genome.fa.s8488.2.7.7.80.10.50.1000.4.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: VEPZ01008488.1 Hibiscus syriacus cultivar Beakdansim tig00111330_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12876159

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   

This is table  4  of  54  ( 6450 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)
877668--877726	7	8.6	7	75	17	61	59	10	16	13	1.61
877668--877726	27	2.1	28	84	9	77	59	10	16	13	1.61
877682--877828	53	2.8	53	72	22	146	56	10	15	17	1.67
880301--880394	49	1.9	49	91	2	154	54	5	9	30	1.55
880339--880432	30	3.2	30	72	19	90	54	5	7	32	1.51
881588--881658	3	24.0	3	79	2	54	57	0	2	39	1.13
881590--881632	12	3.7	12	87	6	61	58	0	4	37	1.19
882080--882183	53	2.0	53	90	0	163	17	30	7	44	1.77
885952--886407	84	5.4	83	79	4	407	26	19	22	31	1.97
885952--886407	168	2.7	168	85	2	569	26	19	22	31	1.97
885952--886407	252	1.8	251	80	6	555	26	19	22	31	1.97
886409--886629	121	1.8	121	90	0	352	26	19	24	30	1.98
886803--886905	43	2.4	43	86	4	145	22	15	32	30	1.95
886531--887237	332	2.1	335	85	4	944	25	17	24	32	1.97
887135--887274	43	3.3	43	88	0	208	22	17	30	30	1.96
887451--887573	64	1.9	63	85	6	160	32	12	20	34	1.89
887836--887920	32	2.7	32	81	0	80	35	27	9	28	1.88
889130--889169	2	20.0	2	94	0	71	50	2	0	47	1.14
893681--893714	14	2.3	15	90	10	61	47	5	5	41	1.52
896533--896616	2	42.0	2	100	0	168	50	0	0	50	1.00
897603--897669	29	2.3	29	81	0	71	38	16	25	19	1.92
897730--897759	2	15.0	2	92	0	51	0	50	3	46	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
897763--897797	6	5.8	6	86	0	52	31	48	17	2	1.61
897781--897841	16	3.7	16	77	4	59	32	59	4	3	1.35
897781--897841	22	2.7	23	77	10	63	32	59	4	3	1.35
898150--898189	21	1.9	21	89	0	62	25	25	17	32	1.97
898867--899059	31	6.3	31	87	1	235	36	21	18	23	1.95
899864--899923	31	1.9	31	86	6	86	38	16	6	38	1.75
908554--908640	40	2.2	39	85	4	120	24	17	26	32	1.97
908566--908651	40	2.2	40	82	2	111	25	16	26	31	1.96
914787--914862	29	2.6	28	79	6	80	38	14	25	22	1.92
916492--916583	30	3.0	30	90	1	139	36	10	11	40	1.77
916665--916721	28	2.1	28	83	3	71	40	7	8	43	1.63
917316--917362	25	2.0	25	83	8	62	72	0	0	27	0.85
917286--917359	29	2.5	31	73	22	77	67	5	0	27	1.12
920320--920367	24	2.0	24	95	0	87	52	33	6	8	1.57
921214--921304	12	7.8	12	72	17	59	47	1	1	50	1.15
921193--921293	19	5.3	18	69	16	62	47	1	1	48	1.24
921246--921303	2	30.0	2	85	13	77	48	1	0	50	1.11
921187--921304	36	3.4	37	74	18	94	48	1	1	48	1.21
921187--921302	28	4.1	29	75	9	107	49	1	1	47	1.22
921190--921339	65	2.2	69	80	9	168	48	3	2	46	1.30
923442--923539	43	2.3	43	87	3	135	38	16	20	24	1.92
925153--925201	21	2.3	21	85	3	62	24	4	51	20	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
928241--928698	228	2.0	230	99	0	902	37	14	11	35	1.83
931806--931846	21	2.0	21	85	0	55	24	7	7	60	1.48
933556--933785	108	2.1	109	79	8	256	19	12	17	50	1.77
936769--936817	3	16.3	3	95	0	89	34	0	0	65	0.93
938855--939192	131	2.6	131	81	2	392	30	9	17	42	1.81
939848--939892	22	2.0	22	83	8	56	44	6	2	46	1.42
942000--942068	29	2.4	30	81	13	76	43	1	2	52	1.25
942035--942113	23	3.3	25	75	17	71	37	2	5	54	1.36
942027--942094	27	2.5	27	81	11	77	38	1	4	55	1.29
942275--942332	11	5.2	11	73	10	55	41	1	0	56	1.09
942268--942351	23	3.7	23	77	7	82	45	1	0	53	1.08
943103--943272	84	2.0	85	93	1	288	38	7	11	43	1.68
944845--944886	20	2.1	20	86	0	57	40	0	21	38	1.53
945762--945805	20	2.3	19	85	11	63	20	25	9	45	1.80
