genome.fa.s234.2.7.7.80.10.50.1000.4.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: Scaffold234
Parameters: 2 7 7 80 10 50 1000
Length:  616507

Tables:   1   2   3   4   5   

This is table  4  of  5  ( 499 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)
440603--441274	165	4.1	165	79	7	496	31	10	7	49	1.67
440762--441219	165	2.8	163	84	6	550	32	10	6	50	1.63
441798--441824	14	1.9	14	100	0	54	85	0	14	0	0.61
442696--442725	16	1.9	15	93	6	51	70	0	0	30	0.88
447026--447080	20	2.8	19	89	5	83	43	10	18	27	1.83
447125--447178	20	2.7	20	82	2	72	25	16	12	44	1.84
449669--449710	19	2.3	19	91	4	68	57	0	19	23	1.41
449683--449728	23	2.0	24	86	4	67	58	2	19	19	1.49
453364--453942	165	3.5	165	78	6	494	30	10	9	49	1.69
454295--454330	17	2.2	17	90	5	56	72	0	16	11	1.12
454426--454489	21	3.0	21	77	8	67	79	1	17	1	0.89
454434--454490	13	4.6	12	81	12	62	80	1	15	1	0.87
454430--454468	16	2.5	16	87	4	53	79	0	17	2	0.84
454430--454489	15	3.9	15	78	8	59	80	1	16	1	0.89
454428--454490	25	2.5	24	80	14	74	80	1	15	1	0.86
454430--454482	27	2.0	27	82	14	65	79	0	18	1	0.83
455860--455898	3	13.0	3	100	0	78	66	0	0	33	0.92
457507--457539	17	1.9	17	93	0	57	51	6	12	30	1.63
459705--459750	24	1.9	24	86	0	65	34	0	0	65	0.93
460032--460099	17	4.2	17	77	9	70	57	10	1	30	1.41
460058--460106	25	1.9	25	83	4	62	59	12	0	28	1.34
469155--469188	3	11.3	3	93	0	59	29	0	2	67	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
471764--471789	2	13.0	2	100	0	52	50	0	0	50	1.00
479618--479659	19	2.2	19	91	0	66	54	9	16	19	1.69
480954--481004	20	2.5	21	83	3	59	33	13	9	43	1.77
482679--482725	16	2.9	16	84	9	60	34	0	0	65	0.93
486856--487051	107	1.8	107	84	4	270	31	16	24	27	1.97
486848--487076	107	2.1	108	80	4	268	31	15	26	27	1.96
486953--487266	79	4.0	79	84	2	355	33	11	25	28	1.91
492045--492739	89	7.8	89	89	0	951	30	17	15	35	1.92
492670--492807	68	2.0	68	91	0	222	26	17	17	39	1.91
492581--492896	157	2.0	157	85	3	431	28	17	16	38	1.91
492738--493163	89	4.8	89	88	2	615	29	17	15	37	1.91
492492--493492	246	4.0	246	78	12	827	29	17	15	37	1.91
492314--493582	424	3.0	424	94	0	2164	29	17	15	36	1.91
492491--493496	335	3.0	333	83	9	1164	29	17	15	36	1.91
493094--493231	68	2.0	68	90	0	213	26	18	16	38	1.92
493005--493320	157	2.0	157	85	2	429	28	17	15	38	1.91
493162--493641	89	5.4	89	86	3	626	31	17	14	36	1.90
493712--493823	2	63.0	2	70	22	81	41	1	0	55	1.16
493770--493818	15	3.2	14	83	13	53	42	0	0	57	0.99
493707--493822	41	2.9	41	80	13	143	41	1	0	56	1.16
495134--495172	3	13.0	3	94	0	69	69	0	0	30	0.89
500736--500812	20	3.9	19	80	9	84	36	11	14	37	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
500774--500890	50	2.3	51	86	2	164	34	15	9	41	1.79
501297--501371	20	3.8	20	81	0	96	33	14	13	38	1.85
502306--502344	20	1.9	21	84	5	53	20	10	10	58	1.59
507070--507111	9	4.8	9	83	16	52	21	4	2	71	1.16
507996--508350	167	2.1	166	83	8	429	30	10	10	49	1.71
510224--510391	43	3.7	43	78	13	192	32	17	24	26	1.97
510231--510406	95	1.9	95	92	0	298	31	17	24	26	1.97
510471--510897	34	12.8	32	75	16	293	38	11	29	20	1.87
510543--510601	26	2.2	26	87	3	82	32	10	32	25	1.89
510510--510634	60	2.1	59	88	4	180	36	12	31	20	1.89
510570--510880	70	4.5	71	74	17	248	40	11	28	19	1.86
510471--510897	102	4.3	100	73	15	337	38	11	29	20	1.87
510570--510944	171	2.2	169	78	7	359	39	11	29	20	1.87
512191--512272	28	2.9	28	80	7	96	26	17	31	24	1.97
