genome.fa.s66.2.7.7.80.10.50.1000.3.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: Scaffold66
Parameters: 2 7 7 80 10 50 1000
Length:  4623749

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)
403246--403293	20	2.5	19	86	10	62	56	0	2	41	1.11
403246--403325	18	4.1	18	76	19	70	57	0	2	40	1.12
403255--403338	31	2.9	30	79	15	104	57	0	2	40	1.12
407482--407511	3	10.0	3	100	0	60	33	0	0	66	0.92
415004--415045	22	1.9	22	90	9	68	64	0	0	35	0.94
415838--415875	2	19.0	2	100	0	76	0	50	0	50	1.00
416944--416973	2	15.0	2	100	0	60	50	0	0	50	1.00
417696--417722	6	4.5	6	100	0	54	66	0	33	0	0.92
418473--418552	37	2.3	34	89	8	117	58	0	0	41	0.98
445213--445356	14	10.1	14	80	4	117	48	14	2	34	1.56
445241--445286	18	2.6	18	92	0	83	50	26	0	23	1.50
445288--445356	2	34.5	2	82	0	66	49	8	2	39	1.49
446749--446780	11	2.8	12	86	13	50	65	0	0	34	0.93
468721--468783	32	1.9	32	84	12	83	36	1	1	60	1.16
472460--472527	22	3.2	22	82	14	81	41	0	0	58	0.98
473827--473869	17	2.4	17	84	11	50	32	0	0	67	0.91
473839--473886	19	2.5	19	80	9	53	41	0	0	58	0.98
474568--474606	2	19.5	2	100	0	78	51	0	0	48	1.00
476515--476575	31	1.9	31	87	9	88	55	1	0	42	1.09
476513--476624	15	7.3	16	67	18	60	55	0	1	41	1.16
476552--476635	25	3.2	25	72	22	64	54	1	2	41	1.21
476556--476626	29	2.5	27	82	13	81	54	0	2	42	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
480535--480593	25	2.5	23	82	17	68	50	0	0	49	1.00
480549--480603	25	2.2	26	87	9	78	54	0	0	45	0.99
487093--487128	2	18.5	2	88	5	56	55	0	0	44	0.99
489277--489319	18	2.3	19	84	8	61	48	0	2	48	1.14
490431--490744	105	3.0	105	95	0	556	29	23	13	33	1.93
492510--492566	18	3.5	17	73	17	50	54	0	1	43	1.10
500377--500426	4	12.5	4	82	0	64	50	16	0	34	1.45
500380--500441	8	8.0	8	89	7	92	50	12	0	37	1.41
500392--500441	6	8.3	6	81	0	55	50	10	0	40	1.36
500743--500784	21	2.0	22	90	4	68	38	0	4	57	1.20
500744--500789	21	2.2	21	84	7	58	39	0	4	56	1.19
500753--500833	36	2.2	37	82	6	92	46	2	2	48	1.28
500979--501017	19	2.1	19	90	9	62	71	0	0	28	0.86
507370--507401	13	2.4	14	85	15	50	46	0	28	25	1.53
510512--510537	2	13.0	2	100	0	52	50	0	0	50	1.00
515137--515179	17	2.6	16	81	3	50	55	2	2	39	1.25
515151--515193	16	2.6	17	82	10	54	48	4	4	41	1.44
515145--515200	27	2.1	27	86	3	78	51	3	5	39	1.42
516096--516126	15	2.1	15	93	0	53	19	70	3	6	1.22
516215--516255	18	2.3	18	91	8	66	17	68	0	14	1.22
517170--517219	3	16.7	3	95	0	91	34	0	2	64	1.05
517594--517632	13	2.8	13	84	7	51	35	2	0	61	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
517588--517627	13	2.9	13	85	7	53	32	0	0	67	0.91
518684--518717	2	17.5	2	93	6	61	50	0	0	50	1.00
519022--519068	21	2.2	21	88	3	67	38	4	2	55	1.31
521379--521419	2	20.5	2	100	0	82	51	0	48	0	1.00
522173--522206	3	11.0	3	93	6	59	35	0	0	64	0.94
522641--522675	3	11.7	3	93	0	61	65	0	31	2	1.07
529696--529751	17	3.2	17	72	18	60	44	0	0	55	0.99
529650--529751	36	2.8	36	77	4	98	41	8	0	49	1.41
533679--533743	33	2.0	33	87	0	94	52	0	0	47	1.00
534645--534672	2	14.0	2	100	0	56	50	0	0	50	1.00
535289--535317	13	2.3	13	94	5	51	75	0	0	24	0.80
535455--535505	26	2.0	26	84	3	68	62	1	0	35	1.06
535462--535510	26	1.9	25	87	4	71	57	4	0	38	1.18
535476--535578	44	2.3	43	78	20	115	54	3	0	40	1.25
548376--548405	2	15.0	2	100	0	60	50	0	0	50	1.00
