genome.fa.s48.2.7.7.80.10.50.1000.15.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: Scaffold48
Parameters: 2 7 7 80 10 50 1000
Length:  4619657

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  15  of  27  ( 3212 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)
2245728--2245834	40	2.7	40	74	16	114	42	0	0	57	0.99
2245757--2245817	22	2.9	22	79	13	74	45	0	0	54	1.00
2245769--2245831	32	1.9	33	90	3	101	46	0	0	53	1.00
2245725--2245834	25	5.4	20	69	28	65	43	0	0	56	0.99
2246081--2246150	28	2.5	28	80	17	76	30	5	1	62	1.27
2246445--2246498	22	2.5	20	81	18	65	57	1	1	38	1.20
2246451--2246496	23	2.1	21	88	11	67	65	0	2	32	1.05
2247215--2247255	18	2.1	20	86	13	59	41	4	0	53	1.22
2247954--2247990	18	2.0	19	94	5	67	59	0	2	37	1.12
2248277--2248412	47	2.9	47	78	7	150	44	11	4	38	1.61
2248298--2248363	24	2.8	24	71	15	66	43	6	4	45	1.49
2249215--2249258	17	2.6	17	85	0	52	47	9	2	40	1.48
2251484--2251521	11	3.6	11	82	13	53	71	0	0	28	0.87
2251816--2251876	12	4.8	12	74	9	50	70	3	1	24	1.11
2251836--2251899	28	2.3	28	77	15	71	70	4	0	25	1.06
2251973--2252023	15	3.3	15	77	2	57	0	17	0	82	0.67
2251973--2252031	30	2.0	28	87	6	82	0	20	0	79	0.73
2251995--2252031	19	1.9	19	94	0	65	0	27	0	72	0.84
2251980--2252039	30	2.0	30	83	0	75	1	26	0	71	0.95
2253047--2253452	202	2.0	202	100	0	812	30	19	13	37	1.90
2256057--2256128	11	6.7	11	75	12	62	56	1	1	40	1.16
2256111--2256187	28	2.9	26	79	11	84	57	1	0	41	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2256158--2256253	50	2.0	49	82	13	121	55	1	0	43	1.06
2257489--2257540	27	2.0	27	85	10	74	48	0	1	50	1.12
2257493--2257548	25	2.3	26	79	17	66	48	0	3	48	1.19
2257897--2257952	27	2.1	27	83	6	69	37	0	0	62	0.95
2259732--2259766	18	1.9	18	88	0	52	40	5	8	45	1.58
2260654--2260704	14	3.6	14	77	17	61	54	0	0	45	0.99
2260700--2260737	20	2.0	20	85	10	53	52	0	2	44	1.14
2260722--2260746	2	12.5	2	100	0	50	48	0	0	52	1.00
2261652--2261700	21	2.3	21	75	6	55	46	0	4	48	1.20
2264907--2264932	2	13.0	2	100	0	52	50	0	0	50	1.00
2266299--2266355	20	2.8	20	79	10	62	43	0	1	54	1.10
2266334--2266440	20	5.9	19	69	25	63	40	0	2	57	1.14
2266331--2266417	32	2.6	33	80	7	104	43	0	2	54	1.13
2266355--2266440	39	2.2	38	82	12	102	37	0	3	59	1.15
2266404--2266441	17	2.2	17	86	9	51	31	0	2	65	1.06
2266409--2266456	23	2.1	23	84	7	62	29	0	2	68	1.01
2266394--2266450	19	3.1	19	78	14	57	33	0	1	64	1.04
2266738--2266787	14	3.6	14	75	17	50	34	0	4	62	1.14
2267803--2267844	21	2.1	19	86	13	57	59	0	0	40	0.97
2271186--2271270	38	2.3	38	84	10	104	43	0	1	55	1.07
2272797--2272860	13	5.2	12	74	18	51	45	0	0	54	0.99
2280266--2280318	25	2.1	25	85	0	70	35	3	15	45	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2282524--2282552	2	15.0	2	92	7	51	48	0	0	51	1.00
2283322--2283353	3	10.7	3	100	0	64	34	0	0	65	0.93
2284767--2284806	2	20.0	2	100	0	80	50	0	0	50	1.00
2287033--2287098	30	2.0	31	83	13	80	62	4	3	30	1.30
2287092--2287134	17	2.3	18	84	11	52	60	4	0	34	1.17
2292804--2292836	2	16.5	2	100	0	66	51	0	0	48	1.00
2293062--2293117	20	2.8	21	71	13	55	55	1	0	42	1.10
2293071--2293108	19	2.0	20	89	5	60	50	2	0	47	1.15
2294641--2294679	12	3.2	12	85	3	51	64	0	7	28	1.21
2294886--2294936	24	2.1	26	82	13	65	49	1	0	49	1.12
2297910--2297940	16	1.9	16	93	0	53	0	16	6	77	0.97
2300536--2300597	30	2.1	30	93	0	106	46	11	4	37	1.61
2300643--2300674	15	2.1	15	100	0	64	0	25	0	75	0.81
2300947--2300984	2	19.0	2	100	0	76	50	0	0	50	1.00
