genome.fa.s57.2.7.7.80.10.50.1000.18.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: Scaffold57
Parameters: 2 7 7 80 10 50 1000
Length:  4071704

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  18  of  27  ( 3137 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)
2383976--2384024	19	2.5	20	81	18	68	30	0	4	65	1.11
2383951--2384088	50	2.7	50	75	16	113	30	0	4	65	1.12
2384019--2384109	23	3.6	24	69	20	69	24	0	5	70	1.08
2384011--2384090	24	3.2	24	80	8	90	26	0	5	68	1.09
2384412--2384491	37	2.1	38	88	2	117	55	17	5	22	1.61
2386144--2386202	24	2.3	27	85	8	88	44	0	0	55	0.99
2387349--2387384	18	2.0	18	88	0	54	13	36	13	36	1.85
2389600--2389624	12	2.1	12	100	0	50	24	0	0	76	0.80
2389581--2389624	21	2.0	23	86	8	65	29	0	0	70	0.88
2390003--2390081	22	4.0	21	72	22	64	45	0	0	54	0.99
2390317--2390347	3	10.3	3	100	0	62	32	0	0	67	0.91
2390788--2390812	2	12.5	2	100	0	50	52	0	0	48	1.00
2390944--2391074	5	26.0	5	65	18	58	57	0	0	41	1.04
2390954--2391009	20	2.8	20	83	8	69	57	0	1	41	1.09
2390982--2391066	38	2.2	39	80	14	97	56	0	0	43	0.99
2390980--2391026	19	2.5	20	81	18	57	57	0	0	42	0.98
2390978--2391082	51	2.1	50	82	5	122	54	0	0	45	0.99
2390981--2391074	30	3.4	27	78	11	84	57	0	0	42	0.98
2391334--2391374	11	3.7	11	83	9	57	46	0	0	53	1.00
2391395--2391438	22	2.0	22	86	8	63	56	2	0	40	1.11
2392507--2392558	10	4.9	11	77	15	56	63	0	1	34	1.06
2392508--2392550	22	1.9	23	90	4	70	62	0	2	34	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2392710--2392763	23	2.3	23	81	12	58	61	3	0	35	1.14
2393153--2393209	29	2.0	29	89	6	89	56	1	0	42	1.10
2395849--2395873	13	1.9	13	100	0	50	40	0	0	60	0.97
2396504--2396537	17	1.9	18	88	5	52	50	2	2	44	1.32
2397058--2397112	20	2.7	21	83	8	51	58	0	0	41	0.98
2397073--2397112	20	2.0	20	90	9	64	57	0	0	42	0.98
2397544--2397638	42	2.3	42	83	7	115	44	1	1	53	1.14
2398078--2398110	16	2.0	17	94	5	59	36	0	0	63	0.95
2398157--2398194	19	2.0	20	85	15	53	50	0	0	50	1.00
2398353--2398408	17	3.1	17	82	7	67	66	0	1	32	1.03
2398395--2398459	17	3.8	18	75	19	59	55	3	0	41	1.15
2398396--2398459	33	1.9	33	84	12	87	54	3	0	42	1.16
2398331--2398488	84	1.9	83	83	11	209	60	1	0	37	1.09
2400070--2400114	23	2.0	23	82	8	56	44	0	4	51	1.21
2400099--2400134	17	2.1	17	89	0	54	33	0	0	66	0.92
2400320--2400356	17	2.2	17	90	4	58	43	0	2	54	1.14
2400423--2400474	27	1.9	27	84	7	70	53	0	0	46	1.00
2400432--2400528	48	2.2	44	76	16	101	52	0	1	46	1.07
2403767--2403946	30	6.0	30	94	0	315	32	4	33	29	1.77
2406988--2407017	13	2.4	12	94	5	51	16	0	0	83	0.65
2412745--2412769	6	4.2	6	100	0	50	20	32	16	32	1.94
2413735--2413765	3	10.3	3	100	0	62	67	0	0	32	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2413855--2413894	21	2.0	20	90	5	62	62	2	0	35	1.09
2414432--2414481	2	25.0	2	100	0	100	50	0	50	0	1.00
2415619--2415729	55	2.0	55	100	0	222	27	14	20	37	1.91
2418962--2418988	2	13.5	2	100	0	54	48	0	0	51	1.00
2423390--2423422	15	2.2	16	89	10	52	39	0	0	60	0.97
2423915--2423964	15	3.4	15	75	5	57	62	2	4	32	1.25
2424162--2424207	23	2.0	23	91	0	74	65	0	0	34	0.93
2424158--2424223	23	2.6	25	79	16	73	62	1	0	36	1.05
2425797--2425840	17	2.6	17	81	0	52	65	0	0	34	0.93
2425791--2425878	30	2.9	31	73	15	85	64	0	0	35	0.94
2429000--2429035	2	18.0	2	100	0	72	50	0	0	50	1.00
2430733--2430801	25	2.7	25	79	18	72	39	0	2	57	1.13
2431389--2431434	14	3.0	14	77	22	56	56	0	0	43	0.99
2432159--2432199	17	2.4	17	88	8	57	31	0	0	68	0.90
