genome.fa.s1129.2.7.7.80.10.50.1000.31.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: VEPZ01001129.1 Hibiscus syriacus cultivar Beakdansim tig00002237_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  21326069

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   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   

This is table  31  of  89  ( 10573 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)
6678076--6678132	21	2.7	21	91	0	96	43	5	24	26	1.75
6680003--6680166	5	32.8	5	68	21	62	78	1	15	4	1.00
6680002--6680156	11	14.1	11	71	18	67	78	1	14	4	0.99
6680062--6680152	6	14.8	6	74	17	80	81	1	14	3	0.88
6680062--6680159	25	4.1	23	77	17	101	80	1	15	3	0.89
6680002--6680156	15	10.9	13	71	18	89	78	1	14	4	0.99
6680002--6680142	43	3.3	43	74	15	132	78	2	14	4	1.00
6680074--6680169	29	3.2	29	83	5	104	81	1	15	2	0.85
6680087--6680174	15	5.6	15	75	12	70	78	0	18	3	0.89
6680509--6680540	16	2.0	16	100	0	64	56	0	25	18	1.42
6683854--6684004	40	3.8	40	98	0	293	23	16	27	32	1.96
6684516--6684620	54	1.9	54	96	0	192	28	24	11	35	1.90
6685107--6685252	52	2.8	52	92	3	233	21	23	17	36	1.94
6686557--6686697	11	12.0	11	73	15	88	1	19	0	78	0.82
6686546--6686697	26	5.7	26	75	17	116	1	19	0	78	0.85
6686557--6686663	11	8.5	13	76	18	95	1	17	0	80	0.80
6686558--6686695	21	6.3	22	71	19	78	1	20	0	78	0.83
6689640--6689678	6	6.2	6	82	11	51	48	15	20	15	1.81
6689632--6689678	20	2.3	20	96	0	85	48	14	21	14	1.80
6694655--6694711	16	3.6	16	88	4	89	26	5	49	19	1.69
6694649--6694711	31	2.0	31	96	0	117	28	4	49	17	1.67
6694649--6694698	15	3.3	15	88	5	82	30	6	50	14	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6697332--6697384	23	2.3	23	81	12	65	47	0	0	52	1.00
6697562--6697611	21	2.4	21	75	18	50	48	4	0	48	1.20
6703908--6703960	21	2.5	21	81	0	70	33	16	16	32	1.92
6709927--6709997	22	3.3	20	80	9	70	29	21	22	26	1.99
6709934--6709996	21	3.0	21	88	4	90	25	23	23	26	2.00
6710500--6710645	66	2.2	69	77	11	162	21	21	25	31	1.98
6710542--6710667	66	1.9	66	85	6	175	21	19	26	32	1.97
6713477--6714792	225	5.9	223	77	8	1126	31	20	19	28	1.97
6715194--6715235	2	21.0	2	81	18	52	47	0	4	47	1.23
6715223--6715309	29	3.1	27	81	9	95	52	1	4	41	1.29
6715336--6715386	26	2.0	26	84	7	68	49	1	1	47	1.24
6720648--6721213	105	5.4	105	95	0	927	22	18	25	33	1.97
6721951--6722060	55	1.9	58	85	5	154	12	20	12	53	1.71
6731453--6731496	20	2.2	20	88	8	63	72	2	6	18	1.17
6732481--6732547	27	2.5	27	80	4	82	64	1	7	26	1.29
6742306--6742439	21	6.6	20	77	4	133	39	17	24	17	1.92
6742306--6742439	20	6.6	20	77	4	133	39	17	24	17	1.92
6742428--6742542	20	5.7	20	78	5	97	35	22	17	24	1.95
6742306--6742439	41	3.3	41	98	0	259	39	17	24	17	1.92
6742425--6742502	41	1.9	41	86	0	111	39	21	16	21	1.92
6742710--6742753	22	2.0	22	95	0	79	20	45	15	18	1.85
6743017--6743054	20	1.9	20	88	0	58	13	15	21	50	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6744373--6744417	18	2.5	18	85	0	63	26	42	15	15	1.87
6744889--6744955	20	3.4	20	81	2	73	38	23	22	14	1.92
6744944--6745001	14	3.9	14	79	16	71	48	25	17	8	1.75
6744928--6745006	32	2.4	33	95	2	142	46	24	18	10	1.80
6745013--6745166	19	8.6	19	73	14	105	12	19	24	43	1.86
6745035--6745092	14	3.9	14	79	16	71	8	17	25	48	1.75
6745018--6745108	32	2.8	33	94	3	166	10	18	23	47	1.80
6745093--6745147	20	2.8	19	83	5	74	16	23	23	36	1.94
6746996--6747031	14	2.6	14	90	0	54	30	0	22	47	1.52
6747138--6747214	14	4.7	15	74	22	59	45	19	22	12	1.84
6747148--6747214	18	3.8	19	81	18	92	46	17	22	13	1.83
6747227--6747263	14	2.6	14	100	0	74	16	18	24	40	1.90
6747254--6747303	20	2.5	20	86	0	73	18	24	22	36	1.95
