genome.fa.s8027.2.7.7.80.10.50.1000.32.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: VEPZ01008027.1 Hibiscus syriacus cultivar Beakdansim tig00110503_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7662336

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   

This is table  32  of  38  ( 4505 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)
6567726--6567783	22	2.6	22	81	13	73	41	12	8	37	1.73
6572926--6573013	45	1.9	47	86	4	126	29	21	12	36	1.90
6573951--6574024	30	2.5	30	80	4	87	52	4	0	43	1.20
6578185--6578230	19	2.4	21	86	13	64	23	10	15	50	1.75
6587271--6587327	28	2.0	28	100	0	114	24	7	10	57	1.56
6589920--6589980	23	2.7	23	100	0	122	34	9	19	36	1.85
6589939--6590154	87	2.5	87	96	0	396	41	11	14	31	1.82
6590117--6590174	23	2.5	23	97	0	107	32	10	18	37	1.85
6590192--6590756	199	2.8	197	85	5	704	30	16	13	38	1.89
6593296--6593329	17	2.0	17	88	0	50	47	23	0	29	1.52
6594496--6595454	198	4.8	198	89	2	1309	32	15	13	38	1.86
6597594--6597657	2	32.0	2	96	0	119	50	0	1	48	1.10
6598309--6599076	201	3.8	200	85	3	992	31	15	15	38	1.88
6599424--6599472	19	2.6	19	90	6	73	57	10	2	30	1.43
6600903--6600941	18	2.2	18	100	0	78	5	38	0	56	1.22
6601250--6601346	21	4.6	21	96	0	167	17	32	6	43	1.74
6602694--6603086	181	2.2	182	94	0	680	26	16	14	42	1.86
6603419--6603524	53	2.0	53	100	0	212	33	30	3	32	1.76
6604103--6604136	16	2.1	16	89	10	52	41	29	0	29	1.57
6608976--6609060	23	3.5	23	87	6	80	28	14	17	40	1.88
6609000--6609062	23	2.7	23	95	0	108	25	15	19	39	1.91
6611954--6611999	22	2.1	22	91	0	74	4	65	2	28	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6612338--6612379	14	3.0	14	100	0	84	35	0	7	57	1.26
6613279--6613316	3	12.7	3	100	0	76	0	31	0	68	0.90
6618353--6618402	19	2.6	19	84	6	66	38	12	16	34	1.85
6620727--6620764	3	12.7	3	86	10	51	68	0	28	2	1.03
6623121--6623174	21	2.6	19	81	18	56	33	1	5	59	1.31
6623138--6623177	17	2.4	16	84	8	53	35	0	5	60	1.19
6623127--6623168	19	2.0	22	86	13	63	33	2	7	57	1.39
6623271--6623320	2	25.0	2	100	0	100	50	0	0	50	1.00
6623339--6623368	12	2.6	11	90	10	51	30	0	0	70	0.88
6623345--6623429	14	6.1	14	70	10	59	30	3	3	62	1.29
6635397--6635779	64	6.0	64	90	5	582	32	25	20	21	1.98
6635397--6635745	123	2.8	124	90	3	540	32	25	20	21	1.97
6635397--6635779	187	2.0	191	88	5	580	32	25	20	21	1.98
6637435--6637485	19	2.5	20	84	9	59	35	1	5	56	1.35
6637618--6637653	12	3.3	11	88	11	56	27	0	0	72	0.85
6637618--6637709	12	7.2	13	72	11	50	29	3	3	64	1.25
6639072--6639165	7	13.7	7	76	4	75	45	34	2	18	1.61
6639240--6639277	7	5.4	7	96	0	58	57	21	0	21	1.40
6642769--6642954	100	1.9	100	94	0	327	47	17	9	25	1.77
6643173--6643230	16	3.6	16	85	2	80	10	12	29	48	1.73
6643146--6643293	32	4.6	32	75	1	118	14	11	25	48	1.77
6643993--6644038	19	2.4	19	85	7	58	28	2	2	67	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6650649--6650700	23	2.1	24	82	10	61	50	5	3	40	1.45
6651081--6651119	18	2.2	18	90	0	60	25	0	5	69	1.09
6651553--6651757	30	7.0	29	74	16	124	52	2	6	38	1.41
6651701--6651751	26	1.9	26	88	11	77	60	0	0	39	0.97
6651936--6652344	155	2.7	153	85	4	502	40	15	13	30	1.85
6655070--6655181	42	2.7	43	87	2	147	18	14	16	50	1.79
6655350--6655389	21	2.0	20	85	9	55	47	0	0	52	1.00
6655356--6655405	21	2.3	21	83	10	57	48	0	0	52	1.00
6655385--6655451	30	2.3	29	87	9	102	43	0	2	53	1.16
6655379--6655478	30	3.4	30	82	13	95	43	0	2	55	1.11
6655445--6655499	25	2.1	25	80	12	58	47	0	1	50	1.11
6655642--6655680	19	2.0	20	85	5	53	61	0	0	38	0.96
6655861--6655918	15	3.9	15	77	4	64	31	15	6	46	1.72
6655829--6655878	20	2.5	20	100	0	100	34	16	10	40	1.81
