genome.fa.s81.2.7.7.80.10.50.1000.5.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: Scaffold81
Parameters: 2 7 7 80 10 50 1000
Length:  1151237

Tables:   1   2   3   4   5   6   7   8   9   

This is table  5  of  9  ( 1060 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)
552612--552692	20	4.1	19	75	15	83	28	27	1	43	1.63
552592--552704	60	1.9	60	88	3	174	27	27	2	42	1.69
554533--554557	13	1.9	13	100	0	50	36	16	16	32	1.90
560520--560546	10	2.7	10	100	0	54	22	18	18	40	1.91
560630--560685	19	2.9	19	91	2	85	35	17	16	30	1.92
560670--560696	13	2.1	13	100	0	54	40	14	14	29	1.86
560651--560715	32	2.0	32	90	3	103	40	16	16	26	1.90
567166--567213	24	1.9	25	83	8	62	33	0	2	64	1.05
567659--567718	25	2.3	26	77	13	70	45	3	1	50	1.28
569712--569760	23	2.1	24	85	11	66	32	0	4	63	1.13
570079--570108	12	2.5	12	88	0	51	26	10	3	60	1.45
574976--575004	2	14.5	2	100	0	58	51	0	0	48	1.00
579714--579738	2	12.5	2	100	0	50	52	0	0	48	1.00
583559--583615	13	3.9	13	74	24	51	36	14	15	33	1.88
583572--583634	19	3.7	18	72	24	64	34	12	15	36	1.86
583558--583647	32	2.8	32	91	0	144	35	14	14	35	1.87
584646--584679	17	2.0	17	100	0	68	23	23	23	29	1.99
585422--585560	28	4.9	28	81	5	161	31	33	17	17	1.94
585426--585537	59	1.9	58	88	1	170	30	33	18	17	1.95
585422--585566	59	2.5	58	82	3	159	31	32	17	19	1.95
585545--585773	34	6.7	34	85	5	277	20	29	10	39	1.86
585541--585767	69	3.3	68	88	5	325	21	29	11	38	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
585741--585822	27	2.9	28	85	7	96	24	32	18	24	1.97
585761--585842	28	2.9	27	82	8	92	29	31	19	19	1.96
585774--585868	29	3.3	29	81	11	99	33	31	16	17	1.93
585895--586196	87	3.4	87	74	5	210	26	25	18	29	1.98
591549--591623	20	3.8	19	78	7	87	41	12	13	33	1.81
591546--591623	40	2.0	39	89	2	120	41	12	12	33	1.82
592181--592783	28	20.9	29	81	7	592	23	18	29	28	1.98
592250--592784	115	4.7	112	84	4	612	23	18	30	27	1.97
593446--593470	13	1.9	13	100	0	50	36	16	16	32	1.90
593426--593492	33	2.0	33	88	0	98	32	11	14	40	1.83
593533--593557	13	1.9	13	100	0	50	32	16	16	36	1.90
593566--593694	52	2.5	52	96	0	231	34	17	17	30	1.93
597574--597637	13	4.9	13	76	17	62	4	3	7	84	0.86
597574--597634	25	2.4	25	86	8	79	4	3	6	85	0.83
611616--611690	20	3.8	19	80	7	78	42	12	12	33	1.79
612710--612787	20	3.9	20	80	12	97	38	16	16	28	1.91
614782--614842	2	30.5	2	86	0	86	44	1	4	49	1.33
614910--614952	23	1.9	23	85	4	61	65	4	9	20	1.40
616623--616669	16	2.8	17	77	22	55	40	0	4	55	1.19
616627--616662	18	2.0	19	89	10	58	41	0	5	52	1.24
618051--618131	42	2.0	41	85	11	112	40	1	3	54	1.26
618064--618145	42	2.0	42	83	9	105	39	1	6	53	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
619160--619194	16	2.1	17	89	5	54	62	0	8	28	1.24
619203--619248	16	2.9	16	81	15	51	41	0	0	58	0.98
619208--619269	32	1.9	32	83	6	81	45	1	0	53	1.10
619547--619576	14	2.1	14	100	0	60	66	0	0	33	0.92
620186--620249	28	2.2	29	80	5	76	31	3	0	65	1.08
620530--620569	10	3.8	10	93	6	62	57	0	0	42	0.98
620639--620691	28	1.9	28	88	3	81	50	0	0	49	1.00
620630--620691	28	2.3	27	82	2	79	50	1	0	48	1.10
623871--623921	25	2.0	24	85	14	68	23	3	5	66	1.30
624141--624204	21	3.0	21	77	22	71	62	0	1	35	1.05
626615--626954	132	2.6	131	81	2	351	39	10	9	40	1.73
627294--627349	26	2.2	26	81	18	64	39	0	1	58	1.08
627393--627462	27	2.7	26	71	4	70	41	1	0	57	1.08