6747670--6747705	14	2.6	14	90	0	54	30	0	22	47	1.52
6748949--6749002	24	2.2	24	86	0	72	25	16	18	38	1.92
6749177--6749201	12	2.1	12	100	0	50	72	0	28	0	0.86
6751495--6751559	19	3.7	19	70	19	68	43	20	24	12	1.86
6751555--6751597	20	2.2	20	87	4	61	16	18	23	41	1.89
6751583--6751616	14	2.4	14	85	0	50	8	23	20	47	1.78
6751738--6751774	14	2.6	15	87	12	60	48	21	0	29	1.50
6753168--6753251	42	2.0	42	85	0	114	22	16	39	21	1.92
6755244--6755414	19	9.1	19	83	10	190	43	22	21	12	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6755244--6755414	39	4.6	38	79	10	190	43	22	21	12	1.86
6755410--6755454	19	2.4	19	92	0	72	8	15	26	48	1.74
6756005--6756056	20	2.6	20	87	6	70	25	17	28	28	1.97
6756067--6756159	20	4.6	20	81	4	105	19	24	17	38	1.92
6756060--6756162	41	2.6	41	93	3	174	20	22	15	41	1.89
6761388--6761451	29	2.2	29	91	0	101	34	9	10	45	1.72
6761527--6761744	29	7.4	29	76	5	186	31	7	13	47	1.71
6761536--6761753	119	1.8	118	89	1	337	31	8	12	46	1.73
6761747--6761894	67	2.2	69	86	4	203	42	16	4	35	1.70
6763018--6763047	15	2.0	15	93	0	51	56	10	6	26	1.57
6770822--6770954	22	6.1	20	72	20	65	45	1	7	45	1.41
6770842--6770967	22	5.5	23	77	15	127	45	1	7	45	1.42
6770821--6770943	44	2.8	44	73	20	114	45	1	6	46	1.38
6772424--6772462	20	2.0	20	85	10	53	25	2	0	71	0.98
6773183--6773225	22	2.0	22	86	9	61	39	11	6	41	1.68
6773436--6773470	15	2.3	15	95	0	61	31	34	20	14	1.92
6777271--6777336	2	34.5	2	91	8	111	48	0	0	51	1.00
6777268--6777336	19	3.7	19	92	7	124	47	0	0	52	1.00
6777273--6777336	17	3.6	17	91	8	110	48	0	0	51	1.00
6778779--6778814	19	1.9	19	88	5	56	52	8	2	36	1.46
6779115--6779156	22	1.9	22	85	9	59	40	9	7	42	1.65
6779367--6779401	15	2.3	15	95	0	61	28	31	22	17	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6780080--6780120	18	2.3	18	100	0	82	39	26	0	34	1.57
6786982--6787024	20	2.2	20	84	15	56	20	30	18	30	1.97
6787801--6788149	82	4.2	80	79	7	333	28	20	17	33	1.95
6787785--6788150	41	8.9	41	75	7	294	28	19	18	34	1.95
6787785--6788150	165	2.2	164	82	3	423	28	19	18	34	1.95
6787785--6788126	124	2.8	121	79	5	398	27	19	18	35	1.95
6790443--6790512	14	4.7	14	68	25	54	31	1	30	37	1.66
6790408--6790533	46	2.7	46	98	0	243	26	2	34	37	1.69
6791943--6791976	2	17.0	2	93	0	59	47	0	0	52	1.00
6794579--6794904	43	7.7	43	80	6	211	26	21	18	33	1.96
6794579--6794855	127	2.2	126	82	3	331	27	20	17	33	1.96
6794613--6794904	84	3.4	84	83	2	343	26	21	18	33	1.96
6795780--6795856	22	3.6	23	69	15	74	33	2	15	48	1.59
6795776--6795869	42	2.2	42	94	3	163	35	2	14	47	1.57
6797556--6797626	2	35.5	2	94	0	124	50	2	0	46	1.16
6800547--6800588	3	14.0	3	94	0	75	66	2	0	30	1.04
6801773--6801853	40	2.0	40	100	0	162	58	7	12	22	1.59
6802799--6802862	27	2.4	27	83	0	83	31	15	12	40	1.85
6804054--6804256	101	2.0	102	98	0	390	41	10	13	34	1.78
6804802--6804935	67	2.0	67	97	0	250	43	23	11	20	1.85
6823925--6823970	23	2.0	23	91	0	74	28	21	21	28	1.99
6823932--6823983	23	2.3	23	93	0	86	23	21	25	30	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6829750--6829794	23	2.0	23	90	0	72	26	24	20	28	1.99
6837150--6837180	2	15.5	2	100	0	62	51	0	0	48	1.00
6838104--6838143	18	2.2	18	86	0	53	50	5	2	42	1.37
6847137--6847166	14	2.2	14	94	5	53	40	3	0	56	1.16
6847334--6847368	18	2.0	17	88	5	52	57	0	0	42	0.99
6851828--6852723	81	11.1	81	89	0	1261	30	23	10	35	1.89
6854970--6855064	45	2.1	46	84	3	122	23	20	9	47	1.79
6854983--6855099	49	2.5	45	83	5	135	25	23	6	44	1.78
6855129--6856112	81	12.1	81	89	0	1356	29	23	11	35	1.89
6856745--6856808	22	3.1	21	78	10	62	26	25	17	31	1.97

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   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89