genome.fa.s1466.2.7.7.80.10.50.1000.2.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: Scaffold1466
Parameters: 2 7 7 80 10 50 1000
Length:  620546

Tables:   1   2   3   

This is table  2  of  3  ( 248 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)
389106--413351	476	51.0	476	87	1	33372	31	18	14	34	1.92
414233--414258	13	2.0	13	100	0	52	30	15	15	38	1.88
416765--416803	13	3.0	13	96	0	69	35	15	17	30	1.91
416789--416867	20	3.7	20	78	15	77	44	15	15	25	1.85
420711--420755	21	2.1	21	84	8	56	22	20	4	53	1.63
422974--422999	13	2.0	13	100	0	52	30	15	15	38	1.88
423382--426086	476	5.7	475	84	3	3431	31	18	14	35	1.91
426739--426797	32	1.9	30	83	13	75	59	10	10	20	1.58
427057--427121	34	2.0	34	90	6	107	29	10	13	46	1.77
431685--431715	15	2.1	15	93	0	53	12	22	16	48	1.80
433462--433506	21	2.1	21	84	8	56	22	20	4	53	1.63
434999--435057	32	1.9	30	83	13	75	59	10	10	20	1.58
435338--435363	13	2.0	13	100	0	52	30	15	15	38	1.88
435317--435381	32	2.0	33	93	6	114	27	12	15	44	1.82
435317--435381	19	3.6	19	73	26	70	27	12	15	44	1.82
435757--447021	476	23.6	477	88	1	15848	31	19	14	34	1.91
435757--447021	953	11.8	952	88	1	16047	31	19	14	34	1.91
447099--448986	476	4.0	474	79	4	1961	35	14	18	31	1.91
448510--449521	535	1.9	537	83	2	1302	36	15	18	29	1.91
450515--451543	533	1.9	537	84	4	1380	36	15	17	30	1.91
451053--452977	471	4.1	472	82	5	2221	36	14	18	30	1.91
453711--453768	25	2.5	23	86	10	75	29	12	13	44	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
454143--456830	475	5.7	476	82	4	2991	36	14	18	30	1.91
457404--459584	473	4.6	473	84	3	2469	36	13	18	31	1.90
459278--459931	352	1.9	355	84	1	902	38	13	16	31	1.87
458757--460392	825	2.0	827	85	2	2232	37	13	18	31	1.89
459633--461245	474	3.4	474	91	1	2312	36	14	18	31	1.91
459936--461170	158	7.8	157	68	13	552	34	14	18	31	1.91
461790--464116	476	4.9	475	84	3	2783	31	19	13	35	1.91
461790--463967	953	2.3	949	84	3	2851	31	19	13	35	1.90
464235--466866	476	5.6	474	84	3	3062	30	19	14	35	1.92
465970--468708	948	3.0	897	80	7	2507	30	18	14	35	1.91
466868--469198	477	4.9	473	85	4	3008	30	18	14	35	1.91
466868--469198	948	2.4	945	85	3	3088	30	18	14	35	1.91
468773--470041	420	3.0	419	89	2	1812	31	18	14	34	1.92
469196--471418	900	2.5	899	90	1	3474	30	18	14	35	1.91
470515--474267	477	7.9	476	84	3	4578	30	19	14	35	1.92
470515--474267	476	7.9	475	84	3	4593	30	19	14	35	1.92
473843--474690	423	2.0	422	84	3	1089	31	19	14	34	1.92
476996--477036	21	2.0	21	100	0	82	26	19	9	43	1.82
477053--477100	13	3.4	13	74	20	51	33	14	14	37	1.87
477053--477155	32	3.3	32	86	2	147	36	14	12	35	1.84
477888--478105	42	5.1	41	79	10	213	40	13	26	18	1.88
478089--478283	55	3.4	59	81	8	185	25	20	27	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
478143--478283	55	2.6	55	90	1	212	22	20	29	26	1.99
478088--478494	210	1.9	212	89	3	633	25	20	28	25	1.99
478297--478547	55	4.5	54	86	6	315	23	22	27	26	1.99
478143--478814	265	2.5	265	93	0	1130	24	20	28	25	1.99
478358--478761	210	2.0	204	86	5	571	24	21	28	25	1.99
478618--478841	55	4.1	54	86	5	306	24	22	27	25	2.00
478884--481405	463	5.4	461	80	6	2562	31	19	14	35	1.91
478884--489455	475	22.0	463	74	11	4880	30	19	14	35	1.92
485167--485205	20	1.9	21	84	5	53	53	12	5	28	1.60
482725--489467	475	14.2	475	84	2	8036	30	19	14	35	1.92
489467--499151	476	20.3	475	83	3	11170	31	19	14	34	1.92
493980--494079	33	2.9	33	70	21	98	38	23	18	21	1.94
498752--499574	424	1.9	424	81	4	973	31	18	13	35	1.90
500297--502790	475	5.3	476	79	5	2603	30	19	14	34	1.92
