genome.fa.s126.2.7.7.80.10.50.1000.4.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: Scaffold126
Parameters: 2 7 7 80 10 50 1000
Length:  2080828

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

This is table  4  of  13  ( 1448 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)
471752--471839	42	2.1	42	82	4	106	81	10	6	1	0.91
471741--471822	16	4.9	17	81	15	84	84	12	3	0	0.75
471789--471839	23	2.2	23	89	3	75	80	7	9	1	0.98
472904--473533	62	10.4	60	82	5	707	26	26	18	28	1.98
472932--473523	123	4.8	121	84	4	758	25	26	18	29	1.98
472932--473513	307	1.9	307	90	1	925	25	26	18	28	1.98
473581--473683	41	2.5	41	78	7	102	21	28	7	42	1.80
474297--474326	13	2.3	13	94	0	51	30	13	13	43	1.82
476624--476740	51	2.3	50	84	7	146	28	25	14	31	1.95
476722--476792	28	2.5	28	81	4	81	22	26	21	29	1.99
476754--476982	79	2.9	80	83	3	259	27	23	13	35	1.93
476828--477003	79	2.2	79	83	2	226	28	23	14	33	1.94
477655--477743	43	2.1	43	100	0	178	34	38	7	19	1.81
491062--491186	52	2.4	52	91	0	196	28	16	16	37	1.91
491062--491206	52	2.8	51	86	4	184	30	16	17	35	1.92
491195--491219	13	1.9	13	100	0	50	36	16	16	32	1.90
491260--491326	33	2.0	33	88	0	98	40	13	11	34	1.81
491282--491306	13	1.9	13	100	0	50	32	16	16	36	1.90
492088--492214	67	1.9	68	81	4	159	39	10	25	25	1.87
492227--493042	49	16.7	49	83	6	1043	30	17	26	25	1.97
492218--493042	146	5.6	147	84	6	1047	31	17	26	25	1.97
492590--492657	22	3.1	22	62	26	54	30	17	25	26	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
492271--493042	340	2.3	339	97	0	1454	30	17	26	25	1.97
492929--492996	22	3.1	22	62	26	54	30	17	25	26	1.97
493042--493279	33	7.2	33	89	5	358	18	17	35	28	1.93
493043--493278	67	3.6	67	90	5	365	18	17	36	28	1.93
493281--493761	34	14.4	34	82	9	485	34	13	33	19	1.90
493516--493610	31	3.3	28	79	15	79	28	14	35	21	1.93
493349--493713	195	1.9	198	86	6	528	32	12	35	19	1.90
493544--493748	37	5.9	34	83	9	245	33	12	33	20	1.90
493752--493808	30	1.9	30	96	0	105	31	19	24	24	1.98
495869--495940	21	3.3	20	76	17	65	83	9	4	2	0.88
495878--495932	16	3.6	16	80	9	62	81	9	5	3	0.95
495871--495939	25	2.7	26	78	13	81	82	10	4	2	0.91
495904--495954	21	2.4	21	83	3	66	78	5	11	3	1.06
497018--497767	61	12.4	61	84	3	928	25	26	19	28	1.99
497018--497767	123	6.2	122	85	4	943	25	26	19	28	1.99
497046--497767	184	3.9	184	86	2	965	25	26	19	28	1.99
498527--498556	13	2.3	13	100	0	60	30	16	13	40	1.87
500873--500990	51	2.3	52	84	5	143	27	23	13	35	1.92
501006--501218	79	2.7	80	83	5	236	27	22	14	35	1.93
501080--501255	79	2.2	79	86	2	235	29	23	14	31	1.95
502420--502468	20	2.5	20	83	3	55	46	16	10	26	1.78
504059--504089	13	2.4	13	94	0	53	35	12	16	35	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
504135--504188	19	2.8	19	85	2	72	37	16	14	31	1.89
504173--504199	13	2.1	13	100	0	54	40	14	14	29	1.86
504157--504218	33	1.9	32	90	3	97	41	16	16	25	1.88
506519--506565	22	2.2	23	85	14	66	46	0	21	31	1.51
512934--512989	19	2.9	19	91	2	85	35	17	16	30	1.92
514200--514247	23	2.1	22	84	3	60	35	6	4	54	1.45
515185--515210	2	13.0	2	100	0	52	50	0	0	50	1.00
517947--518005	27	2.3	26	82	11	68	52	0	0	47	1.00
517945--518005	25	2.3	29	83	13	78	52	0	0	47	1.00
524025--524063	2	20.5	2	89	10	64	48	0	0	51	1.00
525321--525364	18	2.3	19	88	7	63	63	0	4	31	1.14
525500--525541	21	2.1	19	86	13	57	59	0	0	40	0.97
526757--526800	3	14.7	3	100	0	88	31	0	0	68	0.90
536207--536237	2	15.5	2	100	0	62	51	0	0	48	1.00
