genome.fa.s8094.2.7.7.80.10.50.1000.28.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: VEPZ01008094.1 Hibiscus syriacus cultivar Beakdansim tig00110610_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  9952466

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   

This is table  28  of  43  ( 5090 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)
5896731--5896795	16	3.9	16	74	20	62	55	0	0	44	0.99
5896729--5896796	3	22.0	3	82	5	55	55	0	0	44	0.99
5897017--5897242	123	1.8	123	86	1	328	24	17	14	42	1.87
5897159--5897643	113	4.3	112	83	4	562	30	18	13	37	1.90
5897158--5897643	229	2.1	225	88	2	713	30	18	13	37	1.90
5897553--5897738	95	2.0	95	84	2	248	33	18	14	33	1.91
5898626--5898844	83	2.6	83	98	0	420	38	24	12	24	1.90
5899701--5899762	16	3.6	17	91	6	83	51	8	8	32	1.60
5899719--5899762	16	2.8	16	100	0	88	54	9	6	29	1.58
5900100--5900147	5	10.2	5	82	13	66	0	16	0	83	0.65
5900100--5900147	9	5.1	10	82	12	66	0	16	0	83	0.65
5900094--5900147	13	4.1	13	86	11	74	0	16	0	83	0.65
5907460--5907491	15	2.1	15	94	0	55	46	9	18	25	1.79
5911255--5911284	16	1.9	15	93	6	51	50	3	0	46	1.18
5912925--5912995	3	23.0	3	85	5	79	59	0	0	40	0.98
5913833--5913885	27	2.0	27	100	0	106	30	18	18	32	1.96
5916414--5916460	16	3.0	16	75	3	51	31	6	19	42	1.76
5916399--5916460	31	2.0	32	87	6	92	30	9	20	38	1.85
5917233--5917267	16	2.2	16	89	0	52	31	11	11	45	1.76
5917543--5917579	4	9.2	4	87	0	56	70	0	2	27	1.01
5920651--5920691	2	20.5	2	100	0	82	48	0	0	51	1.00
5920825--5920871	23	2.0	23	100	0	94	57	4	0	38	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5920828--5920878	23	2.2	23	92	0	84	58	5	0	35	1.22
5921226--5921287	26	2.3	27	75	10	65	53	3	0	43	1.17
5924023--5924064	20	2.1	20	100	0	84	23	9	42	23	1.83
5926204--5926282	32	2.6	30	71	24	76	48	1	2	48	1.23
5926545--5926599	25	2.2	26	83	3	67	29	9	1	60	1.38
5933173--5933526	43	8.2	43	79	9	267	48	5	19	25	1.71
5933177--5933553	84	4.4	85	82	5	368	49	6	19	24	1.72
5933367--5933597	84	2.7	87	78	8	233	54	5	13	26	1.61
5934365--5934402	16	2.4	16	100	0	76	31	57	5	5	1.43
5936361--5936665	131	2.3	131	83	3	364	30	9	17	42	1.81
5943233--5943282	25	2.1	23	85	7	64	44	12	4	40	1.60
5945181--5945537	91	3.9	91	86	1	486	24	20	15	38	1.92
5945559--5945779	91	2.4	91	84	3	266	26	19	14	40	1.89
5945356--5945745	208	1.9	208	89	2	604	25	20	15	37	1.92
5946697--5946989	54	5.4	55	77	12	300	40	19	11	28	1.86
5948851--5948906	24	2.3	23	77	14	60	1	23	5	69	1.18
5948938--5948979	21	2.0	20	86	13	59	7	14	0	78	0.95
5949263--5949354	2	46.0	2	100	0	184	50	0	0	50	1.00
5953029--5953110	33	2.5	31	75	15	74	60	4	8	25	1.45
5955890--5955952	2	31.5	2	100	0	126	49	0	0	50	1.00
5955985--5956015	6	5.2	6	96	0	53	29	0	19	51	1.47
5959414--5959489	26	2.9	27	82	4	100	77	0	17	5	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5959486--5959648	7	23.4	7	92	6	269	73	0	14	12	1.11
5959475--5959659	21	9.8	17	84	10	83	73	0	15	10	1.09
5959485--5959674	28	7.3	25	83	13	121	73	0	14	11	1.09
5960949--5961257	135	2.3	135	88	2	433	29	22	17	30	1.96
5963709--5963763	24	2.3	24	100	0	110	36	9	14	40	1.78
5963511--5963760	131	1.9	130	82	4	315	32	8	18	40	1.81
5963578--5963891	155	2.0	155	84	2	407	32	10	15	40	1.82
5966110--5966183	21	3.7	20	77	10	62	27	16	22	33	1.95
5966737--5966783	7	6.6	7	80	11	51	59	19	2	19	1.48
5967383--5967501	59	2.0	59	100	0	238	36	25	10	28	1.88
5968590--5968629	21	1.9	21	89	0	62	45	5	10	40	1.60
5969916--5969985	23	3.1	22	67	22	56	54	5	4	35	1.44
5977344--5977387	12	3.6	12	84	3	52	27	15	6	50	1.70
