genome.fa.s1547.2.7.7.80.10.50.1000.32.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  32  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)
6385982--6386028	14	3.4	14	87	0	67	12	2	36	48	1.53
6385982--6386028	7	6.7	7	80	0	58	12	2	36	48	1.53
6386348--6386389	22	1.9	22	85	9	59	45	9	7	38	1.64
6386442--6386533	24	3.8	24	80	5	105	42	6	2	48	1.41
6386458--6386499	13	3.4	13	77	12	52	38	2	4	54	1.34
6386522--6386565	21	2.0	22	86	4	63	56	11	0	31	1.35
6387796--6387841	2	22.5	2	95	4	83	47	2	0	50	1.13
6388542--6388600	31	1.9	31	92	0	100	42	5	8	44	1.57
6388607--6388723	22	5.3	22	82	9	78	52	11	0	35	1.39
6388623--6388723	22	4.5	22	85	7	141	49	12	0	37	1.41
6396060--6396087	3	9.3	3	100	0	56	64	0	35	0	0.94
6407168--6407222	2	27.5	2	100	0	110	49	0	0	50	1.00
6410565--6410598	17	2.0	17	94	0	59	23	17	14	44	1.86
6412106--6412474	20	18.5	20	85	4	458	34	26	18	20	1.96
6413156--6413202	24	2.0	24	87	8	69	25	14	21	38	1.92
6413377--6413401	12	2.1	12	100	0	50	72	0	28	0	0.86
6415682--6415988	19	17.4	19	80	16	376	46	18	20	14	1.83
6415710--6415988	52	5.2	52	92	4	379	46	17	21	14	1.83
6415749--6415988	71	3.4	71	86	11	373	47	17	20	15	1.83
6415682--6416026	142	2.5	138	90	6	518	46	18	20	15	1.84
6415682--6416010	52	6.3	55	87	10	332	46	18	20	14	1.84
6416017--6416118	19	5.6	19	85	12	151	14	23	17	44	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6416225--6416261	14	2.6	14	91	0	65	45	21	0	32	1.52
6418166--6418228	19	3.2	20	86	6	85	47	26	15	9	1.76
6418219--6418275	14	3.7	14	77	20	60	45	22	21	10	1.82
6418200--6418292	33	2.8	33	95	0	168	47	21	20	10	1.80
6418179--6418297	19	6.8	19	77	18	123	47	22	20	10	1.80
6418293--6418421	19	7.3	19	75	17	125	8	17	28	45	1.77
6418293--6418384	33	2.8	33	93	3	150	7	18	28	45	1.76
6418465--6419030	93	6.1	93	98	0	1107	46	18	12	22	1.83
6420735--6420824	14	5.7	14	74	23	81	42	23	25	8	1.83
6420727--6420841	33	3.5	33	95	0	212	45	20	24	9	1.81
6420734--6420846	19	6.8	18	72	23	88	43	22	24	9	1.83
6420858--6420912	14	3.6	14	73	21	56	9	25	23	41	1.83
6420842--6420912	33	2.2	33	94	0	124	8	22	25	43	1.81
6420853--6420934	33	2.5	33	89	2	119	9	25	21	42	1.84
6420865--6420953	20	4.8	20	72	19	75	12	24	19	43	1.85
6421033--6421103	33	2.2	33	92	0	115	47	18	22	11	1.80
6421285--6421339	22	2.5	22	81	0	74	20	16	40	23	1.91
6421485--6421677	20	9.6	20	82	5	219	19	19	25	35	1.95
6421485--6421677	60	3.2	60	83	0	251	19	19	25	35	1.95
6421733--6421782	20	2.5	20	96	0	91	22	14	24	40	1.90
6423733--6423773	19	2.2	19	100	0	82	14	31	14	39	1.87
6428363--6428872	83	6.2	80	83	6	310	24	17	23	33	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6428436--6428921	83	5.8	82	81	5	483	24	17	24	33	1.96
6428368--6428853	250	2.0	243	82	6	593	24	17	23	34	1.96
6428365--6428906	167	3.3	166	79	3	592	24	17	23	34	1.96
6428923--6429143	121	1.8	121	88	1	336	26	19	23	30	1.98
6429308--6429418	43	2.6	43	83	0	141	24	18	28	28	1.98
6429045--6429750	332	2.1	334	88	2	1033	24	17	24	33	1.96
6429648--6429793	43	3.4	43	88	0	202	21	17	31	30	1.96
6429798--6429881	33	2.5	33	81	14	93	22	16	25	35	1.95
6430232--6430301	32	2.2	32	81	0	77	37	27	5	30	1.80
6430447--6430508	22	2.7	22	78	14	72	48	3	14	33	1.60
6437441--6437474	14	2.4	14	100	0	68	35	29	0	35	1.58
6438762--6438815	24	2.2	24	93	0	90	20	18	20	40	1.91
6441333--6441533	33	5.8	33	79	8	213	43	18	21	15	1.87
6441381--6441408	14	2.0	14	100	0	56	42	21	21	14	1.88
6441366--6441537	19	9.7	19	68	22	88	44	18	22	15	1.86
