genome.fa.s41.2.7.7.80.10.50.1000.7.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  7  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)
654812--654909	46	2.1	47	88	1	144	56	3	1	39	1.22
656163--656201	18	2.1	19	85	4	53	30	0	0	69	0.89
657099--657142	12	3.8	12	84	6	54	0	31	0	68	0.90
657071--657145	23	3.3	22	82	12	89	2	25	0	72	0.98
657070--657155	12	7.7	10	74	23	50	2	24	0	73	0.95
657240--657273	11	2.9	12	91	8	61	0	14	0	85	0.60
658160--658204	22	2.1	21	83	4	54	51	0	33	15	1.44
659518--659560	2	21.5	2	100	0	86	48	0	0	51	1.00
659924--659964	15	2.5	17	84	11	50	34	2	2	60	1.23
661662--661744	10	8.3	10	69	22	59	30	1	0	68	0.97
661686--661766	12	6.9	12	75	12	71	33	0	0	66	0.92
661987--662068	27	3.2	26	74	19	73	64	0	1	34	1.01
661985--662044	28	2.1	28	85	11	79	66	0	1	31	1.01
661991--662079	17	5.2	17	71	15	58	60	0	1	38	1.04
662027--662111	31	2.9	30	78	15	97	58	1	0	40	1.05
661988--662104	37	3.0	41	70	16	97	61	0	0	36	1.08
662622--662685	32	2.1	31	85	5	85	50	1	0	48	1.10
663103--663198	30	3.2	30	83	2	122	53	4	4	38	1.40
665205--665252	7	6.5	8	79	15	59	35	0	0	64	0.94
665204--665262	22	2.8	21	80	14	59	37	0	0	62	0.95
665214--665279	22	3.0	22	80	6	62	39	0	0	60	0.97
667836--667882	23	2.1	23	85	14	64	36	0	2	61	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
668325--668354	2	15.0	2	100	0	60	50	0	0	50	1.00
668633--668679	3	15.7	3	91	8	78	63	2	0	34	1.06
670741--671398	334	2.0	334	100	0	1316	38	20	19	22	1.94
673457--673512	29	1.9	29	85	7	78	33	0	0	66	0.92
673461--673512	16	3.4	16	76	15	56	36	0	0	63	0.95
673469--673519	14	3.6	14	75	15	50	35	0	0	64	0.94
674034--674059	2	13.0	2	100	0	52	50	0	0	50	1.00
674914--674947	16	2.1	16	88	0	50	41	11	5	41	1.66
675120--675147	14	2.0	14	100	0	56	35	50	7	7	1.57
679512--679571	19	3.2	19	76	7	59	20	0	10	70	1.16
679551--679685	45	3.0	45	83	6	164	28	0	15	55	1.41
679674--679734	21	2.9	22	66	16	56	42	0	0	57	0.98
679985--680140	18	8.7	18	67	20	78	44	0	0	53	1.09
679981--680148	29	5.2	34	73	21	150	43	0	0	55	1.08
680012--680104	31	3.6	24	71	22	80	47	1	0	51	1.07
679981--680140	19	8.8	20	65	25	72	44	0	0	54	1.09
680025--680170	30	4.9	29	70	23	106	43	2	0	54	1.12
680027--680134	54	1.9	56	88	7	166	47	0	0	51	1.07
679984--680159	89	1.9	94	88	5	272	43	0	0	55	1.08
680097--680157	26	2.5	24	73	7	61	37	0	0	62	0.96
680253--680310	21	2.8	21	78	0	71	36	13	0	50	1.42
681124--681149	6	4.3	6	100	0	52	15	19	15	50	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
682240--682266	11	2.5	11	100	0	54	33	7	0	59	1.25
683823--683881	25	2.3	24	82	8	73	38	5	0	55	1.22
683872--683912	21	2.1	19	86	9	55	31	0	0	68	0.90
684413--684515	21	5.0	21	70	17	74	54	0	0	45	0.99
684447--684525	19	4.2	18	69	13	52	51	0	0	48	1.00
685950--686001	18	2.8	20	74	14	56	59	0	1	38	1.08
686655--686692	20	1.9	20	88	0	58	13	7	34	44	1.72
687983--688039	21	2.8	20	78	5	60	33	5	0	61	1.18
690753--690824	28	2.6	28	86	0	90	25	19	33	22	1.97
690813--691151	52	6.4	52	68	17	153	32	12	25	29	1.92
690969--691037	27	2.5	27	88	6	95	23	21	30	24	1.99
690758--691151	212	1.9	212	87	4	589	31	13	26	28	1.94
691028--691146	51	2.3	54	85	7	156	34	11	21	31	1.90
693511--693536	13	2.0	13	100	0	52	38	15	15	30	1.88
693576--693643	19	3.9	18	76	23	83	38	14	11	35	1.83
693598--693622	13	1.9	13	100	0	50	32	16	16	36	1.90
