genome.fa.s88.2.7.7.80.10.50.1000.4.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: Scaffold88
Parameters: 2 7 7 80 10 50 1000
Length:  1260485

Tables:   1   2   3   4   5   6   7   8   

This is table  4  of  8  ( 920 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)
426057--426102	15	2.9	16	83	9	58	60	0	0	39	0.97
426593--426635	21	2.1	21	82	4	52	41	2	0	55	1.12
426662--426713	19	2.7	19	79	5	61	61	0	1	36	1.07
426647--426707	18	3.5	19	72	24	55	60	0	0	39	0.97
426709--426771	9	6.9	9	73	10	56	38	0	0	61	0.96
426710--426771	19	3.4	19	80	13	76	37	0	0	62	0.95
427150--427207	24	2.5	24	88	5	84	58	0	1	39	1.08
427150--427209	23	2.6	22	87	7	84	58	0	1	40	1.08
427629--427668	12	2.9	15	75	21	50	55	0	0	45	0.99
427744--427782	21	1.9	20	89	5	60	41	0	2	56	1.13
429764--429790	2	13.5	2	100	0	54	0	0	48	51	1.00
444559--444594	2	18.0	2	100	0	72	50	0	0	50	1.00
445458--445497	21	1.9	21	85	10	55	60	5	0	35	1.19
446588--446627	15	2.6	16	76	8	55	67	0	0	32	0.91
446919--446947	2	15.0	2	92	7	51	51	0	0	48	1.00
447085--447124	16	2.5	16	91	0	62	37	2	2	57	1.26
447245--447311	16	4.1	16	84	1	71	34	2	5	56	1.39
447281--447326	21	2.1	23	84	8	60	36	4	4	54	1.40
452472--452532	23	2.5	23	84	7	68	39	1	0	59	1.08
452401--452520	35	3.4	35	70	14	86	45	0	0	54	1.06
453036--453069	7	4.9	7	100	0	68	55	0	0	44	0.99
454862--454886	13	1.9	13	100	0	50	48	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
455175--455199	13	1.9	13	100	0	50	56	0	4	40	1.18
455593--455723	67	1.9	68	93	1	228	21	27	12	38	1.90
458037--458081	17	2.6	18	83	16	60	28	0	2	68	1.01
458044--458078	16	2.2	16	90	10	54	25	0	0	74	0.82
459705--459760	9	5.8	9	78	14	58	67	0	0	32	0.91
459713--459763	5	10.2	5	76	16	52	64	0	0	35	0.94
459702--459763	18	3.2	18	86	13	88	64	0	0	35	0.94
460082--460128	20	2.3	22	86	13	66	53	0	0	46	1.00
467454--467493	20	2.0	21	85	5	55	25	0	0	75	0.81
467462--467497	16	2.2	17	90	5	56	25	0	0	75	0.81
468705--468749	20	2.3	19	80	3	54	35	0	4	60	1.17
472057--472103	19	2.5	18	78	18	51	51	4	4	40	1.41
475974--476003	14	2.2	14	94	5	53	0	16	0	83	0.65
475974--476006	18	1.9	18	88	11	52	0	15	0	84	0.61
484873--484914	13	3.1	13	81	18	50	66	0	0	33	0.92
484878--484927	19	2.8	18	85	8	59	66	0	0	34	0.92
485097--485168	35	2.1	33	87	5	99	56	0	0	43	0.99
485134--485173	15	2.7	15	88	7	55	60	0	0	40	0.97
485097--485187	34	2.7	34	82	5	103	59	0	0	40	0.97
489179--489224	22	2.0	23	88	12	69	63	0	0	36	0.95
490748--490793	21	2.3	19	85	10	65	36	2	2	58	1.22
493248--493315	32	2.1	33	83	5	86	50	2	2	44	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
493305--493367	5	13.2	5	73	14	53	41	0	0	58	0.98
493237--493347	42	2.5	42	79	13	100	49	1	1	46	1.22
493309--493377	20	3.4	21	71	17	65	40	0	0	59	0.97
493306--493384	38	2.1	37	84	11	99	37	0	1	60	1.05
494798--494894	6	16.5	6	71	12	58	55	0	0	44	0.99
494789--494894	42	2.5	42	77	19	107	54	0	0	45	0.99
494855--494910	28	2.0	28	89	0	85	48	0	0	51	1.00
494865--494939	19	4.1	19	71	10	66	40	0	0	60	0.97
496249--496303	16	3.4	16	73	12	58	58	0	1	40	1.09
496243--496405	32	5.0	35	69	18	102	52	3	2	41	1.32
496243--496308	35	2.0	33	85	8	89	53	0	1	45	1.09
496225--496419	97	2.0	97	92	0	327	52	4	3	39	1.38
496346--496400	17	3.4	16	73	12	58	56	1	0	41	1.10
502351--502380	2	15.5	2	93	6	53	53	0	0	46	1.00
503969--503998	15	2.0	15	100	0	60	46	0	0	53	1.00
