genome.fa.s36.2.7.7.80.10.50.1000.15.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: Scaffold36
Parameters: 2 7 7 80 10 50 1000
Length:  4808052

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   28   

This is table  15  of  28  ( 3342 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)
2338840--2338870	2	15.5	2	100	0	62	48	0	0	51	1.00
2339333--2339359	2	13.5	2	100	0	54	51	0	0	48	1.00
2340380--2340415	2	18.0	2	100	0	72	50	0	0	50	1.00
2340581--2340626	24	1.9	23	83	16	58	41	0	0	58	0.98
2341651--2341723	25	3.0	25	76	20	75	32	0	1	65	1.01
2341687--2341730	20	2.2	21	92	8	74	31	0	0	68	0.90
2341651--2341730	11	7.3	11	68	24	53	32	0	1	66	1.00
2342061--2342089	2	14.5	2	100	0	58	48	0	0	51	1.00
2342148--2342185	19	2.0	20	89	5	60	50	0	0	50	1.00
2342280--2342310	13	2.4	13	94	0	53	19	6	22	51	1.69
2343449--2343495	18	2.6	19	83	9	64	48	0	0	51	1.00
2343520--2343703	104	1.8	98	80	9	217	40	6	4	48	1.49
2343702--2343743	19	2.1	21	86	8	61	47	0	0	52	1.00
2344172--2344211	20	2.0	20	85	9	55	60	0	0	40	0.97
2344174--2344220	20	2.6	18	76	10	51	57	0	0	42	0.98
2344770--2344825	28	2.0	28	86	6	78	57	1	1	39	1.20
2345621--2345681	23	2.7	21	78	14	59	45	3	0	50	1.17
2346300--2346371	21	3.5	20	75	11	65	45	13	1	38	1.53
2347041--2347078	17	2.3	17	86	4	51	34	0	2	63	1.09
2347051--2347082	16	1.9	17	93	6	57	37	0	0	62	0.95
2347384--2347419	3	12.0	3	100	0	72	66	0	33	0	0.92
2347826--2347879	21	2.5	22	82	11	69	53	0	0	46	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2347863--2347896	9	3.7	9	88	7	50	50	0	0	50	1.00
2349144--2349186	13	3.4	13	93	3	70	34	0	2	62	1.08
2350430--2350499	24	2.8	25	89	6	99	44	25	8	21	1.80
2350484--2350554	27	2.6	27	88	6	99	46	23	7	22	1.76
2350432--2350557	24	4.9	24	77	12	92	46	25	7	21	1.77
2355021--2355090	24	2.8	25	89	6	99	44	25	8	21	1.80
2355075--2355145	27	2.6	27	86	6	90	46	22	7	23	1.76
2355023--2355148	24	4.9	24	75	12	83	46	24	7	22	1.77
2355498--2355529	2	16.0	2	100	0	64	50	0	0	50	1.00
2356385--2356428	24	1.9	24	86	9	65	54	0	0	45	0.99
2356445--2356490	13	3.5	13	77	16	51	58	0	2	39	1.10
2357182--2357209	13	2.2	13	100	0	56	14	28	25	32	1.94
2359077--2359122	14	3.1	16	81	15	62	54	0	0	45	0.99
2359586--2359642	24	2.2	27	87	9	84	66	1	0	31	1.02
2359600--2359648	20	2.5	21	81	15	61	65	0	0	34	0.93
2365903--2365977	21	3.5	21	85	3	87	40	1	0	58	1.06
2366260--2366386	65	1.9	66	84	7	170	42	3	1	52	1.26
2366506--2366557	21	2.5	20	77	17	70	38	13	1	46	1.54
2366740--2366794	16	3.4	17	75	25	55	40	0	0	60	0.97
2366737--2366821	32	2.6	32	84	5	98	41	0	0	58	0.98
2366742--2366844	30	3.4	29	80	11	109	39	0	0	60	0.97
2367523--2367565	16	2.7	16	79	13	52	72	0	23	4	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2368955--2368994	21	1.9	21	90	10	64	42	2	2	52	1.28
2369028--2369057	7	4.4	7	95	4	53	13	0	0	86	0.57
2369074--2369114	13	2.9	15	78	14	50	39	0	2	58	1.11
2368951--2369172	122	1.8	119	80	8	261	40	0	2	56	1.18
2369220--2369307	31	2.9	31	78	6	83	46	1	1	51	1.15
2369704--2369746	21	2.0	21	86	8	61	55	0	0	44	0.99
2370467--2370540	32	2.3	33	82	15	93	37	2	1	58	1.21
2370467--2370557	32	2.8	32	78	15	91	37	2	1	59	1.17
2375549--2375595	3	15.7	3	100	0	94	31	0	0	68	0.90
2375764--2375840	23	3.3	23	72	13	61	48	2	1	48	1.23
2376014--2376089	32	2.5	31	81	14	79	39	0	1	59	1.06
2376034--2376104	30	2.2	31	78	14	74	39	1	2	56	1.23
2376264--2376296	13	2.4	14	90	5	50	30	0	6	63	1.18
2376262--2376322	32	2.0	29	84	9	77	29	0	3	67	1.07
