genome.fa.s9462.2.7.7.80.10.50.1000.71.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  71  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)
15976674--15976720	24	2.0	24	91	8	78	42	12	12	31	1.81
15981018--15981466	58	7.8	58	83	4	570	36	19	10	33	1.86
15981018--15981466	111	3.9	114	84	4	539	36	19	10	33	1.86
15981055--15981466	169	2.4	169	86	2	583	35	19	10	33	1.87
15981855--15981934	34	2.4	34	93	0	133	23	12	17	46	1.82
16005472--16005521	24	2.1	24	100	0	100	24	30	14	32	1.94
16012082--16012121	21	2.0	20	85	5	53	30	17	17	35	1.93
16019268--16019320	22	2.4	22	100	0	106	20	3	30	45	1.69
16022156--16022292	69	2.0	69	88	0	202	45	13	15	25	1.83
16030533--16030573	22	1.9	22	85	5	57	24	24	26	24	2.00
16030601--16030645	10	4.5	10	85	0	54	28	17	2	51	1.58
16031110--16031234	44	2.9	38	92	3	106	32	24	7	36	1.82
16031002--16031253	45	5.6	45	93	1	375	31	21	7	38	1.82
16031358--16031508	40	3.8	40	96	0	275	33	29	14	23	1.94
16032942--16033060	7	16.9	7	72	19	79	1	15	2	79	0.91
16032942--16033064	24	5.0	24	77	18	119	1	16	2	79	0.91
16032942--16033061	41	2.9	40	83	8	134	1	15	2	80	0.91
16032943--16033039	28	3.2	29	76	20	94	0	17	3	79	0.86
16032942--16033064	38	3.3	35	77	17	106	1	16	2	79	0.91
16032942--16033061	49	2.4	50	79	14	133	1	15	2	80	0.91
16032942--16033061	13	9.4	12	71	24	86	1	15	2	80	0.91
16047392--16047431	21	1.9	21	89	0	62	25	22	27	25	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16047827--16047990	45	3.7	45	91	2	260	29	20	7	41	1.81
16048095--16048228	40	3.3	40	90	2	207	35	26	16	21	1.94
16052736--16052782	20	2.4	20	85	3	60	38	0	21	40	1.53
16060149--16060205	29	2.0	29	92	0	96	36	14	26	22	1.92
16068524--16068568	2	22.5	2	100	0	90	48	0	0	51	1.00
16080451--16080511	31	2.0	30	93	3	104	39	26	16	18	1.91
16083938--16084337	49	8.2	49	84	3	403	35	12	21	30	1.91
16083967--16084351	147	2.6	147	82	0	457	35	13	20	30	1.91
16086070--16086127	21	2.8	20	73	19	55	48	20	1	29	1.60
16086175--16086227	7	7.6	7	82	0	52	50	30	1	16	1.56
16086171--16086214	21	2.1	21	86	0	61	52	29	2	15	1.55
16086874--16086936	31	2.0	31	96	0	117	28	26	19	25	1.98
16088234--16088321	23	3.8	23	81	4	97	28	22	23	25	1.99
16088350--16088409	31	2.0	31	83	9	79	28	11	18	41	1.85
16088725--16088801	41	1.9	41	94	2	138	29	15	19	35	1.93
16088725--16088824	41	2.4	41	86	6	123	28	14	19	39	1.90
16091048--16091343	43	7.0	43	79	5	307	25	22	17	33	1.96
16091048--16091343	85	3.5	84	82	5	326	25	22	17	33	1.96
16091323--16091363	19	2.1	20	90	4	66	26	24	12	36	1.91
16093961--16094003	21	2.0	22	86	13	63	23	4	2	69	1.18
16104765--16104835	36	1.9	37	86	8	101	23	29	19	26	1.98
16107962--16107999	18	2.1	18	100	0	76	34	10	5	50	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16108311--16108381	36	2.0	36	86	5	99	25	28	18	28	1.98
16108420--16108461	21	2.0	21	90	0	66	30	21	26	21	1.98
16112985--16113013	10	2.9	10	100	0	58	62	10	0	27	1.28
16114434--16114517	42	2.0	42	86	2	116	34	25	17	22	1.96
16114446--16114531	42	2.0	42	86	0	118	36	19	17	26	1.94
16114536--16114822	74	3.9	73	79	8	332	41	15	11	31	1.83
16120953--16120991	20	2.0	20	85	10	53	43	5	25	25	1.75
16124832--16124890	21	2.9	19	83	11	73	32	11	28	27	1.92
16125366--16125750	54	7.1	54	84	3	461	34	18	17	28	1.94
16125365--16125750	108	3.6	108	88	2	526	34	18	17	28	1.94
16125361--16125741	162	2.4	162	86	1	514	34	18	17	29	1.94
16131216--16131620	54	7.5	54	87	3	539	36	19	15	27	1.93
16131216--16131690	162	2.9	162	85	3	485	36	19	15	29	1.92
16132750--16132890	7	20.1	7	98	0	273	0	56	0	42	1.04
16133446--16133476	16	1.9	16	93	0	53	74	6	0	19	1.03
