genome.fa.s1465.2.7.7.80.10.50.1000.5.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: VEPZ01001465.1 Hibiscus syriacus cultivar Beakdansim tig00002840_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  11160956

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   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   

This is table  5  of  55  ( 6520 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)
787778--787861	28	3.0	28	91	0	132	46	30	0	22	1.52
788328--788420	7	13.3	7	76	0	78	48	29	0	22	1.51
788328--788400	21	3.5	21	94	3	121	47	28	0	23	1.52
788733--788776	23	1.9	23	100	0	88	50	4	0	45	1.22
789050--789100	16	3.2	16	88	0	75	47	13	19	19	1.83
790035--790088	20	2.7	20	85	2	72	33	25	18	22	1.97
790110--790163	21	2.6	21	85	2	65	31	25	18	24	1.97
792828--792890	20	3.2	19	82	13	83	33	25	19	22	1.97
792838--792890	19	2.7	20	82	11	74	35	22	20	20	1.96
793740--793775	8	4.4	8	89	3	54	50	8	2	38	1.47
801161--801203	20	2.2	20	100	0	86	32	11	34	20	1.89
801902--801960	27	2.2	27	84	6	75	42	6	28	22	1.79
810715--810856	70	2.0	70	94	0	248	32	23	18	26	1.97
829454--829770	8	39.2	8	69	21	127	54	3	2	39	1.30
829465--829770	7	42.1	7	70	22	181	53	3	2	40	1.31
829475--829776	52	5.4	55	70	17	128	53	3	2	40	1.31
829454--829775	17	18.7	17	71	20	192	54	3	2	39	1.30
829475--829790	12	25.3	12	72	16	200	52	3	2	40	1.33
829456--829775	5	65.6	5	67	22	139	54	3	2	39	1.31
830689--830728	2	20.0	2	100	0	80	50	0	0	50	1.00
835436--835485	8	6.2	8	77	9	57	40	0	0	60	0.97
835438--835467	15	2.0	15	93	0	51	36	0	0	63	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
835421--835555	73	1.9	70	82	10	166	45	2	0	52	1.13
835464--835582	33	3.6	32	72	23	84	46	3	0	50	1.18
835509--835557	19	2.6	19	74	25	59	51	0	0	48	1.00
836400--836552	21	7.3	21	71	19	122	19	19	24	35	1.95
836406--836552	42	3.5	42	90	3	233	19	19	25	36	1.95
838573--838603	16	1.9	16	93	0	53	6	9	32	51	1.60
840433--840457	11	2.3	11	100	0	50	92	8	0	0	0.40
840764--840794	16	1.9	16	100	0	62	58	22	12	6	1.58
840861--840925	16	4.1	16	91	0	103	53	24	13	7	1.66
841996--842040	14	3.5	14	77	22	62	55	24	11	8	1.63
841996--842048	24	2.2	24	96	0	97	54	22	11	11	1.67
851908--851941	13	2.6	13	85	0	50	11	11	35	41	1.78
852918--852942	2	12.5	2	100	0	50	48	0	0	52	1.00
859558--859621	24	2.6	24	80	9	67	51	15	1	31	1.53
861630--861672	18	2.4	19	84	11	63	53	16	0	30	1.43
867396--867531	64	2.1	65	87	1	193	29	17	23	29	1.97
868196--868221	2	13.0	2	100	0	52	50	0	0	50	1.00
871827--871876	19	2.6	19	90	0	82	34	20	22	24	1.97
874842--874893	16	3.2	17	81	5	54	23	0	1	75	0.91
879198--879372	60	2.9	60	83	1	208	35	20	13	30	1.91
879664--879966	36	8.3	36	75	15	268	28	18	12	40	1.87
879874--879938	21	3.4	21	72	24	79	26	21	10	41	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
879774--879931	78	2.0	79	90	1	246	24	18	12	44	1.84
880036--880400	36	10.2	36	75	9	327	25	19	13	41	1.88
879913--880308	138	3.0	123	80	13	375	26	18	13	42	1.86
880033--880400	73	5.2	72	74	11	335	25	19	13	41	1.88
880033--880365	138	2.4	141	86	5	460	26	19	13	41	1.88
880267--880400	37	3.7	36	83	3	169	24	19	17	38	1.92
880386--880474	33	2.7	33	89	1	142	39	17	10	32	1.84
880896--880949	21	2.5	21	75	3	54	44	5	1	48	1.37
883393--883432	21	1.9	21	85	10	55	30	12	7	50	1.68
885373--885528	64	2.4	64	82	3	197	29	19	21	29	1.98
890511--890567	23	2.8	19	71	19	53	66	7	0	26	1.17
890553--890612	24	2.4	25	81	13	70	56	13	1	28	1.47
891070--891120	21	2.4	21	77	6	59	39	17	17	25	1.92
