genome.fa.s496.2.7.7.80.10.50.1000.5.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: Scaffold496
Parameters: 2 7 7 80 10 50 1000
Length:  765014

Tables:   1   2   3   4   5   6   7   

This is table  5  of  7  ( 825 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)
390493--390538	19	2.5	19	86	10	60	78	0	0	21	0.76
390630--390671	13	3.3	12	84	12	57	42	0	11	45	1.41
390597--390699	55	1.9	53	82	11	129	41	0	8	48	1.40
392880--392913	2	17.0	2	93	0	59	47	0	2	50	1.16
393559--393604	21	2.2	21	88	3	67	43	2	4	50	1.34
393644--393675	16	1.9	17	93	6	57	31	6	0	62	1.20
393707--393767	2	31.0	2	83	9	72	42	1	3	52	1.27
393710--393773	33	1.9	33	93	0	110	40	1	4	53	1.31
395314--395370	29	2.0	29	86	6	80	54	0	0	45	0.99
395301--395370	35	2.0	36	82	2	88	52	0	0	47	1.00
395490--395544	14	4.0	14	75	11	51	58	0	0	41	0.98
396252--396288	3	12.3	3	94	0	65	62	2	0	35	1.10
396387--396415	3	10.0	3	92	7	51	65	0	0	34	0.93
399395--399451	21	2.7	21	77	2	60	17	19	8	54	1.68
400654--400834	59	3.1	59	74	4	168	27	11	14	46	1.78
403534--403608	20	3.8	20	76	0	78	34	10	12	42	1.77
411986--412690	27	25.7	28	76	14	206	25	30	13	30	1.94
412013--412785	55	14.1	54	83	6	806	25	30	14	29	1.94
411987--412827	28	30.5	27	80	6	746	25	31	14	29	1.94
412335--413228	28	31.3	28	80	7	360	27	30	15	26	1.96
412840--412993	64	2.4	64	86	2	231	33	30	17	18	1.94
412766--413136	96	4.2	91	76	13	260	31	30	16	21	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
413337--413409	25	3.1	25	69	15	82	21	24	19	34	1.96
413334--413398	21	2.8	23	71	13	62	21	24	16	36	1.94
413418--413492	23	3.2	23	63	20	55	18	30	14	36	1.91
413304--413707	48	8.5	48	88	1	532	20	27	17	33	1.96
414419--414544	20	5.8	20	70	18	99	30	14	11	42	1.81
418093--418262	52	3.3	50	79	6	187	32	11	24	30	1.91
418248--418319	27	2.6	27	86	2	90	20	20	34	23	1.96
418037--418426	211	1.8	211	88	2	595	30	12	26	29	1.93
420792--420817	13	2.0	13	100	0	52	38	15	15	30	1.88
420775--420837	33	1.9	33	86	0	90	42	17	14	25	1.87
420879--420903	13	1.9	13	100	0	50	32	16	16	36	1.90
420982--421038	20	2.8	21	97	2	107	29	10	19	40	1.85
424653--424727	32	2.3	32	84	8	91	53	1	1	44	1.17
425851--425920	26	2.7	26	80	8	63	24	5	2	67	1.26
425936--425974	20	1.9	21	89	5	62	53	0	5	41	1.23
425945--426061	36	3.1	36	68	23	87	41	2	2	52	1.28
425955--426069	37	3.0	40	72	19	116	40	2	1	55	1.24
425955--426105	78	1.9	78	80	7	173	40	3	1	54	1.27
427547--427604	24	2.3	25	80	19	68	55	0	0	44	0.99
427524--427593	33	2.1	33	82	10	81	54	0	2	42	1.15
427582--427675	42	2.3	39	82	14	100	53	1	1	44	1.14
428116--428175	18	3.2	18	71	15	50	68	0	0	31	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
428149--428198	24	2.1	23	85	10	66	70	0	2	28	0.99
428932--428988	13	4.5	13	79	20	66	61	1	0	36	1.07
429159--429217	14	3.9	15	71	15	50	61	0	0	38	0.96
429162--429248	32	2.6	33	87	7	131	59	0	0	40	0.97
429166--429242	40	1.9	40	82	10	95	59	0	0	40	0.97
429396--429428	2	16.5	2	100	0	66	51	0	0	48	1.00
430035--430074	12	3.1	13	82	10	55	50	0	0	50	1.00
430237--430283	20	2.2	21	82	14	53	42	2	0	55	1.12
430323--430380	18	3.1	19	85	12	75	32	0	0	67	0.91
430315--430387	9	7.8	9	71	17	51	35	1	0	63	1.04
430702--430769	36	1.9	36	85	8	95	60	0	1	38	1.06
432571--432609	2	19.5	2	100	0	78	51	48	0	0	1.00
432631--432662	2	16.0	2	100	0	64	50	0	0	50	1.00
433118--433214	20	4.7	19	71	21	63	38	1	1	59	1.11
