genome.fa.s8094.2.7.7.80.10.50.1000.31.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: VEPZ01008094.1 Hibiscus syriacus cultivar Beakdansim tig00110610_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  9952466

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   

This is table  31  of  43  ( 5090 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)
6637016--6637046	10	3.1	10	100	0	62	38	0	19	41	1.51
6637197--6637406	108	1.9	108	80	6	237	50	8	10	30	1.67
6638593--6638657	29	2.2	29	83	8	96	29	18	4	47	1.68
6638903--6638958	25	2.3	25	93	3	96	23	14	3	58	1.51
6639026--6639054	5	5.8	5	100	0	58	17	0	0	82	0.66
6642834--6642876	11	3.9	11	87	0	59	83	0	13	2	0.74
6642834--6642876	20	2.0	20	86	8	59	83	0	13	2	0.74
6644616--6644728	42	2.7	41	83	6	138	25	20	23	30	1.99
6644622--6644694	20	3.6	19	71	14	56	21	23	21	32	1.98
6644891--6644979	42	2.1	42	87	0	124	24	17	23	33	1.96
6644476--6645124	276	2.4	274	86	3	923	28	14	20	37	1.91
6645853--6645916	17	3.3	19	67	20	51	40	12	23	23	1.88
6646193--6646344	39	3.8	39	73	15	134	42	13	22	21	1.87
6646174--6646297	42	3.0	42	68	19	116	41	14	20	24	1.89
6646174--6646337	81	2.0	81	92	2	276	40	14	21	23	1.89
6646276--6646576	117	2.6	117	87	3	453	39	12	21	26	1.89
6647592--6647647	29	1.9	30	88	3	87	28	19	5	46	1.72
6647650--6647881	115	2.1	113	82	8	278	23	19	13	43	1.86
6647900--6647955	25	2.3	25	84	9	71	25	12	1	60	1.42
6663200--6663247	3	16.0	3	95	0	87	35	0	0	64	0.94
6664900--6664948	23	2.0	25	84	7	66	44	2	0	53	1.12
6668802--6668833	15	2.1	15	94	0	55	28	18	6	46	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6671650--6671694	23	2.0	23	86	0	63	26	28	24	20	1.99
6672305--6672455	67	2.3	66	90	2	230	15	26	27	30	1.96
6677933--6678018	43	2.0	43	90	0	136	34	32	11	20	1.89
6678559--6678618	23	2.6	23	89	0	93	23	28	26	21	1.99
6679365--6679516	67	2.3	66	91	3	241	14	26	28	30	1.95
6685343--6685401	10	5.7	10	78	13	57	84	1	13	0	0.69
6685340--6685397	13	4.5	13	85	12	75	84	1	13	0	0.70
6685343--6685398	14	3.8	14	78	19	60	85	1	12	0	0.67
6687451--6687991	113	4.8	113	85	7	653	38	14	17	28	1.90
6687933--6688096	36	4.6	36	97	0	301	48	10	21	18	1.78
6688043--6688311	120	2.3	118	87	4	364	40	16	18	24	1.91
6688464--6688517	3	18.0	3	86	7	74	38	0	0	61	0.96
6688464--6688517	21	2.8	19	86	13	83	38	0	0	61	0.96
6688474--6688525	27	1.9	27	84	0	68	48	0	0	51	1.00
6698522--6698704	3	59.7	3	69	13	79	57	2	5	33	1.36
6700666--6700699	17	1.9	18	88	5	52	35	17	8	38	1.81
6701565--6701609	21	2.1	21	87	0	63	33	31	22	13	1.92
6703296--6703714	103	4.1	103	97	0	766	26	13	24	36	1.92
6703738--6703793	23	2.4	23	93	0	94	17	28	26	26	1.98
6704627--6704829	59	3.5	59	93	2	347	29	21	11	37	1.88
6710683--6710716	17	1.9	18	88	5	52	35	17	8	38	1.81
6710833--6711191	59	6.1	58	80	9	336	30	22	11	35	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6710835--6711191	118	3.0	118	80	8	372	29	22	11	36	1.89
6710808--6711183	176	2.1	176	81	6	413	29	22	10	36	1.88
6715722--6715759	18	2.1	18	85	9	51	42	0	5	52	1.24
6717889--6717923	18	1.9	18	88	11	54	14	14	0	71	1.15
6718392--6718572	90	2.0	90	97	0	344	39	15	15	29	1.88
6729810--6729834	3	8.3	3	100	0	50	36	0	0	64	0.94
6731966--6732002	18	2.1	18	90	5	58	29	5	0	64	1.15
6738370--6738418	18	2.5	20	77	19	57	24	6	4	65	1.33
6738375--6738419	18	2.5	18	89	7	65	26	6	4	62	1.39
6754614--6754668	23	2.4	23	93	3	94	41	1	10	45	1.50
6754626--6754674	23	2.2	22	92	7	82	40	4	10	44	1.57
6754655--6754709	26	2.1	26	96	0	101	34	3	5	56	1.40
6755509--6755539	5	6.0	5	96	3	53	77	0	19	3	0.90
6757544--6757612	33	2.0	35	91	8	115	28	4	24	42	1.74
