genome.fa.s8747.2.7.7.80.10.50.1000.50.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: VEPZ01008747.1 Hibiscus syriacus cultivar Beakdansim tig00111837_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12616935

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  50  of  51  ( 6054 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)
12334300--12334372	20	3.6	20	96	3	137	23	20	16	39	1.92
12334300--12334426	41	3.1	41	85	8	145	22	21	21	34	1.97
12334258--12334426	21	8.2	21	83	9	129	23	21	21	33	1.98
12337824--12337868	11	4.0	11	80	5	54	40	15	22	22	1.91
12337971--12338037	17	3.9	17	75	14	59	70	0	29	0	0.88
12337970--12338043	20	3.6	20	79	17	80	70	0	28	1	0.96
12337970--12338043	27	2.7	27	80	4	85	70	0	28	1	0.96
12338671--12338725	20	2.7	21	77	5	58	41	0	3	54	1.18
12339731--12339774	18	2.4	18	88	3	61	43	2	0	54	1.12
12340878--12340992	34	3.8	30	74	12	101	49	5	5	40	1.48
12340922--12340998	34	2.3	34	86	2	111	51	5	3	38	1.42
12360538--12360582	23	2.0	22	83	12	56	40	20	0	40	1.52
12361153--12361192	21	1.9	21	100	0	80	30	7	37	25	1.83
12364355--12364415	19	3.2	19	76	6	52	45	11	24	18	1.82
12365812--12365862	22	2.3	22	82	0	66	37	21	23	17	1.94
12368195--12368675	240	2.0	240	92	0	809	40	16	16	26	1.89
12372821--12372864	21	2.3	19	84	11	54	34	13	22	29	1.93
12373193--12373313	54	2.2	54	92	0	197	33	13	18	35	1.89
12377892--12377969	35	2.2	36	84	6	97	46	7	14	32	1.72
12378099--12378277	73	2.5	73	82	5	227	49	11	11	27	1.73
12378054--12378277	36	6.2	36	79	7	220	48	10	12	28	1.74
12378258--12378291	17	2.0	17	94	0	59	50	11	14	23	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12378328--12378483	44	3.7	44	77	9	150	29	14	22	33	1.93
12378897--12378965	22	3.2	21	74	15	70	40	21	10	27	1.85
12378911--12378980	20	3.4	20	72	14	61	41	21	12	24	1.88
12378899--12378989	42	2.2	42	89	0	137	39	20	12	27	1.88
12378996--12379171	74	2.4	74	80	4	214	37	17	11	34	1.85
12379020--12379198	74	2.4	73	79	4	173	39	15	10	35	1.81
12383777--12383846	18	3.9	18	96	0	122	47	0	20	32	1.50
12392042--12392177	21	6.6	20	72	16	100	33	22	21	23	1.98
12392062--12392177	41	2.8	41	85	5	155	34	20	21	23	1.97
12392087--12392155	20	3.4	20	75	11	77	36	18	21	23	1.95
12392302--12392332	5	6.4	5	96	3	55	35	22	41	0	1.54
12392925--12393073	23	6.8	23	82	10	188	39	20	19	20	1.93
12392925--12393073	44	3.4	44	88	5	207	39	20	19	20	1.93
12392946--12393082	42	3.2	42	90	4	202	37	21	19	20	1.94
12394679--12395005	168	2.0	166	82	2	395	49	18	14	17	1.79
12395961--12395996	18	2.0	18	100	0	72	22	16	5	55	1.62
12397776--12397834	12	5.0	12	72	24	54	76	6	1	15	1.07
12397753--12397855	35	2.8	37	82	11	106	69	9	2	17	1.28
12397788--12397944	14	10.9	14	68	18	67	74	6	4	14	1.18
12397780--12397857	35	2.2	36	88	6	122	74	5	3	16	1.15
12397800--12397886	23	3.8	22	76	7	77	74	3	5	16	1.14
12397800--12397886	22	3.9	21	77	14	77	74	3	5	16	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12397904--12397951	14	3.4	14	80	11	53	72	4	6	16	1.20
12399203--12399247	18	2.4	19	85	11	65	22	24	24	28	1.99
12399213--12399255	18	2.4	18	100	0	86	23	18	30	27	1.98
12401016--12401074	25	2.3	26	85	2	75	6	15	0	77	0.96
12411553--12411718	5	33.4	5	70	12	83	75	4	4	15	1.13
12411540--12411620	33	2.5	32	80	9	83	75	2	6	16	1.11
12411553--12411717	19	8.6	19	68	14	88	75	4	4	15	1.13
12411790--12411849	17	3.6	16	76	10	59	81	0	11	6	0.86
12411845--12411897	27	1.9	28	81	11	65	66	0	5	28	1.15
12413960--12414003	2	22.0	2	100	0	88	50	0	0	50	1.00
12419380--12419413	3	12.0	3	87	12	54	67	0	0	32	0.91
12419370--12419416	17	2.9	17	87	6	62	63	0	0	36	0.94
12419380--12419413	11	3.0	11	91	4	50	67	0	0	32	0.91
12419381--12419413	14	2.4	14	89	0	57	69	0	0	30	0.88
