genome.fa.s190.2.7.7.80.10.50.1000.25.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: VEPZ01000190.1 Hibiscus syriacus cultivar Beakdansim tig00000340_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  14308945

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   

This is table  25  of  62  ( 7381 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)
5976167--5976327	65	2.5	65	86	3	218	30	26	16	27	1.96
5976167--5976347	64	2.8	64	83	2	220	29	26	17	27	1.97
5978359--5978454	50	1.9	51	82	2	122	19	21	17	40	1.91
5982972--5983025	21	2.6	21	85	5	74	11	29	37	22	1.89
5983235--5983268	7	4.9	7	92	0	59	52	14	2	29	1.56
5983932--5984007	30	2.4	32	80	12	86	48	0	1	50	1.09
5983989--5984039	22	2.3	22	86	6	68	47	0	0	52	1.00
5984139--5984187	24	2.2	23	85	10	66	46	0	0	53	1.00
5984170--5984245	19	4.2	19	70	13	61	46	0	1	52	1.08
5984162--5984270	22	5.2	22	72	19	58	44	0	0	53	1.13
5984189--5984307	34	3.6	33	74	11	111	45	1	0	52	1.16
5984226--5984279	21	2.5	21	82	14	65	44	1	0	53	1.11
5984189--5984315	35	3.8	33	74	16	111	46	1	1	50	1.20
5984894--5984927	9	3.9	9	84	7	52	11	0	0	88	0.52
5984897--5984928	16	2.0	16	100	0	64	12	0	0	87	0.54
5988691--5988763	20	3.6	21	80	9	71	35	16	24	23	1.95
5988787--5988858	19	3.5	20	77	15	76	30	13	27	27	1.94
5989265--5989391	20	5.7	20	67	23	74	41	10	24	23	1.85
5989253--5989417	47	3.5	46	86	4	242	43	9	21	25	1.83
5995264--5995307	19	2.3	19	84	0	61	31	13	25	29	1.94
5995744--5995837	20	4.7	20	94	0	170	39	10	30	19	1.85
5997232--5997260	12	2.3	13	94	5	51	37	0	3	58	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5998035--5998068	12	2.8	12	95	4	59	14	2	0	82	0.79
6008509--6008549	21	2.0	21	95	0	73	26	19	19	34	1.96
6008461--6008637	87	2.0	88	96	3	331	33	12	23	29	1.92
6008596--6008636	21	2.0	21	95	0	73	26	19	19	34	1.96
6010273--6010330	22	2.6	23	86	8	84	17	27	29	25	1.97
6015534--6015593	23	2.6	23	86	0	84	21	25	25	28	1.99
6016985--6017599	270	2.3	269	87	3	853	35	22	16	25	1.95
6019849--6019917	10	7.1	10	73	12	63	21	23	26	28	1.99
6019854--6019922	9	7.2	9	75	12	57	20	23	26	30	1.98
6019849--6019928	19	4.2	19	87	7	90	22	25	25	27	2.00
6019856--6019938	19	4.3	19	80	13	64	21	24	26	27	1.99
6019932--6020005	17	4.4	17	89	1	114	16	40	22	20	1.91
6026909--6026981	10	7.7	9	79	11	83	16	24	30	28	1.96
6026908--6026997	19	4.7	19	92	1	135	18	24	30	26	1.98
6026991--6027057	17	3.9	17	94	0	116	17	41	23	16	1.89
6027055--6027091	7	5.4	7	87	6	58	18	29	27	24	1.98
6027063--6027087	13	1.9	13	100	0	50	16	32	28	24	1.96
6030189--6030217	2	15.0	2	92	7	51	48	0	0	51	1.00
6030869--6030956	34	2.6	34	94	0	149	22	14	13	48	1.79
6032929--6033317	204	1.9	204	100	0	778	31	18	14	35	1.92
6039826--6040172	55	6.5	55	84	6	428	31	17	15	35	1.92
6040003--6040093	47	2.0	46	86	4	130	34	16	15	34	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6044228--6044280	20	2.7	19	88	5	70	35	16	30	16	1.92
6044321--6044362	22	1.9	22	90	0	66	33	14	16	35	1.89
6044699--6045041	54	6.3	54	88	3	467	32	20	20	26	1.97
6044699--6045041	109	3.1	109	88	5	482	32	20	20	26	1.97
6045269--6045343	35	2.1	36	90	2	116	36	22	16	25	1.94
6051281--6051351	22	3.5	21	85	9	85	30	15	22	30	1.95
6051673--6051855	55	3.4	55	87	4	264	33	19	22	24	1.97
6058742--6058926	29	6.4	29	97	0	352	36	17	22	23	1.94
6068817--6069066	42	5.9	42	91	3	387	33	25	22	18	1.97
6068852--6068917	21	3.1	21	63	16	55	31	24	25	18	1.97
6068817--6069066	127	2.0	126	90	3	396	33	25	22	18	1.97
6069973--6070159	29	6.3	29	74	6	115	43	20	5	29	1.75
6070166--6070225	18	3.3	18	93	4	95	11	23	43	21	1.85
