genome.fa.s238.2.7.7.80.10.50.1000.3.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: Scaffold238
Parameters: 2 7 7 80 10 50 1000
Length:  1453955

Tables:   1   2   3   4   5   6   7   8   9   

This is table  3  of  9  ( 962 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)
344325--344387	32	2.0	32	96	0	117	36	15	12	34	1.86
349871--349899	13	2.2	13	100	0	58	27	13	17	41	1.87
351609--351657	21	2.3	21	96	0	89	28	2	18	51	1.58
352411--352437	13	2.1	13	100	0	54	29	14	14	40	1.86
352422--352478	19	2.9	19	87	10	80	33	17	15	33	1.92
352527--352575	13	4.2	13	75	24	63	32	12	18	36	1.88
352506--352575	33	2.1	34	89	7	108	32	12	20	34	1.90
353327--353445	51	2.3	52	79	5	134	29	23	12	34	1.92
353399--353707	77	4.0	78	84	5	376	28	25	12	33	1.93
353379--353707	79	4.2	79	82	4	382	27	26	13	32	1.94
353667--353727	28	2.2	28	85	8	81	27	31	14	26	1.95
355871--355909	4	9.8	4	82	0	51	20	5	0	74	1.01
366216--366277	1	62.0	1	77	0	52	87	8	1	3	0.72
366216--366277	11	5.7	11	81	7	65	87	8	1	3	0.72
366212--366277	29	2.3	30	81	5	82	86	9	1	3	0.74
366234--366289	12	4.6	12	82	8	51	85	3	7	3	0.81
366228--366292	11	5.7	11	83	7	67	84	4	7	3	0.85
366228--366292	23	2.9	22	81	4	67	84	4	7	3	0.85
367267--367838	61	9.4	61	87	2	787	25	27	19	26	1.99
367269--367833	242	2.3	242	91	1	880	26	27	19	26	1.99
367266--367838	181	3.1	178	87	4	772	25	27	19	26	1.99
367821--367958	42	3.2	42	90	2	195	21	21	16	41	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
367881--367976	42	2.5	38	86	10	115	16	20	12	50	1.78
367840--367960	42	2.9	42	93	1	197	19	21	14	44	1.86
368551--368580	13	2.3	13	94	0	51	30	13	13	43	1.82
370962--371527	79	7.2	79	83	5	617	28	25	13	32	1.94
370950--371527	159	3.7	158	84	4	718	28	25	13	32	1.94
371488--371558	27	2.6	28	88	2	108	23	29	18	28	1.98
371410--371615	106	2.0	106	80	6	240	27	27	13	32	1.93
371516--371666	79	1.9	80	81	9	184	27	23	11	37	1.89
372990--373022	17	1.9	17	100	0	66	36	6	27	30	1.81
374006--374319	150	2.1	148	81	5	357	24	20	18	36	1.95
376122--376202	21	4.0	21	71	26	75	6	16	0	77	0.95
376120--376209	15	5.9	15	70	23	64	5	15	0	78	0.92
376120--376209	9	9.6	9	73	19	60	5	15	0	78	0.92
376413--376453	21	2.0	21	85	9	57	43	12	4	39	1.63
376675--376711	20	1.9	18	89	10	56	40	5	16	37	1.71
376982--377058	21	3.7	21	89	3	111	35	12	16	35	1.88
377094--377161	19	3.9	19	78	21	85	35	11	14	38	1.83
377115--377139	13	1.9	13	100	0	50	36	16	16	32	1.90
377096--377158	32	2.0	32	96	0	117	34	12	15	36	1.86
377201--377226	13	2.0	13	100	0	52	30	15	15	38	1.88
377181--377247	33	2.0	33	88	0	98	25	14	16	43	1.86
379641--379889	108	2.3	109	88	2	367	27	30	15	27	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
379804--379875	28	2.6	28	88	0	99	22	34	19	23	1.96
379829--380033	79	2.6	79	82	1	232	23	30	17	28	1.97
379910--380061	79	1.9	79	79	2	171	26	28	13	30	1.94
392436--392496	10	6.0	10	81	9	54	83	4	11	0	0.79
392435--392478	15	2.9	16	83	16	67	86	9	4	0	0.70
393490--394814	55	23.9	55	88	7	1929	28	29	20	22	1.98
395612--395679	19	3.9	19	78	21	85	35	11	14	38	1.83
395633--395657	13	1.9	13	100	0	50	36	16	16	32	1.90
395614--395676	32	2.0	32	96	0	117	34	12	15	36	1.86
398161--398229	27	2.5	27	85	2	84	23	31	23	21	1.98
398107--398355	108	2.3	109	88	2	367	26	29	15	27	1.96
398270--398341	28	2.6	28	88	0	99	22	34	19	23	1.96
398107--398420	107	2.9	108	85	3	393	26	28	16	28	1.97
398295--398498	78	2.6	78	83	2	239	23	30	17	28	1.97
