genome.fa.s401.2.7.7.80.10.50.1000.7.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: Scaffold401
Parameters: 2 7 7 80 10 50 1000
Length:  1910012

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

This is table  7  of  13  ( 1464 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)
927922--927982	30	2.0	31	87	3	88	40	0	1	57	1.08
928007--928052	23	2.0	23	87	8	67	50	0	0	50	1.00
929638--929684	22	2.1	22	96	0	85	63	10	12	12	1.52
934315--934351	16	2.3	16	100	0	74	32	8	0	59	1.27
934360--934426	16	4.1	17	75	24	65	44	0	0	55	0.99
934369--934432	32	2.0	33	90	3	103	46	0	0	53	1.00
934382--934438	14	3.8	14	74	17	51	47	0	0	52	1.00
934382--934435	16	3.4	16	72	10	56	50	0	0	50	1.00
937731--937761	16	1.9	16	93	0	53	70	0	0	29	0.87
939190--939225	16	2.2	16	95	0	63	44	5	0	50	1.25
939470--939515	18	2.5	19	89	3	67	39	2	0	58	1.10
939620--939668	12	4.2	12	82	10	66	32	6	0	61	1.21
940225--940288	32	2.0	32	93	0	110	59	6	3	31	1.38
943167--943197	16	2.0	15	93	6	53	35	0	0	64	0.94
943199--943243	17	2.7	16	86	6	54	40	2	0	57	1.11
943282--943368	40	2.2	40	82	10	99	56	1	1	41	1.14
943820--943861	20	2.1	20	86	8	59	59	0	0	40	0.97
945217--945254	18	2.1	19	95	5	69	55	0	0	44	0.99
948305--948347	21	2.0	21	82	8	52	51	0	2	46	1.13
948410--948449	21	1.9	21	85	10	55	42	7	0	50	1.30
948670--948720	18	2.7	18	82	11	59	58	0	0	41	0.98
948732--948793	25	2.6	24	75	14	67	43	1	0	54	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
948907--948976	30	2.4	30	78	2	79	45	0	0	54	0.99
950696--950727	2	16.0	2	100	0	64	50	0	0	50	1.00
951346--951385	19	2.2	19	86	4	55	67	0	0	32	0.91
951369--951461	21	4.4	20	72	18	64	55	2	0	41	1.11
951401--951449	16	3.1	16	76	5	55	59	2	0	38	1.09
951817--951852	18	1.9	19	88	5	56	66	0	0	33	0.92
959644--959689	19	2.3	20	85	3	67	50	0	4	45	1.21
959751--959810	31	1.9	31	86	6	86	43	0	1	55	1.10
962060--962085	2	13.0	2	100	0	52	0	0	50	50	1.00
962094--962128	2	17.5	2	100	0	70	51	0	48	0	1.00
962603--962636	2	17.0	2	100	0	68	50	0	0	50	1.00
962770--962794	11	2.3	11	100	0	50	84	0	16	0	0.63
970424--970458	5	6.8	5	87	6	52	22	0	0	77	0.78
970424--970458	16	2.2	16	90	5	54	22	0	0	77	0.78
976090--976141	16	3.2	16	83	0	68	46	3	0	50	1.20
984148--984189	17	2.3	19	76	12	52	61	0	0	38	0.96
984136--984191	28	2.0	29	86	10	80	60	0	0	39	0.97
984268--984314	16	2.9	16	75	12	51	42	0	0	57	0.98
985071--985129	16	3.9	15	77	8	57	57	0	5	37	1.21
986715--986774	12	4.6	14	75	21	51	46	0	3	50	1.18
987643--987667	9	2.8	9	100	0	50	0	52	0	48	1.00
989495--989560	25	2.7	24	79	9	62	60	1	0	37	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
989491--989550	12	4.8	13	73	22	65	63	0	0	36	0.95
989564--989610	23	2.0	24	87	4	69	31	0	4	63	1.13
990647--990683	2	18.5	2	100	0	74	48	0	0	51	1.00
991177--991219	4	10.8	4	80	9	52	2	25	0	72	0.97
991173--991210	15	2.5	16	87	8	53	0	31	0	68	0.90
992782--992808	2	13.5	2	100	0	54	51	0	0	48	1.00
994662--994703	3	14.0	3	100	0	84	66	0	0	33	0.92
1005238--1005288	16	3.1	15	79	17	57	70	0	0	29	0.87
1005227--1005290	14	4.1	15	70	20	51	64	0	0	35	0.94
1008771--1008826	27	2.0	28	86	3	78	48	12	12	26	1.77
1012003--1012067	27	2.4	27	97	2	123	26	7	13	52	1.67
1016533--1016586	25	2.2	24	90	9	83	29	3	16	50	1.63
1016542--1016614	24	3.0	23	86	6	83	26	4	21	47	1.68
1019163--1019206	23	2.0	22	82	8	54	47	4	2	45	1.35
1019619--1019669	26	2.0	26	96	0	93	37	0	9	52	1.34
