genome.fa.s60.2.7.7.80.10.50.1000.4.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: Scaffold60
Parameters: 2 7 7 80 10 50 1000
Length:  3815296

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   

This is table  4  of  21  ( 2419 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)
472482--472646	84	2.0	84	82	7	201	24	19	3	52	1.62
474699--474724	13	2.0	13	100	0	52	30	15	15	38	1.88
474679--474742	32	2.0	33	90	3	103	28	14	18	39	1.90
474679--474749	19	4.0	18	72	25	62	26	12	21	39	1.89
474783--474835	20	2.7	20	100	0	106	33	20	15	30	1.93
475440--475489	23	2.1	24	92	3	84	30	10	20	40	1.85
475506--475530	13	1.9	13	100	0	50	32	4	24	40	1.73
476114--476140	13	2.1	13	100	0	54	29	14	14	40	1.86
476095--476159	32	2.0	32	90	3	103	29	15	15	40	1.88
476125--476180	19	2.8	20	89	7	80	30	16	19	33	1.94
484437--484797	154	2.3	154	80	5	397	38	21	17	22	1.93
484599--484999	201	2.0	200	83	5	506	38	20	16	24	1.93
484819--485824	156	6.5	152	77	8	769	39	20	16	23	1.91
486816--486867	19	2.7	20	84	6	70	40	17	13	28	1.87
489063--489107	21	2.1	21	84	8	56	53	4	20	22	1.63
490911--490941	15	2.1	15	93	0	53	48	16	22	12	1.80
493020--493045	13	2.0	13	100	0	52	30	15	15	38	1.88
493166--493211	21	2.2	20	81	11	58	32	19	4	43	1.71
494789--494869	38	2.1	40	81	9	96	33	4	25	35	1.78
495494--495519	13	2.0	13	100	0	52	38	15	15	30	1.88
495476--495539	32	2.0	33	87	3	94	40	17	14	28	1.88
497095--497125	12	2.7	12	95	5	55	0	19	0	80	0.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
497565--497864	161	1.9	160	80	6	360	47	11	12	29	1.75
511854--511962	14	8.2	13	79	8	85	36	9	15	38	1.80
511833--511995	66	2.6	62	92	6	267	34	8	18	38	1.81
515922--515987	22	3.1	21	79	10	73	37	3	1	57	1.23
516987--517029	17	2.5	17	82	10	52	0	18	2	79	0.85
522674--522729	24	2.4	22	80	11	58	64	0	32	3	1.11
524980--525046	35	1.9	35	96	0	125	35	14	10	38	1.81
525693--525985	153	1.9	153	87	2	428	36	8	17	37	1.81
527021--527076	20	2.8	20	88	0	85	32	17	12	37	1.88
527360--527417	20	3.0	20	84	2	73	31	10	12	46	1.74
527456--527480	13	1.9	13	100	0	50	32	16	16	36	1.90
533481--533545	18	3.3	18	67	29	51	9	49	1	40	1.44
533484--533602	42	2.8	42	92	0	193	9	45	1	43	1.46
533499--533569	18	3.6	18	69	20	52	9	43	2	43	1.52
537306--537376	28	2.5	28	79	0	79	25	30	16	26	1.97
537405--537482	28	2.9	27	82	5	86	25	29	19	25	1.98
537253--537525	106	2.6	107	78	5	277	28	24	14	32	1.94
537465--537582	51	2.3	51	78	11	134	32	26	10	31	1.89
537518--537668	79	1.9	79	87	0	221	28	28	12	30	1.93
537436--537678	130	1.9	130	85	3	337	29	27	12	30	1.93
540436--540466	13	2.4	13	88	0	53	35	12	16	35	1.87
540419--540481	33	1.9	33	90	6	101	34	19	12	33	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
540511--540565	19	2.8	20	83	5	76	36	16	14	32	1.89
541049--541088	13	3.2	12	89	10	62	7	10	0	82	0.84
541049--541088	14	3.1	13	92	7	64	7	10	0	82	0.84
543228--543264	18	2.0	19	89	5	58	48	8	0	43	1.32
548852--548885	17	1.9	18	88	5	52	32	2	2	61	1.26
548917--548949	2	16.5	2	100	0	66	51	0	0	48	1.00
549693--549730	19	2.0	19	89	0	58	50	2	0	47	1.15
549850--549906	14	4.0	14	81	4	78	59	5	1	33	1.30
551750--551774	2	12.5	2	100	0	50	52	48	0	0	1.00
555415--555441	7	3.9	7	100	0	54	0	14	0	85	0.61
559275--559361	23	4.0	21	71	11	68	52	0	0	47	1.00
559328--559367	21	2.0	20	85	14	55	55	0	0	45	0.99
559354--559421	20	3.3	20	80	12	68	69	1	1	27	1.06
