genome.fa.s9462.2.7.7.80.10.50.1000.5.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: VEPZ01009462.1 Hibiscus syriacus cultivar Beakdansim tig00113725_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  20687664

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   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   

This is table  5  of  91  ( 10815 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)
926363--926400	19	2.0	19	94	0	67	34	26	13	26	1.93
933199--933259	16	3.8	15	80	16	61	73	0	1	24	0.92
933242--933268	10	2.7	10	100	0	54	74	0	7	18	1.05
933467--933504	12	3.0	13	84	7	60	42	0	10	47	1.38
933467--933522	25	2.3	23	87	6	76	42	0	16	41	1.48
936302--936326	2	12.5	2	100	0	50	48	0	0	52	1.00
936345--936387	2	22.0	2	95	4	79	48	0	0	51	1.00
937307--937340	14	2.3	15	90	10	52	52	2	2	41	1.31
939218--939266	3	16.7	3	87	4	73	61	0	0	38	0.96
939507--939986	136	3.6	135	87	3	657	26	21	17	35	1.95
940850--940907	7	8.1	7	77	21	50	10	13	0	75	1.04
940861--940908	8	6.5	8	81	13	59	10	10	0	79	0.95
940850--940905	16	4.1	13	74	19	51	10	14	0	75	1.06
951978--952011	14	2.3	15	90	10	52	52	2	2	41	1.31
953866--953908	3	14.7	3	85	4	61	60	0	0	39	0.97
960859--960970	30	3.7	30	74	9	102	19	8	17	54	1.67
960993--961037	12	3.8	12	78	0	54	24	11	20	44	1.83
960964--961035	23	3.1	23	87	2	90	25	12	15	47	1.80
960982--961044	24	2.7	24	85	7	67	23	11	19	46	1.82
960988--961120	70	1.9	70	88	0	203	24	9	19	45	1.80
960984--961137	70	2.2	70	83	0	200	24	11	18	46	1.81
970970--971041	36	2.0	36	97	0	135	40	22	15	22	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
976304--976336	17	1.9	17	93	0	57	45	27	24	3	1.68
978868--979058	97	2.0	98	85	1	258	50	25	9	14	1.72
979214--979244	15	2.1	15	100	0	62	74	0	0	25	0.82
979430--979493	30	2.1	30	82	5	76	9	6	40	43	1.62
979413--979493	24	3.4	23	74	5	81	7	8	41	41	1.63
980314--980620	31	9.7	31	73	13	123	47	4	5	42	1.46
980452--980495	18	2.6	16	82	17	54	47	4	2	45	1.35
980462--980495	15	2.2	16	89	5	52	47	5	2	44	1.42
980376--980567	84	2.3	84	77	13	193	45	5	6	43	1.51
980571--980621	15	3.3	15	71	15	50	50	1	5	41	1.37
980774--980853	13	6.2	13	69	21	51	40	8	10	41	1.70
980764--980954	52	3.6	52	85	2	238	40	9	8	41	1.68
980872--980905	13	2.5	13	90	4	50	41	2	8	47	1.50
980887--980926	20	2.0	20	90	0	62	40	10	5	45	1.60
981432--981473	22	1.9	22	85	0	57	38	21	9	30	1.85
981431--981479	22	2.2	22	77	0	53	42	20	8	28	1.80
982012--982042	16	1.9	16	100	0	62	45	6	0	48	1.28
982101--982869	13	56.6	13	66	22	145	40	5	5	47	1.51
982119--982214	20	4.8	19	70	17	79	45	4	4	45	1.41
982164--982205	18	2.3	18	92	8	68	45	4	4	45	1.45
982182--982265	11	7.3	11	73	21	50	40	3	5	50	1.44
982119--982214	42	2.4	40	81	13	101	45	4	4	45	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
982161--982264	18	5.9	17	71	20	63	42	3	5	48	1.45
982118--982272	9	19.2	8	64	17	54	43	4	4	47	1.44
982118--982272	2	77.0	2	64	17	54	43	4	4	47	1.44
982336--982393	19	3.0	20	77	10	57	34	3	8	53	1.49
982385--982508	31	4.1	30	81	11	137	41	5	6	45	1.53
982441--982501	18	3.7	17	77	20	67	44	4	4	45	1.46
982466--982518	18	2.9	18	81	10	72	43	1	1	52	1.23
982459--982573	49	2.4	48	77	12	128	39	4	5	51	1.44
982599--982766	81	2.0	81	94	2	273	44	5	2	47	1.43
982599--982806	81	2.6	80	87	6	242	43	6	3	46	1.47
982789--982860	18	4.2	17	75	19	78	43	1	5	50	1.34
984606--984638	16	2.1	16	88	5	50	54	12	3	30	1.52
985130--985163	13	2.8	12	86	8	50	26	20	0	52	1.46
987279--987377	21	4.8	20	82	6	101	17	29	34	19	1.94
987300--987377	19	3.9	20	86	5	95	16	28	34	20	1.94
