genome.fa.s1165.2.7.7.80.10.50.1000.2.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: scaffold158
Parameters: 2 7 7 80 10 50 1000
Length:  3161772

Tables:   1   2   3   4   5   6   7   8   9   

This is table  2  of  9  ( 1067 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)
368003--368117	44	2.7	44	84	2	144	30	20	18	30	1.96
367773--368257	225	2.2	224	81	3	573	28	19	18	32	1.96
367995--368120	42	3.0	42	83	3	153	28	20	17	33	1.95
368268--368721	44	10.2	44	76	7	296	28	22	18	31	1.97
368268--368700	45	9.8	44	75	7	254	27	22	17	31	1.97
368291--368718	177	2.4	177	87	5	605	28	22	18	31	1.97
368998--369053	24	2.3	24	87	0	85	32	25	10	32	1.90
375958--376015	22	2.7	21	76	10	53	43	17	3	36	1.66
379102--379170	25	2.7	25	86	2	102	46	2	11	39	1.55
379166--379987	18	45.7	18	99	0	1626	50	22	0	27	1.50
384282--384489	111	1.9	111	88	4	321	31	23	14	30	1.95
386657--386683	6	4.5	6	100	0	54	55	14	0	29	1.40
388530--388658	51	2.5	52	87	6	183	27	14	29	27	1.95
396468--396631	43	3.8	42	79	10	190	30	27	18	23	1.98
399970--400027	29	2.0	29	96	0	107	46	3	25	24	1.68
412075--412104	12	2.5	12	94	0	51	6	30	40	23	1.80
413238--413307	25	2.8	25	84	0	104	32	21	21	24	1.98
419936--420042	38	2.8	38	81	8	119	35	29	14	19	1.92
424320--424400	39	2.1	39	92	0	135	29	23	9	37	1.87
430886--430930	22	2.0	22	83	8	56	26	51	4	17	1.65
431118--431170	27	2.0	27	85	7	74	37	11	16	33	1.85
431133--431198	26	2.5	26	80	2	78	31	13	19	34	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
439717--439747	9	3.4	9	90	0	53	25	12	22	38	1.90
439800--439836	9	4.1	9	86	13	58	43	13	10	32	1.79
440806--440832	5	5.4	5	100	0	54	22	18	18	40	1.91
449833--449880	13	3.5	13	81	13	53	37	6	6	50	1.53
459595--459627	5	6.8	5	93	6	50	21	0	3	75	0.93
461142--461301	27	6.0	27	75	10	141	38	10	26	25	1.88
461142--461285	54	2.7	53	83	4	166	40	9	25	25	1.85
461143--461297	79	1.9	79	83	5	195	38	10	26	25	1.88
462989--463135	42	3.5	42	88	0	213	42	17	23	17	1.89
471568--471607	5	8.0	5	94	0	71	40	0	2	57	1.12
476580--476712	61	2.2	61	95	0	239	20	10	39	30	1.86
478483--478511	5	5.8	5	100	0	58	41	0	0	58	0.98
478540--478588	10	5.1	10	83	11	50	71	2	20	6	1.18
478536--478604	4	17.0	4	72	19	54	71	1	23	4	1.12
478517--478603	33	2.7	33	77	12	90	73	1	18	6	1.12
478534--478604	29	2.5	28	77	6	72	71	1	22	4	1.11
478563--478615	20	2.7	20	82	2	63	71	0	28	0	0.86
479296--479358	21	3.2	20	73	18	53	33	0	15	50	1.45
479454--479588	41	3.4	41	76	9	145	25	17	25	31	1.97
479454--479588	40	3.4	40	74	7	132	25	17	25	31	1.97
488613--488732	40	3.0	40	84	6	120	34	7	0	57	1.33
488815--488843	11	2.6	11	100	0	58	17	0	13	68	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
489542--489587	23	2.0	23	83	8	58	52	2	4	41	1.33
490295--490436	72	2.0	72	95	0	257	35	19	16	28	1.93
492720--492931	44	4.6	45	75	10	153	28	23	18	30	1.97
493238--493922	50	13.7	50	75	4	574	27	19	20	32	1.97
493237--493812	100	5.8	100	86	2	787	27	19	20	32	1.97
493237--493914	200	3.4	199	84	2	847	27	19	20	32	1.97
494729--494823	48	2.0	48	100	0	190	27	20	12	40	1.88
495370--495419	15	3.3	15	83	10	66	0	22	0	78	0.76
495378--495410	11	2.8	12	86	13	50	0	21	0	78	0.75
495370--495412	21	2.0	21	86	8	61	0	20	0	79	0.74
498610--498823	106	2.0	107	99	0	421	41	11	9	37	1.73
498831--498874	3	15.0	3	95	4	81	68	0	0	31	0.90
498632--498856	106	2.1	106	85	4	285	46	8	8	37	1.63
499055--499087	17	1.9	17	93	0	57	51	0	33	15	1.43
