genome.fa.s196.2.7.7.80.10.50.1000.32.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: Scaffold196
Parameters: 2 7 7 80 10 50 1000
Length:  7488280

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   36   37   38   39   40   41   42   43   44   45   46   47   

This is table  32  of  47  ( 5587 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)
5228205--5228409	107	1.9	107	83	5	261	26	27	16	29	1.96
5228284--5228485	78	2.6	79	83	2	237	24	30	16	28	1.97
5229767--5229805	18	2.1	19	95	4	71	53	0	33	12	1.39
5237525--5237697	77	2.2	78	86	2	231	37	14	20	27	1.92
5237564--5237886	79	4.2	79	77	7	270	32	13	25	28	1.94
5245183--5245395	105	2.0	105	97	0	399	40	8	14	35	1.77
5247137--5247189	20	2.5	22	76	8	58	33	1	0	64	1.05
5252511--5252568	21	2.8	20	82	7	71	37	13	0	48	1.43
5252514--5252575	21	3.0	20	81	6	70	35	11	1	51	1.47
5252880--5252910	16	2.0	15	93	6	53	35	0	0	64	0.94
5253465--5253499	15	2.4	14	86	13	52	82	0	2	14	0.77
5255404--5255429	5	5.2	5	100	0	52	19	0	0	80	0.71
5267331--5267396	33	2.0	33	85	5	89	39	15	15	30	1.88
5268097--5268765	49	13.9	49	76	10	558	31	15	26	26	1.96
5268096--5268765	198	3.5	197	78	7	687	31	15	26	26	1.96
5268093--5268765	101	7.0	100	77	10	528	31	15	26	26	1.96
5268444--5268614	88	2.0	88	90	1	272	28	18	26	26	1.98
5268636--5268771	43	3.0	43	79	12	182	31	16	25	25	1.97
5268093--5268757	247	2.8	230	80	9	617	31	15	26	26	1.96
5268532--5268771	92	2.5	94	83	6	279	30	16	26	26	1.97
5268812--5268877	27	2.5	26	85	4	80	33	10	28	27	1.90
5268917--5269034	27	4.2	27	77	10	121	20	16	31	32	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5269392--5269476	37	2.3	37	95	0	152	41	15	16	27	1.88
5269793--5270330	270	2.0	271	99	0	1069	22	15	24	36	1.94
5270770--5270805	8	4.6	8	89	3	56	0	0	13	86	0.58
5270770--5270807	19	1.9	20	89	10	60	0	0	13	86	0.56
5281746--5282140	199	2.0	199	93	1	675	27	22	23	26	2.00
5289188--5289228	22	2.0	21	86	13	59	43	7	9	39	1.65
5289593--5289646	19	2.8	20	88	2	74	27	14	18	38	1.90
5295842--5295882	21	2.0	22	85	9	59	31	24	0	43	1.54
5303072--5303126	27	2.0	27	85	0	74	41	7	29	21	1.80
5305056--5305098	22	2.0	22	86	9	61	72	13	9	4	1.26
5306572--5306707	30	4.6	30	79	4	141	25	36	11	25	1.90
5306598--5307648	30	35.7	29	76	7	796	27	30	10	30	1.91
5306607--5307654	147	7.1	145	79	6	952	27	30	10	30	1.91
5306598--5307648	295	3.6	294	85	4	1287	27	30	10	30	1.91
5306598--5307603	59	17.1	59	76	7	462	27	30	10	30	1.91
5307644--5307707	32	2.1	30	78	13	76	21	26	21	29	1.99
5307883--5308214	52	6.4	52	78	2	317	25	24	16	34	1.95
5307883--5308218	156	2.2	156	81	1	377	25	24	16	33	1.95
5310182--5310207	13	2.0	13	100	0	52	15	7	15	61	1.55
5312300--5312933	73	8.8	72	77	7	493	29	13	26	30	1.94
5312299--5312933	146	4.4	143	77	4	546	28	13	27	30	1.94
5314055--5314129	20	3.7	20	71	13	71	33	17	17	32	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5314056--5314146	42	2.2	42	89	0	137	34	17	18	29	1.94
5314091--5314146	20	2.7	19	76	13	58	33	17	19	28	1.95
5316728--5316851	63	2.0	63	83	1	158	48	4	14	32	1.65
5317632--5317666	11	3.1	11	91	4	52	34	0	2	62	1.10
5317628--5317704	29	2.6	29	76	17	79	31	1	5	62	1.25
5318460--5318507	4	12.5	4	76	24	50	79	0	20	0	0.74
5318460--5318510	7	7.3	7	88	6	61	80	0	19	0	0.71
5318475--5318509	6	5.5	6	87	12	52	82	0	17	0	0.66
5318467--5318509	13	3.2	13	87	12	61	81	0	18	0	0.69
5318627--5318668	11	4.0	10	82	17	50	76	0	19	4	0.96
5319610--5319663	28	1.9	28	92	0	90	29	18	5	46	1.72
5319729--5319761	10	3.3	10	95	0	57	21	27	0	51	1.48
5323753--5323815	27	2.2	28	83	10	76	55	0	1	42	1.09
5328455--5328583	52	2.5	52	96	0	240	30	18	16	34	1.93
