genome.fa.s246.2.7.7.80.10.50.1000.4.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: Scaffold246
Parameters: 2 7 7 80 10 50 1000
Length:  1425817

Tables:   1   2   3   4   5   6   7   8   

This is table  4  of  8  ( 935 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)
399537--399575	18	2.2	18	90	0	60	53	0	0	46	1.00
399589--399639	18	2.8	18	83	13	68	45	1	0	52	1.12
400231--400267	7	5.3	7	86	0	56	51	0	2	45	1.15
400756--400788	17	2.1	17	88	11	52	42	0	0	57	0.98
400734--400810	26	3.1	25	75	12	70	45	0	0	54	0.99
401035--401074	21	1.9	21	90	10	64	60	0	0	40	0.97
410806--410838	2	16.5	2	100	0	66	48	0	0	51	1.00
411901--411947	19	2.5	19	75	10	51	48	0	0	51	1.00
412239--412294	6	10.3	6	86	11	61	50	0	0	50	1.00
412240--412295	5	10.6	5	81	12	51	51	0	0	48	1.00
412239--412340	22	4.8	21	74	13	68	45	0	0	54	0.99
412555--412643	16	5.6	16	81	2	81	13	14	30	41	1.84
413699--413774	16	4.7	16	83	1	89	25	15	18	40	1.90
413693--413823	16	8.1	16	73	13	63	25	16	19	38	1.92
422893--422922	4	7.5	4	100	0	60	23	0	0	76	0.78
423503--423530	3	9.3	3	100	0	56	35	0	0	64	0.94
425873--425919	24	2.0	23	83	4	58	48	4	0	46	1.21
427215--427266	16	3.2	16	86	8	61	48	0	0	51	1.00
427213--427268	18	3.1	18	82	12	62	48	0	0	51	1.00
427714--427762	25	2.0	25	88	8	73	30	0	0	69	0.89
427719--427769	17	3.0	17	77	11	59	29	0	0	70	0.87
430784--430847	25	2.5	27	73	19	64	40	1	3	54	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
433870--433970	52	1.9	53	80	13	120	46	0	0	53	1.00
435984--436074	36	2.5	37	80	14	107	41	1	0	57	1.06
435971--436078	11	9.7	11	67	22	57	40	1	0	57	1.09
436023--436085	31	2.1	31	88	11	96	38	0	0	61	0.96
436387--436423	3	12.7	3	88	5	58	29	0	2	67	1.04
437025--437057	16	2.1	16	94	0	57	54	6	9	30	1.56
437398--437558	50	3.2	50	90	0	250	31	21	19	27	1.98
441932--442180	50	5.0	50	85	1	277	34	18	16	30	1.93
444125--444154	1	30.0	1	93	0	51	3	0	96	0	0.21
444388--444423	18	1.9	19	88	5	56	50	0	2	47	1.15
445158--445211	23	2.4	22	87	9	74	57	0	0	42	0.98
445157--445234	26	3.0	27	77	17	78	55	0	0	44	0.99
446134--446192	28	2.1	29	78	9	68	50	1	0	47	1.11
446149--446192	14	3.1	14	76	0	52	45	2	0	52	1.13
446143--446203	28	2.2	28	79	2	70	47	1	1	49	1.21
446172--446238	25	2.7	26	82	8	79	49	1	2	46	1.26
447979--448009	16	1.9	16	100	0	62	35	6	32	25	1.82
453312--453373	30	2.1	30	85	11	83	54	0	0	45	0.99
453312--453399	41	2.2	38	86	6	113	53	0	0	46	1.00
453336--453438	41	2.6	41	76	18	103	54	0	0	45	0.99
456675--456699	2	12.5	2	100	0	50	52	0	0	48	1.00
463397--463442	22	2.1	22	100	0	92	13	13	17	56	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
470707--470754	24	2.0	24	95	0	87	47	12	12	27	1.77
471990--472046	27	2.1	27	100	0	114	40	0	8	50	1.33
473402--473443	16	2.5	17	76	3	50	45	2	2	50	1.27
480243--480285	19	2.3	19	87	0	59	48	0	0	51	1.00
487468--487517	20	2.8	19	77	22	56	50	0	0	50	1.00
488166--488217	11	4.7	10	78	17	50	57	1	0	40	1.10
489947--489998	20	2.5	20	78	6	59	40	0	0	59	0.97
491954--491996	17	2.7	16	86	10	61	44	2	0	53	1.13
492204--492241	7	5.4	7	84	9	51	68	13	15	2	1.32
493702--493750	21	2.3	21	80	16	64	32	0	63	4	1.13
493704--493750	7	6.6	7	82	2	58	31	0	63	4	1.13
494613--494905	146	2.0	148	86	6	416	38	11	19	30	1.88
498759--498819	2	30.5	2	86	0	86	47	3	3	45	1.35
498759--498827	14	5.1	14	85	7	88	47	5	2	43	1.42
