genome.fa.s19.2.7.7.80.10.50.1000.3.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: Scaffold19
Parameters: 2 7 7 80 10 50 1000
Length:  2266706

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   

This is table  3  of  15  ( 1733 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)
298522--298590	16	3.8	18	73	25	56	37	0	0	62	0.96
298523--298587	14	4.6	15	69	19	50	38	0	0	61	0.96
298780--298806	13	2.1	13	100	0	54	40	0	7	51	1.30
299033--299135	6	17.8	6	73	20	62	46	1	0	51	1.12
299035--299075	10	3.8	11	84	12	50	43	2	0	53	1.13
299228--299272	19	2.4	19	80	0	54	48	4	0	46	1.22
300514--300565	20	2.7	20	82	5	63	75	0	21	3	0.97
306139--306202	8	8.1	8	77	3	58	75	0	0	25	0.81
306101--306201	43	2.3	44	85	10	136	72	0	0	27	0.85
306113--306210	32	2.9	32	83	10	108	71	0	0	28	0.86
306114--306211	33	2.9	33	83	8	110	70	0	0	29	0.88
310436--310497	16	3.8	17	74	16	60	41	0	0	58	0.98
310507--310552	11	3.9	12	80	11	51	32	0	0	67	0.91
310500--310550	18	3.1	17	73	15	54	31	0	0	68	0.90
311245--311276	16	2.1	16	88	11	50	53	0	0	46	1.00
314112--314207	12	7.8	12	67	13	61	33	4	1	61	1.22
315261--315294	4	8.5	4	93	0	59	79	20	0	0	0.73
319534--319559	7	3.7	7	100	0	52	38	0	0	61	0.96
319607--319661	22	2.6	21	82	8	58	49	1	0	49	1.11
319629--319663	11	3.2	11	88	12	54	54	0	0	45	0.99
319637--319683	16	2.8	16	87	6	58	48	2	0	48	1.13
319773--319825	17	3.0	17	81	8	61	73	0	0	26	0.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
319796--319824	9	3.3	9	90	9	51	79	0	0	20	0.74
319936--320010	34	2.4	32	82	14	86	46	1	0	52	1.09
319958--320010	25	2.1	25	82	6	63	50	0	0	49	1.00
320224--320261	18	2.1	19	85	5	51	76	0	0	23	0.79
320348--320420	29	2.5	30	80	13	80	49	0	5	45	1.25
323253--323299	24	2.0	24	95	0	85	44	12	0	42	1.42
323645--323678	2	17.0	2	100	0	68	50	0	0	50	1.00
324342--324385	22	2.0	22	86	0	61	81	2	11	4	0.92
325030--325086	2	28.5	2	89	0	87	45	0	5	49	1.24
325086--325111	2	13.0	2	100	0	52	50	0	50	0	1.00
327164--327198	2	17.5	2	100	0	70	48	0	0	51	1.00
328794--328842	24	2.0	24	92	0	80	48	4	0	46	1.20
328808--328861	23	2.3	24	87	3	74	53	0	1	44	1.11
329875--329914	17	2.4	17	91	0	62	60	0	0	40	0.97
338572--338596	13	1.9	13	100	0	50	32	16	16	36	1.90
338741--338781	22	2.0	21	86	13	59	31	21	4	41	1.74
339045--339096	20	2.4	21	84	9	61	23	50	23	3	1.66
341065--341089	13	1.9	13	100	0	50	32	16	16	36	1.90
341077--341129	20	2.6	21	87	3	72	39	16	18	24	1.91
341181--341205	13	1.9	13	100	0	50	32	16	16	36	1.90
341161--341228	33	2.1	33	89	8	104	35	16	14	33	1.89
342711--342750	18	2.3	18	91	4	64	45	0	0	55	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
343057--343440	154	2.5	154	79	5	375	38	17	15	28	1.90
345158--345188	16	1.9	16	93	0	53	16	3	3	77	1.03
347564--347740	72	2.4	73	80	0	203	37	18	14	29	1.90
347718--347850	54	2.4	56	81	8	182	48	22	6	23	1.73
348018--348082	29	2.2	29	84	10	87	58	4	10	26	1.51
348086--348161	39	1.9	39	86	5	109	60	6	7	25	1.49
348405--348909	147	3.5	144	81	6	527	42	13	11	32	1.80
349909--349940	13	2.5	13	100	0	64	65	6	0	28	1.16
349935--350001	28	2.4	27	82	2	80	46	7	13	32	1.71
349931--350001	27	2.6	27	78	10	72	46	7	12	33	1.69
351364--351420	16	3.6	16	71	4	62	36	12	1	49	1.51
353982--354078	7	14.1	7	73	12	69	77	2	0	20	0.87
353984--354077	27	3.6	27	73	23	85	77	2	0	20	0.87
353996--354066	34	2.2	31	85	7	88	77	2	0	19	0.89
354490--354743	80	3.2	80	81	5	298	45	17	26	10	1.81
