genome.fa.s196.2.7.7.80.10.50.1000.44.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  44  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)
7069343--7069424	41	2.0	41	100	0	164	41	29	4	24	1.75
7069478--7069510	14	2.5	14	90	9	52	54	0	0	45	0.99
7077907--7078018	52	2.2	52	96	0	206	26	24	7	41	1.80
7080790--7080828	15	2.5	15	87	4	51	84	7	7	0	0.77
7081585--7081629	22	2.0	23	83	12	58	64	0	0	35	0.94
7081768--7081801	18	1.9	17	94	5	59	50	0	0	50	1.00
7083518--7083560	23	1.9	22	86	13	61	60	0	0	39	0.97
7084616--7084679	32	2.0	32	84	0	83	48	6	3	42	1.44
7085651--7085677	2	13.5	2	100	0	54	51	0	0	48	1.00
7086440--7086768	167	2.0	167	93	0	561	31	14	18	35	1.91
7088877--7088939	24	2.6	24	82	0	81	36	19	9	34	1.84
7089013--7089065	24	2.2	25	83	10	65	28	16	11	43	1.83
7089006--7089055	24	2.1	24	88	0	73	34	14	14	38	1.85
7089063--7089165	46	2.2	48	80	5	120	28	10	15	45	1.79
7089714--7089769	26	2.2	26	86	0	76	25	12	10	51	1.71
7090323--7090372	4	11.8	4	79	12	55	24	4	0	72	1.02
7091449--7091489	15	2.7	15	88	0	55	36	14	14	34	1.87
7091456--7091536	15	5.5	15	75	8	67	30	19	12	37	1.89
7091613--7091672	30	2.0	29	90	3	93	30	13	18	38	1.89
7096074--7096180	16	6.7	15	78	12	99	57	1	0	39	1.16
7096094--7096173	22	3.5	22	73	26	76	61	2	0	36	1.10
7096085--7096178	32	2.9	32	82	0	116	60	2	0	37	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7097531--7097589	15	3.8	16	88	6	86	62	0	0	37	0.95
7097531--7097589	31	1.9	30	89	3	91	62	0	0	37	0.95
7099326--7099359	16	2.1	16	88	0	50	61	0	0	38	0.96
7099337--7099378	7	5.9	7	85	2	57	50	0	0	50	1.00
7100215--7100256	16	2.6	17	81	11	52	54	2	0	42	1.13
7100648--7100688	5	7.6	5	84	15	55	46	0	0	53	1.00
7100648--7100693	18	2.8	17	84	12	60	50	0	0	50	1.00
7100656--7100750	21	4.4	23	72	17	71	52	1	0	46	1.07
7101082--7101133	15	3.3	15	72	15	50	42	0	0	57	0.98
7101636--7101690	25	2.2	25	86	0	74	38	9	9	43	1.68
7103035--7103068	18	1.9	18	94	5	61	61	0	0	38	0.96
7103040--7103076	18	2.1	18	89	0	56	62	2	2	32	1.23
7103562--7103620	29	2.1	29	87	9	86	54	0	1	44	1.10
7104666--7104708	14	3.1	14	86	0	68	60	0	0	39	0.97
7105794--7105828	10	3.4	10	88	7	52	37	2	0	60	1.12
7105786--7105865	18	4.6	17	73	15	74	42	2	0	55	1.13
7105790--7105865	27	2.9	26	74	14	77	42	2	0	55	1.14
7105769--7105866	44	2.2	44	79	12	105	43	2	0	54	1.12
7106280--7106316	2	18.0	2	94	5	65	48	0	2	48	1.15
7107348--7107387	15	2.7	15	92	0	62	50	0	0	50	1.00
7107449--7107480	14	2.3	14	94	0	55	75	0	0	25	0.81
7107485--7107518	16	2.2	15	89	5	50	67	2	0	29	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7107824--7107863	14	2.7	16	81	14	50	32	0	5	62	1.17
7107956--7108016	16	3.9	16	72	14	56	54	0	0	45	1.00
7107952--7108017	15	4.3	15	75	5	62	54	0	0	45	0.99
7108474--7108518	18	2.6	17	82	3	54	51	0	2	46	1.13
7108690--7108728	17	2.3	17	81	0	51	48	2	0	48	1.15
7110248--7110272	2	12.5	2	100	0	50	48	0	0	52	1.00
7111857--7111886	13	2.2	14	94	5	53	30	0	0	70	0.88
7111900--7111944	19	2.3	20	82	17	60	42	0	2	55	1.12
7111918--7111972	25	2.1	28	90	10	89	50	0	0	49	1.00
7111946--7111984	17	2.4	16	83	8	51	51	0	0	48	1.00
7112128--7112179	21	2.5	21	84	3	61	42	7	0	50	1.31
7112141--7112190	21	2.4	21	89	0	73	40	6	0	54	1.25
7113358--7113399	3	14.0	3	100	0	84	66	0	0	33	0.92
7113398--7113439	3	14.0	3	100	0	84	33	0	0	66	0.92
7114164--7114209	17	2.7	18	78	18	53	63	2	4	30	1.26
7114161--7114194	17	1.9	17	94	5	59	61	0	5	32	1.20