548520--548566	2	23.5	2	91	0	76	51	0	48	0	1.00
550830--550867	20	1.9	20	84	10	51	55	10	2	31	1.48
550835--550880	23	2.0	24	86	4	67	56	10	2	30	1.46
551174--551235	5	12.0	5	74	19	56	38	1	3	56	1.25
551173--551233	14	4.7	13	74	13	63	37	1	3	57	1.25
551153--551233	38	2.0	40	93	6	139	37	3	4	54	1.40
551546--551596	12	4.3	12	76	19	54	58	0	1	39	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
551546--551618	22	2.9	26	71	23	66	57	1	2	38	1.22
551561--551663	22	4.7	22	71	12	72	56	0	1	40	1.17
551584--551680	16	5.9	16	66	17	56	53	1	2	43	1.19
551897--551928	2	16.0	2	93	0	55	0	46	3	50	1.17
552084--552152	30	2.3	31	80	7	88	40	0	1	57	1.07
552085--552152	29	2.3	30	82	7	84	39	0	1	58	1.07
552342--552400	24	2.4	24	82	2	64	30	1	1	66	1.12
552776--552939	83	2.0	83	96	0	301	37	13	6	42	1.69
553431--553492	29	2.1	30	87	3	90	62	0	1	35	1.05
557959--558071	56	2.0	56	100	0	226	32	8	26	31	1.87
559436--559476	2	19.5	2	90	9	64	46	0	4	48	1.23
559436--559476	15	2.8	14	89	10	64	46	0	4	48	1.23
559437--559476	17	2.4	17	100	0	80	47	0	5	47	1.24
559543--559574	2	16.0	2	100	0	64	50	0	0	50	1.00
560375--560564	103	1.8	103	88	0	290	38	6	19	35	1.77
560782--560836	28	2.0	28	88	0	83	45	5	16	32	1.70
561214--561268	15	3.7	15	78	9	51	40	3	1	54	1.28
561774--561815	2	21.5	2	81	13	52	45	2	0	52	1.13
562160--562205	24	1.9	24	90	0	74	50	2	0	47	1.13
562486--562515	12	2.5	12	94	0	51	63	0	0	36	0.95
562769--562797	2	14.5	2	100	0	58	51	0	48	0	1.00
564327--564360	17	1.9	18	88	5	52	70	2	2	23	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
564934--564974	2	21.5	2	85	9	50	53	0	4	41	1.22
564940--564974	9	3.8	9	92	3	52	54	0	5	40	1.24
566172--566213	18	2.4	18	80	11	52	52	0	0	47	1.00
566191--566235	24	2.0	22	83	12	56	57	0	0	42	0.98
577348--577377	2	15.0	2	100	0	60	50	0	0	50	1.00
583821--583853	9	3.7	9	92	8	50	90	0	3	6	0.52
583816--583848	16	2.1	15	94	5	57	90	0	0	9	0.44
597371--597397	2	13.5	2	100	0	54	51	0	0	48	1.00
597681--597705	2	12.5	2	100	0	50	52	0	0	48	1.00
598745--598790	20	2.2	21	84	3	58	30	0	0	69	0.89
607400--607433	5	6.6	5	93	6	59	41	0	0	58	0.98
612262--612312	12	3.9	14	78	14	56	60	0	0	39	0.97
612262--612341	32	2.9	27	69	28	69	62	0	0	37	0.95
620068--620109	14	3.3	12	87	9	50	80	7	9	2	0.97
625190--625218	2	14.5	2	100	0	58	48	0	0	51	1.00
627313--627533	34	6.5	33	82	4	235	41	25	6	26	1.80
627313--627533	102	2.2	101	86	3	318	41	25	6	26	1.80
631940--632152	34	6.4	33	78	13	231	40	26	7	25	1.83
631942--632154	68	3.2	67	82	7	256	40	25	7	25	1.83
631940--632152	98	2.1	99	86	5	313	40	26	7	25	1.83
636360--636392	2	16.5	2	100	0	66	51	0	0	48	1.00
636893--636926	2	17.0	2	87	0	50	44	2	2	50	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
637334--637377	2	22.0	2	95	0	79	47	0	0	52	1.00
638021--638071	24	2.1	24	85	0	66	49	0	0	50	1.00
638596--638844	111	2.3	110	80	6	272	26	16	23	33	1.95
645588--645612	13	1.9	13	100	0	50	64	0	0	36	0.94
647693--647948	123	2.1	124	96	2	471	37	17	16	27	1.92
648429--648495	20	3.3	20	72	6	64	53	0	0	46	1.00
649525--649565	21	2.0	21	90	0	64	14	7	34	43	1.73
652323--652361	16	2.4	17	86	8	62	38	12	0	48	1.42
655927--655965	21	1.9	20	89	5	60	43	0	0	56	0.99
656698--656794	18	5.8	17	71	14	76	58	0	0	41	0.98

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