genome.fa.s94.2.7.7.80.10.50.1000.3.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: Scaffold94
Parameters: 2 7 7 80 10 50 1000
Length:  2274668

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

This is table  3  of  13  ( 1461 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)
361064--361135	34	2.1	34	92	5	119	19	27	15	37	1.92
361249--361631	84	4.6	84	82	2	385	16	27	18	37	1.92
362476--362526	9	5.6	9	78	19	52	80	0	0	19	0.71
362477--362527	13	3.9	13	78	14	52	80	0	0	19	0.71
362600--362794	62	3.1	62	81	0	228	23	18	16	41	1.90
363446--363515	29	2.4	29	87	0	104	78	5	11	4	1.06
363450--363508	25	2.4	25	80	5	66	76	6	11	5	1.14
363450--363506	15	3.9	15	73	13	55	75	7	12	5	1.17
367989--368036	25	1.9	25	95	0	87	18	14	14	52	1.75
369245--369278	18	1.9	18	88	5	52	17	26	14	41	1.88
374431--374472	21	2.0	22	85	4	59	4	14	11	69	1.34
375059--375136	21	3.7	21	83	6	95	35	17	8	37	1.82
375768--375810	21	2.0	23	86	9	63	46	0	0	53	1.00
378747--379090	167	2.1	165	84	2	447	29	9	15	45	1.78
384470--384532	19	3.6	19	76	24	84	33	11	19	36	1.87
384470--384540	32	2.2	32	97	0	133	32	11	19	36	1.87
384585--384646	13	5.2	13	78	21	73	32	16	14	37	1.89
384564--384645	34	2.4	34	100	0	164	34	17	12	36	1.87
391446--391483	15	2.4	16	82	4	51	78	21	0	0	0.74
392765--392886	62	2.0	62	90	6	194	25	29	13	31	1.94
392766--393112	33	10.6	33	86	4	352	21	28	12	36	1.91
392766--393112	67	5.3	66	83	6	345	21	28	12	36	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
392766--393112	100	3.5	98	81	6	366	21	28	12	36	1.91
393178--393731	101	5.5	101	90	1	859	21	25	18	33	1.97
393178--393715	49	10.8	49	84	3	689	22	25	19	33	1.97
393178--393731	300	1.8	300	93	0	964	21	25	18	33	1.97
394538--394565	13	2.2	13	100	0	56	28	14	17	39	1.89
398012--398306	44	6.9	43	66	20	136	27	16	12	43	1.84
398063--398208	77	1.9	77	81	8	181	28	16	12	43	1.84
398140--398484	89	4.0	88	77	11	324	26	18	11	43	1.84
398141--398306	44	3.7	45	73	2	138	29	16	11	42	1.84
398328--398473	77	1.9	76	84	4	195	25	20	8	45	1.78
398014--398490	254	1.9	254	85	3	656	26	18	11	43	1.84
399433--399661	121	1.9	121	82	5	293	20	21	14	43	1.87
399681--399837	65	2.4	65	83	5	176	21	21	15	41	1.90
399972--400072	40	2.5	41	85	4	134	21	15	16	45	1.85
399978--400086	41	2.7	40	83	5	130	22	18	14	44	1.85
400010--400216	105	2.0	106	80	0	236	19	19	16	43	1.88
400368--400443	40	1.9	40	88	0	116	22	22	15	39	1.92
400277--400469	106	1.8	107	82	4	248	19	19	17	43	1.89
400480--400573	41	2.3	41	85	5	129	24	21	7	46	1.76
401872--401950	33	2.4	33	97	0	149	40	16	12	30	1.86
405328--405481	71	2.1	72	95	3	274	31	18	6	44	1.75
406543--406602	6	10.3	6	82	13	65	86	0	11	1	0.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
406543--406602	26	2.3	26	91	5	95	86	0	11	1	0.64
406546--406604	20	2.9	21	87	7	86	86	0	11	1	0.65
406546--406603	1	58.0	1	75	0	53	87	0	10	1	0.60
407605--407635	14	2.3	14	94	5	55	16	19	6	58	1.59
408340--408617	90	3.1	89	83	8	336	28	26	15	29	1.96
408340--408651	90	3.5	89	82	7	332	29	26	14	29	1.95
408800--409519	47	15.4	46	77	6	551	24	19	15	40	1.90
408796--409518	141	5.2	138	78	8	653	24	19	15	40	1.90
409729--409800	20	3.6	20	75	0	72	33	12	11	43	1.78
409726--409803	40	2.0	39	87	2	111	33	11	12	42	1.79
423539--423594	13	4.4	13	88	2	78	89	8	1	0	0.56
423538--423594	25	2.3	24	88	8	87	87	10	1	0	0.61
423539--423594	1	56.0	1	78	0	58	89	8	1	0	0.56
423538--423594	12	4.6	12	91	6	87	87	10	1	0	0.61
