genome.fa.s39.2.7.7.80.10.50.1000.25.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: Scaffold39
Parameters: 2 7 7 80 10 50 1000
Length:  4724573

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  25  of  27  ( 3195 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)
4221907--4221931	13	1.9	13	100	0	50	36	16	16	32	1.90
4223063--4223088	13	2.0	13	100	0	52	38	15	15	30	1.88
4223138--4223208	19	3.6	19	92	7	124	36	19	11	32	1.87
4226327--4226382	21	2.7	21	91	0	85	28	23	12	35	1.91
4228754--4228778	13	1.9	13	100	0	50	32	16	16	36	1.90
4228767--4228804	20	1.9	20	100	0	76	39	18	15	26	1.91
4228883--4228935	20	2.7	20	100	0	106	26	15	22	35	1.93
4229470--4229530	30	2.0	31	87	6	90	42	18	1	37	1.60
4237596--4237651	19	2.9	19	86	2	76	35	12	17	33	1.88
4237648--4237688	20	2.0	20	100	0	82	46	14	14	24	1.82
4239349--4239386	20	1.9	20	94	0	67	31	18	5	44	1.72
4240209--4240249	10	4.1	10	96	0	73	19	21	9	48	1.77
4240228--4240326	52	1.9	52	87	0	144	28	16	14	41	1.87
4242380--4242436	21	2.7	21	88	0	78	66	0	15	17	1.25
4248562--4248599	19	2.0	19	94	0	67	39	13	10	36	1.79
4248695--4248980	76	3.8	76	78	5	274	43	9	5	41	1.61
4248701--4248991	153	1.9	152	83	6	383	43	9	6	41	1.62
4249184--4249356	91	1.9	91	86	0	247	36	12	13	37	1.83
4250448--4250503	19	2.8	20	86	2	78	32	17	16	33	1.92
4250449--4250502	20	2.8	19	88	2	72	33	16	14	35	1.90
4252974--4252999	13	2.0	13	100	0	52	38	15	15	30	1.88
4252952--4253019	33	2.1	32	88	2	100	33	14	16	35	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4253051--4253103	20	2.6	21	78	3	63	30	16	13	39	1.87
4253091--4253119	13	2.2	13	100	0	58	37	13	17	31	1.89
4253105--4253155	20	2.5	20	87	0	66	33	15	15	35	1.90
4253671--4253714	21	2.0	21	82	4	52	29	31	2	36	1.70
4255531--4255569	13	3.0	13	92	0	69	33	15	20	30	1.94
4261728--4261753	13	2.0	13	100	0	52	38	15	15	30	1.88
4261706--4261773	33	2.1	32	88	2	100	33	14	16	35	1.89
4261805--4261857	20	2.6	21	84	3	72	28	16	15	39	1.89
4261859--4261909	20	2.5	20	83	0	57	33	13	15	37	1.87
4268640--4268699	20	3.2	18	78	15	68	30	20	15	35	1.93
4268646--4268699	19	2.8	20	88	2	83	31	18	14	35	1.91
4272919--4272961	22	2.0	21	82	13	52	23	2	6	67	1.27
4274668--4274723	26	2.1	27	83	9	71	32	7	3	57	1.43
4275289--4275317	3	9.7	3	100	0	58	65	0	0	34	0.93
4275523--4275565	3	14.3	3	95	0	77	32	2	0	65	1.06
4275823--4275861	20	1.9	21	89	5	62	30	7	0	61	1.24
4284238--4284292	23	2.3	24	90	9	94	56	10	7	25	1.59
4295962--4296002	2	20.5	2	100	0	82	48	0	0	51	1.00
4297457--4297496	6	6.7	6	94	0	71	82	0	0	17	0.67
4297946--4298003	18	3.3	18	75	20	59	60	1	0	37	1.07
4307846--4307886	11	3.8	11	78	18	50	68	0	0	31	0.90
4309600--4309638	19	2.1	18	85	4	51	61	2	0	35	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4310255--4310302	8	5.6	8	76	13	51	37	2	2	58	1.22
4312334--4312375	21	2.0	21	100	0	84	42	9	19	28	1.82
4312362--4312387	13	2.0	13	100	0	52	30	15	15	38	1.88
4314749--4314849	52	1.9	53	91	2	168	29	25	10	33	1.90
4314757--4314872	52	2.2	52	81	3	144	31	28	8	31	1.87
4314885--4315119	79	3.0	77	77	8	231	26	28	14	31	1.95
4317478--4317533	20	2.8	19	83	5	67	37	16	16	30	1.90
4321694--4321732	15	2.6	15	87	0	51	51	12	20	15	1.76
4323798--4323822	13	1.9	13	100	0	50	32	20	16	32	1.94
4323934--4323979	21	2.2	20	81	11	58	32	19	4	43	1.71
4325433--4325476	23	2.0	21	82	8	52	15	9	15	59	1.61
4325699--4325737	18	2.2	18	95	0	69	41	7	15	35	1.76
4327048--4327073	13	2.0	13	100	0	52	30	15	15	38	1.88
4327112--4327187	21	3.7	21	80	3	100	28	17	11	42	1.84
4327133--4327205	20	3.6	20	81	3	101	31	19	13	35	1.91