5986070--5986114	21	2.2	20	84	11	56	33	17	24	24	1.96
5988791--5988841	21	2.5	21	83	3	68	27	13	25	33	1.94
5989568--5989617	19	2.6	19	80	3	55	66	6	12	16	1.43
5991208--5991259	25	2.1	25	96	0	95	40	7	21	30	1.81
5992188--5992212	12	2.1	12	100	0	50	48	8	0	44	1.32
5993587--5993754	38	4.5	38	68	16	75	31	20	10	37	1.86
5993619--5993786	38	4.5	37	74	7	151	32	20	9	37	1.85
5993366--5993679	73	4.3	73	74	7	260	28	17	12	41	1.85
5993554--5993786	113	2.1	112	85	0	313	32	20	10	37	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5993648--5993809	75	2.1	75	85	7	229	35	18	7	38	1.79
5993894--5994399	272	1.9	272	81	4	626	36	15	15	32	1.89
5993944--5994492	272	2.0	272	79	6	576	36	16	14	32	1.89
5994658--5994746	34	2.6	34	83	5	108	32	28	14	24	1.95
6001015--6001064	21	2.4	21	83	3	57	18	8	2	72	1.19
6005120--6005182	22	2.9	22	95	0	108	55	15	9	19	1.67
6010604--6010628	2	12.5	2	100	0	50	52	0	0	48	1.00
6010789--6010836	13	3.7	13	85	0	69	33	16	22	27	1.96
6026937--6027001	13	4.9	14	71	14	50	72	0	3	24	0.99
6026937--6027017	40	2.0	40	80	4	92	70	1	4	23	1.14
6029683--6029707	5	5.0	5	100	0	50	80	0	0	20	0.72
6037794--6038108	45	7.0	45	84	4	386	26	18	13	40	1.88
6037790--6038109	135	2.4	135	86	4	439	26	18	14	40	1.89
6046593--6046653	23	2.9	21	87	7	79	22	34	26	16	1.95
6046636--6046675	21	1.9	21	89	0	62	25	40	25	10	1.86
6053521--6053554	3	11.3	3	93	0	59	70	0	0	29	0.87
6054343--6054614	45	6.0	45	88	4	397	24	18	17	40	1.91
6055657--6055723	27	2.5	27	90	0	116	31	13	17	37	1.89
6056067--6056098	8	4.1	8	96	4	57	12	25	0	62	1.30
6057159--6057259	23	4.4	23	71	10	55	35	22	21	19	1.96
6057371--6057462	45	2.1	44	93	2	157	36	16	5	41	1.71
6063001--6063049	2	24.5	2	100	0	98	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6063423--6063493	16	4.7	15	72	20	67	35	18	4	42	1.70
6068711--6068763	22	2.4	22	96	0	97	28	7	24	39	1.82
6071208--6071234	2	13.5	2	100	0	54	48	0	0	51	1.00
6071834--6071945	35	3.2	35	87	0	152	41	22	0	35	1.60
6071941--6072015	35	2.1	35	85	0	96	36	0	20	44	1.52
6075490--6075570	3	27.0	3	100	0	162	0	33	0	66	0.92
6075825--6076012	43	4.4	43	82	0	205	24	18	22	34	1.96
6076005--6076137	44	3.0	44	89	0	194	28	13	26	31	1.94
6076482--6076530	21	2.3	21	89	0	71	6	36	16	40	1.73
6076524--6076571	21	2.3	21	77	0	51	2	35	12	50	1.52
6079936--6079970	18	1.9	18	88	0	52	71	5	11	11	1.30
6084210--6084350	42	3.4	42	77	2	124	23	19	20	36	1.95
6084728--6084933	74	2.8	74	92	4	353	20	6	16	55	1.64
6086048--6086088	2	20.5	2	100	0	82	51	0	0	48	1.00
6086217--6086264	13	3.6	13	76	13	53	52	6	2	39	1.39
6086223--6086256	15	2.2	16	89	5	52	58	2	2	35	1.28
6088322--6088392	22	3.2	23	78	13	60	50	0	0	49	1.00
6088341--6088391	22	2.4	21	80	6	66	52	0	0	47	1.00
6091591--6092243	138	4.7	138	90	0	977	23	22	21	32	1.98
6092376--6092478	23	4.7	23	68	20	78	43	0	19	35	1.58
6092373--6092500	63	2.0	63	93	3	222	39	0	22	37	1.60
6092566--6092596	14	2.2	14	94	0	53	25	0	12	61	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6092704--6092776	34	2.1	34	89	0	110	38	6	6	47	1.57
6093314--6093354	21	2.0	21	95	0	73	29	19	34	17	1.94
6094538--6094567	13	2.2	14	94	5	53	63	0	0	36	0.95
6100193--6100251	29	2.0	29	96	0	109	23	11	13	50	1.74
6102569--6102614	16	2.6	18	83	16	69	73	2	0	23	0.94
6103237--6103299	19	3.2	19	75	4	54	55	12	0	31	1.37
6103257--6103421	76	2.2	76	85	3	226	57	9	2	30	1.44
6105153--6105194	11	3.7	11	90	3	66	85	4	0	9	0.72
6110383--6110546	76	2.2	76	85	3	215	56	10	3	30	1.48
6111886--6111944	29	2.0	29	96	0	109	23	15	13	47	1.81

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