genome.fa.s228.2.7.7.80.10.50.1000.26.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: Scaffold228
Parameters: 2 7 7 80 10 50 1000
Length:  4123243

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   

This is table  26  of  27  ( 3133 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)
3961269--3961385	41	2.8	41	86	1	162	27	23	15	34	1.94
3962536--3962560	13	1.9	13	100	0	50	36	16	16	32	1.90
3962513--3962580	33	2.1	33	88	2	102	32	14	17	35	1.91
3962612--3962664	20	2.6	21	84	3	72	28	16	13	41	1.86
3962925--3962959	12	2.7	13	91	8	54	0	14	0	85	0.59
3964215--3965073	32	26.8	32	93	1	1445	16	18	32	31	1.94
3965059--3965692	27	22.9	27	89	3	899	28	14	32	23	1.94
3965059--3965692	165	3.8	164	90	2	905	28	14	32	23	1.94
3965059--3965692	220	2.9	220	93	3	1053	28	14	32	23	1.94
3971564--3971588	12	2.1	12	100	0	50	52	8	16	24	1.70
3972915--3972964	22	2.2	24	82	7	59	52	6	2	40	1.38
3973491--3973525	12	2.7	13	91	8	54	0	14	0	85	0.59
3976080--3976196	41	2.8	41	88	1	162	27	23	15	33	1.95
3977346--3977370	13	1.9	13	100	0	50	36	16	16	32	1.90
3977323--3977390	33	2.1	33	88	2	102	32	14	17	35	1.91
3977462--3977490	13	2.2	13	100	0	58	37	13	17	31	1.89
3977476--3977526	20	2.5	20	87	0	66	33	15	15	35	1.90
3978041--3978084	21	2.0	21	86	4	61	31	31	2	34	1.70
3978110--3978147	19	2.0	19	100	0	76	21	36	0	42	1.53
3979789--3979829	22	2.0	21	86	13	59	41	4	21	31	1.74
3979961--3979985	13	1.9	13	100	0	50	36	16	16	32	1.90
3982061--3982101	15	2.7	15	84	3	55	17	19	17	46	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3985580--3985647	33	2.1	32	86	2	91	33	14	16	35	1.89
3985603--3985627	13	1.9	13	100	0	50	36	16	16	32	1.90
3985679--3985731	20	2.6	20	84	3	70	26	15	15	43	1.85
3985719--3985747	13	2.2	13	100	0	58	37	13	17	31	1.89
3985733--3985783	20	2.5	20	87	0	66	33	15	15	35	1.90
3986642--3986740	16	5.9	16	67	21	53	75	1	13	10	1.09
3986697--3986729	12	2.8	12	100	0	66	72	0	15	12	1.12
3989712--3989772	20	3.0	20	79	11	70	50	0	9	39	1.35
3989742--3989783	18	2.3	19	87	4	59	45	0	19	35	1.50
3992862--3992894	16	2.1	16	100	0	66	12	18	18	51	1.76
3993480--3993564	26	3.5	22	70	17	62	63	0	1	35	1.02
3993670--3993712	3	14.0	3	95	4	77	0	32	0	67	0.91
3996815--3996840	2	13.0	2	100	0	52	50	0	0	50	1.00
3998188--3998214	4	6.8	4	100	0	54	22	0	0	77	0.76
3998549--3998586	17	2.3	17	86	4	51	68	5	2	23	1.23
3998706--3998755	18	2.9	18	72	16	52	44	0	0	56	0.99
3998760--3998793	14	2.3	15	95	5	61	61	0	0	38	0.96
3998739--3998799	23	2.7	22	75	10	61	55	0	0	44	0.99
3999015--3999052	2	19.0	2	100	0	76	50	0	0	50	1.00
4003313--4003374	21	2.8	22	82	7	63	53	1	3	41	1.27
4004490--4004526	3	12.3	3	100	0	74	64	0	0	35	0.94
4007537--4007577	2	20.5	2	94	0	73	46	0	2	51	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4010382--4010412	2	15.5	2	100	0	62	48	0	0	51	1.00
4012110--4012165	21	2.9	18	72	23	60	69	1	1	26	1.08
4012313--4012408	41	2.3	41	85	3	131	37	8	15	38	1.78
4012608--4012650	16	2.7	15	85	3	59	53	11	2	32	1.50
4013661--4013725	32	2.0	32	96	0	121	43	13	21	21	1.87
4013898--4013932	2	17.5	2	100	0	70	51	0	0	48	1.00
4014604--4014791	94	2.0	94	95	0	340	43	17	11	27	1.84
4016462--4016501	2	20.0	2	100	0	80	50	0	0	50	1.00
4016978--4017020	11	3.8	11	78	6	50	46	0	0	53	1.00
4017758--4017807	19	2.6	20	81	6	59	42	4	2	52	1.31
4017979--4018044	21	3.0	22	80	10	73	65	0	0	34	0.93
4017979--4018039	20	2.9	21	82	9	70	68	0	0	31	0.89
4018105--4018152	20	2.3	21	80	20	57	64	0	0	35	0.94
