genome.fa.s223.2.7.7.80.10.50.1000.4.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: Scaffold223
Parameters: 2 7 7 80 10 50 1000
Length:  4172444

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   

This is table  4  of  26  ( 3021 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)
686118--686172	28	2.0	27	89	3	83	25	16	36	21	1.94
685957--686205	121	2.0	121	86	3	349	30	14	34	20	1.93
687168--687204	1	37.0	1	94	0	65	0	2	0	97	0.18
687531--687564	1	34.0	1	87	0	50	0	2	2	94	0.38
690528--690555	1	28.0	1	100	0	56	100	0	0	0	0.00
691248--691290	21	2.0	21	100	0	86	27	20	23	27	1.99
694517--694637	52	2.3	52	95	2	217	28	18	19	34	1.95
694517--694657	52	2.7	51	86	10	205	29	17	19	33	1.95
694646--694670	13	1.9	13	100	0	50	36	16	16	32	1.90
694736--694760	13	1.9	13	100	0	50	32	16	16	36	1.90
694714--694780	33	2.0	33	88	0	98	40	13	11	34	1.81
697660--697695	12	2.9	12	87	4	54	58	0	0	41	0.98
697638--697729	24	3.9	24	74	20	88	54	0	1	44	1.07
697688--697732	18	2.4	19	78	14	58	51	0	0	48	1.00
706932--706956	5	5.0	5	100	0	50	20	0	60	20	1.37
710872--710908	18	2.1	18	90	10	58	35	10	32	21	1.88
722379--722460	40	2.0	40	100	0	164	39	21	2	36	1.67
722562--722607	21	2.2	21	84	7	58	54	2	0	43	1.12
723244--723326	6	13.8	6	80	14	82	51	0	42	6	1.26
723238--723326	18	4.9	18	82	8	94	51	0	41	6	1.28
727679--727738	28	2.1	29	93	3	104	28	15	26	30	1.96
737078--737185	54	2.0	54	87	7	157	55	7	1	35	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
737160--737215	22	2.5	21	83	11	67	55	0	3	41	1.17
745760--745798	6	6.2	6	88	11	60	2	79	0	17	0.84
747820--747880	5	11.6	5	74	22	54	55	1	0	42	1.09
747796--747876	34	2.4	36	78	16	91	50	1	0	48	1.08
747815--747870	22	2.5	23	77	5	62	55	1	0	42	1.10
747828--747875	17	2.8	18	79	20	66	52	2	0	45	1.12
748545--748597	18	2.6	21	78	21	60	58	0	0	41	0.98
749727--749755	13	2.1	14	93	6	51	41	0	0	58	0.98
749949--749988	7	5.4	7	82	11	53	30	2	0	67	1.04
749937--749985	25	2.0	26	92	8	84	28	4	0	67	1.09
750290--750328	15	2.8	13	82	14	51	48	0	0	51	1.00
750335--750368	12	2.9	11	87	12	50	29	2	0	67	1.05
750431--750490	3	19.3	3	80	13	59	36	1	0	61	1.06
755350--755405	5	10.6	5	75	17	51	53	1	1	42	1.21
755345--755411	32	2.1	32	94	0	116	44	2	2	49	1.32
755879--755918	17	2.2	17	86	8	53	37	12	0	50	1.41
755913--755963	19	2.7	18	79	11	57	50	0	1	47	1.12
756326--756355	4	7.5	4	100	0	60	76	0	0	23	0.78
756520--756607	24	3.5	24	73	22	72	42	1	0	56	1.06
756752--756795	22	2.0	23	90	4	72	54	0	0	45	0.99
756740--756791	22	2.5	19	77	17	59	51	1	0	46	1.12
761915--761955	15	2.8	14	85	7	55	46	0	0	53	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
762525--762674	76	2.0	76	97	0	282	32	5	9	53	1.55
763430--763468	19	2.1	19	85	4	53	53	0	2	43	1.14
763503--763553	19	2.7	19	82	17	70	49	0	3	47	1.20
765191--765231	15	2.7	15	82	17	50	46	0	0	53	1.00
767437--767473	6	6.2	6	100	0	74	16	16	32	35	1.91
767790--767844	23	2.3	24	81	3	67	40	1	0	58	1.09
767803--767862	19	3.1	19	83	11	70	35	0	0	65	0.93
768990--769057	27	2.5	26	77	13	75	39	2	0	57	1.14
769421--769465	19	2.3	18	85	14	63	22	0	6	71	1.09
769424--769462	19	2.0	21	90	10	64	25	0	7	66	1.18
769451--769523	22	3.2	23	77	9	87	34	0	1	64	1.02
769791--769816	2	13.0	2	100	0	52	50	0	0	50	1.00
775819--775855	15	2.5	15	90	0	56	59	21	16	2	1.49
777193--777303	36	2.9	38	67	21	90	49	0	0	49	1.07
