genome.fa.s36.2.7.7.80.10.50.1000.4.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: Scaffold36
Parameters: 2 7 7 80 10 50 1000
Length:  4808052

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   

This is table  4  of  28  ( 3342 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)
542002--542337	170	2.0	170	90	0	528	38	8	9	42	1.69
542399--542640	133	1.8	133	83	5	328	37	5	16	40	1.72
543910--543965	21	2.7	21	91	0	94	33	12	19	33	1.89
544078--544103	13	2.0	13	100	0	52	30	15	15	38	1.88
546508--546799	79	3.7	79	85	3	367	25	26	16	31	1.96
549538--549572	11	3.2	11	95	0	61	34	25	0	40	1.56
550963--551020	20	2.9	20	97	0	107	36	8	17	37	1.80
551462--551527	35	1.9	34	90	3	105	31	12	24	31	1.92
560226--560441	34	6.4	34	88	1	292	24	7	27	40	1.83
560226--560443	67	3.2	67	88	1	319	24	7	27	40	1.82
560743--560805	19	3.3	19	90	0	90	28	17	19	34	1.94
564871--565088	34	6.5	34	88	1	296	24	7	27	40	1.82
564871--565090	67	3.3	67	88	1	323	24	7	27	40	1.82
565832--565857	13	2.0	13	100	0	52	30	7	0	61	1.24
567276--567312	17	2.2	17	90	0	56	2	16	2	78	0.98
570222--570251	3	10.0	3	100	0	60	33	0	0	66	0.92
570438--570476	5	8.2	5	91	8	64	61	0	38	0	0.96
570921--570945	2	12.5	2	100	0	50	52	0	0	48	1.00
571784--571812	2	14.5	2	100	0	58	51	0	0	48	1.00
572678--572711	2	17.0	2	100	0	68	50	0	0	50	1.00
573238--573299	22	2.9	21	75	15	63	54	3	4	37	1.38
574590--574630	16	2.6	16	84	7	57	34	31	19	14	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
575905--575943	13	3.0	13	82	14	53	33	0	0	66	0.92
575932--575998	23	2.8	24	79	6	73	52	0	0	47	1.00
575901--575998	26	3.9	25	74	8	67	47	0	0	52	1.00
576668--576711	21	2.2	20	84	12	54	75	0	0	25	0.81
576810--576939	50	2.6	50	93	2	215	27	20	10	42	1.83
577529--577596	19	3.9	19	78	21	85	35	11	14	38	1.83
577550--577574	13	1.9	13	100	0	50	36	16	16	32	1.90
577531--577593	32	2.0	32	96	0	117	34	12	15	36	1.86
577636--577661	13	2.0	13	100	0	52	30	15	15	38	1.88
577616--577682	33	2.0	33	88	0	98	25	14	16	43	1.86
580035--580203	52	3.3	52	86	2	234	31	23	11	34	1.90
580224--580425	79	2.6	79	80	1	208	24	29	16	29	1.96
592823--592884	10	6.0	10	78	12	63	83	4	11	0	0.78
592831--592856	12	2.2	12	100	0	52	92	7	0	0	0.39
592823--592866	17	2.5	17	88	7	61	88	6	4	0	0.62
593851--594626	59	13.3	59	88	4	878	25	27	20	25	1.99
594609--594695	42	2.1	42	82	4	104	19	25	13	41	1.88
595411--595465	19	2.9	19	97	0	101	34	10	14	40	1.81
597889--598060	52	3.4	51	83	5	222	31	23	10	34	1.88
598044--598120	28	2.8	28	85	0	100	23	32	19	24	1.97
598074--598307	79	2.9	77	79	5	234	25	28	14	31	1.95
599337--599378	22	1.9	22	85	9	59	23	40	21	14	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
606822--607364	273	2.0	270	88	2	802	35	16	18	28	1.94
607828--607880	20	2.7	20	88	11	74	30	18	13	37	1.89
608499--608552	19	2.7	20	82	11	65	24	37	1	37	1.66
610238--610278	22	1.9	21	85	14	57	51	2	19	26	1.59
610396--610437	13	3.2	13	86	0	57	35	14	16	33	1.89
616513--616581	33	2.1	34	86	13	99	34	14	13	37	1.85
617439--617469	13	2.4	13	94	0	53	35	12	16	35	1.87
617419--617482	33	1.9	33	87	6	94	32	15	14	37	1.87
617513--617563	19	2.6	20	87	3	68	31	15	19	33	1.93
645942--647025	32	35.2	32	88	7	1297	16	18	34	31	1.93
645942--647022	97	11.7	96	85	8	1246	16	18	34	31	1.93
645942--647022	129	8.8	127	86	8	1317	16	18	34	31	1.93
648260--648293	13	2.6	13	90	0	59	0	0	8	91	0.43
662302--662376	20	3.8	20	80	3	80	40	12	13	34	1.81
