genome.fa.s79.2.7.7.80.10.50.1000.3.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: Scaffold79
Parameters: 2 7 7 80 10 50 1000
Length:  4189514

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   25   26   

This is table  3  of  26  ( 3105 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)
286349--286584	97	2.4	96	85	2	312	29	27	12	30	1.93
291545--291592	21	2.3	21	96	0	87	31	16	16	35	1.92
292787--293095	27	11.3	27	88	3	354	25	30	14	30	1.95
292788--293107	83	3.9	81	84	6	396	26	30	14	29	1.95
292764--293157	27	14.1	28	83	7	353	26	29	15	28	1.96
292972--293554	29	19.8	29	78	8	325	30	30	15	24	1.96
293055--293554	96	5.6	86	77	12	280	30	29	16	23	1.96
293083--293524	64	7.4	57	78	10	219	30	30	16	21	1.96
293204--293380	32	5.5	32	84	5	216	33	29	15	20	1.94
293189--293380	64	3.0	64	84	6	248	33	29	16	20	1.95
293160--293380	96	2.4	96	84	8	285	32	30	16	20	1.95
293701--293933	46	5.0	46	90	1	313	21	27	15	34	1.94
293705--293941	48	5.0	48	91	1	329	21	28	15	35	1.93
294748--294823	20	3.8	20	83	0	107	34	14	11	39	1.83
294667--294873	91	2.3	91	91	1	326	28	18	12	41	1.87
297031--297263	97	2.4	97	87	2	326	28	29	12	29	1.93
306074--306125	20	2.5	21	84	3	70	59	0	0	40	0.97
310786--310834	23	2.2	23	85	7	66	53	2	0	44	1.12
311161--311206	2	23.0	2	86	0	65	45	0	6	47	1.28
319644--319872	85	2.7	82	81	8	284	45	15	25	13	1.83
319892--319973	43	1.9	42	85	2	110	40	19	20	19	1.92
319958--320252	43	7.0	42	75	10	161	40	19	23	17	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
319959--320416	85	5.4	84	78	7	363	39	17	24	17	1.91
320044--320429	128	3.0	126	78	8	368	40	17	24	17	1.90
320044--320416	86	4.4	86	79	7	323	40	17	24	17	1.90
320062--320429	42	8.6	44	75	8	258	41	17	24	17	1.90
320780--320871	10	9.7	10	78	16	81	4	14	0	81	0.84
320780--320871	19	4.8	19	75	11	91	4	14	0	81	0.84
320779--320873	9	10.0	9	78	15	84	4	14	0	81	0.85
321782--321823	20	2.2	20	87	8	61	52	11	11	23	1.71
329390--329443	28	1.9	28	85	7	74	18	0	9	72	1.11
329389--329453	21	2.9	23	78	17	66	18	0	9	72	1.11
329373--329443	16	4.8	15	76	15	67	16	1	8	73	1.15
329374--329444	7	9.7	7	76	14	54	16	1	8	73	1.15
334701--334766	32	2.1	30	81	15	73	24	3	7	65	1.33
335022--335087	11	5.5	11	73	19	51	31	1	1	65	1.11
335127--335156	12	2.5	12	88	0	51	40	0	0	60	0.97
342929--342986	24	2.4	25	91	2	91	39	8	20	31	1.83
344726--344781	22	2.6	21	73	15	60	30	1	0	67	1.01
346117--346152	16	2.2	16	90	9	56	50	2	0	47	1.15
346842--346909	18	3.8	18	82	0	82	63	2	2	30	1.24
355009--355091	33	2.5	33	77	18	93	53	0	0	46	1.00
355009--355101	30	2.7	34	73	26	90	53	0	0	46	1.00
355735--355905	5	35.2	5	64	22	71	57	1	0	40	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
355757--355905	16	8.4	17	67	23	60	58	1	0	40	1.07
355769--355857	28	2.9	31	80	11	103	56	0	0	43	0.99
355810--355906	29	3.5	28	75	15	87	57	2	0	40	1.10
356047--356105	11	5.5	11	71	15	52	37	0	0	62	0.95
356285--356325	17	2.4	17	87	4	55	46	2	2	48	1.28
359513--359572	31	1.9	31	83	12	79	55	10	0	35	1.34
360540--360618	32	2.6	31	78	20	87	45	1	0	53	1.08
360556--360604	16	3.2	14	76	20	53	48	2	0	48	1.12
363808--363952	50	2.9	50	92	4	247	31	20	21	27	1.98
368346--368504	50	3.2	50	91	5	250	30	18	21	29	1.97
369345--369381	16	2.3	16	90	0	56	56	0	0	43	0.99
371710--371734	13	1.9	13	100	0	50	24	0	12	64	1.27
371988--372086	29	3.2	28	75	22	101	42	1	2	54	1.18
371988--372098	30	3.6	29	76	18	109	42	0	2	54	1.21