559371--559419	11	4.8	11	76	14	52	71	2	0	26	0.97
559371--559418	10	4.8	10	80	7	53	70	2	0	27	0.98
560380--560415	2	18.0	2	100	0	72	50	0	0	50	1.00
560772--560811	17	2.4	17	87	4	55	52	2	0	45	1.14
561714--561751	17	2.2	17	86	9	51	68	0	0	31	0.90
562070--562265	106	1.9	105	86	1	284	36	6	8	48	1.60
562878--562946	32	2.1	33	86	7	97	55	0	0	44	0.99
562961--563007	17	2.8	17	75	12	51	61	4	0	34	1.15
564255--564416	46	3.5	47	80	5	154	33	9	16	40	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
568122--568194	20	3.8	20	78	14	80	38	9	19	32	1.84
570187--570256	35	2.0	35	94	0	122	32	12	20	34	1.90
573833--574165	114	2.9	113	77	12	358	45	7	6	40	1.58
577653--577707	27	2.0	27	89	0	83	27	14	1	56	1.49
578134--578344	106	2.0	105	96	0	386	38	18	18	23	1.93
581829--581970	29	5.3	28	69	17	97	44	0	1	53	1.14
581841--581952	26	4.3	25	67	18	77	46	0	0	51	1.13
581811--581976	78	2.1	80	87	6	241	43	1	1	53	1.16
584560--584604	19	2.3	20	84	3	56	42	2	4	51	1.34
586733--586790	13	4.5	13	73	18	50	50	1	0	48	1.11
588554--588591	17	2.2	17	86	13	51	47	5	0	47	1.24
588666--588735	26	2.7	24	81	14	77	65	2	1	30	1.15
588763--588797	16	2.2	16	94	0	61	0	14	0	85	0.59
588762--588801	19	2.0	20	95	4	73	0	15	0	85	0.61
588900--588933	11	3.2	11	83	8	52	70	0	0	29	0.87
588910--589038	29	4.6	28	69	18	74	58	0	0	41	1.04
588914--589040	59	2.2	57	78	13	136	57	0	0	41	1.04
588963--589040	17	4.4	17	80	6	84	55	0	0	44	0.99
590481--590528	21	2.3	21	81	0	60	58	6	4	31	1.42
590544--590614	31	2.3	30	83	9	81	66	1	0	32	1.01
590523--590621	51	2.0	47	81	11	110	65	2	0	32	1.04
590929--590971	22	1.9	23	90	4	70	67	0	2	30	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
591112--591137	12	2.2	12	100	0	52	7	7	0	84	0.77
591720--591813	25	3.7	25	69	18	61	55	0	0	44	0.99
591738--591815	25	3.3	22	73	16	66	57	0	0	42	0.98
591683--591782	47	2.1	47	81	3	110	50	1	0	49	1.07
592161--592202	14	3.0	14	83	10	50	42	4	4	47	1.45
593170--593211	20	2.2	20	87	12	61	42	0	0	57	0.99
597251--597327	2	38.5	2	89	0	55	0	14	48	37	1.44
597254--597327	32	2.4	30	90	4	121	0	14	48	36	1.45
602860--602886	13	2.1	13	100	0	54	40	0	7	51	1.30
606060--606105	16	2.8	17	78	18	53	32	0	0	67	0.91
606766--606813	15	3.3	15	76	5	53	54	4	12	29	1.56
606909--606973	21	3.2	21	75	16	66	53	0	0	46	1.00
607362--607447	27	3.2	25	78	18	68	33	0	1	65	1.01
607362--607444	10	8.8	10	68	16	52	32	0	1	66	1.00
607403--607450	25	2.0	23	88	8	69	33	0	0	66	0.92
607488--607529	5	7.8	5	94	5	57	7	57	16	19	1.62
607488--607546	27	2.1	28	84	9	77	10	55	13	20	1.66
608131--608182	26	2.1	24	82	7	59	48	0	1	50	1.12
609282--609333	15	3.3	17	72	22	51	53	0	0	46	1.00
609291--609333	14	2.9	15	75	10	52	53	0	0	46	1.00
609392--609422	2	15.5	2	100	0	62	51	0	0	48	1.00
613809--613847	16	2.3	17	91	8	62	30	0	0	69	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
613808--613850	13	3.1	13	78	18	50	32	0	0	67	0.91
614590--614642	20	2.6	20	80	16	56	37	0	3	58	1.16
614597--614668	22	3.3	22	77	15	60	41	0	2	55	1.14
614770--614800	7	4.4	7	100	0	62	38	0	0	61	0.96
619697--619729	2	16.5	2	93	0	57	45	0	3	51	1.16
620076--620121	14	3.1	14	87	9	56	56	2	0	41	1.11
620811--620855	3	15.0	3	100	0	90	66	0	0	33	0.92
621377--621416	21	1.9	21	90	10	64	52	0	0	47	1.00
621549--621619	6	12.3	6	71	14	60	54	0	1	43	1.08
621547--621622	12	6.8	11	75	12	75	55	0	1	43	1.08

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21