genome.fa.s114.2.7.7.80.10.50.1000.4.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: Scaffold114
Parameters: 2 7 7 80 10 50 1000
Length:  3219552

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

This is table  4  of  13  ( 1458 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)
800189--800223	16	2.2	16	94	0	61	37	14	5	42	1.69
800391--800420	2	15.0	2	100	0	60	50	0	0	50	1.00
801787--801906	38	3.1	38	61	23	88	35	17	12	35	1.88
801773--801893	39	3.1	39	61	23	92	38	14	13	33	1.85
801768--801923	77	2.0	77	100	0	312	35	15	12	35	1.86
813502--813527	2	13.0	2	100	0	52	0	50	0	50	1.00
818530--818603	29	2.6	29	89	8	93	43	2	28	25	1.68
818538--818603	29	2.3	29	97	0	123	43	3	28	24	1.69
821712--821751	2	20.0	2	100	0	80	50	0	0	50	1.00
842056--842097	2	21.0	2	85	9	59	47	0	2	50	1.14
842279--842327	17	2.8	17	84	9	55	61	4	2	32	1.26
843285--843314	14	2.1	15	93	6	53	40	0	0	60	0.97
852652--852689	19	2.1	18	90	5	58	39	0	0	60	0.97
852732--852828	25	4.0	24	68	17	67	45	0	1	53	1.07
852706--852786	33	2.4	34	85	8	103	46	0	1	51	1.08
852743--852813	27	2.7	27	80	6	65	42	0	1	56	1.08
852765--852830	21	3.3	21	68	19	61	40	0	1	57	1.08
853144--853184	21	1.9	22	90	5	66	60	0	0	39	0.96
853129--853199	32	2.2	33	84	5	90	63	1	0	35	1.03
859239--859285	3	15.7	3	95	0	85	29	0	2	68	1.02
866700--866735	18	2.0	18	88	0	54	61	0	0	38	0.96
868417--868459	11	3.6	11	82	14	50	86	0	6	6	0.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
873019--873043	12	2.1	12	100	0	50	36	8	0	56	1.29
874431--874457	2	13.5	2	100	0	54	0	51	0	48	1.00
874738--874762	12	2.1	12	100	0	50	36	16	0	48	1.46
876034--876061	2	14.0	2	100	0	56	50	0	0	50	1.00
876191--876236	24	2.0	23	87	12	67	30	0	4	65	1.12
877435--877500	25	2.8	24	76	19	66	36	0	3	60	1.12
877444--877509	25	2.5	25	83	11	71	39	0	3	57	1.14
877546--877621	14	5.4	14	71	22	54	42	1	1	55	1.16
877555--877633	9	8.9	9	67	22	51	43	1	1	54	1.16
878529--878570	20	2.2	20	86	4	59	61	0	0	38	0.96
878917--878953	14	2.6	15	79	12	51	62	0	0	37	0.96
885507--885538	2	16.0	2	100	0	64	50	0	50	0	1.00
886556--886584	13	2.2	13	100	0	58	44	17	6	31	1.75
887020--887051	2	16.0	2	93	0	55	50	3	46	0	1.17
887407--887452	16	3.0	16	71	12	51	50	0	0	50	1.00
887423--887468	7	6.6	7	80	9	58	47	0	0	52	1.00
887418--887462	21	2.1	21	91	0	72	48	0	0	51	1.00
889101--889140	3	13.3	3	100	0	80	32	0	0	67	0.91
890462--890507	13	3.5	13	84	0	56	54	0	0	45	0.99
890620--890700	41	2.0	41	92	0	135	20	19	20	38	1.94
899578--899603	2	13.0	2	100	0	52	50	0	0	50	1.00
900326--900360	17	2.0	18	88	5	54	37	0	0	62	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
900377--900412	15	2.2	17	90	9	58	58	0	0	41	0.98
900809--900834	6	4.3	6	100	0	52	84	0	0	15	0.62
901250--901284	3	11.7	3	100	0	70	31	0	0	68	0.90
901432--901465	18	1.9	18	88	5	52	50	2	0	47	1.16
903379--903420	22	2.0	22	85	4	59	64	4	0	30	1.14
903579--903652	24	3.4	24	70	24	81	33	6	1	58	1.33
906249--906378	61	2.1	61	95	1	233	46	7	24	21	1.77
917641--917685	16	3.0	15	83	6	56	53	0	0	46	1.00
917712--917738	3	9.0	3	100	0	54	33	0	0	66	0.92
921825--921850	1	26.0	1	100	0	52	0	0	0	100	0.00
929188--929277	15	6.7	14	69	20	59	51	1	0	47	1.08
929938--929966	2	14.5	2	100	0	58	51	0	0	48	1.00
932091--932136	7	5.9	8	78	12	51	36	0	0	63	0.95
932093--932136	17	2.8	16	80	10	54	36	0	0	63	0.95
937214--937248	3	11.7	3	93	0	61	62	0	0	37	0.95
