genome.fa.s321.2.7.7.80.10.50.1000.3.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: Scaffold321
Parameters: 2 7 7 80 10 50 1000
Length:  1060354

Tables:   1   2   3   4   5   6   

This is table  3  of  6  ( 625 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)
435991--436075	37	2.5	33	77	18	86	44	0	0	55	0.99
436060--436095	11	3.2	11	84	7	54	41	0	0	58	0.98
436056--436098	11	3.6	12	87	9	52	44	0	0	55	0.99
437880--437917	20	1.9	19	89	5	58	44	2	0	52	1.14
439049--439098	15	3.3	15	75	8	57	12	2	22	64	1.37
439139--439186	14	3.5	14	77	2	53	29	4	8	58	1.46
439134--439191	28	2.1	28	90	3	91	32	3	6	56	1.42
442610--442673	17	3.8	17	71	24	64	45	0	4	50	1.22
442685--442725	21	1.9	22	95	5	75	65	4	0	29	1.13
442675--442733	21	2.8	21	80	12	68	64	5	0	30	1.15
442675--442740	21	3.2	20	78	18	64	65	6	0	28	1.17
442939--443049	4	27.8	4	86	0	123	50	9	0	39	1.36
442935--443049	16	6.9	16	86	5	149	50	10	0	39	1.37
442931--443049	20	5.9	20	81	7	143	50	10	0	38	1.38
442945--443047	14	7.6	14	89	4	133	50	10	0	38	1.37
442935--443049	34	3.6	32	80	6	144	50	10	0	39	1.37
443705--443738	2	17.0	2	93	0	59	50	2	0	47	1.16
446717--446791	24	3.4	21	76	18	57	64	1	1	33	1.11
446745--446792	22	2.2	22	85	7	62	64	0	2	33	1.05
447538--447583	23	2.1	21	88	8	65	63	0	0	36	0.95
447878--447918	15	2.6	16	78	14	50	39	0	0	60	0.96
449026--449054	6	4.8	6	100	0	58	17	17	34	31	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
457452--457492	3	13.7	3	89	0	64	34	2	31	31	1.71
462039--462077	15	2.6	15	88	8	53	46	0	0	53	1.00
466875--466917	20	2.1	21	86	4	61	51	0	2	46	1.13
467549--467590	17	2.4	17	84	11	50	40	0	0	59	0.97
467549--467605	18	3.1	19	76	19	59	43	0	0	56	0.99
477659--477692	4	8.5	4	93	0	59	20	2	26	50	1.63
484490--484521	2	16.0	2	100	0	64	50	0	0	50	1.00
486130--486177	19	2.3	21	86	10	64	37	0	2	60	1.09
486130--486178	20	2.4	22	80	13	59	36	0	2	61	1.08
491490--491529	18	2.3	18	86	4	55	20	2	2	75	1.04
491588--491618	3	10.3	3	100	0	62	35	0	0	64	0.94
497780--497846	27	2.4	28	97	2	127	5	26	32	34	1.81
499312--499363	18	2.8	18	82	5	59	75	5	7	11	1.19
499333--499373	18	2.3	18	86	0	55	78	2	9	9	1.06
499968--500015	4	12.2	4	84	8	55	29	0	2	68	1.01
499971--500015	18	2.3	20	88	11	67	28	0	2	68	1.01
499968--500015	22	2.2	22	92	3	80	29	0	2	68	1.01
500547--500585	17	2.4	16	82	4	51	71	0	2	25	0.98
500547--500614	35	1.9	34	85	5	91	70	2	2	23	1.15
503165--503192	14	2.0	14	100	0	56	64	0	7	28	1.20
503321--503350	2	15.0	2	100	0	60	50	0	0	50	1.00
513149--513225	39	2.0	40	89	2	120	29	9	29	31	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
515593--515646	24	2.3	24	82	14	69	46	0	0	53	1.00
515618--515663	20	2.3	20	85	10	60	43	0	0	56	0.99
515655--515720	18	3.8	17	78	11	64	54	0	0	45	0.99
515657--515729	15	4.2	17	71	22	55	54	1	0	43	1.08
520569--520604	16	2.2	16	100	0	72	44	5	5	44	1.50
521855--521914	27	2.1	27	84	6	75	36	0	0	63	0.95
522448--522502	29	2.0	28	83	13	71	61	0	0	38	0.96
524231--524323	16	6.0	16	76	11	61	39	0	0	60	0.97
524217--524317	45	2.3	45	79	8	118	41	0	0	58	0.98
524270--524329	8	7.4	8	75	17	52	38	0	0	61	0.96
524716--524749	13	2.6	13	85	0	50	61	5	0	32	1.20
524733--524781	14	3.3	15	77	13	57	63	2	0	34	1.06
526724--526758	14	2.6	14	95	4	63	45	0	0	54	0.99
526726--526771	13	3.5	13	88	8	58	43	0	0	56	0.99
