genome.fa.s412.2.7.7.80.10.50.1000.27.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: Scaffold412
Parameters: 2 7 7 80 10 50 1000
Length:  4645160

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   25   26   27   28   29   30   31   32   

This is table  27  of  32  ( 3728 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)
3850180--3850297	51	2.3	52	88	4	186	30	25	11	32	1.92
3850283--3850354	28	2.6	28	91	2	110	23	31	18	26	1.97
3850152--3850484	157	2.1	156	82	4	409	27	27	13	31	1.94
3850337--3850455	51	2.3	51	82	2	150	26	27	14	31	1.95
3850409--3850616	79	2.6	78	76	8	215	29	25	11	34	1.90
3858505--3858561	27	2.1	27	96	3	107	38	7	17	36	1.77
3859174--3859200	13	2.1	13	100	0	54	29	14	14	40	1.86
3859155--3859216	33	1.9	32	87	9	90	27	14	16	41	1.87
3860172--3860233	31	2.0	31	100	0	124	45	16	19	19	1.86
3861692--3861739	23	2.2	23	85	14	66	29	12	4	54	1.56
3863166--3863323	46	3.4	46	76	8	149	18	23	13	43	1.86
3863367--3863489	45	2.8	46	75	9	155	19	22	18	39	1.93
3863481--3863691	47	4.5	47	74	5	151	24	21	17	36	1.94
3863464--3863639	94	1.9	94	82	0	226	25	19	17	37	1.94
3863464--3863661	94	2.1	94	79	3	211	24	21	17	37	1.94
3863726--3863868	45	3.2	44	76	6	144	27	19	12	40	1.88
3863896--3864033	43	3.2	43	70	8	111	19	21	12	46	1.83
3865176--3865708	155	3.4	154	80	6	576	42	19	13	24	1.88
3865177--3865812	311	2.0	310	79	3	681	41	19	14	24	1.89
3872314--3872354	6	6.7	6	84	15	57	14	4	0	80	0.87
3875744--3875774	15	2.1	15	93	0	53	29	19	0	51	1.47
3875954--3877477	73	20.9	73	71	13	219	53	12	2	31	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3875914--3877605	145	11.7	142	75	9	1185	52	12	2	31	1.53
3875914--3877605	72	23.3	72	75	9	1187	52	12	2	31	1.53
3876871--3876989	39	3.2	37	65	16	95	52	10	2	34	1.48
3877368--3877419	26	2.0	26	81	7	61	57	11	0	30	1.34
3877571--3877625	19	2.8	19	88	2	74	50	10	0	38	1.37
3877969--3878017	18	2.9	16	80	19	55	34	0	2	63	1.06
3878017--3878171	76	2.0	76	81	9	181	37	2	3	56	1.32
3878133--3878162	14	2.1	14	93	0	51	26	0	0	73	0.84
3878536--3878578	11	3.7	11	82	11	50	51	0	2	46	1.13
3882512--3882698	8	22.6	8	65	20	73	66	3	1	28	1.18
3882536--3882599	26	2.4	27	76	10	69	67	0	3	29	1.06
3882484--3882668	59	3.2	57	77	12	166	66	2	1	29	1.15
3882596--3882656	22	2.9	22	81	13	58	62	6	0	31	1.21
3882512--3882821	9	34.6	9	65	24	74	66	3	1	28	1.20
3882604--3882650	19	2.2	20	85	14	60	68	2	0	29	1.02
3882606--3882697	39	2.3	39	80	12	98	66	4	1	28	1.18
3882751--3882797	10	4.7	10	82	7	51	68	2	0	29	1.02
3882760--3882806	21	2.2	22	88	3	69	70	2	0	27	0.99
3882743--3882829	28	3.1	28	86	6	106	72	2	0	25	0.96
3882683--3882807	46	2.7	46	72	16	114	65	4	2	28	1.23
3882704--3882838	68	2.0	66	83	11	168	66	3	2	27	1.20
3882759--3882830	10	7.3	10	73	13	51	73	1	0	25	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3882870--3882911	22	1.9	22	90	0	66	16	4	4	73	1.17
3882872--3882919	22	2.2	22	81	7	53	16	4	6	72	1.20
3882914--3882959	10	4.8	10	76	10	51	30	2	2	65	1.16
3882906--3882959	19	2.8	19	86	5	74	27	1	3	66	1.19
3882900--3882961	9	6.8	9	78	12	56	25	1	6	66	1.25
3882900--3882961	28	2.2	28	88	2	90	25	1	6	66	1.25
3883011--3883040	15	1.9	16	93	6	53	33	0	0	66	0.92
3883029--3883082	9	5.8	9	76	8	54	35	1	1	61	1.18
3884661--3884757	27	3.6	27	75	10	81	45	9	4	41	1.55
3884716--3884759	12	3.4	12	77	17	52	47	0	2	50	1.13
3885365--3885394	15	2.0	15	93	0	51	70	0	0	30	0.88
3886585--3886625	15	2.7	15	85	10	57	26	0	4	68	1.10
3886906--3886963	11	5.1	11	76	14	55	51	1	1	44	1.21
3886888--3886946	23	2.4	25	86	8	77	55	0	1	42	1.09
