genome.fa.s160.2.7.7.80.10.50.1000.3.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: Scaffold160
Parameters: 2 7 7 80 10 50 1000
Length:  5021213

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  3  of  30  ( 3592 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)
302916--302999	13	5.5	13	68	28	51	33	17	14	34	1.90
302916--303001	32	2.7	32	92	0	145	34	17	13	33	1.89
310251--310284	17	2.0	17	100	0	68	35	11	23	29	1.90
311351--311669	97	3.3	97	84	3	401	26	23	13	36	1.92
315796--315826	15	2.1	15	93	0	53	41	16	22	19	1.89
318376--318406	15	2.1	14	94	5	53	16	35	38	9	1.81
323249--323358	50	2.2	50	90	0	175	40	14	17	27	1.88
324563--324638	21	3.4	21	77	13	80	40	1	25	32	1.64
324580--324650	21	3.0	25	74	16	87	42	1	21	35	1.62
325362--325418	19	2.9	19	86	2	78	31	15	15	36	1.90
325447--325500	20	2.7	20	79	0	63	37	14	12	35	1.85
327080--327110	3	10.3	3	92	0	53	35	0	35	29	1.58
332070--332114	20	2.1	22	84	8	58	20	40	26	13	1.89
333109--333175	33	2.0	33	88	0	98	23	26	17	31	1.97
333109--333185	33	2.3	33	84	0	82	23	25	18	32	1.97
334182--334235	20	2.7	20	85	0	72	35	14	16	33	1.90
335169--335232	32	2.0	33	87	3	94	28	14	15	42	1.86
335744--335787	23	1.9	23	81	9	54	29	9	22	38	1.85
339565--339618	20	2.8	20	88	2	74	29	12	18	38	1.88
339648--339700	20	2.7	20	88	5	72	33	13	18	33	1.90
348423--348475	20	2.7	20	88	5	72	33	13	18	33	1.90
357493--357548	21	2.8	19	83	8	58	39	12	12	35	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
359364--359691	154	2.1	155	79	5	351	39	17	15	28	1.90
359705--360449	251	3.0	248	87	2	1060	39	17	14	28	1.89
361388--361430	10	4.3	10	77	11	52	69	16	0	13	1.19
364747--365028	155	1.8	155	83	2	377	36	21	19	23	1.95
365350--365417	19	3.9	18	75	23	74	36	11	14	36	1.83
365351--365413	32	2.0	32	93	0	108	36	12	15	34	1.86
365370--365394	13	1.9	13	100	0	50	36	16	16	32	1.90
372405--372496	10	9.7	10	81	13	115	88	11	0	0	0.53
372405--372509	18	5.4	21	76	20	120	85	13	0	0	0.64
372406--372494	36	2.4	36	92	5	142	87	12	0	0	0.54
372407--372495	46	2.0	44	93	4	151	87	12	0	0	0.54
372405--372496	1	92.0	1	75	0	85	88	11	0	0	0.53
372748--372797	15	3.2	16	78	18	61	80	10	10	0	0.92
372749--372807	26	2.2	27	85	8	77	83	8	8	0	0.83
372753--372815	30	2.1	31	88	8	94	79	7	11	1	1.00
373756--374053	32	9.6	30	79	11	280	23	31	15	29	1.95
373756--374054	63	4.8	61	78	11	279	23	31	15	29	1.95
373766--373950	95	2.0	94	88	3	273	23	30	17	28	1.97
373952--374004	27	2.0	27	88	0	79	24	32	15	28	1.95
374039--374140	33	3.1	33	85	2	152	26	34	17	21	1.96
374043--374147	32	3.3	32	84	10	153	28	35	18	18	1.94
373865--374102	122	1.9	123	80	11	274	23	32	16	27	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
374135--374639	43	11.0	43	81	11	560	24	25	18	31	1.97
374135--374696	92	6.1	92	94	1	919	24	24	17	32	1.97
374462--374529	22	3.1	22	62	19	52	26	25	17	30	1.97
374597--374718	52	2.3	54	84	4	167	25	22	13	37	1.92
374767--374915	52	2.8	54	76	3	149	25	24	14	35	1.93
374597--374975	174	2.2	175	84	4	489	24	25	13	36	1.93
375561--375628	19	3.9	18	75	23	74	36	11	14	36	1.83
375562--375624	32	2.0	32	93	0	108	36	12	15	34	1.86
375581--375605	13	1.9	13	100	0	50	36	16	16	32	1.90
380922--381388	166	2.8	166	81	6	534	52	8	10	28	1.65
382525--382740	42	5.2	41	68	12	118	47	14	20	18	1.83
382518--382729	82	2.6	83	82	3	248	47	15	19	17	1.83
382756--382904	42	3.6	41	66	10	106	42	15	25	16	1.88
382909--383187	84	3.3	84	73	5	249	47	13	21	16	1.81