6441356--6441533	73	2.6	66	79	12	205	44	17	23	14	1.86
6441326--6441523	106	1.9	106	87	2	290	43	17	21	17	1.88
6441543--6441622	33	2.4	33	82	0	106	12	18	20	48	1.80
6441729--6441765	14	2.6	14	91	0	65	45	21	0	32	1.52
6443510--6443869	94	3.8	94	94	1	605	46	18	12	21	1.82
6445582--6445637	20	2.8	20	84	10	87	39	21	25	14	1.91
6445662--6445706	19	2.4	19	84	0	54	13	13	24	48	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6445712--6445783	20	3.5	20	81	5	83	11	15	20	52	1.72
6446345--6446594	20	12.4	19	73	17	177	19	17	25	38	1.93
6446345--6446594	40	6.2	41	83	7	298	19	17	25	38	1.93
6446345--6446594	81	3.1	79	85	9	256	19	17	25	38	1.93
6446591--6446678	21	4.2	21	91	0	113	36	19	27	17	1.94
6456041--6456091	24	2.1	23	82	13	59	23	15	13	47	1.82
6456352--6456403	20	2.6	20	93	0	86	40	26	11	21	1.87
6456388--6456491	21	5.1	20	72	6	73	35	23	18	23	1.95
6456458--6456651	20	9.6	20	81	5	221	35	25	19	19	1.95
6456458--6456651	60	3.2	60	83	0	253	35	25	19	19	1.95
6457032--6457102	33	2.2	33	92	0	115	11	22	18	47	1.80
6457223--6457277	14	3.6	14	73	21	56	40	23	27	9	1.85
6457223--6457293	33	2.2	33	92	0	115	42	25	23	8	1.82
6457289--6457386	19	5.7	19	70	22	81	10	24	22	42	1.84
6457311--6457400	14	5.7	14	74	23	81	8	25	23	42	1.83
6457294--6457408	33	3.5	33	95	0	212	9	24	20	45	1.81
6459106--6459487	185	2.1	186	98	0	748	22	12	18	46	1.83
6459106--6459485	93	4.1	93	98	0	744	22	12	18	46	1.83
6459529--6459657	19	7.3	19	75	17	125	46	28	16	8	1.76
6459565--6459657	33	2.8	32	91	4	150	47	27	17	7	1.74
6459529--6459657	52	2.5	52	72	14	131	46	28	16	8	1.76
6459653--6459787	19	7.6	19	76	16	137	10	19	24	45	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6459675--6459731	14	3.7	14	77	20	60	8	21	24	45	1.80
6459658--6459750	33	2.8	33	98	0	177	9	20	22	47	1.79
6461600--6461672	38	1.9	38	97	0	137	28	1	16	53	1.51
6461595--6461659	19	3.4	19	64	8	51	24	1	15	58	1.46
6461654--6461689	14	2.6	14	95	0	63	33	0	22	44	1.53
6461796--6461897	19	5.6	19	83	13	142	44	17	22	15	1.87
6461904--6462222	33	9.1	36	82	14	320	14	21	16	46	1.83
6461926--6462250	19	18.4	19	80	15	396	14	20	17	47	1.83
6461904--6462222	52	6.0	52	93	4	541	14	21	16	46	1.83
6464557--6464581	12	2.1	12	100	0	50	0	28	0	72	0.86
6464756--6464802	24	2.0	24	87	8	69	38	21	14	25	1.92
6465475--6465843	20	18.5	20	86	4	458	20	18	26	34	1.96
6469120--6469183	6	10.7	6	100	0	128	15	0	0	84	0.63
6473350--6473598	21	12.0	21	71	13	149	22	19	23	34	1.96
6473377--6473595	42	5.3	42	94	1	388	21	18	24	35	1.95
6475084--6475184	34	2.8	36	85	7	134	30	14	12	41	1.84
6475722--6475798	22	3.5	22	90	0	127	23	10	25	40	1.86
6476401--6476448	19	2.6	18	83	6	60	2	12	6	79	1.01
6476414--6476453	18	2.2	19	90	4	64	0	15	5	80	0.88
6477609--6477642	14	2.3	15	95	5	61	58	11	14	14	1.63
6479670--6479721	19	2.7	20	80	11	63	71	0	9	19	1.13
6479799--6479853	2	27.5	2	92	0	92	54	0	0	45	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6480560--6480590	6	5.2	6	92	0	53	3	16	48	32	1.62
6480684--6480827	42	3.5	42	94	4	256	34	25	19	20	1.96
6480730--6480881	59	2.5	57	87	6	160	36	25	18	20	1.95
6480709--6480917	101	2.1	100	93	3	357	35	25	18	20	1.95
6480749--6480886	59	2.3	61	91	6	219	34	25	18	21	1.96
6480812--6480917	40	2.7	40	91	2	162	36	24	17	20	1.94
6480932--6480984	21	2.5	21	93	0	88	20	22	28	28	1.99
6484913--6484941	13	2.1	14	93	6	51	51	27	6	13	1.66
6489799--6489823	3	8.3	3	100	0	50	0	32	0	68	0.90
6494401--6494446	3	15.3	3	81	0	56	2	4	26	67	1.21

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