genome.fa.s29.2.7.7.80.10.50.1000.28.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: Scaffold29
Parameters: 2 7 7 80 10 50 1000
Length:  5511024

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   29   30   31   32   
          33   34   

This is table  28  of  34  ( 4030 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)
4344697--4345007	162	1.9	162	81	4	376	26	10	8	54	1.64
4344647--4345056	163	2.5	161	76	8	391	27	10	8	52	1.65
4347514--4347839	155	2.1	155	82	3	379	26	17	17	38	1.92
4349117--4349796	80	8.5	79	76	5	532	26	28	16	29	1.97
4349108--4349688	241	2.4	239	82	2	666	26	28	15	29	1.96
4349655--4349850	78	2.5	79	83	1	250	27	25	19	28	1.99
4358653--4358686	12	2.8	12	86	4	50	88	8	2	0	0.62
4359701--4360198	33	15.8	33	74	15	276	19	29	13	36	1.91
4359701--4360198	66	7.9	65	76	10	319	19	29	13	36	1.91
4359958--4360195	27	8.0	27	76	16	154	21	30	13	34	1.91
4359886--4360198	60	5.1	60	80	9	335	20	30	12	36	1.89
4360208--4360279	32	2.3	32	90	7	112	27	31	18	22	1.97
4360331--4360683	52	6.9	52	74	10	257	24	25	16	33	1.95
4360376--4360609	101	2.3	103	83	5	296	24	26	17	32	1.96
4360392--4360678	153	1.9	156	84	4	393	24	26	16	33	1.96
4360374--4360675	101	3.0	102	81	6	272	24	26	16	32	1.96
4360620--4360753	61	2.2	61	86	2	180	23	28	10	37	1.88
4375335--4375410	12	6.9	11	75	15	52	39	2	48	9	1.49
4375334--4375419	24	3.8	24	72	17	85	41	2	45	10	1.51
4375325--4375443	42	2.8	42	92	0	193	42	2	46	8	1.47
4378148--4378266	42	2.8	42	90	0	184	42	2	45	9	1.49
4378157--4378242	24	3.8	24	72	17	76	41	2	44	11	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4384145--4384220	12	6.9	11	75	15	52	39	2	48	9	1.49
4384144--4384229	24	3.8	24	72	17	85	41	2	45	10	1.51
4384135--4384253	42	2.8	42	92	0	193	42	2	46	8	1.47
4388457--4388532	12	6.9	11	75	15	52	39	2	48	9	1.49
4388456--4388541	24	3.8	24	72	17	85	41	2	45	10	1.51
4388447--4388565	42	2.8	42	89	0	175	43	2	44	9	1.49
4395942--4395987	24	1.9	24	90	0	74	36	8	23	30	1.85
4396998--4397051	20	2.6	22	82	8	69	31	11	12	44	1.78
4407589--4407835	51	4.9	51	85	4	320	26	10	19	44	1.82
4407589--4407835	100	2.4	101	86	4	336	26	10	19	44	1.82
4414540--4414581	22	1.9	22	85	9	59	42	11	30	14	1.81
4416388--4416453	31	2.1	32	82	2	80	21	21	25	31	1.98
4416540--4416599	28	2.1	28	93	0	102	26	20	28	25	1.99
4416615--4416669	29	1.9	28	88	3	83	27	18	23	30	1.97
4416752--4416941	28	6.5	28	79	8	175	30	20	23	26	1.99
4416752--4416942	31	6.5	29	79	10	167	29	20	23	26	1.99
4416986--4417144	37	4.4	37	90	3	227	22	15	27	35	1.94
4418362--4418493	33	4.0	33	94	0	219	34	5	18	41	1.73
4419733--4419795	32	2.0	32	100	0	126	44	15	12	26	1.83
4423706--4424202	159	3.1	160	78	6	438	31	18	12	37	1.88
4423952--4424299	158	2.2	155	81	5	378	32	17	12	36	1.88
4431222--4431331	42	2.6	42	92	0	184	10	47	2	40	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4431246--4431331	24	3.8	24	69	17	76	11	45	2	40	1.53
4435910--4436005	18	5.4	18	82	4	106	38	9	13	38	1.77
4435926--4436005	37	2.2	36	88	2	115	40	8	12	38	1.74
4446277--4446317	18	2.3	19	79	12	50	9	46	0	43	1.36
4446286--4446398	42	2.7	41	83	2	136	15	41	0	42	1.47
4449007--4449110	18	5.7	18	79	2	109	36	11	11	40	1.78
4449007--4449111	37	2.9	37	91	2	160	36	11	11	40	1.77
4452124--4452199	12	6.9	11	75	15	52	40	1	48	9	1.43
4452123--4452208	24	3.8	24	72	17	76	43	1	45	10	1.46
4452114--4452232	42	2.8	42	90	0	184	43	1	46	8	1.44
4458412--4458525	18	6.2	18	80	4	120	37	7	11	42	1.70
4458407--4458525	37	3.2	37	86	1	159	36	7	11	43	1.70
4467049--4467083	18	1.9	18	88	0	52	11	40	0	48	1.39
4467073--4467137	12	5.9	12	73	23	54	12	46	1	40	1.51