2432162--2432215	15	3.7	15	73	22	53	33	0	0	66	0.92
2432297--2432329	16	2.0	17	94	5	59	39	0	0	60	0.97
2432911--2433033	8	15.8	8	72	17	53	53	0	0	46	1.00
2433311--2433363	26	2.0	26	82	13	65	32	0	0	67	0.91
2433327--2433380	25	2.1	26	82	3	65	42	0	0	57	0.98
2433364--2433408	17	2.5	17	89	7	63	73	2	0	24	0.95
2438650--2438681	3	10.7	3	100	0	64	68	0	0	31	0.90
2443182--2443258	2	38.5	2	89	0	118	46	1	3	48	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2443424--2443467	19	2.4	18	82	14	54	36	0	4	59	1.18
2445108--2445146	3	13.0	3	100	0	78	33	0	0	66	0.92
2446205--2446250	23	2.0	23	83	8	58	43	0	0	56	0.99
2446224--2446257	17	2.0	17	88	0	50	41	0	0	58	0.98
2446205--2446297	25	3.8	24	70	16	82	47	1	0	51	1.07
2446254--2446303	25	2.0	25	88	0	73	46	2	2	50	1.24
2448079--2448127	18	2.6	19	83	9	64	42	0	0	57	0.99
2448907--2448931	10	2.5	10	100	0	50	60	0	0	40	0.97
2450526--2450591	29	2.3	30	84	7	91	46	3	1	48	1.26
2450655--2450715	32	1.9	32	93	0	104	42	13	9	34	1.77
2451082--2451121	18	2.3	18	87	12	57	60	2	0	37	1.11
2451102--2451188	41	2.0	45	86	8	128	51	6	4	36	1.49
2451207--2451266	31	1.9	31	86	3	84	43	3	6	46	1.46
2451223--2451297	38	2.0	38	89	0	114	46	4	5	44	1.45
2451227--2451313	38	2.3	38	80	5	106	49	3	4	42	1.40
2451417--2451462	19	2.5	19	86	10	60	36	2	0	60	1.09
2451719--2451773	13	3.9	14	80	15	60	41	0	1	56	1.10
2451715--2451783	29	2.3	29	85	2	93	46	0	2	50	1.16
2453092--2453134	23	1.9	22	85	4	59	34	0	9	55	1.32
2453322--2453352	2	15.5	2	100	0	62	48	0	0	51	1.00
2453425--2453480	16	3.4	16	83	16	71	28	1	14	55	1.49
2453431--2453520	16	5.7	15	76	13	67	26	6	20	46	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2453493--2453522	15	1.9	16	93	6	53	20	13	26	40	1.89
2453808--2453926	59	2.0	59	100	0	238	30	13	6	49	1.67
2454397--2454429	16	2.1	16	100	0	66	18	12	27	42	1.85
2454402--2454450	16	3.0	16	85	8	55	16	10	26	46	1.78
2454631--2454678	17	2.9	16	81	6	60	52	0	2	45	1.12
2456073--2456107	17	2.1	17	100	0	70	22	11	22	42	1.85
2456436--2456484	13	4.1	13	80	17	61	57	0	0	42	0.99
2456443--2456490	22	2.2	22	92	0	78	62	0	0	37	0.95
2456775--2456819	5	9.2	5	81	13	58	64	2	0	33	1.06
2456775--2456811	14	2.6	14	95	0	65	64	2	0	32	1.07
2456775--2456819	9	4.6	10	83	10	58	64	2	0	33	1.06
2456770--2456845	23	3.1	25	81	12	70	60	1	0	38	1.05
2456814--2456848	17	2.0	18	88	5	54	48	0	0	51	1.00
2457484--2457518	17	2.1	17	88	0	52	51	0	0	48	1.00
2457773--2457838	31	2.1	31	88	0	96	43	1	1	53	1.19
2457818--2457873	22	2.6	21	80	13	60	39	1	0	58	1.08
2458169--2458225	18	3.3	17	77	22	57	57	1	0	40	1.09
2458769--2458805	18	2.0	19	94	5	67	37	0	0	62	0.96
2458770--2458812	19	2.3	19	88	8	61	39	0	0	60	0.97
2461152--2461204	26	2.1	25	86	10	72	58	0	0	41	0.98
2461879--2461980	53	1.9	53	91	0	168	40	17	16	25	1.90
2462236--2462279	23	1.9	23	86	9	63	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)
2462231--2462281	14	3.6	14	81	7	59	54	0	0	45	0.99
2463738--2463764	10	2.7	10	100	0	54	62	0	0	37	0.95
2464535--2464576	22	1.9	22	100	0	84	38	11	35	14	1.83
2470384--2470414	14	2.3	14	94	5	55	41	0	0	58	0.98
2470384--2470418	14	2.7	13	87	12	54	37	0	0	62	0.95
2473730--2473946	108	2.0	108	97	0	407	32	12	13	41	1.83
2477775--2477801	2	13.5	2	100	0	54	48	0	0	51	1.00
2486617--2486702	9	9.2	9	72	23	54	54	4	1	39	1.29
2486661--2486700	21	2.0	20	85	5	53	57	7	0	35	1.27
2486613--2486710	49	2.1	44	81	9	106	51	4	1	43	1.27

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