genome.fa.s21.2.7.7.80.10.50.1000.5.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: Scaffold21
Parameters: 2 7 7 80 10 50 1000
Length:  2821038

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   

This is table  5  of  15  ( 1753 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)
574406--574460	15	3.7	15	78	9	51	52	0	1	45	1.11
583306--583341	2	18.0	2	100	0	72	50	0	0	50	1.00
585595--585627	16	2.0	17	94	5	59	0	15	0	84	0.61
585675--585701	3	9.0	3	100	0	54	33	33	0	33	1.58
586172--586525	183	1.9	184	97	0	665	36	7	8	48	1.61
599531--599780	34	7.4	34	89	1	351	25	8	26	40	1.83
600086--600148	19	3.3	19	90	0	90	28	17	19	34	1.94
604214--604465	34	7.5	34	90	1	355	25	7	26	40	1.83
606761--606829	27	2.5	27	86	6	86	26	7	20	46	1.76
609410--609455	21	2.1	22	84	4	58	30	19	30	19	1.97
611337--611405	27	2.5	27	86	6	86	23	7	23	46	1.77
612959--612986	2	14.0	2	100	0	56	50	0	0	50	1.00
615716--615940	34	6.7	33	81	8	256	42	26	6	24	1.79
615716--615940	68	3.3	66	83	4	288	42	26	6	24	1.79
615716--615940	102	2.2	101	88	1	342	42	26	6	24	1.79
620351--620565	34	6.4	33	78	8	218	41	23	6	27	1.80
620347--620565	68	3.2	67	81	3	269	41	24	6	27	1.80
620347--620565	102	2.2	101	85	3	305	41	24	6	27	1.80
626439--626491	16	3.2	16	84	7	54	75	0	9	15	1.04
626452--626490	8	4.9	8	83	0	51	76	0	10	12	1.01
633177--633234	24	2.6	22	80	17	66	56	0	6	36	1.26
633284--633328	15	3.1	15	76	17	51	53	2	2	42	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
633320--633398	29	2.6	29	84	9	79	56	1	3	37	1.25
633332--633398	29	2.3	29	87	7	91	58	1	0	40	1.07
633699--633736	18	2.1	19	90	5	60	42	0	2	55	1.14
633996--634107	58	1.9	58	88	0	170	46	14	4	34	1.65
636610--636651	18	2.3	18	100	0	84	45	9	23	21	1.81
640426--640640	34	6.4	34	83	2	254	40	25	7	26	1.81
640420--640640	68	3.3	66	84	3	289	41	24	7	26	1.81
640419--640640	102	2.2	101	85	7	315	41	24	7	26	1.80
644679--644722	19	2.3	20	84	11	65	36	9	20	34	1.84
644689--644743	19	2.9	19	81	8	67	36	12	16	34	1.87
645050--645266	34	6.4	34	83	1	240	41	23	5	29	1.77
645049--645266	102	2.1	101	85	8	300	41	22	5	29	1.76
646689--646803	21	5.1	22	71	15	65	51	0	1	46	1.17
646721--646868	6	25.5	6	70	19	57	58	0	1	40	1.07
646737--646774	16	2.4	16	82	8	51	65	0	0	34	0.93
646780--646873	18	5.4	17	72	16	68	57	0	1	41	1.06
646802--646870	5	14.8	5	71	19	60	62	0	1	36	1.04
646820--646865	23	2.0	22	87	4	65	63	0	2	34	1.07
646982--647006	2	12.5	2	100	0	50	48	0	0	52	1.00
647396--647476	29	2.8	29	80	15	89	35	0	1	62	1.03
649486--649536	19	2.7	19	81	0	66	33	15	11	39	1.84
652225--652273	22	2.2	22	100	0	98	28	32	0	38	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
653137--653389	34	7.5	34	81	1	222	26	7	24	41	1.80
653137--653389	68	3.7	68	80	0	256	26	7	24	41	1.80
653137--653395	102	2.6	102	79	1	288	25	6	25	42	1.80
654416--654472	21	2.8	20	83	2	69	38	0	1	59	1.08
654661--654737	28	2.7	28	78	9	77	55	0	1	42	1.07
655821--655870	22	2.3	22	85	0	64	68	0	2	30	1.01
658940--658976	2	18.5	2	100	0	74	51	0	48	0	1.00
660506--660539	16	2.2	16	89	5	52	64	0	0	35	0.94
660740--660790	21	2.4	21	76	0	57	58	1	0	39	1.09
660778--660831	27	2.0	27	85	7	74	50	0	0	50	1.00
661851--661875	1	25.0	1	100	0	50	0	100	0	0	0.00
662513--662540	2	14.0	2	100	0	56	50	0	0	50	1.00
663779--663836	21	2.7	21	76	12	64	37	0	0	62	0.96
663824--663883	30	2.1	30	82	17	74	55	3	0	41	1.16
