genome.fa.s41.2.7.7.80.10.50.1000.6.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: Scaffold41
Parameters: 2 7 7 80 10 50 1000
Length:  2798036

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  6  of  21  ( 2447 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)
540829--540897	32	2.1	33	84	12	90	55	0	0	44	0.99
542439--542550	54	2.2	52	79	17	132	49	2	1	46	1.26
546806--546843	20	2.0	20	84	5	51	47	0	0	52	1.00
547211--547253	20	2.0	22	86	8	63	48	0	0	51	1.00
547625--547663	14	2.9	13	81	7	51	10	5	5	79	1.04
548596--548638	11	3.9	11	79	11	52	79	0	18	2	0.85
548596--548636	19	2.1	20	86	4	57	78	0	19	2	0.87
551550--551586	14	2.7	13	88	12	56	43	0	0	56	0.99
551696--551849	77	2.0	77	100	0	308	28	5	18	48	1.69
552291--552336	23	2.0	23	95	0	83	30	8	2	58	1.40
552692--552735	2	22.0	2	100	0	88	50	0	0	50	1.00
553200--553224	2	12.5	2	100	0	50	48	0	0	52	1.00
554746--554785	2	20.0	2	84	0	53	45	0	5	50	1.23
554734--554772	20	2.0	20	89	0	60	51	0	7	41	1.31
555479--555566	2	45.5	2	75	18	71	52	2	4	40	1.34
558250--558285	2	18.0	2	100	0	72	50	0	0	50	1.00
561503--561528	2	13.0	2	100	0	52	50	0	0	50	1.00
562065--562098	8	4.1	8	85	7	50	14	2	0	82	0.79
562066--562098	17	1.9	17	93	0	57	12	3	0	84	0.72
562164--562232	24	2.9	24	75	16	63	44	0	0	55	0.99
562336--562361	2	13.0	2	100	0	52	50	0	0	50	1.00
564570--564619	21	2.4	22	80	6	59	46	0	0	54	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
564960--565010	19	2.8	18	75	19	52	43	0	0	56	0.99
565057--565151	47	2.0	48	80	10	106	52	0	1	46	1.07
565091--565134	18	2.4	18	80	0	52	54	0	2	43	1.12
565172--565205	17	2.1	17	88	5	52	67	2	0	29	1.05
568084--568144	22	2.8	22	72	20	58	62	0	1	36	1.05
571062--571115	17	2.9	17	74	25	56	37	0	1	61	1.07
572916--572954	9	4.1	9	81	12	51	58	0	2	38	1.12
572917--572965	20	2.5	19	77	9	53	59	0	2	38	1.09
573402--573449	16	2.8	17	81	15	55	37	0	2	60	1.09
573444--573521	21	3.4	23	76	16	65	51	0	1	47	1.09
573422--573497	35	2.2	33	80	15	82	47	0	1	51	1.09
573438--573511	30	2.4	32	82	15	93	48	0	2	48	1.15
573438--573511	20	3.7	20	70	24	57	48	0	2	48	1.15
574808--574862	19	3.0	20	82	10	64	34	1	0	63	1.05
574824--574924	20	5.1	20	70	22	70	45	0	0	53	1.07
575404--575444	12	3.5	11	83	9	55	68	2	0	29	1.03
575390--575449	23	2.7	22	85	12	86	65	1	0	33	1.03
575731--575755	4	6.2	4	100	0	50	76	0	0	24	0.80
575754--575786	8	4.1	8	88	11	50	63	12	0	24	1.28
575754--575797	15	2.8	15	89	6	61	61	9	2	27	1.38
577371--577440	24	2.8	25	83	14	83	47	24	8	20	1.78
577373--577469	27	3.7	26	82	4	99	46	23	8	21	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
577457--577514	26	2.3	25	91	5	91	25	15	25	32	1.95
581968--582037	24	2.8	25	79	14	74	47	22	8	21	1.78
581970--582066	27	3.7	26	80	4	99	46	23	8	21	1.78
582054--582111	26	2.3	25	94	5	100	25	15	24	34	1.95
583953--583996	16	2.9	16	83	6	56	27	0	2	70	0.99
585310--585335	13	2.0	13	100	0	52	30	15	15	38	1.88
585290--585353	32	2.0	33	90	3	103	28	14	15	42	1.86
593415--593440	13	2.0	13	100	0	52	30	15	15	38	1.88
593395--593458	32	2.0	33	90	3	103	28	14	15	42	1.86
593994--594036	13	3.2	13	75	18	52	51	0	0	48	1.00
593982--594036	27	2.1	25	90	6	83	45	0	1	52	1.11
596153--596188	19	1.9	18	88	5	54	41	5	0	52	1.24
596851--596888	18	2.1	19	95	5	69	42	5	0	52	1.24
596902--596949	18	2.8	17	77	20	55	39	0	0	60	0.97
