genome.fa.s74.2.7.7.80.10.50.1000.22.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: Scaffold74
Parameters: 2 7 7 80 10 50 1000
Length:  4633657

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   

This is table  22  of  24  ( 2862 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)
4190551--4190581	16	1.9	16	93	0	53	70	0	0	29	0.87
4190549--4190623	38	1.9	39	86	2	107	60	1	4	34	1.24
4199654--4199707	23	2.3	23	87	9	74	55	0	3	40	1.17
4199689--4199772	11	7.3	12	70	20	56	47	1	1	50	1.16
4201418--4201451	14	2.4	15	85	14	54	52	0	0	47	1.00
4202632--4202657	13	2.0	13	100	0	52	15	7	7	69	1.35
4204012--4204043	2	16.0	2	100	0	64	50	0	0	50	1.00
4205247--4205315	8	8.1	8	70	17	50	56	2	2	37	1.29
4205224--4205301	35	2.2	34	82	10	95	58	1	0	39	1.06
4205224--4205301	27	2.8	29	80	14	78	58	1	0	39	1.06
4205459--4205484	3	8.7	3	100	0	52	65	0	0	34	0.93
4205711--4205747	2	18.5	2	94	0	65	45	0	0	54	1.00
4210353--4210388	2	18.0	2	100	0	72	50	0	0	50	1.00
4210918--4210983	33	1.9	35	82	11	84	54	0	0	45	0.99
4212210--4212240	15	2.1	15	94	5	55	45	0	0	54	0.99
4212200--4212269	35	2.0	35	83	5	88	42	0	1	55	1.08
4212935--4212983	21	2.2	23	86	13	68	42	0	0	57	0.99
4213707--4213740	7	4.9	7	88	0	50	44	32	2	20	1.67
4214248--4214286	14	2.8	14	84	0	51	53	0	0	46	1.00
4217027--4217088	21	3.1	21	70	25	53	48	0	1	50	1.10
4219189--4219218	15	1.9	16	93	6	53	53	0	3	43	1.17
4219442--4219479	15	2.6	15	95	4	69	86	0	0	13	0.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4219442--4219479	7	5.3	7	93	6	67	86	0	0	13	0.56
4220264--4220301	2	19.0	2	100	0	76	50	0	0	50	1.00
4220824--4220880	16	3.8	16	72	13	57	47	0	3	49	1.18
4220860--4220927	34	2.0	35	82	8	86	48	0	1	50	1.10
4220876--4220925	18	2.8	18	73	11	50	50	0	2	48	1.12
4221303--4221345	4	10.8	4	89	0	59	44	0	6	48	1.29
4221303--4221345	6	7.2	6	91	0	59	44	0	6	48	1.29
4221303--4221345	10	4.3	10	90	0	59	44	0	6	48	1.29
4222603--4222663	16	3.8	16	72	8	52	47	13	1	37	1.52
4223815--4223886	29	2.5	30	82	14	98	37	0	2	59	1.12
4223818--4223939	49	2.4	49	80	13	133	42	0	2	54	1.13
4223871--4223937	18	4.0	17	67	23	52	46	0	1	52	1.09
4223880--4223949	32	2.1	32	84	10	86	42	0	4	52	1.20
4223848--4223952	49	2.2	48	80	10	108	41	0	3	54	1.18
4229819--4229889	37	1.9	37	88	5	108	45	1	1	52	1.18
4229870--4229951	19	4.3	19	78	3	67	41	0	1	57	1.06
4229870--4229973	54	1.9	54	84	4	136	40	0	1	57	1.10
4231941--4231972	2	16.0	2	100	0	64	50	0	0	50	1.00
4238876--4238908	15	2.1	16	88	5	50	3	54	0	42	1.15
4239810--4239864	19	3.1	18	78	14	60	40	0	0	60	0.97
4239811--4239879	34	2.0	33	81	15	79	42	0	1	56	1.08
4240933--4240972	21	1.9	21	85	10	55	67	0	0	32	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4240949--4241001	17	2.9	17	77	20	54	56	0	0	43	0.99
4240933--4240985	20	2.7	20	79	5	54	60	0	0	39	0.97
4240968--4241033	20	3.3	20	74	18	57	51	0	1	46	1.10
4240969--4241026	19	3.1	19	75	20	59	48	0	1	50	1.11
4240976--4241030	18	2.9	19	79	10	69	47	0	1	50	1.11
4241153--4241216	29	2.2	29	78	15	71	56	1	1	40	1.18
4242481--4242511	7	4.6	7	96	4	55	77	0	0	22	0.77
4242481--4242518	14	2.8	13	88	7	58	78	0	0	21	0.74
4243307--4243359	24	2.2	24	89	0	79	66	1	0	32	1.03
4248794--4248839	24	2.0	23	86	4	65	30	4	28	36	1.76
4256166--4256202	2	18.5	2	100	0	74	51	0	0	48	1.00
4257796--4257926	65	2.0	65	86	2	183	23	12	26	37	1.90
4261523--4261653	65	2.0	64	81	7	149	44	3	8	43	1.52
4261703--4261745	16	2.8	15	79	6	50	55	0	0	44	0.99
