genome.fa.s89.2.7.7.80.10.50.1000.24.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: Scaffold89
Parameters: 2 7 7 80 10 50 1000
Length:  5168001

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  ( 3236 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)
4115159--4115192	17	1.9	17	88	5	50	26	2	0	70	1.01
4115157--4115208	20	2.8	18	78	21	54	28	1	1	67	1.12
4115925--4116065	29	4.7	29	76	11	124	57	0	3	38	1.21
4118341--4118380	19	2.0	20	86	13	57	72	2	0	25	0.97
4119570--4119605	18	1.9	19	88	5	56	47	2	8	41	1.48
4121586--4121614	14	2.0	15	93	6	51	37	0	0	62	0.96
4121683--4121762	28	2.9	28	83	3	92	36	1	12	50	1.48
4121716--4121807	7	12.7	7	73	17	55	42	0	11	45	1.41
4121703--4121844	21	7.0	21	72	15	86	42	1	9	46	1.46
4121717--4121844	14	9.5	13	68	26	63	43	1	9	45	1.45
4122614--4122649	16	2.2	16	90	5	54	44	0	0	55	0.99
4125679--4125706	2	14.0	2	100	0	56	50	0	0	50	1.00
4126047--4126091	22	2.0	21	84	16	56	42	2	0	55	1.12
4126571--4126606	18	1.9	19	88	5	56	66	0	11	22	1.22
4126789--4126843	12	4.7	12	75	11	51	52	0	0	47	1.00
4126818--4126843	13	2.0	13	100	0	52	46	0	0	53	1.00
4126813--4126860	23	2.1	23	85	14	64	47	2	0	50	1.12
4126856--4126895	18	2.3	17	87	12	55	60	0	0	40	0.97
4131697--4131763	27	2.5	27	79	13	75	35	0	0	64	0.94
4131840--4131897	24	2.4	24	77	8	64	43	0	0	56	0.99
4136975--4137056	30	2.8	29	81	7	103	37	3	1	57	1.24
4138073--4138097	12	2.1	12	100	0	50	92	0	0	8	0.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4138540--4138586	22	2.1	22	84	7	60	42	0	8	48	1.33
4138765--4138868	29	3.6	29	81	7	122	55	0	3	39	1.24
4144134--4144162	14	2.0	15	93	6	51	37	0	0	62	0.96
4144340--4144402	21	3.0	20	70	25	58	41	3	6	49	1.44
4146395--4146452	29	2.0	30	82	3	73	39	1	0	58	1.08
4150634--4150738	36	2.9	35	64	22	90	22	11	16	49	1.77
4150592--4150738	73	2.0	73	97	0	276	22	12	16	48	1.79
4150596--4150712	39	3.1	39	65	20	104	21	13	15	49	1.79
4171470--4171544	38	2.0	37	89	7	116	22	12	14	50	1.76
4171548--4171579	2	16.0	2	100	0	64	0	50	0	50	1.00
4171579--4171607	2	14.5	2	100	0	58	48	0	0	51	1.00
4178172--4178386	118	1.8	119	81	3	272	40	9	6	43	1.65
4178872--4178977	23	4.7	23	68	18	78	39	0	0	59	1.04
4178871--4179009	16	9.2	16	70	18	79	40	2	0	57	1.11
4178892--4178942	18	2.8	18	79	8	59	45	1	0	52	1.12
4178911--4178977	30	2.2	31	83	5	82	40	1	0	58	1.07
4178878--4178974	14	7.1	14	69	20	62	40	1	0	58	1.05
4178928--4178999	14	5.2	14	73	20	53	41	2	0	55	1.14
4179287--4179329	16	2.8	15	83	13	52	51	0	0	48	1.00
4188497--4188532	2	18.5	2	94	5	65	50	0	0	50	1.00
4190063--4190118	29	2.0	29	86	10	80	62	1	0	35	1.06
4190076--4190133	27	2.1	28	84	9	75	62	6	0	31	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4192013--4192061	3	17.0	3	91	8	84	67	0	0	32	0.91
4192538--4192584	16	3.1	16	80	14	55	61	0	0	38	0.96
4199259--4199288	2	15.0	2	100	0	60	50	0	0	50	1.00
4200277--4200317	14	3.0	14	80	16	50	53	0	0	46	1.00
4200420--4200446	13	2.1	13	100	0	54	40	22	0	37	1.54
4204835--4204864	6	5.0	6	95	0	51	0	16	13	70	1.18
4212427--4212499	17	4.4	17	72	14	55	30	0	0	69	0.88
4212917--4212985	2	34.5	2	94	0	120	49	2	0	47	1.16
4218748--4218791	19	2.1	22	84	16	58	45	2	0	52	1.13
4226867--4226891	13	1.9	13	100	0	50	64	0	0	36	0.94
4226935--4226987	16	3.1	16	89	8	70	35	0	1	62	1.06
4228255--4228291	11	3.5	11	82	17	51	83	2	0	13	0.74
4228572--4228602	2	15.0	2	93	6	53	48	3	0	48	1.17
4235040--4235074	2	17.5	2	93	0	61	48	2	0	48	1.16
4236652--4236688	2	18.5	2	100	0	74	51	0	0	48	1.00
