genome.fa.s223.2.7.7.80.10.50.1000.13.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: Scaffold223
Parameters: 2 7 7 80 10 50 1000
Length:  4172444

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   

This is table  13  of  26  ( 3021 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)
2193304--2193346	22	1.9	22	90	4	68	58	6	4	30	1.45
2193324--2193373	21	2.6	19	82	14	66	52	4	6	38	1.45
2193312--2193375	22	2.9	22	86	6	85	53	4	6	35	1.47
2193364--2193404	21	2.0	21	85	9	57	53	0	4	41	1.22
2198747--2198795	13	3.8	13	81	2	55	69	0	0	30	0.89
2198880--2198931	14	3.8	14	78	14	54	67	3	0	28	1.08
2199532--2199575	17	2.8	17	80	13	58	45	0	0	54	0.99
2199955--2199992	20	1.9	20	88	0	58	0	18	0	81	0.69
2199953--2200010	27	2.3	27	88	8	86	0	17	1	81	0.78
2201100--2201138	15	2.7	14	88	7	60	69	7	0	23	1.14
2201331--2201379	18	2.6	18	83	6	62	57	6	6	30	1.48
2201472--2201521	16	2.9	17	82	17	59	0	20	0	80	0.72
2201481--2201524	24	1.9	22	90	9	70	0	18	0	81	0.68
2201478--2201521	19	2.3	19	92	7	72	0	18	0	81	0.68
2210140--2210191	2	26.0	2	100	0	104	50	0	0	50	1.00
2211387--2211491	25	4.0	26	75	17	83	60	2	0	36	1.11
2211420--2211463	12	3.5	13	78	15	56	65	0	0	34	0.93
2211446--2211507	33	1.9	32	83	9	81	53	1	0	45	1.10
2212042--2212126	42	2.0	43	84	11	113	49	4	0	45	1.23
2214506--2214545	21	1.9	21	85	10	55	62	0	2	35	1.09
2214793--2214840	2	23.5	2	82	4	51	54	2	0	43	1.12
2214910--2214952	19	2.2	20	91	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)
2214920--2214993	32	2.2	35	88	7	109	56	0	1	41	1.07
2214913--2215001	42	2.2	42	82	9	105	56	0	1	42	1.06
2217450--2217483	18	1.9	17	88	5	50	64	0	2	32	1.08
2217442--2217522	14	6.1	14	70	13	64	56	0	1	41	1.07
2217534--2217577	19	2.4	19	85	7	56	40	2	0	56	1.11
2218447--2218501	21	2.7	20	83	10	76	36	0	0	63	0.95
2218448--2218503	11	5.5	11	77	14	66	35	0	0	64	0.94
2219442--2219485	3	14.7	3	95	0	79	31	0	2	65	1.05
2220209--2220253	22	2.0	22	83	8	56	40	2	0	57	1.11
2220739--2220767	2	14.5	2	100	0	58	48	0	0	51	1.00
2220763--2220797	15	2.3	15	85	0	52	28	11	0	60	1.32
2221836--2221878	2	21.5	2	90	0	68	48	4	0	46	1.22
2222810--2222841	3	10.7	3	100	0	64	31	0	0	68	0.90
2231218--2231252	2	17.5	2	93	0	61	45	0	2	51	1.16
2231421--2231464	21	2.0	22	82	4	54	47	4	0	47	1.22
2235909--2235934	2	13.0	2	100	0	52	50	0	0	50	1.00
2238362--2238417	23	2.5	23	82	2	69	57	1	0	41	1.09
2238362--2238412	22	2.3	22	86	3	66	58	0	0	41	0.98
2239197--2239238	23	1.9	22	85	9	59	45	4	0	50	1.23
2239831--2239870	6	6.7	6	97	0	62	57	0	42	0	0.98
2239826--2239870	18	2.5	18	85	0	63	57	2	40	0	1.11
2242512--2242604	48	1.9	48	91	0	150	29	10	21	38	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2245831--2245861	16	2.0	15	93	6	53	54	0	6	38	1.26
2245847--2245897	12	4.1	12	78	14	50	39	3	9	47	1.55
2246073--2246120	22	2.2	21	85	10	62	54	0	0	45	0.99
2248089--2248148	22	2.7	22	75	10	68	56	0	0	43	0.99
2248044--2248151	52	2.1	53	81	8	123	56	2	0	40	1.14
2248216--2248263	25	1.9	25	87	8	71	56	0	0	43	0.99
2248206--2248283	25	3.0	25	73	17	61	53	0	0	46	1.00
2248172--2248286	12	10.6	11	65	25	50	55	0	0	43	1.05
2248234--2248339	38	2.7	37	77	12	97	57	0	0	41	1.05
2248242--2248330	43	2.1	43	83	10	112	58	1	0	40	1.05
2249011--2249164	75	2.0	75	86	3	209	40	8	7	42	1.64
2249621--2249654	2	17.0	2	100	0	68	50	0	0	50	1.00
2250620--2250674	21	2.6	21	83	11	60	60	0	0	40	0.97
2250979--2251040	15	4.1	15	75	8	63	58	0	0	41	0.98