1019619--1019689	24	2.8	25	79	12	65	35	1	11	52	1.46
1022073--1022139	32	2.0	34	82	5	84	43	0	1	55	1.09
1022692--1022718	7	3.9	7	100	0	54	70	0	0	29	0.88
1025241--1025297	15	3.8	15	77	15	64	33	0	1	64	1.04
1025231--1025305	14	5.0	15	73	15	66	37	0	1	61	1.05
1025247--1025306	7	8.3	7	77	14	59	38	0	0	61	0.96
1025883--1025943	23	2.7	24	76	16	67	45	11	9	32	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1029652--1029698	9	5.1	9	82	5	58	74	0	2	23	0.93
1029794--1029840	19	2.5	19	82	0	58	38	0	0	61	0.96
1030515--1030542	14	2.0	14	100	0	56	42	0	0	57	0.99
1031347--1031408	28	2.2	28	82	0	70	66	8	1	24	1.28
1031366--1031400	17	2.0	18	88	5	54	71	8	0	20	1.11
1033713--1033746	10	3.4	10	88	12	52	35	0	0	64	0.94
1033721--1033766	22	2.2	20	85	11	58	30	0	0	69	0.89
1033745--1033776	16	1.9	17	93	6	57	31	0	0	68	0.90
1033740--1033778	16	2.4	16	80	16	53	30	0	0	69	0.89
1033807--1033873	11	5.9	11	74	11	55	49	0	0	50	1.00
1033781--1033867	25	3.7	23	70	23	74	47	1	0	51	1.08
1033826--1033873	23	2.0	25	84	8	64	47	0	0	52	1.00
1033781--1033898	51	2.4	49	81	5	130	49	0	0	50	1.06
1033862--1033895	16	2.1	17	88	5	52	55	0	0	44	0.99
1034061--1034182	63	1.9	63	83	3	156	37	17	15	29	1.90
1034588--1034673	16	5.4	16	72	4	75	45	1	0	53	1.07
1034573--1034674	32	3.2	32	87	0	150	42	0	0	55	1.13
1037495--1037541	10	4.9	10	84	7	53	76	0	2	21	0.89
1037493--1037540	19	2.5	19	79	0	60	79	0	2	18	0.84
1037637--1037683	19	2.5	19	82	0	58	38	0	0	61	0.96
1038354--1038381	14	2.0	14	100	0	56	42	0	0	57	0.99
1038926--1038959	17	1.9	18	88	5	52	35	0	0	64	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1038939--1038988	16	3.2	16	70	13	50	40	0	2	58	1.10
1041572--1041618	16	2.6	19	77	22	64	34	0	0	65	0.93
1041582--1041617	16	2.2	17	95	5	65	30	0	0	69	0.89
1041646--1041712	11	5.9	11	74	11	55	49	0	0	50	1.00
1041620--1041706	25	3.7	23	70	23	74	47	1	0	51	1.08
1041665--1041712	23	2.0	25	84	8	64	47	0	0	52	1.00
1041620--1041737	51	2.4	49	81	5	130	49	0	0	50	1.06
1041701--1041734	16	2.1	17	88	5	52	55	0	0	44	0.99
1041894--1042015	63	1.9	63	83	3	156	37	17	15	29	1.90
1042426--1042511	16	5.4	16	72	4	75	46	0	0	53	1.00
1042411--1042512	32	3.2	32	90	0	159	43	0	0	55	1.06
1042441--1042495	10	5.3	11	74	25	57	40	0	0	60	0.97
1042435--1042513	11	7.5	10	69	10	50	43	0	0	56	0.99
1043689--1043741	21	2.5	22	72	12	56	45	0	1	52	1.11
1044475--1044520	21	2.2	21	88	0	65	41	15	0	43	1.46
1044983--1045039	27	2.2	26	81	12	64	57	5	3	33	1.38
1046360--1046406	17	2.8	17	78	12	53	61	0	0	38	0.96
1048280--1048350	20	3.5	20	83	11	90	50	4	2	42	1.36
1048473--1048526	21	2.6	21	79	8	65	55	3	0	40	1.17
1048459--1048524	10	6.1	11	72	15	57	54	4	0	40	1.21
1048678--1048733	20	2.8	19	78	8	58	62	0	1	35	1.06
1048678--1048744	21	3.2	20	73	12	64	65	1	1	31	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1048780--1048842	25	2.6	25	92	2	101	44	1	3	50	1.27
1050913--1050968	26	2.1	27	83	3	69	48	0	0	51	1.00
1051595--1051628	15	2.2	16	90	10	54	38	0	0	61	0.96
1051605--1051664	19	3.1	19	71	9	50	35	0	0	65	0.93
1058901--1059002	50	2.0	50	100	0	204	64	7	3	23	1.37
1059360--1059389	2	15.0	2	100	0	60	50	0	0	50	1.00
1060633--1060736	52	2.0	52	87	10	151	53	4	0	41	1.22
1060969--1061008	17	2.3	18	86	4	55	40	0	0	60	0.97
1061030--1061066	19	2.0	18	89	5	56	32	0	0	67	0.91
1074545--1074588	20	2.1	21	88	12	65	38	0	2	59	1.10

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