727	19	2.7	20	87	6	79	38	19	13	28	1.89
504912--505065	84	1.8	84	81	2	193	24	16	4	54	1.61
507192--507247	22	2.5	22	97	0	103	35	8	26	28	1.87
507155--507224	36	1.9	37	85	2	97	35	11	22	30	1.90
507386--507428	21	2.0	21	86	8	61	37	11	13	37	1.82
511145--511235	29	3.2	29	65	20	82	23	5	19	51	1.67
511146--511313	57	3.0	57	95	0	293	22	4	20	52	1.65
513429--513467	13	2.9	13	88	3	51	25	5	15	53	1.62
515754--515808	20	2.7	21	83	11	69	36	10	16	36	1.84
517242--517299	2	30.5	2	77	16	61	46	3	1	48	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
517242--517299	18	3.3	19	86	9	70	46	3	1	48	1.29
522253--522308	21	2.7	21	94	0	94	37	12	14	35	1.84
522929--522983	20	2.7	21	85	2	76	38	10	20	30	1.87
523013--523076	20	3.7	18	74	25	66	43	15	12	28	1.83
523031--523056	13	2.0	13	100	0	52	38	15	15	30	1.88
523013--523076	32	2.0	33	93	3	112	43	15	12	28	1.83
524676--524717	21	2.0	21	85	0	57	42	4	28	23	1.74
525103--525267	84	2.0	84	82	7	201	52	3	18	25	1.62
528594--528645	19	2.7	20	90	6	88	44	15	11	28	1.81
533229--533930	154	4.6	153	78	8	604	41	18	15	23	1.90
533279--533930	302	2.2	302	81	5	773	40	19	15	24	1.90
537094--537702	85	7.2	85	76	7	393	34	13	30	21	1.92
537249--537702	169	2.7	169	76	7	458	35	13	29	21	1.92
538055--538099	11	4.5	11	78	21	62	22	24	0	53	1.46
540056--540152	51	1.9	51	91	0	158	30	16	9	43	1.79
544153--544187	16	2.2	16	89	0	52	14	2	5	77	1.07
548228--548279	20	2.5	21	90	3	79	38	11	17	32	1.85
552421--552451	15	2.1	15	100	0	62	32	6	19	41	1.77
556074--556098	13	1.9	13	100	0	50	32	16	16	36	1.90
556054--556118	33	2.0	33	84	0	85	30	16	13	38	1.88
556149--556175	13	2.1	13	100	0	54	40	14	14	29	1.86
565030--565156	50	2.5	50	84	2	157	30	17	12	39	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
568144--568569	158	2.7	157	85	4	547	28	24	14	33	1.94
568133--568569	79	5.6	77	80	7	452	28	24	13	33	1.93
571614--572147	155	3.4	154	82	2	613	38	19	17	24	1.92
572404--572451	20	2.4	20	82	0	51	18	4	4	72	1.17
572797--572851	20	2.7	20	91	2	83	38	10	18	32	1.85
575583--575607	13	1.9	13	100	0	50	36	16	16	32	1.90
575560--575627	33	2.1	33	88	2	102	32	14	17	35	1.91
578666--578989	166	1.9	166	82	5	404	51	7	11	29	1.66
578726--579066	166	2.0	168	79	6	363	51	8	11	29	1.66
582514--582584	20	3.6	19	77	7	70	39	16	14	29	1.88
582554--582690	53	2.6	53	95	1	238	37	17	17	27	1.92
582733--582786	21	2.5	22	90	6	92	27	25	11	35	1.90
583340--583406	37	1.9	35	88	11	102	32	11	25	29	1.92
587148--587181	14	2.4	15	90	9	54	38	0	0	61	0.96
588032--588120	36	2.6	35	82	12	105	47	0	1	51	1.08
589176--589224	20	2.4	21	76	13	57	36	0	4	59	1.17
589230--589272	16	2.6	17	78	10	54	39	0	0	60	0.97
589236--589283	14	3.4	13	78	18	51	41	0	0	58	0.98
589237--589335	30	3.1	30	73	18	83	37	1	0	61	1.03
589231--589347	10	11.4	10	72	14	71	35	0	0	63	1.01
589266--589317	19	2.7	20	82	11	72	36	0	0	63	0.95
589245--589299	8	7.0	8	73	19	53	38	0	0	61	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
