genome.fa.s9625.2.7.7.80.10.50.1000.21.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: VEPZ01009625.1 Hibiscus syriacus cultivar Beakdansim tig00117017_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6938204

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   

This is table  21  of  25  ( 2922 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)
5886318--5886379	26	2.3	28	88	8	101	64	3	3	29	1.25
5886322--5886365	15	3.2	15	75	24	60	68	4	4	22	1.27
5886366--5886414	2	24.5	2	87	8	73	51	2	0	46	1.12
5886563--5886608	2	23.0	2	100	0	92	50	0	0	50	1.00
5888009--5888041	12	2.5	14	80	19	52	72	0	27	0	0.85
5892012--5892074	32	2.0	32	96	0	117	52	14	9	23	1.71
5893190--5893338	78	1.9	79	80	8	178	40	9	6	43	1.61
5901690--5901724	17	2.1	17	100	0	70	11	34	17	37	1.85
5905216--5905249	17	2.0	17	88	0	50	76	0	0	23	0.79
5905216--5905248	9	3.8	9	88	8	50	78	0	0	21	0.75
5905901--5905930	12	2.4	13	88	11	53	56	6	0	36	1.26
5907207--5907258	22	2.4	22	96	0	95	32	3	36	26	1.75
5913216--5913274	8	7.6	8	71	21	54	71	0	3	25	1.02
5913838--5913882	18	2.5	18	96	0	81	51	4	28	15	1.63
5913997--5914117	63	1.9	62	88	5	181	55	15	1	27	1.50
5916789--5916841	21	2.5	21	100	0	106	26	28	26	18	1.98
5918603--5918640	19	2.0	20	94	5	69	50	5	13	31	1.63
5924686--5924731	22	2.1	22	87	0	65	28	21	6	43	1.77
5929764--5929865	22	4.6	22	79	4	98	23	20	20	35	1.96
5929888--5929960	2	36.5	2	100	0	146	49	0	0	50	1.00
5931129--5931170	13	3.3	13	73	6	50	40	14	23	21	1.90
5931121--5931170	25	2.0	25	100	0	100	40	12	28	20	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5941991--5942376	47	8.2	47	92	1	621	43	13	21	21	1.86
5943630--5944166	54	10.1	54	89	3	777	32	12	17	37	1.88
5949863--5950516	54	12.1	54	91	0	993	33	12	17	37	1.87
5953023--5953053	14	2.1	15	94	5	55	64	0	12	22	1.27
5967337--5967640	104	2.9	104	88	1	432	22	14	19	43	1.87
5971065--5971105	19	2.2	19	90	0	64	26	19	19	34	1.96
5971070--5971112	19	2.3	19	83	0	50	30	20	13	34	1.92
5979793--5979840	21	2.3	21	96	0	87	22	10	22	43	1.84
5981117--5981169	23	2.2	24	83	9	65	69	5	7	16	1.31
5986831--5986858	2	14.0	2	100	0	56	50	0	0	50	1.00
5986804--5986839	19	1.9	18	88	5	54	55	0	2	41	1.14
5988119--5988203	38	2.2	38	89	0	125	43	7	18	30	1.77
5988875--5988972	30	3.3	30	84	1	108	44	21	21	12	1.84
5989572--5989617	17	2.7	17	86	0	65	30	13	28	28	1.94
5993900--5993945	23	2.0	23	95	0	83	26	8	19	45	1.79
5998177--5998221	23	1.9	23	90	4	72	22	4	0	73	1.01
6000396--6000870	235	2.0	235	100	0	950	36	20	10	33	1.86
6008931--6009013	23	3.7	23	73	15	84	25	24	21	28	1.99
6013388--6013434	21	2.2	21	84	0	58	42	17	23	17	1.88
6016940--6016986	21	2.2	21	88	0	67	40	19	23	17	1.91
6023374--6023447	24	3.0	25	68	18	64	22	5	9	62	1.46
6023349--6023477	49	2.8	44	80	11	168	27	3	7	60	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6023416--6023490	39	1.9	38	84	7	98	26	4	9	60	1.46
6025822--6025854	2	16.5	2	100	0	66	51	0	0	48	1.00
6027911--6027949	16	2.4	16	82	0	51	56	7	7	28	1.55
6028262--6028714	41	10.9	41	81	5	439	30	18	17	33	1.94
6028297--6028713	166	2.5	166	89	2	626	30	18	17	34	1.94
6028262--6028714	125	3.6	124	80	6	497	30	18	17	33	1.94
6032380--6032423	16	2.9	14	78	21	52	77	2	20	0	0.88
6035110--6036217	415	2.7	413	82	3	1265	32	25	16	25	1.96
6035104--6036259	139	8.3	139	79	2	1151	32	26	16	25	1.96
6035104--6036254	276	4.2	278	80	4	1214	32	26	16	25	1.96
6036564--6036671	56	1.9	56	84	3	146	45	12	14	27	1.81
6038323--6038609	54	5.3	54	88	2	380	34	19	14	31	1.92
6038951--6039133	95	1.9	95	84	2	242	24	21	14	39	1.91
6039574--6039715	71	2.0	72	97	1	268	38	19	9	33	1.84