506080--506159	19	3.9	21	82	14	96	37	18	8	35	1.82
506684--506845	45	3.6	45	81	2	112	24	23	21	30	1.99
506731--506846	45	2.6	45	87	0	151	23	24	23	29	1.99
506969--507184	44	4.9	45	68	4	116	22	25	25	25	2.00
506965--507406	88	5.0	88	89	0	643	23	27	24	24	2.00
507084--507395	44	7.1	44	68	8	195	24	27	23	23	2.00
511696--511922	41	5.5	41	89	2	357	24	26	19	29	1.99
511704--511922	83	2.7	81	90	2	348	24	25	19	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
516133--516212	19	3.9	21	82	14	96	37	18	8	35	1.82
517566--517777	105	2.0	106	86	6	297	35	16	17	30	1.93
518155--518185	12	2.6	12	94	0	53	58	0	9	32	1.31
518325--518391	3	23.3	3	74	8	50	56	2	5	34	1.39
520546--520593	24	2.0	25	84	8	64	50	0	31	18	1.48
523450--523485	18	1.9	19	88	5	56	50	8	8	33	1.63
528932--528974	21	2.0	21	82	8	52	44	11	0	44	1.40
532997--533036	16	2.5	16	91	0	62	42	7	22	27	1.80
536471--536546	30	2.5	30	86	0	107	26	25	10	38	1.88
536590--536663	30	2.5	31	80	13	91	29	24	9	36	1.87
536470--536777	120	2.6	119	83	3	361	23	25	12	38	1.90
536711--536777	30	2.3	30	87	7	93	25	23	11	38	1.89
543707--543762	25	2.3	25	81	3	60	48	26	10	14	1.76
544188--544251	30	2.1	30	85	0	83	17	28	12	42	1.85
546104--546149	13	3.5	14	88	8	62	19	6	28	45	1.75
546104--546144	13	3.2	13	96	0	73	17	7	29	46	1.74
550715--550974	72	3.6	72	78	9	285	56	14	5	23	1.58
564061--564121	9	6.6	9	77	7	50	34	3	3	59	1.30
564032--564099	18	3.7	18	75	15	59	39	4	0	55	1.20
568774--568841	30	2.2	30	84	2	82	29	26	5	38	1.80
570424--570472	20	2.5	20	80	3	64	55	0	2	42	1.11
589195--589239	19	2.4	18	82	17	56	15	0	13	71	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
589189--589245	21	2.7	21	70	22	55	15	0	12	71	1.13
592261--592321	30	2.0	30	90	0	95	29	14	21	34	1.93
592786--593195	88	4.7	86	80	7	328	33	13	10	42	1.79
596754--597532	389	2.0	389	99	0	1531	56	6	8	28	1.55
597483--597554	3	24.3	3	74	13	60	65	5	2	26	1.28
597491--597573	27	3.3	24	79	14	78	66	6	2	25	1.27
604214--604251	14	2.8	14	84	4	51	26	18	5	50	1.68
615545--615601	24	2.4	24	90	0	87	38	5	8	47	1.57
616926--616994	30	2.3	30	92	2	120	42	18	17	21	1.90
618898--618955	24	2.4	24	82	0	71	36	5	8	50	1.56
621903--622026	54	2.3	54	81	2	142	20	27	25	26	1.99
625990--626050	17	3.6	17	79	14	63	6	0	18	75	1.01
625987--626050	16	4.0	15	79	15	67	6	0	17	76	0.98
628651--628689	20	2.0	20	90	5	62	48	10	12	28	1.74
644224--644274	24	2.1	24	100	0	102	31	11	17	39	1.86
646863--646887	13	1.9	13	100	0	50	76	0	16	8	1.02
648004--648053	21	2.4	21	86	6	66	12	6	6	76	1.16
648016--648056	21	1.9	22	95	5	75	9	7	4	78	1.10
652155--652210	25	2.2	25	81	6	69	21	21	25	32	1.98
659085--659205	12	10.0	12	70	18	72	77	7	7	7	1.12
659104--659179	26	3.0	25	88	5	109	76	7	10	5	1.15
659090--659217	62	2.1	62	82	5	152	76	7	8	7	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
659088--659212	35	3.7	34	73	9	105	77	7	8	7	1.12
659103--659217	62	1.9	60	84	8	153	76	7	9	6	1.15
659144--659219	35	2.2	35	88	4	109	75	6	10	7	1.20
661160--661241	23	3.4	23	80	8	67	20	25	21	31	1.98
666539--666843	151	2.0	152	99	0	603	33	5	11	48	1.64
669969--670112	71	2.0	72	97	1	272	20	12	11	56	1.66
693136--693169	15	2.3	15	89	0	50	61	26	8	2	1.40
701365--701400	12	2.7	14	87	12	58	38	13	0	47	1.44
702873--702898	13	2.0	13	100	0	52	46	7	15	30	1.74
703788--703827	19	2.0	20	85	4	55	65	10	5	20	1.42

Tables:   1   2   3   4   5   6   7   8   9