664720--664746	2	13.5	2	100	0	54	0	48	0	51	1.00
664746--664771	2	13.0	2	100	0	52	50	0	0	50	1.00
665918--665947	7	4.3	7	100	0	60	60	13	13	13	1.60
667072--667141	29	2.4	30	97	2	133	57	0	0	42	0.99
667519--667565	18	2.6	18	89	3	67	61	0	0	38	0.96
667714--667753	18	2.3	18	84	16	57	60	0	40	0	0.97
668882--668913	2	16.0	2	100	0	64	50	0	0	50	1.00
669090--669135	20	2.2	21	84	3	58	56	2	6	34	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
669287--669346	31	2.0	31	87	9	88	51	6	1	40	1.38
671638--671704	23	2.7	24	80	15	66	49	1	2	46	1.26
672289--672370	27	2.9	27	75	15	85	45	2	0	52	1.14
672303--672343	14	2.9	15	78	10	50	43	0	0	56	0.99
672289--672370	29	2.9	28	78	12	96	45	2	0	52	1.14
672294--672370	20	4.1	19	67	17	52	45	2	0	51	1.14
672298--672433	29	4.6	29	76	9	89	36	2	0	61	1.14
672360--672405	20	2.2	20	88	7	65	28	2	0	69	1.00
672391--672443	17	3.2	17	79	15	58	28	0	3	67	1.07
672366--672419	22	2.5	22	76	11	56	29	1	1	66	1.12
672359--672426	15	4.5	14	70	26	50	29	1	1	67	1.08
672355--672433	29	2.6	29	84	9	97	29	2	1	67	1.12
672355--672457	32	3.3	30	77	16	95	28	3	2	65	1.25
672503--672559	28	2.0	28	83	6	71	45	0	10	43	1.38
672548--672597	19	2.5	20	75	12	50	44	0	0	56	0.99
672590--672642	24	2.3	22	81	12	61	54	0	0	45	0.99
674272--674305	17	2.1	17	88	5	52	52	0	0	47	1.00
675795--675853	29	2.0	30	90	3	93	55	5	0	38	1.22
676340--676391	21	2.5	22	81	9	56	51	0	0	48	1.00
676354--676400	22	2.2	22	85	7	62	44	0	0	55	0.99
676522--676555	14	2.4	14	90	9	52	52	0	0	47	1.00
676556--676592	17	2.3	17	81	9	51	54	0	5	40	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
681023--681098	36	2.1	36	90	0	116	42	10	13	34	1.78
682743--682781	18	2.2	18	86	9	53	12	2	7	76	1.09
684219--684255	7	5.1	7	90	3	56	48	0	0	51	1.00
691165--691198	2	17.0	2	87	0	50	47	2	2	47	1.32
691601--691687	17	5.2	18	73	14	62	25	3	0	71	1.02
691952--692003	23	2.3	23	86	3	70	36	0	0	63	0.95
692006--692115	31	3.8	29	71	16	84	42	0	0	56	1.05
695846--695890	22	2.0	23	82	4	56	53	2	0	44	1.13
695856--695893	13	2.6	14	84	16	51	50	0	0	50	1.00
697071--697144	21	3.5	21	78	12	80	32	2	0	64	1.07
697071--697150	11	7.5	11	69	14	51	33	2	0	63	1.08
697708--697751	22	2.0	22	86	8	63	45	0	2	52	1.13
698707--698750	20	2.0	22	87	12	65	56	0	0	43	0.99
701761--701790	2	15.0	2	100	0	60	50	0	0	50	1.00
701895--701937	21	2.0	22	86	4	61	48	2	0	48	1.14
703225--703253	3	9.7	3	100	0	58	0	31	0	68	0.89
704243--704276	2	17.0	2	100	0	68	50	0	0	50	1.00
704499--704537	5	7.4	5	88	5	51	41	0	0	58	0.98
705349--705461	59	1.9	57	83	13	142	56	0	1	40	1.16
705408--705469	22	2.9	21	76	11	63	61	0	0	38	0.96
705431--705469	11	4.0	10	84	15	55	58	0	0	41	0.98
709540--709572	2	16.5	2	100	0	66	51	0	48	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
711189--711225	3	12.3	3	100	0	74	32	0	35	32	1.58
711566--711594	14	2.1	14	100	0	58	44	0	6	48	1.29
712772--712823	23	2.3	23	90	6	79	36	7	5	50	1.55
715259--715307	20	2.5	20	86	0	62	32	4	18	44	1.68
718341--718394	28	1.9	28	82	14	67	59	0	1	38	1.08
718367--718424	24	2.4	24	81	16	75	55	0	1	43	1.10
718370--718432	32	1.9	33	90	3	101	52	0	1	46	1.10
718371--718451	40	2.0	41	83	7	103	53	0	2	44	1.14
718367--718437	8	8.9	8	75	16	58	54	0	1	43	1.08
718386--718453	32	2.1	32	83	5	84	54	0	2	42	1.15

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15