6076332--6076621	42	6.8	42	89	5	399	33	24	24	17	1.97
6076406--6076471	21	3.1	21	63	16	55	31	24	25	18	1.97
6076332--6076621	85	3.4	83	88	4	404	33	24	24	17	1.97
6076332--6076621	127	2.3	125	87	7	413	33	24	24	17	1.97
6077557--6077709	29	5.4	28	69	10	94	43	20	4	31	1.72
6077567--6077733	86	1.9	86	89	2	255	43	19	5	31	1.73
6077753--6077813	13	4.3	13	77	18	68	13	22	44	19	1.85
6077759--6077800	18	2.3	18	100	0	84	9	23	45	21	1.81
6077753--6077814	31	2.0	31	93	0	106	12	22	45	19	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6081507--6081641	36	3.8	36	83	3	182	18	23	19	38	1.93
6081507--6081652	72	2.0	72	92	2	240	17	23	18	39	1.92
6084285--6084368	41	2.0	45	84	13	115	67	2	11	17	1.32
6084467--6084514	23	2.1	22	84	3	60	60	2	0	37	1.09
6084501--6084530	16	1.9	15	93	6	51	70	0	3	26	1.03
6085941--6086471	106	5.0	106	92	0	839	22	18	24	35	1.95
6087050--6087134	37	2.3	37	81	4	91	42	15	17	24	1.88
6087287--6087357	36	2.0	36	94	0	124	36	12	23	26	1.91
6087843--6087878	18	2.0	18	88	0	54	41	30	8	19	1.81
6092363--6092414	6	8.7	6	78	16	54	78	0	1	19	0.84
6092364--6092405	10	4.2	10	82	11	59	78	0	2	19	0.86
6092370--6092417	20	2.4	20	89	0	69	77	0	2	20	0.88
6092364--6092414	16	3.6	14	89	10	70	78	0	1	19	0.85
6093486--6093558	9	7.7	9	70	22	51	72	1	6	19	1.14
6094465--6094612	78	1.9	78	83	5	192	28	14	16	40	1.88
6096473--6097221	168	4.5	167	81	4	812	30	16	15	37	1.90
6096486--6097243	334	2.3	334	83	5	922	31	16	15	37	1.90
6098705--6098741	18	2.0	19	89	5	58	29	2	16	51	1.58
6098702--6098765	29	2.2	29	82	0	74	32	1	18	46	1.59
6099614--6099672	21	2.8	20	75	7	64	47	0	8	44	1.33
6099706--6099745	21	2.0	21	85	5	55	35	7	0	57	1.27
6100107--6100140	2	17.0	2	88	11	52	47	0	2	50	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6100461--6100509	2	24.0	2	95	4	89	48	2	0	48	1.12
6102080--6102123	20	2.2	20	87	0	61	45	15	13	25	1.83
6102143--6102316	88	2.0	88	87	2	251	34	25	16	23	1.95
6103368--6103393	3	8.7	3	100	0	52	0	30	0	69	0.89
6104226--6104273	20	2.4	19	80	16	53	43	2	10	43	1.50
6104502--6105031	59	9.0	59	90	1	735	34	14	19	31	1.91
6107932--6108517	220	2.7	215	83	11	678	23	12	27	37	1.90
6108467--6108551	38	2.3	36	91	4	143	10	11	41	36	1.76
6109877--6109915	16	2.2	18	86	13	55	56	0	0	43	0.99
6110265--6110615	131	2.7	131	90	0	549	38	15	11	33	1.84
6112740--6112795	3	19.3	3	85	7	80	62	0	3	33	1.12
6112742--6112816	6	12.3	6	87	8	53	54	0	12	33	1.37
6113047--6113355	133	2.3	133	88	0	429	29	17	22	30	1.97
6114325--6114386	21	3.0	21	90	0	97	41	25	8	24	1.82
6115462--6115724	42	6.3	42	92	1	429	21	18	23	36	1.95
6116448--6116485	5	7.6	5	100	0	76	0	39	21	39	1.53
6116606--6116906	42	7.1	42	91	0	494	36	23	18	20	1.95
6116606--6116999	105	3.8	103	76	14	362	35	24	18	21	1.95
6116606--6117015	84	4.9	81	84	8	411	36	23	18	21	1.95
6116606--6116988	126	3.0	122	85	6	441	36	24	18	21	1.95
6116888--6117015	40	3.2	40	85	2	184	34	24	20	21	1.97
6116624--6117007	21	18.5	19	73	15	264	35	24	18	21	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6117011--6117063	21	2.5	21	93	0	88	16	20	32	30	1.95
6117485--6117540	25	2.2	26	81	9	62	19	16	5	58	1.56
6117948--6118036	6	14.8	6	98	0	142	33	28	0	38	1.57
6119912--6120090	29	6.3	29	78	10	154	33	2	16	47	1.59
6119919--6120052	57	2.4	57	79	7	141	35	2	13	49	1.55
6127186--6127362	29	6.2	29	77	12	136	36	1	16	45	1.58
6127263--6127312	27	2.0	27	84	11	70	50	2	10	38	1.48
6127311--6127372	30	2.0	31	84	9	83	38	0	17	43	1.49
6129135--6129289	60	2.6	60	79	4	134	31	24	6	37	1.81
6132128--6132265	64	2.1	66	94	2	244	39	1	2	56	1.23

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