genome.fa.s49.2.7.7.80.10.50.1000.4.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: Scaffold49
Parameters: 2 7 7 80 10 50 1000
Length:  1668912

Tables:   1   2   3   4   5   6   7   8   9   

This is table  4  of  9  ( 1071 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)
475555--475604	26	2.0	25	84	4	64	42	2	0	56	1.11
478828--478893	33	2.0	33	85	5	89	31	15	12	40	1.83
479406--479450	21	2.0	22	87	8	65	22	20	0	57	1.40
481511--481548	20	1.9	20	100	0	76	28	13	15	42	1.85
488299--488962	79	8.4	79	79	4	656	37	12	22	27	1.90
488304--488962	159	4.2	159	80	5	717	37	12	22	27	1.90
488299--489041	79	9.4	78	79	5	613	37	12	22	27	1.90
491404--491455	20	2.6	20	78	0	59	46	11	13	28	1.78
491515--491566	20	2.6	20	87	6	70	28	13	15	42	1.85
492129--492187	20	2.9	20	78	14	59	38	13	10	37	1.79
492233--492297	33	2.0	33	87	0	94	36	13	12	36	1.83
495802--496181	208	1.8	209	81	6	484	39	11	10	38	1.75
508675--508716	15	2.9	15	89	6	61	54	2	2	40	1.26
513733--513770	20	1.9	20	100	0	76	31	18	10	39	1.85
513784--513835	20	2.6	20	93	0	86	28	9	15	46	1.77
522138--522747	28	22.2	27	83	4	587	23	29	14	31	1.94
522138--522755	55	11.2	55	79	5	615	23	29	14	32	1.94
522138--522747	165	3.7	164	84	3	708	23	29	14	31	1.94
522191--523738	28	53.8	28	76	8	386	28	29	16	26	1.97
522734--523738	92	11.4	91	79	8	630	30	28	18	22	1.97
522686--523738	28	35.8	28	78	7	609	30	28	18	23	1.97
522686--523738	86	11.9	85	79	7	743	30	28	18	23	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
522790--523600	58	13.6	63	75	11	323	30	28	18	22	1.97
523828--524093	48	5.5	48	89	1	381	21	27	15	36	1.93
523828--524093	144	1.8	144	90	0	424	21	27	15	36	1.93
529366--530045	340	2.0	340	99	0	1342	33	13	19	32	1.91
530582--530622	4	9.8	4	84	10	55	70	0	0	29	0.87
530582--530622	17	2.4	18	84	12	59	70	0	0	29	0.87
530582--530622	21	2.0	21	90	0	64	70	0	0	29	0.87
531130--531194	15	4.4	15	70	22	57	38	0	4	56	1.20
531835--531871	2	18.5	2	100	0	74	51	0	0	48	1.00
532292--532326	2	17.5	2	100	0	70	48	0	0	51	1.00
534566--534591	2	13.0	2	100	0	52	50	50	0	0	1.00
534902--535148	124	2.0	124	88	1	370	24	6	20	48	1.73
537089--537129	2	20.5	2	100	0	82	0	48	0	51	1.00
543546--543578	16	2.1	16	94	0	57	42	12	6	39	1.67
544207--544253	24	2.0	24	91	0	76	40	10	12	36	1.78
550514--550561	23	2.0	24	88	4	71	43	0	0	56	0.99
556539--556669	65	2.0	66	95	1	237	29	12	19	38	1.88
559121--559177	27	2.0	27	83	10	69	31	14	28	26	1.94
561504--561639	52	2.6	52	88	3	195	41	14	13	29	1.85
562732--562789	29	2.0	31	86	10	86	65	0	0	34	0.93
567492--567519	2	14.0	2	100	0	56	50	0	0	50	1.00
567826--567861	17	2.1	17	94	0	63	44	16	8	30	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
577241--577369	52	2.5	52	87	0	195	31	17	15	36	1.91
577447--577562	13	7.5	13	70	29	70	35	18	12	33	1.89
577455--577601	19	8.7	19	74	24	159	36	18	12	33	1.88
577447--577581	32	4.2	32	99	0	261	35	18	12	33	1.89
577487--577601	51	2.3	51	78	21	134	35	19	12	33	1.88
593577--593719	75	1.9	77	86	2	209	38	12	16	32	1.86
598791--598912	52	2.3	52	94	0	208	29	18	16	36	1.92
598791--598932	52	2.7	51	88	4	196	30	17	16	34	1.93
599005--599062	13	3.9	13	73	26	53	32	15	13	37	1.87
599018--599083	20	3.7	20	73	26	83	34	15	12	37	1.84
598984--599082	33	3.0	33	97	1	182	35	15	12	37	1.84
601908--601963	28	1.9	30	82	7	71	44	3	17	33	1.66
602164--602214	24	2.3	21	84	15	68	43	1	7	47	1.43
603564--603908	167	2.1	166	79	5	385	30	12	8	48	1.70