4327112--4327205	41	2.3	41	98	0	179	29	18	12	39	1.88
4329613--4329650	13	2.9	13	96	0	67	31	15	18	34	1.92
4331732--4331762	15	2.1	15	93	0	53	12	22	16	48	1.80
4333569--4333613	21	2.1	21	84	8	56	22	20	4	53	1.63
4335839--4335864	13	2.0	13	100	0	52	30	15	15	38	1.88
4335903--4335978	21	3.7	21	80	3	100	28	17	11	42	1.84
4335924--4335996	20	3.6	20	81	3	101	31	19	13	35	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4335903--4335996	41	2.3	41	98	0	179	29	18	12	39	1.88
4336390--4336415	13	2.0	13	100	0	52	38	15	15	30	1.88
4336372--4336435	32	2.0	33	90	3	103	42	15	14	28	1.86
4337943--4338029	43	2.0	43	100	0	174	51	9	11	27	1.68
4338834--4338935	26	3.9	25	83	7	114	39	13	9	37	1.78
4338834--4338937	52	2.0	53	86	1	147	39	13	9	37	1.77
4341677--4341750	21	3.6	20	81	3	67	39	10	17	32	1.84
4342214--4342279	33	2.0	33	100	0	132	27	12	18	42	1.85
4343228--4343524	148	2.0	148	96	1	542	25	28	12	33	1.92
4348610--4348880	135	2.0	135	98	0	524	33	14	15	36	1.88
4355557--4355604	15	3.2	15	75	0	51	39	41	0	18	1.51
4361558--4361605	13	3.6	13	80	8	53	81	14	2	2	0.88
4361563--4361606	17	2.6	16	83	16	54	79	15	2	2	0.93
4362925--4362997	28	2.6	28	82	0	74	35	27	15	21	1.93
4362943--4363129	28	6.6	28	81	3	142	31	30	15	22	1.95
4362947--4363214	56	4.8	55	76	6	205	30	30	16	22	1.96
4362997--4363525	28	18.4	28	79	6	409	28	30	17	22	1.97
4362890--4363506	84	7.2	84	76	8	431	29	30	17	23	1.97
4364447--4364523	20	3.8	20	80	0	100	32	15	10	41	1.81
4368106--4368160	20	2.8	20	94	0	92	40	14	12	32	1.84
4368994--4369114	61	2.0	61	83	3	154	36	14	24	24	1.93
4369067--4369214	52	2.8	52	81	0	188	33	16	25	25	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4369175--4369325	43	3.6	41	71	11	121	29	18	26	25	1.98
4369186--4369389	82	2.3	83	78	13	196	29	17	26	25	1.98
4369300--4369435	51	2.6	51	82	2	155	32	17	24	25	1.97
4369402--4369552	39	3.6	38	73	19	140	29	19	23	27	1.98
4369350--4369569	88	2.5	90	88	3	320	30	18	23	27	1.97
4369172--4369672	231	2.2	227	84	6	659	31	16	24	27	1.97
4369756--4369933	27	6.3	26	73	12	113	30	12	32	24	1.92
4369784--4369971	88	2.1	88	81	0	250	32	11	31	24	1.91
4369926--4369990	34	1.9	34	96	0	121	33	10	33	21	1.88
4369980--4370199	27	7.9	27	68	18	101	34	12	29	24	1.92
4370177--4370635	34	14.0	33	77	10	408	37	11	29	21	1.89
4370279--4370337	26	2.2	27	90	3	102	32	10	33	23	1.88
4370319--4370635	33	9.6	33	78	11	301	38	11	28	21	1.88
4370320--4370635	66	4.8	67	85	4	410	38	11	28	21	1.88
4370057--4370596	158	3.4	155	80	9	497	36	11	29	22	1.90
4370322--4370635	132	2.4	133	89	3	456	38	11	28	21	1.88
4383327--4383455	52	2.5	52	96	0	231	30	17	17	34	1.93
4383327--4383475	52	2.9	51	89	4	219	31	17	17	33	1.93
4383529--4383595	33	2.0	33	88	0	98	40	14	11	32	1.83
4383551--4383575	13	1.9	13	100	0	50	32	16	16	36	1.90
4384645--4384794	33	4.7	32	67	16	96	40	14	26	19	1.89
4384650--4384709	27	2.2	27	87	0	84	36	13	30	20	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4384533--4384732	61	3.3	60	75	7	188	37	12	28	22	1.90
4384810--4385106	64	4.7	64	73	12	213	32	14	30	21	1.93
4384774--4385120	33	10.9	34	68	13	127	32	14	30	21	1.94
4384773--4385146	92	4.0	95	84	5	365	32	14	31	21	1.93
4384815--4385146	30	10.7	31	70	16	167	31	15	31	21	1.94
4384871--4385148	92	3.0	92	88	4	369	31	15	31	21	1.94
4386345--4386406	16	3.8	16	76	4	61	0	1	19	79	0.82
4386356--4386408	10	5.0	10	76	13	52	0	1	16	81	0.79
4393612--4393637	13	2.0	13	100	0	52	30	15	15	38	1.88
4405152--4405190	20	2.0	20	90	10	62	87	10	0	2	0.65

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