genome.fa.s7984.2.7.7.80.10.50.1000.6.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: VEPZ01007984.1 Hibiscus syriacus cultivar Beakdansim tig00110429_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12923621

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   63   64   
          65   

This is table  6  of  65  ( 7696 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)
949346--949451	35	3.1	35	76	5	126	33	12	20	33	1.90
949334--949442	33	3.2	33	76	10	130	37	11	18	32	1.87
949500--949563	33	1.9	33	83	0	83	35	14	17	32	1.89
949892--949956	34	2.0	32	84	6	85	35	10	18	35	1.86
951347--951373	2	13.5	2	100	0	54	48	0	0	51	1.00
954209--954261	27	1.9	28	92	3	90	60	7	11	20	1.55
956340--956435	2	48.0	2	95	4	176	48	0	1	50	1.07
956544--956576	12	2.5	13	90	9	50	30	0	0	69	0.88
956811--956883	32	2.3	32	100	0	146	30	8	5	56	1.51
957423--957455	15	2.1	16	88	5	50	63	6	3	27	1.32
957799--957843	21	2.1	22	83	4	56	40	6	0	53	1.27
957798--957846	22	2.2	23	78	10	57	40	6	0	53	1.26
957996--958088	2	46.5	2	97	0	177	49	0	1	49	1.07
959201--959268	3	22.7	3	96	0	127	32	0	1	66	1.01
966362--966412	21	2.4	21	86	0	75	29	13	21	35	1.92
977664--977751	24	3.8	24	92	4	146	27	30	9	32	1.88
994163--994279	59	2.0	59	100	0	234	23	21	15	39	1.91
994688--994782	21	4.5	22	79	7	108	33	17	17	30	1.94
994675--994782	42	2.6	42	82	5	146	34	18	16	30	1.93
994751--994818	20	3.4	19	78	10	73	27	17	23	30	1.97
995465--995504	20	2.0	21	90	5	64	32	7	27	32	1.85
997938--997983	22	2.1	22	87	0	65	52	8	2	36	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1000220--1000290	31	2.3	31	79	13	76	39	2	1	56	1.23
1000360--1000414	23	2.5	21	80	11	65	45	0	1	52	1.11
1007457--1007536	40	2.0	38	85	7	99	33	20	7	38	1.80
1010018--1010278	134	1.9	134	93	3	445	44	9	7	37	1.67
1013973--1014106	30	4.5	30	80	7	139	55	10	14	20	1.68
1013974--1014106	60	2.2	60	88	7	191	55	10	14	19	1.67
1019546--1019572	13	2.1	13	100	0	54	37	14	25	22	1.93
1022416--1022466	2	25.5	2	95	0	93	52	0	0	47	1.00
1023765--1023816	15	3.2	17	72	22	58	36	21	0	42	1.53
1023980--1024081	50	2.0	51	92	1	170	37	6	18	37	1.78
1025753--1025792	21	1.9	21	94	0	71	50	25	0	25	1.50
1027001--1027048	23	2.1	23	92	0	78	39	6	10	43	1.64
1027851--1027897	2	23.5	2	100	0	94	48	0	0	51	1.00
1028019--1028948	81	11.5	81	91	0	1425	31	23	10	34	1.89
1029091--1029199	55	2.0	55	92	0	182	36	15	10	37	1.81
1032679--1032725	21	2.2	21	100	0	94	38	23	10	27	1.88
1034934--1034971	18	2.1	18	85	9	51	63	0	13	23	1.30
1039744--1039805	27	2.3	27	100	0	124	24	29	11	35	1.90
1040012--1040054	22	2.0	23	86	9	63	62	13	9	13	1.53
1040534--1040584	25	2.0	25	85	7	68	5	27	39	27	1.79
1041526--1041568	22	2.0	22	85	0	59	18	11	0	69	1.17
1047363--1047407	17	2.7	16	83	10	54	33	13	17	35	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1050469--1050499	2	15.5	2	100	0	62	51	0	0	48	1.00
1051982--1052021	15	2.7	14	85	11	53	67	2	7	22	1.28
1067933--1068101	65	2.6	65	98	0	320	31	17	16	33	1.93
1072491--1072535	13	3.5	13	93	0	63	13	31	13	42	1.82
1083892--1083964	32	2.3	32	80	0	83	21	24	27	26	2.00
1084374--1084427	26	2.1	26	96	0	99	31	16	7	44	1.75
1089078--1089124	24	2.0	24	100	0	94	46	8	17	27	1.76
1089079--1089131	24	2.2	24	93	0	88	50	9	13	26	1.71
1101284--1101314	11	2.8	11	90	0	53	22	16	25	35	1.94
1111240--1111281	22	1.9	22	100	0	84	40	26	0	33	1.56
1113111--1113169	24	2.5	24	77	5	57	23	11	20	44	1.85
1115281--1115342	24	2.6	24	97	2	117	16	27	27	29	1.97
1117252--1117331	24	3.3	24	83	0	97	23	15	18	42	1.88
1120865--1120987	64	1.9	64	85	3	167	29	8	18	43	1.79