513016--513144	64	2.0	64	98	0	249	37	10	15	37	1.81
513607--515084	49	30.4	49	79	9	1500	24	25	17	32	1.97
513607--514789	98	12.3	98	90	5	1661	24	25	17	32	1.97
513642--514726	141	7.6	141	88	3	1516	24	25	17	31	1.97
514641--515378	55	13.8	54	73	15	448	24	23	15	35	1.94
514641--514778	52	2.6	52	82	3	159	25	23	15	34	1.95
514815--515041	43	5.0	44	83	10	287	25	24	18	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
514815--515084	92	2.9	92	95	1	468	25	24	18	31	1.97
514453--515254	357	2.2	357	98	0	1550	25	24	16	34	1.95
515266--515385	60	2.0	61	85	1	161	24	24	13	38	1.91
516173--516239	33	2.0	33	88	0	98	34	11	13	40	1.81
516193--516217	13	1.9	13	100	0	50	36	16	16	32	1.90
516283--516307	13	1.9	13	100	0	50	32	16	16	36	1.90
516316--516436	52	2.3	52	97	0	224	34	18	18	28	1.94
523632--523661	16	1.9	15	93	6	51	86	6	6	0	0.70
524585--525052	30	15.1	29	79	12	418	23	27	15	32	1.95
524594--525314	62	11.3	62	85	9	556	22	29	14	33	1.94
524683--525285	158	3.8	158	87	6	701	22	29	14	33	1.94
525025--525690	70	9.4	70	81	12	656	20	32	12	33	1.90
525113--525489	34	10.8	35	80	11	375	20	33	12	33	1.90
525501--525689	35	5.4	34	85	9	238	18	33	12	35	1.89
525360--525648	158	1.8	157	91	0	479	20	34	12	32	1.90
525501--525695	34	5.5	35	85	9	254	17	33	12	36	1.88
525522--525740	105	2.1	102	82	8	255	21	34	12	30	1.91
525697--525788	32	2.8	32	92	7	159	29	35	19	15	1.92
525697--525789	33	2.9	32	93	6	161	29	36	19	15	1.92
525805--529049	49	66.4	49	82	6	3909	24	26	17	32	1.97
525801--529048	98	33.2	98	90	5	4595	24	26	17	32	1.97
528606--528743	52	2.6	52	82	3	159	25	23	15	34	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
528780--529006	43	5.0	44	83	10	287	25	24	18	31	1.98
528780--529049	92	2.9	92	96	1	477	25	24	18	32	1.97
528963--529338	55	6.7	55	74	12	302	24	23	14	36	1.93
529231--529350	60	2.0	61	85	1	161	24	24	13	38	1.91
530138--530204	33	2.0	33	88	0	98	34	11	13	40	1.81
530158--530182	13	1.9	13	100	0	50	36	16	16	32	1.90
530248--530272	13	1.9	13	100	0	50	32	16	16	36	1.90
530281--530401	52	2.3	52	97	0	224	34	18	18	28	1.94
534071--534234	83	2.0	83	98	0	319	31	11	23	34	1.90
534497--534660	83	2.0	83	98	0	319	31	11	23	34	1.90
533809--534666	426	2.0	426	99	0	1689	38	13	16	31	1.88
537746--537911	83	2.0	83	98	0	323	31	11	22	33	1.90
540250--540289	20	2.0	20	100	0	80	35	15	25	25	1.94
544126--544185	16	3.5	16	88	9	75	26	5	0	68	1.10
545574--545637	26	2.5	25	85	5	83	59	3	0	37	1.13
545886--546028	74	1.9	74	95	0	259	25	24	20	30	1.99
549207--549349	6	24.0	6	72	12	73	49	1	0	48	1.09
549204--549261	19	2.9	21	75	12	68	55	0	0	44	0.99
549601--549643	6	6.8	6	79	10	50	37	0	0	62	0.95
549616--549675	20	3.2	19	75	22	56	43	1	0	55	1.10
549655--549781	14	8.6	15	65	29	51	40	1	0	57	1.08
549655--549726	29	2.3	29	86	9	90	44	2	0	52	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
549736--549788	17	3.1	17	77	15	56	43	0	0	56	0.99
549723--549784	25	2.5	25	80	10	74	37	0	0	62	0.95
549868--549927	16	3.7	16	74	14	52	66	1	0	31	1.01
549868--549920	15	3.4	15	77	12	54	67	1	0	30	1.01
549915--549961	17	2.6	18	76	10	51	53	0	0	46	1.00
550356--550401	21	2.2	21	88	11	69	50	0	0	50	1.00
550356--550401	20	2.2	20	88	11	67	50	0	0	50	1.00
550521--550569	19	2.6	19	78	18	57	22	0	10	67	1.20
550543--550604	18	3.5	16	75	16	52	32	0	4	62	1.16
550626--550685	19	3.2	18	73	21	52	31	5	6	56	1.47

Tables:   1   2   3   4   5   6   7   8