genome.fa.s253.2.7.7.80.10.50.1000.4.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: Scaffold253
Parameters: 2 7 7 80 10 50 1000
Length:  2064896

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

This is table  4  of  13  ( 1496 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)
393831--393876	21	2.1	22	88	4	67	19	28	19	32	1.96
396340--396378	20	2.0	19	85	5	51	28	5	51	15	1.64
396421--396490	24	2.8	25	77	14	72	47	22	8	21	1.78
396423--396519	27	3.7	27	78	8	94	46	23	8	21	1.78
396507--396564	26	2.3	25	88	5	82	25	13	25	34	1.93
396970--397024	3	18.7	3	92	3	94	30	0	1	67	1.01
397653--397677	2	12.5	2	100	0	50	48	0	0	52	1.00
399621--399681	20	2.8	23	83	14	76	44	1	1	52	1.20
400602--400636	3	11.7	3	100	0	70	0	34	0	65	0.93
405069--405207	48	2.9	48	98	1	271	48	4	19	28	1.68
410687--410755	24	2.7	27	84	10	83	62	0	2	34	1.10
412457--412534	30	2.6	30	89	4	113	57	2	6	33	1.38
412457--412543	30	2.8	31	84	11	108	56	2	6	34	1.39
413848--413904	30	1.9	30	85	0	78	52	3	7	36	1.46
419732--419771	13	3.0	13	82	7	53	60	2	0	37	1.11
425190--425246	27	2.1	27	83	6	71	36	19	19	24	1.94
429557--429629	23	3.2	23	74	16	80	23	4	23	49	1.67
429572--429653	22	3.7	21	77	9	74	30	2	19	47	1.62
429617--429647	16	1.9	16	93	0	53	38	0	16	45	1.47
430003--430067	28	2.4	27	84	10	78	52	6	9	32	1.58
430616--430660	23	2.0	22	82	4	54	68	4	0	26	1.08
430680--430744	33	1.9	34	85	14	91	47	1	3	47	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
430750--430797	14	3.5	13	86	8	69	50	0	2	47	1.12
430775--430813	21	1.9	21	89	5	62	51	0	0	48	1.00
433459--433549	30	3.0	29	79	9	85	54	3	5	36	1.40
434226--434266	21	1.9	22	85	14	59	51	4	0	43	1.23
434926--434961	18	2.0	18	88	0	54	61	0	2	36	1.11
434894--434953	30	2.0	31	81	15	72	51	0	3	45	1.17
435896--436056	38	4.2	38	86	3	216	26	8	31	33	1.87
435896--436056	77	2.1	76	87	3	225	26	8	31	33	1.87
440733--440768	18	2.0	18	100	0	72	38	5	16	38	1.72
447292--447337	14	3.4	13	85	8	65	50	0	0	50	1.00
447345--447415	33	2.2	33	87	5	99	52	2	0	45	1.15
447360--447423	33	1.9	33	87	0	92	54	1	0	43	1.09
453950--454011	32	1.9	33	90	3	99	59	1	0	38	1.07
454052--454120	33	2.3	28	73	21	68	50	0	0	49	1.00
454061--454164	33	3.1	33	83	8	131	50	0	0	49	1.00
454086--454139	17	3.2	17	73	5	56	55	0	0	44	0.99
454113--454170	29	2.1	26	78	12	62	51	0	0	48	1.00
455209--455252	13	2.9	15	80	19	56	56	0	0	43	0.99
455736--455778	20	2.1	21	86	4	61	46	0	2	51	1.13
455749--455823	21	3.6	21	75	8	73	46	0	0	53	1.00
458614--458663	23	2.2	23	82	7	57	14	12	4	70	1.31
462512--462601	27	3.4	26	81	13	87	26	7	18	46	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
464659--464684	2	13.0	2	100	0	52	50	0	0	50	1.00
464915--464973	17	3.2	19	83	11	77	42	3	0	54	1.17
465183--465380	98	2.0	98	100	0	396	42	14	19	24	1.88
465589--465659	27	2.6	27	88	6	99	46	23	7	22	1.76
470163--470233	27	2.6	27	88	6	99	46	23	7	22	1.76
470570--470608	21	1.9	20	84	5	51	51	2	0	46	1.14
471497--471540	23	2.0	22	83	12	56	6	11	0	81	0.86
473056--473086	2	15.5	2	100	0	62	51	0	0	48	1.00
475484--475541	20	3.1	18	81	16	57	34	1	1	62	1.16
475999--476043	18	2.5	19	82	17	60	37	4	2	55	1.32
476674--476712	14	2.8	14	88	11	62	53	0	5	41	1.23
477180--477224	18	2.3	20	85	7	58	62	4	2	31	1.27
477331--477372	20	2.1	20	86	8	59	66	0	0	33	0.92
480947--481001	14	3.8	14	73	17	58	36	0	1	61	1.06
