genome.fa.s63.2.7.7.80.10.50.1000.6.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: Scaffold63
Parameters: 2 7 7 80 10 50 1000
Length:  2211945

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   

This is table  6  of  16  ( 1834 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)
885824--885978	78	2.0	78	96	0	283	48	1	5	43	1.38
885833--885955	37	3.2	36	70	20	106	48	1	4	44	1.33
885968--886000	15	2.2	15	94	0	57	48	0	0	51	1.00
886221--886293	22	3.4	22	75	14	71	54	0	0	45	0.99
886847--886891	16	2.8	16	89	3	63	48	0	0	51	1.00
888023--888061	14	2.8	14	84	0	51	56	0	0	43	0.99
888463--888556	49	1.9	48	81	10	111	47	1	1	50	1.15
888484--888560	17	4.7	16	70	25	54	50	0	1	48	1.09
890309--890333	12	2.1	12	100	0	50	0	8	0	92	0.40
891183--891229	22	2.1	22	84	7	60	38	0	2	59	1.09
891194--891260	28	2.4	28	73	11	75	47	0	0	52	1.00
891985--892026	22	2.0	21	81	13	50	59	0	0	40	0.97
892240--892298	5	12.0	5	71	10	50	45	1	0	52	1.10
892839--892878	18	2.3	19	83	12	50	40	0	5	55	1.22
892999--893040	18	2.3	18	80	19	52	42	0	0	57	0.99
893003--893040	17	2.2	18	86	13	53	42	0	0	57	0.98
893027--893111	44	1.9	45	83	7	111	35	1	0	63	1.02
893068--893114	13	3.6	13	75	8	51	31	0	0	68	0.90
893363--893423	27	2.3	27	80	5	70	54	0	0	45	1.00
895239--895276	18	2.1	18	90	0	58	44	0	0	55	0.99
897368--897401	17	2.0	17	88	11	52	41	2	11	44	1.56
897828--898474	323	2.0	323	99	0	1267	29	19	15	35	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
899856--899904	20	2.5	20	76	6	55	57	2	8	32	1.40
900683--900802	35	3.3	34	70	17	107	40	10	2	45	1.52
900710--900768	31	1.9	31	85	0	82	35	13	5	45	1.66
900664--900811	74	2.0	74	94	0	260	39	12	3	45	1.58
900898--901212	63	5.0	63	71	16	228	49	7	3	39	1.48
901013--901109	31	3.0	31	76	16	99	45	6	3	45	1.44
901035--901101	31	2.2	31	97	2	127	49	2	2	44	1.32
900761--901152	157	2.5	155	69	16	353	48	8	2	41	1.44
901110--901212	34	3.2	33	67	13	88	51	9	3	34	1.53
901096--901227	63	2.1	64	88	1	194	47	9	3	40	1.51
901249--901278	10	3.0	10	90	0	51	43	0	0	56	0.99
901249--901288	20	2.0	20	85	0	53	52	0	0	47	1.00
901595--901638	18	2.5	19	85	14	67	40	0	0	59	0.98
901580--901642	33	2.0	33	84	12	87	41	0	0	58	0.98
901591--901642	15	3.2	16	82	15	63	38	0	0	61	0.96
901595--901650	19	3.1	18	82	7	60	39	0	0	60	0.97
912223--912260	20	1.9	20	89	10	60	36	0	0	63	0.95
917311--917381	22	3.1	22	84	13	83	38	0	0	61	0.96
917318--917382	24	2.7	25	79	18	75	36	0	0	63	0.95
917339--917389	24	2.2	22	86	13	68	41	0	0	58	0.98
917439--917468	15	2.1	15	93	6	53	43	0	0	56	0.99
921038--921092	17	3.3	17	78	14	60	27	0	7	65	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
921032--921092	16	3.8	16	79	12	63	27	0	6	65	1.17
921031--921092	33	1.9	33	86	3	90	27	0	6	66	1.16
921323--921391	32	2.2	31	85	10	88	42	1	0	56	1.08
925269--925342	35	2.1	35	85	5	96	32	4	2	60	1.29
926594--926629	17	2.1	17	89	0	54	41	0	0	58	0.98
927295--927328	7	4.9	7	92	0	50	38	0	5	55	1.24
927370--927498	64	2.0	64	92	0	213	37	10	10	41	1.74
927855--927922	16	4.1	17	71	19	63	44	0	0	55	0.99
934581--934614	16	2.1	16	100	0	68	32	23	26	17	1.97
935520--935569	25	2.0	25	100	0	100	20	16	28	36	1.93
936703--936742	20	2.0	20	85	0	53	20	0	2	77	0.88
936810--936890	42	1.9	42	100	0	162	49	9	0	40	1.36
936815--936899	23	3.8	24	73	19	94	48	8	0	43	1.33
939747--939847	25	3.7	30	76	18	80	46	0	0	53	1.00
939755--939816	13	4.2	16	71	19	55	43	0	0	56	0.99
