genome.fa.s223.2.7.7.80.10.50.1000.5.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  5  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)
862709--862754	21	2.2	21	84	7	58	52	0	0	47	1.00
862726--862778	24	2.3	23	81	12	63	47	0	0	52	1.00
862763--862822	23	2.6	25	82	15	67	60	1	0	38	1.07
862793--862817	13	1.9	13	100	0	50	68	0	0	32	0.90
863382--863422	16	2.5	17	75	25	52	51	0	0	48	1.00
863746--863779	2	17.0	2	87	0	50	44	0	5	50	1.26
864021--864085	10	5.5	13	78	19	63	66	0	0	33	0.92
864020--864151	22	5.6	24	68	17	89	62	0	0	37	1.01
864041--864144	17	6.3	17	73	12	74	62	0	0	37	0.95
864018--864135	32	3.6	32	83	5	139	61	0	0	38	0.96
864039--864151	37	3.0	38	74	24	107	61	0	0	37	1.02
864017--864150	32	4.1	32	78	12	130	61	0	0	38	1.02
864348--864392	23	2.0	22	82	4	54	55	2	0	42	1.12
865506--865567	2	31.0	2	100	0	124	50	0	0	50	1.00
869613--869645	17	1.9	17	88	11	50	39	0	3	57	1.14
872684--872723	2	20.0	2	100	0	80	50	0	0	50	1.00
876799--876852	24	2.1	27	80	16	71	48	1	0	50	1.11
876849--876881	13	2.5	13	95	0	57	60	3	0	36	1.12
876930--876957	2	14.0	2	100	0	56	50	0	0	50	1.00
877293--877350	27	2.1	28	81	9	66	51	10	0	37	1.36
879414--879828	207	2.0	207	100	0	830	29	19	20	31	1.97
880460--880509	2	25.0	2	100	0	100	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)
885527--885552	2	13.0	2	100	0	52	50	0	0	50	1.00
885595--885667	38	1.9	38	82	0	92	32	8	23	35	1.84
887802--887849	18	2.6	19	84	15	66	60	0	0	39	0.97
888389--888428	7	5.3	7	83	16	53	55	0	0	45	0.99
888380--888428	16	3.1	16	82	11	66	55	0	0	44	0.99
889444--889499	2	28.0	2	82	7	69	42	1	3	51	1.29
890633--890662	15	2.0	15	93	0	51	26	36	6	30	1.82
891148--891201	26	2.1	26	82	3	65	53	1	7	37	1.40
891354--891393	20	2.1	19	86	9	55	40	0	0	60	0.97
891352--891398	20	2.7	17	77	22	53	40	0	0	59	0.97
891781--891806	2	13.0	2	100	0	52	50	0	0	50	1.00
892429--892468	21	2.0	20	85	5	53	55	0	0	45	0.99
893698--893722	2	12.5	2	100	0	50	48	0	52	0	1.00
896210--896252	20	2.0	20	86	8	59	41	0	0	58	0.98
900376--900461	29	2.9	29	77	1	73	38	2	1	58	1.19
900981--901038	24	2.3	25	82	11	66	34	0	1	63	1.04
901072--901121	25	2.1	25	85	7	68	54	0	0	46	1.00
901096--901124	15	1.9	15	100	0	58	51	0	0	48	1.00
901338--901377	21	1.9	21	90	10	64	45	17	15	22	1.85
902978--903006	13	2.3	13	94	5	51	82	0	0	17	0.66
903358--903382	4	6.2	4	100	0	50	0	28	0	72	0.86
911228--911262	2	17.5	2	93	0	61	48	0	2	48	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
911512--911536	12	2.1	12	100	0	50	48	16	8	28	1.74
915106--915139	17	2.0	17	88	11	52	41	23	17	17	1.90
915801--915840	2	20.0	2	100	0	80	50	0	50	0	1.00
915896--915939	2	22.0	2	95	0	79	47	2	50	0	1.13
916803--916865	33	2.0	32	84	6	83	31	3	17	47	1.63
917537--917564	13	2.2	13	100	0	56	32	14	14	39	1.86
921192--921260	32	2.2	32	94	0	120	36	20	10	33	1.86
921200--921260	19	3.5	19	68	25	62	36	19	9	34	1.85
925092--925125	8	4.4	8	92	3	52	88	0	11	0	0.52
935650--935691	16	2.6	16	85	7	59	61	0	2	35	1.09
935653--935691	20	2.0	20	85	5	53	61	0	2	35	1.10
937209--937258	24	2.0	25	88	7	75	42	2	0	56	1.11
938252--938281	13	2.2	14	94	5	53	23	0	0	76	0.78
938469--938500	2	16.0	2	100	0	64	0	50	0	50	1.00
938791--938815	11	2.3	11	100	0	50	28	0	8	64	1.22
938885--938938	24	2.2	24	83	6	65	31	3	1	62	1.23