6758346--6758572	42	5.4	42	89	3	339	31	25	25	18	1.97
6761449--6761496	22	2.1	23	85	11	64	50	29	2	18	1.59
6763412--6763660	42	5.8	42	83	6	268	32	24	25	18	1.97
6763412--6763660	85	2.9	85	82	6	324	32	24	25	18	1.97
6768498--6768746	42	5.8	43	87	3	315	33	23	24	18	1.97
6770978--6771045	35	1.9	35	85	5	93	26	26	16	30	1.96
6771965--6772002	14	2.7	14	91	0	58	5	31	23	39	1.77
6774010--6774221	117	1.8	117	80	6	259	18	28	17	35	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6776110--6776229	45	2.7	44	88	2	159	30	23	10	36	1.87
6782974--6783309	45	7.5	45	89	0	494	28	22	12	36	1.91
6789823--6789902	17	4.6	18	78	4	83	37	8	25	28	1.86
6789833--6789900	35	1.9	35	96	0	127	36	8	27	26	1.86
6791016--6791043	10	2.8	10	100	0	56	28	50	0	21	1.49
6792222--6792271	12	4.2	12	73	14	50	58	0	12	30	1.34
6793944--6794166	29	7.7	29	92	0	347	47	17	4	31	1.66
6794178--6794212	18	1.9	18	100	0	70	17	22	42	17	1.88
6794201--6794255	24	2.6	19	73	24	56	16	29	36	18	1.92
6794204--6794250	24	2.0	24	91	0	76	17	29	34	19	1.94
6795722--6795757	16	2.2	16	95	0	63	44	30	13	11	1.79
6801519--6801709	29	6.6	29	90	1	285	48	15	3	32	1.62
6801519--6801709	57	3.3	58	91	2	294	48	15	3	32	1.62
6801519--6801709	86	2.2	87	90	1	294	48	15	3	32	1.62
6804033--6804096	23	2.7	24	85	9	78	29	14	12	43	1.81
6804033--6804127	25	3.9	25	81	10	115	29	12	13	44	1.81
6805064--6805103	20	2.0	20	90	9	64	22	10	15	52	1.71
6805202--6805255	28	1.9	28	100	0	108	53	16	7	22	1.67
6817219--6817277	20	2.9	20	80	9	75	27	37	25	10	1.88
6817219--6817277	21	2.9	21	82	7	68	27	37	25	10	1.88
6819865--6819906	22	1.9	22	90	0	66	23	38	23	14	1.92
6821056--6821093	19	2.0	19	100	0	76	26	15	36	21	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6824171--6824243	21	3.5	21	76	12	78	75	0	21	2	0.93
6824178--6824238	7	8.6	7	78	7	52	75	0	21	3	0.94
6824174--6824247	29	2.5	29	80	8	87	75	0	21	2	0.92
6825068--6825109	21	2.0	21	95	0	75	30	26	9	33	1.88
6825840--6825935	25	3.9	24	78	8	95	27	10	15	46	1.78
6836791--6836834	22	2.0	21	82	4	52	65	2	0	31	1.05
6837002--6837713	134	5.3	134	83	1	883	30	16	22	31	1.95
6837915--6838037	12	10.4	12	69	20	57	6	17	1	73	1.12
6837928--6837981	20	2.7	19	75	8	54	12	18	1	66	1.33
6837933--6837995	28	2.3	27	76	10	67	9	17	3	69	1.28
6837978--6838056	6	13.0	6	78	16	83	2	16	2	78	0.97
6837920--6838055	51	2.7	48	77	19	134	6	16	2	74	1.13
6837978--6838056	19	4.3	18	78	18	83	2	16	2	78	0.97
6837959--6838055	47	2.0	48	86	5	135	5	16	2	76	1.06
6838033--6838058	13	2.0	13	100	0	52	7	15	7	69	1.35
6846817--6847157	131	2.6	131	82	2	391	40	17	10	31	1.83
6846821--6847184	130	2.8	130	79	4	385	40	16	10	32	1.82
6848792--6848832	20	2.0	20	95	0	73	36	2	24	36	1.69
6857528--6857586	22	2.7	21	87	10	82	35	20	15	28	1.93
6857648--6857702	18	2.8	19	83	8	58	27	34	9	29	1.87
6863316--6863399	16	5.2	16	77	0	69	8	9	30	51	1.64
6863317--6863378	32	1.9	32	83	0	79	11	11	27	50	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6868388--6868440	26	2.0	26	100	0	106	33	28	22	15	1.94
6871867--6871914	13	3.7	13	83	8	62	56	0	0	43	0.99
6873576--6873607	10	3.1	10	91	8	55	18	31	31	18	1.95
6874571--6874728	26	6.5	26	76	15	167	47	10	21	20	1.79
6874626--6874689	9	7.3	9	71	7	51	51	7	20	20	1.71
6874654--6874716	12	5.3	12	68	24	53	44	9	26	19	1.81
6874571--6874728	52	3.3	47	82	9	210	47	10	21	20	1.79
6880303--6880864	55	10.3	54	82	4	553	28	17	17	36	1.93
6880303--6880864	110	5.1	110	83	2	643	28	17	17	36	1.93
6880328--6880854	272	1.9	272	82	3	648	28	17	17	37	1.92

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