genome.fa.s8531.2.7.7.80.10.50.1000.18.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: VEPZ01008531.1 Hibiscus syriacus cultivar Beakdansim tig00111409_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3817888

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   

This is table  18  of  19  ( 2279 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)
3421944--3421978	14	2.5	14	95	0	61	11	25	22	40	1.88
3422019--3422072	24	2.2	24	93	0	90	40	20	18	20	1.91
3422019--3422086	24	2.8	24	84	0	64	38	20	17	23	1.93
3422830--3422923	20	4.7	19	82	2	71	22	20	20	37	1.95
3423037--3423228	20	9.4	20	78	3	186	19	17	24	38	1.93
3423018--3423168	60	2.5	59	82	8	178	19	18	23	38	1.93
3423018--3423228	41	5.2	40	82	10	200	19	18	24	37	1.93
3427788--3427837	17	2.9	17	84	0	64	42	8	14	36	1.74
3432818--3432955	46	3.0	45	83	2	177	44	10	21	23	1.82
3432877--3433112	20	10.6	20	67	20	114	45	8	24	21	1.80
3432877--3433024	66	2.2	66	86	0	206	43	9	24	22	1.82
3432943--3433125	46	4.0	45	88	4	251	46	7	23	21	1.77
3432944--3433125	91	2.0	92	88	5	271	47	7	23	21	1.76
3433540--3433745	81	2.5	80	87	1	286	36	10	22	29	1.88
3433811--3433942	54	2.4	54	96	0	237	43	9	19	26	1.82
3433811--3433966	54	2.9	54	90	1	179	46	10	17	25	1.80
3436280--3436321	12	3.4	12	83	12	50	80	0	11	7	0.88
3437040--3437093	21	2.6	21	96	0	99	42	9	14	33	1.78
3437999--3438087	38	2.3	38	96	0	169	33	5	19	41	1.74
3438335--3438423	30	2.9	29	78	9	97	25	14	24	34	1.94
3440044--3440134	32	2.9	31	88	6	139	34	20	20	24	1.97
3440338--3440421	41	2.0	41	100	0	168	40	28	0	30	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3444419--3444515	31	3.1	31	88	2	131	35	25	14	24	1.94
3447155--3447544	133	3.0	129	77	9	398	33	19	18	28	1.96
3447824--3448077	5	50.8	5	100	0	508	0	0	39	60	0.97
3448152--3448242	2	45.5	2	83	14	109	43	2	2	51	1.26
3448741--3448776	17	2.1	17	89	0	54	16	16	27	38	1.90
3450176--3450478	61	4.9	61	78	3	250	18	21	22	37	1.94
3450221--3450376	41	3.8	41	89	1	249	18	22	23	35	1.95
3450221--3450376	83	1.9	82	90	1	249	18	22	23	35	1.95
3450365--3450481	41	2.9	41	97	0	225	16	21	24	37	1.93
3450176--3450478	102	3.0	102	89	1	428	18	21	22	37	1.94
3450365--3450528	82	2.0	81	83	7	206	19	19	22	38	1.93
3450614--3450641	5	5.6	5	100	0	56	39	21	39	0	1.54
3451262--3451355	22	4.4	22	78	8	104	38	23	18	20	1.93
3451284--3451441	41	3.8	42	87	6	166	39	22	17	20	1.92
3451347--3451419	20	3.6	20	74	3	83	42	24	17	15	1.88
3451367--3451440	21	3.6	21	75	3	78	36	25	16	21	1.94
3462232--3462272	21	1.9	22	90	5	66	26	19	17	36	1.94
3462809--3462847	20	2.0	20	89	0	60	33	5	12	48	1.63
3462722--3462947	115	2.0	114	87	4	332	38	11	11	38	1.77
3464039--3464194	65	2.4	63	84	7	190	28	23	17	29	1.97
3470064--3470104	12	3.2	12	86	6	55	36	9	7	46	1.65
3470614--3470649	18	2.0	18	100	0	72	22	22	11	44	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3471480--3471531	28	2.0	27	85	11	72	19	0	21	59	1.38
3471817--3471850	12	2.7	13	86	9	52	44	8	5	41	1.60
3472197--3472329	65	2.1	65	88	7	200	28	24	18	29	1.98
3472197--3472349	65	2.4	64	83	9	188	28	22	18	30	1.97
3477909--3477942	8	4.2	8	84	0	50	38	5	0	55	1.24
3478210--3478366	55	2.9	54	83	5	176	24	24	21	30	1.99
3478360--3479023	55	12.1	55	90	2	996	28	26	14	30	1.95
3478360--3479023	219	3.0	217	90	2	1015	28	26	14	30	1.95
3478360--3479023	164	4.0	163	94	1	1069	28	26	14	30	1.95
3483518--3483545	8	3.5	8	100	0	56	50	10	0	39	1.37
3493425--3493458	8	4.2	8	84	0	50	38	5	0	55	1.24
3494599--3494647	24	2.1	23	84	3	62	53	6	4	36	1.45
3495812--3495855	5	8.8	5	84	0	61	75	0	6	18	1.02