939498--939526	3	9.7	3	100	0	58	31	0	0	68	0.89
939673--939715	20	2.2	20	91	0	68	55	2	0	41	1.12
939662--939726	20	3.0	21	77	13	60	55	1	1	41	1.18
939692--939737	25	1.9	25	82	8	60	58	2	2	36	1.22
940063--940096	12	2.7	13	86	9	52	52	0	0	47	1.00
940796--940831	2	18.0	2	100	0	72	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)
943341--943384	3	14.7	3	100	0	88	65	0	0	34	0.93
949795--949823	15	2.0	15	93	6	51	20	0	0	79	0.74
953800--953873	37	2.0	37	97	0	139	47	14	16	21	1.82
954185--954221	2	18.5	2	100	0	74	51	0	0	48	1.00
957282--957315	17	2.0	17	100	0	68	41	23	0	35	1.55
957324--957350	13	2.1	13	100	0	54	33	7	0	59	1.25
958039--958093	19	2.8	19	81	15	67	43	1	0	54	1.10
958250--958283	17	2.1	16	88	5	50	41	0	0	58	0.98
958292--958329	19	2.1	19	85	9	53	50	0	2	47	1.15
959084--959170	32	2.4	36	72	21	83	47	0	1	51	1.08
959112--959156	17	2.9	15	76	23	56	46	0	0	53	1.00
959972--960083	30	3.7	30	97	0	215	36	26	7	29	1.83
960635--960699	25	2.6	24	74	16	60	49	1	0	49	1.10
962524--962565	21	2.0	21	82	13	52	59	2	2	35	1.23
969835--969887	20	2.6	21	74	20	58	39	0	0	60	0.97
969833--969886	18	2.8	19	83	13	58	42	0	0	57	0.98
970187--970221	16	2.1	16	89	10	52	40	0	0	60	0.97
970175--970225	17	2.8	19	82	14	63	45	0	0	54	0.99
979579--979615	2	18.5	2	100	0	74	0	0	48	51	1.00
982928--982967	2	20.5	2	94	5	73	50	0	0	50	1.00
991672--991701	2	15.0	2	100	0	60	50	0	50	0	1.00
997618--997650	9	3.5	10	84	16	52	39	0	0	60	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
997618--997669	16	3.1	17	86	10	63	44	0	0	55	0.99
997615--997673	16	3.4	17	79	13	59	44	0	0	55	0.99
997736--997799	28	2.3	27	81	5	74	51	0	0	48	1.00
998180--998229	25	1.9	27	84	8	68	48	4	0	48	1.20
999078--999108	1	31.0	1	93	0	53	0	0	3	96	0.21
1001013--1001047	9	3.5	10	88	11	54	51	0	0	48	1.00
1001012--1001046	10	3.7	9	88	11	52	48	0	0	51	1.00
1001414--1001455	16	2.4	18	88	7	61	54	0	0	45	0.99
1001752--1001889	11	12.9	11	64	21	62	57	0	2	39	1.11
1001764--1001834	32	2.2	33	85	7	92	52	0	2	45	1.15
1001729--1001864	44	3.0	42	71	16	103	58	0	1	40	1.07
1001821--1001886	27	2.7	24	80	15	64	63	0	1	34	1.04
1001736--1001885	32	4.7	32	73	12	80	58	0	2	39	1.09
1004733--1004832	17	6.1	17	68	18	52	39	0	1	60	1.04
1004799--1004854	11	4.9	11	73	16	51	50	0	0	50	1.00
1004780--1004857	32	2.5	33	86	14	103	46	0	0	53	1.00
1004781--1004832	13	3.5	14	74	20	52	44	0	0	55	0.99
1005574--1005615	19	2.3	19	83	4	50	42	0	0	57	0.99
1005629--1005675	19	2.3	20	85	7	60	34	0	0	65	0.93
1005629--1005686	20	2.8	20	75	17	57	34	0	1	63	1.04
1009130--1009200	16	4.3	17	75	16	69	52	1	0	46	1.09
1009166--1009200	16	2.2	16	100	0	70	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1010414--1010452	15	2.5	15	84	16	53	74	5	0	20	1.01
1014537--1014565	2	14.5	2	100	0	58	0	48	0	51	1.00
1019428--1019463	17	2.0	19	89	10	58	55	0	0	44	0.99
1019433--1019472	17	2.3	17	86	4	53	62	0	0	37	0.95
1019841--1019921	25	2.9	26	74	22	74	46	1	1	50	1.17
1019837--1019904	16	4.2	17	74	23	58	45	0	1	52	1.09
1019847--1019926	32	2.5	32	86	6	101	46	1	1	51	1.17
1019916--1019955	11	3.5	12	83	10	57	32	0	0	67	0.91
1019886--1019951	23	2.8	24	82	11	73	37	1	0	60	1.06
1021033--1021156	53	2.3	53	97	0	230	25	26	14	33	1.94

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