genome.fa.s127.2.7.7.80.10.50.1000.13.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: Scaffold127
Parameters: 2 7 7 80 10 50 1000
Length:  4281254

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  ( 3103 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)
2179976--2180054	27	3.0	27	78	10	83	54	0	0	45	0.99
2182703--2182746	22	2.0	22	81	0	52	54	2	0	43	1.12
2183111--2183267	74	2.1	75	81	11	178	33	22	19	24	1.97
2189440--2189465	2	13.0	2	100	0	52	50	0	0	50	1.00
2189517--2189591	27	2.7	27	78	15	73	48	0	0	52	1.00
2190182--2190279	26	3.7	26	66	22	60	46	0	2	51	1.12
2195748--2195793	17	2.5	18	82	13	58	52	0	0	47	1.00
2195737--2195780	23	2.0	22	82	13	54	54	0	0	45	0.99
2195760--2195794	17	2.0	18	94	5	63	51	0	0	48	1.00
2195892--2195924	13	2.4	14	90	5	50	42	0	0	57	0.98
2196009--2196061	14	3.2	18	80	20	62	62	0	0	37	0.96
2196086--2196141	17	3.1	17	73	19	51	69	0	0	30	0.89
2196019--2196160	71	2.0	72	90	1	223	59	0	0	40	0.97
2196107--2196144	20	1.9	19	89	5	58	63	0	0	36	0.95
2196768--2196810	16	2.6	17	85	7	61	51	0	0	48	1.00
2197813--2198148	72	4.6	73	81	6	362	55	13	2	28	1.50
2198337--2198377	3	13.7	3	89	0	64	31	0	4	63	1.15
2198788--2198828	3	14.0	3	94	5	75	34	0	0	65	0.93
2200436--2200462	2	13.5	2	100	0	54	51	0	0	48	1.00
2202354--2202382	2	14.5	2	100	0	58	48	0	0	51	1.00
2204645--2204671	2	13.5	2	100	0	54	51	0	0	48	1.00
2205106--2205145	21	2.0	20	85	5	53	25	12	0	62	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2205148--2205184	2	18.5	2	94	0	65	48	0	2	48	1.15
2205629--2205689	21	2.8	21	80	7	59	54	1	1	42	1.20
2205955--2205994	20	2.0	20	90	0	62	50	0	0	50	1.00
2205957--2206000	20	2.2	20	83	0	52	56	0	0	43	0.99
2215485--2215519	2	17.5	2	93	0	61	54	0	0	45	0.99
2215904--2215951	25	1.9	25	86	0	69	39	14	33	12	1.84
2221199--2221227	2	14.5	2	100	0	58	51	0	48	0	1.00
2231791--2231839	21	2.3	20	80	10	53	65	2	0	32	1.04
2231836--2231881	22	2.1	21	84	4	56	69	2	0	28	1.00
2231854--2231915	10	6.1	10	82	1	70	54	3	3	38	1.32
2234292--2234331	3	13.3	3	100	0	80	67	0	0	32	0.91
2234973--2235043	27	2.6	27	88	6	99	46	23	7	22	1.76
2248393--2248433	20	2.0	20	90	0	64	48	7	0	43	1.30
2248619--2248670	11	4.4	11	73	17	50	51	1	1	44	1.23
2248841--2248900	20	3.0	20	100	0	120	40	5	15	40	1.68
2249713--2249750	2	19.0	2	94	0	67	47	0	2	50	1.15
2249779--2249826	22	2.2	22	85	7	62	47	2	2	47	1.25
2251757--2251826	26	2.8	25	78	8	79	44	1	2	51	1.25
2252459--2252488	2	15.0	2	100	0	60	50	0	0	50	1.00
2253750--2253816	20	3.3	20	65	19	57	46	8	2	41	1.50
2253733--2253817	41	2.1	41	100	0	170	50	7	4	37	1.51
2255741--2255765	11	2.3	11	100	0	50	64	0	0	36	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2258242--2258291	21	2.5	21	87	6	68	42	2	0	56	1.11
2261231--2261295	19	3.4	19	69	12	53	55	1	0	43	1.09
2262747--2262801	18	3.1	19	76	10	62	56	0	0	43	0.99
2263330--2263378	24	2.1	24	84	3	64	67	6	0	26	1.14
2266426--2266452	2	13.5	2	100	0	54	51	0	0	48	1.00
2266816--2266872	17	3.5	16	80	9	62	45	0	1	52	1.11
2268471--2268504	15	2.3	14	90	10	50	79	2	5	11	1.02
2269418--2269457	19	2.0	19	85	9	53	50	5	2	42	1.37
2269804--2269844	2	21.0	2	95	5	75	51	0	0	48	1.00
2272148--2272181	2	17.0	2	100	0	68	50	0	0	50	1.00
2272975--2273018	19	2.3	19	80	7	54	34	0	0	65	0.93
2272992--2273043	20	2.5	20	79	20	61	36	0	0	63	0.95
2273105--2273143	13	2.8	14	80	11	53	64	2	2	30	1.21
2273158--2273195	19	2.0	19	85	10	51	60	0	0	39	0.97