2302382--2302410	2	14.5	2	100	0	58	48	0	51	0	1.00
2304311--2304340	3	10.0	3	100	0	60	66	0	0	33	0.92
2304558--2304593	2	18.0	2	100	0	72	50	0	0	50	1.00
2305180--2305237	25	2.4	25	80	13	77	39	5	1	53	1.33
2310581--2310608	2	14.0	2	100	0	56	50	0	50	0	1.00
2311109--2311569	161	2.8	161	85	5	617	45	17	15	22	1.85
2312260--2312309	22	2.3	21	86	13	66	58	0	0	42	0.98
2312260--2312309	21	2.3	22	86	13	68	58	0	0	42	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2312898--2313008	52	2.1	53	83	9	138	45	0	2	51	1.15
2313225--2313275	21	2.4	20	81	18	59	43	1	9	45	1.48
2319298--2319322	7	3.6	7	100	0	50	0	40	0	60	0.97
2321232--2321313	42	2.0	42	97	0	155	25	12	18	43	1.84
2324209--2324242	12	2.7	12	90	9	50	85	2	8	2	0.80
2327501--2327539	2	19.5	2	100	0	78	48	0	0	51	1.00
2331283--2331326	23	1.9	23	100	0	88	36	6	4	52	1.49
2331796--2331830	3	11.7	3	100	0	70	0	34	0	65	0.93
2335837--2335899	18	3.6	18	73	18	60	46	0	1	52	1.10
2335844--2335910	34	2.0	34	85	5	91	49	0	1	49	1.10
2336171--2336215	21	2.0	21	87	8	63	60	0	0	40	0.97
2336675--2336699	13	1.9	13	100	0	50	48	8	16	28	1.74
2337161--2337213	23	2.2	23	87	12	72	49	1	1	47	1.23
2337351--2337416	20	3.7	18	78	19	59	60	0	0	39	0.97
2337356--2337426	22	3.1	22	73	25	58	63	0	0	36	0.95
2337360--2337416	20	3.1	19	82	10	73	61	0	0	38	0.96
2339602--2339631	14	2.2	13	94	5	51	43	0	0	56	0.99
2339616--2339667	19	2.8	19	82	8	54	48	3	0	48	1.20
2339652--2339694	20	2.2	20	91	0	68	41	6	0	51	1.29
2339624--2339697	19	3.7	20	77	14	71	44	4	0	51	1.20
2340025--2340060	17	2.1	18	89	5	56	63	0	0	36	0.94
2340166--2340209	16	2.8	16	83	10	56	38	0	0	61	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2340212--2340318	37	2.9	36	81	10	101	45	3	0	50	1.19
2340264--2340296	17	1.9	17	88	11	50	48	0	0	51	1.00
2340229--2340307	37	2.1	37	88	7	113	45	1	0	53	1.08
2340388--2340439	27	1.9	27	85	14	72	40	0	0	59	0.97
2340395--2340461	21	3.3	21	80	10	70	34	0	0	65	0.93
2340404--2340458	27	2.1	27	82	3	67	34	0	0	65	0.93
2340386--2340491	36	2.7	38	77	8	108	40	0	0	58	1.04
2341138--2341166	2	14.5	2	100	0	58	48	0	0	51	1.00
2341452--2341513	32	1.9	32	90	0	97	38	0	0	61	0.96
2342065--2342101	2	18.5	2	100	0	74	51	0	48	0	1.00
2342254--2342314	17	3.5	17	78	14	63	54	0	0	45	1.00
2343327--2343435	27	3.9	28	75	19	102	42	0	0	56	1.05
2343333--2343490	27	5.8	28	72	19	95	40	0	0	58	1.07
2343420--2343490	25	2.9	25	83	6	74	42	0	1	56	1.08
2343334--2343498	9	16.9	10	65	17	71	40	1	0	57	1.11
2343362--2343515	14	11.5	13	64	21	52	40	1	0	56	1.15
2343656--2343691	15	2.5	15	90	4	56	75	0	0	25	0.81
2343897--2343926	2	15.0	2	92	0	51	46	3	0	50	1.18
2345359--2345876	208	2.5	207	81	5	591	37	8	7	46	1.63
2345673--2346672	251	4.0	251	91	2	1552	39	8	7	43	1.65
2345673--2346672	501	2.0	498	91	1	1608	39	8	7	43	1.65
2347176--2347223	25	1.9	26	83	8	64	39	2	0	58	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2347357--2347400	21	2.2	19	84	8	52	45	2	0	52	1.13
2348803--2348854	28	2.0	27	82	14	65	61	0	3	34	1.14
2348836--2348865	15	1.9	15	93	6	51	60	0	0	40	0.97
2348950--2349001	20	2.7	20	77	17	56	48	1	7	42	1.43
2350072--2350103	3	10.7	3	93	0	55	65	34	0	0	0.93
2351928--2351960	2	16.5	2	100	0	66	48	0	0	51	1.00
2351960--2351994	2	17.5	2	100	0	70	0	0	48	51	1.00
2356679--2356708	15	1.9	16	93	6	53	46	0	0	53	1.00
2356745--2356774	15	2.0	15	100	0	60	40	0	0	60	0.97
2357087--2357129	16	2.4	18	81	11	54	46	9	0	44	1.35

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