genome.fa.s8356.2.7.7.80.10.50.1000.40.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: VEPZ01008356.1 Hibiscus syriacus cultivar Beakdansim tig00111095_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12862612

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   

This is table  40  of  56  ( 6656 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)
9226807--9227063	128	2.0	128	99	0	505	25	15	19	38	1.92
9228951--9229027	39	2.0	39	97	0	145	44	11	18	25	1.84
9229556--9229634	40	2.0	40	92	0	131	29	12	34	24	1.92
9235113--9235186	33	2.2	33	90	4	114	36	17	8	37	1.80
9241020--9241124	49	2.1	49	98	0	201	35	31	5	27	1.80
9246481--9246690	65	3.2	65	81	11	211	31	23	18	26	1.97
9260707--9260758	21	2.7	18	72	18	50	51	0	0	48	1.00
9260696--9260802	43	2.6	42	81	12	107	42	0	3	53	1.18
9260717--9260801	21	3.9	21	69	7	62	43	0	2	54	1.13
9260718--9260774	25	2.3	25	78	6	62	45	0	3	50	1.18
9265222--9265280	26	2.3	26	93	0	100	38	23	3	33	1.72
9271539--9271571	16	2.1	16	88	11	50	36	18	12	33	1.88
9275683--9275735	21	2.5	21	93	6	90	45	9	15	30	1.77
9275429--9275965	283	1.9	283	91	2	873	36	9	16	37	1.81
9276120--9276486	197	1.9	197	86	2	522	34	13	19	32	1.91
9277981--9278013	12	2.6	13	85	9	50	21	12	6	60	1.53
9282239--9282287	21	2.3	21	79	6	55	28	30	12	28	1.93
9287211--9287255	20	2.3	20	88	3	65	37	0	24	37	1.56
9291740--9291986	61	4.1	60	85	4	318	27	26	16	28	1.97
9291740--9291986	122	2.0	122	90	1	388	27	26	16	28	1.97
9292127--9292173	22	2.1	22	88	0	67	46	14	4	34	1.64
9293296--9293340	20	2.3	19	84	3	54	40	24	0	35	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9294509--9294565	29	2.0	29	86	6	80	36	17	3	42	1.67
9297289--9297349	19	3.2	19	86	6	70	13	26	0	60	1.33
9297884--9297942	15	3.9	15	70	0	55	30	18	22	28	1.97
9299416--9299443	13	2.2	13	100	0	56	32	39	0	28	1.57
9302207--9302252	24	1.9	24	83	16	60	23	19	0	56	1.42
9302690--9302726	17	2.2	17	100	0	74	45	0	0	54	1.00
9306618--9306693	8	9.9	8	71	12	52	36	3	22	36	1.73
9306782--9306883	23	4.4	23	82	0	105	17	21	24	36	1.95
9306782--9306878	46	2.1	46	88	0	140	18	22	22	36	1.95
9306872--9306930	24	2.5	24	80	5	66	23	18	22	35	1.96
9308102--9308141	21	2.0	20	90	5	62	50	5	10	35	1.58
9324467--9324539	19	3.8	19	73	10	58	46	10	15	27	1.79
9324467--9324520	19	2.8	19	81	13	65	51	9	11	27	1.67
9326782--9326818	19	1.9	20	88	5	58	40	13	0	45	1.43
9328607--9328653	24	2.0	23	88	12	69	68	0	0	31	0.90
9328868--9328903	8	4.5	8	92	0	54	38	0	0	61	0.96
9328866--9328922	24	2.4	24	76	5	62	38	1	0	59	1.08
9329233--9329420	97	2.0	93	93	4	322	44	21	3	30	1.70
9333986--9334025	21	1.9	21	89	0	62	10	25	40	25	1.86
9334008--9334067	19	2.9	20	85	9	68	16	26	35	21	1.95
9343841--9343880	21	2.0	20	90	5	62	32	2	0	65	1.06
9349759--9349915	66	2.4	66	80	4	167	31	16	22	29	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9350299--9350340	16	2.5	17	92	7	77	14	45	0	40	1.45
9352552--9352605	23	2.5	21	78	6	54	27	20	24	27	1.99
9352547--9352690	43	3.3	43	85	4	166	27	19	23	29	1.98
9352592--9352690	43	2.3	43	96	3	182	27	19	23	30	1.98
9354637--9354671	15	2.3	15	95	0	61	2	31	11	54	1.51
9356506--9356552	21	2.3	20	89	7	69	34	4	0	61	1.15
9358826--9359367	272	2.0	272	97	0	1012	35	16	14	34	1.89
9359587--9359663	34	2.3	34	97	0	145	36	14	5	44	1.67
9361921--9361967	16	2.7	18	83	12	71	61	2	0	36	1.08
9362106--9362165	21	2.8	21	85	14	79	36	0	5	58	1.20
9362162--9362237	32	2.4	33	86	4	102	42	0	9	48	1.35
9369809--9369865	28	2.0	28	96	0	105	33	17	29	19	1.95
9375922--9376025	41	2.5	42	84	4	138	32	19	12	35	1.89