4467051--4467132	42	2.0	42	90	0	128	13	45	1	40	1.51
4471009--4471107	49	2.0	48	94	1	171	25	23	17	34	1.96
4472050--4472093	23	1.9	23	81	9	54	38	22	6	31	1.81
4472458--4472512	20	2.8	20	88	0	74	32	21	10	34	1.89
4475279--4475493	110	2.0	109	89	2	333	43	20	16	19	1.88
4477980--4478056	12	6.9	12	75	19	62	41	0	46	11	1.40
4478001--4478061	9	7.1	9	74	10	65	42	0	44	13	1.43
4477971--4478086	42	2.7	42	89	1	160	45	0	43	10	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4483044--4483204	69	2.3	69	95	0	304	32	21	11	33	1.90
4495395--4495522	52	2.5	52	90	1	204	28	16	19	35	1.93
4495531--4495555	13	1.9	13	100	0	50	36	16	16	32	1.90
4495608--4495670	19	3.7	18	76	24	73	36	17	12	33	1.88
4495602--4495685	32	2.6	32	96	0	159	38	16	11	33	1.86
4495627--4495683	13	3.9	13	76	24	60	33	17	14	35	1.90
4508400--4508476	21	3.7	21	89	3	111	35	12	16	35	1.88
4508512--4508579	19	3.9	18	70	21	56	36	11	13	38	1.81
4508514--4508576	32	2.0	32	87	0	90	36	12	14	36	1.84
4508619--4508644	13	2.0	13	100	0	52	30	15	15	38	1.88
4508599--4508665	33	2.0	33	88	0	98	25	14	16	43	1.86
4511123--4511193	27	2.6	28	88	2	99	23	33	21	21	1.97
4511178--4511348	52	3.3	50	76	11	166	29	26	12	30	1.93
4511011--4511348	104	3.2	104	70	14	296	30	26	12	30	1.93
4511006--4511458	212	2.1	212	85	4	612	28	26	13	30	1.94
4511333--4511404	28	2.6	27	86	8	92	26	30	18	25	1.98
4511069--4511481	107	3.9	107	72	13	278	28	27	14	30	1.95
4520567--4520634	19	3.9	19	78	21	85	35	11	14	38	1.83
4520569--4520631	32	2.0	32	96	0	117	34	12	15	36	1.86
4520588--4520612	13	1.9	13	100	0	50	36	16	16	32	1.90
4520674--4520699	13	2.0	13	100	0	52	30	15	15	38	1.88
4520654--4520720	33	2.0	33	88	0	98	25	14	16	43	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4520738--4520766	15	1.9	15	100	0	58	27	13	17	41	1.87
4523051--4523181	51	2.5	54	81	8	171	29	26	11	32	1.91
4523165--4523241	28	2.8	28	89	0	109	22	33	20	23	1.97
4523195--4523399	79	2.6	79	82	1	232	24	30	16	28	1.97
4529075--4529741	55	12.0	54	86	6	793	27	28	20	23	1.99
4530445--4530521	21	3.7	21	89	3	111	35	12	16	35	1.88
4530557--4530624	19	3.9	19	76	21	76	35	13	14	36	1.85
4530578--4530602	13	1.9	13	100	0	50	36	16	16	32	1.90
4530559--4530621	32	2.0	32	93	0	108	34	14	15	34	1.88
4530644--4530669	13	2.0	13	100	0	52	30	15	15	38	1.88
4533034--4533375	52	6.5	53	70	14	199	30	26	11	31	1.91
4533148--4533232	27	3.0	28	81	8	102	23	30	18	27	1.98
4533097--4533490	107	3.7	103	72	10	319	28	27	13	30	1.94
4533359--4533435	28	2.8	28	87	0	100	23	33	19	23	1.97
4533037--4533442	212	1.9	212	90	2	654	28	27	12	31	1.93
4536346--4536462	20	5.8	20	79	7	130	34	13	12	39	1.83
4536346--4536459	40	2.8	40	95	0	201	35	13	13	38	1.83
4536477--4536531	20	2.8	20	91	0	92	38	9	20	32	1.84
4536425--4536581	71	2.2	71	82	0	188	32	15	13	38	1.87
4545628--4545679	28	1.9	28	88	7	81	78	3	13	3	1.02
4545628--4545673	15	3.3	15	77	20	55	76	4	15	4	1.11
4546426--4546501	12	6.9	11	75	15	52	39	2	48	9	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4546416--4546538	42	2.9	42	92	1	201	43	1	45	9	1.46
4555206--4555334	52	2.5	52	92	0	213	31	17	16	35	1.92
4555206--4555354	52	2.9	51	86	4	201	32	16	16	34	1.92
4555343--4555367	13	1.9	13	100	0	50	36	16	16	32	1.90
4555429--4555453	13	1.9	13	100	0	50	32	16	16	36	1.90
4555408--4555473	32	2.0	33	94	2	116	36	16	12	34	1.86
4556262--4556388	67	1.9	68	83	4	168	38	11	25	24	1.88
4556445--4556843	43	8.7	43	81	11	456	31	18	24	25	1.97
4556392--4556849	92	4.9	92	94	1	774	31	17	24	25	1.97
4556651--4556718	22	3.1	22	62	19	52	32	19	23	25	1.97

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   29   30   31   32   
          33   34