2273487--2273572	17	5.1	16	73	18	68	47	0	0	52	1.00
2273515--2273598	32	2.5	33	83	11	100	50	0	0	50	1.00
2275830--2275878	23	2.1	24	88	3	73	63	0	4	32	1.13
2277353--2277397	20	2.1	22	92	8	76	68	0	0	31	0.89
2281253--2281284	11	2.8	11	95	4	55	59	3	0	37	1.13
2281283--2281336	22	2.3	22	84	12	63	31	1	1	64	1.14
2283274--2283332	23	2.6	23	74	12	59	40	1	6	50	1.39
2283991--2284030	20	1.9	20	90	10	62	20	15	0	65	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2285929--2285959	2	15.5	2	100	0	62	48	0	0	51	1.00
2286268--2286322	23	2.3	24	81	12	69	54	0	0	45	0.99
2289170--2289194	5	5.0	5	100	0	50	0	40	40	20	1.52
2289664--2289743	35	2.3	34	82	6	90	43	2	1	52	1.22
2289720--2289759	11	4.0	11	78	21	52	32	0	0	67	0.91
2290830--2290863	3	11.3	3	100	0	68	67	0	0	32	0.91
2292109--2292136	14	2.0	14	100	0	56	35	14	14	35	1.86
2292254--2292283	2	15.5	2	93	6	53	50	0	0	50	1.00
2294874--2294977	53	2.0	53	90	0	163	45	1	3	49	1.31
2295227--2295262	18	2.0	18	88	0	54	13	19	27	38	1.90
2295316--2295352	19	1.9	19	100	0	74	43	5	13	37	1.67
2296433--2296652	109	2.0	109	100	0	440	45	15	12	25	1.82
2303539--2303594	20	2.8	21	78	8	62	64	1	3	30	1.21
2303704--2303740	16	2.4	15	82	8	56	37	0	0	62	0.96
2306843--2306867	2	12.5	2	100	0	50	52	0	48	0	1.00
2308967--2309030	19	3.3	20	78	8	71	71	0	0	28	0.86
2308960--2309029	34	2.2	31	85	12	88	71	0	0	28	0.86
2308964--2309029	25	2.6	25	88	4	98	72	0	0	27	0.85
2309032--2309092	32	1.9	32	93	0	104	52	3	1	42	1.27
2309043--2309095	18	3.2	17	70	29	51	52	3	1	41	1.30
2309071--2309153	19	4.0	19	71	18	67	53	2	2	42	1.27
2309770--2309827	22	2.6	23	75	8	66	36	1	1	60	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2311446--2311505	22	2.8	22	82	10	79	41	0	0	58	0.98
2311448--2311497	21	2.4	21	87	9	68	40	0	0	60	0.97
2312322--2312408	11	8.1	11	77	20	71	62	0	1	36	1.03
2312346--2312413	16	4.1	16	70	22	52	58	0	1	39	1.07
2312381--2312444	17	3.6	18	72	27	57	54	0	0	45	0.99
2312350--2312444	27	3.7	26	75	17	83	57	0	1	41	1.05
2316594--2316657	32	2.0	32	93	0	110	51	14	12	21	1.75
2318476--2318532	30	1.9	30	92	0	96	33	26	7	33	1.83
2325209--2325249	12	3.5	11	87	9	55	48	2	2	46	1.28
2327214--2327252	21	1.9	20	85	15	53	61	0	0	38	0.96
2327499--2327547	23	2.2	23	85	10	66	46	0	0	53	1.00
2327505--2327570	28	2.3	28	84	5	78	46	0	0	53	1.00
2328899--2328930	14	2.2	15	94	5	57	50	0	3	46	1.17
2341833--2341866	5	6.8	5	86	0	50	52	0	0	47	1.00
2341824--2341880	20	2.8	20	89	0	87	45	3	3	47	1.37
2342682--2342730	18	2.6	19	80	6	64	53	0	0	46	1.00
2343789--2343855	23	2.9	22	82	6	71	50	0	0	49	1.00
2343812--2343859	12	4.1	12	76	13	55	56	0	0	43	0.99
2343987--2344019	15	2.2	15	89	10	50	57	15	3	24	1.52
2344865--2344903	11	3.5	11	86	6	60	41	0	0	58	0.98
2344871--2344906	12	3.1	12	84	8	56	38	0	0	61	0.96
2344917--2344990	36	1.9	38	84	13	98	33	1	1	63	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2345178--2345240	16	3.9	16	75	6	65	71	9	0	19	1.13
2345830--2345871	19	2.3	19	84	12	52	33	0	2	64	1.07
2345809--2345871	30	2.1	31	82	8	76	34	1	1	61	1.15
2346194--2346245	16	3.1	16	78	15	61	30	0	0	69	0.89
2346182--2346245	19	3.2	20	77	16	62	34	0	0	65	0.93
2346192--2346281	11	8.5	11	72	18	59	31	2	2	64	1.18
2346182--2346245	5	10.8	6	76	17	55	34	0	0	65	0.93
2352204--2352235	2	16.0	2	100	0	64	50	0	0	50	1.00
2354856--2355340	96	5.1	96	82	3	566	16	25	17	40	1.90
2358243--2358275	15	2.2	15	94	0	57	78	0	0	21	0.75

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