2378654--2378684	2	15.5	2	100	0	62	51	0	0	48	1.00
2381214--2381272	11	5.5	11	78	8	59	44	1	0	54	1.10
2381214--2381268	23	2.4	22	80	19	60	41	1	0	56	1.10
2381434--2381485	23	2.3	23	86	0	68	61	0	3	34	1.14
2388048--2388127	37	2.1	39	88	4	119	55	5	2	37	1.35
2389271--2389330	6	10.3	6	73	20	56	61	0	1	36	1.06
2389992--2390034	22	2.0	21	81	4	50	62	2	2	32	1.20
2390575--2390603	15	1.9	15	100	0	58	68	0	0	31	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2390736--2390787	22	2.5	21	70	11	54	44	0	0	55	0.99
2390749--2390794	24	2.0	24	87	8	69	39	0	0	60	0.97
2390739--2390825	36	2.4	36	76	17	99	43	0	0	56	0.99
2391794--2391833	21	1.9	21	85	10	55	50	0	0	50	1.00
2402941--2402975	18	1.9	18	88	0	52	40	0	0	60	0.97
2408037--2408145	45	2.3	49	78	15	113	47	0	0	52	1.00
2409058--2409104	24	2.0	24	87	8	69	46	0	0	53	1.00
2410591--2410647	16	3.5	16	81	11	55	36	1	0	61	1.07
2411328--2411366	17	2.3	17	86	0	51	53	0	0	46	1.00
2412009--2412057	15	3.1	16	77	11	64	55	0	2	42	1.11
2412008--2412058	17	3.1	17	78	21	72	52	0	1	45	1.12
2412008--2412069	32	1.9	32	90	0	97	56	0	1	41	1.09
2413877--2413904	5	5.6	5	100	0	56	82	0	0	17	0.68
2414051--2414078	13	2.2	13	100	0	56	64	0	0	35	0.94
2415628--2415655	2	14.0	2	100	0	56	50	0	0	50	1.00
2415736--2415772	6	6.2	6	90	0	56	43	0	2	54	1.14
2418095--2418143	13	3.8	14	92	7	70	59	0	0	40	0.98
2418102--2418143	3	13.0	3	90	9	57	61	0	0	38	0.96
2418102--2418140	16	2.4	17	95	4	71	61	0	0	38	0.96
2420688--2420748	23	2.6	24	79	10	72	27	0	3	68	1.05
2422043--2422075	2	16.5	2	100	0	66	48	0	0	51	1.00
2424394--2424421	3	9.3	3	100	0	56	67	0	0	32	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2425521--2425573	6	8.8	6	97	0	88	37	0	11	50	1.38
2425518--2425576	18	3.3	18	90	0	82	40	0	10	49	1.37
2426053--2426195	8	15.9	9	70	24	56	40	0	0	59	0.97
2426057--2426192	16	8.2	17	68	23	69	40	0	0	59	0.97
2426056--2426112	28	2.0	28	83	6	71	36	0	0	63	0.95
2426119--2426204	28	3.1	28	75	20	90	38	0	0	61	0.96
2426145--2426195	17	3.0	17	75	11	50	37	0	0	62	0.95
2426108--2426193	24	3.7	25	77	13	78	41	0	0	58	0.98
2426263--2426292	4	7.2	4	92	7	51	46	0	0	53	1.00
2426260--2426289	13	2.3	13	100	0	60	46	0	0	53	1.00
2426263--2426305	17	2.5	17	88	11	61	48	0	0	51	1.00
2432034--2432093	19	3.4	17	80	15	59	46	0	0	53	1.00
2433139--2433225	32	2.9	27	70	25	68	45	0	0	54	1.00
2433165--2433234	16	4.3	16	72	21	56	47	0	0	52	1.00
2433157--2433225	32	2.2	32	87	5	97	49	0	0	50	1.00
2434574--2434603	10	3.0	10	95	0	51	56	0	0	43	0.99
2435243--2435316	28	2.8	26	76	8	76	41	0	0	58	0.98
2435267--2435315	20	2.4	21	83	10	57	34	0	0	65	0.93
2435307--2435363	27	2.1	26	81	12	62	54	3	0	42	1.17
2441840--2441904	33	1.9	35	87	12	100	50	0	3	46	1.17
2444165--2444206	3	13.7	3	85	14	59	69	0	2	28	1.01
2444813--2444841	15	2.0	15	93	6	51	41	3	0	55	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2447199--2447246	24	2.0	24	91	0	78	27	18	10	43	1.82
2447488--2447603	35	3.3	35	92	0	178	35	22	12	29	1.91
2447488--2447616	35	3.7	35	88	0	177	37	20	13	28	1.91
2447731--2447806	35	2.2	35	90	0	116	39	14	14	31	1.86
2450668--2450693	2	13.0	2	100	0	52	50	0	0	50	1.00
2451021--2451056	3	12.0	3	100	0	72	66	0	0	33	0.92
2458161--2458194	2	17.0	2	100	0	68	50	0	0	50	1.00
2458267--2458298	2	16.0	2	100	0	64	50	0	0	50	1.00
2458428--2458456	3	9.7	3	100	0	58	68	0	0	31	0.89
2458427--2458468	9	4.6	10	85	14	56	71	0	0	28	0.86

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   28