408063--408089	13	2.1	13	100	0	54	29	14	14	40	1.86
408044--408107	32	2.0	32	87	3	92	26	15	15	42	1.87
409334--409615	79	3.6	78	81	5	332	33	15	24	26	1.95
409570--409641	28	2.6	28	93	0	117	26	20	30	22	1.98
409494--409719	104	2.1	105	86	4	312	30	15	26	26	1.96
409602--409770	76	2.2	76	79	5	178	31	15	25	27	1.95
409410--409770	183	1.9	186	81	6	428	33	15	24	26	1.95
412272--412299	13	2.2	13	100	0	56	39	17	14	28	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
412286--412327	21	2.0	21	95	0	75	28	16	9	45	1.79
412352--412437	19	4.7	19	70	20	67	34	16	11	37	1.85
412344--412416	32	2.3	32	92	0	128	35	17	10	35	1.85
413171--413508	49	6.9	52	78	11	229	33	17	23	24	1.96
413278--413553	43	6.1	43	82	10	345	31	18	25	25	1.98
413234--413548	92	3.4	92	93	2	533	31	19	24	25	1.98
413569--413674	36	3.0	36	89	5	146	33	11	34	20	1.88
413589--414444	31	26.8	33	73	16	312	31	14	30	23	1.95
413769--414187	225	1.9	224	90	0	667	29	14	33	22	1.93
414106--414442	63	5.3	63	88	2	342	30	16	28	24	1.96
415406--415468	25	2.4	27	89	7	94	0	6	7	85	0.73
415723--415767	20	2.1	21	84	8	56	2	2	13	82	0.86
422765--422792	13	2.2	13	100	0	56	39	17	14	28	1.89
423581--423669	28	3.2	28	65	16	76	26	20	26	25	1.99
423562--424690	55	20.0	55	86	6	1406	25	20	27	27	1.99
423895--423984	26	3.3	26	69	14	83	21	18	32	27	1.97
423554--424721	226	5.1	219	86	7	1455	25	20	26	27	1.99
423562--424690	281	4.0	283	92	3	1730	25	20	27	27	1.99
424176--424265	26	3.3	26	69	14	83	21	18	32	27	1.97
425684--425743	12	5.2	12	93	2	97	0	0	15	85	0.61
425687--425743	30	1.9	29	89	10	89	0	0	14	85	0.59
438226--438374	79	1.9	79	88	0	226	34	15	22	27	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
438333--438402	28	2.5	28	92	0	113	27	22	27	22	1.99
438360--438529	79	2.2	77	84	7	220	32	16	24	26	1.96
438252--438478	104	2.2	104	84	6	296	32	17	24	25	1.97
438410--438644	130	1.8	130	89	0	371	33	14	24	27	1.94
441032--441093	13	5.2	13	74	18	71	35	17	12	33	1.88
441012--441240	32	7.0	34	79	8	122	34	17	13	33	1.90
441080--441121	21	2.0	21	100	0	84	28	19	9	42	1.82
441146--441263	19	6.7	19	70	24	89	35	16	12	34	1.87
441138--441242	32	3.3	32	97	0	192	36	18	12	33	1.88
441165--441221	13	3.9	13	76	24	60	35	15	14	35	1.88
441209--441270	19	3.2	19	76	13	63	29	14	14	41	1.85
444848--444892	21	2.1	21	84	8	56	53	4	20	22	1.63
448740--448819	20	3.8	20	75	15	79	26	15	15	43	1.85
448805--448843	13	3.0	13	96	0	69	30	17	15	35	1.91
451374--451399	13	2.0	13	100	0	52	38	15	15	30	1.88
455970--456150	52	3.5	52	94	0	308	28	18	16	36	1.93
456226--456335	19	5.7	19	84	9	93	34	15	12	37	1.86
456225--456333	57	1.9	57	87	9	159	33	15	12	38	1.86
462523--462844	107	3.0	105	92	4	511	35	11	26	26	1.91
463970--464003	17	2.0	17	88	11	52	76	0	20	2	0.92
466202--466274	18	4.0	18	75	3	65	53	6	13	26	1.65
468047--468121	20	3.8	20	78	0	87	33	12	12	42	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
468047--468124	40	2.0	39	87	2	111	33	11	12	42	1.79
469028--469079	23	2.3	23	96	3	97	19	11	9	59	1.59
473445--474909	487	3.0	487	98	0	2831	30	18	24	26	1.98
480270--480295	13	2.0	13	100	0	52	30	15	15	38	1.88
480355--480427	20	3.6	20	81	3	92	32	17	12	36	1.87
480334--480410	21	3.7	21	77	6	86	28	16	11	42	1.84
480334--480427	41	2.3	41	92	3	154	30	18	11	39	1.86
480978--481073	48	2.0	48	100	0	192	25	29	8	37	1.85
482915--482953	13	3.0	13	96	0	69	35	15	17	30	1.91
485021--485051	15	2.1	15	93	0	53	12	22	16	48	1.80

Tables:   1   2   3   4   5   6   7   8   9