527107--527165	19	3.2	19	81	13	70	52	0	0	47	1.00
528020--528148	42	3.0	41	80	10	125	56	0	0	43	0.99
528040--528103	20	3.2	20	72	10	58	51	0	0	48	1.00
528060--528185	39	3.5	36	75	13	100	57	0	0	42	0.99
528023--528185	78	2.1	74	81	10	179	57	0	0	42	0.98
531855--531902	16	2.9	16	77	22	55	43	2	0	54	1.12
531847--531896	17	3.1	17	81	16	61	44	0	0	56	0.99
533031--533077	24	2.0	24	83	8	60	57	2	0	40	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
538652--538710	29	2.1	28	83	3	73	55	1	1	40	1.20
538666--538737	20	3.6	19	75	16	56	61	0	0	38	0.96
547025--547057	5	6.6	5	92	0	57	0	18	39	42	1.50
547740--547778	17	2.2	18	86	4	53	66	0	0	33	0.92
548175--548223	19	2.4	20	80	19	57	69	2	8	20	1.24
550992--551019	9	3.1	9	100	0	56	10	42	10	35	1.74
551284--551335	21	2.5	20	81	9	59	36	1	1	59	1.19
559061--559094	3	11.3	3	100	0	68	67	0	32	0	0.91
567549--567586	14	2.8	13	88	7	58	57	0	0	42	0.98
567549--567587	13	2.9	13	88	7	60	56	0	0	43	0.99
574501--574594	19	4.8	19	69	15	75	45	2	0	52	1.12
574548--574615	29	2.4	28	79	11	68	41	0	0	58	0.98
574912--574943	16	1.9	17	93	6	57	53	0	0	46	1.00
574929--575013	32	2.5	32	77	9	80	52	4	1	41	1.30
575076--575151	38	2.0	39	84	7	102	51	0	0	48	1.00
575187--575244	13	4.3	13	75	16	64	53	1	0	44	1.10
575177--575237	27	2.3	27	83	16	74	47	3	1	47	1.28
575187--575269	41	2.0	44	88	7	127	55	1	0	43	1.07
575654--575702	20	2.5	21	74	12	50	57	4	2	36	1.30
575987--576027	2	21.0	2	95	5	75	48	0	0	51	1.00
582732--582973	80	3.0	81	92	2	391	15	14	15	54	1.72
590333--590369	8	4.2	9	93	6	51	45	29	2	21	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
590331--590369	12	2.9	13	88	11	53	43	30	2	23	1.67
591308--591343	15	2.4	15	95	0	63	50	5	2	41	1.40
596665--596690	2	13.0	2	100	0	52	0	50	0	50	1.00
596841--596876	2	18.0	2	100	0	72	50	0	0	50	1.00
602267--602304	2	19.0	2	88	0	58	52	2	0	44	1.14
606415--606454	19	2.1	19	86	9	55	60	0	0	40	0.97
606604--606635	16	1.9	17	93	6	57	43	0	0	56	0.99
608815--608863	18	2.7	18	80	3	62	59	0	0	40	0.98
608918--608974	24	2.5	24	83	11	66	54	0	0	45	0.99
609235--609266	15	2.0	17	88	11	50	37	0	0	62	0.95
609532--609571	2	20.0	2	100	0	80	50	0	50	0	1.00
612579--612615	2	18.5	2	100	0	74	0	48	0	51	1.00
615675--615723	2	24.5	2	95	0	89	48	0	2	48	1.12
619920--619962	20	2.2	20	95	0	77	53	0	4	41	1.21
619924--619969	20	2.3	20	85	7	67	58	2	2	36	1.22
623351--623384	2	17.0	2	100	0	68	50	0	0	50	1.00
624273--624341	12	6.0	12	70	24	51	60	0	2	36	1.11
625185--625241	19	3.0	20	69	23	52	45	0	0	54	0.99
625233--625269	16	2.3	16	90	9	58	24	0	5	70	1.08
629878--629906	6	4.8	6	100	0	58	31	17	34	17	1.93
630952--630982	14	2.1	15	94	5	55	90	3	6	0	0.55
632896--633133	118	2.0	118	100	0	476	34	18	15	31	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
634374--634423	15	2.9	18	68	17	52	2	58	4	36	1.29
634426--634490	22	2.9	22	82	11	62	1	53	4	40	1.31
634381--634497	21	5.5	22	71	12	77	1	55	3	39	1.27
637184--637251	29	2.3	30	92	5	120	38	5	8	47	1.59
637266--637343	32	2.5	31	81	4	95	34	3	5	56	1.40
643127--643175	19	2.3	20	80	16	55	40	6	0	53	1.26
643386--643414	14	2.0	15	93	6	51	41	0	0	58	0.98
643387--643435	20	2.5	19	87	12	64	44	0	0	55	0.99
643835--643860	13	2.0	13	100	0	52	61	0	15	23	1.33
643973--644046	26	3.0	25	76	16	75	48	0	2	48	1.15

Tables:   1   2   3   4   5   6