498756--498827	8	9.0	8	85	0	72	47	6	2	43	1.45
498929--498963	3	12.0	3	87	6	54	65	0	2	31	1.07
499171--499227	30	2.0	29	86	6	80	45	1	0	52	1.11
499298--499363	20	3.5	20	71	12	66	53	3	3	40	1.32
501205--501240	10	3.8	10	85	14	58	33	0	0	66	0.92
501209--501249	18	2.3	18	91	0	64	36	0	0	63	0.95
503031--503068	2	19.5	2	94	5	69	50	0	0	50	1.00
505905--505976	23	3.1	21	79	15	72	44	11	0	44	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
509864--509893	10	3.0	10	100	0	60	40	10	0	50	1.36
510135--510167	2	17.5	2	87	12	52	48	0	0	51	1.00
513650--513693	19	2.4	18	85	7	54	47	0	0	52	1.00
514060--514084	7	3.6	7	100	0	50	48	12	16	24	1.79
514622--514656	18	1.9	18	100	0	70	20	28	17	34	1.95
518279--518371	47	2.0	46	93	2	159	55	15	20	8	1.65
525378--525419	19	2.2	19	83	8	50	40	21	0	38	1.53
527363--527409	21	2.3	21	88	3	69	42	0	0	57	0.98
527363--527416	20	2.7	21	85	5	67	44	0	1	53	1.11
527415--527495	42	1.9	42	90	7	128	58	0	1	40	1.06
528272--528315	15	3.1	15	80	12	56	34	2	0	63	1.07
528353--528390	18	2.1	19	85	14	53	65	2	5	26	1.27
529802--529907	21	5.1	20	68	25	60	40	0	0	58	1.04
529830--529902	19	3.8	20	77	13	73	41	0	0	58	0.98
529818--529902	7	11.4	8	68	25	53	41	0	0	58	0.98
530046--530080	2	17.5	2	100	0	70	48	0	0	51	1.00
530505--530545	18	2.1	19	86	13	57	43	0	0	56	0.99
531376--531445	17	4.1	17	70	25	58	54	0	0	45	0.99
533737--533786	23	2.1	24	85	3	66	28	12	12	48	1.76
533874--533930	26	2.2	24	76	11	60	56	12	5	26	1.57
539577--539649	24	3.1	22	75	11	65	60	1	2	35	1.20
541018--541056	20	1.9	20	84	5	51	64	2	0	33	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
541396--541438	14	2.9	15	86	6	52	27	4	4	62	1.35
542695--542747	25	2.1	25	92	0	88	49	11	18	20	1.78
544246--544299	25	2.2	25	83	6	65	53	0	7	38	1.29
544324--544370	24	1.9	25	82	4	60	44	2	4	48	1.34
545572--545621	23	2.1	24	85	3	66	38	2	4	56	1.30
545577--545629	24	2.2	24	83	6	63	37	3	3	54	1.36
546004--546045	22	1.9	22	90	9	68	38	0	0	61	0.96
546013--546084	29	2.5	28	72	16	76	47	0	0	52	1.00
545990--546114	50	2.5	51	82	11	134	48	0	0	51	1.00
552951--553000	15	3.3	15	80	5	57	60	0	6	34	1.21
556625--556694	31	2.3	33	80	14	87	38	2	1	57	1.23
556709--556763	25	2.2	25	80	6	67	43	3	0	52	1.18
561354--561411	25	2.4	24	80	11	64	48	1	0	50	1.11
561458--561507	13	3.8	13	81	5	55	58	0	0	42	0.98
561458--561533	28	2.8	27	78	7	82	56	2	1	39	1.21
564352--564417	35	1.9	35	87	9	100	42	3	3	51	1.32
568121--568155	17	2.0	18	94	5	63	31	0	0	68	0.90
568121--568172	17	3.2	17	82	15	58	34	0	0	65	0.93
569464--569516	18	2.6	20	77	20	56	56	1	0	41	1.10
569495--569564	2	34.5	2	91	2	113	50	1	0	48	1.09
584023--584078	27	2.1	27	86	0	76	32	21	7	39	1.80
584931--584990	15	4.0	16	78	21	60	66	0	0	33	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
584936--584994	22	2.7	23	79	10	70	69	0	0	30	0.89
585224--585285	30	2.0	31	84	9	83	35	0	0	64	0.94
585288--585378	23	4.0	21	67	28	53	43	0	0	56	0.99
585333--585386	15	3.7	15	82	9	58	42	0	0	57	0.98
585296--585378	26	3.4	25	73	25	70	42	0	0	57	0.98
587654--587868	34	6.4	34	85	1	263	26	7	24	41	1.82
587654--587874	102	2.2	101	90	3	354	26	7	24	41	1.82
592281--592499	34	6.5	34	86	2	289	25	7	26	40	1.82
592281--592499	102	2.2	101	90	1	348	25	7	26	40	1.82
597383--597438	27	2.1	27	86	0	76	32	21	7	39	1.80

Tables:   1   2   3   4   5   6   7   8