genome.fa.s20.2.7.7.80.10.50.1000.4.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: Scaffold20
Parameters: 2 7 7 80 10 50 1000
Length:  3599867

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   

This is table  4  of  25  ( 2919 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)
482633--482658	13	2.0	13	100	0	52	30	15	15	38	1.88
482613--482676	32	2.0	33	87	3	94	28	14	17	40	1.88
487307--487337	15	2.1	15	93	0	53	12	22	16	48	1.80
491401--491426	13	2.0	13	100	0	52	30	15	15	38	1.88
491381--491444	32	2.0	33	87	3	94	28	14	17	40	1.88
494289--494327	11	3.5	11	86	6	51	76	0	10	12	1.01
494283--494328	17	2.7	17	82	0	56	73	0	10	15	1.08
494283--494328	6	8.0	6	78	9	51	73	0	10	15	1.08
495405--495458	20	2.7	20	83	11	67	33	16	16	33	1.92
509193--509372	92	2.0	92	85	0	243	30	17	20	32	1.95
512414--512453	16	2.5	16	87	0	53	42	0	17	40	1.49
523408--523546	51	2.7	52	88	3	192	42	11	15	30	1.82
525102--525154	27	2.0	27	84	0	70	26	16	30	26	1.97
526650--526793	68	2.1	68	98	0	279	22	18	27	32	1.97
527397--527471	20	3.7	20	82	3	96	33	12	17	37	1.86
527397--527479	41	2.0	41	92	0	139	32	12	19	36	1.88
529306--529331	13	2.0	13	100	0	52	30	15	15	38	1.88
530038--530081	21	2.1	21	83	8	54	25	31	4	38	1.76
531888--531926	13	3.0	13	88	0	60	38	15	12	33	1.85
534005--534035	15	2.1	15	93	0	53	12	22	16	48	1.80
535839--535883	21	2.1	21	84	8	56	22	20	4	53	1.63
538109--538134	13	2.0	13	100	0	52	30	15	15	38	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
540770--540843	21	3.6	21	96	1	132	40	10	18	29	1.85
540770--540865	41	2.3	42	83	5	115	39	12	15	32	1.85
541685--541750	33	2.0	33	85	5	89	30	13	15	40	1.85
546958--547177	77	2.8	75	78	13	230	30	19	11	39	1.87
546915--547448	267	2.0	267	95	1	964	31	19	11	38	1.86
547226--547684	79	5.8	79	82	4	545	29	22	10	37	1.88
553123--553315	82	2.4	79	80	6	233	25	25	11	36	1.90
553344--553447	52	2.0	53	88	5	158	28	26	5	38	1.79
556654--556835	20	9.7	19	72	23	131	30	20	10	38	1.87
556649--556748	41	2.5	40	90	4	148	31	23	12	34	1.91
556695--556886	87	2.2	90	94	5	338	29	19	10	41	1.84
560430--560454	13	1.9	13	100	0	50	36	16	16	32	1.90
560408--560472	33	2.0	33	87	0	94	38	12	20	29	1.89
562054--562092	9	4.3	9	93	0	69	43	0	33	23	1.54
562056--562090	3	11.7	3	87	0	52	40	0	34	25	1.56
568464--568521	19	3.0	20	87	5	82	36	13	10	39	1.79
568438--568500	32	1.9	33	87	9	94	30	15	12	41	1.85
568471--568521	20	2.6	19	90	3	75	35	13	11	39	1.82
568471--568527	20	3.0	19	85	7	71	36	12	12	38	1.80
570879--570929	20	2.6	21	81	12	63	21	0	17	60	1.36
571973--572376	154	2.6	155	79	7	344	27	15	18	38	1.91
572869--573751	309	2.9	308	78	6	853	26	13	19	41	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
572872--573751	155	5.7	154	76	7	656	26	13	19	41	1.88
580510--580563	20	2.7	20	91	5	83	42	11	14	31	1.81
580530--580617	19	4.9	18	76	19	78	39	12	11	36	1.79
580570--580594	13	1.9	13	100	0	50	32	16	16	36	1.90
580551--580613	32	2.0	32	93	0	108	36	14	11	38	1.81
582715--582754	17	2.3	17	86	4	53	77	5	12	5	1.09
588604--588724	52	2.3	52	95	0	215	29	17	18	34	1.94
588604--588744	52	2.7	51	89	4	203	31	17	18	33	1.94
588733--588757	13	1.9	13	100	0	50	36	16	16	32	1.90
588821--588845	13	1.9	13	100	0	50	32	16	16	36	1.90
591901--591927	11	2.5	11	100	0	54	85	0	7	7	0.75
593653--593846	29	6.8	28	80	2	100	37	20	4	37	1.74
593709--593856	29	5.1	28	78	14	158	38	22	6	32	1.79
593708--593847	58	2.4	59	82	12	175	37	22	5	35	1.78
595339--595458	53	2.3	49	82	10	141	34	5	25	34	1.80
