genome.fa.s54.2.7.7.80.10.50.1000.14.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: Scaffold54
Parameters: 2 7 7 80 10 50 1000
Length:  3629595

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

This is table  14  of  20  ( 2342 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)
2267005--2267031	2	13.5	2	100	0	54	51	0	0	48	1.00
2267516--2267553	14	2.7	14	87	0	58	71	0	0	28	0.87
2269226--2269264	20	1.9	20	89	5	60	38	2	0	58	1.12
2269973--2270036	27	2.5	26	85	10	78	57	0	1	40	1.08
2270023--2270055	16	2.0	17	94	5	59	36	3	0	60	1.12
2270247--2270286	2	20.0	2	84	0	53	52	0	2	45	1.14
2270247--2270283	16	2.3	16	95	0	65	54	0	2	43	1.14
2270855--2270889	2	17.5	2	100	0	70	51	0	0	48	1.00
2271728--2271757	2	15.5	2	93	6	53	50	0	0	50	1.00
2277821--2277896	37	2.1	37	82	2	91	40	5	19	34	1.74
2279253--2279286	17	1.9	17	88	5	50	35	23	17	23	1.95
2288977--2289134	18	9.1	18	70	17	63	61	1	0	37	1.04
2289020--2289084	21	3.1	20	77	6	67	61	1	0	36	1.05
2289062--2289130	16	4.4	14	76	20	57	55	0	0	44	0.99
2289031--2289134	5	20.6	5	69	11	52	59	0	0	40	0.97
2289632--2289672	13	3.1	13	82	6	55	63	0	0	36	0.95
2290610--2290643	16	2.2	16	89	5	52	52	0	0	47	1.00
2290714--2290754	16	2.5	17	80	15	50	48	2	0	48	1.14
2291185--2291266	22	3.7	22	75	21	75	47	1	2	48	1.22
2291250--2291359	52	2.1	50	79	9	114	52	0	2	44	1.15
2292607--2292662	15	3.4	17	73	16	55	33	1	0	64	1.04
2295478--2295512	2	17.5	2	100	0	70	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2295956--2296004	16	3.3	15	77	8	55	46	0	2	51	1.12
2296021--2296069	23	2.1	23	81	7	55	53	0	0	46	1.00
2296592--2296617	2	13.0	2	100	0	52	50	0	0	50	1.00
2296712--2296757	16	3.1	14	82	14	56	52	0	0	47	1.00
2297176--2297222	20	2.3	21	85	7	69	40	2	0	57	1.11
2297326--2297356	15	2.1	15	93	0	53	58	0	0	41	0.98
2298499--2298548	20	2.3	21	86	10	66	48	0	0	52	1.00
2298765--2298790	6	4.3	6	100	0	52	50	19	15	15	1.79
2304658--2304694	2	18.5	2	88	0	56	45	2	0	51	1.15
2316212--2316279	19	3.6	18	74	14	57	26	0	4	69	1.07
2316207--2316263	24	2.5	23	81	10	73	28	0	5	66	1.13
2316238--2316293	29	1.9	30	88	3	78	28	0	1	69	0.98
2316252--2316293	11	3.6	12	75	18	52	30	0	0	69	0.89
2318699--2318802	47	2.2	47	91	1	165	19	16	13	50	1.77
2325188--2325220	16	2.1	16	100	0	66	39	12	6	42	1.67
2326660--2326702	2	21.5	2	95	0	77	48	0	51	0	1.00
2331784--2331815	15	2.1	15	94	0	55	40	12	18	28	1.87
2332530--2332571	22	1.9	23	85	9	61	69	4	2	23	1.20
2333576--2333636	22	2.7	23	85	7	72	67	0	0	32	0.91
2333577--2333636	23	2.9	21	82	9	70	66	0	0	33	0.92
2334687--2334733	5	9.2	5	77	13	51	59	0	0	40	0.97
2334695--2334830	26	5.3	26	68	20	72	58	1	2	37	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2335491--2335531	3	13.7	3	100	0	82	68	0	0	31	0.90
2336133--2336161	8	3.8	8	95	4	51	86	0	0	13	0.58
2347699--2347758	2	30.5	2	91	3	59	1	56	0	41	1.09
2347685--2347758	37	2.0	37	100	0	148	2	62	0	35	1.10
2347758--2347790	2	16.5	2	100	0	66	48	0	0	51	1.00
2348423--2348448	3	8.7	3	100	0	52	69	0	0	30	0.89
2348546--2348594	26	2.0	23	88	11	71	53	0	0	46	1.00
2352912--2352952	19	2.2	19	86	0	55	36	0	2	60	1.10
2353919--2354036	50	2.4	50	86	2	166	34	17	14	33	1.90
2357273--2357311	20	2.1	19	85	9	53	15	23	0	61	1.33
2360228--2360261	13	2.6	13	95	0	59	64	0	2	32	1.08
2361178--2361253	29	2.7	27	74	18	75	48	0	0	51	1.00
2364918--2364963	3	15.3	3	100	0	92	32	0	0	67	0.91
2367069--2367100	2	16.0	2	100	0	64	50	0	0	50	1.00
