genome.fa.s103.2.7.7.80.10.50.1000.5.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: Scaffold103
Parameters: 2 7 7 80 10 50 1000
Length:  2633873

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   

This is table  5  of  21  ( 2458 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)
483584--483647	23	2.5	25	78	17	69	35	4	1	57	1.29
483636--483696	30	2.0	30	84	6	79	45	1	0	52	1.10
484201--484237	17	2.1	18	95	5	67	70	0	0	29	0.88
484199--484241	17	2.8	15	80	13	52	67	0	0	32	0.91
484219--484296	32	2.4	33	84	6	104	55	1	1	42	1.16
484693--484723	16	1.9	16	93	0	53	48	3	0	48	1.17
492338--492365	2	14.0	2	100	0	56	50	50	0	0	1.00
494897--494991	18	5.3	18	72	9	77	48	0	0	51	1.00
494874--494961	37	2.3	39	84	5	110	43	0	0	56	0.99
494909--494991	35	2.3	37	83	4	98	48	0	0	51	1.00
494948--495002	27	2.0	28	82	10	69	56	1	1	40	1.21
495036--495078	17	2.6	16	85	14	52	51	0	0	48	1.00
495118--495157	20	2.0	20	90	5	62	60	2	2	35	1.24
495372--495400	3	9.7	3	100	0	58	68	0	0	31	0.89
496012--496095	41	2.1	39	82	13	98	60	1	1	36	1.12
497072--497120	16	2.9	16	77	19	55	24	2	6	67	1.24
503250--503311	26	2.4	26	88	0	97	50	16	16	17	1.79
503952--503980	2	14.5	2	100	0	58	51	0	0	48	1.00
507344--507373	15	1.9	16	93	6	53	43	0	3	53	1.17
507533--507595	18	3.5	18	71	14	58	47	0	0	52	1.00
508145--508188	14	3.0	14	81	12	61	50	0	0	50	1.00
509953--509992	2	20.5	2	84	5	55	47	5	0	47	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
510233--510696	231	2.0	231	89	1	707	46	14	10	27	1.79
511449--511477	12	2.4	12	100	0	58	65	0	0	34	0.93
512683--512753	34	2.1	34	82	10	83	40	0	1	57	1.07
512858--512899	21	2.0	22	85	4	59	42	2	0	54	1.13
513745--513778	15	2.3	15	95	5	61	47	0	0	52	1.00
513852--513907	21	2.7	21	84	13	64	66	0	1	32	1.03
523349--523398	24	2.2	23	82	13	59	52	2	2	44	1.24
523417--523463	19	2.4	20	86	13	71	51	2	0	46	1.13
523751--523806	23	2.4	23	85	8	69	66	0	0	33	0.92
523749--523811	23	2.7	23	73	20	60	65	0	1	33	1.03
524450--524503	28	2.0	27	82	10	65	38	0	0	61	0.96
524480--524519	18	2.2	19	86	4	55	52	0	0	47	1.00
524563--524608	16	2.9	15	78	12	56	47	4	4	43	1.42
524943--524982	3	13.3	3	100	0	80	32	0	0	67	0.91
528035--528133	37	2.7	36	87	3	135	34	24	17	24	1.96
530208--530276	27	2.6	27	92	0	120	14	15	44	24	1.84
532644--532682	21	1.9	20	89	5	60	33	12	17	35	1.88
536365--536446	37	2.2	37	86	0	110	30	23	21	24	1.99
536378--536463	37	2.3	37	76	11	86	37	26	15	20	1.92
537836--537873	20	1.9	19	89	5	58	50	2	0	47	1.15
537892--537940	24	2.0	26	88	8	75	55	0	0	44	0.99
537918--537964	18	2.4	21	80	20	57	46	0	0	53	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
538238--538262	13	1.9	13	100	0	50	40	0	4	56	1.18
540963--540997	3	11.7	3	100	0	70	31	0	0	68	0.90
542586--542629	19	2.3	21	81	18	60	38	0	0	61	0.96
542618--542673	18	3.3	17	72	25	55	42	0	1	55	1.10
542622--542674	16	3.2	16	73	23	56	43	0	1	54	1.11
542627--542688	15	4.1	15	71	28	51	43	0	1	54	1.09
542599--542697	33	3.0	33	89	2	146	43	0	1	55	1.06
542692--542739	19	2.5	19	83	6	62	33	4	0	62	1.14
542863--542904	22	1.9	22	85	0	57	9	9	2	78	1.05
543024--543065	21	2.0	20	86	4	57	26	0	4	69	1.08
543103--543132	14	2.1	14	93	0	51	43	0	0	56	0.99
543843--543903	19	3.3	19	95	2	106	11	8	3	77	1.11
543843--543914	19	3.8	18	92	5	99	12	8	2	76	1.11
544187--544252	26	2.6	25	80	15	73	56	0	1	42	1.08
