genome.fa.s48.2.7.7.80.10.50.1000.5.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: Scaffold48
Parameters: 2 7 7 80 10 50 1000
Length:  4619657

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   26   27   

This is table  5  of  27  ( 3212 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)
551185--551232	21	2.3	21	82	13	64	52	0	2	45	1.12
554477--554581	39	2.7	39	94	4	176	28	0	3	67	1.08
554634--554689	24	2.4	24	82	11	71	58	3	3	33	1.32
555712--555767	27	2.1	27	86	6	78	44	0	0	55	0.99
555913--555954	2	21.0	2	100	0	84	50	0	0	50	1.00
557265--557303	17	2.3	17	90	0	60	87	5	0	7	0.68
557553--557580	2	14.0	2	100	0	56	50	0	0	50	1.00
561645--561721	36	2.1	37	80	7	95	40	28	11	19	1.87
561673--561729	18	3.2	18	65	9	53	31	29	19	19	1.96
561660--561736	36	2.1	36	95	0	136	29	31	16	22	1.96
563802--563851	17	3.1	17	75	21	54	50	0	0	50	1.00
563912--563970	22	2.6	23	75	21	61	52	0	0	47	1.00
564696--564746	15	3.5	15	71	15	52	60	0	1	37	1.08
565017--565068	23	2.2	24	86	10	72	55	0	0	44	0.99
565164--565202	21	1.9	20	89	5	60	66	5	0	28	1.12
565641--565729	25	3.4	27	80	10	89	52	0	0	47	1.00
565651--565766	61	1.9	59	81	15	137	52	0	0	46	1.06
565804--565864	22	2.7	22	80	14	72	60	0	0	39	0.97
566104--566252	25	6.3	24	66	22	77	43	1	0	54	1.13
566006--566278	110	2.4	110	85	7	347	42	1	1	54	1.16
566198--566336	67	2.1	68	80	12	166	43	0	0	56	1.04
566389--566419	12	2.5	13	94	5	55	67	0	0	32	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
566385--566428	13	3.3	13	80	3	52	68	0	0	31	0.90
566678--566741	29	2.2	29	83	8	76	50	1	0	48	1.10
568834--568870	18	2.1	17	90	5	56	56	5	0	37	1.22
569527--569628	44	2.5	41	81	9	109	46	0	0	53	1.00
569565--569652	44	2.0	44	80	10	101	43	2	1	53	1.20
570110--570158	2	24.5	2	95	0	89	48	2	0	48	1.12
575776--575867	5	17.8	5	80	14	107	60	0	0	39	0.97
575794--575889	22	4.6	21	82	8	81	61	0	0	38	0.96
579502--579530	2	14.5	2	100	0	58	0	48	0	51	1.00
579530--579557	2	14.0	2	100	0	56	50	0	0	50	1.00
582338--582380	2	21.5	2	100	0	86	0	48	0	51	1.00
582788--582845	7	8.0	7	81	11	55	34	0	0	65	0.93
582799--582875	37	2.1	37	87	4	111	40	0	0	59	0.97
582834--582894	26	2.3	26	80	5	61	45	3	0	50	1.17
583015--583053	18	2.2	18	90	0	60	30	0	0	69	0.89
583002--583064	31	2.0	31	84	6	83	30	1	0	68	0.99
586701--586780	24	3.3	24	91	3	117	41	22	18	17	1.90
587729--587754	2	13.0	2	100	0	52	0	50	0	50	1.00
595459--595492	16	2.1	16	88	0	50	41	2	0	55	1.15
595722--595750	3	9.7	3	100	0	58	31	0	0	68	0.89
596827--597255	213	2.0	213	89	0	662	36	17	16	29	1.92
600326--600369	2	22.0	2	95	0	79	47	0	2	50	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
605376--605475	16	5.6	17	73	13	62	58	0	2	40	1.10
605388--605450	32	1.9	33	87	3	92	60	0	1	38	1.07
605743--605906	74	2.2	73	82	4	195	50	3	2	43	1.33
605814--605875	25	2.7	22	80	12	63	53	1	0	45	1.10
607836--607868	17	1.9	17	93	0	57	66	3	0	30	1.06
608387--608425	14	2.8	14	88	0	60	43	0	0	56	0.99
613845--613870	7	3.7	7	100	0	52	30	0	0	69	0.89
630582--630633	2	26.0	2	88	0	77	50	1	3	44	1.31
631913--631946	18	1.9	18	88	5	52	38	0	14	47	1.45
632389--632456	21	3.3	20	79	10	75	52	7	2	36	1.44
632727--632888	90	1.8	85	88	6	243	34	14	9	41	1.79
638112--638233	32	3.8	31	68	22	83	42	2	0	54	1.19
638206--638333	28	4.5	28	67	19	77	41	3	0	55	1.15
638188--638327	9	14.9	9	65	18	54	43	2	0	54	1.12
