genome.fa.s170.2.7.7.80.10.50.1000.3.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: Scaffold170
Parameters: 2 7 7 80 10 50 1000
Length:  1632119

Tables:   1   2   3   4   5   6   7   8   9   10   11   

This is table  3  of  11  ( 1308 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)
499578--499612	18	1.9	18	88	11	54	45	2	5	45	1.41
499674--499714	21	2.0	21	90	9	66	41	0	0	58	0.98
501101--501157	30	1.9	29	85	3	78	47	0	0	52	1.00
502564--502611	20	2.5	19	86	3	60	37	0	0	62	0.95
502806--502844	2	19.5	2	89	0	60	51	5	0	43	1.24
503084--503126	20	2.2	20	88	12	63	39	0	0	60	0.97
503084--503126	19	2.2	20	88	12	63	39	0	0	60	0.97
503503--503571	30	2.2	32	82	7	79	57	1	1	39	1.16
503933--503982	22	2.3	22	86	6	75	44	0	0	56	0.99
509978--510012	2	17.5	2	100	0	70	51	0	0	48	1.00
511156--511192	19	1.9	19	89	10	58	51	0	0	48	1.00
511159--511235	13	6.3	13	73	14	67	59	0	0	40	0.97
511191--511247	18	3.0	19	82	12	73	63	0	0	36	0.95
511191--511236	18	2.6	18	96	3	85	65	0	0	34	0.93
511263--511317	14	4.2	13	73	15	51	61	5	0	32	1.19
513974--514013	19	2.0	19	85	9	53	50	0	0	50	1.00
513997--514038	13	2.9	15	79	17	52	66	0	0	33	0.92
514009--514048	17	2.3	17	82	4	53	72	0	0	27	0.85
514015--514055	18	2.3	18	91	8	66	65	0	0	34	0.93
513997--514059	25	2.6	24	82	9	74	65	0	0	34	0.93
514185--514226	22	2.0	22	85	4	59	52	0	0	47	1.00
514147--514224	32	2.5	31	78	12	79	53	0	1	44	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
514332--514478	31	4.8	31	79	12	121	53	1	1	44	1.17
514366--514472	18	6.6	17	74	20	97	53	0	1	43	1.18
514366--514480	32	3.7	32	90	2	162	53	0	1	44	1.17
514366--514465	32	3.2	32	94	1	166	52	1	2	45	1.19
514374--514457	16	5.3	16	71	22	70	53	0	2	44	1.13
514336--514478	32	4.7	30	83	9	132	52	1	1	44	1.18
514366--514467	16	6.5	13	70	29	51	52	0	1	44	1.18
515473--515550	38	2.1	38	95	0	138	15	2	34	47	1.59
522701--522742	20	2.1	20	100	0	84	35	35	0	28	1.58
524200--524226	2	13.5	2	100	0	54	48	0	0	51	1.00
524569--524647	4	19.8	4	92	0	95	40	0	8	50	1.34
527814--527868	28	2.0	27	85	3	74	43	0	0	56	0.99
527841--527893	20	2.7	20	82	11	56	37	0	0	62	0.96
528604--528657	21	2.5	22	79	14	67	38	0	3	57	1.17
529922--529961	21	1.9	21	89	0	62	30	10	5	55	1.54
530546--530584	11	3.5	11	86	6	53	89	2	7	0	0.56
531453--531482	2	15.0	2	100	0	60	50	0	0	50	1.00
532276--532328	5	10.6	5	85	0	70	58	3	3	33	1.34
532843--532885	21	2.0	21	86	8	61	44	2	0	53	1.13
533390--533421	12	2.8	12	90	9	50	31	0	0	68	0.90
534256--534297	15	2.8	16	75	14	52	0	23	16	59	1.37
534240--534297	30	2.0	29	86	3	80	1	24	13	60	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
540366--540406	20	2.0	20	90	0	64	29	17	17	36	1.92
546968--546996	14	2.1	14	100	0	58	13	13	20	51	1.75
548203--548239	9	4.0	9	92	3	56	0	16	0	83	0.64
553116--553244	25	4.7	28	81	12	119	41	3	0	55	1.15
553173--553215	15	3.2	15	69	30	51	41	0	0	58	0.98
553137--553266	25	4.7	26	82	12	136	40	1	0	57	1.08
553226--553272	11	4.1	11	75	20	51	34	0	0	65	0.93
553672--553712	2	20.5	2	94	0	73	46	0	0	53	1.00
558390--558439	24	2.2	23	85	7	66	48	2	4	46	1.32
559053--559119	36	1.9	35	85	11	93	29	23	11	34	1.91
561953--562004	2	26.0	2	100	0	104	50	0	0	50	1.00
563182--563220	2	19.5	2	100	0	78	51	0	0	48	1.00
563331--563365	17	1.9	19	88	11	56	60	0	0	40	0.97
563672--563711	16	2.4	17	80	20	57	60	0	0	40	0.97
