genome.fa.s9643.2.7.7.80.10.50.1000.30.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: VEPZ01009643.1 Hibiscus syriacus cultivar Beakdansim tig00117056_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8859806

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   

This is table  30  of  41  ( 4862 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)
6380228--6380299	28	2.5	28	86	8	92	58	2	0	38	1.13
6383536--6383594	30	2.0	30	86	0	82	18	35	28	16	1.93
6383552--6383669	30	3.9	31	80	4	116	18	31	29	20	1.96
6383552--6383669	60	2.0	60	83	3	148	18	31	29	20	1.96
6384737--6384763	12	2.2	12	100	0	54	62	0	0	37	0.95
6389318--6389420	34	2.9	36	89	7	165	44	13	14	27	1.83
6389808--6389849	18	2.5	18	88	11	63	26	4	2	66	1.23
6390363--6390388	2	13.0	2	100	0	52	50	0	0	50	1.00
6394835--6394883	22	2.2	22	92	0	80	32	24	14	28	1.94
6395760--6395943	36	5.1	35	79	6	172	25	19	15	40	1.90
6395770--6395942	72	2.4	73	82	5	210	26	19	15	39	1.91
6395812--6396057	36	7.0	36	75	9	229	26	18	13	40	1.88
6395868--6396108	102	2.4	101	84	2	295	27	19	12	40	1.88
6396832--6397663	105	8.0	105	91	1	1280	34	26	17	22	1.96
6398211--6398312	34	2.9	36	91	5	172	44	13	14	27	1.83
6398701--6398742	18	2.6	16	81	11	50	23	4	2	69	1.20
6398790--6398841	26	2.0	26	82	14	63	32	3	0	63	1.12
6399012--6399070	31	1.9	31	86	6	84	22	1	1	74	1.00
6399008--6399062	21	2.6	21	73	0	56	23	1	1	72	1.04
6399254--6399289	2	18.0	2	94	0	63	47	0	0	52	1.00
6400674--6400990	158	2.0	157	86	4	442	48	16	5	30	1.68
6401455--6401499	16	2.8	16	96	0	81	53	24	13	8	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6406386--6407009	315	2.0	309	91	1	1005	21	27	20	30	1.98
6409675--6409717	20	2.2	20	86	0	59	44	2	18	34	1.63
6414551--6414588	15	2.4	16	80	20	53	42	7	2	47	1.46
6416689--6416724	2	18.0	2	94	0	63	47	0	2	50	1.15
6416722--6416901	4	45.0	4	97	0	333	25	0	24	50	1.50
6417882--6417968	26	3.3	26	88	6	124	13	12	0	73	1.10
6419854--6419925	15	4.8	15	75	0	72	15	13	52	18	1.74
6419854--6419925	30	2.4	30	90	0	108	15	13	52	18	1.74
6420331--6420376	20	2.2	20	80	3	56	21	26	15	36	1.93
6420363--6420418	20	2.8	20	94	0	94	26	28	8	35	1.87
6420388--6420519	40	3.3	41	81	7	155	29	23	12	34	1.92
6420391--6420499	20	5.4	20	76	16	75	27	24	13	33	1.93
6420409--6420521	20	5.6	19	77	11	77	30	23	13	33	1.92
6424136--6424287	64	2.4	64	87	2	207	51	17	1	29	1.56
6424269--6424298	14	2.1	14	100	0	60	43	20	0	36	1.52
6425639--6425753	21	5.5	21	75	4	106	25	20	33	20	1.97
6425639--6425760	42	2.9	42	85	0	163	26	19	33	20	1.97
6427870--6427972	19	5.4	19	87	2	136	44	21	18	15	1.86
6428338--6428381	22	2.0	22	86	0	61	22	11	40	25	1.87
6428491--6428528	20	2.0	20	84	5	51	44	15	13	26	1.83
6428554--6428598	20	2.2	20	84	0	54	24	20	20	35	1.96
6428562--6428617	20	2.8	20	91	0	85	19	19	19	41	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6439916--6440048	63	2.1	63	80	9	155	18	27	26	27	1.98
6444143--6444187	23	2.0	23	86	8	65	37	4	4	53	1.41
6449579--6449665	30	2.9	30	82	5	86	31	14	11	42	1.82
6462044--6462071	6	4.7	6	100	0	56	17	46	0	35	1.49
6476503--6476638	68	2.0	68	94	2	238	39	24	12	23	1.89
6481502--6481672	20	8.4	20	83	3	189	36	17	24	21	1.94
6481481--6481672	40	4.7	40	81	5	213	36	17	24	20	1.94
6481481--6481664	83	2.2	83	93	0	305	36	17	25	21	1.94
6481397--6481674	20	13.6	20	74	8	112	38	19	22	19	1.93
6482507--6482539	6	5.5	6	92	0	57	0	12	51	36	1.39
6482617--6482656	20	2.0	20	90	0	62	10	17	20	52	1.72
6482649--6482799	20	7.4	20	88	4	203	19	28	17	34	1.95
6482649--6482820	63	2.8	63	87	2	242	19	27	18	34	1.95