7114161--7114202	18	2.3	18	88	8	59	64	2	4	28	1.26
7114597--7114634	3	12.7	3	100	0	76	65	0	0	34	0.93
7115004--7116278	81	15.7	81	80	4	1255	31	22	20	25	1.98
7115004--7116278	243	5.2	243	83	5	1407	31	22	20	25	1.98
7119779--7119945	85	2.0	85	86	4	239	28	11	18	41	1.86
7121069--7121102	17	1.9	18	94	5	61	41	0	2	55	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7122172--7122196	13	1.9	13	100	0	50	36	16	8	40	1.77
7122212--7122298	20	4.7	20	76	21	91	27	17	14	40	1.89
7122249--7122276	13	2.2	13	100	0	56	32	17	14	35	1.90
7122229--7122298	33	2.1	33	97	0	131	28	18	14	38	1.90
7122212--7122318	53	2.0	53	83	7	137	29	15	14	40	1.87
7124622--7124773	51	3.0	51	80	1	171	28	26	12	32	1.93
7124779--7124845	28	2.4	27	87	9	91	23	32	14	28	1.95
7124880--7124963	28	3.1	28	71	13	77	22	25	17	34	1.96
7124724--7124982	109	2.4	108	78	5	308	27	24	13	35	1.92
7124929--7125164	131	1.8	131	80	5	289	28	22	12	36	1.91
7136268--7136329	12	5.5	11	77	11	54	83	11	4	0	0.78
7136277--7136317	20	2.1	19	90	4	64	85	14	0	0	0.60
7136268--7136329	15	4.3	14	80	8	61	83	11	4	0	0.78
7136280--7136329	8	6.2	8	82	17	59	86	10	4	0	0.71
7137404--7137660	55	4.5	55	78	11	261	26	29	20	23	1.99
7137429--7137670	60	4.1	59	82	5	251	24	30	19	25	1.98
7137430--7137659	121	1.9	116	84	9	304	25	29	20	23	1.99
7137465--7137875	215	1.9	215	86	4	578	24	29	21	25	1.99
7137705--7137933	122	1.9	121	90	4	363	25	26	21	25	2.00
7137680--7137941	61	4.4	60	83	8	306	25	27	21	25	2.00
7138733--7138787	20	2.8	20	97	0	101	25	16	14	43	1.86
7138733--7138803	20	3.6	19	85	11	90	28	14	14	43	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7142066--7142403	79	4.3	78	79	7	351	32	13	25	28	1.94
7144723--7144777	20	2.8	20	94	0	83	43	14	16	25	1.86
7144793--7144822	13	2.3	13	94	0	51	40	10	16	33	1.82
7145140--7145308	51	3.3	51	78	5	155	28	25	13	33	1.93
7145300--7145368	28	2.5	27	86	9	86	26	33	13	27	1.93
7145247--7145524	108	2.6	106	81	4	342	28	24	13	33	1.93
7145462--7145576	52	2.2	52	81	7	137	33	24	8	33	1.86
7149277--7149323	22	2.1	23	84	11	62	51	0	2	46	1.13
7149693--7149729	3	12.3	3	100	0	74	67	0	0	32	0.91
7150736--7150774	3	13.0	3	100	0	78	66	0	0	33	0.92
7151288--7151317	14	2.1	14	100	0	60	20	13	13	53	1.72
7157487--7157616	40	3.1	42	80	6	149	8	44	2	44	1.47
7160187--7160222	2	18.5	2	88	5	56	47	0	0	52	1.00
7164943--7164983	12	3.3	13	83	10	50	39	0	2	58	1.11
7168345--7168393	23	2.0	25	81	14	59	59	0	2	38	1.09
7168333--7168389	21	3.0	21	69	27	54	61	0	1	36	1.07
7168974--7169013	15	2.7	15	85	14	57	0	17	0	82	0.67
7168979--7169025	19	2.5	20	82	10	62	0	21	2	76	0.89
7169230--7169320	16	5.6	16	69	18	71	65	0	0	34	0.93
7169284--7169337	22	2.5	22	78	6	56	59	3	1	35	1.26
7169350--7169398	8	5.6	8	77	17	53	0	18	0	81	0.69
7169354--7169398	17	2.5	18	92	7	74	0	20	0	80	0.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7169496--7169627	41	3.2	41	71	10	126	56	3	0	40	1.14
7169559--7169628	16	4.2	16	69	16	52	64	1	0	34	1.03
7174661--7174686	13	2.0	13	100	0	52	30	15	15	38	1.88
7177222--7177260	13	3.0	13	96	0	69	35	15	17	30	1.91
7177246--7177324	20	3.7	20	78	15	77	44	15	15	25	1.85
7183421--7183446	13	2.0	13	100	0	52	30	15	15	38	1.88
7184879--7184906	13	2.2	13	100	0	56	42	14	14	28	1.84
7184953--7185009	20	2.8	20	89	5	78	26	15	14	43	1.85
7185777--7185801	13	1.9	13	100	0	50	36	16	16	32	1.90
7185757--7185823	33	2.0	33	88	0	98	32	11	14	40	1.83

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