433183--433228	17	2.9	16	75	18	51	41	0	0	58	0.98
433175--433246	32	2.2	33	87	2	101	43	2	0	54	1.15
433193--433227	14	2.6	14	90	4	54	40	0	0	60	0.97
433165--433240	40	1.9	40	83	5	100	43	2	0	53	1.14
434232--434265	14	2.5	14	90	4	52	41	5	0	52	1.25
434724--434766	22	2.0	22	90	9	70	39	0	0	60	0.97
435379--435423	12	3.9	12	82	8	58	66	0	0	33	0.92
438473--438519	19	2.7	18	84	12	62	63	0	0	36	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
438529--438592	27	2.3	27	78	7	67	43	0	1	54	1.09
439052--439108	24	2.5	22	77	8	62	56	3	0	40	1.17
439224--439264	21	1.9	22	85	5	57	19	14	0	65	1.26
439705--439792	30	3.0	29	82	9	106	36	3	4	55	1.37
439717--439798	30	2.7	30	86	3	112	32	2	6	58	1.36
439904--439960	28	2.0	28	86	13	80	50	0	0	49	1.00
441118--441176	19	3.4	19	71	28	58	45	1	0	52	1.10
441119--441185	32	2.0	34	88	5	102	43	1	0	55	1.09
441128--441175	14	3.1	14	73	21	51	47	0	0	52	1.00
441118--441203	18	4.9	18	72	16	65	43	1	0	55	1.07
441149--441223	9	8.4	9	70	14	50	37	1	1	60	1.14
441150--441246	38	2.6	39	78	19	109	39	1	1	58	1.12
441753--441793	17	2.6	16	88	7	57	48	0	0	51	1.00
445386--445429	2	22.0	2	95	0	79	47	0	2	50	1.13
447175--447969	396	2.0	396	98	0	1545	34	22	13	29	1.92
465190--465234	23	2.0	23	82	8	56	51	2	2	44	1.26
468431--468581	31	4.9	31	79	3	142	25	16	25	33	1.96
468442--468582	62	2.3	62	83	2	176	26	15	24	34	1.95
472401--472494	20	4.7	20	80	2	100	35	12	12	39	1.82
472401--472494	40	2.3	40	83	7	120	35	12	12	39	1.82
486393--486465	9	8.0	9	78	15	71	84	10	2	1	0.78
486394--486453	11	5.8	10	86	7	77	88	10	1	0	0.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
486393--486440	15	3.3	15	88	8	73	87	12	0	0	0.54
486394--486453	1	60.0	1	76	0	57	88	10	1	0	0.59
487680--488760	28	37.5	28	81	9	1098	28	31	17	22	1.97
487679--488760	233	4.7	225	85	6	1203	28	31	17	22	1.97
489368--489442	20	3.8	20	78	0	87	34	13	12	40	1.81
489459--489512	20	2.7	20	100	0	108	38	11	14	35	1.82
494657--494778	62	2.0	62	85	3	165	26	21	22	29	1.99
494657--494778	31	3.9	31	80	6	140	26	21	22	29	1.99
499939--499966	2	14.0	2	100	0	56	50	0	50	0	1.00
500839--500872	8	4.4	8	88	3	52	0	11	0	88	0.52
501230--501269	16	2.5	17	80	15	50	50	0	0	50	1.00
505028--505054	13	2.1	13	100	0	54	70	7	7	14	1.32
508684--508733	21	2.3	23	83	13	61	8	16	2	74	1.15
509358--509391	17	2.0	18	88	11	54	58	8	8	23	1.56
510862--510919	28	2.1	28	87	3	82	55	3	5	36	1.39
511418--511590	10	16.0	11	66	18	51	58	0	1	39	1.10
511419--511503	22	3.6	23	73	12	75	65	1	1	31	1.07
511418--511517	44	2.2	45	85	5	132	65	1	2	32	1.11
511402--511597	17	10.4	19	66	20	72	57	0	2	39	1.14
511825--511875	26	2.0	26	88	7	77	31	0	0	68	0.90
511823--511876	19	2.8	19	75	5	56	29	0	0	70	0.88
515354--515393	21	2.0	21	85	5	55	50	15	7	27	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
520751--520809	19	3.2	19	83	9	61	44	0	6	49	1.29
521090--521117	12	2.3	12	100	0	56	35	25	17	21	1.95
521480--521583	16	6.0	17	68	25	58	36	0	3	58	1.23
521900--521940	16	2.7	15	77	7	55	60	2	2	34	1.23
524492--524529	11	3.4	11	89	7	58	26	0	0	73	0.83
524491--524534	16	2.8	17	78	21	51	25	0	0	75	0.81
524509--524579	30	2.5	29	74	17	76	38	1	0	60	1.06
524547--524594	18	2.8	18	82	17	50	43	0	0	56	0.99
525455--525509	2	28.5	2	78	7	60	47	0	0	52	1.00
529113--529154	17	2.4	18	76	4	50	40	0	0	59	0.97

Tables:   1   2   3   4   5   6   7