genome.fa.s190.2.7.7.80.10.50.1000.4.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: VEPZ01000190.1 Hibiscus syriacus cultivar Beakdansim tig00000340_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  14308945

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   56   57   58   59   60   61   62   

This is table  4  of  62  ( 7381 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)
850680--850751	31	2.3	32	85	7	94	30	11	12	45	1.77
851622--851670	18	2.8	17	84	6	62	40	0	2	57	1.10
852272--852296	3	8.3	3	100	0	50	68	0	0	32	0.90
854908--854960	21	2.5	21	93	0	88	30	32	20	16	1.95
854987--855181	42	4.6	42	95	0	354	20	17	25	36	1.94
855273--855305	6	5.5	6	92	0	57	33	48	15	3	1.60
856046--856142	21	4.6	21	75	14	101	34	25	19	20	1.96
856032--856117	42	2.0	42	95	0	154	36	23	18	22	1.95
856032--856142	42	2.6	41	85	5	125	35	23	19	21	1.96
873257--873297	21	2.0	21	85	0	55	26	0	7	65	1.18
877302--877386	41	2.1	41	95	0	152	29	23	21	25	1.99
881962--882002	2	20.5	2	89	0	64	48	4	0	46	1.23
886248--886320	31	2.4	31	95	0	128	26	19	10	43	1.83
892883--893040	60	2.6	60	75	9	142	34	15	5	44	1.69
893062--893116	28	2.0	28	85	7	76	40	7	20	32	1.80
903858--903895	20	1.9	20	88	0	58	55	2	0	42	1.14
903975--904000	2	13.0	2	100	0	52	50	0	0	50	1.00
904248--904306	2	29.5	2	100	0	118	49	0	0	50	1.00
906063--906108	2	23.0	2	100	0	92	50	0	0	50	1.00
906306--906345	21	2.0	20	85	5	53	42	32	0	25	1.55
906958--906992	17	2.0	18	88	5	54	11	0	17	71	1.14
912231--912292	26	2.4	26	73	13	65	32	4	3	59	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
912240--912288	26	1.9	26	84	12	66	36	6	4	53	1.45
912720--912994	37	7.8	34	73	19	133	43	4	6	45	1.49
912721--912999	36	7.9	34	73	17	134	44	3	6	44	1.49
912924--912983	24	2.5	23	74	12	59	41	5	6	46	1.52
912796--913027	68	3.3	71	76	13	237	45	3	6	44	1.46
913047--913077	5	6.2	5	92	0	53	19	3	0	77	0.90
919808--919886	29	2.8	27	78	20	74	55	6	0	37	1.25
925024--925058	2	17.5	2	87	0	52	0	57	0	42	0.99
926082--926131	20	2.4	21	83	3	66	56	12	0	32	1.36
928602--928676	37	2.0	37	82	10	91	49	4	1	45	1.29
933263--933307	21	2.1	21	87	0	63	31	15	6	46	1.72
936051--936089	17	2.3	17	86	0	51	61	2	0	35	1.10
940728--940807	32	2.5	32	79	4	99	28	13	18	38	1.89
942431--942472	19	2.3	19	79	4	50	33	14	0	52	1.42
942985--943014	3	10.0	3	92	0	51	0	30	0	70	0.88
958932--958972	15	2.7	15	88	3	64	53	34	7	4	1.50
963512--963546	2	17.5	2	100	0	70	48	0	0	51	1.00
965055--965199	72	2.0	71	97	1	272	42	4	6	46	1.49
966873--966913	21	2.0	21	90	0	64	26	26	12	34	1.92
968898--968936	18	2.2	17	90	4	60	58	0	0	41	0.98
971935--971960	2	13.0	2	100	0	52	50	0	0	50	1.00
973185--973226	21	2.0	20	86	4	57	52	2	0	45	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
973243--973279	14	2.5	15	83	16	51	48	0	0	51	1.00
973288--973382	34	2.9	34	77	21	103	55	0	1	43	1.06
973365--973420	17	3.2	17	74	16	60	55	0	1	42	1.10
973362--973418	20	3.0	20	70	14	57	54	0	1	43	1.10
973731--973755	2	12.5	2	100	0	50	52	0	0	48	1.00
975934--976023	42	2.1	42	87	0	126	44	11	4	40	1.60
977635--977692	29	2.0	29	82	0	71	17	34	24	24	1.96
977732--977802	10	6.7	10	76	12	61	25	36	26	11	1.90
977749--977836	20	4.2	20	81	8	104	25	31	32	10	1.89
977749--977869	10	11.5	10	70	10	80	26	29	33	9	1.89
977787--977870	33	2.5	33	90	0	123	27	28	34	9	1.88
977877--977932	29	1.9	29	89	7	87	23	30	33	12	1.92
977991--978056	29	2.3	29	92	5	107	21	31	33	13	1.92
979419--979447	2	14.5	2	100	0	58	48	0	0	51	1.00
994122--994241	42	2.9	42	96	0	213	16	20	18	45	1.86