5328592--5328616	13	1.9	13	100	0	50	36	16	16	32	1.90
5328661--5328712	13	3.5	13	73	26	50	36	17	13	32	1.89
5337546--5337598	16	3.3	16	97	0	97	43	20	7	28	1.79
5339070--5339095	6	4.3	6	100	0	52	50	30	19	0	1.48
5340187--5340234	25	1.9	25	91	8	71	68	0	0	31	0.90
5340231--5340262	15	2.1	15	94	0	55	62	15	6	15	1.51
5345936--5345969	10	3.5	10	96	4	61	50	20	29	0	1.49
5347404--5347449	24	2.0	23	82	4	56	32	8	0	58	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5347427--5347486	19	3.2	19	71	2	50	41	10	0	48	1.37
5348487--5348530	18	2.4	18	80	0	52	54	9	0	36	1.32
5349808--5349874	29	2.3	31	82	12	79	55	0	5	38	1.25
5350375--5350430	24	2.3	24	81	6	69	55	5	3	35	1.40
5350531--5350610	38	2.1	38	82	13	94	47	2	3	46	1.34
5350660--5350753	31	3.0	31	76	6	82	37	6	18	38	1.76
5351397--5351458	20	3.1	19	75	9	52	62	1	0	35	1.05
5351407--5351449	17	2.6	17	82	7	54	60	0	0	39	0.97
5352676--5352731	23	2.3	26	82	17	77	50	1	5	42	1.35
5353249--5353299	25	2.0	26	88	3	77	31	7	23	37	1.83
5353418--5353448	16	1.9	16	93	0	53	51	16	3	29	1.59
5355161--5355210	26	1.9	26	87	0	73	40	14	10	36	1.79
5356543--5357336	165	4.8	166	83	6	920	30	9	9	51	1.66
5356543--5357336	331	2.4	329	83	6	962	30	9	9	51	1.66
5359089--5359579	155	3.2	155	82	4	562	24	15	21	38	1.92
5359175--5359665	155	3.2	155	81	4	465	24	16	22	36	1.94
5360466--5360498	14	2.3	15	89	5	50	51	18	9	21	1.73
5366761--5366807	24	2.0	24	86	0	67	21	2	8	68	1.27
5367888--5369036	155	7.4	154	76	9	729	40	17	14	27	1.88
5367885--5369446	156	10.1	154	76	7	1131	39	17	15	27	1.89
5367885--5369190	462	2.8	466	78	6	1157	39	17	15	27	1.89
5369515--5369874	181	2.0	181	92	3	609	43	14	11	30	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5370954--5371875	166	5.6	165	79	9	692	29	10	9	50	1.69
5371028--5371905	332	2.6	331	84	5	1114	28	11	9	50	1.69
5371068--5371893	166	5.0	163	80	9	874	28	11	9	50	1.69
5372499--5372543	12	3.7	12	81	3	54	77	0	22	0	0.76
5372499--5372546	25	2.0	25	91	4	80	79	0	20	0	0.74
5373746--5373770	10	2.5	10	100	0	50	72	8	0	20	1.10
5374149--5375132	154	6.4	154	85	3	1148	24	19	20	36	1.95
5374149--5375120	307	3.2	305	85	4	1249	24	19	20	35	1.95
5374145--5375132	461	2.1	461	85	4	1339	24	19	20	36	1.95
5376869--5376935	33	2.0	33	88	0	98	34	11	13	40	1.81
5376889--5376913	13	1.9	13	100	0	50	36	16	16	32	1.90
5376978--5377002	13	1.9	13	100	0	50	32	16	16	36	1.90
5377011--5377131	52	2.3	52	97	0	224	34	18	18	28	1.94
5395278--5395351	32	2.3	32	97	0	139	39	18	25	16	1.91
5397447--5397483	18	2.1	18	90	10	58	37	5	0	56	1.22
5397964--5398057	45	2.1	45	100	0	188	29	14	13	41	1.85
5400269--5400296	2	14.0	2	100	0	56	50	0	0	50	1.00
5400485--5400525	21	1.9	21	85	5	55	39	4	14	41	1.67
5400533--5400574	21	2.0	21	86	9	59	40	2	0	57	1.12
5401091--5401127	2	18.5	2	100	0	74	51	0	0	48	1.00
5401262--5401309	18	2.8	17	87	6	69	66	0	0	33	0.92
5401265--5401308	22	2.0	22	82	8	54	68	0	0	31	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5401580--5401633	27	2.0	27	100	0	108	55	3	7	33	1.45
5402435--5402476	2	21.0	2	90	9	68	47	2	0	50	1.14
5402625--5402678	23	2.2	25	83	6	67	29	1	1	66	1.12
5404447--5404501	26	2.1	26	93	0	92	32	18	16	32	1.93
5406463--5406490	4	7.0	4	100	0	56	75	0	0	25	0.81
5406893--5406935	12	3.5	12	79	17	52	76	0	0	23	0.78
5408891--5408917	6	4.5	6	100	0	54	18	0	14	66	1.25
5409661--5409702	18	2.2	20	83	8	52	59	0	0	40	0.97
5411863--5411896	12	2.8	12	86	13	52	58	5	8	26	1.51
5413949--5414056	54	2.0	54	83	0	135	30	19	11	38	1.86

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   36   37   38   39   40   41   42   43   44   45   46   47