genome.fa.s7960.2.7.7.80.10.50.1000.17.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: VEPZ01007960.1 Hibiscus syriacus cultivar Beakdansim tig00110387_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7905731

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   

This is table  17  of  39  ( 4646 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)
3402407--3402550	46	3.2	46	87	6	213	22	22	9	45	1.81
3402572--3403181	68	9.0	68	89	1	920	30	24	15	30	1.95
3402572--3403181	135	4.5	136	87	2	888	30	24	15	30	1.95
3402572--3403178	203	3.0	204	89	1	943	30	24	14	30	1.95
3403394--3403555	55	2.9	56	91	2	263	33	21	11	33	1.89
3407123--3407169	18	2.5	19	75	10	51	4	19	6	70	1.26
3407617--3407697	40	2.0	40	87	0	117	28	20	23	27	1.99
3407663--3407768	42	2.5	42	89	0	158	29	15	21	33	1.94
3407797--3408013	118	1.8	118	84	0	299	26	22	14	37	1.92
3409500--3409691	54	3.6	54	77	2	188	42	18	10	28	1.83
3411804--3411847	20	2.2	20	88	4	72	6	18	2	72	1.17
3416733--3416767	12	2.9	12	87	12	54	25	0	0	74	0.82
3416731--3416768	17	2.2	17	90	9	60	23	0	0	76	0.79
3417114--3417146	2	16.5	2	100	0	66	51	0	0	48	1.00
3418093--3418791	118	6.1	118	68	12	450	37	13	16	32	1.88
3418360--3418706	108	3.1	108	65	14	261	40	13	14	31	1.85
3418189--3418886	226	3.1	226	90	1	1060	37	13	16	32	1.87
3418693--3418738	23	2.0	24	82	4	58	30	13	21	34	1.91
3423551--3423589	18	2.2	18	90	0	60	53	10	5	30	1.56
3423545--3423608	24	2.7	23	82	4	74	54	7	4	32	1.50
3425714--3427034	200	6.6	200	84	2	1539	31	14	11	41	1.83
3430041--3430161	28	4.5	25	78	12	82	48	4	11	34	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3432030--3432056	14	1.9	14	100	0	54	22	40	0	37	1.54
3436377--3436403	14	1.9	14	100	0	54	22	40	0	37	1.54
3436582--3436647	33	2.0	33	83	13	84	15	27	0	57	1.38
3436582--3436628	15	2.8	17	75	18	53	12	31	0	55	1.38
3437998--3438032	18	1.9	18	88	0	52	51	17	0	31	1.45
3438377--3438417	6	6.8	6	91	0	64	56	12	0	31	1.36
3438373--3438417	18	2.5	18	88	0	72	57	11	0	31	1.33
3440946--3440976	12	2.6	12	94	0	53	0	35	0	64	0.94
3443099--3443765	194	3.4	194	87	4	947	30	13	12	43	1.82
3446428--3446486	21	2.7	21	84	5	64	28	20	16	33	1.95
3446558--3446617	23	2.6	23	89	0	84	16	23	23	36	1.94
3452663--3452750	39	2.2	41	84	8	110	46	1	3	48	1.26
3452663--3452756	40	2.3	40	82	10	102	45	1	3	50	1.24
3453783--3453837	22	2.2	25	78	18	62	63	21	1	12	1.38
3454771--3454832	6	10.3	6	91	6	54	74	0	0	25	0.82
3454785--3454835	3	17.7	3	92	8	88	68	0	0	31	0.90
3464926--3464952	2	13.5	2	100	0	54	51	0	0	48	1.00
3464976--3465143	85	2.0	85	81	11	202	30	17	19	31	1.95
3465121--3465169	13	3.8	13	78	10	55	34	18	16	30	1.93
3465115--3465169	26	2.1	26	82	0	65	38	16	16	29	1.90
3466953--3467003	21	2.4	21	80	6	59	9	19	1	68	1.27
3471204--3471244	21	2.0	21	95	0	73	24	21	24	29	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3472080--3472236	32	5.0	33	76	9	132	33	19	17	30	1.94
3472081--3472218	31	4.4	32	78	4	122	31	20	16	31	1.95
3474714--3474876	65	2.5	64	84	3	220	26	15	26	30	1.96
3474824--3474874	19	2.7	19	85	8	70	25	15	35	23	1.94