550905--550940	15	2.4	15	90	0	54	33	0	0	66	0.92
550891--550948	21	2.7	21	76	7	55	37	0	1	60	1.07
550891--550993	14	7.1	14	69	23	54	41	0	1	56	1.10
551068--551097	13	2.4	13	94	5	53	43	0	0	56	0.99
551069--551146	16	4.9	16	71	21	58	50	0	0	50	1.00
551548--551600	27	2.0	28	85	10	76	47	0	1	50	1.12
554932--554985	28	1.9	28	82	14	67	42	1	0	55	1.10
554904--555008	25	4.3	24	70	22	58	46	1	0	50	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
555329--555359	3	10.3	3	100	0	62	32	0	0	67	0.91
559080--559108	12	2.3	13	94	5	51	37	0	44	17	1.49
560209--560250	22	1.9	22	90	0	66	59	9	7	23	1.53
560428--560470	20	2.1	20	83	12	52	44	9	0	46	1.35
566356--566383	6	4.7	6	100	0	56	17	0	28	53	1.44
566777--566812	6	6.0	6	100	0	72	50	33	0	16	1.46
567377--567435	3	19.7	3	89	0	82	25	0	6	67	1.15
567375--567435	15	4.1	15	89	0	95	24	0	8	67	1.18
570697--570731	16	2.3	15	90	5	52	42	0	2	54	1.15
570713--570778	14	4.2	16	76	20	68	42	0	1	56	1.08
570713--570783	31	2.3	31	85	7	99	43	0	1	54	1.08
570728--570781	17	3.3	17	69	26	53	44	0	1	53	1.11
570843--570904	26	2.3	27	76	13	67	48	1	1	48	1.21
570858--570906	16	3.0	17	72	27	52	51	2	0	46	1.12
571003--571037	18	2.0	18	88	5	54	60	0	0	40	0.97
571003--571047	17	2.6	18	82	10	58	57	0	0	42	0.98
579793--579826	2	17.0	2	93	0	59	50	2	0	47	1.16
580004--580046	6	7.3	6	78	5	52	39	0	0	60	0.97
584034--584073	19	2.1	19	90	0	62	52	17	7	22	1.69
586468--586493	2	13.0	2	100	0	52	50	0	0	50	1.00
587230--587284	28	1.9	29	82	10	69	38	5	5	50	1.48
588016--588054	6	6.5	6	96	0	51	23	17	7	51	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
588016--588054	12	3.2	12	92	0	60	23	17	7	51	1.71
588492--588526	2	17.5	2	100	0	70	48	0	0	51	1.00
592574--592604	2	15.5	2	100	0	62	51	0	0	48	1.00
594456--594508	15	3.2	17	80	19	67	60	0	0	39	0.97
594683--594718	17	2.1	18	89	5	56	52	8	0	38	1.32
595796--595835	10	3.7	12	78	21	52	55	0	0	45	0.99
595782--595843	20	3.1	20	69	4	54	48	1	0	50	1.10
597633--597676	14	2.9	15	78	21	56	59	0	0	40	0.98
597633--597674	15	2.9	15	82	13	52	59	0	0	40	0.97
598335--598380	8	6.0	8	76	19	53	47	0	0	52	1.00
598337--598380	15	3.0	14	77	9	52	50	0	0	50	1.00
599623--599675	11	4.2	12	75	17	54	62	0	0	37	0.96
599627--599709	27	3.2	27	76	17	70	53	0	0	46	1.00
599640--599752	55	2.1	54	82	11	133	51	0	0	47	1.06
601012--601051	5	8.0	5	82	0	53	57	2	40	0	1.12
601482--601549	19	3.5	19	74	7	64	33	4	1	60	1.26
601493--601576	35	2.5	32	78	17	91	34	5	1	58	1.30
601446--601545	45	2.4	42	76	17	100	36	4	2	58	1.29
602245--602273	3	9.7	3	100	0	58	31	0	0	68	0.89
602422--602481	15	4.1	16	77	18	60	56	0	1	41	1.09
602435--602587	14	11.7	13	67	23	56	53	0	1	43	1.16
602659--602719	28	2.2	29	82	11	74	63	0	3	32	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
602674--602829	17	9.4	17	70	20	71	60	0	1	38	1.05
602659--602745	9	9.0	10	71	14	58	63	0	2	34	1.07
602709--602786	27	2.9	28	78	19	78	58	0	0	41	0.98
602746--602827	27	3.2	27	72	18	84	58	0	0	41	0.98
606703--606727	13	1.9	13	100	0	50	64	0	0	36	0.94
606711--606750	16	2.6	15	88	7	62	52	0	0	47	1.00
606746--606789	16	2.8	16	80	12	56	38	0	0	61	0.96
606737--606794	18	3.2	17	75	9	53	41	0	0	58	0.98
606800--606834	13	2.7	13	91	8	54	57	2	0	40	1.14
608166--608279	58	2.0	58	92	0	192	47	0	2	49	1.21

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21