genome.fa.s1547.2.7.7.80.10.50.1000.21.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: VEPZ01001547.1 Hibiscus syriacus cultivar Beakdansim tig00003041_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10425128

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   

This is table  21  of  51  ( 6083 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)
4101342--4101389	23	2.1	23	88	0	69	35	12	18	33	1.89
4101813--4101875	23	2.7	23	92	0	99	38	20	4	36	1.74
4102303--4102365	23	2.7	23	92	0	99	38	20	4	36	1.74
4101640--4102708	490	2.2	487	98	1	2063	40	12	7	39	1.71
4102707--4102772	25	2.6	25	80	0	87	42	13	9	34	1.76
4105404--4105448	22	2.0	22	86	0	63	40	11	8	40	1.72
4105760--4105818	23	2.6	23	88	0	82	40	16	5	37	1.71
4107413--4107456	9	4.6	9	78	15	52	25	34	2	38	1.68
4107416--4107504	12	7.4	12	84	0	88	20	33	8	37	1.84
4107412--4107492	6	13.5	6	80	0	72	22	33	7	37	1.82
4107428--4107504	36	2.1	36	90	0	118	19	33	10	36	1.86
4107425--4107486	9	6.6	9	80	10	61	20	33	9	35	1.86
4107416--4107507	6	15.3	6	79	0	67	19	33	8	38	1.83
4108980--4110939	199	9.9	199	97	1	3715	31	17	15	35	1.91
4111057--4111106	19	2.6	19	93	0	82	56	10	2	32	1.44
4112895--4112958	32	2.0	32	90	0	101	23	46	0	29	1.52
4115250--4115305	20	2.8	19	76	7	58	21	14	8	55	1.66
4115430--4115474	20	2.4	19	85	10	65	17	15	11	55	1.68
4115523--4116240	224	3.1	229	94	2	1268	38	8	7	44	1.64
4116488--4116516	11	2.5	12	94	5	51	31	24	10	34	1.89
4119066--4119157	15	6.1	15	97	0	175	26	7	27	39	1.83
4123180--4123216	2	19.0	2	94	5	67	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4125439--4125524	43	2.0	43	90	0	136	30	10	24	34	1.89
4125687--4125733	20	2.3	20	85	0	67	23	10	8	57	1.60
4125961--4126045	43	2.0	42	83	2	107	50	11	18	18	1.77
4127996--4128130	72	1.9	72	87	3	200	25	19	20	35	1.95
4132026--4132169	54	2.6	54	84	3	182	38	15	22	22	1.92
4132860--4133057	102	1.9	103	90	3	319	38	13	20	28	1.90
4132967--4133878	121	7.6	122	84	7	900	40	16	18	24	1.91
4133452--4133514	20	3.2	20	66	20	51	46	11	19	23	1.82
4133315--4133878	243	2.3	243	86	4	796	42	16	17	24	1.89
4133818--4134296	137	3.5	137	85	5	549	38	15	18	27	1.91
4135653--4135685	2	17.0	2	87	6	50	45	0	3	51	1.16
4140624--4140649	4	6.5	4	100	0	52	73	0	0	26	0.84
4141391--4141429	20	2.0	20	89	0	60	51	10	12	25	1.71
4142586--4142758	91	1.9	92	90	3	278	34	13	18	33	1.90
4145596--4145635	15	2.7	15	88	0	53	70	0	5	25	1.08
4147280--4147305	13	2.0	13	100	0	52	53	15	7	23	1.67
4151284--4151336	28	1.9	28	92	3	90	50	1	24	22	1.59
4152024--4152061	20	1.9	20	88	0	58	60	10	13	15	1.59
4159240--4159323	44	1.9	44	95	0	150	44	9	15	30	1.78
4159590--4159619	3	10.0	3	100	0	60	66	0	0	33	0.92
4161430--4161537	3	36.0	3	98	0	207	32	0	0	66	0.98
4161909--4161951	22	1.9	23	85	4	61	16	25	6	51	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4162201--4162225	2	12.5	2	100	0	50	48	0	0	52	1.00
4166705--4166742	10	3.8	10	89	0	58	42	2	36	18	1.64
4177375--4177435	30	2.0	30	84	6	79	40	4	14	39	1.68
4177537--4177587	24	2.1	24	88	0	75	47	0	0	52	1.00
4194371--4194395	13	1.9	13	100	0	50	32	28	24	16	1.96
4194410--4194479	10	7.1	10	70	15	56	28	27	25	18	1.98
4194408--4194479	19	3.7	19	82	12	76	27	26	27	18	1.98
4208402--4208460	29	2.1	28	83	3	73	23	11	10	54	1.67
4208983--4209016	16	2.1	16	94	0	59	52	8	17	20	1.71
4210636--4211024	76	5.1	76	82	6	240	31	16	14	37	1.89
4210819--4211024	39	5.3	39	89	1	315	30	18	17	33	1.94
4211207--4211257	19	2.5	20	75	9	50	25	23	19	31	1.98
4211407--4211519	42	2.7	41	82	6	138	26	23	22	28	1.99