6042801--6042858	21	2.8	22	76	10	59	50	24	1	24	1.59
6046251--6047345	561	2.0	543	87	5	1556	28	11	10	48	1.73
6056791--6056899	36	2.8	41	79	15	138	44	10	22	23	1.83
6058153--6058232	36	2.2	36	88	2	117	45	11	3	40	1.58
6058153--6058241	35	2.5	36	85	5	101	47	11	3	38	1.56
6058487--6058520	16	2.0	18	88	11	54	67	5	0	26	1.13
6066483--6066515	13	2.5	13	95	5	57	48	3	15	33	1.60
6072017--6072206	104	1.8	104	79	4	222	23	20	16	40	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6072730--6072998	54	5.0	54	88	2	373	36	17	14	31	1.90
6073329--6073529	95	2.1	95	83	6	264	25	22	13	37	1.92
6085575--6085626	21	2.5	22	78	12	65	50	21	1	26	1.59
6087376--6087634	126	2.0	125	97	1	473	31	13	15	38	1.87
6087624--6087679	21	2.6	22	80	5	62	33	1	3	60	1.24
6099287--6099395	36	2.8	41	79	15	138	44	11	22	22	1.84
6100803--6100881	35	2.3	35	88	4	115	44	11	3	40	1.58
6100803--6100890	35	2.5	35	85	7	99	46	11	3	38	1.57
6101136--6101169	16	2.0	18	88	11	54	67	5	0	26	1.13
6110002--6110272	54	5.0	54	87	2	368	36	17	14	31	1.90
6110603--6110803	95	2.1	95	83	6	264	24	22	13	38	1.91
6122900--6122951	21	2.5	22	78	12	65	50	21	1	26	1.59
6124822--6124877	21	2.6	22	83	5	71	35	1	1	60	1.17
6136210--6136318	36	2.8	41	79	15	138	44	10	22	23	1.83
6137713--6137792	36	2.2	36	88	2	117	45	11	3	40	1.58
6137713--6137801	35	2.5	36	85	5	101	47	11	3	38	1.56
6138047--6138080	16	2.0	18	88	11	54	67	5	0	26	1.13
6146348--6146619	54	5.1	54	87	2	361	36	17	14	31	1.90
6146946--6147146	95	2.1	95	82	8	257	24	22	13	38	1.91
6151415--6151466	21	2.5	22	78	12	65	50	21	1	26	1.59
6153216--6153476	128	2.0	128	99	0	513	31	13	15	38	1.87
6153466--6153521	21	2.6	22	80	5	62	33	1	3	60	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6164774--6164884	36	3.1	36	94	0	186	43	13	20	22	1.87
6166312--6166391	36	2.2	36	88	2	117	45	11	3	40	1.58
6166312--6166400	35	2.5	36	85	5	101	47	11	3	38	1.56
6166646--6166677	15	2.0	17	88	11	50	65	6	0	28	1.16
6167674--6167716	22	2.0	21	90	4	68	55	9	11	23	1.64
6176523--6176556	17	2.0	17	88	0	50	73	2	0	23	0.97
6177209--6177334	42	3.0	41	70	18	125	58	10	2	28	1.43
6188696--6188884	76	2.6	75	87	5	253	57	12	0	30	1.39
6188842--6188879	19	2.0	19	89	0	58	55	13	0	31	1.38
6188696--6188921	76	3.1	76	80	9	227	57	11	1	30	1.42
6190347--6190385	18	2.1	19	85	4	53	66	5	7	20	1.36
6191053--6191081	11	2.6	11	100	0	58	48	0	20	31	1.50
6197805--6198121	161	2.0	160	96	3	597	41	13	10	34	1.80
6198265--6198305	17	2.4	17	95	0	73	29	31	17	21	1.96
6200012--6200376	201	1.8	200	82	2	473	32	9	20	37	1.84
6200699--6200763	15	4.3	15	73	7	60	66	10	0	23	1.23
6205600--6205679	4	19.0	4	73	10	61	63	3	1	31	1.20
6205597--6205701	30	3.7	29	78	15	128	60	4	0	33	1.24
6205604--6205701	26	3.6	26	80	15	117	62	4	1	32	1.21
6205659--6205712	18	3.1	18	76	7	58	64	3	0	31	1.11
6205854--6205917	32	2.0	32	100	0	128	21	28	18	31	1.97
6210171--6210237	31	2.2	31	100	0	134	26	16	17	38	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6211826--6211891	30	2.2	30	89	5	98	28	36	12	22	1.90
6211826--6211903	30	2.6	30	83	4	86	29	35	11	23	1.90
6216984--6217024	2	20.0	2	95	5	73	48	2	0	48	1.14
6218891--6218955	13	5.0	13	88	0	67	33	13	21	30	1.92
6219561--6219730	90	1.9	88	95	2	304	44	7	10	38	1.66
6224302--6224400	45	2.2	45	85	5	146	31	18	24	26	1.97
6233657--6233697	17	2.4	17	95	0	73	36	21	19	21	1.95
6240744--6240813	12	5.8	12	78	6	70	52	18	12	15	1.74
6240740--6240809	24	3.0	23	85	4	95	54	17	11	17	1.71
6241751--6241796	20	2.5	19	86	13	62	41	10	23	23	1.86

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