genome.fa.s103.2.7.7.80.10.50.1000.20.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: Scaffold103
Parameters: 2 7 7 80 10 50 1000
Length:  2633873

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   

This is table  20  of  21  ( 2458 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)
2359355--2359389	2	17.5	2	100	0	70	48	0	0	51	1.00
2361807--2361870	32	2.0	32	100	0	128	12	28	21	37	1.90
2364129--2364217	9	8.9	10	69	19	53	49	2	0	48	1.13
2364178--2364242	6	10.8	6	75	22	57	40	0	0	60	0.97
2364191--2364222	16	1.9	17	93	6	57	46	0	0	53	1.00
2364191--2364243	16	3.2	16	82	15	56	41	0	0	58	0.98
2364898--2364951	19	2.6	21	80	11	58	38	0	0	61	0.96
2369790--2369822	3	11.0	3	100	0	66	33	0	0	66	0.92
2377147--2377249	52	1.9	54	84	7	140	45	6	1	45	1.41
2377378--2377407	2	15.0	2	100	0	60	50	0	0	50	1.00
2377807--2377832	2	13.0	2	100	0	52	50	0	50	0	1.00
2381838--2381902	22	2.9	23	71	15	64	50	0	0	49	1.00
2382059--2382110	27	1.9	27	84	7	70	46	0	0	53	1.00
2382091--2382133	21	2.0	21	86	8	61	34	0	0	65	0.93
2386806--2386836	3	10.0	3	93	6	53	64	0	0	35	0.94
2388000--2388046	23	2.0	24	87	4	69	42	0	0	57	0.98
2388620--2388672	27	1.9	29	88	11	85	43	0	1	54	1.11
2390469--2390517	19	2.5	20	86	10	73	36	0	6	57	1.24
2391215--2391248	17	2.0	17	94	0	59	50	0	0	50	1.00
2391215--2391282	22	3.0	22	71	23	61	47	0	0	52	1.00
2391215--2391312	42	2.3	41	84	8	115	52	0	0	47	1.00
2391215--2391324	42	2.5	44	77	10	109	50	0	0	49	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2391877--2391917	16	2.4	17	84	8	57	21	4	2	70	1.18
2391877--2391918	17	2.4	18	76	11	52	21	4	2	71	1.16
2392893--2392942	13	3.7	14	76	7	50	36	0	0	64	0.94
2392904--2392934	10	3.0	10	95	4	53	41	0	0	58	0.98
2392900--2392960	23	2.6	24	84	7	72	39	0	1	59	1.08
2392949--2392981	14	2.3	15	89	5	50	63	0	3	33	1.10
2393085--2393126	21	2.1	20	91	8	68	38	0	0	61	0.96
2393076--2393163	27	3.3	27	72	15	74	43	0	0	56	0.99
2395834--2395883	27	2.0	24	84	11	64	36	2	0	62	1.07
2395934--2395976	21	2.0	22	81	4	52	32	4	0	62	1.15
2395927--2395982	23	2.5	22	77	16	60	33	3	0	62	1.12
2395927--2396020	12	8.4	12	68	23	55	37	2	0	60	1.09
2395926--2396009	19	4.4	18	72	19	55	35	2	0	61	1.09
2395926--2396020	31	3.2	30	78	15	99	36	2	0	61	1.08
2395923--2396016	26	3.8	25	77	13	72	37	2	0	60	1.09
2396356--2396416	24	2.5	24	78	17	63	40	1	3	54	1.27
2399685--2399714	10	2.8	11	90	10	53	73	0	0	26	0.84
2406805--2407030	126	1.8	126	80	8	275	42	21	5	30	1.75
2408999--2409024	13	2.0	13	100	0	52	69	0	0	30	0.89
2409076--2409122	18	2.7	17	75	15	51	48	2	0	48	1.13
2409436--2409462	3	9.0	3	100	0	54	66	0	0	33	0.92
2410122--2410171	2	25.0	2	100	0	100	50	0	50	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2410679--2410752	21	3.8	20	64	27	52	58	0	0	41	0.98
2410680--2410759	29	2.8	27	75	16	72	57	0	1	41	1.07
2410668--2410766	36	2.7	37	80	13	107	56	1	1	41	1.13
2415166--2415200	16	2.2	16	100	0	70	25	5	68	0	1.11
2424985--2425026	18	2.4	18	88	7	61	64	0	0	35	0.94
2424946--2425062	56	2.1	57	82	10	143	59	0	1	37	1.13
2425515--2425608	31	2.9	32	81	10	104	59	0	1	39	1.04
2425570--2425612	17	2.5	17	81	11	52	58	0	0	41	0.98
2426586--2426624	19	2.1	19	85	0	51	48	0	2	48	1.15
2426636--2426671	17	2.1	17	89	0	54	55	0	2	41	1.14
2426789--2426833	21	2.0	22	83	8	56	31	2	6	60	1.35
2429421--2429462	19	2.3	18	87	4	57	9	2	7	80	0.97
2431070--2431100	2	15.5	2	100	0	62	51	0	0	48	1.00
2431100--2431126	2	13.5	2	100	0	54	51	0	48	0	1.00