6656556--6656608	21	2.5	21	81	6	72	20	26	18	33	1.96
6656618--6656692	20	3.7	20	79	10	89	36	26	18	18	1.94
6656615--6656712	41	2.4	41	92	0	160	38	24	17	19	1.92
6656616--6656712	20	4.7	21	72	12	85	38	24	17	19	1.93
6657201--6657243	20	2.2	20	82	0	50	9	18	20	51	1.74
6657380--6657434	25	2.2	24	78	15	58	20	9	18	52	1.71
6658563--6658610	18	2.7	18	93	0	87	27	45	12	14	1.81
6659133--6659176	19	2.3	19	88	0	70	38	15	22	22	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6659141--6659256	19	6.6	19	71	18	90	43	19	20	15	1.87
6659176--6659234	14	3.9	14	74	20	55	49	22	16	11	1.78
6659163--6659251	33	2.7	33	96	0	160	48	20	19	12	1.80
6659268--6659327	15	3.8	15	82	18	77	10	16	20	53	1.71
6659284--6659343	19	3.4	19	82	17	92	13	18	18	50	1.78
6659263--6659343	34	2.4	34	95	2	146	11	18	19	50	1.76
6659268--6659327	14	3.9	14	80	19	66	10	16	20	53	1.71
6659328--6659402	20	3.8	20	92	1	116	16	26	24	33	1.95
6659373--6659428	20	2.8	20	88	0	76	23	16	28	32	1.96
6659329--6659422	40	2.4	40	82	5	102	18	22	25	34	1.96
6659778--6659847	21	3.3	20	72	7	59	24	41	15	18	1.89
6659771--6659859	42	2.1	42	89	0	133	22	42	14	20	1.88
6661267--6661305	14	2.8	14	84	0	51	35	0	17	46	1.49
6661446--6661501	20	2.8	20	94	0	94	39	21	23	16	1.92
6661530--6661583	20	2.7	20	94	0	90	12	22	24	40	1.89
6661799--6661893	20	4.8	20	97	0	163	26	21	28	24	1.99
6661863--6661940	41	1.9	41	89	0	120	21	17	23	37	1.94
6661824--6661958	41	3.3	41	81	5	114	25	20	24	30	1.98
6661947--6661999	21	2.5	20	76	8	61	33	18	24	22	1.97
6661810--6662019	20	10.3	20	77	12	72	28	19	24	28	1.98
6661789--6662020	41	5.7	41	75	6	109	28	18	24	28	1.98
6666283--6666333	25	2.0	26	92	3	86	31	9	5	52	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6666287--6666341	26	2.2	25	83	3	65	30	9	7	52	1.60
6668274--6668339	3	21.3	3	81	9	71	39	1	1	57	1.17
6669634--6669667	17	2.0	17	88	11	52	29	5	0	64	1.17
6669673--6669698	2	13.0	2	100	0	52	50	0	0	50	1.00
6669782--6669827	22	2.1	22	83	0	56	50	0	0	50	1.00
6671990--6672031	7	6.0	7	81	8	50	14	16	14	54	1.71
6671990--6672031	15	3.0	14	83	10	50	14	16	14	54	1.71
6672091--6672150	27	2.3	27	88	2	95	21	13	5	60	1.52
6672067--6672150	14	6.2	14	68	18	52	23	14	4	57	1.56
6673764--6673794	2	15.5	2	100	0	62	51	0	0	48	1.00
6674087--6674159	10	7.2	10	73	14	51	80	1	16	1	0.85
6674091--6674150	16	3.9	14	85	12	66	83	1	13	1	0.80
6674098--6674159	13	4.5	13	82	9	79	82	1	16	0	0.75
6676430--6676649	114	1.9	114	92	0	368	34	15	20	29	1.94
6677603--6677670	36	1.9	34	85	11	93	35	11	19	33	1.88
6679118--6679172	22	2.5	22	90	0	92	36	10	12	40	1.79
6680047--6681208	73	15.9	73	96	0	2117	30	18	13	38	1.89
6681378--6681559	76	2.4	76	92	1	294	21	18	23	36	1.95
6681712--6681784	3	23.3	3	86	5	92	38	1	1	58	1.15
6683067--6683102	16	2.2	16	90	9	56	36	0	2	61	1.11
6683105--6683138	17	2.0	17	88	11	52	29	5	0	64	1.17
6683270--6683314	22	2.0	24	87	12	69	33	0	0	66	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6694697--6694748	2	27.5	2	84	11	74	48	0	1	50	1.12
6695237--6695397	87	1.9	87	94	2	288	42	10	13	33	1.79
6698905--6699142	119	2.0	120	93	0	406	39	15	13	31	1.86
6698736--6699329	302	2.0	303	94	0	1046	35	16	13	34	1.88
6699025--6699608	183	3.2	182	91	1	940	34	16	14	35	1.88
6700819--6700876	12	4.8	12	89	0	80	20	32	6	39	1.79
6700819--6700876	6	9.7	6	84	0	62	20	32	6	39	1.79
6702326--6703468	200	5.8	200	87	5	1690	31	18	14	36	1.90
6702655--6703425	379	2.0	379	95	0	1400	31	18	14	35	1.91
6702855--6703425	179	3.1	179	88	6	818	31	18	14	35	1.91

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