424820--425541	29	24.6	29	85	6	805	28	32	16	22	1.96
424823--425541	88	8.2	87	84	6	871	29	31	16	22	1.96
426154--426228	20	3.8	20	78	0	87	33	13	13	40	1.83
426154--426231	40	2.0	39	87	2	111	33	12	14	39	1.84
429467--429946	47	10.2	47	78	7	350	22	21	17	38	1.93
429469--429954	94	5.2	95	79	5	409	22	21	16	39	1.92
429469--429855	141	2.7	140	80	7	415	22	19	17	40	1.92
430188--431213	42	24.5	42	73	5	572	18	25	16	38	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
430188--431213	126	8.2	126	75	5	669	18	25	16	38	1.92
430192--432044	42	44.1	41	72	8	569	19	25	16	38	1.92
431954--432086	47	2.8	47	88	0	185	19	27	15	38	1.91
432900--432968	28	2.5	28	95	0	120	43	30	14	11	1.81
433941--434019	33	2.4	33	84	0	95	32	15	12	39	1.85
441945--441971	8	3.4	8	100	0	54	14	11	11	62	1.53
441206--442717	769	2.0	769	99	0	3006	29	18	16	36	1.93
443134--443206	20	3.6	20	81	3	101	35	13	19	31	1.91
443152--443227	21	3.7	21	80	3	100	42	11	17	28	1.84
443134--443227	41	2.3	41	98	0	179	39	12	18	29	1.88
443266--443291	13	2.0	13	100	0	52	38	15	15	30	1.88
447352--447382	15	2.1	15	93	0	53	48	16	22	12	1.80
449261--449315	29	2.0	27	82	7	65	27	3	20	49	1.65
449389--449467	20	3.7	21	75	15	72	26	13	15	44	1.84
449454--449492	13	3.0	13	96	0	69	30	17	15	35	1.91
450860--450932	20	3.6	20	81	3	101	35	13	19	31	1.91
450878--450953	21	3.7	21	80	3	100	42	11	17	28	1.84
450860--450953	41	2.3	41	98	0	179	39	12	18	29	1.88
450992--451017	13	2.0	13	100	0	52	38	15	15	30	1.88
455204--455251	24	2.0	24	95	0	87	45	6	4	43	1.48
455846--455871	12	2.2	12	100	0	52	26	7	0	65	1.20
455992--456021	13	2.4	12	94	5	51	80	0	0	20	0.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
458733--458927	85	2.4	81	78	13	218	34	23	6	34	1.81
460013--460037	13	1.9	13	100	0	50	12	0	8	80	0.92
461841--461882	2	21.0	2	100	0	84	50	0	0	50	1.00
463074--463107	16	2.1	16	89	10	52	41	0	0	58	0.98
465209--465296	26	3.3	26	79	4	79	64	0	3	31	1.10
465222--465272	16	3.2	17	76	20	56	70	0	1	27	0.98
465258--465283	13	2.0	13	100	0	52	69	0	0	30	0.89
466290--466562	136	2.1	128	85	9	354	31	18	14	35	1.91
476268--476358	27	3.5	24	72	15	74	45	23	7	24	1.79
476285--476358	27	2.7	27	87	0	103	45	24	6	22	1.76
480736--480780	13	3.5	13	81	6	56	35	6	42	15	1.73
480859--480932	27	2.7	27	89	0	112	47	22	6	22	1.75
485032--485107	37	2.1	37	100	0	152	27	13	13	46	1.80
486628--486658	2	15.0	2	93	6	53	48	3	48	0	1.17
487340--487376	3	12.3	3	100	0	74	32	0	0	67	0.91
489471--489520	26	1.9	26	95	0	91	38	28	0	34	1.57
490513--490558	18	2.5	19	79	10	60	50	2	8	39	1.46
491311--491349	19	2.0	20	90	9	64	58	0	0	41	0.98
491842--491885	17	2.4	18	85	11	63	40	0	0	59	0.98
492140--492196	19	3.0	20	83	14	61	49	0	0	50	1.00
494969--494996	2	14.0	2	100	0	56	50	0	0	50	1.00
495386--495420	17	1.9	18	88	11	54	2	5	22	68	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
501542--501600	23	2.4	23	80	8	64	37	1	3	57	1.25
501966--502000	2	17.5	2	100	0	70	48	0	0	51	1.00
506129--506451	107	3.0	107	100	0	646	23	11	30	34	1.90
507539--507572	13	2.4	15	80	19	54	47	26	0	26	1.53
507545--507572	13	2.2	13	100	0	56	46	28	0	25	1.53
507865--507897	3	11.0	3	100	0	66	33	0	0	66	0.92
508509--508597	30	3.0	30	86	0	133	33	12	3	50	1.56
509798--509835	20	1.9	20	88	0	58	36	7	10	44	1.68
510605--510676	36	2.0	36	84	13	94	16	4	4	75	1.12
511240--511421	76	2.4	76	80	4	206	42	8	12	36	1.73

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