2431489--2431521	2	17.0	2	93	6	59	48	0	51	0	1.00
2433114--2433186	11	6.5	12	67	19	50	53	2	0	43	1.15
2433126--2433187	28	2.3	27	77	5	70	54	3	0	41	1.16
2433163--2433221	23	2.6	23	78	5	66	52	5	3	38	1.40
2433208--2433253	16	3.2	16	66	33	50	69	0	0	30	0.89
2435411--2435447	18	2.1	18	89	0	56	24	0	2	72	0.97
2436900--2436938	17	2.4	17	87	12	55	58	0	0	41	0.98
2438863--2438926	32	2.0	32	100	0	128	34	12	25	28	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2440247--2440285	20	2.0	20	94	0	69	23	15	15	46	1.83
2440534--2440582	24	2.0	24	100	0	98	6	28	16	48	1.69
2444139--2444171	2	16.5	2	100	0	66	51	0	0	48	1.00
2446431--2446463	2	16.5	2	100	0	66	51	0	0	48	1.00
2447364--2447406	2	21.5	2	100	0	86	48	0	0	51	1.00
2453072--2453108	3	12.3	3	100	0	74	67	0	0	32	0.91
2454050--2454081	4	8.0	4	100	0	64	25	0	25	50	1.50
2454734--2454763	2	15.0	2	100	0	60	50	50	0	0	1.00
2455293--2455318	10	2.6	10	100	0	52	0	92	0	7	0.39
2456292--2456348	23	2.5	22	83	11	71	42	1	0	56	1.10
2456818--2456851	2	17.0	2	87	0	50	0	50	2	47	1.16
2464809--2464840	3	10.7	3	100	0	64	68	0	31	0	0.90
2470301--2470327	13	2.1	13	100	0	54	37	25	14	22	1.93
2471604--2471647	17	2.6	17	82	7	54	40	34	6	18	1.77
2474051--2474226	87	2.0	87	100	0	352	40	17	20	21	1.92
2480826--2480863	2	19.0	2	100	0	76	50	0	50	0	1.00
2480999--2481029	14	2.2	14	94	0	53	41	0	3	54	1.16
2481341--2481426	21	4.1	22	72	20	78	65	1	1	32	1.08
2481369--2481418	18	2.9	17	76	23	52	70	0	2	28	0.99
2482650--2482674	3	8.3	3	100	0	50	68	0	32	0	0.90
2483507--2483534	5	5.6	5	100	0	56	0	21	35	42	1.53
2484151--2484176	2	13.0	2	100	0	52	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2487907--2487945	3	13.0	3	100	0	78	66	0	33	0	0.92
2488208--2488241	2	17.0	2	100	0	68	50	0	0	50	1.00
2488596--2488641	3	15.0	3	86	4	65	30	0	4	65	1.12
2493760--2493789	2	15.0	2	100	0	60	50	0	0	50	1.00
2500268--2500293	13	2.0	13	100	0	52	84	0	7	7	0.77
2501276--2501321	19	2.4	19	82	7	58	43	0	2	54	1.12
2501336--2501787	234	1.9	235	92	2	766	38	7	7	46	1.61
2506020--2506053	14	2.4	14	90	0	50	32	2	11	52	1.53
2506543--2506575	2	16.5	2	100	0	66	51	0	0	48	1.00
2509139--2509172	12	2.8	12	86	0	50	17	0	5	76	0.98
2511806--2511856	5	10.2	5	76	16	52	35	0	0	64	0.94
2511806--2511858	17	3.1	17	91	2	79	33	0	0	66	0.92
2513251--2513355	49	2.0	52	89	10	162	32	25	13	28	1.93
2515636--2515669	17	2.1	16	89	10	52	50	0	0	50	1.00
2516385--2516415	4	7.8	4	100	0	62	77	0	0	22	0.77
2518665--2518721	3	18.7	3	81	3	69	61	5	0	33	1.18
2518675--2518724	25	2.0	25	100	0	100	56	8	0	36	1.29
2528322--2528396	33	2.3	33	83	0	96	48	10	33	8	1.67
2532569--2532752	50	3.7	50	85	4	264	34	15	20	29	1.93
2532538--2532750	100	2.1	100	88	1	311	34	15	18	31	1.93
2533534--2533576	22	2.0	22	100	0	86	13	32	4	48	1.63
2538653--2538680	13	2.2	13	100	0	56	42	0	28	28	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2539105--2539182	40	2.0	39	89	2	120	41	10	12	35	1.77
2539108--2539179	20	3.6	20	75	0	81	41	8	13	36	1.75
2540662--2540829	50	3.3	50	84	2	176	47	14	3	33	1.62
2543072--2543100	5	5.8	5	100	0	58	41	58	0	0	0.98
2544244--2544338	33	2.8	35	80	15	101	34	0	1	64	1.01
2544463--2544509	24	2.0	24	83	8	60	36	0	2	61	1.08
2544749--2544798	21	2.4	20	83	9	64	82	2	16	0	0.77
2544767--2544796	15	1.9	16	93	6	53	80	3	16	0	0.85
2544853--2544895	13	3.3	14	81	15	56	44	0	0	55	0.99
2544917--2544967	20	2.5	20	90	0	75	29	1	0	68	1.00

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21