genome.fa.s35.2.7.7.80.10.50.1000.4.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: Scaffold35
Parameters: 2 7 7 80 10 50 1000
Length:  4812169

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   28   29   30   

This is table  4  of  30  ( 3549 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)
528879--529019	28	5.1	27	62	16	65	21	19	30	29	1.97
528926--529008	26	3.1	26	63	13	60	15	19	31	33	1.93
536269--536653	52	7.4	50	69	12	213	31	12	26	29	1.92
536269--536489	51	4.3	51	81	5	221	30	12	26	29	1.93
536472--536543	28	2.6	28	84	10	94	25	19	33	22	1.97
539017--539042	13	2.0	13	100	0	52	38	15	15	30	1.88
539086--539169	13	5.5	13	68	28	51	36	17	11	33	1.87
539094--539190	19	5.8	18	70	27	88	38	17	11	32	1.85
539086--539188	32	3.2	32	95	0	188	36	18	11	33	1.87
539898--539948	20	2.5	20	87	0	75	35	11	13	39	1.82
545828--545887	31	2.0	30	90	3	93	53	0	21	25	1.46
552325--552359	17	1.9	19	88	11	56	51	5	2	40	1.40
552887--553293	164	2.5	164	86	4	552	52	9	10	27	1.66
558334--558388	20	2.8	20	83	5	76	41	9	18	30	1.81
558354--558496	73	2.0	73	88	0	214	31	12	20	35	1.90
561376--561485	51	2.2	50	80	1	130	38	9	23	29	1.85
561429--561679	79	3.2	79	84	2	308	35	10	24	29	1.89
565261--565703	43	10.4	44	73	12	281	20	23	16	40	1.91
565166--565443	127	2.2	121	79	6	272	22	22	14	40	1.90
565218--565445	44	5.6	39	76	9	161	22	22	14	41	1.89
565367--565836	217	2.2	211	80	8	475	21	22	15	40	1.91
565726--565834	44	2.5	45	83	5	125	22	25	13	37	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
565901--566132	44	5.5	44	66	14	157	20	18	18	43	1.88
565916--566070	77	2.0	77	97	0	292	21	14	19	44	1.86
566228--566353	43	3.0	42	74	13	123	18	25	13	42	1.86
566210--566411	83	2.4	85	78	7	225	18	27	13	40	1.89
567192--567788	166	3.6	166	83	4	713	30	10	8	50	1.66
573351--573375	10	2.5	10	100	0	50	28	16	8	48	1.74
574821--574945	52	2.4	52	95	0	223	28	17	18	36	1.94
574821--574965	52	2.8	52	86	4	211	29	16	18	35	1.93
574954--574978	13	1.9	13	100	0	50	36	16	16	32	1.90
575042--575066	13	1.9	13	100	0	50	32	16	16	36	1.90
576017--576084	21	3.2	21	65	19	59	30	17	25	26	1.97
575972--576348	49	7.8	49	87	5	498	30	17	25	25	1.97
575972--576351	147	2.6	141	88	6	564	30	17	26	25	1.97
576353--576434	33	2.5	33	93	0	146	15	19	32	31	1.93
576420--576771	34	10.6	34	82	9	381	30	13	34	21	1.92
576517--576804	63	4.5	63	85	6	373	30	13	34	21	1.92
576420--576804	97	3.9	100	81	10	425	30	13	34	21	1.92
576525--576929	97	4.3	94	80	10	265	29	14	33	22	1.94
576751--576926	31	5.7	31	84	7	189	27	17	30	25	1.97
577927--577963	13	2.9	12	88	11	56	0	8	2	89	0.58
583362--583386	10	2.5	10	100	0	50	28	16	8	48	1.74
584832--584956	52	2.4	52	93	0	214	28	17	17	36	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
584832--584976	52	2.8	51	87	4	202	29	17	17	35	1.93
584965--584989	13	1.9	13	100	0	50	36	16	16	32	1.90
585053--585077	13	1.9	13	100	0	50	32	16	16	36	1.90
585936--586359	49	8.6	52	84	8	349	31	16	26	26	1.96
585983--586359	49	7.8	49	86	5	480	30	16	25	26	1.97
585983--586362	147	2.6	141	86	6	546	30	16	26	26	1.97
586364--586445	33	2.5	33	97	0	155	15	20	32	30	1.94
586431--586782	34	10.6	34	83	9	390	30	13	34	21	1.92
586528--586815	63	4.5	63	87	6	400	29	13	34	21	1.92
586431--586815	97	3.9	100	82	10	434	30	13	34	21	1.92
586762--586937	62	2.8	61	84	5	212	26	18	30	24	1.98
586536--586940	97	4.3	94	82	11	276	28	15	33	22	1.95
586762--586937	31	5.7	31	84	7	189	26	18	30	24	1.98
587930--587971	13	3.1	13	86	6	57	0	9	4	85	0.72
