genome.fa.s106.2.7.7.80.10.50.1000.24.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: Scaffold106
Parameters: 2 7 7 80 10 50 1000
Length:  4928209

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  24  of  27  ( 3135 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)
4119820--4119897	5	16.4	5	70	21	53	35	0	0	64	0.94
4119819--4119892	30	2.4	30	82	14	82	35	0	0	64	0.94
4119834--4119906	17	4.2	19	83	10	77	39	0	0	60	0.97
4119819--4119907	36	2.3	42	84	13	118	37	0	0	62	0.95
4119834--4119906	18	4.2	17	75	16	69	39	0	0	60	0.97
4120057--4120103	14	3.5	15	75	24	59	44	0	0	55	0.99
4120037--4120094	19	2.9	21	73	23	61	44	1	0	53	1.10
4124737--4124775	6	6.2	6	85	8	51	69	2	0	28	1.02
4124737--4124775	13	3.1	12	82	10	51	69	2	0	28	1.02
4129386--4129424	2	19.5	2	94	0	69	46	0	0	53	1.00
4130551--4130594	20	2.4	17	82	14	52	47	0	4	47	1.22
4131962--4132001	21	2.0	19	85	9	53	35	2	5	57	1.34
4133415--4133453	20	1.9	21	94	5	71	69	2	0	28	1.02
4133508--4133587	21	3.8	21	79	14	92	43	0	0	56	0.99
4133508--4133609	43	2.4	43	79	8	111	46	0	0	53	1.00
4133554--4133609	29	2.0	27	82	6	67	46	0	0	53	1.00
4134765--4134790	2	13.0	2	100	0	52	50	50	0	0	1.00
4139927--4140048	39	2.8	44	72	16	121	22	22	19	34	1.97
4142509--4142581	34	2.1	37	87	7	107	16	12	9	61	1.56
4142856--4142890	18	1.9	18	100	0	70	48	11	22	17	1.79
4143273--4143400	64	2.0	64	93	0	220	28	17	19	33	1.95
4146320--4146395	21	3.7	21	85	5	102	36	0	0	63	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4146344--4146401	27	2.1	27	81	12	66	37	0	0	62	0.96
4149262--4149341	33	2.7	29	77	19	83	53	2	0	43	1.14
4149274--4149317	24	1.9	22	86	9	61	56	0	0	43	0.99
4153366--4153446	9	8.7	9	70	8	54	58	0	2	39	1.12
4159008--4159100	13	6.6	14	69	24	54	41	1	2	54	1.19
4159148--4159191	24	1.9	23	82	17	56	38	0	6	54	1.27
4163883--4163925	22	2.0	22	95	0	77	37	11	18	32	1.87
4166402--4166437	6	6.0	6	93	0	63	16	36	0	47	1.47
4167482--4167512	7	4.4	7	95	0	53	22	0	29	48	1.51
4180783--4180809	2	13.5	2	100	0	54	48	0	0	51	1.00
4182199--4182227	13	2.2	13	100	0	58	93	0	6	0	0.36
4188293--4188326	16	2.3	15	90	10	52	23	11	0	64	1.26
4188681--4188803	59	2.1	57	80	10	133	49	0	0	50	1.00
4188737--4188785	18	2.7	19	72	27	52	51	0	0	48	1.00
4190865--4190899	2	17.5	2	100	0	70	51	48	0	0	1.00
4196908--4196946	15	2.5	15	87	4	51	23	0	2	74	0.94
4197021--4197091	29	2.4	30	81	11	85	60	1	0	38	1.06
4197002--4197092	45	2.0	47	80	8	107	61	2	0	36	1.08
4197062--4197099	20	1.9	20	94	0	67	60	2	0	36	1.11
4197990--4198035	20	2.2	22	88	7	69	54	0	0	45	0.99
4209362--4209428	26	2.4	28	82	7	75	53	1	1	43	1.19
4210466--4210502	11	3.4	11	88	0	56	37	8	8	45	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4212662--4212686	8	3.1	8	100	0	50	16	0	0	84	0.63
4212643--4212730	31	2.6	34	84	7	110	34	0	0	65	0.93
4212647--4212730	34	2.6	32	83	7	98	35	0	0	64	0.94
4213111--4213164	19	2.8	20	81	15	62	61	0	0	38	0.96
4213599--4213629	2	15.5	2	93	0	53	54	0	0	45	0.99
4214058--4214113	19	3.1	19	87	5	71	48	3	0	48	1.19
4214293--4214327	2	17.5	2	93	0	61	45	0	2	51	1.16
4219537--4219589	2	26.5	2	86	7	72	50	3	0	45	1.19
4219744--4219794	11	4.6	11	75	18	52	47	0	0	52	1.00
4222256--4222291	2	18.0	2	94	0	63	47	0	2	50	1.15
4233538--4233582	23	2.0	22	91	8	74	31	22	11	35	1.89
4235220--4235270	27	2.0	27	84	7	70	56	0	0	43	0.99
4235462--4235498	15	2.5	15	95	0	65	43	5	10	40	1.63
4240071--4240100	2	15.0	2	100	0	60	50	0	0	50	1.00
