genome.fa.s16.2.7.7.80.10.50.1000.28.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: Scaffold16
Parameters: 2 7 7 80 10 50 1000
Length:  5287347

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   
          33   34   35   

This is table  28  of  35  ( 4175 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)
4023410--4023645	102	2.3	102	88	2	341	30	25	12	32	1.92
4023577--4023953	79	4.8	79	88	0	531	27	25	15	31	1.96
4023893--4023991	51	1.9	51	91	0	162	31	25	10	33	1.89
4030459--4030528	20	3.5	20	78	2	77	42	11	14	31	1.81
4030570--4030634	21	3.2	21	72	16	73	35	20	18	26	1.95
4032794--4032872	32	2.5	32	87	0	113	25	24	11	39	1.88
4033304--4033375	36	2.0	35	89	7	110	33	12	30	23	1.92
4044537--4044567	4	7.8	4	92	0	53	74	3	0	22	0.96
4046599--4046748	79	1.9	79	84	2	203	28	13	30	28	1.94
4046682--4046796	51	2.3	51	86	7	162	31	10	28	29	1.90
4046735--4047036	79	3.8	79	89	0	433	30	14	27	27	1.95
4046642--4046878	130	1.8	130	85	3	334	31	13	27	27	1.94
4046968--4047203	51	4.6	51	86	3	305	31	12	25	30	1.92
4049562--4049600	13	3.0	13	100	0	78	38	15	15	30	1.88
4049653--4049704	21	2.6	21	81	6	63	32	11	13	42	1.80
4052100--4052265	89	1.9	89	92	5	282	35	5	24	34	1.79
4052019--4052514	193	2.6	194	75	6	452	34	8	24	32	1.86
4053053--4053107	20	2.8	19	86	2	65	36	16	16	30	1.91
4054128--4054852	377	1.9	381	84	3	969	39	15	16	28	1.89
4056152--4056204	21	2.5	21	78	0	61	28	13	16	41	1.86
4057333--4057689	154	2.3	156	82	7	424	40	18	14	26	1.89
4059597--4059652	20	2.7	20	86	10	69	28	17	12	41	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4062068--4062405	79	4.3	78	79	5	367	28	23	11	35	1.91
4062066--4062390	157	2.1	158	84	4	433	28	23	12	34	1.92
4065887--4066199	80	3.9	80	76	7	294	27	27	10	34	1.90
4065887--4066243	160	2.2	159	79	5	375	28	26	10	34	1.89
4069512--4069573	27	2.3	27	80	0	70	32	12	25	29	1.93
4071776--4071813	20	1.9	20	88	0	58	50	10	13	26	1.73
4071730--4071865	51	2.6	51	83	1	155	43	13	15	27	1.84
4071894--4071953	20	2.9	21	78	12	61	28	13	16	41	1.86
4071919--4071972	20	2.7	20	82	8	56	29	12	14	42	1.83
4073429--4073491	21	3.0	21	76	0	63	28	34	3	33	1.73
4075545--4075599	20	2.7	21	86	8	78	25	12	12	49	1.76
4077942--4078253	79	3.9	79	78	6	301	28	23	11	36	1.90
4078134--4078330	107	1.8	107	79	6	229	28	25	11	34	1.90
4078321--4078600	80	3.5	79	76	11	259	31	24	9	34	1.88
4078241--4078474	131	1.8	130	81	11	302	28	26	10	33	1.90
4078453--4078627	80	2.2	80	80	6	194	29	25	11	33	1.91
4079850--4080092	108	2.3	107	80	4	265	30	19	11	38	1.87
4080466--4080542	39	2.0	39	92	0	127	28	7	12	50	1.68
4084564--4084588	13	1.9	13	100	0	50	40	20	16	24	1.91
4085465--4086440	60	16.0	60	87	4	1294	28	19	26	24	1.99
4085465--4086440	428	2.3	425	87	3	1426	28	19	26	24	1.99
4092718--4092803	43	2.0	43	86	4	120	32	11	27	27	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4092773--4092888	51	2.3	51	83	3	144	30	12	25	31	1.93
4092856--4093122	79	3.4	79	88	1	396	31	14	26	27	1.95
4093057--4093175	51	2.4	50	87	4	161	31	13	27	26	1.94
4093552--4093580	14	2.1	14	100	0	58	44	6	6	41	1.58
4095508--4095577	33	2.1	33	89	0	104	42	12	17	27	1.85
4095489--4095595	53	2.0	53	87	0	151	42	12	15	28	1.83
4095489--4095595	20	5.7	20	74	20	88	42	12	15	28	1.83
4100156--4100181	13	2.0	13	100	0	52	38	15	15	30	1.88
4102253--4102287	15	2.2	16	90	5	54	11	22	14	51	1.74
4106024--4106049	13	2.0	13	100	0	52	30	15	15	38	1.88
4106004--4106067	32	2.0	33	87	3	94	29	14	17	39	1.88
4114463--4114875	85	4.9	85	81	4	458	46	14	20	17	1.83
4114462--4114873	42	9.7	43	71	10	249	46	14	21	17	1.83
4114462--4114875	170	2.4	170	83	3	539	46	14	21	17	1.83