512255--512423	51	3.3	51	79	4	196	33	11	26	28	1.92
512406--512481	27	2.8	28	88	6	102	21	21	34	23	1.97
512465--512595	51	2.5	51	79	12	140	31	9	26	32	1.89
514945--514970	13	2.0	13	100	0	52	38	15	15	30	1.88
514924--514990	33	2.0	33	88	0	98	43	16	14	25	1.86
515010--515077	19	3.9	18	76	23	83	38	14	11	35	1.83
515032--515056	13	1.9	13	100	0	50	32	16	16	36	1.90
515013--515075	32	2.0	32	96	0	117	36	15	12	34	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
515133--515189	21	2.7	21	97	0	105	36	19	10	33	1.86
515201--515228	14	2.0	14	100	0	56	14	7	0	78	0.95
519314--519592	148	1.9	147	82	8	348	35	17	18	27	1.94
521675--522199	164	3.2	159	77	12	450	48	8	10	32	1.68
521837--522151	154	2.0	158	85	7	430	48	9	10	32	1.69
522118--522164	19	2.4	19	79	10	51	65	4	6	23	1.33
525544--525813	149	1.8	150	82	4	357	37	17	19	26	1.93
527278--527306	10	3.0	10	95	5	51	68	0	0	31	0.89
527398--527753	166	2.1	163	80	9	391	48	6	13	31	1.67
536506--536543	13	2.9	13	92	0	58	34	15	15	34	1.90
536981--537032	21	2.4	21	87	9	70	19	48	25	7	1.75
538438--538482	22	2.0	22	91	8	74	35	0	28	35	1.58
539181--539235	20	2.7	21	85	2	76	41	14	16	27	1.87
539267--539350	27	3.0	27	81	16	100	39	16	11	32	1.85
542274--542321	20	2.3	22	79	10	57	58	12	0	29	1.35
545111--545773	69	9.4	70	73	12	418	25	22	14	37	1.92
545055--545827	357	2.2	355	87	2	1097	25	22	14	37	1.92
545779--545864	42	2.0	43	84	2	111	22	24	10	43	1.84
545709--546087	118	3.2	118	83	6	462	22	24	13	39	1.90
545897--545994	44	2.3	42	80	3	115	18	24	14	42	1.87
553420--553498	38	2.1	39	95	2	142	49	8	16	25	1.74
558182--558298	44	2.7	44	81	2	128	23	22	13	40	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
558454--559022	42	13.5	42	72	7	377	18	28	18	34	1.95
558442--559041	84	7.1	84	83	1	603	18	28	18	35	1.94
559668--559843	57	2.9	61	88	8	288	18	19	19	41	1.91
560384--560470	34	2.4	34	73	17	79	68	11	16	3	1.32
560809--560860	22	2.4	22	83	0	68	55	28	13	1	1.49
562353--562416	20	3.5	20	72	27	79	28	15	23	32	1.95
562372--562429	13	3.9	13	73	26	53	25	15	22	36	1.94
562353--562430	33	2.4	33	100	0	156	28	15	23	33	1.95
562374--562454	33	2.5	33	85	0	99	32	14	20	32	1.93
567150--567180	16	1.9	16	93	0	53	54	0	9	35	1.33
571172--571227	19	2.9	19	83	2	76	30	17	12	39	1.87
571276--571300	13	1.9	13	100	0	50	32	20	16	32	1.94
574488--574542	25	2.2	25	75	12	60	41	0	1	56	1.10
574486--574573	46	1.9	46	81	9	108	45	0	2	52	1.13
574600--574644	15	3.0	15	96	0	81	33	11	0	55	1.35
576104--576143	21	2.0	19	90	9	62	52	0	0	47	1.00
576109--576161	21	2.5	21	90	0	79	49	0	0	50	1.00
577046--577085	21	1.9	21	89	0	62	42	5	7	45	1.54
578600--578653	20	2.7	20	85	5	65	37	16	18	27	1.93
578707--578771	34	2.0	34	90	6	107	44	15	12	27	1.82
580108--580164	21	2.7	21	88	2	78	50	0	0	49	1.00
580125--580190	26	2.5	26	78	9	64	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
580246--580277	15	2.1	15	94	0	55	31	9	0	59	1.29
581067--581093	13	2.1	13	100	0	54	29	14	14	40	1.86
581049--581112	32	2.0	33	87	9	96	28	15	15	40	1.88
581077--581133	19	2.9	19	86	2	78	33	15	15	35	1.90
581162--581215	20	2.7	20	91	5	83	31	12	18	37	1.89
589950--590004	19	2.8	20	88	5	85	32	14	18	34	1.91
594353--594378	13	2.0	13	100	0	52	30	15	15	38	1.88
595037--595158	52	2.3	52	78	2	129	34	14	24	26	1.94
595237--595371	70	1.9	70	92	0	225	27	19	27	25	1.99
595352--595529	49	3.8	49	87	5	233	29	19	26	24	1.98

Tables:   1   2   3   4   5