596902--596956	17	3.4	18	75	25	52	40	0	0	60	0.97
599205--599249	21	2.1	21	84	8	56	46	2	0	51	1.13
600863--600941	38	2.1	38	85	4	106	40	0	13	45	1.44
603177--603246	31	2.3	30	85	7	95	55	7	5	31	1.50
605798--605869	28	2.6	29	72	14	71	40	0	0	59	0.97
606001--606068	34	2.0	34	97	0	127	33	14	11	39	1.83
606573--606611	19	2.1	18	85	4	51	66	0	0	33	0.92
606636--606685	17	2.9	18	77	14	61	40	2	0	58	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
606618--606685	33	2.1	31	84	10	84	41	2	0	55	1.15
607141--607176	17	2.2	16	90	5	54	41	5	5	47	1.50
607625--607688	27	2.4	27	86	5	85	48	17	9	25	1.76
609569--609610	21	2.0	21	90	0	66	21	26	19	33	1.97
612126--612217	27	3.4	27	73	18	82	56	7	5	30	1.50
613768--613815	24	1.9	24	87	8	69	54	0	0	45	0.99
613777--613857	19	4.2	18	75	18	67	55	1	0	43	1.07
613916--614009	27	3.7	26	76	18	90	68	0	0	31	0.90
613945--613990	11	4.2	11	84	15	60	67	0	0	32	0.91
613936--613996	19	3.1	18	76	19	59	70	0	0	29	0.88
613961--614010	11	4.7	10	83	11	64	68	0	0	32	0.90
613952--614007	21	2.5	22	86	11	71	69	0	0	30	0.89
616733--616807	11	6.5	11	68	14	53	34	0	1	64	1.02
617751--617813	3	20.7	3	96	3	117	34	0	0	65	0.93
618515--618556	19	2.2	19	87	8	59	38	0	0	61	0.96
618941--618996	20	2.8	20	74	15	53	55	1	1	41	1.21
619354--619398	21	2.2	21	84	11	58	42	0	0	57	0.98
619368--619426	27	2.3	26	80	13	68	52	0	0	47	1.00
619418--619475	16	3.8	16	70	19	52	63	0	0	36	0.94
619414--619475	7	8.6	7	77	18	56	64	0	0	35	0.94
619649--619810	38	3.7	45	76	15	132	61	0	0	38	0.96
619732--619810	36	2.2	37	83	2	106	62	0	0	37	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
619649--619802	20	7.5	20	70	23	90	60	0	0	39	0.97
619744--619811	14	4.3	15	72	22	50	63	0	0	36	0.95
619927--619978	27	2.0	25	82	14	61	59	3	1	34	1.27
620068--620110	20	2.2	19	87	4	59	48	0	2	48	1.14
620080--620135	27	2.1	27	83	12	71	46	1	0	51	1.11
620782--620821	18	2.2	19	86	4	55	50	2	5	42	1.37
634705--634748	21	2.2	20	87	4	61	72	0	6	20	1.07
634705--634747	20	2.2	20	87	8	61	72	0	6	20	1.08
635902--635932	12	2.7	12	95	5	55	32	0	0	67	0.91
636043--636092	24	2.1	24	81	7	57	52	4	2	42	1.31
636110--636162	22	2.4	21	87	12	72	37	0	0	62	0.96
636110--636171	22	2.8	23	78	11	67	38	0	0	61	0.96
636417--636447	16	1.9	16	93	0	53	67	0	3	29	1.06
636529--636565	18	2.0	19	89	5	58	56	0	0	43	0.99
637954--638013	26	2.4	25	83	5	75	41	0	1	56	1.09
639898--639959	23	2.7	21	71	14	52	50	0	0	50	1.00
643196--643260	33	2.0	33	84	6	87	29	13	15	41	1.86
647070--647099	11	2.8	11	95	5	53	73	0	0	26	0.84
647634--647686	16	3.2	16	75	19	56	45	0	0	54	0.99
647719--647756	20	2.0	20	85	15	53	34	7	2	55	1.43
648267--648296	11	2.7	11	94	0	51	46	0	13	40	1.43
649486--649703	34	6.4	34	80	4	235	41	24	7	27	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
649485--649703	68	3.2	68	80	0	260	41	24	7	26	1.81
649487--649703	102	2.1	101	89	2	328	41	23	7	27	1.81
653370--653413	19	2.3	19	92	0	70	34	20	18	27	1.96
653720--653935	34	6.4	33	79	5	218	42	23	6	28	1.79
653720--653935	68	3.2	68	83	0	272	42	23	6	28	1.79
653712--653935	102	2.2	102	88	3	328	42	22	6	28	1.78
654778--654821	20	2.2	20	84	4	63	56	0	0	43	0.99
654780--654817	19	2.0	20	89	5	60	52	0	0	47	1.00
654800--654909	46	2.4	45	85	5	116	56	2	0	40	1.20
654869--654895	14	1.9	14	100	0	54	51	3	0	44	1.19

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