777393--777467	33	2.3	33	90	2	116	16	14	36	33	1.89
778955--778984	13	2.3	13	100	0	60	33	33	6	26	1.83
782877--782901	2	12.5	2	100	0	50	52	48	0	0	1.00
783943--783970	5	5.6	5	100	0	56	17	0	0	82	0.68
789400--789453	17	3.1	17	78	5	54	38	0	0	61	0.96
789403--789492	25	3.4	26	73	18	71	36	0	4	58	1.18
790837--790877	3	13.7	3	100	0	82	31	0	0	68	0.90
790876--790901	3	8.7	3	100	0	52	0	30	0	69	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
794913--794942	2	15.0	2	100	0	60	50	50	0	0	1.00
795204--795252	22	2.2	22	88	0	71	53	30	0	16	1.43
795210--795248	12	3.2	12	88	0	51	53	38	0	7	1.30
796129--796157	3	9.7	3	100	0	58	34	0	0	65	0.93
805457--805494	3	12.7	3	100	0	76	34	0	0	65	0.93
812077--812101	1	25.0	1	100	0	50	100	0	0	0	0.00
818748--818773	2	13.0	2	100	0	52	50	0	0	50	1.00
819349--819394	3	15.3	3	100	0	92	32	0	0	67	0.91
820469--820522	17	3.1	17	76	7	56	42	0	0	57	0.98
820565--820611	10	4.8	10	77	15	53	29	0	0	70	0.88
820576--820622	19	2.5	18	86	6	58	27	2	0	70	0.99
821396--821447	22	2.4	21	77	6	50	50	0	0	50	1.00
822982--823071	45	2.0	46	86	6	130	51	13	8	26	1.70
824867--824891	1	25.0	1	100	0	50	100	0	0	0	0.00
827293--827372	24	3.5	24	74	12	71	51	1	0	47	1.08
828044--828115	22	3.3	21	76	14	67	29	4	0	66	1.10
828595--828624	12	2.5	12	88	0	51	90	0	10	0	0.47
828983--829015	17	2.0	17	88	5	50	51	0	0	48	1.00
829148--829188	17	2.3	18	80	12	50	48	0	0	51	1.00
829899--829935	2	18.5	2	94	0	65	54	0	0	45	1.00
830016--830057	21	2.0	20	82	13	50	38	0	2	59	1.10
830722--830772	22	2.3	22	76	10	59	62	0	0	37	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
830822--830865	22	2.0	22	86	8	63	65	0	0	34	0.93
831239--831280	12	3.8	12	79	20	56	42	0	0	57	0.99
831245--831286	21	2.0	21	90	9	68	47	0	0	52	1.00
832080--832129	20	2.8	17	85	11	57	56	0	0	44	0.99
832093--832164	20	3.8	19	75	15	69	56	0	0	43	0.99
832130--832168	16	2.4	16	86	0	51	56	0	0	43	0.99
832143--832185	13	3.2	13	80	3	50	55	0	0	44	0.99
832573--832621	20	2.6	19	87	6	64	57	2	0	40	1.10
833457--833518	29	2.1	28	85	5	79	27	1	8	62	1.32
833469--833518	16	3.3	16	72	16	52	26	0	10	64	1.25
834242--834284	23	2.0	22	86	13	63	51	0	0	48	1.00
835231--835271	21	2.0	21	85	4	57	58	4	2	34	1.32
837066--837090	2	12.5	2	100	0	50	52	0	48	0	1.00
845150--845189	22	1.9	22	90	10	66	30	0	0	70	0.88
848037--848062	2	13.0	2	100	0	52	50	0	0	50	1.00
848553--848668	16	6.6	17	70	18	69	43	3	0	53	1.17
849427--849479	27	2.0	27	84	0	70	32	3	5	58	1.39
849634--849679	5	9.2	5	77	17	51	56	0	2	41	1.11
849631--849680	20	2.5	20	80	9	57	54	0	2	44	1.11
849739--849780	22	1.9	22	85	9	59	35	0	0	64	0.94
849775--849818	19	2.4	18	80	3	52	52	0	0	47	1.00
849922--849960	17	2.3	17	86	0	51	56	2	2	38	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
850579--850620	16	2.6	16	82	17	52	26	0	2	71	0.98
851555--851599	20	2.2	20	84	7	56	55	2	2	40	1.24
853047--853091	20	2.2	20	92	0	72	60	33	4	2	1.29
856272--856345	37	2.0	36	84	7	96	47	0	2	50	1.15
856542--856566	2	12.5	2	100	0	50	48	0	0	52	1.00
856927--856951	2	12.5	2	100	0	50	0	48	0	52	1.00
862651--862716	20	3.3	21	80	16	70	65	0	0	34	0.93
862651--862698	20	2.5	20	90	6	73	66	0	0	33	0.92
862651--862707	19	3.0	20	87	10	75	66	0	0	33	0.92
862674--862744	30	2.2	30	83	16	90	60	0	0	39	0.97

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