genome.fa.s73.2.7.7.80.10.50.1000.3.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: Scaffold73
Parameters: 2 7 7 80 10 50 1000
Length:  1308442

Tables:   1   2   3   4   5   6   7   8   9   

This is table  3  of  9  ( 1034 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)
305432--305555	63	2.0	62	81	7	146	45	0	0	54	0.99
305689--305729	22	1.9	22	90	5	66	36	0	0	63	0.95
305741--305778	18	2.1	19	85	5	51	60	0	0	39	0.97
312854--312889	2	18.0	2	100	0	72	50	0	0	50	1.00
315415--315439	2	12.5	2	100	0	50	52	0	0	48	1.00
317709--317802	35	2.7	35	73	15	95	47	0	1	51	1.07
323078--323119	20	2.1	20	86	0	57	54	0	4	40	1.21
323735--323802	28	2.3	29	73	17	68	48	2	1	47	1.26
323743--323799	27	2.0	27	86	6	78	52	3	1	42	1.28
324827--324864	3	12.7	3	100	0	76	65	0	0	34	0.93
325202--325246	18	2.7	16	82	6	54	28	0	2	68	1.01
326929--327013	27	3.0	27	70	18	73	51	0	0	48	1.00
326919--327010	20	5.1	19	71	20	63	52	0	0	47	1.00
326908--327016	32	3.2	36	76	15	115	55	0	0	44	0.99
327810--327874	20	3.2	20	80	10	69	40	0	0	60	0.97
331099--331127	13	2.1	14	93	6	51	31	3	6	58	1.41
331981--332055	34	2.2	34	100	0	150	16	18	12	53	1.73
335669--335719	24	2.2	22	80	12	66	43	15	27	13	1.85
336711--336742	2	16.0	2	100	0	64	50	0	0	50	1.00
339113--339166	20	2.7	20	91	5	83	42	12	1	42	1.54
339113--339189	20	3.8	20	85	0	82	42	11	2	42	1.55
340270--340329	19	3.1	20	83	7	70	48	6	0	45	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
340957--341011	18	3.1	17	75	15	58	49	0	1	49	1.11
342337--342380	23	2.0	23	86	4	63	50	0	4	45	1.22
342908--342944	2	19.0	2	88	5	58	45	0	0	54	1.00
345827--345858	8	4.0	8	95	0	55	40	25	25	9	1.85
346400--346440	21	1.9	21	85	5	55	56	0	0	43	0.99
346411--346451	15	2.9	14	77	22	50	60	0	0	39	0.96
347775--347845	36	2.0	37	83	10	94	56	2	0	40	1.14
347770--347866	29	3.4	29	67	16	69	53	2	0	44	1.12
348849--348908	18	3.0	21	73	16	54	43	1	0	55	1.10
349055--349091	2	18.5	2	100	0	74	48	0	0	51	1.00
349093--349141	2	24.5	2	100	0	98	48	0	51	0	1.00
350733--350778	21	2.1	22	84	4	58	58	4	0	36	1.18
350734--350827	25	3.7	25	73	15	79	52	2	0	45	1.12
350805--350899	20	4.8	20	72	19	74	50	0	0	49	1.00
350801--350901	40	2.5	39	78	12	107	50	0	0	49	1.00
352382--352413	10	3.2	10	90	0	55	46	0	0	53	1.00
352485--352520	19	1.9	19	88	5	56	55	0	0	44	0.99
355213--355237	13	1.9	13	100	0	50	56	0	0	44	0.99
357230--357261	14	2.2	15	94	5	57	43	0	0	56	0.99
358413--358473	4	14.8	4	76	19	54	24	0	3	72	1.00
358581--358617	13	2.8	13	84	15	58	43	0	0	56	0.99
360718--360751	3	11.3	3	100	0	68	32	0	0	67	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
361009--361073	23	2.7	25	77	15	66	44	0	1	53	1.09
361260--361344	44	1.9	44	83	9	111	62	4	0	32	1.16
362331--362374	17	2.5	17	81	3	52	54	0	6	38	1.27
362400--362440	14	2.8	15	85	7	57	51	4	0	43	1.23
362400--362458	29	2.1	27	81	12	66	50	3	0	45	1.18
363589--363726	29	4.8	29	71	11	88	39	12	10	36	1.78
364640--364734	49	2.0	47	82	14	113	43	0	0	56	0.99
364842--364881	21	1.9	21	85	10	55	42	0	0	57	0.98
369004--369038	9	3.9	9	84	0	52	37	0	0	62	0.95
369001--369037	18	2.1	18	95	5	67	32	0	0	67	0.91
369694--369752	21	2.5	25	74	20	65	55	0	0	44	0.99
369698--369773	27	3.0	27	74	21	74	53	0	0	46	1.00
369725--369754	15	1.9	16	93	6	53	53	0	0	46	1.00
369694--369758	23	2.9	23	76	19	66	53	0	0	46	1.00