3886906--3886964	23	2.6	22	84	5	73	50	1	1	45	1.21
3887618--3887662	17	2.7	17	77	16	58	60	0	0	40	0.97
3887562--3887707	65	2.3	63	78	9	152	59	0	0	39	1.07
3887571--3887703	11	11.5	11	69	15	65	60	0	0	38	1.08
3887757--3887803	19	2.6	18	76	6	51	40	0	0	59	0.97
3888615--3888684	27	2.9	24	75	22	74	64	0	1	34	1.03
3888614--3888688	11	7.4	11	72	14	63	62	0	1	36	1.04
3888854--3888883	2	15.0	2	100	0	60	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3893188--3893234	22	2.1	23	84	4	60	57	6	0	36	1.24
3893426--3893501	14	4.9	15	75	15	66	38	0	0	61	0.96
3893402--3893501	15	6.5	15	73	17	73	38	0	0	62	0.96
3893378--3893512	44	3.0	44	74	19	120	36	0	0	63	0.95
3893446--3893509	22	2.9	23	79	9	71	35	0	0	64	0.94
3893386--3893501	62	1.9	61	84	10	148	38	0	0	61	0.96
3894117--3894165	13	3.8	13	81	2	55	46	0	4	48	1.20
3895057--3895123	33	2.1	31	83	5	80	49	4	4	41	1.43
3895071--3895125	16	3.4	16	80	5	67	47	3	5	43	1.44
3896733--3896795	32	2.0	32	83	0	81	38	4	14	42	1.66
3901383--3901428	3	15.3	3	100	0	92	34	0	0	65	0.93
3901486--3901525	18	2.2	18	86	0	53	62	0	0	37	0.95
3901712--3901741	15	2.0	15	100	0	60	33	0	13	53	1.40
3902505--3902554	21	2.2	23	79	17	59	44	0	0	56	0.99
3905525--3905556	16	2.0	16	100	0	64	31	25	25	18	1.98
3914930--3914959	8	3.6	8	91	8	51	70	0	3	26	1.03
3914930--3914966	17	2.1	18	95	5	67	70	0	5	24	1.08
3918650--3918771	50	2.4	50	82	2	138	32	16	25	25	1.96
3918703--3918900	79	2.5	79	83	1	254	31	12	25	29	1.93
3921307--3921353	9	5.3	9	84	5	69	12	2	10	74	1.16
3921316--3921362	17	2.8	18	84	12	64	14	4	8	72	1.24
3922318--3922343	13	2.0	13	100	0	52	38	15	15	30	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3924562--3924606	21	2.1	21	84	8	56	53	4	20	22	1.63
3926410--3926440	15	2.1	15	93	0	53	48	16	22	12	1.80
3928497--3928521	13	1.9	13	100	0	50	32	16	16	36	1.90
3931983--3932335	52	6.8	52	75	7	207	32	16	25	25	1.96
3931980--3932276	103	2.9	103	78	2	281	31	17	24	25	1.97
3932135--3932332	104	1.9	103	81	6	238	33	17	23	25	1.96
3932381--3932627	32	7.7	32	84	8	297	21	19	29	30	1.97
3932381--3932637	96	2.7	96	86	4	340	22	18	29	29	1.97
3932811--3932887	28	2.8	28	90	2	111	23	18	32	25	1.97
3934085--3934141	12	4.7	12	78	8	62	7	0	10	82	0.84
3934085--3934141	23	2.3	26	88	8	84	7	0	10	82	0.84
3944117--3944252	68	2.0	68	95	0	245	33	11	16	38	1.83
3946837--3946890	19	2.8	19	91	2	81	31	22	12	33	1.92
3946922--3946973	20	2.6	20	87	0	68	36	13	21	28	1.91
3949067--3949115	19	2.5	19	83	3	62	28	16	16	38	1.90
3958757--3958861	38	2.8	38	86	0	147	39	17	15	28	1.90
3960772--3960802	2	15.5	2	100	0	62	48	0	0	51	1.00
3961979--3962047	24	2.9	23	71	14	59	13	10	2	73	1.19
3962012--3962046	15	2.3	15	85	0	52	14	5	5	74	1.19
3963632--3963683	19	2.7	20	87	3	70	30	15	15	38	1.88
3963732--3963785	20	2.7	20	85	5	74	31	11	18	38	1.86
3970014--3970054	21	2.0	22	85	9	59	31	24	0	43	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3972360--3972432	20	3.7	19	83	8	85	32	15	16	35	1.90
3972476--3972508	13	2.5	13	100	0	66	30	15	15	39	1.88
3973211--3973475	146	1.8	147	89	4	419	27	10	10	51	1.70
3973328--3973706	164	2.3	165	81	7	432	30	11	7	50	1.65
3976410--3976450	20	2.0	21	90	9	66	46	7	7	39	1.60
3976547--3976618	20	3.7	20	79	7	85	30	12	16	40	1.86
3980994--3981114	52	2.3	52	86	0	197	28	17	17	36	1.93
3981179--3981262	13	5.5	13	68	28	51	34	17	14	33	1.90
3981187--3981249	19	3.7	18	74	24	64	34	17	14	33	1.90
3981179--3981264	32	2.7	32	94	0	154	36	17	13	32	1.89

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   25   26   27   28   29   30   31   32