480949--480996	16	3.1	16	73	8	55	33	0	2	64	1.05
481561--481592	2	16.0	2	100	0	64	50	0	0	50	1.00
484686--484710	11	2.3	11	100	0	50	24	0	0	76	0.80
484683--484721	13	3.1	12	82	10	51	23	0	0	76	0.78
484695--484727	15	2.2	15	94	0	57	24	0	3	72	0.98
485490--485570	38	2.1	38	86	0	108	53	0	6	40	1.26
485505--485577	38	1.9	38	94	0	128	47	0	5	46	1.25
485516--485577	19	3.3	19	66	8	54	45	0	6	48	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
489247--489311	24	2.8	23	79	4	67	53	0	0	46	1.00
489246--489317	36	2.0	36	84	10	94	54	0	0	45	0.99
489451--489484	14	2.4	14	95	0	59	55	0	0	44	0.99
490085--490112	14	2.0	14	100	0	56	21	0	7	71	1.09
492203--492302	33	3.2	32	73	21	86	67	0	33	0	0.91
492231--492303	20	3.9	20	76	16	68	69	0	30	0	0.88
492394--492858	246	1.9	245	85	5	643	27	10	18	43	1.83
496275--496354	24	3.2	24	76	3	61	47	0	0	52	1.00
496266--496347	42	2.0	41	81	11	96	50	0	0	50	1.00
496431--496456	13	2.0	13	100	0	52	30	7	7	53	1.57
496746--496775	2	15.0	2	100	0	60	0	50	0	50	1.00
502289--502319	14	2.2	14	94	0	53	48	29	16	6	1.70
502463--502641	86	2.1	87	93	2	308	30	19	15	34	1.92
503233--503274	2	20.5	2	85	4	57	45	2	0	52	1.13
507465--507530	33	2.0	33	93	0	114	18	9	51	21	1.73
507498--507604	42	2.5	42	86	0	142	23	5	43	27	1.75
507620--507926	63	5.0	63	86	4	347	22	9	43	24	1.82
507620--507777	57	2.7	58	84	7	176	19	10	40	29	1.84
507813--508033	108	2.0	108	84	3	284	28	8	44	18	1.78
507745--508094	171	2.0	171	85	2	461	28	8	44	18	1.80
507916--508410	63	7.7	63	84	5	559	27	10	41	20	1.86
518127--518244	32	4.1	30	75	15	83	40	0	0	59	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
518127--518219	6	15.0	6	73	18	57	39	0	0	60	0.97
518127--518218	21	4.6	20	71	20	59	40	0	0	59	0.97
518144--518244	27	3.8	26	77	16	84	39	0	0	60	0.97
518144--518229	25	3.4	26	78	15	92	37	0	0	62	0.95
518472--518539	13	5.6	13	73	16	56	66	0	1	32	1.01
518529--518605	13	5.2	14	71	22	52	55	0	0	44	0.99
518532--518609	36	2.3	34	82	10	90	55	0	0	44	0.99
518541--518599	19	3.2	19	79	15	61	54	0	0	45	0.99
519742--519781	20	2.0	20	85	0	53	65	2	0	32	1.06
521571--521614	20	2.2	20	84	11	56	61	6	0	31	1.22
523190--523227	14	2.8	14	84	4	51	47	0	0	52	1.00
523512--523536	13	1.9	13	100	0	50	40	8	4	48	1.51
526900--526959	27	2.2	27	100	0	120	26	38	16	18	1.92
532174--532211	12	3.2	12	85	7	51	42	0	2	55	1.14
532402--532463	23	3.0	22	77	13	69	58	0	0	41	0.98
535791--535829	17	2.2	18	90	4	62	35	2	5	56	1.35
535874--535951	27	3.0	25	70	18	77	47	1	0	51	1.09
536456--536688	10	25.1	10	71	18	80	59	0	0	39	1.04
536456--536688	15	16.7	15	65	21	80	59	0	0	39	1.04
536454--536688	27	9.0	27	65	22	76	59	0	0	40	1.04
536542--536709	71	2.3	70	80	9	178	55	0	0	43	1.04
536613--536706	22	4.1	22	68	19	59	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)
536845--536888	22	2.0	23	90	4	72	29	0	2	68	1.02
536984--537023	20	2.0	20	85	4	55	70	2	2	25	1.13
539162--539189	7	4.0	7	100	0	56	14	14	42	28	1.84
546224--546256	13	2.6	13	90	4	50	39	3	0	57	1.14
546255--546315	29	2.2	26	78	16	61	57	1	0	40	1.08
546893--546933	22	1.9	21	90	5	64	41	0	4	53	1.22
547452--547490	20	2.0	20	85	5	53	56	0	0	43	0.99
548146--548171	2	13.0	2	100	0	52	50	0	0	50	1.00
548866--548902	19	1.9	19	88	0	56	67	0	0	32	0.91
551204--551338	16	8.2	17	69	16	63	56	0	0	43	0.99

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