genome.fa.s144.2.7.7.80.10.50.1000.4.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: Scaffold144
Parameters: 2 7 7 80 10 50 1000
Length:  3311329

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

This is table  4  of  21  ( 2468 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)
396923--396957	2	17.5	2	100	0	70	51	0	0	48	1.00
406235--406281	2	23.5	2	86	0	67	42	0	6	51	1.27
411361--411427	13	5.2	13	70	22	52	50	0	0	49	1.00
411362--411440	20	4.1	19	71	21	58	51	0	0	48	1.00
411382--411492	15	7.2	16	65	24	51	55	0	0	44	0.99
411419--411481	29	2.1	31	88	5	94	61	0	0	38	0.96
411436--411490	23	2.3	23	78	12	58	61	0	0	38	0.96
413262--413337	19	3.9	19	72	14	57	65	2	0	31	1.06
413260--413336	34	2.3	33	78	13	77	63	2	0	33	1.08
413262--413343	40	2.0	40	81	9	96	64	2	0	32	1.07
414800--414833	2	17.0	2	100	0	68	50	0	0	50	1.00
416735--416836	9	11.3	9	71	11	75	69	5	0	24	1.10
416736--416944	9	23.4	9	68	22	70	63	4	0	31	1.19
416730--416845	26	4.4	25	80	12	133	68	6	0	24	1.20
416882--416955	8	8.6	8	73	18	51	59	2	0	37	1.12
416906--416953	19	2.6	19	90	3	71	64	0	0	35	0.94
416991--417199	9	22.8	9	69	20	66	32	2	3	61	1.25
417076--417187	20	5.8	19	68	20	63	32	0	5	62	1.18
417171--417214	16	2.9	15	78	18	54	22	0	4	72	1.02
417171--417233	32	2.0	31	87	3	90	23	1	3	71	1.09
417438--417466	14	2.1	14	100	0	58	44	0	0	55	0.99
417430--417504	32	2.2	36	86	11	104	41	0	0	58	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
419860--419897	18	2.1	18	85	9	51	47	0	0	52	1.00
420394--420430	19	1.9	19	88	0	56	64	0	0	35	0.94
421973--422004	16	2.1	16	94	5	57	56	0	3	40	1.15
422282--422336	16	3.6	16	74	18	53	43	3	0	52	1.18
422289--422353	29	2.2	29	80	2	76	43	3	0	53	1.16
422300--422355	19	3.0	19	77	12	62	42	1	0	55	1.10
423276--423337	26	2.4	25	76	10	63	62	0	0	37	0.95
423262--423333	36	2.0	36	86	5	101	61	1	1	36	1.14
426608--426678	16	4.5	15	70	16	54	35	1	0	63	1.03
426717--426773	27	2.1	27	81	12	64	36	1	0	61	1.07
426652--426776	21	5.7	21	70	15	85	36	2	0	60	1.16
426723--426792	21	3.3	21	86	4	70	35	4	0	60	1.17
427086--427117	15	2.0	17	88	11	50	34	6	0	59	1.23
427094--427135	22	1.9	22	85	0	57	40	2	0	57	1.12
427125--427158	17	2.0	17	88	11	52	76	0	2	20	0.92
427148--427204	29	2.0	29	82	6	71	59	0	3	36	1.14
427154--427213	29	2.0	30	87	3	86	60	0	1	38	1.07
427479--427511	3	11.0	3	100	0	66	66	0	0	33	0.92
427723--427773	15	3.1	16	86	11	59	37	0	3	58	1.16
427737--427776	15	2.6	16	92	4	64	32	0	2	65	1.06
428410--428462	11	4.8	12	73	19	53	62	0	0	37	0.96
428407--428532	32	4.1	32	72	20	90	55	0	0	43	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
428419--428461	21	2.2	20	83	8	52	60	0	0	39	0.97
428425--428514	26	3.5	26	77	11	89	55	0	0	44	0.99
429476--429591	12	9.7	12	85	3	153	68	0	30	0	0.95
429476--429597	48	2.6	47	90	3	190	69	0	29	0	0.94
436120--436192	19	3.9	19	77	7	62	34	0	1	64	1.02
440150--440317	50	3.4	50	91	0	273	32	20	18	29	1.96
440586--440640	19	2.9	19	83	0	56	30	20	14	34	1.92
444733--444863	50	2.6	50	91	1	219	31	19	17	32	1.95
446017--446081	23	2.8	23	86	9	80	50	1	0	47	1.10
446047--446084	19	2.0	19	89	0	58	52	0	0	47	1.00
463980--464012	2	16.5	2	100	0	66	48	0	0	51	1.00
464357--464400	3	14.7	3	95	0	79	31	2	0	65	1.05
468067--468108	20	2.1	20	100	0	84	28	14	14	42	1.84
468463--468501	18	2.2	18	100	0	78	46	7	25	20	1.77