603606--604092	166	2.9	165	81	6	506	31	11	8	49	1.67
603598--604157	166	3.4	166	80	5	470	31	11	8	49	1.68
604542--604591	14	3.6	14	75	5	57	36	8	0	56	1.29
609324--609363	20	2.1	19	86	9	55	42	15	10	32	1.79
609433--609469	12	2.9	13	92	8	67	29	16	21	32	1.95
609428--609466	12	3.2	12	89	10	62	28	15	23	33	1.95
610112--610157	21	2.1	21	84	8	56	32	15	2	50	1.56
610227--610270	23	2.0	22	86	4	61	27	13	6	52	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
616639--616669	3	10.3	3	92	0	53	29	32	0	38	1.57
618669--618715	21	2.3	20	85	7	60	48	19	0	31	1.49
618669--618716	20	2.3	21	85	3	62	50	18	0	31	1.48
618688--619086	200	2.0	196	86	5	563	41	12	1	44	1.49
619509--619578	6	11.2	6	71	8	50	42	4	0	52	1.20
619510--619568	26	2.3	25	88	2	82	42	5	0	52	1.23
622183--622226	2	22.0	2	100	0	88	50	0	0	50	1.00
626561--626632	31	2.3	30	88	4	99	45	16	1	36	1.56
627864--627940	21	3.7	21	89	3	111	35	12	16	35	1.88
628051--628076	13	2.0	13	100	0	52	30	15	15	38	1.88
630447--630835	52	7.4	52	73	13	278	29	25	13	31	1.93
630554--630629	27	2.8	28	86	6	102	25	32	19	22	1.97
630612--630835	103	2.1	106	84	2	283	28	25	13	33	1.93
636764--636809	16	3.0	16	84	6	60	4	13	2	80	0.95
641092--641198	54	2.1	51	89	8	164	37	24	14	23	1.93
652916--652968	20	2.5	20	85	14	72	58	0	0	41	0.98
663443--663513	16	4.7	14	75	14	54	43	0	1	54	1.08
663445--663513	17	4.5	16	77	15	67	42	0	1	56	1.08
668073--668111	2	19.5	2	94	0	69	48	0	2	48	1.15
677953--677987	17	2.1	17	89	5	54	45	22	8	22	1.79
683735--683775	21	2.0	20	86	9	57	58	9	9	21	1.59
684259--684298	2	20.0	2	100	0	80	50	50	0	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
696098--696146	17	3.2	15	79	20	57	59	0	2	38	1.09
700365--700478	56	2.0	56	96	0	210	25	29	17	27	1.97
702884--702967	18	4.3	18	71	21	55	11	41	1	45	1.49
702927--702975	18	2.9	17	80	14	57	16	36	0	46	1.47
702970--703011	12	3.5	12	78	12	50	14	42	0	42	1.45
702901--702983	42	2.0	42	88	4	123	14	40	0	44	1.45
705497--705646	38	4.0	38	74	14	123	47	16	6	30	1.72
705492--705650	76	2.1	76	80	6	171	45	15	6	31	1.73
705702--705903	38	5.3	36	71	16	115	49	12	7	30	1.68
705837--705893	18	3.1	18	69	5	51	42	8	10	38	1.71
707913--707941	13	2.2	13	100	0	58	31	17	13	37	1.89
707929--707979	20	2.5	21	87	3	68	39	13	17	29	1.88
708033--708058	13	2.0	13	100	0	52	30	15	15	38	1.88
708013--708080	33	2.1	32	88	2	100	35	16	14	33	1.89
722338--722386	13	3.2	15	79	20	57	61	0	0	38	0.96
725941--725984	18	2.4	18	100	0	88	31	29	11	27	1.91
726623--726736	56	2.0	56	94	0	201	23	30	19	26	1.98
729182--729230	18	2.9	17	80	14	57	16	38	0	44	1.48
729182--729266	12	7.6	12	71	19	60	14	42	0	43	1.45
729156--729238	42	2.0	42	90	4	132	15	40	0	43	1.47
730019--730054	18	1.9	19	94	5	65	5	13	5	75	1.17
731754--731903	38	4.0	38	75	14	141	48	15	6	30	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
731749--731907	76	2.1	76	82	6	189	46	15	6	32	1.70
731956--732157	38	5.3	36	71	16	115	49	12	7	30	1.68
732091--732147	18	3.1	18	69	5	51	42	8	10	38	1.71
734171--734199	13	2.2	13	100	0	58	31	17	13	37	1.89
734187--734239	20	2.6	21	84	3	72	39	15	16	28	1.89
734291--734316	13	2.0	13	100	0	52	30	15	15	38	1.88
734271--734338	33	2.1	32	91	2	109	36	16	13	33	1.87
735364--735422	32	1.9	30	83	13	75	61	8	10	20	1.54
735683--735707	13	1.9	13	100	0	50	36	16	16	32	1.90
735660--735727	33	2.1	32	86	2	91	32	13	17	36	1.89

Tables:   1   2   3   4   5   6   7   8   9