2250983--2251045	29	2.1	30	88	5	92	55	0	0	44	0.99
2250949--2251048	30	3.4	29	76	15	100	58	1	0	41	1.05
2250996--2251055	30	2.0	30	83	6	77	60	0	0	40	0.97
2251331--2251443	35	3.2	34	72	25	108	46	0	0	52	1.13
2251673--2251720	23	2.1	23	84	7	62	66	4	0	29	1.10
2255183--2255207	1	25.0	1	100	0	50	0	100	0	0	0.00
2258991--2259015	1	25.0	1	100	0	50	0	0	0	100	0.00
2261614--2261663	20	2.5	19	78	12	55	62	2	2	34	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2261875--2261945	9	8.0	9	71	14	58	45	4	0	50	1.21
2261969--2262017	3	16.7	3	95	4	91	32	0	0	67	0.91
2267029--2267148	61	2.0	61	94	0	213	40	12	24	22	1.88
2269283--2269320	18	2.1	18	95	0	67	18	15	36	28	1.92
2269740--2269823	35	2.4	34	80	5	89	50	0	1	48	1.08
2270224--2270264	2	20.5	2	100	0	82	48	0	0	51	1.00
2270246--2270372	68	1.9	68	94	0	227	40	5	13	40	1.67
2271326--2271351	2	13.0	2	100	0	52	50	0	0	50	1.00
2271384--2271423	21	2.0	20	90	5	62	42	0	0	57	0.98
2274483--2274520	14	2.5	15	87	12	51	50	2	0	47	1.15
2275586--2275655	18	3.6	18	71	23	61	1	21	22	54	1.53
2275585--2275669	41	2.1	41	100	0	170	2	22	21	54	1.56
2275602--2275664	18	3.2	18	68	20	54	3	22	20	53	1.59
2277068--2277134	2	34.0	2	96	3	127	50	0	0	49	1.00
2279021--2279088	28	2.2	31	87	12	97	42	1	0	55	1.08
2281236--2281261	2	13.0	2	100	0	52	0	50	0	50	1.00
2281261--2281293	2	16.5	2	100	0	66	48	0	0	51	1.00
2282691--2282729	3	13.0	3	100	0	78	66	0	0	33	0.92
2283517--2283560	3	15.0	3	95	4	81	68	0	0	31	0.90
2283774--2283819	22	2.0	24	84	12	62	50	0	0	50	1.00
2284267--2284298	16	2.0	16	93	0	55	59	0	0	40	0.97
2288211--2288242	15	2.2	14	94	5	55	0	18	0	81	0.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2289473--2289512	2	20.0	2	94	0	71	0	47	0	52	1.00
2289822--2289862	20	2.0	20	86	9	57	48	0	0	51	1.00
2290739--2290772	3	11.3	3	100	0	68	35	0	0	64	0.94
2293161--2293189	2	14.5	2	100	0	58	48	0	0	51	1.00
2293754--2293784	6	5.2	6	100	0	62	67	0	0	32	0.91
2294066--2294119	21	2.8	18	71	17	54	38	1	1	57	1.20
2294247--2294280	17	1.9	17	88	5	50	29	0	2	67	1.05
2300268--2300312	24	1.9	23	86	4	63	40	0	0	60	0.97
2302861--2302885	2	12.5	2	100	0	50	52	0	0	48	1.00
2302900--2302926	3	9.0	3	100	0	54	0	33	0	66	0.92
2305334--2305363	2	15.0	2	100	0	60	50	0	0	50	1.00
2305657--2305717	10	5.9	10	72	14	52	57	0	0	42	0.98
2305663--2305717	21	2.5	22	88	5	76	60	0	0	40	0.97
2305671--2305714	11	4.0	11	79	8	54	54	0	0	45	0.99
2311785--2311900	59	2.0	58	94	1	205	37	20	12	30	1.89
2311966--2312010	22	2.0	22	100	0	90	46	22	4	26	1.70
2317827--2317983	60	2.6	60	88	0	215	29	15	13	41	1.85
2325239--2325266	2	14.0	2	100	0	56	50	0	0	50	1.00
2330380--2330465	34	2.5	33	78	14	86	38	2	2	56	1.25
2331226--2331262	18	2.1	18	89	0	56	29	2	0	67	1.04
2331246--2331303	17	3.4	17	78	17	59	43	0	0	56	0.99
2331274--2331311	17	2.2	18	85	4	51	42	2	2	52	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2331969--2332038	21	3.5	21	79	12	76	44	2	5	47	1.41
2333135--2333159	13	1.9	13	100	0	50	56	28	0	16	1.41
2333430--2333473	23	1.9	23	81	9	54	56	0	0	43	0.99
2334257--2334317	29	2.1	29	85	8	81	63	0	0	36	0.94
2334280--2334342	17	3.8	17	76	21	71	63	0	0	36	0.95
2338198--2338223	2	13.0	2	100	0	52	50	0	0	50	1.00
2338228--2338300	34	2.1	35	82	7	87	50	0	0	49	1.00
2338228--2338300	38	2.0	35	86	7	101	50	0	0	49	1.00
2338867--2338895	6	5.0	6	91	8	51	34	0	0	65	0.93
2340333--2340388	24	2.4	24	80	11	64	42	1	3	51	1.29

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