genome.fa.s423.2.7.7.80.10.50.1000.5.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: Scaffold423
Parameters: 2 7 7 80 10 50 1000
Length:  617052

Tables:   1   2   3   4   5   6   

This is table  5  of  6  ( 618 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)
478645--478694	21	2.3	22	80	13	59	62	2	2	34	1.18
478653--478756	28	3.4	30	73	18	65	57	1	1	38	1.21
478688--478735	21	2.4	21	82	6	55	56	0	0	43	0.99
479951--479992	18	2.4	18	80	15	52	35	0	0	64	0.94
480348--480376	11	2.5	12	94	5	51	27	0	0	72	0.85
480363--480408	18	2.5	19	82	13	60	39	0	2	58	1.10
487123--487172	21	2.3	22	80	13	59	62	2	2	34	1.18
487132--487192	32	2.0	30	81	12	70	59	1	1	37	1.17
488139--488175	15	2.6	15	87	8	51	40	2	0	56	1.13
488396--488449	23	2.3	23	83	3	63	46	0	0	53	1.00
488423--488464	18	2.4	18	80	15	52	38	0	0	61	0.96
488724--488757	17	2.0	17	88	0	50	58	0	0	41	0.98
488840--488882	20	2.2	19	87	4	59	37	0	2	60	1.10
492809--493196	193	2.0	198	89	3	606	34	15	19	30	1.93
494012--494046	2	17.5	2	100	0	70	51	0	0	48	1.00
502582--502621	16	2.4	17	83	12	55	42	0	0	57	0.98
502582--502630	18	2.8	18	77	22	59	42	0	2	55	1.11
503503--503529	14	1.9	14	100	0	54	37	0	0	62	0.95
503680--503717	19	2.0	19	85	10	51	55	0	0	44	0.99
506085--506113	13	2.1	14	93	6	51	58	0	0	41	0.98
506434--506467	16	2.1	17	94	5	61	61	5	0	32	1.20
507930--507962	15	2.3	14	94	5	57	48	6	9	36	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
509220--509291	29	2.4	30	83	2	83	41	2	1	54	1.23
509436--509477	22	1.9	22	85	9	59	57	0	0	42	0.99
509996--510037	22	1.9	22	90	9	68	61	0	0	38	0.96
510437--510471	3	11.7	3	100	0	70	34	0	0	65	0.93
510509--510542	15	2.2	16	94	5	61	61	0	0	38	0.96
511703--511738	17	2.1	18	89	5	56	66	0	0	33	0.92
511843--511877	7	4.9	7	89	3	52	0	25	2	71	1.00
512637--512675	19	2.1	19	85	4	53	46	0	2	51	1.14
512785--512858	17	4.2	18	68	6	53	45	13	0	40	1.43
512780--512888	52	2.1	52	98	1	211	45	12	0	41	1.42
513687--514116	221	1.9	223	88	2	643	43	9	9	37	1.69
514398--514448	17	3.1	17	72	27	56	45	0	0	54	0.99
514386--514433	18	2.7	18	76	23	57	47	0	0	52	1.00
514370--514476	32	3.5	31	74	13	98	46	0	0	52	1.06
515153--515208	26	2.1	28	83	12	73	35	0	0	64	0.94
515151--515213	22	2.9	23	77	13	62	39	0	0	60	0.97
515314--515358	14	3.1	14	96	3	81	22	6	20	51	1.70
515519--515561	19	2.3	19	84	8	61	44	0	0	55	0.99
515885--515964	14	5.6	14	72	22	53	60	1	1	37	1.13
515885--515964	19	4.5	18	74	16	69	60	1	1	37	1.13
515885--515964	8	9.0	9	75	16	69	60	1	1	37	1.13
515855--515942	44	2.0	43	82	10	108	62	2	2	32	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
515940--515993	17	3.3	17	69	27	53	53	0	1	44	1.11
515916--515967	14	3.8	14	74	20	56	57	0	0	42	0.98
515917--515992	32	2.3	33	84	8	102	56	0	1	42	1.07
516531--516576	16	2.8	17	78	21	62	56	10	4	28	1.53
517082--517116	2	17.5	2	100	0	70	51	0	0	48	1.00
517270--517330	17	3.5	18	78	13	65	34	0	0	65	0.93
517272--517340	29	2.4	29	82	7	95	36	0	0	63	0.94
519132--519163	2	16.0	2	100	0	64	50	0	0	50	1.00
521477--521504	13	2.2	13	100	0	56	57	21	7	14	1.61
521906--521975	34	2.0	35	83	2	88	51	10	5	32	1.59
522345--522442	32	2.9	35	77	11	98	57	3	2	37	1.26
522391--522444	15	3.3	16	74	25	51	59	1	0	38	1.08
526583--526614	15	2.1	15	100	0	64	21	6	34	37	1.79
528029--528058	16	1.9	16	93	6	53	83	6	0	10	0.81