627396--627467	26	2.7	27	74	6	76	41	1	1	55	1.17
628567--628646	27	3.0	27	77	12	76	48	1	1	48	1.17
629133--629177	15	3.0	15	90	0	72	33	0	0	66	0.92
629133--629175	8	5.6	8	83	10	63	30	0	0	69	0.88
629319--629354	3	12.0	3	100	0	72	66	0	0	33	0.92
629472--629505	3	11.7	3	93	6	61	70	0	0	29	0.87
629537--629589	2	27.5	2	81	7	65	49	1	0	49	1.12
636425--636485	20	3.2	20	75	13	65	42	1	0	55	1.09
636748--636793	16	3.1	15	79	17	51	39	2	0	58	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
639759--639814	18	3.0	19	78	5	69	42	3	1	51	1.29
639757--639806	19	2.8	17	77	14	55	40	4	0	56	1.18
640337--640385	17	2.7	18	77	17	57	57	0	0	42	0.99
640684--640746	31	2.0	31	82	11	76	53	6	6	33	1.51
640821--640882	26	2.3	27	80	8	72	51	0	0	48	1.00
641374--641414	16	2.6	16	92	0	64	9	17	34	39	1.82
641387--641490	53	2.0	53	83	7	131	17	16	30	35	1.92
641459--641501	23	1.9	23	90	4	70	23	9	25	41	1.84
642691--642723	2	16.5	2	100	0	66	48	0	0	51	1.00
642980--643013	2	17.0	2	93	0	59	50	2	0	47	1.16
643175--643249	24	3.2	24	71	16	68	54	0	0	45	0.99
644870--644936	25	2.8	25	76	14	70	52	0	0	47	1.00
645047--645098	27	1.9	27	88	7	79	44	5	3	46	1.45
645459--645488	15	1.9	16	93	6	53	40	3	6	50	1.45
645689--645734	24	1.9	24	81	0	56	56	0	0	43	0.99
645751--645806	17	3.2	17	79	5	58	57	1	1	39	1.20
649343--649741	200	2.0	200	99	0	789	28	17	17	37	1.92
653772--654416	92	6.9	95	79	7	622	45	17	15	21	1.86
654248--654585	171	2.0	173	82	6	420	49	16	13	20	1.79
654416--654633	94	2.3	94	81	7	262	47	16	12	23	1.81
655673--655727	2	28.0	2	92	3	94	50	0	47	1	1.11
656413--656453	11	3.8	11	78	18	50	31	0	0	68	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
659266--659322	28	2.0	28	90	6	89	50	0	0	49	1.00
666465--666519	16	3.4	16	82	5	67	32	0	3	63	1.12
667026--667057	16	2.0	16	93	0	55	25	3	18	53	1.59
668210--668267	28	2.1	28	81	12	66	31	12	10	46	1.74
668634--668970	172	1.9	173	80	7	380	33	8	11	46	1.71
670005--670064	24	2.5	23	82	12	68	56	1	0	41	1.09
675054--675101	26	1.9	24	87	8	69	50	10	6	33	1.62
677569--677639	15	5.4	14	74	16	55	63	0	0	36	0.95
677585--677639	19	3.0	18	73	17	51	65	0	0	34	0.93
677575--677636	26	2.4	26	78	7	65	66	0	0	33	0.92
677593--677646	19	2.9	19	71	25	53	64	0	0	35	0.94
677641--677764	32	3.7	32	74	16	115	50	0	2	46	1.20
677645--677740	23	4.1	22	69	18	68	51	0	1	47	1.07
677593--677711	11	12.5	10	67	22	53	56	0	0	42	1.05
677628--677768	72	2.0	70	84	8	187	50	0	2	46	1.18
677815--677882	20	3.4	20	69	20	52	52	1	0	45	1.09
677758--677930	94	1.8	94	86	4	251	57	4	2	36	1.30
677986--678019	16	2.2	15	89	5	50	61	0	0	38	0.96
678219--678276	6	10.0	6	72	20	52	37	0	1	60	1.07
678225--678276	15	3.7	15	71	23	51	38	0	1	59	1.08
678218--678260	20	2.2	19	87	4	59	39	0	2	58	1.11
678218--678281	24	2.9	21	79	20	69	39	0	1	59	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
678353--678388	14	2.5	15	86	9	56	44	5	0	50	1.25
678819--678873	21	2.5	23	75	19	64	54	0	0	45	0.99
679577--679767	92	2.1	92	90	3	307	40	6	5	47	1.53
679613--679801	92	2.1	88	79	13	195	39	6	7	47	1.57
682062--682148	6	13.4	7	71	20	57	39	0	0	60	0.97
682095--682133	14	2.6	15	84	8	53	46	0	0	53	1.00
682062--682148	8	10.4	8	74	14	68	39	0	0	60	0.97
682242--682279	16	2.2	18	86	9	53	39	5	0	55	1.23
682244--682300	15	3.9	14	74	17	53	40	3	0	56	1.17
682252--682343	16	5.8	17	67	25	51	43	2	1	53	1.20

Tables:   1   2   3   4   5   6   7   8   9