563708--563749	17	2.5	17	88	0	57	35	2	4	57	1.33
572726--572767	2	21.0	2	100	0	84	50	0	0	50	1.00
574291--574333	22	1.9	23	86	13	63	62	0	0	37	0.95
574811--574858	22	2.2	22	85	3	62	41	0	0	58	0.98
574813--574881	23	3.0	23	75	21	65	39	0	0	60	0.97
578719--578800	39	2.1	39	81	0	92	43	3	1	51	1.27
579246--579270	13	1.9	13	100	0	50	76	0	0	24	0.80
584221--584267	24	1.9	25	86	4	69	46	2	0	51	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
595271--595491	34	6.5	33	82	9	266	40	26	7	24	1.82
595273--595491	68	3.2	67	85	3	296	40	26	7	25	1.82
595271--595491	102	2.2	101	89	1	352	40	26	7	24	1.82
599902--600083	34	5.4	34	79	7	183	40	24	7	28	1.81
599902--600083	68	2.7	68	81	3	224	40	24	7	28	1.81
601450--601484	17	2.1	17	100	0	70	37	0	11	51	1.38
604558--604583	2	13.0	2	100	0	52	50	0	0	50	1.00
609925--609955	11	2.8	11	90	0	53	54	0	0	45	0.99
609905--609956	22	2.3	23	81	15	65	53	0	1	44	1.11
610094--610133	12	3.3	12	82	10	55	67	2	0	30	1.04
610082--610133	27	1.9	27	85	14	72	67	3	0	28	1.08
610111--610164	29	1.9	29	85	7	76	53	0	0	46	1.00
610121--610159	19	2.0	21	90	10	64	51	0	0	48	1.00
610456--610487	6	5.2	6	92	7	55	0	18	15	65	1.27
622421--622484	13	5.0	13	75	9	60	51	0	1	46	1.10
622424--622483	25	2.3	27	80	11	72	51	0	1	46	1.10
622435--622497	26	2.8	21	72	21	54	53	0	1	44	1.10
622714--622771	24	2.5	24	77	2	64	56	0	0	43	0.99
626461--626508	25	2.1	24	85	14	66	45	0	4	50	1.21
626531--626562	11	3.1	11	86	13	50	37	0	0	62	0.95
626711--626742	15	2.1	15	94	0	55	65	6	0	28	1.16
627359--627387	4	7.2	4	100	0	58	24	0	0	75	0.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
627406--627457	26	2.0	25	85	3	68	65	3	0	30	1.10
628388--628436	24	2.1	23	85	11	64	42	2	0	55	1.11
628652--628698	17	2.6	18	90	6	69	38	2	0	59	1.09
629365--629408	23	2.0	22	86	4	61	52	0	0	47	1.00
629797--629853	5	11.2	5	77	3	51	43	0	1	54	1.10
630287--630312	2	13.0	2	100	0	52	50	50	0	0	1.00
630705--630735	6	5.2	6	100	0	62	48	0	0	51	1.00
630837--630939	8	12.2	8	72	17	75	58	0	0	39	1.11
630816--630930	18	6.6	18	71	13	80	60	0	1	37	1.13
630807--630877	26	2.6	26	80	6	70	60	1	1	36	1.14
630837--630909	26	2.8	26	87	2	103	58	1	1	38	1.15
639814--639850	2	18.5	2	100	0	74	51	0	0	48	1.00
640140--640208	31	2.2	30	94	5	120	49	1	2	46	1.25
640149--640239	31	3.0	31	84	6	105	54	1	4	39	1.27
640269--640312	14	3.1	14	86	3	61	77	0	2	20	0.88
640835--640874	10	3.9	10	83	3	53	82	0	12	5	0.82
642796--642833	2	19.0	2	100	0	76	0	50	0	50	1.00
644166--644223	9	6.4	9	83	0	71	24	1	39	34	1.65
644162--644200	3	13.0	3	88	0	60	28	0	38	33	1.57
655965--656011	12	4.2	12	84	13	64	70	0	0	29	0.88
655965--656021	22	2.7	22	86	5	73	68	1	0	29	1.00
656061--656121	12	5.1	12	72	7	52	65	0	1	32	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
656055--656133	28	3.0	27	73	15	76	65	0	1	32	1.00
656074--656124	20	2.5	20	78	6	59	62	0	1	35	1.06
656074--656166	40	2.3	40	81	9	100	59	1	1	38	1.12
657008--657051	21	2.1	21	83	8	54	52	2	0	45	1.13
658487--658513	4	6.8	4	100	0	54	51	0	48	0	1.00
658553--658597	3	15.0	3	100	0	90	33	0	0	66	0.92
658775--658815	11	3.9	11	81	12	50	34	2	0	63	1.08
659376--659418	3	14.3	3	100	0	86	34	0	0	65	0.93
659540--659569	2	15.0	2	100	0	60	50	0	0	50	1.00
660762--660864	48	2.2	46	78	13	109	62	3	1	32	1.25

Tables:   1   2   3   4   5   6   7   8   9   10   11