662299--662376	40	2.0	39	87	2	111	39	12	12	34	1.82
663574--663617	2	22.0	2	90	0	70	45	0	0	54	0.99
663568--663618	8	6.4	8	93	0	66	45	0	0	54	0.99
668437--668461	13	1.9	13	100	0	50	36	16	16	32	1.90
668499--668588	13	6.0	13	71	26	63	35	16	13	34	1.88
668513--668610	19	5.8	18	71	28	90	36	17	12	33	1.87
668500--668608	32	3.4	32	96	1	191	35	17	12	33	1.88
675507--675687	52	3.5	52	96	0	308	28	17	17	36	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
675696--675720	13	1.9	13	100	0	50	36	16	16	32	1.90
675758--675858	32	3.1	32	95	1	175	35	16	11	35	1.86
675782--675838	13	3.9	13	74	24	51	33	15	14	36	1.88
675763--675859	19	5.7	19	68	27	83	36	16	12	35	1.86
675896--675937	21	2.0	21	85	0	57	33	14	16	35	1.89
676484--676771	43	6.0	48	80	11	326	33	17	24	24	1.96
676485--676765	92	3.0	92	94	2	463	32	17	24	24	1.97
676787--677034	57	4.3	58	86	7	314	22	15	29	33	1.95
676828--677026	29	6.9	29	82	6	253	23	16	28	31	1.96
692335--692515	52	3.5	52	93	0	317	28	17	17	36	1.93
692521--692546	13	2.0	13	100	0	52	38	15	15	30	1.88
692591--692688	19	5.8	18	71	28	90	36	17	12	33	1.87
692586--692686	32	3.1	32	97	1	184	35	17	11	34	1.87
692610--692666	13	3.9	13	76	24	60	33	17	14	35	1.90
694753--695091	158	2.1	158	85	3	450	45	12	7	34	1.70
697952--698215	79	3.3	79	87	3	363	31	16	26	25	1.96
698168--698242	27	2.7	27	89	6	107	21	21	33	24	1.97
698089--698291	107	1.9	108	83	3	266	27	16	29	26	1.97
698220--698408	51	3.7	50	85	5	252	34	11	25	29	1.90
701646--701730	42	2.1	42	84	4	111	45	15	20	18	1.85
701708--704208	55	43.5	55	84	9	2761	25	20	27	26	1.99
701708--704208	400	6.2	395	88	5	3235	25	20	27	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
704051--704135	28	3.1	29	65	10	70	21	21	25	31	1.98
701708--704211	237	10.9	227	84	10	1904	25	20	27	26	1.99
705184--705208	13	1.9	13	100	0	50	36	16	16	32	1.90
705168--705229	33	1.9	31	87	6	88	30	16	19	33	1.94
707688--707725	13	2.9	13	96	0	67	34	18	15	31	1.92
713889--713952	33	2.0	32	90	9	103	31	12	17	39	1.87
715431--715472	18	2.3	18	91	0	66	40	0	2	57	1.12
716584--716625	16	2.6	17	85	11	61	9	16	0	73	1.08
718089--718127	21	1.9	21	94	5	71	35	5	12	46	1.65
720717--720780	31	2.0	32	82	8	78	51	0	0	48	1.00
728832--728879	20	2.2	23	85	10	66	60	4	0	35	1.16
730920--730959	20	2.0	20	100	0	80	40	10	20	30	1.85
731765--731801	19	1.9	19	89	10	58	81	0	10	8	0.89
733562--733628	33	2.0	33	88	0	98	34	11	13	40	1.81
733582--733606	13	1.9	13	100	0	50	36	16	16	32	1.90
733671--733695	13	1.9	13	100	0	50	32	16	16	36	1.90
733704--733834	52	2.5	52	92	0	217	35	17	16	31	1.92
740082--740126	2	22.5	2	95	0	72	44	0	4	51	1.21
744605--744669	2	32.5	2	100	0	130	0	50	0	49	1.00
744911--744948	20	1.9	20	84	10	51	60	2	2	34	1.24
745784--745856	37	2.0	37	97	0	137	30	24	12	32	1.92
752839--752864	2	13.0	2	100	0	52	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
754847--754878	15	2.1	16	94	5	57	53	0	46	0	1.00
755867--756046	93	2.0	91	80	2	207	45	5	5	43	1.50
756175--756299	60	2.1	60	92	3	207	48	4	7	40	1.50
757591--757624	17	2.1	17	88	5	52	64	0	14	20	1.28
758261--758467	106	2.0	103	85	4	281	42	6	2	47	1.43
759270--759441	27	6.1	27	85	11	231	45	6	30	16	1.73
759350--759416	35	1.9	35	93	0	116	44	5	31	17	1.73
759323--759441	62	1.9	61	94	1	211	45	6	31	16	1.74
760679--760800	53	2.3	52	83	10	144	28	26	13	31	1.94
760729--761036	79	3.9	79	93	0	483	27	25	14	32	1.95

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28