4261725--4261771	21	2.2	21	85	14	62	51	0	0	48	1.00
4261741--4261775	17	2.1	17	88	0	52	54	0	0	45	0.99
4262685--4262730	13	3.6	13	77	13	51	56	0	0	43	0.99
4269084--4269117	5	6.8	5	89	0	50	26	0	0	73	0.83
4269084--4269119	10	3.6	10	92	0	63	27	0	0	72	0.85
4269542--4269596	27	2.0	27	82	10	67	61	7	7	23	1.47
4270016--4270063	16	2.7	18	84	9	55	10	22	0	66	1.22
4271763--4271797	15	2.4	14	90	4	52	37	0	0	62	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4271763--4271800	14	2.6	15	91	4	60	36	0	0	63	0.95
4272292--4272331	21	1.9	21	94	0	71	55	0	0	45	0.99
4272353--4272389	19	1.9	19	88	0	56	59	0	2	37	1.12
4273435--4273491	3	19.0	3	96	0	105	64	1	0	33	1.04
4273718--4273743	2	13.0	2	100	0	52	50	0	0	50	1.00
4278166--4278225	21	2.7	21	82	12	59	51	1	0	46	1.10
4278692--4278726	3	11.3	3	93	6	61	68	0	0	31	0.90
4279548--4279586	20	2.0	20	90	10	62	43	0	0	56	0.99
4279583--4279623	19	2.0	21	86	9	59	46	2	0	51	1.14
4280757--4280798	15	2.9	15	78	3	50	42	2	4	50	1.36
4280947--4281052	15	7.0	15	80	16	121	50	0	0	49	1.07
4280947--4281037	5	17.4	5	75	20	80	50	0	0	49	1.00
4281509--4281627	34	3.5	34	83	1	148	42	27	5	24	1.78
4286061--4286177	34	3.5	32	77	11	110	46	17	4	31	1.68
4286573--4286616	21	2.2	20	84	8	54	47	0	4	47	1.22
4286831--4286900	32	2.2	32	84	0	86	45	2	1	50	1.25
4286880--4286939	22	2.6	22	84	7	75	33	3	0	63	1.11
4288125--4288151	6	4.5	6	100	0	54	18	0	0	81	0.69
4288577--4288619	3	14.3	3	100	0	86	67	0	0	32	0.91
4288958--4289008	2	25.5	2	91	0	84	50	0	3	45	1.20
4289468--4289638	5	36.2	5	66	21	66	56	0	1	42	1.10
4289477--4289638	11	15.0	11	66	20	74	56	0	1	41	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4289468--4289638	9	18.1	10	65	21	66	56	0	1	42	1.10
4289607--4289653	19	2.4	18	83	13	58	59	2	4	34	1.29
4289907--4289936	2	15.0	2	100	0	60	50	0	0	50	1.00
4290259--4290299	20	2.0	20	95	0	73	21	14	9	53	1.70
4290497--4290530	17	2.0	17	88	0	50	41	0	0	58	0.98
4290594--4290641	17	2.8	16	78	12	51	56	0	4	39	1.19
4291157--4291193	18	2.0	19	94	5	67	54	0	0	45	1.00
4292642--4292680	16	2.4	16	95	0	69	53	0	0	46	1.00
4292896--4292939	22	2.1	20	83	8	52	61	0	0	38	0.96
4294452--4294485	12	2.8	12	86	0	50	8	32	26	32	1.87
4304971--4305023	15	3.4	15	76	16	54	43	1	0	54	1.11
4304962--4305031	32	2.2	32	80	14	83	41	1	1	55	1.17
4306040--4306073	16	2.2	16	89	5	52	52	0	2	44	1.16
4306995--4307066	37	2.1	35	85	12	96	54	1	2	41	1.23
4318188--4318243	25	2.3	23	82	11	60	57	5	0	37	1.22
4318724--4318771	24	1.9	25	83	8	62	56	2	0	41	1.11
4319292--4319356	16	4.1	16	82	4	78	43	0	0	56	0.99
4319297--4319364	16	4.4	15	78	7	73	38	0	0	61	0.96
4319404--4319441	16	2.3	17	86	4	51	42	2	2	52	1.29
4320018--4320059	22	1.9	22	90	0	66	30	2	7	59	1.37
4320196--4320242	23	2.0	23	83	0	58	40	4	0	55	1.19
4322073--4322134	18	3.3	18	72	14	54	43	0	0	56	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4322054--4322145	40	2.5	36	81	11	105	40	0	0	59	0.97
4322045--4322150	20	5.4	20	72	23	84	40	0	0	58	1.04
4322920--4322957	19	2.0	20	90	10	62	26	0	0	73	0.83
4324482--4324672	36	5.3	36	94	0	328	14	53	7	25	1.66
4333520--4333549	11	2.7	11	100	0	60	90	10	0	0	0.47
4337254--4337300	22	2.2	21	88	3	67	42	0	0	57	0.98
4339872--4339896	3	8.3	3	100	0	50	36	0	0	64	0.94
4340090--4340146	24	2.4	24	97	2	107	45	0	7	47	1.30
4340082--4340131	2	25.0	2	88	8	75	48	0	4	48	1.20
4342794--4342834	21	2.0	21	85	9	57	39	0	0	60	0.96

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