genome.fa.s8242.2.7.7.80.10.50.1000.59.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: VEPZ01008242.1 Hibiscus syriacus cultivar Beakdansim tig00110890_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  16962412

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   

This is table  59  of  73  ( 8740 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)
13635719--13635757	20	1.9	21	85	15	55	33	28	10	28	1.90
13642430--13642482	19	2.7	19	82	2	61	33	16	11	37	1.85
13647480--13647524	2	22.5	2	100	0	90	0	0	48	51	1.00
13648227--13648270	21	2.1	21	82	0	52	31	2	9	56	1.43
13648868--13648951	21	4.0	21	84	0	114	15	26	39	19	1.91
13651730--13651771	21	2.0	21	95	0	75	19	28	35	16	1.93
13652490--13652680	84	2.3	83	89	5	278	39	2	7	50	1.45
13655653--13655729	22	3.3	22	65	28	59	44	0	10	45	1.38
13655578--13655973	49	8.3	49	90	4	537	41	0	11	46	1.42
13655898--13655964	21	3.2	21	72	17	59	43	0	7	49	1.31
13655985--13656188	26	8.0	26	88	2	279	47	1	6	44	1.41
13656315--13656356	17	2.5	17	80	0	57	40	0	2	57	1.12
13658712--13658760	22	2.2	22	96	0	89	38	12	0	48	1.41
13658704--13658811	30	3.9	29	77	20	122	44	11	0	43	1.46
13659009--13659048	21	1.9	21	94	0	71	60	15	0	25	1.35
13659233--13659297	28	2.3	29	82	10	82	46	15	1	36	1.55
13659362--13659410	21	2.3	20	83	16	64	59	16	0	24	1.37
13658767--13659423	348	1.9	343	85	8	900	47	12	1	38	1.51
13659384--13659468	39	2.2	39	97	0	161	42	16	2	38	1.61
13659492--13659529	9	4.2	9	83	10	51	65	2	0	31	1.06
13662560--13662592	16	2.1	16	94	0	57	78	0	9	12	0.95
13670951--13671148	98	2.0	97	99	0	387	38	13	23	24	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13681270--13681369	45	2.2	46	82	7	123	29	8	22	41	1.82
13681673--13681779	55	1.9	55	86	3	153	42	14	22	20	1.87
13685718--13685978	125	2.1	125	82	1	326	33	16	26	22	1.95
13687238--13687395	36	4.3	37	85	2	194	32	20	18	27	1.97
13687238--13687405	73	2.3	72	81	4	194	33	20	19	26	1.97
13687803--13688831	54	18.8	54	87	2	1211	33	17	22	25	1.96
13687803--13688831	109	9.4	110	87	3	1292	33	17	22	25	1.96
13688793--13688933	45	3.2	45	95	2	266	30	16	24	29	1.96
13688882--13689240	55	6.7	55	85	5	423	30	13	25	30	1.94
13688838--13689270	106	4.1	107	81	7	451	30	13	24	31	1.94
13688888--13689316	106	4.0	106	82	5	267	29	14	25	29	1.95
13689501--13689662	3	53.7	3	90	3	254	35	1	0	62	1.06
13699791--13699864	32	2.3	32	84	9	89	43	17	14	24	1.87
13705047--13705072	2	13.0	2	100	0	52	50	0	0	50	1.00
13706408--13706447	21	1.9	21	89	0	62	27	17	17	37	1.92
13709130--13709159	14	2.1	15	93	6	53	63	10	0	26	1.26
13709207--13709243	18	2.0	18	89	5	56	75	0	2	21	0.92
13709222--13709316	47	2.0	47	91	0	154	60	5	7	27	1.45
13709821--13709861	19	2.2	19	86	8	57	68	12	0	19	1.21
13709988--13710096	54	2.0	54	96	0	200	57	2	16	22	1.52
13711142--13711221	30	2.6	29	84	9	88	46	5	8	40	1.57
13711698--13711755	24	2.6	23	76	13	59	50	3	0	46	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13712009--13712047	15	2.6	16	80	12	55	30	0	2	66	1.05
13712004--13712051	20	2.2	23	85	10	66	37	0	2	60	1.09
13712009--13712068	8	7.6	8	70	10	52	35	0	3	61	1.12
13712042--13712100	17	3.4	17	74	11	57	40	0	5	54	1.23
13712061--13712159	32	2.9	32	76	13	85	45	1	2	51	1.19
13712150--13712201	27	1.9	27	92	7	88	40	3	0	55	1.18
13712222--13712271	24	2.1	24	88	7	75	44	0	0	56	0.99
13722336--13722570	117	2.0	117	100	0	470	33	34	5	26	1.79
13729700--13729737	2	19.5	2	94	5	69	50	0	0	50	1.00
13731906--13731950	21	2.1	21	87	0	63	31	15	6	46	1.72
13738252--13738319	20	3.4	20	100	0	136	61	0	0	38	0.96
13744554--13744611	19	3.0	20	80	10	75	29	17	31	22	1.96
13745293--13745531	39	6.3	36	77	19	181	43	2	8	45	1.49
13745305--13745538	38	6.1	38	81	11	248	42	2	8	46	1.48