589229--589354	51	2.6	47	77	18	116	37	0	0	61	1.01
589594--589632	20	2.0	20	89	0	60	35	2	15	46	1.60
595011--595047	16	2.2	18	90	9	60	51	5	0	43	1.24
596045--596092	17	2.8	17	75	12	53	43	0	8	47	1.33
599322--599405	42	2.0	42	95	0	150	40	21	4	33	1.74
600993--601316	96	3.4	96	83	5	341	37	13	20	29	1.91
602047--602214	86	2.0	85	97	1	318	34	14	20	30	1.93
605886--605994	52	2.1	52	96	0	200	29	17	17	35	1.93
607219--607285	33	2.0	33	88	0	98	34	11	13	40	1.81
607239--607263	13	1.9	13	100	0	50	36	16	16	32	1.90
607326--607350	13	1.9	13	100	0	50	32	16	16	36	1.90
607359--607488	52	2.5	52	91	3	201	33	19	16	31	1.94
614303--614329	13	2.1	13	100	0	54	40	14	14	29	1.86
614284--614349	33	2.0	33	93	0	114	37	12	15	34	1.84
614373--614405	13	2.5	13	95	0	57	36	18	12	33	1.88
615185--616653	101	14.9	101	92	1	2124	31	18	26	23	1.97
616350--616643	39	6.8	39	75	16	228	27	19	26	26	1.99
616387--616653	48	5.9	47	77	15	296	28	19	26	25	1.98
616296--616648	87	4.0	87	92	1	580	28	19	26	25	1.99
616725--617341	33	20.3	30	81	12	404	30	13	33	22	1.92
616777--617242	28	15.9	28	81	13	412	29	13	34	22	1.92
616725--617100	149	2.6	148	93	3	636	30	13	34	22	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
616743--617220	149	3.2	144	87	7	629	30	13	34	22	1.92
617216--617472	33	8.1	33	80	10	254	33	14	29	22	1.94
616781--617467	33	22.7	30	78	14	245	30	13	32	22	1.93
617283--617467	94	2.0	91	85	6	244	29	15	31	24	1.95
617253--617472	60	3.5	62	82	8	266	31	15	30	23	1.95
618749--618789	13	3.2	13	86	10	57	0	0	17	82	0.66
625661--625729	32	2.2	32	86	0	93	36	13	13	37	1.83
626972--627028	20	2.8	20	94	0	96	28	17	10	43	1.82
627941--627979	20	1.9	21	89	5	62	23	10	10	56	1.63
630657--630681	13	1.9	13	100	0	50	32	16	16	36	1.90
630750--630817	33	2.1	32	86	8	93	36	17	13	32	1.89
636978--637014	13	2.8	13	91	0	56	35	16	13	35	1.88
640230--640281	13	3.5	13	73	26	50	36	17	13	32	1.89
642368--642415	24	2.0	24	100	0	96	37	0	16	45	1.48
645134--645178	20	2.1	21	84	8	56	55	4	20	20	1.60
646982--647012	15	2.1	15	93	0	53	48	19	19	12	1.81
649092--649130	13	3.0	13	100	0	78	30	15	15	38	1.88
651673--651698	13	2.0	13	100	0	52	38	15	15	30	1.88
652944--652968	13	1.9	13	100	0	50	32	16	16	36	1.90
652923--652985	33	1.9	32	87	3	90	33	20	15	30	1.94
653040--653103	33	2.0	32	87	9	94	39	18	10	31	1.86
654978--655002	13	1.9	13	100	0	50	24	12	8	56	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
655135--655173	19	2.0	19	85	5	51	58	0	0	41	0.98
655605--655630	2	13.0	2	100	0	52	50	0	0	50	1.00
655642--655682	2	20.5	2	100	0	82	51	0	48	0	1.00
655968--655994	6	4.5	6	100	0	54	14	0	0	85	0.61
656278--656349	29	2.4	31	71	21	73	48	19	5	26	1.70
656442--656496	2	27.5	2	100	0	110	50	0	0	49	1.00
662743--662789	18	2.6	18	79	0	58	8	38	2	51	1.45
662743--662795	18	2.9	17	75	10	52	7	37	3	50	1.49
663275--663332	2	29.5	2	80	3	64	1	50	1	46	1.22
663773--663823	16	3.1	16	77	11	50	52	0	0	47	1.00

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24