4018117--4018152	18	2.0	18	89	10	56	66	0	0	33	0.92
4018249--4018294	20	2.3	21	82	10	53	45	0	0	54	0.99
4018277--4018318	17	2.5	17	85	11	59	47	0	0	52	1.00
4031374--4031404	2	15.5	2	100	0	62	0	48	0	51	1.00
4032445--4032505	27	2.3	27	76	0	68	59	0	0	40	0.98
4032464--4032505	13	3.2	13	80	6	50	57	0	0	42	0.99
4034218--4034257	15	2.7	15	92	0	71	37	0	0	62	0.95
4038344--4038382	2	19.5	2	100	0	78	48	0	0	51	1.00
4040676--4040725	24	2.1	24	81	7	57	40	0	2	58	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4043514--4043548	15	2.4	14	90	4	52	80	2	0	17	0.84
4044978--4045066	31	2.9	30	76	17	85	48	0	1	50	1.08
4045004--4045053	18	2.8	18	74	11	50	52	0	0	48	1.00
4048779--4048808	3	10.0	3	100	0	60	66	0	33	0	0.92
4050403--4050427	2	12.5	2	100	0	50	52	0	0	48	1.00
4050680--4050758	23	3.6	22	77	17	85	46	0	0	53	1.00
4050691--4050769	10	7.9	9	78	17	59	46	0	0	53	1.00
4050686--4050769	33	2.8	29	80	16	98	46	0	0	53	1.00
4050701--4050799	17	5.8	17	73	13	71	42	0	0	57	0.98
4053311--4053402	31	3.0	31	81	9	107	59	1	0	39	1.04
4053311--4053359	16	3.1	16	71	11	55	57	2	0	40	1.10
4053309--4053418	10	10.8	10	71	20	61	60	0	0	39	1.03
4053360--4053420	29	2.1	28	88	8	88	62	0	0	37	0.96
4053330--4053420	39	2.3	41	85	12	120	61	1	0	37	1.03
4053567--4053615	2	24.5	2	91	0	80	48	4	0	46	1.20
4054507--4054543	2	18.5	2	100	0	74	51	0	0	48	1.00
4055811--4055858	15	3.1	15	75	21	53	56	0	0	43	0.99
4055808--4055866	18	3.6	17	68	25	54	54	0	0	45	0.99
4060311--4060336	4	6.5	4	100	0	52	76	0	0	23	0.78
4060403--4060429	6	4.5	6	100	0	54	0	37	0	62	0.95
4063269--4063319	15	3.4	15	83	5	68	35	0	5	58	1.22
4063269--4063325	15	3.8	15	77	9	53	33	0	5	61	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4063315--4063364	25	2.0	26	85	14	70	48	0	0	52	1.00
4063331--4063369	17	2.3	17	90	0	60	48	0	0	51	1.00
4064151--4064192	20	2.0	21	86	13	61	57	0	0	42	0.99
4065263--4065309	23	2.2	21	79	17	53	63	0	12	23	1.28
4065860--4065889	2	15.0	2	100	0	60	50	0	0	50	1.00
4067985--4068044	3	20.0	3	100	0	120	66	0	0	33	0.92
4068361--4068397	19	1.9	19	88	0	56	43	0	2	54	1.14
4068374--4068406	13	2.6	13	90	4	50	42	0	0	57	0.98
4068374--4068413	12	3.2	13	89	6	57	42	0	0	57	0.98
4068378--4068424	13	3.1	17	68	28	50	44	0	0	55	0.99
4068380--4068463	30	2.8	29	87	1	114	41	2	1	54	1.21
4071069--4071095	2	13.5	2	100	0	54	48	0	0	51	1.00
4072761--4072791	3	10.7	3	93	6	55	32	0	0	67	0.91
4074201--4074291	32	2.8	32	81	6	96	45	1	1	52	1.15
4074194--4074259	16	4.1	17	69	21	52	45	1	1	51	1.19
4075245--4075275	2	15.5	2	100	0	62	0	48	0	51	1.00
4076001--4076029	2	14.5	2	100	0	58	48	0	0	51	1.00
4079515--4079811	147	2.0	147	100	0	594	35	16	18	28	1.93
4082696--4082735	16	2.6	16	85	14	57	55	5	0	40	1.22
4082804--4083131	165	2.0	166	88	1	489	24	20	14	40	1.90
4086297--4086360	32	2.0	33	87	3	94	29	14	14	42	1.84
4090752--4090780	2	14.5	2	100	0	58	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4094071--4094130	18	3.0	20	71	11	61	56	11	1	30	1.45
4098481--4098512	2	16.0	2	100	0	64	50	0	0	50	1.00
4103828--4103911	43	2.0	43	97	0	159	51	9	11	27	1.69
4105455--4105487	16	2.1	16	94	5	59	45	0	0	54	0.99
4105550--4105582	10	3.3	10	84	16	50	51	0	0	48	1.00
4106016--4106073	22	2.6	24	86	13	88	48	0	0	51	1.00
4106201--4106277	24	3.0	24	70	23	59	51	0	2	45	1.14
4106576--4106619	22	2.0	21	87	12	63	40	0	0	59	0.98
4107475--4107526	18	2.7	20	77	20	56	42	0	1	55	1.10
4107466--4107527	29	2.1	30	85	5	83	40	1	1	56	1.19

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