13747507--13747586	29	2.8	28	70	17	74	37	21	23	17	1.94
13758976--13759006	14	2.2	14	100	0	62	35	0	25	38	1.56
13760801--13760842	11	3.5	12	79	20	52	38	0	0	61	0.96
13761904--13761979	19	3.9	20	70	16	52	21	5	1	72	1.12
13765712--13766419	106	6.7	106	93	0	1184	34	25	18	20	1.96
13766817--13766846	15	2.0	15	93	0	51	30	20	10	40	1.85
13766804--13766879	36	2.1	37	90	2	118	28	18	13	39	1.88
13767354--13767383	3	10.0	3	92	0	51	33	3	0	63	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13768848--13768908	23	2.5	24	81	13	70	18	3	1	77	0.99
13768875--13768925	7	7.4	7	76	12	52	21	0	0	78	0.75
13768878--13768925	4	12.8	4	75	20	50	22	0	0	77	0.78
13776960--13777020	18	3.5	18	69	15	56	29	0	4	65	1.13
13778172--13778219	3	15.7	3	91	4	51	25	0	8	66	1.19
13778316--13778451	64	2.1	64	94	0	245	36	36	12	15	1.85
13778997--13779025	12	2.3	13	94	5	51	62	6	27	3	1.37
13780063--13780148	20	4.2	20	70	2	73	33	18	19	27	1.96
13780139--13780188	20	2.5	20	90	6	75	48	20	12	20	1.80
13780176--13780249	20	3.7	19	79	15	78	32	25	12	29	1.92
13781036--13781069	12	2.8	12	90	0	50	55	29	0	14	1.40
13781195--13781248	24	2.2	24	87	6	74	22	14	18	44	1.86
13782280--13782314	16	2.2	16	100	0	70	28	17	25	28	1.97
13783531--13783566	6	6.0	6	86	0	54	61	19	2	16	1.47
13783533--13783579	12	3.9	12	82	0	58	53	25	4	17	1.62
13783788--13783839	20	2.6	21	87	6	72	42	15	13	28	1.85
13783897--13783938	20	2.1	20	90	0	66	21	16	21	40	1.91
13785368--13785404	19	1.9	19	94	0	65	27	18	32	21	1.97
13785814--13785863	21	2.4	21	82	0	64	34	34	14	18	1.90
13787486--13787538	20	2.7	19	85	8	79	49	22	15	13	1.79
13787909--13787966	22	2.6	22	80	0	80	17	15	44	22	1.86
13788141--13788235	20	4.8	20	88	0	127	22	15	21	41	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13788153--13788259	20	5.3	20	80	3	117	26	15	21	36	1.94
13788245--13788366	20	6.0	21	71	4	70	29	14	27	28	1.95
13795437--13795491	28	2.0	28	92	0	92	38	3	10	47	1.56
13798520--13798633	42	2.7	42	77	11	117	50	2	16	29	1.59
13798587--13798827	130	1.9	127	82	7	299	49	8	17	24	1.74
13798560--13798840	43	6.6	44	75	8	206	50	7	17	24	1.72
13798719--13798836	41	2.8	42	79	5	123	50	7	16	25	1.72
13798719--13798849	42	3.1	41	77	8	106	51	7	16	24	1.71
13798866--13798898	10	3.4	10	87	4	50	69	0	0	30	0.88
13799143--13799167	11	2.3	11	100	0	50	8	32	24	36	1.84
13801064--13801155	8	11.5	8	72	17	68	15	36	23	23	1.93
13801059--13801093	13	2.7	13	100	0	70	17	48	22	11	1.79
13801097--13801145	15	3.1	15	94	5	80	12	32	24	30	1.92
13801097--13801135	7	5.3	7	88	11	60	12	30	25	30	1.93
13802426--13802461	18	2.0	18	88	0	54	52	0	16	30	1.44
13803604--13803650	24	2.0	24	91	0	76	25	17	21	36	1.94
13804652--13804698	22	2.1	22	84	7	60	34	0	2	63	1.06
13805846--13805870	13	1.9	13	100	0	50	24	12	16	48	1.79
13806242--13806288	2	24.0	2	95	4	87	48	0	0	51	1.00
13806487--13806516	13	2.3	13	94	0	51	26	3	0	70	1.03
13811766--13812154	86	4.6	84	82	3	431	33	20	18	26	1.96
13814474--13814527	24	2.2	26	78	18	62	18	11	1	68	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13820846--13821240	43	9.2	43	83	4	440	33	19	20	26	1.96
13820846--13821240	170	2.3	170	85	5	526	33	19	20	26	1.96
13826123--13826175	3	18.3	3	77	14	58	69	0	0	30	0.88
13826121--13826175	8	6.8	8	80	12	58	70	0	0	29	0.87
13826506--13826670	84	2.0	84	85	2	224	26	20	21	32	1.98
13826668--13826787	33	3.6	33	93	4	197	30	9	19	41	1.82
13826742--13826949	67	3.0	68	79	13	192	37	12	20	29	1.90
13826854--13826924	21	3.7	20	71	23	62	38	11	21	29	1.88
13826840--13827126	36	8.1	36	79	11	299	38	12	20	27	1.89
13826875--13827126	136	1.8	138	88	3	384	38	12	20	28	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   66   67   68   69   70   71   72   73