4114993--4115087	47	2.0	46	83	2	118	37	17	24	20	1.93
4115060--4115333	35	7.9	35	82	3	259	40	11	23	24	1.87
4115054--4115359	35	8.8	35	80	4	253	41	11	22	24	1.87
4115078--4115327	138	1.8	138	83	3	333	41	11	22	24	1.87
4115842--4116094	89	2.9	88	86	2	355	28	11	28	31	1.92
4116714--4117039	110	2.9	111	82	6	365	39	12	15	32	1.85
4116752--4117039	112	2.6	109	82	4	326	39	11	15	32	1.84
4117299--4117332	16	2.1	16	88	0	50	2	20	0	76	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4117641--4117673	14	2.3	15	89	5	50	0	12	3	84	0.72
4117642--4117688	22	2.1	23	88	4	69	0	12	6	80	0.88
4121567--4122040	153	3.1	151	80	7	467	39	18	16	25	1.91
4123890--4123922	14	2.3	15	94	5	59	63	0	3	33	1.10
4125591--4125644	20	2.7	20	88	2	81	37	7	18	37	1.79
4126049--4126102	20	2.7	20	88	2	81	37	7	18	37	1.79
4125294--4126233	458	2.1	458	96	0	1745	34	13	18	33	1.90
4135152--4135226	20	3.8	20	92	1	107	32	17	18	32	1.94
4137765--4138035	97	2.8	97	81	5	323	29	22	12	36	1.90
4137765--4138049	98	2.9	98	80	4	335	28	23	11	36	1.90
4139254--4139308	20	2.8	20	88	5	76	40	14	14	30	1.86
4139361--4139425	33	2.0	33	84	6	87	41	18	12	27	1.86
4144941--4145020	20	3.8	20	70	15	70	28	13	16	41	1.86
4145007--4145044	13	2.9	13	88	11	60	31	18	18	31	1.95
4147483--4147537	20	2.8	20	88	5	76	40	14	14	30	1.86
4147590--4147654	33	2.0	33	84	6	87	41	18	12	27	1.86
4149650--4149700	20	2.5	21	83	6	68	49	9	11	29	1.72
4149760--4149838	41	1.9	41	84	5	106	29	18	15	36	1.92
4151479--4151553	20	3.7	20	83	1	87	44	10	13	32	1.78
4153298--4153633	109	3.1	107	76	5	343	28	24	13	33	1.93
4153588--4153640	28	2.0	27	85	7	72	22	30	16	30	1.96
4155148--4155203	20	2.8	20	83	8	78	35	16	14	33	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4155148--4155199	19	2.7	20	90	3	79	36	15	15	32	1.89
4155184--4155210	13	2.1	13	100	0	54	40	14	14	29	1.86
4155165--4155229	32	2.0	33	87	3	96	40	12	16	30	1.86
4155622--4155658	18	2.1	18	94	0	65	35	16	8	40	1.78
4163925--4163978	20	2.7	20	91	5	83	35	18	12	33	1.89
4164006--4164063	19	3.1	18	88	11	89	32	17	15	34	1.91
4164047--4164071	13	1.9	13	100	0	50	36	16	16	32	1.90
4170894--4171103	32	6.7	33	86	5	230	21	18	29	30	1.97
4170857--4171061	64	3.2	64	85	6	274	20	19	28	31	1.97
4170857--4171061	96	2.1	95	84	4	270	20	19	28	31	1.97
4170933--4171362	28	14.9	27	79	7	304	23	16	28	31	1.96
4171031--4171348	84	3.8	84	83	3	370	23	16	26	32	1.96
4171289--4171794	27	18.3	27	83	2	472	29	15	30	25	1.95
4171294--4171796	55	9.1	55	83	7	515	30	14	30	24	1.95
4171294--4171796	82	6.0	82	83	3	560	30	14	30	24	1.95
4171746--4171868	34	3.6	34	92	2	203	37	9	27	25	1.87
4175645--4175712	19	3.9	19	78	21	85	35	11	14	38	1.83
4175666--4175690	13	1.9	13	100	0	50	36	16	16	32	1.90
4175647--4175709	32	2.0	32	96	0	117	34	12	15	36	1.86
4177686--4177714	12	2.4	12	100	0	58	31	13	0	55	1.39
4178197--4178272	27	2.8	28	89	2	109	23	34	21	21	1.97
4178255--4178476	52	4.3	53	82	5	229	31	25	10	32	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4178257--4178476	105	2.1	103	82	3	253	31	25	9	32	1.88
4178460--4178536	28	2.8	28	85	0	91	23	32	19	24	1.97
4178490--4178696	81	2.6	79	82	1	225	24	29	16	29	1.96
4187195--4187288	50	1.9	50	89	4	147	40	22	15	21	1.91
4188460--4188604	27	5.1	29	72	12	99	25	24	13	36	1.92
4188428--4188557	57	2.3	57	81	5	138	27	26	13	32	1.93
4188406--4188558	29	5.3	28	72	9	103	28	26	13	32	1.93
4188437--4188590	84	1.8	84	84	5	213	27	25	13	33	1.94
4188437--4188604	27	6.0	27	69	7	84	26	25	13	33	1.93
4188601--4188714	45	2.5	46	85	4	151	18	27	11	42	1.84

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   
          33   34   35