genome.fa.s80.2.7.7.80.10.50.1000.4.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: Scaffold80
Parameters: 2 7 7 80 10 50 1000
Length:  1499392

Tables:   1   2   3   4   5   6   7   8   

This is table  4  of  8  ( 882 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)
478609--478639	15	2.1	15	93	0	53	12	22	16	48	1.80
480443--480487	21	2.1	21	84	8	56	22	20	4	53	1.63
482695--482720	13	2.0	13	100	0	52	30	15	15	38	1.88
483418--483624	113	1.8	114	84	1	281	26	24	18	31	1.97
483532--483648	62	1.9	62	85	7	166	26	22	18	32	1.97
483550--483745	104	1.9	104	85	4	270	24	24	20	30	1.99
483654--483867	62	3.4	62	88	0	302	25	26	17	30	1.97
483884--484095	78	2.7	78	84	6	268	27	24	13	34	1.93
485016--485147	41	3.2	40	72	12	106	24	26	10	38	1.88
485053--485836	82	9.6	82	73	11	459	21	24	14	39	1.91
485035--485835	164	4.9	161	75	11	536	21	24	14	39	1.91
485319--485815	41	12.1	41	68	13	166	21	25	15	38	1.92
490968--491122	60	2.5	61	90	2	231	29	17	25	28	1.97
492104--492192	1	89.0	1	70	0	52	0	1	14	84	0.69
492110--492192	6	14.5	6	88	6	120	0	0	15	84	0.63
493665--493739	20	3.8	19	80	7	78	32	13	12	42	1.80
493665--493742	40	2.0	39	87	2	111	32	12	12	42	1.81
493755--493810	20	2.8	20	89	2	87	46	12	12	28	1.78
496400--496445	22	2.1	22	87	0	65	39	21	4	34	1.73
498771--498824	20	2.8	19	89	10	83	35	14	16	33	1.90
498856--498919	33	1.9	33	90	6	103	34	15	15	34	1.90
500497--500530	9	3.8	9	88	11	52	44	0	26	29	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
500908--500946	20	1.9	20	89	5	60	38	23	15	23	1.92
500956--500980	13	1.9	13	100	0	50	32	8	16	44	1.76
502655--502692	20	1.9	20	94	0	67	21	13	13	52	1.73
502742--502826	30	2.9	29	82	7	100	35	7	27	30	1.83
503679--503751	20	3.7	19	77	16	78	31	15	15	38	1.88
511600--511626	13	2.1	13	100	0	54	29	14	14	40	1.86
511579--511645	33	2.1	32	88	2	98	31	14	13	40	1.85
511610--511667	19	3.1	18	83	11	80	36	15	15	32	1.89
511611--511666	20	2.8	20	86	7	80	33	16	16	33	1.91
511695--511748	20	2.7	20	91	5	83	31	12	18	37	1.89
516376--516406	3	10.3	3	92	0	53	29	35	0	35	1.58
518500--518791	31	9.4	32	76	12	173	22	18	30	28	1.97
518500--518734	62	3.7	63	80	9	230	22	18	31	27	1.97
518643--519083	28	15.3	29	77	8	314	21	17	31	29	1.96
518702--519086	86	4.5	85	83	4	427	23	16	30	29	1.96
519885--519935	13	3.9	13	92	0	84	33	13	19	33	1.91
519961--519994	14	2.4	14	90	0	50	41	11	23	23	1.87
520082--520106	13	1.9	13	100	0	50	36	16	16	32	1.90
531440--531495	20	2.8	19	83	2	67	30	17	12	39	1.87
531522--531612	20	4.6	19	75	13	78	39	14	15	30	1.87
536689--536726	20	1.9	20	89	10	60	31	18	10	39	1.85
536693--536781	44	2.0	45	82	6	110	38	16	14	30	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
536737--536787	20	2.5	20	100	0	102	41	19	15	23	1.90
537378--537427	21	2.5	21	90	9	79	32	32	0	36	1.58
537378--537433	21	2.8	19	86	10	60	37	28	1	32	1.68
542653--542678	13	2.0	13	100	0	52	30	15	15	38	1.88
542633--542696	33	2.0	33	87	3	94	28	14	15	42	1.86
544736--544778	20	2.1	20	86	4	59	9	30	44	16	1.79
545455--545486	8	4.0	8	95	0	55	62	21	0	15	1.32
547945--548003	32	1.9	30	83	13	75	59	10	10	20	1.58
548284--548309	13	2.0	13	100	0	52	30	15	15	38	1.88
548264--548327	32	2.0	33	87	3	94	28	14	17	40	1.88
548942--549022	39	2.0	40	85	2	110	34	27	4	33	1.78
550865--550902	13	2.9	13	96	0	67	31	15	18	34	1.92
552981--553011	15	2.1	15	93	0	53	12	22	16	48	1.80
554493--554537	21	2.1	21	84	8	56	22	17	6	53	1.67