469132--469591	79	5.8	79	82	3	507	33	14	25	26	1.94
469146--469609	157	2.9	156	84	4	585	33	14	25	27	1.94
469147--469590	236	1.9	235	85	4	617	33	14	25	27	1.94
471456--471902	61	7.3	61	77	9	308	30	17	25	27	1.97
471517--471903	61	6.4	59	81	3	360	29	17	25	27	1.97
471521--471850	183	1.8	183	84	2	457	29	17	25	27	1.98
471521--471899	183	2.1	183	82	4	451	29	17	25	28	1.97
471519--471903	122	3.2	121	80	6	415	29	16	25	28	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
472617--472652	11	3.3	11	84	0	54	0	13	0	86	0.58
481662--481687	2	13.0	2	100	0	52	50	0	0	50	1.00
482263--482291	2	14.5	2	100	0	58	48	0	0	51	1.00
483008--483041	10	3.4	10	87	0	50	44	0	0	55	0.99
483419--483485	28	2.4	27	87	7	89	56	0	4	38	1.19
483444--483484	18	2.2	20	91	8	68	58	0	4	36	1.20
483454--483491	18	2.1	18	90	0	58	60	2	5	31	1.33
483656--483685	15	1.9	16	93	6	53	36	0	0	63	0.95
484681--484732	23	2.3	23	83	6	61	34	3	3	57	1.35
484698--484741	22	2.0	23	81	4	54	34	9	4	52	1.54
490511--490552	22	1.9	22	90	0	66	33	0	0	66	0.92
490490--490562	30	2.5	29	80	12	78	36	0	0	63	0.95
490877--490954	27	2.8	26	84	9	102	50	0	0	50	1.00
491749--491798	16	3.2	15	86	13	66	40	0	0	60	0.97
491708--491799	38	2.4	37	76	5	94	44	1	0	54	1.07
492298--492342	17	2.7	17	83	13	58	64	0	0	35	0.94
492303--492346	23	2.0	23	86	8	65	65	0	0	34	0.93
493104--493138	16	2.2	16	90	5	54	28	2	0	68	1.04
494235--494295	23	2.5	24	81	10	70	40	1	1	55	1.19
498936--498985	15	3.2	16	72	13	50	50	0	16	34	1.45
499110--499143	2	17.0	2	93	0	59	47	0	0	52	1.00
502137--502310	86	2.0	86	98	0	339	49	18	12	18	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
507760--507818	22	2.6	24	84	7	70	62	10	0	27	1.27
507971--508027	12	4.8	13	70	24	54	59	0	1	38	1.08
507954--508058	22	4.4	24	82	11	135	56	0	2	40	1.14
508423--508468	22	2.1	22	84	11	60	23	4	17	54	1.61
509677--509721	24	2.0	23	83	16	58	13	8	13	64	1.49
509962--510042	25	3.3	25	89	5	130	44	2	0	53	1.14
510153--510194	19	2.2	20	86	4	59	33	0	0	66	0.92
510180--510229	24	2.2	22	83	16	59	28	0	10	62	1.27
510504--510528	6	4.2	6	100	0	50	48	0	0	52	1.00
511557--511583	2	13.5	2	100	0	54	48	0	51	0	1.00
511667--511691	2	12.5	2	100	0	50	48	0	0	52	1.00
518911--518942	15	2.1	15	94	0	55	53	6	31	9	1.58
522825--522852	2	14.0	2	100	0	56	0	50	0	50	1.00
525153--525186	17	2.0	17	94	0	59	61	0	0	38	0.96
525180--525245	26	2.6	26	81	13	84	46	0	1	51	1.10
525180--525245	24	2.6	25	77	15	73	46	0	1	51	1.10
531538--531619	32	2.6	32	90	0	137	35	12	15	36	1.85
531792--531848	13	3.9	13	76	24	60	35	14	17	33	1.90
531805--531867	19	3.7	18	74	24	64	34	12	15	36	1.86
531791--531875	32	2.7	32	94	0	143	35	12	15	36	1.86
531414--531912	256	1.9	256	93	0	863	38	13	16	31	1.88
538697--538882	62	2.9	67	87	8	292	19	19	18	41	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
539012--539087	38	2.0	37	94	2	134	43	15	22	18	1.88
539934--539988	19	2.9	19	94	2	94	45	32	12	9	1.74
543633--543688	16	3.5	16	74	13	53	53	12	5	28	1.60
543633--543733	48	2.1	48	83	0	121	50	12	5	30	1.64
544229--544291	28	2.4	28	87	12	89	71	1	0	26	0.95
544251--544297	19	2.5	20	86	6	62	70	0	0	29	0.88
545002--545044	21	2.1	20	86	4	59	41	0	0	58	0.98
545007--545088	36	2.2	37	81	10	98	39	1	0	59	1.05
545387--545446	29	2.0	29	84	9	77	81	0	15	3	0.81
545401--545446	10	4.6	10	83	5	58	86	0	10	2	0.64

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