16133713--16134679	243	4.0	241	87	1	1287	36	16	15	31	1.91
16134102--16134197	42	2.3	41	77	10	106	32	22	20	23	1.98
16134339--16134389	21	2.5	21	80	3	68	35	23	17	23	1.95
16144561--16144600	21	2.0	20	95	5	71	30	12	17	40	1.86
16155057--16155108	20	2.5	20	81	9	61	78	0	7	13	0.94
16155059--16155092	5	6.6	5	86	6	50	76	0	5	17	0.98
16165542--16165570	3	9.7	3	100	0	58	68	0	0	31	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16166389--16166509	63	1.9	63	93	0	206	61	9	11	16	1.55
16169243--16169281	20	2.0	19	85	5	51	56	0	0	43	0.99
16170270--16170341	3	24.3	3	97	2	137	33	0	0	66	0.92
16173592--16173637	24	1.9	24	82	8	58	30	15	23	30	1.95
16178916--16178950	18	1.9	18	94	0	61	20	22	34	22	1.97
16179580--16179607	13	2.2	13	100	0	56	50	0	7	42	1.30
16190170--16190368	7	28.1	7	81	11	140	76	0	10	13	1.02
16190170--16190332	14	11.3	14	86	8	220	74	0	11	14	1.06
16190170--16190364	21	9.1	21	83	11	220	76	0	10	12	1.02
16190176--16190364	38	4.8	38	83	11	206	76	0	10	12	1.01
16191584--16192143	133	4.2	134	83	6	660	31	22	15	30	1.95
16192321--16192354	3	11.0	3	87	6	50	32	0	0	67	0.91
16194022--16194386	131	2.8	131	85	3	459	31	11	16	40	1.84
16200824--16200849	13	2.0	13	100	0	52	61	0	0	38	0.96
16201710--16201748	20	2.0	20	100	0	78	66	15	7	10	1.43
16202774--16202837	23	2.8	23	77	13	69	20	15	17	46	1.83
16203397--16203432	15	2.4	15	90	0	54	36	13	8	41	1.75
16203397--16203438	15	2.9	14	86	6	50	35	11	9	42	1.74
16204755--16204823	36	1.9	36	96	0	129	47	27	11	13	1.76
16206375--16206413	20	1.9	21	84	5	53	58	2	35	2	1.25
16207647--16207680	17	1.9	18	88	5	52	26	14	5	52	1.64
16208876--16208913	18	2.1	19	85	5	51	55	2	0	42	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16210206--16210314	35	3.0	36	90	5	166	31	5	18	44	1.72
16214755--16214873	35	3.3	36	88	8	172	31	5	20	42	1.73
16224285--16224355	18	3.8	17	79	17	79	29	33	19	16	1.94
16224987--16225038	19	2.7	19	96	0	95	21	28	17	32	1.96
16228498--16228549	17	3.2	17	75	10	54	50	13	3	32	1.60
16232551--16232590	2	20.0	2	100	0	80	50	0	0	50	1.00
16232847--16232981	55	2.5	55	86	2	182	32	22	13	31	1.92
16232965--16234734	51	34.3	51	85	4	2013	24	25	18	31	1.98
16232957--16234735	309	5.7	307	87	4	2140	25	25	18	31	1.98
16234982--16235017	16	2.2	17	90	5	56	25	27	2	44	1.68
16236032--16236084	9	5.9	9	86	10	65	0	3	7	88	0.61
16236031--16236084	20	2.7	20	88	8	74	0	3	7	88	0.61
16236043--16236075	17	1.9	17	100	0	66	0	0	9	90	0.44
16236031--16236084	1	54.0	1	77	0	54	0	3	7	88	0.61
16236022--16236085	29	2.2	30	85	5	94	0	7	6	85	0.73
16244740--16244839	51	2.0	50	82	9	123	49	11	22	18	1.78
16246480--16246525	23	1.9	23	86	8	65	45	0	6	47	1.28
16246706--16246746	3	13.3	3	85	14	57	34	0	0	65	0.93
16246707--16246780	22	3.4	22	76	20	75	32	0	2	64	1.07
16253630--16253659	14	2.1	14	100	0	60	40	0	0	60	0.97
16253799--16253841	22	2.0	22	81	9	52	30	2	0	67	1.03
16253795--16253840	15	3.1	15	87	3	67	30	2	0	67	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16266757--16266806	21	2.4	21	93	0	82	30	18	26	26	1.98
16267431--16267950	46	11.1	46	82	5	621	45	11	21	20	1.82
16267455--16267778	26	13.5	26	71	20	206	45	11	22	20	1.83
16267425--16267783	119	3.0	117	72	19	344	45	11	22	20	1.83
16267498--16267778	26	11.7	25	72	20	217	45	11	23	19	1.83
16267966--16267996	12	2.5	13	94	5	55	74	3	16	6	1.16
16268422--16268523	42	2.3	46	78	8	113	45	8	19	26	1.80
16270330--16270393	2	32.5	2	90	3	94	46	1	1	50	1.20
16273180--16274194	46	22.1	46	77	13	695	43	11	23	21	1.85
16273228--16273311	12	7.5	12	64	28	51	41	10	27	20	1.85

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