genome.fa.s267.2.7.7.80.10.50.1000.3.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: Scaffold267
Parameters: 2 7 7 80 10 50 1000
Length:  2306539

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   

This is table  3  of  15  ( 1685 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)
348766--348885	52	2.3	52	95	0	213	35	19	17	28	1.94
358909--358954	21	2.2	20	82	14	58	39	15	21	23	1.92
359873--359900	13	2.2	13	100	0	56	39	17	14	28	1.89
372138--372262	20	5.7	20	74	18	115	40	12	16	29	1.86
373204--373299	28	3.4	28	88	1	120	26	15	29	29	1.96
376517--376542	13	2.0	13	100	0	52	38	15	15	30	1.88
378604--378634	15	2.1	15	93	0	53	12	22	16	48	1.80
380437--380481	21	2.1	21	84	8	56	22	20	4	53	1.63
382667--382718	20	2.6	20	100	0	104	26	11	15	46	1.80
383104--383617	114	4.5	114	87	3	673	24	18	29	28	1.98
383104--383617	142	3.6	140	88	3	699	24	18	29	28	1.98
383104--383617	28	18.1	28	85	4	618	24	18	29	28	1.98
384848--384907	19	3.3	18	82	11	77	0	3	11	85	0.72
399051--399075	13	1.9	13	100	0	50	36	16	16	32	1.90
399167--399244	32	2.4	32	97	0	147	30	14	15	39	1.87
402925--403016	45	2.0	45	87	4	132	43	18	21	16	1.88
402858--403079	111	2.0	112	84	4	288	39	18	24	16	1.91
403152--403589	67	6.5	67	81	4	490	43	15	22	18	1.87
403152--403594	201	2.2	201	83	3	552	43	15	22	18	1.88
404588--404661	33	2.2	33	85	0	103	8	17	18	55	1.66
404625--404683	31	1.9	31	89	6	93	10	13	18	57	1.64
413773--413818	9	5.0	9	78	5	56	2	4	10	82	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
413772--413817	19	2.4	19	81	0	56	2	4	8	84	0.83
428469--428598	52	2.5	52	91	0	206	28	16	16	38	1.90
430550--430578	13	2.1	14	93	6	51	6	0	27	65	1.18
431001--431145	20	6.7	20	76	16	137	40	13	17	29	1.87
431049--431145	40	2.4	40	87	5	151	40	12	16	30	1.85
434099--434124	13	2.0	13	100	0	52	30	15	15	38	1.88
436020--436515	154	3.2	154	81	6	535	39	19	15	25	1.91
436673--436913	28	8.5	27	75	8	124	37	22	4	34	1.76
436805--436912	29	3.8	29	87	2	139	39	21	3	35	1.71
436805--436912	57	1.9	57	86	3	155	39	21	3	35	1.71
437742--437799	22	2.8	22	82	7	68	70	3	1	24	1.12
437742--437800	21	2.9	20	80	9	66	69	3	1	25	1.13
437935--438361	162	2.7	156	81	6	423	51	7	9	30	1.63
442379--442408	15	1.9	16	93	6	53	80	0	20	0	0.72
447325--447379	20	2.8	19	86	5	65	40	16	12	30	1.86
447451--447476	13	2.0	13	100	0	52	38	15	15	30	1.88
447432--447496	33	2.0	33	87	6	96	41	16	13	27	1.87
453608--453632	13	1.9	13	100	0	50	32	20	16	32	1.94
453753--453798	21	2.2	20	81	11	58	32	19	4	43	1.71
456953--456978	13	2.0	13	100	0	52	30	15	15	38	1.88
457039--457152	20	5.6	20	79	4	138	30	19	13	36	1.90
457017--457134	21	5.7	21	77	5	132	28	17	11	41	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
457017--457152	41	3.3	41	97	1	254	29	18	12	39	1.87
459442--459479	13	2.9	13	96	0	67	31	15	18	34	1.92
461559--461589	15	2.1	15	93	0	53	12	22	16	48	1.80
465651--465676	13	2.0	13	100	0	52	30	15	15	38	1.88
465715--465790	21	3.7	21	80	3	100	30	17	10	42	1.82
465736--465808	20	3.6	20	81	3	92	32	19	12	35	1.89
465715--465808	41	2.3	41	96	0	170	30	18	11	39	1.86
468226--468398	66	2.6	65	76	6	152	17	19	16	46	1.85
468385--468594	66	3.2	65	73	6	172	23	25	10	40	1.86
468395--468552	65	2.4	66	78	6	169	24	22	10	42	1.84
468395--468739	131	2.6	131	78	4	347	20	22	12	44	1.85
468689--468902	117	1.8	116	83	3	286	20	22	16	40	1.91
468803--469094	66	4.4	66	78	6	263	21	20	16	42	1.89
468788--469094	132	2.3	131	77	3	305	21	21	15	42	1.89