1128726--1128769	21	2.1	21	86	0	61	27	6	2	63	1.31
1131386--1131410	2	12.5	2	100	0	50	52	0	0	48	1.00
1133159--1133240	41	2.0	41	82	2	101	30	3	15	50	1.62
1134760--1135099	131	2.6	130	84	1	466	38	15	12	33	1.85
1136237--1136279	19	2.4	17	81	14	50	11	11	0	76	1.02
1137655--1137714	11	5.1	11	70	21	50	45	6	8	40	1.61
1137631--1137902	37	7.5	37	83	13	347	44	4	8	42	1.55
1137666--1137803	63	2.2	62	81	11	156	44	4	8	42	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1137740--1137803	26	2.5	26	92	0	101	42	3	9	45	1.52
1137666--1137881	100	2.1	104	93	4	377	44	5	8	42	1.56
1137703--1137842	63	2.2	65	92	5	232	44	4	8	42	1.54
1137765--1137902	40	3.6	39	91	7	228	44	5	7	42	1.56
1137926--1137961	18	2.1	17	89	5	54	38	0	5	55	1.23
1137960--1138067	1	108.0	1	77	0	99	12	0	0	87	0.53
1137955--1138066	7	16.1	7	87	11	160	13	0	0	86	0.57
1138142--1138184	21	2.0	22	90	4	70	34	34	20	9	1.85
1139382--1139415	13	2.8	12	87	12	52	14	0	0	85	0.60
1139379--1139422	15	2.8	16	93	6	72	18	0	0	81	0.68
1145128--1145229	37	2.8	37	92	0	168	27	17	18	36	1.94
1145932--1145972	21	2.0	21	95	0	73	26	19	26	26	1.99
1153691--1153765	24	3.0	25	90	7	118	48	0	6	45	1.29
1153691--1153815	26	5.1	26	73	13	113	46	1	6	45	1.38
1153731--1153935	37	5.4	37	71	22	176	45	4	8	41	1.54
1153738--1153838	47	2.2	46	91	3	166	46	2	6	43	1.45
1153804--1153863	11	5.1	11	70	21	50	43	6	10	40	1.64
1153852--1153934	28	2.9	29	82	8	100	46	6	8	38	1.59
1153963--1154021	5	11.2	5	77	22	59	38	0	3	57	1.15
1153951--1154020	7	9.3	7	76	21	54	40	0	2	57	1.14
1153955--1154020	25	2.8	24	81	13	82	39	0	3	57	1.14
1153951--1154020	14	4.6	16	79	20	71	40	0	2	57	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1153956--1154020	23	2.9	23	82	15	75	40	0	3	56	1.15
1153978--1154065	7	12.1	7	76	17	65	29	1	2	67	1.10
1153978--1154065	15	6.1	14	73	18	65	29	1	2	67	1.10
1154028--1154074	22	2.1	23	88	4	69	17	4	2	76	1.04
1161744--1161802	2	31.0	2	90	10	97	50	0	0	49	1.00
1168800--1168832	17	1.9	17	100	0	66	9	6	36	48	1.60
1168908--1168996	9	10.2	8	77	22	83	61	0	1	37	1.03
1168908--1168982	3	25.0	3	82	15	93	64	0	0	36	0.94
1168910--1168996	6	16.6	5	76	21	65	62	0	1	36	1.03
1169123--1169415	105	2.7	104	86	7	399	24	20	15	39	1.91
1169464--1169632	92	1.8	91	91	1	275	23	23	15	37	1.93
1169338--1169872	227	2.4	227	92	1	889	25	21	16	35	1.94
1169691--1169859	92	1.8	92	88	1	259	23	22	15	38	1.92
1169783--1170103	118	2.9	110	85	9	402	23	23	14	37	1.93
1170959--1170996	19	2.0	20	84	5	51	5	21	0	73	1.02
1184164--1184196	17	1.9	17	93	0	57	6	6	39	48	1.53
1184264--1184336	3	24.3	3	82	15	89	67	1	0	31	1.00
1184268--1184348	19	4.4	19	84	10	82	62	1	2	33	1.16
1190462--1190537	30	2.6	29	75	10	73	35	22	28	13	1.92
1190756--1190802	24	1.9	25	91	4	78	38	14	21	25	1.92
1192364--1192512	29	5.1	28	76	8	102	26	8	20	44	1.79
1192438--1192504	30	2.3	29	84	7	82	20	10	23	44	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1193539--1193661	63	2.0	63	96	0	228	34	8	27	28	1.87
1195129--1195247	24	5.0	24	86	4	159	26	14	19	40	1.89
1197284--1197394	29	3.8	29	83	4	134	27	8	19	45	1.79
1197316--1197405	29	3.1	29	84	6	83	23	10	20	46	1.80
1198449--1198571	63	2.0	63	96	0	228	34	8	27	28	1.87
1200040--1200158	24	5.0	24	86	4	159	26	14	19	40	1.89
1202194--1202304	29	3.8	29	83	4	134	27	8	19	45	1.79
1202226--1202315	29	3.1	29	84	6	83	23	10	20	46	1.80
1203362--1203481	63	1.9	63	96	0	222	34	9	27	29	1.88
1204951--1205066	24	4.8	24	85	4	153	27	14	18	39	1.89

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   63   64   
          65