595394--595650	81	3.2	81	84	2	313	30	10	28	30	1.90
598026--598106	32	2.5	32	97	0	153	37	14	16	32	1.89
598705--598760	29	1.9	29	81	0	67	42	16	7	33	1.75
598923--599232	153	2.0	154	81	5	369	42	17	10	29	1.83
599932--599990	21	2.8	21	84	7	75	37	11	18	32	1.87
599957--600103	41	3.3	41	69	21	125	29	15	14	40	1.87
600028--600083	20	2.8	20	88	2	76	33	16	12	37	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
599955--600157	93	2.2	93	92	1	336	30	15	13	40	1.86
602596--602832	79	3.0	78	84	1	312	29	24	11	35	1.90
602839--603122	79	3.6	78	77	11	229	28	27	10	32	1.91
602842--603098	81	3.2	80	81	8	233	28	27	10	33	1.90
612644--613378	366	2.0	366	99	0	1445	34	18	22	25	1.96
624346--624388	21	2.0	21	86	0	59	51	2	18	27	1.59
624326--624374	25	2.0	25	84	8	64	53	2	22	22	1.57
625033--625059	13	2.1	13	100	0	54	29	14	14	40	1.86
625016--625077	33	1.9	32	83	9	81	29	14	14	41	1.85
625126--625188	33	1.9	33	93	0	108	36	11	20	31	1.88
625158--625183	13	2.0	13	100	0	52	30	15	15	38	1.88
626489--626632	70	2.1	67	82	7	166	26	25	13	34	1.93
626523--626750	124	1.8	123	83	3	305	25	25	13	35	1.92
626646--626965	72	4.5	71	79	11	289	26	24	14	34	1.94
626646--626965	144	2.2	140	80	7	358	26	24	14	34	1.94
627488--627512	13	1.9	13	100	0	50	32	16	16	36	1.90
641708--641790	37	2.2	37	89	0	139	28	16	12	42	1.84
642140--642223	28	3.0	28	80	5	107	33	28	15	22	1.95
642202--642357	34	4.6	33	74	9	120	19	31	13	35	1.90
642474--642781	52	6.1	49	78	6	278	25	26	15	32	1.96
642478--642666	97	1.9	99	89	4	292	24	27	17	30	1.97
647074--647126	20	2.7	20	96	0	97	41	11	16	30	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
647187--647332	41	3.3	41	67	22	105	28	18	13	39	1.89
647258--647336	20	3.9	20	86	8	115	30	18	11	39	1.86
647186--647377	93	2.1	93	90	0	303	28	18	14	39	1.89
647207--647363	52	3.2	51	72	22	156	28	19	13	38	1.89
647780--647833	20	2.6	21	91	2	83	38	11	20	29	1.87
647900--648018	52	2.3	51	83	1	148	26	15	14	42	1.86
652767--652843	32	2.4	32	91	0	127	40	16	15	27	1.89
652853--652899	20	2.3	20	100	0	94	25	14	10	48	1.76
652927--653091	82	2.0	82	93	0	285	33	8	13	44	1.75
653013--653066	21	2.6	21	85	5	74	27	12	14	44	1.82
653688--653993	61	5.2	61	73	13	210	36	14	25	23	1.92
653856--653957	52	2.0	52	82	0	123	34	17	24	23	1.96
653788--654072	113	2.5	112	83	4	349	36	14	24	24	1.93
653984--654162	52	3.5	51	84	3	214	38	17	21	21	1.93
654218--654702	32	15.2	32	79	5	398	22	17	30	30	1.96
654234--654702	127	3.7	125	76	6	440	21	17	29	30	1.96
654723--654860	27	4.6	27	77	16	123	33	10	31	24	1.90
654769--655047	33	8.5	33	79	8	232	40	10	26	22	1.87
654780--655030	99	2.5	98	84	6	310	42	9	25	22	1.84
654992--655140	60	2.5	59	83	3	181	32	14	29	23	1.94
654992--655148	30	5.2	29	80	3	134	33	14	30	22	1.93
663854--663907	20	2.7	20	85	2	72	31	16	11	40	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
665220--665401	51	3.6	52	78	10	187	28	22	10	39	1.87
665235--665401	52	3.3	51	78	9	187	27	22	10	38	1.87
665417--665584	51	3.3	50	80	9	203	31	26	7	35	1.83
665335--665802	183	2.5	184	88	2	681	28	26	10	34	1.90
665598--665724	54	2.4	51	81	3	146	24	25	13	37	1.92
665755--665829	28	2.7	28	87	2	107	30	34	14	20	1.92
669049--669420	79	4.7	78	79	2	343	30	24	8	36	1.86
669049--669404	157	2.3	157	81	3	396	30	23	8	36	1.85
669763--669828	20	3.3	19	85	8	87	28	16	12	42	1.84
672117--672286	51	3.4	49	77	5	180	28	27	12	31	1.93

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25