939451--939476	2	13.0	2	100	0	52	50	0	0	50	1.00
943051--943083	15	2.2	15	94	0	57	0	15	3	81	0.80
944529--944553	3	8.3	3	100	0	50	64	0	0	36	0.94
946177--946205	2	14.5	2	100	0	58	51	0	0	48	1.00
952528--952562	17	2.0	18	88	5	54	54	0	0	45	0.99
953128--953152	3	8.3	3	100	0	50	32	32	0	36	1.58
958750--958783	3	11.3	3	100	0	68	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)
959008--959101	38	2.6	36	72	11	93	56	1	0	42	1.06
959052--959107	29	1.9	29	82	7	69	57	1	0	41	1.09
960943--961020	27	2.8	28	78	3	77	55	1	1	42	1.16
961922--961973	17	3.2	17	82	15	58	65	0	0	34	0.93
962532--962588	21	2.7	20	78	10	60	54	0	0	45	0.99
964898--965001	51	2.1	50	98	1	199	48	4	1	45	1.35
971873--971902	15	2.0	15	93	0	51	23	20	10	46	1.80
971947--971981	2	18.0	2	94	5	63	51	0	0	48	1.00
974146--974188	2	21.5	2	95	0	77	51	2	0	46	1.13
978700--978750	25	2.0	25	85	7	68	56	5	3	33	1.42
983185--983216	9	3.7	9	91	8	57	0	9	0	90	0.45
983233--983357	29	4.4	28	71	19	80	54	0	0	44	1.05
983781--983810	2	15.0	2	92	0	51	50	3	0	46	1.18
984962--985005	13	3.5	13	87	9	56	63	0	0	36	0.95
985348--985373	2	13.0	2	100	0	52	50	0	0	50	1.00
986827--986857	3	10.3	3	100	0	62	67	0	0	32	0.91
987608--987632	2	12.5	2	100	0	50	48	0	0	52	1.00
993008--993037	12	2.5	12	100	0	60	13	16	6	63	1.50
995158--995204	19	2.6	17	80	12	58	55	0	0	44	0.99
995157--995232	29	2.6	28	83	6	89	52	0	0	47	1.00
996288--996341	14	3.9	14	78	7	65	50	1	0	48	1.11
996313--996350	19	2.0	19	89	0	58	57	0	0	42	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
996732--996774	23	2.0	23	86	9	63	62	0	0	37	0.95
997259--997291	2	16.5	2	93	0	57	51	0	45	3	1.16
997291--997374	42	2.0	42	100	0	168	23	11	23	40	1.88
1000911--1000945	10	3.4	10	84	7	52	88	0	5	5	0.63
1001337--1001364	3	9.3	3	100	0	56	0	35	32	32	1.58
1006855--1006903	3	16.3	3	86	0	71	30	0	4	65	1.11
1007306--1007355	17	3.0	16	82	5	55	36	4	2	58	1.29
1007981--1008013	14	2.3	15	94	5	59	30	0	0	69	0.88
1009222--1009256	3	11.7	3	100	0	70	65	0	0	34	0.93
1010594--1010635	20	2.0	21	86	4	59	52	0	7	40	1.29
1011195--1011249	28	1.9	28	85	10	76	52	0	0	47	1.00
1011653--1011699	22	2.1	22	84	7	60	59	0	0	40	0.97
1015025--1015070	14	3.1	15	76	20	51	58	0	0	41	0.98
1015025--1015070	21	2.0	23	88	12	69	58	0	0	41	0.98
1015572--1015601	13	2.3	13	94	0	51	0	20	0	80	0.72
1019335--1019640	94	3.2	96	82	12	309	37	11	11	40	1.76
1021148--1021185	19	2.0	19	94	0	67	36	7	0	55	1.29
1028909--1029013	52	2.0	52	98	0	201	34	17	20	28	1.95
1029483--1029540	28	2.0	30	86	6	84	56	6	6	29	1.51
1033609--1033633	2	12.5	2	100	0	50	48	0	0	52	1.00
1034387--1034945	276	2.0	278	89	2	867	46	14	11	27	1.79
1037041--1037074	2	17.0	2	87	0	50	50	0	2	47	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1048033--1048342	104	3.0	104	92	2	513	39	26	11	22	1.88
1052870--1052921	21	2.4	22	81	18	56	57	0	3	38	1.17
1054033--1054058	13	2.0	13	100	0	52	30	0	0	69	0.89
1060101--1060133	13	2.5	13	100	0	66	18	30	15	36	1.91
1066958--1066993	13	2.8	13	91	0	54	69	0	19	11	1.18
1070404--1070431	14	2.0	14	100	0	56	28	28	7	35	1.84
1077266--1077292	2	13.5	2	100	0	54	51	48	0	0	1.00
1084626--1084658	5	6.8	5	93	6	59	81	18	0	0	0.68
1084796--1085109	104	3.0	104	97	0	583	39	25	11	23	1.88
1089646--1089696	21	2.4	22	90	9	79	58	0	1	39	1.09

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