6482627--6482943	20	15.6	20	77	7	120	17	23	20	39	1.92
6482874--6482943	19	3.6	19	94	1	113	15	17	24	42	1.88
6483590--6483654	27	2.4	27	78	16	73	70	0	9	20	1.13
6483695--6483724	13	2.3	13	94	0	51	76	6	0	16	0.99
6483695--6483770	26	3.0	26	77	14	68	72	2	1	23	1.05
6483713--6483862	45	3.3	46	80	11	166	66	2	2	29	1.13
6483717--6483842	19	6.9	18	69	20	59	66	1	1	30	1.10
6483717--6483867	47	3.3	46	79	11	134	66	1	1	29	1.14
6483824--6483884	26	2.2	28	85	5	81	65	3	3	27	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6484389--6484496	37	2.9	37	90	0	162	29	12	15	41	1.85
6485004--6485257	83	3.0	84	86	4	307	24	18	22	33	1.97
6485295--6485559	67	4.1	64	76	11	249	40	13	18	28	1.88
6485456--6485500	22	2.1	21	83	4	54	51	15	11	22	1.75
6485505--6485612	50	2.2	50	96	0	198	39	10	21	28	1.86
6485603--6485820	36	6.1	36	87	3	307	39	12	19	27	1.88
6485603--6485820	108	2.0	107	90	4	341	39	12	19	27	1.88
6486199--6486280	32	2.6	32	94	0	146	21	20	26	30	1.98
6487800--6487879	17	5.1	15	74	20	58	1	18	5	75	1.06
6487837--6487869	7	4.7	7	96	0	57	3	21	0	75	0.93
6490927--6491010	34	2.5	34	83	9	102	72	1	4	21	1.10
6490923--6491049	35	3.4	36	81	15	118	71	1	3	22	1.11
6490917--6491041	9	13.5	8	70	20	52	72	1	4	21	1.09
6490949--6491051	38	2.7	39	85	14	126	70	1	3	23	1.13
6490971--6491126	52	3.1	49	77	15	153	66	3	2	28	1.21
6491658--6491728	37	1.9	37	91	0	115	29	11	15	43	1.81
6493610--6493647	2	19.0	2	100	0	76	50	0	0	50	1.00
6496458--6496482	2	12.5	2	100	0	50	48	0	0	52	1.00
6501405--6501439	16	2.2	16	89	0	52	62	0	34	2	1.10
6523196--6523236	18	2.4	18	88	8	59	41	17	4	36	1.71
6524745--6524776	2	16.0	2	100	0	64	50	0	0	50	1.00
6534838--6534890	26	2.0	26	100	0	106	39	18	22	18	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6546396--6546433	18	2.2	17	90	9	60	42	0	21	36	1.53
6549798--6549839	2	21.0	2	90	0	66	50	4	0	45	1.23
6553136--6553273	62	2.2	63	88	1	197	31	20	21	26	1.98
6554592--6554645	18	3.0	18	97	0	99	11	20	33	35	1.88
6554489--6554740	139	1.8	139	92	0	432	24	15	24	36	1.94
6554757--6554813	23	2.5	23	85	0	78	24	26	22	26	2.00
6558416--6558453	19	2.0	20	94	5	69	28	15	28	26	1.96
6558421--6558558	63	2.2	62	86	1	186	32	19	21	26	1.97
6559877--6559930	18	3.0	18	97	0	99	11	18	33	37	1.86
6559774--6560034	139	1.9	139	95	0	468	23	14	25	36	1.92
6560041--6560101	23	2.7	23	89	0	95	19	26	27	26	1.99
6565504--6565547	20	2.2	20	95	0	79	27	18	22	31	1.97
6568522--6569007	229	2.1	228	95	0	875	44	8	7	39	1.62
6569286--6569332	20	2.4	19	89	10	76	55	10	17	17	1.69
6569466--6569512	20	2.4	19	82	10	67	53	10	17	19	1.72
6569074--6569545	180	2.6	182	89	1	689	42	14	16	26	1.87
6569475--6569517	20	2.3	19	88	11	63	51	11	16	20	1.75
6571742--6571806	21	3.1	21	79	0	76	38	13	30	16	1.88
6571840--6571905	33	2.0	33	90	0	105	28	0	48	22	1.51
6573697--6573745	19	2.6	19	93	0	80	30	2	10	57	1.43
6573864--6575634	199	8.9	199	98	0	3287	36	15	16	31	1.90
6577095--6577186	6	15.3	6	76	4	60	38	7	33	20	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6577146--6577190	3	15.0	3	85	0	63	37	2	33	26	1.69
6577098--6577166	36	1.9	36	90	0	111	36	10	33	20	1.86
6577098--6577186	12	7.4	12	81	0	79	37	7	33	21	1.82
6577095--6577186	18	5.1	18	75	5	69	38	7	33	20	1.81
6578693--6579184	183	2.7	182	94	1	869	34	15	17	33	1.91
6580698--6580762	25	2.6	25	80	0	85	35	9	13	41	1.77
6581109--6581158	23	2.2	23	88	0	73	34	4	24	38	1.74
6581304--6581370	30	2.2	29	82	10	73	52	4	0	43	1.21
6582930--6582979	20	2.5	20	93	0	82	44	20	16	20	1.87
6583176--6583241	22	3.0	22	86	0	87	25	37	15	21	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