382824--383151	168	2.0	168	85	1	442	45	14	22	18	1.85
382824--383203	168	2.3	168	81	2	440	45	13	22	18	1.84
383210--383389	85	2.1	83	81	4	207	35	13	28	22	1.93
383404--383571	43	3.9	43	77	3	108	34	11	30	23	1.90
383621--383726	42	2.5	43	78	6	110	37	20	26	15	1.92
383594--383914	127	2.5	126	77	6	299	34	18	28	19	1.95
384113--384237	43	3.0	42	83	6	162	37	23	28	11	1.89
384145--384278	43	3.1	42	81	4	135	36	21	28	13	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
383991--384296	85	3.6	84	75	6	255	34	19	28	16	1.94
384177--384418	122	1.9	125	79	5	267	35	19	28	16	1.94
384144--384481	42	8.1	42	72	11	129	35	18	28	17	1.94
384490--384599	41	2.6	42	78	8	109	37	14	24	23	1.92
384646--386693	42	48.6	42	69	6	238	33	17	29	19	1.95
384665--384980	85	3.7	85	74	3	242	32	17	29	19	1.95
384607--384855	128	1.9	128	82	3	304	32	18	29	18	1.95
384826--385234	126	3.2	125	78	6	378	33	17	29	19	1.95
384952--385234	128	2.2	126	81	4	318	33	18	29	19	1.95
385379--385614	126	1.9	127	84	4	325	36	16	27	20	1.94
385166--386650	42	35.3	42	70	6	275	34	17	29	19	1.95
385146--385710	85	6.7	85	74	3	208	35	16	29	19	1.93
385294--386006	212	3.4	210	78	5	523	35	16	28	19	1.93
385843--386361	169	3.1	168	81	4	557	34	17	28	19	1.95
385293--386693	85	16.7	83	71	7	424	33	17	28	19	1.95
385293--386623	127	10.6	125	73	8	515	34	17	28	19	1.95
386512--386696	83	2.2	83	82	0	217	31	19	30	18	1.96
386682--387021	86	4.0	86	82	1	369	38	16	27	17	1.92
386682--387022	129	2.7	127	81	3	389	38	16	27	17	1.91
386683--387108	43	10.0	43	78	3	306	38	16	27	17	1.92
386683--387108	129	3.3	129	80	4	364	38	16	27	17	1.92
387115--387988	48	18.2	48	85	0	1005	39	20	21	18	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
387115--387989	239	3.6	237	83	2	1050	39	20	21	18	1.92
387162--387957	287	2.8	287	89	0	1180	40	20	20	18	1.92
388245--388466	90	2.5	90	81	7	256	27	18	25	28	1.98
388901--389114	89	2.4	88	77	2	214	44	12	19	23	1.84
388960--389145	88	2.1	89	81	6	216	45	12	20	21	1.84
390120--390166	22	2.1	22	88	0	67	4	17	2	76	1.04
390139--390178	11	3.5	11	86	3	53	0	15	0	85	0.61
393614--394136	156	3.4	155	78	6	535	36	22	19	21	1.95
396020--396560	165	3.3	165	80	7	566	50	9	10	29	1.68
396090--396620	165	3.2	164	80	9	577	51	9	11	27	1.68
396146--396687	165	3.3	163	80	9	437	51	9	11	28	1.67
396091--396687	330	1.8	327	79	11	691	51	8	11	28	1.68
402460--402527	22	3.1	22	77	8	75	38	13	13	35	1.83
403122--403202	25	3.1	25	68	18	67	38	0	3	58	1.16
403035--403399	50	7.1	52	81	11	359	39	1	4	54	1.31
403028--403354	107	3.1	108	81	12	346	38	1	3	55	1.29
403239--403388	51	3.1	46	82	12	185	39	2	3	55	1.28
403765--403817	20	2.7	20	84	0	61	33	11	20	33	1.88
404214--404257	23	1.9	23	81	9	54	29	4	22	43	1.73
405384--405422	12	3.2	12	82	13	53	46	0	30	23	1.53
405848--405889	15	2.8	16	78	10	52	52	2	16	28	1.56
410064--410089	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)
410043--410107	32	2.0	34	87	6	98	26	13	16	43	1.86
412208--412254	21	2.3	20	78	10	51	42	4	19	34	1.70
412386--412411	13	2.0	13	100	0	52	38	15	15	30	1.88
418585--418610	13	2.0	13	100	0	52	30	15	15	38	1.88
418564--418628	34	2.0	32	87	6	94	26	13	18	41	1.88
423170--423207	11	3.6	11	79	13	53	44	0	0	55	0.99
423085--423287	108	1.9	108	85	4	286	39	0	4	54	1.26
423085--423341	50	4.9	53	77	13	232	41	0	4	54	1.23
430827--430877	2	25.5	2	100	0	102	49	0	50	0	1.00
434314--434342	10	2.9	10	100	0	58	41	0	37	20	1.53

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