593695--593719	10	2.5	10	100	0	50	28	16	8	48	1.74
595165--595289	52	2.4	52	94	0	214	28	16	18	36	1.93
595165--595309	52	2.8	52	87	4	195	29	16	18	35	1.93
598210--598401	96	2.0	98	82	2	235	36	10	23	28	1.89
605139--606311	49	23.8	49	73	8	628	33	16	25	24	1.96
605028--605973	302	3.1	301	94	0	1649	34	16	26	22	1.95
605932--606046	43	2.8	40	85	5	151	26	19	26	27	1.99
606013--606310	48	6.0	48	79	7	267	34	16	22	26	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
606526--606610	37	2.3	37	97	0	161	44	15	14	25	1.84
616801--616884	19	4.7	19	78	18	99	33	10	17	38	1.85
616822--616889	32	2.1	32	94	0	118	33	10	17	38	1.84
616923--617127	52	3.9	52	91	1	322	36	18	16	29	1.92
620581--620668	29	3.0	28	71	22	74	47	15	12	23	1.80
620583--620735	58	2.6	58	82	2	173	47	16	9	25	1.78
621298--621323	13	2.0	13	100	0	52	30	15	15	38	1.88
624990--625036	12	4.0	12	81	10	53	68	10	10	10	1.41
625799--625843	22	2.0	22	82	0	54	44	11	20	24	1.83
626185--626269	38	2.3	36	77	15	91	41	14	9	35	1.78
626281--626406	35	3.6	36	77	6	132	40	17	11	30	1.85
627048--627076	12	2.3	13	94	5	51	51	17	17	13	1.76
627857--627893	18	2.1	18	94	0	65	21	8	29	40	1.82
631478--631833	79	4.5	79	81	4	396	32	13	25	28	1.94
634258--634283	13	2.0	13	100	0	52	38	15	15	30	1.88
635188--635213	13	2.0	13	100	0	52	30	15	15	38	1.88
639038--639084	21	2.3	20	79	10	51	23	8	6	61	1.48
647043--647116	30	2.5	30	89	6	107	28	24	6	40	1.80
648817--648864	21	2.4	21	86	6	64	45	0	20	33	1.52
648990--649036	13	3.5	13	83	11	67	44	14	8	31	1.76
660130--660673	269	2.0	269	97	0	1034	34	23	12	29	1.91
661014--661043	13	2.3	13	94	0	51	33	13	20	33	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
660993--661059	33	2.0	33	88	5	100	32	19	14	32	1.92
661109--661134	13	2.0	13	100	0	52	38	15	15	30	1.88
662348--662399	19	2.7	19	87	0	68	42	21	3	32	1.71
666958--667011	20	2.7	19	83	11	65	35	18	14	31	1.91
667040--667090	20	2.6	20	90	3	77	35	15	17	31	1.92
667062--667123	32	1.9	33	83	9	83	38	11	16	33	1.84
674501--674545	21	2.1	21	84	8	56	53	4	20	22	1.63
676095--676125	15	2.1	15	93	0	53	48	16	22	12	1.80
678138--678217	20	3.8	20	75	15	79	26	15	15	43	1.85
678203--678241	13	3.0	13	96	0	69	30	17	15	35	1.91
680012--680047	14	2.6	14	90	0	54	50	5	13	30	1.65
680021--680049	14	2.1	14	100	0	58	41	6	13	37	1.72
680808--680833	13	2.0	13	100	0	52	38	15	15	30	1.88
685355--685395	20	2.0	20	90	0	64	34	12	21	31	1.91
687592--687630	21	1.9	20	94	5	69	35	12	15	35	1.86
688052--688146	32	2.9	32	95	1	163	35	13	16	33	1.88
688047--688144	19	5.8	18	69	28	81	33	13	17	35	1.88
688101--688125	13	1.9	13	100	0	50	36	16	16	32	1.90
688185--688209	13	1.9	13	100	0	50	32	16	16	36	1.90
688221--688348	52	2.5	52	96	0	238	35	20	16	28	1.94
692773--692829	19	2.9	19	92	5	96	33	14	17	35	1.90
692774--692828	20	2.8	20	94	2	94	32	12	18	36	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
693717--693777	8	7.5	8	75	10	61	78	1	18	1	0.91
693717--693758	13	3.3	12	87	9	57	83	2	14	0	0.75
693719--693751	9	3.8	9	84	8	50	87	0	12	0	0.53
697798--697824	13	2.1	13	100	0	54	29	14	14	40	1.86
697779--697840	33	1.9	32	87	9	90	27	14	16	41	1.87
697808--697864	19	2.9	19	81	2	69	33	12	17	36	1.87
697893--697961	33	2.1	33	86	5	95	33	13	17	36	1.88
706592--706648	19	2.9	19	89	2	87	31	15	17	35	1.92
706678--706743	20	3.7	20	73	26	83	33	15	18	33	1.92
706693--706778	13	7.5	13	69	28	70	33	13	17	34	1.89

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   28   29   30