12419579--12420688	47	21.9	47	68	15	416	32	18	20	28	1.96
12419729--12420493	55	14.8	54	68	14	297	32	18	20	29	1.96
12419532--12420130	102	5.9	102	84	1	716	32	18	20	28	1.96
12419532--12420130	204	2.9	205	85	2	803	32	18	20	28	1.96
12419853--12420344	259	1.9	258	85	3	684	32	18	20	28	1.96
12419734--12420491	361	2.1	360	85	2	995	32	18	19	29	1.96
12420112--12420641	102	5.2	102	83	4	638	33	17	19	29	1.95
12419933--12420691	157	4.9	154	71	13	508	33	18	19	29	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12420808--12421101	62	4.7	62	84	2	347	33	16	20	29	1.95
12421008--12421185	91	2.0	91	87	0	257	31	17	23	28	1.97
12421115--12421318	62	3.3	61	85	2	248	32	16	23	27	1.96
12420958--12421254	153	1.9	153	85	2	409	31	16	23	27	1.96
12423347--12423408	2	32.0	2	87	6	92	45	0	3	51	1.17
12423398--12423601	99	2.1	98	84	0	264	33	15	14	35	1.89
12424888--12424929	17	2.5	17	96	0	75	33	23	2	40	1.68
12451199--12451272	3	25.0	3	88	2	60	54	0	6	39	1.27
12454344--12454417	27	2.7	28	81	6	89	22	10	20	45	1.82
12467335--12467437	31	3.0	35	71	18	108	36	23	23	16	1.94
12467306--12467416	31	3.4	31	72	16	98	36	19	23	20	1.95
12467304--12467437	67	2.0	67	91	0	214	35	20	23	19	1.95
12471559--12471691	66	2.0	67	91	1	214	36	21	21	20	1.96
12473352--12473393	7	5.9	7	78	15	50	30	28	26	14	1.95
12473348--12473415	29	2.3	29	85	7	84	36	25	22	16	1.94
12474799--12474931	40	3.3	40	80	2	160	30	17	18	33	1.94
12480928--12480958	16	2.0	16	93	6	55	12	6	19	61	1.53
12481170--12481225	21	2.6	21	78	13	69	33	17	14	33	1.90
12502100--12502127	3	9.3	3	100	0	56	0	35	0	64	0.94
12507328--12507361	17	2.0	17	88	0	50	41	2	0	55	1.15
12517306--12517730	54	7.9	54	89	1	602	32	20	18	27	1.96
12519637--12519677	21	2.0	21	85	9	57	12	12	19	56	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12523734--12523766	16	2.0	17	94	5	59	30	9	30	30	1.88
12524605--12524698	25	3.8	26	69	25	80	64	2	3	29	1.20
12524645--12524712	18	3.5	17	75	22	64	63	1	4	30	1.23
12524746--12524798	2	27.0	2	79	11	56	50	3	3	41	1.38
12524763--12524813	25	2.0	27	84	7	70	58	1	3	35	1.28
12524816--12524854	20	2.0	20	85	10	53	69	0	7	23	1.14
12526189--12526447	110	2.4	107	81	8	312	24	18	23	33	1.97
12527163--12527312	68	2.3	66	83	6	187	38	8	20	33	1.82
12527462--12527707	106	2.3	106	80	4	269	22	19	24	32	1.98
12528274--12528365	32	2.8	32	86	1	130	39	21	8	30	1.84
12529251--12529388	69	2.0	69	90	2	215	23	13	26	36	1.91
12529462--12529513	12	4.1	13	80	11	63	1	13	3	80	0.93
12529461--12529519	24	2.4	26	84	15	74	3	15	3	77	1.02
12529497--12529526	10	2.9	10	95	5	51	0	16	3	80	0.85
12529441--12529524	26	3.2	26	81	13	75	3	15	4	76	1.10
12534229--12534286	17	3.2	17	75	13	62	62	3	3	31	1.29
12534220--12534283	18	3.5	18	75	12	67	65	3	4	26	1.27
12534326--12534398	22	3.0	25	78	15	64	61	0	4	34	1.15
12535180--12535629	54	8.4	54	87	3	604	32	22	18	25	1.97
12535180--12535629	215	2.1	216	86	2	636	32	22	18	25	1.97
12540666--12540723	30	2.0	30	83	9	77	39	3	1	55	1.27
12540731--12540797	29	2.3	29	78	14	75	44	0	1	53	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12540799--12540843	22	2.0	24	86	8	67	48	4	2	44	1.35
12540925--12541010	43	2.0	43	84	4	111	41	1	1	55	1.14
12540943--12541038	36	2.6	36	76	20	101	47	1	1	50	1.15
12541005--12541076	14	5.3	14	73	14	62	50	0	1	48	1.09
12542372--12542408	14	2.6	14	95	0	65	37	0	8	54	1.30
12548616--12548732	21	5.6	21	85	6	123	41	20	21	17	1.91
12551263--12551352	9	9.6	10	70	18	61	77	0	18	3	0.90
12551260--12551352	27	3.3	28	75	13	84	77	0	19	3	0.90
12551250--12551328	41	1.9	40	82	10	97	75	0	18	5	0.97
12551303--12551350	5	8.8	5	80	17	51	77	0	20	2	0.88

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