987414--987454	20	2.0	20	100	0	82	14	29	36	19	1.92
988868--988915	19	2.5	20	82	3	62	29	12	6	52	1.63
990195--990270	21	3.7	20	91	3	107	18	31	30	19	1.96
992172--992239	16	4.0	16	72	24	59	70	1	2	25	1.09
992177--992214	20	1.9	19	89	5	58	78	2	0	18	0.86
994016--994072	27	2.1	27	80	6	62	56	14	3	26	1.54
998867--998897	16	1.9	16	93	0	53	32	12	3	51	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1006246--1006285	20	2.0	21	90	5	64	32	22	17	27	1.96
1013109--1013146	10	3.8	10	89	0	58	50	2	5	42	1.39
1015049--1015128	2	41.0	2	95	5	146	50	0	0	50	1.00
1016070--1016140	20	3.5	20	75	17	83	22	12	35	29	1.91
1016044--1016162	41	2.9	40	90	6	177	24	12	35	27	1.92
1016090--1016159	19	3.5	19	72	14	61	24	14	35	25	1.93
1016193--1016244	22	2.5	21	79	11	63	26	17	30	25	1.97
1022855--1022905	12	4.3	12	76	18	54	31	0	1	66	1.03
1022890--1022938	14	3.8	14	69	20	52	42	0	0	57	0.99
1022969--1023027	19	3.1	18	76	16	57	37	0	0	62	0.95
1023475--1023534	31	1.9	31	93	0	102	43	10	6	40	1.64
1035096--1035183	24	3.7	24	84	7	99	22	14	19	43	1.87
1035092--1035190	24	4.2	24	81	10	98	22	14	18	45	1.85
1038852--1038917	25	2.8	24	84	11	82	54	0	1	43	1.09
1041626--1041678	22	2.4	22	75	12	54	32	9	20	37	1.85
1047211--1047244	10	3.4	10	91	0	50	11	41	41	5	1.66
1047211--1047247	15	2.5	15	86	0	56	10	40	40	8	1.70
1047506--1047558	22	2.4	22	75	12	54	32	9	20	37	1.85
1048338--1048383	19	2.3	20	82	10	60	36	0	8	54	1.32
1050031--1050092	23	2.7	23	92	0	97	38	6	20	33	1.79
1050042--1050272	87	2.7	87	92	1	383	42	9	14	32	1.78
1050120--1050179	23	2.6	23	86	0	84	41	6	15	36	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1050207--1050266	23	2.6	23	81	0	66	43	10	15	31	1.79
1050571--1050615	14	3.1	14	81	15	56	42	0	2	55	1.12
1050543--1050666	28	4.7	28	69	20	81	46	0	2	50	1.20
1051177--1051201	2	12.5	2	100	0	50	52	0	0	48	1.00
1051199--1051274	24	2.7	30	67	23	83	59	5	2	32	1.34
1051283--1051351	24	2.9	25	79	18	76	52	2	1	43	1.25
1051367--1051438	28	2.6	28	73	2	74	47	1	1	50	1.18
1051564--1052243	198	3.4	199	88	2	922	38	14	15	31	1.87
1052245--1052434	87	2.2	87	92	1	310	34	14	9	41	1.79
1052329--1052373	23	2.0	23	90	0	72	40	20	6	33	1.78
1056420--1056502	41	2.0	41	80	0	94	54	13	10	21	1.69
1060967--1061025	20	3.0	20	85	5	66	35	5	6	52	1.50
1062201--1062240	20	2.0	21	95	5	73	32	20	20	27	1.97
1064770--1064849	23	3.5	23	87	0	115	17	23	28	30	1.97
1067108--1067165	20	2.7	20	81	10	62	29	20	24	25	1.99
1067850--1067898	2	25.0	2	95	4	91	48	0	0	51	1.00
1068653--1068720	23	3.0	23	97	0	127	19	29	26	25	1.98
1068653--1068743	46	2.0	46	84	0	119	21	27	23	27	1.99
1074838--1074896	23	2.6	23	91	0	91	18	27	27	27	1.98
1074838--1074904	23	2.9	22	88	4	80	19	25	25	29	1.98
1076353--1076403	19	2.7	18	87	6	66	43	3	15	37	1.66
1077938--1077978	20	2.0	21	95	4	75	34	19	19	26	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1080006--1080064	29	2.0	29	96	0	109	35	8	13	42	1.75
1080760--1080786	13	2.1	13	100	0	54	14	14	55	14	1.70
1080875--1080907	10	3.3	10	87	12	50	33	27	0	39	1.57
1081041--1081373	111	3.0	111	96	0	612	36	7	11	44	1.69
1083250--1083303	6	9.5	6	78	11	51	33	18	35	12	1.89
1083256--1083295	21	1.9	21	94	0	71	32	17	37	12	1.87
1083515--1083599	35	2.5	33	78	14	91	25	8	10	55	1.62
1087046--1087083	20	1.9	20	94	0	67	23	34	15	26	1.95
1090957--1090997	8	5.2	8	82	5	57	34	0	29	36	1.58
1091068--1092723	128	12.9	128	93	1	2836	22	24	20	31	1.98

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   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91