693579--693641	32	2.0	32	96	0	117	36	15	12	34	1.86
697619--697668	22	2.3	22	79	6	57	46	0	0	54	1.00
697861--697893	2	16.5	2	100	0	66	48	0	0	51	1.00
702319--702346	13	2.2	13	100	0	56	60	0	0	39	0.97
702478--702525	24	1.9	26	83	8	64	31	2	0	66	1.03
702740--702781	19	2.3	18	88	12	59	61	0	0	38	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
702740--702790	19	2.8	17	78	18	50	58	1	0	39	1.09
702962--702993	15	2.1	15	100	0	64	56	12	0	31	1.37
703593--703626	12	2.7	13	90	4	52	23	2	2	70	1.15
704277--704326	19	2.6	19	78	9	57	54	0	0	46	1.00
704824--704878	12	4.4	13	86	8	71	34	0	0	65	0.93
704826--704875	5	10.4	5	78	21	54	34	0	0	66	0.92
704826--704875	17	2.8	19	88	11	72	34	0	0	66	0.92
706028--706089	20	3.1	21	77	11	67	37	0	1	61	1.06
706037--706100	10	6.3	10	73	10	58	42	0	0	57	0.98
708504--708537	3	11.3	3	87	0	50	32	0	38	29	1.58
710899--710927	6	4.8	6	100	0	58	17	0	0	82	0.66
711319--711350	16	1.9	17	93	6	57	50	0	0	50	1.00
711899--711956	14	4.1	14	80	10	64	36	0	0	63	0.94
711912--711958	16	3.1	15	84	12	60	38	0	0	61	0.96
712000--712041	19	2.2	19	83	8	50	40	0	2	57	1.12
712031--712068	18	2.1	18	90	9	60	52	0	2	44	1.14
712932--712961	11	2.8	11	95	5	53	36	0	0	63	0.95
712922--712976	28	2.0	28	82	7	67	36	1	1	60	1.18
717923--718014	26	3.4	27	77	15	84	36	0	0	63	0.95
718352--718379	6	4.7	6	100	0	56	85	0	14	0	0.59
719489--719513	2	12.5	2	100	0	50	52	48	0	0	1.00
723100--723134	18	1.9	18	88	0	52	57	0	2	40	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
723292--723370	37	2.1	37	82	13	101	41	1	0	56	1.07
723323--723356	18	1.9	18	88	5	52	35	2	0	61	1.11
723313--723370	20	3.0	20	73	16	61	41	1	0	56	1.09
723629--723779	67	2.3	64	82	10	171	56	0	2	40	1.18
724200--724250	21	2.5	22	84	9	63	50	19	3	25	1.64
725844--725959	39	3.1	37	68	22	100	62	7	0	30	1.23
725841--726002	72	2.2	72	84	8	197	60	8	0	30	1.27
727160--727194	16	2.2	16	94	0	61	42	0	0	57	0.99
727735--727785	25	1.9	27	84	11	70	54	3	5	35	1.43
727827--727879	27	2.0	27	81	7	63	52	5	0	41	1.25
728234--728258	11	2.3	11	100	0	50	64	0	0	36	0.94
730599--730849	125	2.0	125	98	0	484	36	19	18	25	1.94
732224--732267	16	2.6	17	89	7	72	50	0	0	50	1.00
732214--732306	45	2.1	45	84	13	122	46	0	0	53	1.00
732225--732326	45	2.3	44	78	15	106	49	0	0	50	1.07
732531--732582	25	2.2	25	86	6	72	57	1	9	30	1.42
733369--733404	18	1.9	19	94	5	65	30	0	2	66	1.06
737784--737814	2	15.5	2	100	0	62	48	0	0	51	1.00
740045--740176	45	3.2	44	64	29	117	57	6	7	28	1.52
740038--740203	79	2.1	79	97	0	314	57	5	7	29	1.50
740711--740787	21	3.7	21	89	3	111	35	12	16	35	1.88
740844--740868	13	1.9	13	100	0	50	36	16	16	32	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
740825--740887	32	2.0	32	93	0	108	33	12	17	36	1.88
740824--740890	19	3.8	19	74	22	74	34	11	16	37	1.85
740930--740955	13	2.0	13	100	0	52	30	15	15	38	1.88
740910--740976	33	2.0	33	85	0	89	25	13	16	44	1.84
740993--741021	15	1.9	15	100	0	58	37	13	13	34	1.85
743419--743451	17	1.9	17	93	0	57	24	33	24	18	1.97
743464--743687	52	4.3	52	79	6	157	29	25	11	33	1.91
743509--743687	52	3.4	53	83	4	211	30	27	11	30	1.92
743670--743744	28	2.7	28	87	0	96	24	33	18	24	1.97
747210--747276	33	2.0	33	88	0	98	34	11	13	40	1.81

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