994431--994491	22	2.8	23	82	7	65	47	0	0	52	1.00
994442--994592	31	5.1	30	71	18	97	46	0	1	51	1.14
994456--994569	54	2.1	54	81	12	137	46	0	0	51	1.13
994777--994846	20	3.5	20	96	0	131	35	14	10	40	1.79
994777--994855	40	2.0	40	89	0	122	35	15	8	40	1.78
994829--994910	15	5.5	15	85	2	112	35	18	7	39	1.78
994829--994910	30	2.8	30	90	1	130	35	18	7	39	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
994829--994916	45	2.0	44	93	2	149	32	18	6	42	1.76
1000358--1000538	60	3.1	59	79	9	210	34	20	2	41	1.67
1001099--1001169	29	2.6	25	74	18	70	63	1	7	28	1.29
1001091--1001189	31	3.3	30	78	8	85	57	4	9	29	1.48
1002181--1002250	35	2.0	35	97	0	131	38	20	7	34	1.80
1007366--1007441	30	2.5	30	81	6	100	19	31	11	36	1.88
1012889--1013372	242	2.0	242	97	0	914	40	20	15	22	1.91
1014122--1014370	21	12.0	21	73	13	203	20	19	24	35	1.96
1014122--1014367	42	5.9	41	91	2	343	20	19	24	35	1.95
1014137--1014370	126	1.9	125	92	3	398	20	19	23	35	1.96
1014846--1014871	12	2.2	12	100	0	52	34	30	7	26	1.85
1015084--1015384	42	7.3	42	92	3	497	36	23	18	21	1.95
1015084--1015384	82	3.7	82	94	1	507	36	23	18	21	1.95
1015081--1015409	21	16.0	21	70	12	218	36	23	19	21	1.95
1015418--1015470	21	2.5	21	93	0	88	18	22	30	28	1.98
1015862--1015896	6	5.8	6	100	0	70	31	34	34	0	1.58
1025420--1025466	22	2.1	22	84	0	58	42	0	14	42	1.46
1030058--1030105	23	2.1	23	84	7	62	58	0	0	41	0.98
1031038--1031230	74	2.7	72	83	5	246	35	15	15	33	1.89
1038595--1038708	60	1.9	60	85	0	156	40	19	11	28	1.86
1041438--1041478	21	2.0	21	85	0	55	12	7	14	65	1.45
1051118--1051150	2	16.5	2	93	0	57	48	0	3	48	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1054274--1054304	16	1.9	16	100	0	62	19	9	19	51	1.74
1054401--1054433	16	2.1	16	94	0	57	30	27	15	27	1.96
1055268--1055338	30	2.4	30	97	2	135	32	4	16	46	1.67
1055835--1056022	60	3.2	60	75	4	184	42	4	21	31	1.74
1068202--1068254	10	5.1	10	76	15	54	71	1	1	24	1.06
1069547--1070619	105	10.3	105	90	4	1561	21	18	26	33	1.96
1069547--1070619	205	5.2	205	92	2	1617	21	18	26	33	1.96
1069547--1070619	310	3.4	312	89	5	1553	21	18	26	33	1.96
1071220--1071377	68	2.4	65	82	4	190	36	8	21	33	1.85
1071353--1071632	36	8.0	35	77	11	261	40	13	19	26	1.89
1071301--1071606	137	2.2	137	85	3	402	39	13	18	27	1.89
1071389--1071576	101	1.9	102	87	3	281	40	13	18	27	1.88
1071494--1071674	72	2.5	72	84	4	215	38	14	19	26	1.91
1071490--1071768	36	7.8	35	73	11	126	39	14	18	26	1.90
1072091--1072126	18	2.0	18	94	0	63	44	30	5	19	1.73
1072560--1072622	29	2.2	29	100	0	126	23	14	33	28	1.94
1073212--1073273	20	3.0	21	79	9	65	1	16	6	75	1.08
1073230--1073282	23	2.4	22	84	6	72	0	15	5	79	0.91
1076867--1076921	21	2.5	21	80	14	58	67	0	3	29	1.08
1076828--1076914	45	2.0	45	81	4	106	59	1	4	34	1.25
1078187--1078356	83	2.0	83	100	0	340	42	7	15	35	1.74
1080793--1080831	17	2.2	18	86	4	53	58	0	2	38	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1081372--1081405	17	2.0	17	88	0	50	52	0	0	47	1.00
1081879--1081935	29	2.0	29	92	0	96	43	12	8	35	1.73
1084069--1084276	51	4.0	51	85	8	296	17	18	25	37	1.93
1084291--1084396	51	2.1	51	82	10	128	17	19	24	37	1.94
1084171--1084506	120	2.8	120	87	4	464	20	17	23	38	1.93
1084409--1084487	23	3.2	24	62	28	56	22	13	22	40	1.90
1083979--1084591	171	3.6	170	77	13	626	20	16	24	38	1.93
1084410--1084555	51	2.9	51	92	6	235	21	15	21	41	1.89
1084606--1084720	51	2.3	51	79	0	122	20	18	23	37	1.94
1084460--1084753	162	1.8	162	79	4	342	21	17	23	38	1.93

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   56   57   58   59   60   61   62