2371910--2371954	21	2.3	19	84	7	54	71	2	2	24	1.09
2372917--2372983	28	2.3	28	84	7	80	64	0	0	35	0.94
2372947--2372982	17	2.1	17	90	10	56	72	0	0	27	0.85
2372933--2372993	28	2.2	27	80	8	68	65	1	0	32	1.02
2373193--2373236	14	2.9	16	75	25	51	34	0	0	65	0.93
2373203--2373259	22	2.4	24	80	14	73	33	0	0	66	0.92
2373209--2373259	22	2.3	23	89	3	77	35	0	0	64	0.94
2374476--2374518	16	2.6	17	78	10	54	39	0	0	60	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2375055--2375082	2	14.0	2	100	0	56	0	50	0	50	1.00
2381552--2381597	21	2.2	21	84	0	56	47	0	0	52	1.00
2381580--2381617	17	2.2	18	86	9	53	34	2	0	63	1.09
2383137--2383163	2	13.5	2	100	0	54	48	0	0	51	1.00
2383267--2383323	12	4.7	12	80	4	51	40	0	0	59	0.97
2383282--2383323	12	3.4	13	80	9	52	42	0	0	57	0.99
2383301--2383354	21	2.6	20	82	8	63	40	0	0	59	0.98
2394123--2394346	110	2.0	110	100	0	448	28	13	29	29	1.94
2405296--2405567	134	2.0	134	99	0	535	43	18	13	25	1.86
2411513--2411541	2	14.5	2	100	0	58	51	0	0	48	1.00
2413803--2413855	15	3.3	16	73	26	58	45	0	0	54	0.99
2413823--2413872	24	2.2	24	89	7	77	52	0	0	48	1.00
2414596--2414654	22	2.6	24	76	17	63	44	3	0	52	1.17
2415138--2415166	2	15.0	2	92	7	51	48	0	0	51	1.00
2416088--2416134	15	3.2	15	75	3	51	38	0	12	48	1.41
2417248--2417345	50	2.0	50	85	0	133	42	16	23	17	1.88
2417865--2417889	2	12.5	2	100	0	50	52	0	48	0	1.00
2420037--2420088	26	2.0	26	84	0	68	57	1	1	38	1.21
2420522--2420567	15	3.1	15	82	14	60	45	0	0	54	0.99
2420860--2420899	18	2.4	16	88	12	55	50	0	0	50	1.00
2420832--2420899	33	2.1	33	81	10	77	45	0	2	51	1.16
2423348--2423382	2	17.5	2	100	0	70	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2423961--2423993	11	3.0	11	83	16	50	54	3	0	42	1.15
2423976--2424021	8	5.6	8	84	10	58	58	0	0	41	0.98
2432501--2432525	12	2.1	12	100	0	50	92	0	8	0	0.40
2432503--2432527	13	1.9	13	100	0	50	92	0	8	0	0.40
2437995--2438039	22	2.1	21	83	4	54	26	2	4	66	1.22
2439985--2440048	32	2.0	32	100	0	128	34	15	12	37	1.85
2445412--2445486	36	2.1	36	97	0	141	28	8	12	52	1.66
2447806--2447835	9	3.3	9	100	0	60	73	0	0	26	0.84
2448251--2448280	2	15.0	2	100	0	60	50	0	0	50	1.00
2460942--2461009	16	4.3	15	72	25	52	42	0	0	57	0.98
2460927--2460988	31	2.0	32	84	9	83	48	0	0	51	1.00
2460946--2461039	31	3.1	30	80	15	90	40	0	0	59	0.97
2460988--2461044	23	2.4	25	88	11	84	35	0	0	64	0.93
2461481--2461542	15	4.0	15	78	12	54	29	3	1	66	1.17
2461653--2461709	17	3.4	16	72	9	51	63	0	0	36	0.95
2462720--2462775	28	2.0	29	86	10	80	46	0	0	53	1.00
2462721--2462794	27	2.8	27	72	20	66	43	0	0	56	0.99
2465513--2465555	23	2.0	23	86	9	63	39	0	6	53	1.28
2466307--2466354	21	2.3	21	82	13	55	27	0	8	64	1.22
2466497--2466548	2	26.0	2	84	0	68	48	1	3	46	1.31
2466523--2466554	16	1.9	17	93	6	57	56	3	3	37	1.31
2472549--2472587	2	19.5	2	100	0	78	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2472883--2472917	7	5.0	7	89	10	54	45	0	0	54	0.99
2472881--2472919	14	2.8	14	85	14	62	48	0	0	51	1.00
2472907--2472951	20	2.3	20	85	11	58	60	0	2	37	1.09
2472998--2473056	24	2.5	23	78	8	64	49	3	0	47	1.18
2473163--2473222	28	2.1	27	85	11	77	48	0	0	51	1.00
2473243--2473276	2	17.0	2	100	0	68	50	0	0	50	1.00
2473457--2473517	17	3.5	17	71	8	52	54	0	4	40	1.22
2473821--2473876	18	2.9	19	70	17	53	48	5	0	46	1.25
2481538--2481583	2	23.5	2	95	4	85	50	0	0	50	1.00
2484755--2484809	23	2.4	23	100	0	110	54	9	3	32	1.49

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