genome.fa.s1547.2.7.7.80.10.50.1000.48.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  48  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)
9331581--9331626	21	2.2	21	84	7	58	41	4	2	52	1.33
9336488--9336581	26	3.6	26	91	1	152	28	28	13	28	1.95
9343629--9343729	22	4.5	22	71	7	94	38	0	9	51	1.35
9343567--9343684	15	7.5	15	81	13	139	45	0	2	51	1.14
9343664--9344074	32	13.3	32	74	18	356	34	0	12	53	1.40
9343582--9343739	69	2.3	67	86	6	212	42	0	6	51	1.27
9343664--9344190	54	9.4	54	75	16	404	34	0	12	53	1.40
9343786--9343833	22	2.4	18	73	23	51	33	0	14	52	1.42
9343795--9343863	22	3.0	22	78	15	84	31	0	15	52	1.44
9343709--9344045	134	2.4	144	88	8	489	34	0	12	52	1.42
9343776--9344190	177	2.4	178	80	13	283	34	0	12	53	1.41
9343970--9344055	14	5.6	14	68	20	55	33	0	9	56	1.31
9343993--9344190	81	2.3	89	80	14	249	33	0	12	53	1.39
9343920--9344040	18	7.4	18	62	20	68	32	0	13	53	1.45
9344049--9344123	23	3.1	23	79	9	87	25	0	17	57	1.40
9344205--9344263	31	1.9	31	92	0	100	42	10	6	40	1.65
9348105--9348177	32	2.3	31	81	11	94	20	6	6	65	1.40
9350057--9350227	29	5.9	29	85	4	238	53	14	1	31	1.48
9353859--9353909	21	2.6	20	75	22	54	50	3	27	17	1.63
9357030--9357077	22	2.3	20	82	13	53	22	12	2	62	1.40
9361523--9361574	25	2.1	25	82	7	61	42	0	1	55	1.10
9362002--9362136	58	2.3	60	81	10	163	34	19	5	41	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9362002--9362167	60	2.8	59	77	11	178	33	19	5	41	1.75
9371322--9371429	30	3.6	32	72	21	101	43	0	0	55	1.06
9371330--9371397	20	3.3	20	87	8	84	44	0	0	55	0.99
9371321--9371429	16	6.6	15	71	20	76	43	0	0	55	1.05
9371322--9371438	18	6.9	17	72	18	93	43	0	0	55	1.05
9371322--9371367	2	23.0	2	95	0	83	47	0	0	52	1.00
9371328--9371431	32	3.3	31	85	11	133	44	0	0	54	1.06
9375284--9375351	34	2.0	34	88	0	100	29	7	20	42	1.79
9387046--9387070	13	1.9	13	100	0	50	16	8	28	48	1.74
9389446--9389488	23	1.9	23	90	4	70	30	9	34	25	1.87
9400059--9400110	26	2.0	26	96	0	95	36	7	25	30	1.84
9405469--9405554	29	3.0	29	94	0	145	19	30	31	18	1.96
9405816--9405847	16	2.0	16	93	0	55	18	28	31	21	1.97
9405832--9405888	29	2.0	29	89	0	87	14	29	31	24	1.94
9406315--9406469	75	2.1	76	98	1	303	30	21	20	27	1.98
9407679--9407720	21	2.0	21	100	0	84	47	14	23	14	1.80
9407750--9407805	29	1.9	29	96	0	103	12	37	30	19	1.89
9407809--9407902	33	2.8	33	88	3	127	8	38	26	26	1.85
9407821--9407953	10	12.3	10	70	15	86	9	35	30	24	1.88
9407846--9407933	20	4.2	20	84	8	113	9	32	32	25	1.87
9407920--9407947	14	2.0	14	100	0	56	7	28	42	21	1.79
9407846--9407951	53	2.0	53	86	1	149	9	32	33	24	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9408257--9408330	30	2.5	30	88	0	103	35	13	31	20	1.91
9408394--9408488	4	25.2	4	66	16	51	49	1	0	49	1.07
9408394--9408488	6	16.8	6	74	16	51	49	1	0	49	1.07
9408397--9408488	40	2.2	42	85	11	120	50	1	0	48	1.08
9408938--9408990	23	2.3	23	80	9	63	20	15	9	54	1.68
9415985--9416017	16	2.0	17	88	5	50	75	0	9	15	1.03
9418008--9418519	36	14.7	36	72	15	346	41	11	18	29	1.86
9417890--9418518	138	4.6	138	91	1	944	40	11	18	29	1.86
9418288--9418350	21	3.3	21	68	25	66	46	4	19	30	1.70
9418429--9418488	19	3.3	18	68	17	52	46	5	18	30	1.70
9422290--9422341	24	2.2	24	96	0	95	28	13	28	28	1.94
9422299--9422352	24	2.2	24	86	0	72	35	14	24	25	1.94
9425321--9425390	28	2.5	28	93	2	124	50	8	0	41	1.33
9425490--9425559	28	2.5	28	93	2	124	50	8	0	41	1.33
9425272--9425607	169	2.0	169	100	0	672	43	12	2	41	1.56