357700--357787	38	2.3	38	84	7	108	38	3	6	51	1.46
357843--357913	37	1.9	37	82	0	88	47	7	8	36	1.61
357902--357946	14	3.3	13	78	9	54	60	0	0	40	0.97
358035--358076	19	2.3	18	84	15	59	35	7	2	54	1.41
358624--358709	18	4.8	18	73	11	77	37	5	24	32	1.79
358628--358677	22	2.3	22	86	6	66	38	4	28	30	1.75
359789--359860	28	2.6	28	86	0	90	22	19	36	22	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
359848--360017	52	3.3	50	81	4	196	31	11	27	29	1.92
359949--360128	79	2.3	80	86	2	238	30	16	28	25	1.96
360081--360157	27	2.8	27	88	5	102	24	18	32	24	1.97
360158--360255	51	1.9	51	85	8	137	37	10	20	31	1.86
362622--362647	13	2.0	13	100	0	52	38	15	15	30	1.88
362601--362667	33	2.0	33	88	0	98	43	16	14	25	1.86
362687--362754	19	3.9	18	76	23	83	38	14	11	35	1.83
362709--362733	13	1.9	13	100	0	50	32	16	16	36	1.90
362690--362752	32	2.0	32	96	0	117	36	15	12	34	1.86
363793--363996	55	4.0	47	76	14	158	18	19	30	30	1.96
363625--364713	237	4.8	217	86	7	984	24	20	28	26	1.99
363840--364708	59	14.9	59	89	4	1141	25	20	28	25	1.99
363839--364708	178	5.0	177	88	5	1118	25	20	28	25	1.99
363839--364708	237	3.7	234	89	4	1194	25	20	28	25	1.99
365692--365739	25	1.9	25	86	0	69	0	4	8	87	0.66
365691--365736	16	2.8	17	87	12	69	0	4	8	86	0.68
374512--374536	4	6.2	4	100	0	50	76	0	0	24	0.80
376719--376888	52	3.3	51	84	2	223	32	11	26	29	1.92
379390--379454	33	2.0	33	84	0	85	43	12	15	29	1.83
379476--379543	19	3.9	18	76	23	83	38	14	11	35	1.83
379498--379522	13	1.9	13	100	0	50	32	16	16	36	1.90
379479--379541	32	2.0	32	96	0	117	36	15	12	34	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
379602--379655	21	2.6	21	96	0	99	37	20	9	33	1.84
381881--381919	14	2.8	14	88	0	51	30	2	28	38	1.70
381930--381993	18	3.6	18	73	0	65	40	4	23	31	1.75
381931--381976	22	2.1	22	84	8	58	41	4	21	32	1.73
381930--382008	18	4.4	18	69	23	58	40	5	22	31	1.76
381931--382015	36	2.5	36	83	7	106	40	5	21	32	1.77
381971--382019	14	3.2	14	76	20	53	40	6	20	32	1.77
391104--391235	59	2.2	59	84	5	160	31	14	23	30	1.94
396845--396887	15	2.8	15	85	3	59	46	4	6	41	1.51
399210--399267	23	2.5	23	97	2	107	48	5	17	29	1.68
400161--400198	2	19.0	2	100	0	76	50	0	0	50	1.00
403960--404120	5	31.2	5	66	15	53	58	0	0	40	1.03
403960--404120	11	15.1	11	68	13	77	58	0	0	40	1.03
404007--404059	16	3.3	16	76	10	63	47	0	0	52	1.00
403971--404097	27	4.6	26	73	18	87	57	0	0	42	0.98
403991--404072	32	2.5	32	84	5	103	52	0	0	47	1.00
404054--404122	13	5.0	15	71	18	69	63	0	0	36	0.94
404059--404129	33	2.2	32	82	10	81	66	0	0	33	0.92
404055--404121	6	11.2	6	73	17	50	64	0	0	35	0.94
404087--404126	15	2.7	15	88	0	62	70	0	0	30	0.88
405029--405099	21	3.4	21	79	11	67	47	0	0	52	1.00
405060--405161	46	2.3	45	81	10	111	42	1	0	55	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
405618--405650	3	11.0	3	100	0	66	33	0	0	66	0.92
407284--407376	6	16.3	6	69	25	60	63	0	1	35	1.02
407306--407371	19	3.3	20	72	19	59	60	0	1	37	1.06
407284--407371	39	2.2	40	84	13	119	62	0	1	36	1.03
407284--407376	20	4.7	20	76	17	63	63	0	1	35	1.02
407290--407408	18	6.7	18	73	15	77	62	0	0	36	1.07
407335--407433	16	6.2	15	69	19	58	64	1	1	33	1.07
408121--408188	21	3.0	22	81	10	68	44	0	0	55	0.99
408748--408966	34	6.5	33	82	9	262	41	26	7	25	1.81
408750--408966	68	3.2	67	85	3	292	41	26	7	25	1.81

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15