3495813--3495855	15	2.9	15	96	0	77	74	0	6	18	1.04
3500259--3500340	3	27.0	3	97	2	155	67	0	0	32	0.91
3502381--3502495	39	2.9	39	82	7	135	40	11	17	30	1.84
3507389--3507429	2	20.5	2	100	0	82	51	0	0	48	1.00
3509333--3509453	59	2.1	59	91	0	197	25	17	21	35	1.95
3512776--3512900	44	2.8	45	76	12	114	53	5	17	23	1.65
3514519--3514548	15	2.0	15	93	0	51	46	0	3	50	1.18
3526749--3526784	7	5.0	7	96	3	63	30	0	0	69	0.89
3526749--3526789	11	3.7	11	78	21	50	31	0	2	65	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3526894--3526919	2	13.0	2	100	0	52	50	0	0	50	1.00
3529339--3529365	14	1.9	14	100	0	54	44	25	14	14	1.84
3537666--3537729	21	3.0	21	84	4	83	23	25	25	26	2.00
3538298--3538339	21	2.0	21	95	0	75	26	23	26	23	2.00
3543484--3543513	12	2.4	13	88	11	53	6	36	0	56	1.26
3549685--3549718	3	11.7	3	93	6	61	64	0	0	35	0.94
3557084--3557155	3	24.7	3	79	10	69	61	1	0	37	1.05
3557084--3557156	34	2.2	34	85	2	94	60	1	0	38	1.06
3557328--3558196	55	15.9	54	80	7	503	26	25	16	31	1.96
3557472--3557930	55	8.3	55	84	4	577	30	26	13	30	1.94
3557472--3558034	221	2.6	217	82	7	588	28	26	14	30	1.95
3557884--3558196	108	2.9	108	84	3	371	22	26	16	34	1.95
3558198--3558278	37	2.2	37	86	8	112	19	18	17	44	1.87
3562906--3562948	6	7.2	6	84	7	52	53	16	11	18	1.72
3562910--3562948	19	2.1	18	95	4	69	56	15	10	17	1.66
3566817--3566848	2	16.5	2	93	6	57	50	0	0	50	1.00
3572068--3572130	31	2.0	31	84	0	81	52	7	6	33	1.56
3575900--3575927	12	2.3	12	100	0	56	17	46	0	35	1.49
3577704--3577861	55	2.9	55	94	0	271	37	10	17	34	1.84
3578326--3578359	14	2.3	14	90	10	50	44	2	0	52	1.16
3578184--3578352	90	1.9	89	95	1	302	36	13	5	44	1.68
3579368--3579632	55	4.8	55	95	0	467	36	10	18	34	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3584695--3584727	5	6.6	5	96	0	57	42	0	21	36	1.53
3588127--3588198	3	23.3	3	87	5	99	61	0	1	37	1.05
3591371--3591428	25	2.3	25	93	0	98	25	32	18	22	1.97
3592339--3592449	23	4.8	23	92	0	150	27	20	21	30	1.98
3594216--3594290	9	8.8	8	77	8	60	74	1	5	18	1.08
3594239--3594290	9	5.9	9	86	6	63	78	0	5	15	0.92
3594216--3594290	35	2.2	33	81	11	80	74	1	5	18	1.08
3594393--3594500	51	2.2	49	78	5	110	63	7	7	21	1.44
3595954--3596749	263	3.0	261	85	3	1094	30	20	19	28	1.98
3596561--3596674	42	2.7	41	81	4	147	29	21	21	27	1.98
3596696--3598168	55	27.0	55	89	1	2191	21	27	16	34	1.95
3596696--3598168	163	9.0	164	89	2	2137	21	27	16	34	1.95
3596699--3598168	218	6.7	218	90	2	2154	21	27	16	34	1.95
3599260--3599309	22	2.1	25	85	10	70	24	8	6	62	1.46
3600142--3600343	17	11.1	18	68	20	66	2	21	4	70	1.20
3600247--3600310	8	7.6	9	69	23	50	1	17	3	78	0.96
3600123--3600274	81	1.9	81	84	4	209	1	23	3	70	1.14
3600204--3600310	42	2.5	42	82	11	110	2	18	3	74	1.09
3601667--3601709	20	2.2	20	95	0	77	51	13	16	18	1.77
3604702--3604755	26	2.1	26	82	3	65	38	3	5	51	1.43
3621545--3621582	14	2.8	14	80	4	51	18	21	7	52	1.70
3621574--3621601	14	2.0	14	100	0	56	21	14	0	64	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3630077--3630128	27	2.0	27	88	11	81	38	3	3	53	1.37
3636596--3637290	140	5.0	140	87	0	962	32	15	21	29	1.95
3637512--3637545	16	2.1	16	88	0	50	41	47	8	2	1.50
3637488--3637576	39	2.2	40	84	5	119	50	39	5	4	1.46
3637988--3638057	33	2.1	33	86	5	97	54	7	8	30	1.58
3638777--3638816	19	2.1	19	95	0	71	20	12	17	50	1.78
3642814--3643020	107	1.9	107	95	2	373	41	6	11	40	1.67
3647303--3647360	26	2.2	26	96	0	107	25	17	43	13	1.86
3647412--3647457	5	9.8	5	77	13	53	21	0	0	78	0.76
3647785--3647957	91	1.9	91	84	4	233	24	22	15	38	1.92

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19