939798--939851	25	2.1	26	93	6	92	55	0	0	44	0.99
941267--941309	14	3.0	14	86	10	52	67	0	0	32	0.91
941499--941560	19	3.1	21	69	19	60	58	0	1	40	1.08
943414--943667	128	2.0	128	88	3	377	25	13	14	46	1.81
947074--947131	26	2.3	26	90	3	91	20	25	6	46	1.75
948378--948421	2	22.0	2	90	0	70	4	45	0	50	1.22
961869--961911	2	21.0	2	85	4	59	6	46	0	46	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
970347--970600	128	2.0	128	88	3	377	25	13	14	46	1.81
974006--974063	26	2.3	26	90	3	91	20	25	6	46	1.75
975310--975353	2	22.0	2	90	0	70	4	45	0	50	1.22
985362--985386	9	2.8	9	100	0	50	48	0	0	52	1.00
985993--986020	3	9.3	3	100	0	56	64	0	0	35	0.94
986324--986371	17	2.7	19	75	15	57	45	2	0	52	1.12
986349--986495	72	2.1	69	82	7	170	33	8	6	51	1.58
988078--988485	135	3.0	136	90	3	651	33	13	19	33	1.90
992639--992678	21	1.9	21	94	0	71	15	17	7	60	1.57
994203--994241	17	2.3	17	95	0	69	58	0	0	41	0.98
994747--994808	23	2.5	25	79	15	74	38	0	0	61	0.96
994748--994805	24	2.4	24	82	8	73	37	0	0	62	0.96
999335--999383	20	2.7	17	74	17	53	42	0	0	57	0.99
999414--999487	17	4.3	17	70	27	50	39	4	1	55	1.27
999740--999780	16	2.6	16	84	0	55	41	0	0	58	0.98
999750--999814	17	3.8	17	78	11	62	41	0	0	58	0.98
999741--999800	19	3.0	20	72	22	54	43	0	0	56	0.99
999787--999838	22	2.4	21	90	6	86	34	0	0	65	0.93
1001104--1001153	15	3.1	17	72	13	52	50	0	0	50	1.00
1001137--1001191	27	2.1	27	87	9	80	49	0	0	50	1.00
1001181--1001238	29	2.0	29	83	12	75	58	0	0	41	0.98
1004234--1004270	18	2.1	18	94	0	65	32	2	2	62	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1004970--1005021	24	2.2	24	82	6	61	38	0	0	61	0.96
1005051--1005126	38	2.0	37	87	7	109	56	0	0	43	0.99
1007328--1007376	19	2.6	19	93	0	80	34	20	0	44	1.52
1012084--1012146	28	2.2	29	82	2	83	34	0	0	65	0.93
1012086--1012149	25	2.7	26	77	18	68	35	0	0	64	0.94
1012383--1012424	20	2.0	22	86	13	63	54	4	0	40	1.21
1012425--1012450	12	2.2	12	100	0	52	53	7	0	38	1.30
1012543--1012582	19	2.1	18	86	9	53	50	2	0	47	1.14
1019328--1019369	21	2.0	21	86	9	59	52	0	0	47	1.00
1020151--1020199	22	2.2	23	85	3	64	32	4	2	61	1.26
1021155--1021193	17	2.3	18	86	8	55	71	0	5	23	1.05
1021620--1021653	16	2.1	16	88	0	50	44	11	5	38	1.65
1021640--1021669	2	15.5	2	93	6	53	50	0	0	50	1.00
1023288--1023317	2	15.0	2	100	0	60	50	0	0	50	1.00
1023651--1023714	20	3.0	22	74	25	66	46	0	0	53	1.00
1023652--1023700	16	2.9	16	76	23	55	46	0	0	53	1.00
1023669--1023717	22	2.1	23	85	14	66	48	0	0	51	1.00
1024842--1024876	17	2.1	17	88	0	52	40	11	14	34	1.82
1025749--1025892	19	7.4	19	67	20	57	41	2	0	55	1.16
1028990--1029031	10	3.8	11	80	20	52	40	0	0	59	0.97
1028979--1029053	26	3.0	25	83	15	93	38	0	0	61	0.96
1029771--1029818	20	2.3	21	85	3	62	41	4	2	52	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1034368--1034433	33	2.1	32	88	8	100	50	0	3	46	1.16
1034814--1034892	6	13.2	6	94	0	122	44	0	5	50	1.24
1034814--1034892	10	7.9	10	92	0	122	44	0	5	50	1.24
1038096--1038150	18	3.1	18	74	10	51	10	40	7	41	1.68
1038119--1038156	12	3.2	12	92	0	58	10	39	5	44	1.61
1043531--1043565	2	17.5	2	100	0	70	51	48	0	0	1.00
1046767--1046805	18	2.2	18	86	9	53	43	12	0	43	1.42
1047821--1047878	26	2.1	27	84	6	73	41	5	0	53	1.23
1047944--1047977	12	2.8	12	90	4	50	61	0	2	35	1.11
1050117--1050144	2	14.0	2	100	0	56	50	0	0	50	1.00

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16