genome.fa.s66.2.7.7.80.10.50.1000.25.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: Scaffold66
Parameters: 2 7 7 80 10 50 1000
Length:  4623749

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   

This is table  25  of  26  ( 3105 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)
4358759--4358859	49	2.1	49	87	7	143	37	19	2	39	1.67
4359407--4359461	28	1.9	28	85	3	74	23	25	12	38	1.90
4359910--4359966	22	2.6	22	88	0	78	36	8	22	31	1.85
4360000--4360024	13	1.9	13	100	0	50	36	16	16	32	1.90
4360200--4360238	19	2.0	20	85	5	53	43	10	10	35	1.73
4361806--4361844	13	3.0	13	92	0	69	35	15	15	33	1.89
4363108--4363162	21	2.6	22	78	21	64	21	23	1	52	1.56
4364728--4364822	36	2.9	32	81	15	115	31	24	12	31	1.92
4365263--4365341	22	3.6	22	96	0	149	37	12	22	26	1.90
4366183--4366227	23	2.0	23	95	0	81	26	20	28	24	1.99
4367377--4367415	10	3.5	11	82	10	53	38	0	0	61	0.96
4367403--4367453	25	2.0	25	100	0	102	47	0	3	49	1.20
4368018--4368098	13	6.0	13	76	20	69	48	0	0	51	1.00
4368028--4368067	12	3.5	11	87	12	55	42	0	0	57	0.98
4368066--4368166	39	2.6	40	77	13	104	52	0	0	46	1.07
4368698--4368732	18	1.9	18	88	11	54	22	2	2	71	1.13
4369727--4369777	26	2.0	26	84	7	68	64	1	3	29	1.22
4370895--4370929	3	12.0	3	87	6	54	0	34	2	62	1.10
4371502--4371537	3	11.7	3	88	5	54	36	2	0	61	1.11
4372319--4372370	21	2.5	22	71	9	54	46	3	3	46	1.39
4372778--4372823	18	2.5	19	86	10	60	36	10	10	41	1.75
4373889--4373945	28	2.2	25	84	9	69	54	0	0	45	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4374246--4374311	22	3.0	22	72	26	59	50	4	0	45	1.22
4374461--4374502	20	2.2	20	83	8	52	42	2	0	54	1.13
4376470--4376501	1	32.0	1	93	0	55	96	0	3	0	0.20
4379977--4380001	8	3.1	8	100	0	50	52	0	0	48	1.00
4380627--4380682	27	2.1	27	83	6	69	53	1	0	44	1.11
4380804--4380855	24	2.2	24	83	13	63	1	15	1	80	0.88
4380804--4380856	16	3.4	15	80	12	54	1	16	1	79	0.92
4381462--4381505	22	2.0	21	86	8	61	68	6	0	25	1.14
4381714--4381742	12	2.3	13	88	11	51	75	0	0	24	0.80
4381761--4381803	14	3.2	14	74	12	54	69	2	0	27	1.00
4381773--4381861	37	2.5	35	75	17	85	64	1	0	34	1.01
4382063--4382146	19	4.2	19	74	22	66	59	2	2	35	1.23
4382874--4382931	27	2.2	27	84	3	73	32	5	3	58	1.37
4383153--4383195	20	2.0	22	86	8	63	51	0	6	41	1.29
4385939--4385972	16	2.1	16	94	0	59	41	2	0	55	1.15
4386207--4386265	29	2.0	30	83	9	77	66	1	3	28	1.18
4386241--4386327	17	4.9	18	75	10	65	57	2	0	40	1.11
4386270--4386364	17	6.1	16	71	23	62	56	2	0	41	1.11
4386313--4386385	11	6.6	11	70	17	62	63	0	0	36	0.95
4386313--4386385	20	3.6	21	71	21	66	63	0	0	36	0.95
4386437--4386471	6	5.8	6	89	0	52	22	0	77	0	0.78
4387050--4387096	2	23.5	2	86	0	67	46	2	4	46	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4387149--4387195	16	2.8	18	78	15	55	68	0	2	29	1.02
4387155--4387195	16	2.5	17	84	4	57	68	0	2	29	1.03
4387152--4387195	11	4.1	11	83	13	56	68	0	2	29	1.02
4387152--4387193	21	2.0	20	86	13	59	69	0	2	28	1.01
4390980--4391025	19	2.4	20	89	7	69	65	0	0	34	0.93
4390991--4391026	9	3.8	10	89	10	58	63	0	0	36	0.94
4392639--4392789	68	2.2	69	91	1	250	37	6	21	33	1.80
4392707--4393684	97	10.1	96	85	4	1191	34	10	23	31	1.89
4392742--4393690	291	3.3	289	88	3	1336	34	10	23	30	1.89
4393648--4393711	27	2.4	27	97	0	119	23	14	37	25	1.92
4393554--4393808	124	2.1	122	84	6	327	32	11	25	30	1.91
4393675--4393902	97	2.3	95	88	7	341	32	13	25	28	1.93
4395362--4395415	28	1.9	28	88	0	81	9	14	16	59	1.60
4396086--4396137	20	2.6	20	96	0	95	40	9	17	32	1.82
4397583--4397617	8	4.5	8	89	3	54	77	0	8	14	0.99