4245322--4245365	21	2.1	20	84	16	54	36	0	0	63	0.95
4260554--4260688	65	2.1	64	97	1	252	13	14	14	57	1.67
4263020--4263064	2	23.0	2	81	4	56	48	4	0	46	1.22
4263020--4263061	16	2.7	16	92	3	68	50	4	0	45	1.23
4264731--4264784	27	2.0	27	100	0	108	37	3	11	48	1.57
4264915--4264953	2	19.5	2	89	0	60	51	5	0	43	1.24
4269967--4270008	22	1.9	22	85	9	59	54	0	2	42	1.13
4270120--4270155	2	18.0	2	94	0	63	47	0	2	50	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4275428--4275504	38	2.0	38	97	0	145	33	7	19	38	1.81
4276439--4276463	7	3.6	7	100	0	50	88	0	12	0	0.53
4277665--4277702	15	2.5	15	83	8	51	63	0	0	36	0.95
4277857--4277902	3	15.3	3	95	0	83	65	0	2	32	1.05
4280076--4280130	9	5.9	9	75	8	56	43	1	0	54	1.10
4280435--4280475	21	2.0	21	85	0	55	51	2	2	43	1.28
4280472--4280539	21	3.2	22	75	19	65	48	0	0	51	1.00
4280698--4280729	2	16.0	2	100	0	64	50	0	0	50	1.00
4285951--4285990	20	2.0	20	85	4	55	45	0	0	55	0.99
4285962--4286047	33	2.6	32	83	5	91	48	0	0	51	1.00
4285962--4286047	32	2.6	32	81	5	100	48	0	0	51	1.00
4285961--4286049	17	5.4	17	68	17	62	47	0	0	52	1.00
4291993--4292040	2	24.0	2	100	0	96	50	0	0	50	1.00
4292566--4292639	27	2.8	28	78	11	77	58	0	1	40	1.07
4292543--4292605	19	3.3	19	80	8	74	53	0	0	46	1.00
4295114--4295167	27	2.0	27	88	0	81	31	22	11	35	1.89
4302497--4302529	3	11.0	3	100	0	66	66	0	0	33	0.92
4303835--4303910	18	4.1	18	74	16	66	35	0	0	64	0.94
4303829--4303910	29	2.8	29	78	19	91	37	0	0	62	0.96
4304014--4304083	29	2.4	29	100	0	140	42	0	0	57	0.99
4312573--4312603	16	1.9	16	93	0	53	51	0	0	48	1.00
4315187--4315249	23	2.5	26	80	12	78	36	0	1	61	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4315188--4315243	26	2.2	26	87	6	78	37	0	1	60	1.07
4315203--4315233	16	1.9	16	93	0	53	38	0	3	58	1.15
4315187--4315251	13	5.2	13	75	20	59	38	0	1	60	1.07
4315384--4315498	32	3.7	32	76	4	119	38	5	4	52	1.44
4316253--4316428	86	2.1	85	83	3	219	38	15	16	29	1.89
4317534--4317616	18	4.3	19	74	17	73	44	1	0	54	1.08
4317529--4317640	19	5.7	19	73	15	95	43	0	0	55	1.05
4317569--4317650	32	2.6	33	81	9	100	43	1	0	54	1.07
4317529--4317664	40	3.4	39	76	9	123	42	1	0	55	1.08
4317633--4317716	23	3.8	22	76	6	71	35	3	1	59	1.22
4317631--4317698	21	2.8	24	80	14	70	35	1	0	63	1.04
4322948--4322978	15	2.1	15	93	0	53	54	0	0	45	0.99
4333652--4333697	16	2.8	17	80	12	60	54	4	0	41	1.20
4342517--4342553	18	2.1	18	89	0	56	37	2	0	59	1.12
4343071--4343112	2	21.0	2	100	0	84	50	0	0	50	1.00
4343114--4343143	2	15.0	2	100	0	60	0	0	50	50	1.00
4359229--4359276	21	2.3	21	89	7	71	39	10	0	50	1.37
4360396--4360448	15	3.6	14	80	12	54	54	3	0	41	1.18
4360396--4360446	14	3.5	14	76	15	50	54	3	0	41	1.19
4363073--4363122	22	2.5	20	78	15	59	48	0	0	52	1.00
4365666--4365820	33	4.7	33	83	3	170	47	10	34	6	1.64
4368804--4368842	21	1.9	21	85	15	55	71	5	12	10	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4382423--4382457	2	17.5	2	93	0	61	45	0	0	54	0.99
4385624--4385658	3	12.0	3	87	6	54	31	0	0	68	0.90
4385158--4390899	280	20.4	280	98	0	10933	33	12	13	40	1.83
4385907--4385941	3	12.0	3	87	6	54	31	0	0	68	0.90
4386470--4386504	3	12.0	3	87	6	54	31	0	0	68	0.90
4386753--4386787	3	12.0	3	87	6	54	31	0	0	68	0.90
4385158--4390899	846	6.8	843	98	0	10999	33	12	13	40	1.83
4387036--4387070	3	12.0	3	87	6	54	31	0	0	68	0.90
4387599--4387633	3	12.0	3	87	6	54	31	0	0	68	0.90
4389555--4389589	3	12.0	3	87	6	54	31	0	0	68	0.90

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