9376543--9376602	3	19.7	3	89	3	93	38	0	0	61	0.96
9387084--9387346	54	4.9	53	84	4	323	36	14	22	25	1.93
9387706--9387810	22	4.8	22	94	4	169	31	20	11	37	1.88
9388386--9388900	45	11.4	45	89	1	737	22	22	20	33	1.97
9388431--9388499	20	3.2	20	64	25	50	24	24	20	30	1.99
9389076--9389137	3	20.7	3	93	0	106	37	0	0	62	0.95
9390626--9390655	8	3.8	8	95	0	51	30	0	0	70	0.88
9392657--9392794	67	2.1	64	81	10	152	28	36	3	31	1.75
9396701--9396777	29	2.7	29	81	4	93	31	2	12	53	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9399406--9399449	11	3.9	12	88	11	67	70	0	0	29	0.88
9399477--9399518	15	2.6	16	77	7	50	30	30	23	14	1.94
9399710--9399797	35	2.5	35	81	1	95	53	15	2	28	1.55
9400806--9400853	3	15.7	3	83	12	62	37	0	2	60	1.09
9402114--9402160	2	23.5	2	100	0	94	51	0	0	48	1.00
9413330--9413363	10	3.3	10	87	4	50	76	0	23	0	0.79
9414971--9415003	3	11.0	3	87	12	50	33	0	3	63	1.10
9416318--9416352	2	17.5	2	100	0	70	51	0	0	48	1.00
9436033--9436072	19	2.1	19	85	0	53	7	27	0	65	1.20
9436054--9436095	21	2.0	22	85	4	59	7	26	0	66	1.17
9436607--9436678	20	3.6	20	80	0	81	30	19	16	33	1.94
9439616--9439824	111	1.9	111	87	0	310	33	13	19	33	1.91
9446235--9446271	20	1.9	18	89	10	56	29	0	10	59	1.31
9446814--9447014	111	1.8	111	88	0	312	32	15	16	35	1.90
9447482--9447518	20	1.9	18	89	10	56	29	0	10	59	1.31
9459451--9459507	22	2.6	22	81	15	73	31	22	26	19	1.98
9459458--9459504	22	2.1	23	92	4	78	29	27	23	19	1.98
9459712--9459751	16	2.5	15	84	11	53	37	20	7	35	1.81
9460697--9460735	19	2.1	19	90	0	60	35	17	10	35	1.84
9463329--9463413	31	2.7	32	89	3	129	37	27	16	18	1.92
9483227--9483267	20	2.2	20	91	8	68	41	17	9	31	1.82
9483939--9483979	14	2.9	14	81	0	55	75	0	4	19	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9483967--9484023	21	2.5	22	80	11	62	68	7	7	17	1.35
9485522--9485844	102	3.3	98	84	6	323	38	12	18	30	1.88
9485709--9486019	37	8.9	36	66	15	134	39	12	20	27	1.89
9485580--9485977	102	3.9	102	85	2	426	38	12	18	29	1.88
9486247--9486899	106	6.2	106	84	6	799	21	18	24	35	1.95
9486647--9486899	95	2.5	93	83	11	263	21	18	22	36	1.95
9487075--9487170	33	2.9	33	87	3	131	37	21	11	29	1.89
9488104--9488241	69	2.0	69	94	0	240	23	14	23	38	1.92
9488313--9488363	13	3.8	14	82	15	63	3	17	3	74	1.12
9488313--9488365	28	2.0	26	89	10	81	3	16	3	75	1.10
9491827--9491869	22	2.0	22	86	9	61	67	6	6	18	1.37
9496791--9496827	2	18.5	2	100	0	74	51	0	0	48	1.00
9499441--9499843	54	7.5	53	87	3	522	26	16	21	35	1.95
9499441--9499843	162	2.5	161	87	3	578	26	16	21	35	1.95
9522309--9522372	21	3.0	21	77	6	58	26	18	32	21	1.97
9522759--9522789	15	2.1	15	93	0	53	32	16	16	35	1.91
9562026--9562076	24	2.0	26	88	7	79	66	7	3	21	1.34
9562874--9562928	25	2.2	25	80	0	65	38	10	9	41	1.72
9563074--9563129	27	2.0	28	82	3	69	33	1	5	58	1.31
9563112--9563183	21	3.2	23	73	13	60	31	4	4	59	1.35
9565168--9565255	15	5.9	15	71	2	79	50	5	12	31	1.64
9565174--9565254	30	2.7	30	88	1	119	48	4	12	34	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9565417--9565469	16	2.9	19	73	21	51	43	1	1	52	1.23
9565567--9565629	23	2.7	23	80	5	63	46	1	1	50	1.20
9565615--9565677	27	2.2	28	83	10	76	53	1	0	44	1.10
9565655--9565702	24	2.0	24	83	0	60	58	2	0	39	1.10
9565613--9565714	29	3.5	29	78	15	86	53	1	0	44	1.11
9565730--9565773	22	2.0	23	86	4	63	54	0	0	45	0.99
9565605--9565787	30	6.1	29	68	15	86	53	1	0	45	1.12
9565947--9566066	42	2.9	42	87	3	154	48	15	15	21	1.81
9568668--9568692	6	4.2	6	100	0	50	16	0	0	84	0.63
9574092--9574123	10	3.2	10	100	0	64	40	0	18	40	1.51

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