945768--945805	20	1.9	20	94	0	67	21	23	10	44	1.83
946170--946209	19	2.1	19	95	0	71	20	22	17	40	1.92
948179--948473	96	3.1	96	85	2	378	28	12	17	41	1.86
948186--948470	95	3.0	96	85	3	358	29	12	17	41	1.86
953051--953346	97	3.1	96	84	2	335	28	12	18	41	1.86
955584--955753	76	2.2	77	87	3	245	42	7	15	34	1.74
956138--956257	53	2.2	54	87	10	174	30	15	9	44	1.78
958492--958545	25	2.2	25	83	6	65	38	5	1	53	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
958648--958681	16	2.1	17	88	5	52	61	2	17	17	1.46
961785--962038	132	1.9	132	82	2	312	41	14	11	32	1.82
964010--964041	16	2.0	16	93	0	55	18	21	21	37	1.94
964272--964311	20	2.0	20	100	0	80	30	15	20	35	1.93
964276--964319	20	2.2	20	91	0	70	31	18	22	27	1.97
964646--964702	20	2.8	20	83	0	78	29	24	15	29	1.96
964842--964953	42	2.7	41	86	4	161	27	17	25	28	1.98
965097--965183	41	2.1	43	82	8	108	33	17	21	27	1.96
964683--965183	256	2.0	257	92	0	833	31	15	17	34	1.92
966767--966796	2	15.5	2	93	6	53	50	0	0	50	1.00
969891--969928	11	3.3	12	85	10	53	55	2	18	23	1.55
970629--970977	45	7.7	45	90	0	500	39	15	20	24	1.91
975109--975344	131	1.8	131	84	1	330	41	14	11	32	1.81
976057--976091	2	17.5	2	93	0	61	48	0	2	48	1.16
978718--978762	19	2.3	19	84	3	54	44	8	15	31	1.77
982888--982927	21	1.9	21	85	10	55	35	7	2	55	1.42
986808--986838	16	1.9	16	93	0	53	29	12	9	48	1.73
987592--987763	57	3.0	57	85	5	231	29	16	24	29	1.97
987603--987782	57	3.1	56	79	11	195	29	16	23	30	1.96
991586--991623	19	1.9	19	89	5	58	60	5	5	28	1.40
993095--993255	60	2.7	59	78	11	161	57	8	13	21	1.61
993143--993234	29	3.2	29	73	15	75	59	8	13	18	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
993121--993285	59	2.8	58	78	9	156	58	9	11	21	1.60
993092--993269	30	6.0	29	71	11	128	57	7	12	21	1.60
993225--993292	30	2.3	29	80	11	77	60	5	8	25	1.49
993151--993285	59	2.3	59	82	5	157	57	8	11	22	1.59
993196--993288	29	3.2	27	75	11	78	59	6	9	24	1.53
994951--995056	40	2.7	40	87	0	149	26	22	32	18	1.97
995080--995229	43	3.6	42	76	11	146	22	16	32	28	1.95
995080--995268	83	2.3	82	87	2	254	21	15	33	28	1.95
995087--995366	43	6.6	43	68	15	134	24	15	31	28	1.95
995080--995315	83	2.8	85	82	6	214	24	15	32	27	1.95
995169--995461	131	2.2	130	84	1	399	26	16	29	27	1.97
995170--995495	131	2.5	130	82	2	341	25	16	30	27	1.97
998213--998631	209	2.0	209	99	0	820	28	20	15	35	1.93
1000887--1000928	21	2.0	21	95	0	75	26	28	21	23	1.99
1001058--1001157	19	5.4	19	78	13	111	19	26	35	20	1.96
1001043--1001163	54	2.3	54	85	4	183	19	26	33	20	1.96
1001077--1001145	35	2.0	35	91	2	113	18	27	31	21	1.97
1001043--1001169	19	7.0	19	74	19	96	18	26	33	21	1.96
1004833--1004895	30	2.1	30	90	0	99	34	6	17	41	1.75
1004850--1004895	14	3.1	14	76	11	56	36	6	15	41	1.73
1007577--1007644	3	22.3	3	93	3	118	35	0	0	64	0.94
1009445--1009516	21	3.4	21	96	0	126	22	38	30	8	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1011885--1011923	18	2.2	18	86	9	53	66	2	0	30	1.05
1012057--1012304	121	2.0	124	92	3	414	38	8	10	42	1.70
1014456--1014486	14	2.3	14	94	5	55	70	6	0	22	1.09
1014991--1015068	21	3.7	21	78	0	75	30	7	26	34	1.85
1021397--1021434	17	2.2	18	90	4	60	65	2	0	31	1.06
1023302--1023331	14	2.1	14	93	0	51	33	13	10	43	1.77
1024135--1024190	21	2.7	21	94	0	94	26	28	14	30	1.95
1027594--1027676	29	2.8	29	92	1	139	43	9	14	32	1.78
1032345--1032427	29	2.8	29	92	1	139	43	9	14	32	1.78
1035880--1035929	16	3.0	16	77	16	57	76	6	6	12	1.16

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