9427074--9427219	60	2.5	60	83	9	183	41	5	19	33	1.74
9430176--9430202	13	2.1	13	100	0	54	44	11	14	29	1.80
9433571--9433633	3	20.7	3	84	15	85	33	0	0	66	0.92
9435058--9435087	3	10.0	3	92	0	51	33	3	0	63	1.11
9438141--9438188	2	24.5	2	95	4	89	0	47	0	52	1.00
9438394--9438444	10	4.7	10	74	25	50	23	39	27	9	1.86
9438397--9438424	14	2.0	14	100	0	56	21	42	28	7	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9438411--9438477	20	3.2	20	78	13	73	25	32	32	8	1.87
9438391--9438514	32	3.8	33	86	3	135	25	29	36	8	1.86
9438518--9438574	29	2.0	29	89	0	87	21	28	33	17	1.96
9439626--9439670	23	2.0	23	86	0	63	51	13	4	31	1.61
9445560--9445664	52	2.0	54	96	3	196	33	9	18	39	1.83
9449835--9450014	91	2.0	89	97	2	342	30	23	17	27	1.97
9462485--9462575	45	2.0	45	100	0	182	43	15	21	18	1.87
9464063--9464124	31	2.0	31	90	6	99	25	20	12	40	1.89
9474069--9474123	27	2.0	27	100	0	110	43	14	3	38	1.63
9477564--9477599	15	2.3	16	90	4	56	44	16	8	30	1.77
9478922--9478988	2	34.0	2	96	3	127	49	0	0	50	1.00
9481073--9481247	36	4.9	36	93	0	287	28	16	13	42	1.86
9490743--9491490	150	5.0	148	85	3	953	25	20	15	38	1.92
9490743--9491490	298	2.5	299	86	3	1000	25	20	15	38	1.92
9491875--9491939	33	2.0	33	93	0	112	27	21	15	35	1.94
9496587--9496655	33	2.1	33	91	0	111	31	21	24	21	1.98
9499527--9499562	18	1.9	18	88	5	54	58	11	0	30	1.33
9506608--9507242	320	2.0	314	98	1	1216	35	17	18	28	1.93
9512165--9512235	34	2.1	34	92	5	117	21	19	35	23	1.96
9516460--9516494	16	2.1	16	89	5	52	34	8	22	34	1.85
9522184--9522221	18	2.1	19	95	5	69	10	10	21	57	1.61
9533725--9533851	47	2.7	47	82	0	155	29	5	21	43	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9533970--9534048	36	2.2	36	89	8	119	51	8	12	26	1.69
9538206--9538372	75	2.2	75	90	1	253	49	13	7	29	1.70
9543390--9543450	2	30.5	2	100	0	122	49	0	0	50	1.00
9546220--9546273	13	4.2	13	81	13	76	25	1	33	38	1.67
9549784--9549826	22	2.0	22	100	0	86	41	4	11	41	1.62
9555628--9555688	24	2.5	24	97	0	113	37	26	18	18	1.93
9568863--9568903	22	2.0	21	90	9	66	29	12	4	53	1.58
9571603--9571717	5	23.4	5	96	3	216	40	0	0	60	0.97
9575134--9575167	17	2.0	17	88	0	50	23	0	5	70	1.09
9575580--9575621	2	22.0	2	83	9	52	45	0	4	50	1.23
9575580--9575629	16	3.0	16	91	5	73	44	2	6	48	1.39
9587105--9587146	9	4.7	9	80	19	52	14	2	0	83	0.75
9587107--9587141	10	3.4	10	88	4	52	11	2	0	85	0.69
9587105--9587146	18	2.3	18	95	0	75	14	2	0	83	0.75
9587455--9587709	125	2.0	127	98	1	496	32	9	11	45	1.73
9599479--9599579	50	2.0	50	100	0	202	30	3	27	37	1.75
9601865--9601891	14	1.9	14	100	0	54	33	51	0	14	1.43
9602702--9602732	3	10.7	3	93	6	55	64	0	0	35	0.94
9602907--9603872	36	26.8	36	89	2	1381	21	22	20	35	1.96
9603850--9603958	47	2.3	47	88	0	164	32	22	16	29	1.96
9604101--9604217	62	1.9	62	83	1	155	40	14	16	29	1.88
9604808--9605131	171	1.9	171	83	5	422	31	19	16	32	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9612322--9612370	22	2.2	23	85	10	66	55	12	22	10	1.66
9612322--9612387	23	2.9	24	82	8	75	48	12	24	15	1.78
9613784--9613830	2	24.0	2	86	4	69	48	2	2	46	1.25
9617192--9617244	23	2.3	23	100	0	106	41	13	16	28	1.86
9620234--9620280	25	1.9	25	86	4	69	38	8	0	53	1.32
9622007--9622110	37	2.8	37	82	0	127	41	13	13	31	1.83
9622948--9622998	4	12.2	4	84	15	68	21	3	0	74	0.98
9626046--9626106	14	4.5	13	76	10	50	80	6	13	0	0.90
9626034--9626097	22	3.0	20	80	15	65	76	7	15	0	1.00
9626074--9626116	15	2.9	15	80	16	54	76	9	11	2	1.10

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