892649--893139	54	9.1	54	88	0	687	31	18	16	33	1.94
893576--893628	20	2.7	20	80	11	63	24	32	13	30	1.93
906814--906972	21	7.5	21	69	5	77	25	14	22	37	1.92
906915--906987	21	3.4	21	79	9	85	20	15	26	38	1.92
907687--907753	32	2.1	32	88	0	98	32	25	10	31	1.89
908487--908608	2	61.0	2	80	9	124	47	0	4	47	1.27
908583--908663	37	2.2	37	83	16	107	45	2	7	44	1.45
908773--908807	16	2.2	16	89	0	52	31	0	2	65	1.07
909920--909949	15	1.9	16	93	6	53	40	6	13	40	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
914993--915684	134	5.1	134	86	3	960	33	19	18	27	1.96
916373--916455	42	2.0	42	82	2	103	45	18	14	21	1.84
916395--917234	76	10.6	86	84	6	401	41	16	17	23	1.89
916421--916625	42	4.7	44	81	8	242	39	17	18	24	1.91
916548--917248	38	18.3	38	85	4	863	42	16	17	23	1.89
919841--920816	255	3.8	255	90	1	1515	34	18	15	31	1.92
923125--923168	21	2.1	21	86	0	61	56	0	6	36	1.26
926333--926470	72	1.9	72	96	0	258	21	8	26	43	1.81
940799--940839	21	2.0	21	90	0	64	34	26	19	19	1.96
947290--947340	2	25.5	2	100	0	102	49	0	0	50	1.00
948000--948050	14	3.9	14	78	19	65	13	9	15	60	1.58
948005--948051	24	2.0	24	100	0	94	14	8	12	63	1.50
948336--948365	14	2.1	14	93	0	51	3	13	23	60	1.48
948311--948375	24	2.8	24	83	6	80	7	12	21	58	1.59
948444--948486	16	2.7	16	96	0	77	6	11	20	60	1.54
949189--949222	16	2.1	17	88	5	52	38	2	17	41	1.65
954036--954070	18	1.9	18	94	0	61	34	31	17	17	1.93
956295--956391	46	2.1	46	81	7	108	32	9	18	39	1.83
962319--962372	20	2.7	20	91	0	90	25	14	20	38	1.91
962661--962777	47	2.4	48	80	11	114	41	14	20	23	1.89
962951--962991	15	2.8	16	82	14	52	36	0	0	63	0.95
964340--964413	18	3.9	18	83	10	94	27	29	21	21	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
964340--964417	39	2.0	39	92	0	129	28	28	21	21	1.99
969511--969545	18	1.9	18	94	0	61	25	31	22	20	1.98
970268--970330	31	2.0	31	100	0	126	50	6	0	42	1.27
971124--971161	20	1.9	20	88	0	58	23	23	21	31	1.98
973661--973698	19	2.0	20	89	5	60	57	0	0	42	0.98
974177--974220	17	2.6	17	77	0	52	59	0	0	40	0.98
975587--975669	25	3.2	25	66	24	73	59	8	0	32	1.28
975566--975676	52	2.2	52	96	1	206	60	9	0	30	1.28
975587--975673	26	3.4	26	66	19	74	58	8	0	33	1.27
975664--975725	18	3.3	19	76	19	58	62	0	1	35	1.05
975736--975783	23	2.3	20	77	19	53	54	0	0	45	0.99
975721--975835	51	2.2	51	95	3	203	54	1	0	42	1.16
975749--975836	24	3.5	24	84	13	124	53	1	0	45	1.07
975750--975844	12	7.7	12	69	19	70	54	1	0	44	1.07
978331--978376	20	2.3	19	89	10	74	54	10	17	17	1.70
978498--978544	20	2.4	19	82	10	67	53	10	17	19	1.72
978507--978549	20	2.3	19	88	11	63	51	11	16	20	1.75
980788--980852	21	3.1	21	76	14	62	41	15	27	15	1.87
980886--980951	33	2.0	33	87	0	96	27	0	48	24	1.51
982747--982795	19	2.6	19	93	0	80	30	2	10	57	1.43
982914--984084	199	5.9	199	98	0	2236	36	15	16	31	1.91
985548--985600	12	4.4	12	92	0	70	35	7	33	22	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
985560--985613	3	18.0	3	84	0	72	37	3	33	25	1.74
985545--985613	18	4.0	18	79	11	72	37	5	33	23	1.79
985556--985613	12	4.8	12	93	0	80	36	5	32	25	1.78
987038--987924	183	4.8	183	96	0	1612	35	14	16	34	1.89
990723--990786	23	2.8	23	82	0	83	37	6	18	37	1.76
990723--990795	23	3.2	23	78	7	76	35	5	19	39	1.75
990982--991032	25	2.0	25	92	0	84	33	7	19	39	1.81
991420--991456	18	2.1	18	89	0	56	32	5	10	51	1.60
991412--991458	24	2.0	24	86	0	67	34	4	14	46	1.64
991715--991801	39	2.2	39	95	0	156	48	20	13	17	1.81

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   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55