4239671--4239711	21	2.0	21	85	0	55	24	26	17	31	1.97
4245885--4245912	2	14.0	2	100	0	56	50	0	0	50	1.00
4246594--4246628	2	17.5	2	100	0	70	0	48	0	51	1.00
4246736--4246761	11	2.4	11	100	0	52	73	0	0	26	0.84
4247237--4247289	18	2.9	17	83	10	61	64	0	1	33	1.05
4250560--4250608	2	24.5	2	100	0	98	0	48	0	51	1.00
4258201--4258249	24	2.0	24	96	0	89	22	4	22	51	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4258525--4258551	10	2.7	10	100	0	54	59	11	7	22	1.56
4259147--4259181	16	2.2	16	90	5	54	48	5	5	40	1.51
4259328--4259361	15	2.2	16	94	5	61	58	0	0	41	0.98
4269331--4269375	2	22.5	2	95	0	81	48	2	0	48	1.13
4270585--4270679	25	3.8	25	93	4	149	45	25	8	21	1.79
4270585--4270707	50	2.4	51	82	9	153	45	25	8	20	1.80
4270585--4270679	49	1.9	49	89	6	147	45	25	8	21	1.79
4270587--4270732	25	5.7	25	84	7	132	45	25	7	21	1.77
4270664--4270734	27	2.6	27	88	6	99	46	23	7	22	1.76
4270587--4270736	53	2.9	50	78	9	151	46	25	7	20	1.76
4272221--4272275	21	2.6	21	91	2	92	20	23	12	43	1.86
4275225--4275351	27	4.9	25	78	12	105	46	24	7	21	1.77
4275227--4275349	25	4.7	27	82	8	105	45	25	7	21	1.77
4275227--4275352	24	4.9	24	73	16	83	46	24	7	22	1.77
4275607--4275646	2	20.0	2	100	0	80	50	0	0	50	1.00
4275962--4276620	170	4.0	165	89	6	987	39	18	18	23	1.92
4275962--4276614	326	2.0	330	92	2	1098	39	18	18	23	1.92
4276969--4277010	14	2.9	14	86	10	50	59	16	0	23	1.37
4277716--4277762	23	2.0	23	100	0	94	44	17	12	25	1.84
4280951--4280994	2	23.0	2	90	9	74	50	0	0	50	1.00
4285478--4285574	45	2.1	44	80	10	106	53	4	0	42	1.20
4286254--4286283	14	2.1	14	100	0	60	43	0	13	43	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4286785--4286877	24	3.7	26	73	16	81	48	2	0	49	1.13
4286830--4286871	22	1.9	22	85	9	59	50	2	0	47	1.14
4287012--4287046	2	18.0	2	94	5	63	48	0	0	51	1.00
4289469--4289531	27	2.6	23	74	16	65	49	0	0	50	1.00
4302533--4302563	2	16.0	2	93	6	55	48	0	0	51	1.00
4302701--4302734	17	1.9	18	88	5	52	41	0	2	55	1.15
4302731--4302786	14	4.2	13	76	13	51	30	1	1	66	1.12
4302751--4302848	47	2.1	46	83	9	119	41	1	0	57	1.05
4302858--4302927	11	6.0	11	73	12	59	32	1	0	65	1.01
4302858--4302950	48	2.0	46	87	8	134	33	1	0	65	1.00
4302861--4302949	36	2.5	36	79	13	105	31	1	0	67	0.98
4302861--4302944	12	7.2	11	70	23	57	30	1	0	67	0.98
4304000--4304034	16	2.1	18	89	10	56	65	0	0	34	0.93
4304150--4304192	20	2.1	21	86	4	61	60	0	0	39	0.97
4305004--4305044	2	20.5	2	100	0	82	48	0	0	51	1.00
4305578--4305649	22	3.2	21	75	15	56	56	0	0	43	0.99
4305621--4305675	17	3.6	15	76	11	58	52	0	0	47	1.00
4308240--4308299	17	3.7	17	76	10	63	65	3	5	26	1.29
4308261--4308313	17	3.1	17	76	13	54	64	1	3	30	1.22
4318860--4318948	46	1.9	46	100	0	178	43	0	12	43	1.42
4318981--4319036	28	2.2	26	81	12	62	35	0	1	62	1.06
4322189--4322243	20	2.8	20	88	5	76	40	12	14	32	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4323802--4323833	14	2.3	14	100	0	64	34	6	6	53	1.51
4332335--4332379	3	14.7	3	90	4	72	66	2	2	28	1.15
4334801--4334865	31	2.1	31	97	0	121	21	21	10	46	1.82
4338228--4338256	2	15.0	2	92	7	51	51	0	0	48	1.00
4342480--4342515	12	2.9	12	91	4	54	44	2	8	44	1.48
4349474--4349501	2	14.0	2	100	0	56	50	0	0	50	1.00
4349900--4350335	145	3.0	145	82	6	401	33	24	13	27	1.93
4351791--4351850	23	2.6	23	78	5	59	43	1	1	53	1.20
4351887--4351924	2	19.0	2	94	0	67	47	0	0	52	1.00
4352545--4352574	2	15.0	2	100	0	60	50	0	0	50	1.00

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