536844--536869	12	2.2	12	100	0	52	23	0	0	76	0.78
537098--537147	18	2.8	18	81	6	57	38	2	2	58	1.21
537524--537572	18	2.8	17	77	20	55	30	0	4	65	1.11
541127--541187	18	3.3	18	80	8	70	55	1	1	40	1.19
541773--541868	18	5.4	18	73	19	76	54	0	0	45	0.99
541771--541884	35	3.2	35	81	7	131	55	0	0	43	1.05
541757--541870	17	6.6	17	66	25	53	54	0	0	45	0.99
541827--541884	18	3.2	17	78	9	62	55	0	1	43	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
554212--554249	19	2.0	19	89	0	58	26	0	2	71	1.00
555980--556052	20	3.7	20	98	0	137	46	9	15	28	1.77
561029--561082	23	2.3	23	96	0	99	18	37	5	38	1.74
563088--563134	21	2.2	22	88	3	69	59	2	21	17	1.47
563094--563143	21	2.4	20	83	12	57	50	2	26	22	1.60
564863--564928	34	2.0	33	88	8	98	30	15	16	37	1.90
564898--564956	20	3.1	19	85	7	75	30	13	18	37	1.90
564980--565044	33	2.0	33	87	0	94	35	13	16	33	1.89
573557--573581	13	1.9	13	100	0	50	36	16	16	32	1.90
573537--573601	33	2.0	33	90	0	103	35	15	16	32	1.91
578420--578528	57	1.9	57	86	3	157	22	26	16	34	1.95
581794--581958	51	3.2	50	81	3	179	32	6	27	33	1.81
584347--584501	20	7.7	20	73	16	113	40	16	18	25	1.91
584335--584364	13	2.3	13	94	0	51	36	13	20	30	1.90
584286--584501	102	2.1	102	90	0	342	38	14	18	27	1.90
584437--584466	13	2.3	13	100	0	60	40	13	16	30	1.87
585100--585201	41	2.5	41	84	7	127	42	10	29	17	1.83
585206--585372	43	3.9	42	75	13	133	44	11	22	20	1.85
585367--585671	123	2.5	125	83	2	339	29	19	26	24	1.98
585375--585854	60	7.9	61	80	3	457	27	18	27	26	1.98
585898--586141	55	4.3	55	85	3	281	24	20	27	27	1.99
585898--586144	110	2.2	114	86	7	335	25	20	26	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
586074--586261	94	1.9	96	85	10	258	29	15	29	25	1.96
598623--598791	51	3.3	49	80	11	189	32	8	26	32	1.86
603689--604077	195	2.0	195	80	5	437	37	10	21	30	1.87
606141--606193	20	2.6	21	82	8	65	30	16	15	37	1.90
606761--606805	22	2.0	22	95	0	81	37	26	0	35	1.57
608648--608685	13	2.9	13	96	0	67	34	18	15	31	1.92
608838--608871	8	4.2	8	96	0	59	61	20	0	17	1.34
613395--613429	13	2.7	13	95	0	61	31	14	20	34	1.92
619602--619626	13	1.9	13	100	0	50	36	16	16	32	1.90
619718--619742	13	1.9	13	100	0	50	36	16	16	32	1.90
620198--620222	13	1.9	13	100	0	50	36	16	16	32	1.90
623308--623332	13	1.9	13	100	0	50	36	16	16	32	1.90
623288--623352	33	2.0	33	90	6	105	33	12	18	35	1.88
639243--640588	28	47.5	28	85	2	1604	28	29	17	24	1.97
639238--640588	57	23.9	57	86	3	1757	28	29	17	24	1.97
639238--640588	85	15.9	85	88	3	1837	28	29	17	24	1.97
644104--644129	13	2.0	13	100	0	52	30	15	15	38	1.88
644185--644241	20	2.8	20	100	0	114	26	19	14	40	1.89
646553--646850	79	3.8	78	81	4	343	27	27	14	31	1.95
646786--646901	51	2.3	50	88	5	162	31	27	12	28	1.92
646885--646960	28	2.7	27	86	8	100	23	31	18	26	1.97
646755--647086	158	2.1	158	82	4	384	27	27	14	31	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
646944--647063	51	2.4	51	88	0	186	26	26	15	30	1.96
653315--653451	60	2.2	64	90	6	219	26	24	20	28	1.99
653466--653831	55	6.4	55	78	10	335	27	27	19	24	1.99
653469--653831	116	3.2	110	81	8	397	28	28	19	23	1.99
653699--653978	150	1.8	152	86	5	404	26	27	19	26	1.99
653634--654039	211	1.9	211	90	2	654	26	27	18	27	1.99
653854--654448	55	10.4	56	81	9	632	26	25	21	26	1.99
653854--654443	286	2.1	283	86	4	828	26	25	21	26	2.00
655329--655354	13	2.0	13	100	0	52	30	15	15	38	1.88
655393--655447	20	2.8	20	91	5	85	25	16	16	41	1.88

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