370118--370178	28	2.0	28	84	12	77	52	1	6	39	1.37
370810--370859	17	2.9	17	77	16	59	42	0	0	58	0.98
370807--370884	29	2.6	28	80	8	75	47	0	0	52	1.00
372595--372625	15	2.1	15	94	5	55	45	0	0	54	0.99
375387--375439	7	9.0	6	84	15	51	50	0	0	49	1.00
375387--375426	7	6.1	7	91	8	59	55	0	0	45	0.99
375905--375958	20	2.7	19	78	10	54	59	0	1	38	1.08
384143--384172	2	15.0	2	100	0	60	0	50	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
386449--386490	15	2.7	15	80	16	50	50	0	0	50	1.00
394488--394566	16	5.1	15	76	15	72	51	0	0	48	1.00
394498--394640	16	8.2	16	69	16	72	51	1	1	46	1.18
394579--394666	33	2.6	34	78	10	101	57	2	2	37	1.23
402906--402973	19	3.5	19	80	9	75	66	2	0	30	1.07
402903--402987	38	2.3	36	84	8	100	64	2	0	32	1.06
402947--403028	28	2.8	28	83	9	76	57	3	0	39	1.16
402980--403041	12	4.8	12	74	18	52	54	1	0	43	1.09
402999--403076	17	5.1	14	73	23	61	52	1	0	46	1.08
402971--403088	25	4.8	24	73	20	84	54	0	0	44	1.06
402903--403044	13	10.8	12	67	24	58	60	2	0	37	1.09
402982--403062	29	2.9	29	81	15	91	55	1	0	43	1.07
402999--403084	44	2.0	44	92	0	145	52	1	0	46	1.08
402903--403058	19	8.6	18	66	18	74	60	1	0	37	1.08
408451--408476	13	2.0	13	100	0	52	53	0	0	46	1.00
411555--411592	14	2.9	14	84	11	53	44	0	0	55	0.99
416844--416894	21	2.3	21	80	6	57	56	0	0	43	0.99
416978--417008	14	2.2	14	94	0	53	19	3	12	64	1.41
417204--417251	15	3.0	16	74	20	55	43	0	0	56	0.99
420401--420546	74	2.0	75	91	1	240	21	19	23	35	1.96
422972--423024	11	4.7	11	76	4	52	33	5	0	60	1.20
423065--423104	2	20.0	2	90	10	64	47	2	0	50	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
425251--425283	2	16.5	2	100	0	66	0	48	0	51	1.00
425284--425312	2	14.5	2	100	0	58	48	0	0	51	1.00
430385--430437	27	2.0	25	82	7	61	52	0	0	47	1.00
430513--430592	22	3.4	23	71	10	65	47	2	0	50	1.14
431280--431312	2	16.5	2	100	0	66	51	0	48	0	1.00
433152--433223	29	2.6	27	71	6	72	48	0	0	51	1.00
433137--433200	31	2.0	31	82	8	76	50	0	0	50	1.00
433850--433900	15	3.3	15	75	22	52	43	0	0	56	0.99
433844--433950	30	3.4	31	76	15	96	40	0	0	58	1.04
433844--433950	31	3.4	30	75	18	94	40	0	0	58	1.04
434347--434409	29	2.1	30	82	2	74	49	1	1	47	1.20
435688--435726	20	2.0	20	85	10	53	51	0	0	48	1.00
435680--435756	36	2.1	36	81	9	86	45	0	2	51	1.14
435693--435790	22	4.4	22	76	8	83	45	0	1	53	1.07
436640--436673	16	2.1	17	88	5	52	41	0	0	58	0.98
437215--437257	23	2.0	21	86	9	59	32	0	0	67	0.91
437204--437261	11	5.1	11	77	8	53	27	1	0	70	0.97
437721--437766	21	2.1	22	88	8	67	47	2	0	50	1.13
438353--438390	16	2.4	17	86	8	53	36	10	0	52	1.36
439609--439657	20	2.3	22	83	13	59	46	0	2	51	1.12
440041--440068	2	14.0	2	100	0	56	50	0	0	50	1.00
440423--440455	4	8.2	4	93	0	57	72	0	3	24	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
441912--441944	15	2.1	16	88	5	50	57	0	0	42	0.98
442884--442940	17	3.2	17	76	14	53	42	0	0	57	0.98
442880--442939	18	3.4	18	73	17	54	41	0	0	58	0.98
443147--443192	20	2.4	19	85	10	58	43	0	0	56	0.99
443147--443192	19	2.4	18	85	10	56	43	0	0	56	0.99
443276--443314	16	2.5	15	83	8	51	61	0	0	38	0.96
445518--445568	19	2.6	19	87	9	68	54	0	0	45	0.99
450024--450072	2	24.5	2	91	0	80	51	0	2	46	1.12
452843--452889	21	2.3	21	81	3	60	55	0	0	44	0.99
452861--452923	30	2.0	30	81	12	72	57	4	0	38	1.20

Tables:   1   2   3   4   5   6   7   8   9