469110--469508	65	6.1	65	71	7	218	19	21	17	41	1.90
470716--470864	63	2.4	63	83	2	192	22	23	12	41	1.88
470640--470864	63	3.6	63	75	4	170	23	21	12	42	1.87
473783--473823	18	2.3	18	91	0	64	56	0	0	43	0.99
474688--475222	63	8.5	63	74	5	289	21	22	13	42	1.87
474688--475220	126	4.3	126	74	7	359	21	22	13	42	1.87
475138--475222	31	2.7	31	68	14	75	23	20	10	45	1.81
475209--475239	15	2.1	15	100	0	62	19	12	12	54	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
475146--475296	77	1.9	78	86	1	214	21	16	14	47	1.82
475217--475376	63	2.5	61	79	9	160	20	17	15	47	1.83
475573--475716	63	2.3	62	79	2	144	24	22	12	40	1.88
475668--475926	63	4.1	63	74	4	227	20	20	14	44	1.86
475689--475926	126	1.9	127	81	2	291	20	21	13	44	1.86
475973--476065	48	1.9	48	84	0	123	22	15	15	47	1.82
476021--476159	63	2.2	63	81	7	158	21	20	14	43	1.87
476073--476258	99	1.9	99	86	2	266	22	23	13	39	1.90
476224--476316	30	3.0	30	70	16	82	20	24	15	39	1.91
476226--476341	32	3.7	31	71	15	94	18	24	15	42	1.88
476178--476416	62	3.8	62	79	7	225	22	25	13	38	1.90
476320--476419	31	3.2	30	70	10	85	24	28	12	36	1.91
481432--481473	15	2.7	16	92	3	68	21	2	0	76	0.90
481432--481476	16	2.9	15	93	3	72	20	2	0	77	0.87
481425--481473	25	2.0	25	88	7	75	22	2	0	75	0.90
484274--484308	18	1.9	18	100	0	70	17	34	17	31	1.93
484296--485206	43	21.2	42	75	7	512	19	30	16	33	1.94
484294--485187	129	6.9	129	80	2	927	19	30	16	33	1.94
484292--485206	86	10.6	84	77	6	732	19	30	16	33	1.94
485179--485260	42	2.0	42	88	9	123	20	24	15	39	1.92
486426--486794	166	2.2	165	78	9	385	25	13	9	51	1.71
488400--488630	86	2.7	85	83	5	259	18	31	15	35	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
488401--488642	43	5.6	42	77	8	195	17	31	15	35	1.92
488888--488982	42	2.2	42	79	1	100	20	30	15	33	1.94
488917--489009	42	2.2	42	80	3	107	19	32	18	30	1.95
491078--491129	11	4.5	12	81	15	65	80	0	13	5	0.88
491078--491139	23	2.7	23	90	2	90	79	0	14	6	0.93
491078--491141	33	2.0	30	88	8	92	78	0	14	7	0.96
491078--491144	10	5.9	12	77	18	63	76	0	14	8	1.02
491084--491141	10	5.6	10	80	13	64	77	0	13	8	0.98
492075--492371	160	1.8	165	84	5	408	36	11	11	40	1.77
507591--507673	43	2.0	41	81	9	96	21	22	12	43	1.86
507946--508384	31	13.8	31	72	8	308	30	28	22	17	1.97
508002--508385	130	3.0	129	81	3	412	30	28	22	18	1.97
507946--508385	130	3.4	131	77	4	371	30	28	22	17	1.97
509753--509844	42	2.2	42	88	3	132	20	10	22	45	1.82
512164--512188	9	2.8	9	100	0	50	24	0	0	76	0.80
512205--512235	10	3.1	10	90	0	53	3	9	0	87	0.66
517266--517300	18	2.0	18	88	5	54	5	28	20	45	1.73
518528--518636	44	2.5	42	82	5	137	40	14	27	17	1.89
518484--518653	42	4.0	42	75	11	150	41	13	27	17	1.87
518952--519361	31	13.2	31	74	8	266	19	20	31	28	1.97
518934--519123	94	2.0	94	82	4	231	20	19	31	28	1.97
519130--519402	90	3.0	89	80	11	279	21	19	30	28	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
519369--519896	62	8.6	60	72	13	306	33	12	29	23	1.92
519387--519896	30	16.5	30	69	12	196	33	12	29	24	1.92
519521--519582	32	1.9	32	83	9	81	37	11	25	25	1.89
519538--519709	92	1.9	92	87	0	254	33	12	27	26	1.93
519697--519799	33	3.2	33	73	10	90	33	10	30	25	1.90
527415--528376	164	5.8	164	79	8	846	50	7	11	30	1.66
527577--528376	167	4.8	165	82	7	788	51	7	11	30	1.65
533976--534025	19	2.6	19	93	0	82	38	20	12	30	1.88
535068--535159	46	2.0	46	89	0	139	35	8	18	36	1.82
536081--536177	51	1.9	51	91	0	158	29	15	13	41	1.85

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15