556326--556351	13	2.0	13	100	0	52	30	15	15	38	1.88
560621--560646	13	2.0	13	100	0	52	30	15	15	38	1.88
560601--560664	33	2.0	33	90	3	103	26	14	17	42	1.87
560890--560930	21	2.0	21	85	9	57	39	12	9	39	1.76
560968--561021	20	2.7	20	83	11	65	37	16	14	31	1.89
561108--561172	13	5.0	13	88	0	103	32	13	16	36	1.89
561107--561172	26	2.5	26	90	0	114	33	13	16	36	1.88
567534--567577	3	14.7	3	90	0	70	38	0	31	29	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
571251--571303	20	2.6	21	76	8	56	28	15	16	39	1.89
571291--571315	13	1.9	13	100	0	50	36	16	16	32	1.90
579510--579562	19	2.7	20	97	2	99	32	11	18	37	1.87
579549--579575	13	2.1	13	100	0	54	29	14	14	40	1.86
579530--579592	32	2.0	32	93	0	108	31	12	15	39	1.85
579636--579660	13	1.9	13	100	0	50	32	16	16	36	1.90
579669--579849	52	3.5	52	90	4	276	32	18	17	30	1.95
582974--583011	19	2.0	19	89	0	58	10	26	28	34	1.90
586734--586779	15	3.1	14	88	11	74	78	6	8	6	1.10
586735--586780	16	3.0	16	93	6	78	76	6	10	6	1.16
587100--587143	17	2.5	17	92	3	70	88	11	0	0	0.51
588139--588236	30	3.1	30	75	16	108	22	30	17	29	1.96
588162--588752	34	17.8	33	78	10	434	20	32	12	34	1.90
588102--588236	64	2.2	61	89	4	198	24	31	16	28	1.96
588197--588268	30	2.4	29	77	11	74	29	30	13	26	1.94
588259--588752	68	7.4	68	84	4	546	19	33	12	34	1.89
588259--588752	102	4.9	102	85	5	573	19	33	12	34	1.89
588754--588898	33	4.5	32	85	4	168	30	33	16	19	1.94
588754--588898	65	2.2	64	84	7	186	30	33	16	19	1.94
588886--590264	92	15.0	92	94	0	2332	25	24	18	31	1.97
589509--589576	21	3.2	20	66	25	50	26	27	16	29	1.97
589969--590036	21	3.2	21	63	19	50	25	26	17	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
590967--591050	19	4.7	19	81	18	108	32	11	17	38	1.87
591006--591032	13	2.1	13	100	0	54	29	14	14	40	1.86
590987--591050	32	2.0	32	96	0	119	31	12	17	39	1.87
591093--591117	13	1.9	13	100	0	50	32	16	16	36	1.90
591129--591307	52	3.4	52	93	1	288	33	19	16	30	1.94
591673--591730	21	2.8	21	81	5	73	36	15	15	32	1.89
591841--591866	13	2.0	13	100	0	52	30	15	15	38	1.88
591821--591887	33	2.0	33	88	0	98	25	14	16	43	1.86
594331--594400	28	2.5	28	85	0	95	22	32	17	27	1.96
594385--594554	52	3.3	50	82	6	205	31	24	11	32	1.91
594220--594554	51	6.4	50	70	13	203	30	25	11	32	1.91
594537--594618	28	2.9	28	83	7	96	24	32	17	25	1.96
594220--594611	211	1.9	212	91	1	653	29	26	12	31	1.93
601077--601113	13	2.8	13	95	0	65	32	13	16	37	1.87
603707--603747	21	2.0	21	85	9	57	46	9	7	36	1.65
606906--606989	13	5.5	13	68	28	51	35	19	14	30	1.91
606906--606991	32	2.7	32	92	0	145	37	18	13	30	1.90
608838--608867	13	2.3	13	94	0	51	33	13	16	36	1.88
608911--608948	20	1.9	20	94	0	67	31	15	10	42	1.81
615674--615713	20	2.0	20	95	0	71	35	32	5	27	1.79
619482--619508	8	3.4	8	100	0	54	51	0	11	37	1.37
619783--619822	20	2.0	20	90	0	62	40	12	17	30	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
621033--621058	13	2.0	13	100	0	52	30	15	15	38	1.88
623432--623478	21	2.3	21	76	23	55	42	4	19	34	1.70
623599--623637	13	3.0	13	96	0	69	35	15	17	30	1.91
623623--623701	20	3.7	20	78	15	77	44	15	15	25	1.85
625716--625746	15	2.1	15	93	0	53	12	22	16	48	1.80
627550--627594	21	2.1	21	84	8	56	22	20	4	53	1.63
629812--629837	13	2.0	13	100	0	52	30	15	15	38	1.88
630280--630310	16	1.9	16	93	0	53	22	29	12	35	1.91
633923--633948	13	2.0	13	100	0	52	30	15	15	38	1.88
633934--633987	19	2.8	20	82	2	65	33	16	14	35	1.90

Tables:   1   2   3   4   5   6   7   8