371998--372104	36	3.2	35	71	22	104	42	0	2	54	1.21
371988--372124	63	2.1	64	91	2	222	42	0	2	54	1.17
372730--372779	20	2.5	20	84	9	59	22	4	4	70	1.21
372781--372830	22	2.3	22	86	6	75	20	2	10	68	1.29
372789--372830	21	2.1	21	86	8	61	21	2	9	66	1.32
372867--372928	26	2.3	27	74	17	67	38	0	1	59	1.07
372978--373054	9	8.2	9	76	13	75	50	1	0	48	1.09
372980--373054	21	3.4	23	80	10	77	52	1	0	46	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
372978--373035	5	11.8	5	75	17	59	55	1	0	43	1.10
373894--373925	16	2.0	16	93	0	55	28	6	6	59	1.46
373987--374121	70	1.9	69	90	1	216	34	12	19	33	1.89
378209--378311	50	2.1	50	100	0	206	38	36	5	18	1.75
383549--383582	7	4.9	7	85	0	50	20	2	0	76	0.92
384559--384610	16	3.2	16	81	10	70	40	23	19	17	1.91
384894--384937	19	2.3	19	81	14	54	63	0	0	36	0.95
384939--384977	16	2.5	15	84	12	51	58	2	0	38	1.12
385461--385506	20	2.3	19	85	11	56	52	0	0	47	1.00
399525--399557	6	5.5	6	100	0	66	15	0	0	84	0.61
402942--403020	33	2.4	33	93	2	131	41	15	10	32	1.80
406436--406466	2	15.5	2	100	0	62	51	0	0	48	1.00
406718--406757	17	2.2	17	86	8	53	35	2	0	62	1.09
406715--406782	6	11.8	6	73	25	58	33	2	0	63	1.10
407528--407588	30	2.0	33	84	15	87	45	0	0	54	1.00
407523--407586	24	2.7	24	79	11	69	48	0	0	51	1.00
407552--407612	14	4.1	15	75	22	58	40	0	0	59	0.98
407582--407632	22	2.3	22	83	9	68	41	0	0	58	0.98
408377--408430	14	3.8	15	73	11	51	55	0	0	44	0.99
408483--408507	12	2.1	12	100	0	50	68	0	0	32	0.90
410194--410221	2	14.0	2	100	0	56	50	0	50	0	1.00
415883--415954	22	3.1	22	77	16	67	43	0	0	56	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
416020--416050	15	2.0	16	93	6	55	51	0	0	48	1.00
416662--416712	25	2.0	25	85	7	68	23	5	3	66	1.30
417200--417299	27	3.3	31	74	14	93	52	1	1	46	1.14
417238--417287	17	2.9	17	76	23	52	56	0	0	44	0.99
419669--419696	5	5.6	5	100	0	56	17	0	0	82	0.68
427111--427407	156	1.9	154	83	1	387	36	22	18	22	1.95
427182--427484	156	1.9	156	79	1	338	36	21	17	23	1.94
428217--428668	163	2.8	162	84	3	595	40	10	11	37	1.75
429466--429508	17	2.5	17	84	3	59	2	23	0	74	0.93
430183--430484	167	1.8	167	79	4	358	50	8	12	29	1.69
432050--432503	84	5.4	83	79	7	436	35	15	28	20	1.94
433097--433273	42	4.2	42	73	3	117	38	17	27	15	1.90
433074--433284	84	2.5	83	80	3	201	40	17	27	15	1.89
433126--433315	83	2.3	84	79	2	195	39	17	27	15	1.90
433339--433689	43	8.2	43	80	2	328	36	16	28	18	1.92
433339--433689	129	2.7	129	81	2	391	36	16	28	18	1.92
433897--434095	48	4.2	48	79	3	231	41	20	21	16	1.90
433891--434095	95	2.1	96	83	4	263	42	20	21	16	1.89
435693--435727	18	1.9	18	94	0	61	5	20	0	74	1.02
439398--439779	156	2.5	156	78	4	369	37	23	16	22	1.93
440580--441034	163	2.8	162	88	3	671	41	10	11	36	1.77
441377--441762	167	2.3	163	82	3	434	50	8	12	28	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
442966--443043	16	4.9	16	85	4	95	53	3	0	42	1.19
444911--444944	15	2.2	15	89	5	50	79	11	0	8	0.94
445585--445713	35	3.6	35	75	19	115	43	1	0	54	1.15
447589--447642	20	2.8	20	81	13	67	46	0	1	51	1.11
448138--448162	3	8.3	3	100	0	50	32	0	0	68	0.90
448949--449030	40	2.0	40	100	0	164	32	12	17	37	1.86
450972--451058	36	2.4	34	78	16	86	47	2	0	50	1.13
453084--453113	2	15.0	2	92	0	51	53	0	0	46	1.00
454256--454292	16	2.2	17	95	4	67	59	0	0	40	0.97
454274--454342	11	6.5	10	71	14	50	56	4	0	39	1.19

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   25   26