4399634--4399688	22	2.4	23	79	14	60	49	0	0	50	1.00
4400120--4400158	10	3.8	10	83	6	51	43	0	0	56	0.99
4400149--4400199	16	3.1	17	81	15	63	39	0	0	60	0.97
4400160--4400234	29	2.6	29	72	19	66	42	1	0	56	1.08
4400188--4400270	41	2.0	42	84	15	109	42	1	0	56	1.07
4401723--4401763	22	1.9	21	85	14	57	41	2	2	53	1.27
4403203--4403242	21	2.0	19	85	9	53	70	0	0	30	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4404524--4404548	13	1.9	13	100	0	50	32	16	16	36	1.90
4404504--4404568	33	2.0	33	90	6	105	33	15	15	35	1.89
4404599--4404655	19	3.0	20	84	7	82	35	14	17	33	1.90
4405204--4405310	42	2.6	41	85	7	144	33	19	6	40	1.78
4405283--4405326	22	2.0	22	91	4	72	34	25	4	36	1.76
4406684--4406758	21	3.7	20	74	12	62	48	0	18	33	1.49
4411392--4411421	3	10.0	3	92	0	51	30	33	0	36	1.58
4413024--4413048	13	1.9	13	100	0	50	32	16	16	36	1.90
4413004--4413068	33	2.0	33	81	6	78	35	15	13	35	1.87
4413099--4413155	19	3.0	20	82	7	73	35	12	17	35	1.87
4413120--4413184	33	2.0	33	87	3	96	41	12	16	29	1.85
4413292--4413343	21	2.4	22	84	9	63	44	9	7	38	1.66
4414743--4414778	18	2.0	18	100	0	72	33	16	16	33	1.92
4426824--4426935	55	2.1	55	91	5	183	37	12	13	36	1.82
4428103--4428185	35	2.3	35	83	6	96	26	13	15	44	1.83
4429420--4429618	58	3.4	58	75	4	220	42	17	15	24	1.87
4429408--4429620	118	1.8	116	88	2	327	42	17	15	24	1.88
4429408--4429664	118	2.2	116	83	2	318	43	16	14	25	1.85
4429792--4429904	58	1.9	59	85	5	158	47	12	12	27	1.77
4429913--4430131	58	3.8	57	76	8	201	48	13	10	27	1.75
4431387--4431461	21	3.6	21	74	3	71	36	13	14	36	1.85
4432060--4432109	16	3.1	16	85	5	66	42	18	2	38	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4432222--4432270	16	3.1	16	74	11	55	36	14	14	34	1.86
4433712--4433775	19	3.1	21	86	10	80	73	0	26	0	0.84
4433712--4433775	14	4.8	13	76	17	60	73	0	26	0	0.84
4436331--4436457	49	2.5	51	88	6	179	28	16	11	44	1.82
4441199--4441319	35	3.6	35	91	4	178	28	23	15	32	1.95
4441793--4441818	13	2.0	13	100	0	52	38	15	15	30	1.88
4441715--4442169	250	1.8	250	96	0	847	34	13	15	36	1.87
4447567--4447626	31	2.0	31	86	3	86	30	21	15	33	1.94
4448067--4448123	21	2.8	21	94	2	98	36	17	10	35	1.84
4448168--4448232	33	2.0	33	90	0	103	36	15	15	32	1.89
4452339--4452370	15	2.1	15	94	0	55	34	37	6	21	1.79
4452641--4452999	91	4.0	91	81	4	379	25	30	12	31	1.92
4452559--4452999	121	3.7	120	82	6	461	25	31	11	31	1.91
4452549--4452999	31	15.1	30	78	5	378	25	30	11	31	1.91
4452979--4453283	32	9.6	32	79	5	289	30	31	17	21	1.96
4452988--4453298	65	4.9	64	81	5	346	30	31	17	20	1.95
4453397--4453666	52	5.2	51	75	5	202	25	22	15	36	1.93
4453594--4453755	84	1.9	84	84	0	216	24	24	17	33	1.96
4453538--4453792	136	1.9	136	82	1	323	24	24	16	34	1.95
4453496--4453845	188	1.9	187	82	1	441	25	25	15	34	1.95
4453678--4453858	52	3.5	52	82	0	209	24	25	16	33	1.95
4453678--4453878	104	1.9	104	80	2	233	24	24	14	35	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4458302--4458355	21	2.6	21	96	0	99	33	14	7	44	1.73
4459059--4459225	52	3.2	52	81	5	158	38	14	20	25	1.91
4459148--4459347	52	3.9	50	81	8	197	37	16	22	24	1.93
4459420--4459514	32	2.9	32	85	4	129	24	16	29	29	1.97
4459396--4459500	32	3.3	33	85	4	135	21	16	31	30	1.95
4459498--4459862	27	12.2	27	70	17	122	40	11	25	22	1.88
4459556--4460412	33	27.4	32	71	14	446	39	12	26	21	1.88
4459504--4460425	60	15.0	59	73	12	361	39	12	26	21	1.89
4459615--4459721	34	3.1	34	77	9	119	46	9	23	20	1.79
4459989--4460043	28	2.0	28	89	3	85	30	12	29	27	1.93

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