640856--640917	16	3.9	16	82	0	61	59	4	1	33	1.28
640856--640920	32	2.0	32	84	0	85	58	4	1	35	1.28
640865--640920	16	3.5	16	85	0	67	57	5	0	37	1.22
642551--642580	2	15.0	2	100	0	60	50	0	0	50	1.00
649996--650182	97	1.9	97	87	0	275	51	3	4	40	1.39
650293--650338	20	2.4	20	82	7	51	45	2	0	52	1.13
652176--652229	12	4.4	13	73	21	62	51	0	0	48	1.00
652164--652250	31	2.8	30	77	6	86	55	0	1	43	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
652376--652422	17	2.8	17	84	9	53	63	0	0	36	0.94
652393--652440	25	1.9	25	87	8	71	58	0	0	41	0.98
655416--655462	18	2.6	19	86	10	71	23	12	42	21	1.87
659434--659460	1	27.0	1	100	0	54	0	100	0	0	0.00
663658--663724	22	3.1	22	75	14	59	61	0	0	38	0.96
663685--663731	16	3.1	15	78	9	51	65	0	0	34	0.93
663889--663943	28	2.0	28	82	7	67	47	1	0	50	1.11
663950--663982	2	16.5	2	100	0	66	48	0	0	51	1.00
668570--668649	39	2.1	39	97	0	151	37	7	8	46	1.63
669435--669481	11	4.1	12	78	8	53	36	0	0	63	0.94
669539--669611	27	2.6	28	74	22	71	60	1	0	38	1.06
669689--669724	16	2.1	18	90	10	58	58	0	0	41	0.98
670329--670366	5	7.6	5	87	0	58	42	0	2	55	1.14
670355--670417	26	2.4	26	78	5	65	55	0	1	42	1.09
670590--670666	16	4.8	16	87	3	109	59	0	0	40	0.97
670590--670666	33	2.4	32	88	2	109	59	0	0	40	0.97
673657--673703	12	3.7	13	77	13	53	65	0	4	29	1.11
673654--673711	24	2.5	23	75	10	64	67	0	3	29	1.07
678895--678950	18	3.1	19	74	5	62	46	0	0	53	1.00
678940--678977	18	2.1	19	90	5	60	65	0	0	34	0.93
679258--679305	20	2.5	19	83	16	55	20	0	4	75	0.97
679260--679305	16	2.9	16	84	9	58	21	0	4	73	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
679506--679556	26	2.0	25	81	11	59	19	0	11	68	1.20
685208--685280	7	9.9	7	72	20	51	1	16	1	80	0.85
685211--685280	15	4.5	14	78	18	68	1	15	1	81	0.84
685219--685280	32	1.9	33	87	9	92	0	16	1	82	0.75
686485--686528	20	2.2	20	87	0	61	29	2	4	63	1.26
689535--689580	17	2.8	17	84	12	60	41	0	0	58	0.98
689582--689615	17	2.1	16	88	5	50	50	5	0	44	1.26
689594--689656	30	2.1	29	82	8	74	55	3	0	41	1.16
692173--692216	2	23.0	2	86	9	65	50	2	0	47	1.13
693771--693809	20	2.0	20	100	0	78	33	20	25	20	1.97
694391--694595	113	1.8	113	96	0	383	36	21	15	26	1.93
701265--701291	14	1.9	14	100	0	54	51	0	0	48	1.00
701315--701346	17	1.9	17	93	6	57	37	0	3	59	1.13
701308--701383	28	2.7	27	78	13	82	34	2	3	59	1.30
702646--702693	24	1.9	25	83	8	62	43	0	0	56	0.99
702840--702897	21	2.9	21	79	7	75	53	0	0	46	1.00
702839--702890	23	2.3	23	93	0	86	51	0	0	48	1.00
702842--702897	20	2.8	19	73	7	58	53	0	0	46	1.00
704003--704137	43	3.1	43	98	0	261	49	5	4	40	1.45
710502--710590	33	2.6	33	78	5	88	57	1	1	40	1.13
710542--710586	20	2.3	20	85	7	58	53	0	2	44	1.13
710499--710586	18	4.8	18	71	22	60	56	1	1	40	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
711047--711088	22	1.9	22	85	9	59	50	0	0	50	1.00
717759--717788	4	7.8	4	92	7	53	23	0	0	76	0.78
718166--718197	16	1.9	17	93	6	57	53	0	3	43	1.16
718210--718242	16	1.9	18	88	11	52	45	0	0	54	0.99
720235--720282	15	3.2	15	85	5	62	0	31	0	68	0.90
720364--720410	11	4.4	11	79	10	53	68	2	0	29	1.02
720569--720619	21	2.4	21	84	12	61	64	0	0	35	0.94
720649--720694	4	12.0	4	88	9	51	0	17	0	82	0.67
720649--720697	11	5.1	10	87	12	52	0	18	0	81	0.69
725928--725968	20	2.0	20	90	9	66	31	2	19	46	1.63

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   26   27