499147--511022	950	12.5	951	82	6	12264	30	19	15	35	1.92
504128--511022	475	14.6	476	79	4	6792	29	19	15	35	1.93
511034--512354	479	2.8	468	81	6	1496	30	19	14	35	1.92
515141--523109	476	16.8	474	81	3	8722	30	19	14	35	1.91
523492--523517	13	2.0	13	100	0	52	38	15	15	30	1.88
523474--523537	32	2.0	33	90	3	103	39	18	14	28	1.90
525737--525786	21	2.3	21	80	10	57	56	4	18	22	1.58
528708--540180	476	24.1	475	81	4	12279	30	19	14	35	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
532418--532443	12	2.2	12	100	0	52	0	34	0	65	0.93
528708--540180	953	12.1	946	82	4	12190	30	19	14	35	1.91
543239--543263	13	1.9	13	100	0	50	36	16	16	32	1.90
543308--543359	13	3.5	13	73	26	50	36	17	13	32	1.89
543316--543380	19	3.8	19	73	24	72	40	15	12	32	1.84
543308--543376	32	2.2	32	97	0	129	36	17	13	33	1.88
544431--551193	475	14.2	473	82	4	7085	31	19	14	34	1.92
550817--551500	318	2.2	318	86	3	966	32	20	12	34	1.91
550357--551970	794	2.0	790	85	2	2168	31	20	14	34	1.92
551179--562444	477	23.6	478	85	2	14065	30	19	14	35	1.91
551179--562444	955	11.8	954	88	2	14141	30	19	14	35	1.91
562086--562810	366	2.0	365	90	1	1139	31	18	13	36	1.89
562451--577701	479	31.9	478	87	2	21154	30	18	14	36	1.91
562451--577690	956	15.9	956	92	1	23367	30	18	14	36	1.91
577346--578392	362	2.9	362	89	1	1485	30	19	14	35	1.92
578071--580505	471	5.2	473	81	5	2669	30	20	13	35	1.91
580502--583984	477	7.4	474	75	8	2835	30	19	14	35	1.92
581627--582499	436	2.0	436	86	4	1206	32	18	13	35	1.90
585576--585614	13	3.0	13	88	0	60	38	17	12	30	1.88
585720--588505	476	5.9	478	83	3	3292	31	19	13	35	1.91
589639--590215	317	1.8	318	86	2	847	31	19	12	35	1.90
589419--590925	803	1.9	794	80	5	1701	31	19	13	35	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
589957--592365	475	5.0	475	85	2	3040	30	19	13	36	1.91
592677--592734	13	4.9	13	76	20	65	34	17	15	32	1.91
592656--592754	33	3.0	33	89	8	125	36	17	15	31	1.90
592689--592774	20	4.6	20	76	20	96	39	16	16	27	1.90
592806--592832	13	2.1	13	100	0	54	29	14	14	40	1.86
594951--594976	13	2.0	13	100	0	52	30	15	15	38	1.88
597504--597580	20	3.6	20	77	16	73	42	15	15	25	1.86
599593--599630	15	2.5	15	91	0	58	13	21	15	50	1.78
601434--601478	21	2.1	21	84	8	56	22	20	4	53	1.63
603696--603721	13	2.0	13	100	0	52	30	15	15	38	1.88
604106--605177	475	2.2	472	83	6	1306	30	18	14	35	1.92
605483--608239	475	5.8	477	86	3	3633	31	19	14	34	1.92
608348--608635	34	8.7	34	81	12	323	21	35	13	29	1.91
608351--608642	63	4.4	65	86	8	357	20	35	13	30	1.91
608337--608642	97	3.2	96	80	14	362	20	35	13	30	1.91
608643--608740	32	3.1	31	91	5	160	27	37	18	16	1.92
608648--608740	33	2.9	32	93	6	161	29	36	19	15	1.92
608745--609360	49	12.6	49	85	6	806	24	25	17	32	1.97
608745--609531	199	3.9	199	84	10	892	24	25	16	33	1.96
609091--609361	92	2.9	92	93	1	461	25	24	18	31	1.97
609275--609669	171	2.3	171	92	1	655	25	24	13	36	1.93
610468--610534	33	2.0	33	88	0	98	34	11	13	40	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
610488--610512	13	1.9	13	100	0	50	36	16	16	32	1.90
610577--610601	13	1.9	13	100	0	50	32	16	16	36	1.90
610610--610738	52	2.5	52	92	0	213	37	17	15	30	1.90
618008--618039	1	32.0	1	100	0	64	100	0	0	0	0.00
618988--619068	30	2.7	30	90	0	117	25	28	18	27	1.98
619046--619806	63	12.0	60	77	15	482	22	33	14	29	1.93
619048--619806	34	24.0	29	69	21	292	22	33	14	29	1.93
619305--619843	34	16.6	34	75	16	448	21	34	14	30	1.93
619231--619843	95	6.4	92	75	16	375	22	33	14	30	1.93
619421--619595	64	2.8	62	81	10	219	23	33	14	28	1.94

Tables:   1   2   3