4211982--4212043	21	3.2	21	63	25	55	24	24	14	37	1.93
4211801--4212228	175	2.4	175	85	4	567	26	19	14	40	1.89
4211840--4212098	139	1.9	139	86	1	376	25	19	14	39	1.90
4211874--4212134	103	2.5	104	86	5	339	25	19	14	39	1.90
4211801--4212134	36	9.4	36	82	7	380	25	19	15	40	1.90
4212452--4212620	92	1.8	92	93	0	293	37	13	23	24	1.91
4212550--4212613	17	3.3	19	67	20	51	39	10	25	25	1.88
4212527--4212726	107	1.9	107	93	0	346	33	14	26	26	1.94
4212636--4212909	91	3.0	90	88	2	395	35	17	22	24	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4212819--4213058	118	2.0	118	84	4	315	37	15	22	25	1.93
4213033--4213373	133	2.6	131	81	6	409	31	19	19	29	1.97
4214521--4214571	24	2.1	24	85	7	68	15	1	9	72	1.19
4216043--4216165	64	1.9	63	88	8	171	28	20	21	29	1.98
4216043--4216181	65	2.2	64	85	8	185	28	19	22	30	1.98
4218894--4218988	21	4.4	20	73	11	66	24	21	25	29	1.99
4222806--4222845	21	1.9	21	85	10	55	35	10	2	52	1.48
4224645--4224709	29	2.2	29	100	0	130	23	27	27	21	1.99
4224748--4224955	65	3.2	63	79	12	217	28	17	22	31	1.97
4228256--4228313	2	29.0	2	100	0	116	50	0	0	50	1.00
4233919--4233966	2	24.0	2	100	0	96	50	0	0	50	1.00
4236307--4236342	2	18.0	2	100	0	72	50	0	0	50	1.00
4242916--4242945	13	2.3	13	100	0	60	56	10	6	26	1.57
4258284--4258326	3	14.0	3	90	4	68	62	0	2	34	1.08
4258284--4258326	22	2.0	22	90	4	70	62	0	2	34	1.08
4258284--4258334	9	5.3	10	81	9	54	64	0	1	33	1.05
4258597--4259152	113	4.9	113	92	0	878	29	20	14	35	1.92
4259851--4260189	114	3.0	113	90	2	516	31	19	14	33	1.92
4260498--4260537	20	1.9	22	90	10	66	55	2	12	30	1.50
4260862--4260932	8	8.6	8	83	6	79	2	15	0	81	0.80
4260863--4260940	17	4.6	18	81	12	94	2	15	0	82	0.79
4260862--4260940	24	3.1	25	75	10	81	2	16	0	81	0.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4260862--4260943	33	2.6	33	85	12	102	2	17	0	80	0.82
4260862--4260944	8	10.1	8	78	13	64	2	18	0	79	0.84
4271545--4271600	26	2.2	26	86	0	76	62	3	3	30	1.29
4273794--4273835	3	13.3	3	90	5	57	59	0	2	38	1.10
4275790--4275824	17	2.1	16	89	5	52	54	0	2	42	1.15
4275816--4275958	13	10.2	13	75	14	97	48	5	5	39	1.50
4275816--4275958	28	5.1	26	72	13	97	48	5	5	39	1.50
4275905--4275958	15	3.7	15	78	9	67	50	5	5	38	1.49
4275936--4275984	25	2.0	23	88	7	71	55	4	6	34	1.44
4276354--4276503	2	77.0	2	87	10	222	48	1	1	48	1.18
4276552--4276598	21	2.2	21	84	0	58	38	29	4	27	1.76
4276797--4276845	15	3.3	15	88	0	71	55	6	0	38	1.25
4276792--4276836	17	2.6	17	85	3	54	53	4	2	40	1.33
4276834--4276935	48	2.1	48	83	3	125	49	12	6	31	1.67
4276919--4276987	7	10.3	7	69	9	54	49	31	0	18	1.48
4276919--4276987	13	5.7	13	71	22	51	49	31	0	18	1.48
4276926--4276981	20	2.8	20	81	8	60	51	28	0	19	1.47
4276919--4276987	20	3.5	20	74	4	59	49	31	0	18	1.48
4276987--4277022	16	2.2	16	90	5	54	38	8	11	41	1.71
4277096--4277217	8	15.4	8	96	0	210	25	11	25	37	1.89
4277323--4277372	23	2.2	22	79	6	55	30	4	18	48	1.66
4277517--4277550	12	2.8	12	91	8	52	67	0	5	26	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4278467--4278518	23	2.3	23	83	3	61	30	3	17	48	1.65
4278443--4278520	34	2.2	35	82	8	88	32	3	17	46	1.67
4286389--4286420	12	2.6	12	95	5	55	18	46	21	12	1.82
4286632--4286682	25	2.0	25	84	0	66	33	9	31	25	1.88
4291398--4291453	22	2.6	21	80	8	58	23	39	16	21	1.92
4291791--4291834	20	2.2	20	87	0	61	47	25	15	11	1.79
4293747--4293794	18	2.6	18	93	3	78	12	16	29	41	1.85
4293882--4293985	21	5.0	21	80	6	122	20	36	19	24	1.95
4293882--4293989	42	2.6	41	88	1	153	20	37	18	23	1.94
4295282--4295314	13	2.4	14	95	5	59	30	0	21	48	1.50

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