535691--535719	3	9.7	3	100	0	58	68	0	0	31	0.89
538236--538283	20	2.4	21	80	16	57	37	2	0	60	1.09
538274--538341	32	2.3	27	83	16	75	44	2	1	51	1.25
538634--538668	19	1.9	19	88	11	56	34	0	0	65	0.93
544448--544492	17	2.7	18	86	10	60	60	0	0	40	0.97
544441--544494	22	2.5	20	80	14	63	61	0	0	38	0.96
545097--545170	11	6.5	11	71	11	60	64	0	4	31	1.12
545105--545149	19	2.4	19	82	10	58	73	0	0	26	0.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
545100--545158	24	2.6	22	80	17	75	67	0	1	30	1.00
546397--546431	17	2.1	16	89	5	52	54	0	0	45	0.99
546660--546703	20	2.2	20	88	8	63	56	0	0	43	0.99
547489--547544	17	3.3	17	90	5	78	57	0	1	41	1.09
547487--547561	20	3.8	20	76	18	68	57	0	1	41	1.07
552879--552911	17	1.9	17	88	11	50	48	0	0	51	1.00
563925--563983	6	9.7	6	75	17	59	45	0	1	52	1.10
563929--563973	24	1.9	23	86	13	65	44	0	2	53	1.13
563954--563989	13	2.7	13	91	4	54	44	0	0	55	0.99
564000--564031	14	2.3	14	94	0	55	50	0	0	50	1.00
564055--564101	14	3.2	14	80	16	51	53	2	0	44	1.12
564277--564335	27	2.3	25	75	25	68	38	0	0	61	0.96
564283--564354	29	2.6	29	86	6	96	38	0	0	61	0.96
564290--564408	47	2.5	45	78	15	114	39	0	0	60	0.97
564442--564507	23	3.0	23	78	17	68	45	0	0	54	0.99
564999--565151	23	6.6	23	65	21	70	40	0	2	56	1.18
565099--565154	14	4.0	14	78	19	55	37	1	1	58	1.19
565092--565151	8	7.6	8	73	17	54	38	1	1	58	1.18
565094--565163	39	1.9	38	86	13	103	38	1	1	58	1.16
565996--566028	2	16.5	2	100	0	66	48	0	0	51	1.00
567230--567313	46	1.9	46	83	13	115	46	3	4	45	1.41
567701--567805	42	2.5	42	93	1	174	65	1	0	31	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
568446--568485	14	2.7	15	80	3	55	35	0	0	65	0.93
568854--568919	30	2.2	30	84	12	84	37	0	0	62	0.96
568842--568917	30	2.5	31	77	18	79	39	0	0	60	0.97
568924--568950	9	3.0	9	100	0	54	55	0	0	44	0.99
569271--569316	17	2.7	17	86	0	65	32	0	2	65	1.05
569539--569563	12	2.1	12	100	0	50	40	0	60	0	0.97
572489--572532	20	2.2	20	92	8	72	54	0	0	45	0.99
572686--572757	29	2.6	28	76	8	76	66	1	0	31	1.00
572719--572869	57	2.7	55	74	13	137	54	4	2	37	1.35
573035--573105	29	2.4	30	80	17	94	52	0	2	45	1.15
573176--573227	19	2.8	18	88	11	70	71	0	0	28	0.87
573175--573215	11	4.0	11	75	18	52	73	0	0	26	0.84
573262--573294	17	2.0	17	94	5	59	57	0	0	42	0.98
574519--574545	2	13.5	2	100	0	54	48	0	0	51	1.00
576065--576091	14	1.9	14	100	0	54	40	0	7	51	1.30
580520--580563	9	4.7	9	81	10	52	70	0	0	29	0.88
580520--580563	19	2.3	19	78	21	56	70	0	0	29	0.88
580979--581016	16	2.4	16	86	0	58	60	0	5	34	1.19
581047--581096	20	2.4	20	86	6	64	48	0	0	52	1.00
581047--581096	15	3.6	14	79	12	50	48	0	0	52	1.00
582242--582285	18	2.3	19	84	7	54	61	2	0	36	1.09
582600--582644	2	22.5	2	95	0	81	51	2	0	46	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
583146--583177	2	16.0	2	100	0	64	50	0	0	50	1.00
584235--584289	26	2.0	28	82	10	69	29	5	1	63	1.27
586994--587034	19	2.1	19	86	9	55	65	0	0	34	0.93
587018--587047	13	2.3	13	94	0	51	56	3	0	40	1.16
589067--589108	12	3.8	11	82	17	52	40	0	0	59	0.97
590425--590546	32	3.7	33	76	10	99	54	0	3	40	1.22
596111--596177	26	2.5	26	92	2	107	28	5	20	44	1.75
596162--596227	24	2.8	24	92	0	105	25	12	22	39	1.89
596944--596980	2	18.5	2	100	0	74	51	0	0	48	1.00
598171--598211	17	2.4	17	87	0	55	48	12	7	31	1.68

Tables:   1   2   3   4   5   6