3474718--3474925	65	3.2	64	81	11	203	26	16	25	30	1.97
3475255--3475315	31	2.0	31	100	0	122	36	34	3	26	1.73
3483247--3483409	65	2.5	64	84	3	220	26	15	26	30	1.96
3483357--3483407	19	2.7	19	85	8	70	25	15	35	23	1.94
3483251--3483458	65	3.2	65	81	12	207	26	17	25	29	1.97
3484507--3484533	2	13.5	2	100	0	54	48	0	0	51	1.00
3486267--3486305	3	13.3	3	89	5	62	71	0	0	28	0.86
3496372--3496409	2	19.5	2	94	5	69	47	0	0	52	1.00
3498572--3498632	2	30.5	2	100	0	122	50	0	0	49	1.00
3499306--3499343	16	2.3	17	90	4	60	34	0	0	65	0.93
3499333--3499386	26	2.1	25	89	3	81	38	5	0	55	1.23
3499323--3499389	34	2.0	32	82	5	80	41	4	0	53	1.21
3500190--3500269	32	2.5	32	78	14	83	46	3	0	50	1.19
3500221--3500310	29	2.9	32	73	20	84	46	1	1	51	1.15
3500275--3500332	23	2.7	22	71	12	59	43	1	0	55	1.10
3502628--3502675	21	2.3	20	79	10	51	54	4	4	37	1.39
3503565--3503613	25	1.9	26	84	12	66	28	12	20	38	1.89
3505609--3505666	26	2.2	26	100	0	116	25	25	3	44	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3508129--3508177	25	1.9	27	84	12	68	26	10	24	38	1.87
3514546--3514596	20	2.5	20	87	0	75	9	35	35	19	1.85
3514598--3514625	6	4.7	6	100	0	56	0	14	50	35	1.43
3518328--3518384	28	2.0	28	86	0	78	36	15	3	43	1.64
3520676--3520735	17	3.5	17	80	11	68	43	8	11	36	1.71
3520686--3520735	17	2.8	18	87	6	75	46	10	10	34	1.71
3520641--3520740	35	2.9	35	79	5	114	45	10	9	36	1.69
3540144--3540186	21	2.0	21	95	0	77	9	0	41	48	1.35
3540946--3541434	226	2.2	226	89	1	748	41	13	14	30	1.85
3541674--3543808	199	10.9	199	76	10	1464	33	14	13	38	1.85
3542069--3542432	178	2.1	177	87	0	521	34	14	14	37	1.87
3542354--3542397	21	2.1	21	91	0	70	25	11	18	45	1.82
3542644--3543018	178	2.1	178	89	0	561	33	16	13	37	1.87
3542445--3543808	377	3.5	376	79	8	1408	33	13	13	38	1.84
3541674--3543808	575	3.7	575	85	3	2566	33	14	13	38	1.85
3542822--3543710	397	2.2	396	85	4	1175	34	13	13	39	1.83
3541674--3543900	774	2.9	767	79	8	2485	33	13	13	38	1.84
3544079--3544137	26	2.3	26	93	0	100	40	10	25	23	1.86
3545472--3545514	12	3.6	12	93	0	77	51	11	6	30	1.65
3545472--3545514	6	7.2	6	78	0	50	51	11	6	30	1.65
3557618--3557656	11	3.5	11	79	6	51	23	25	20	30	1.98
3559102--3559177	35	2.2	35	90	0	116	17	5	31	46	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3559089--3559238	7	21.4	7	70	2	95	20	4	33	42	1.70
3559149--3559240	42	2.2	42	90	0	139	21	4	34	39	1.73
3561950--3562029	2	40.0	2	100	0	160	50	0	0	50	1.00
3562967--3563292	178	1.8	178	88	2	503	31	12	15	40	1.85
3563103--3564108	200	5.0	200	81	5	1004	34	11	13	40	1.81
3563679--3563717	21	1.9	20	89	5	60	43	7	10	38	1.67
3563168--3564108	396	2.4	399	81	5	1075	35	11	13	39	1.81
3566808--3566843	18	2.1	17	89	5	54	41	25	0	33	1.55
3571300--3571365	21	3.1	21	86	0	96	51	21	6	21	1.69
3572273--3573116	418	2.0	418	99	0	1661	37	19	15	27	1.92
3574065--3574136	36	2.0	36	91	2	119	36	9	15	38	1.80
3575424--3575480	19	2.9	20	84	5	62	26	12	14	47	1.79
3577544--3577630	31	2.8	30	81	10	95	54	3	1	41	1.25
3577539--3577606	19	3.5	20	73	15	54	54	1	2	41	1.24
3582780--3582840	24	2.5	24	73	7	61	59	24	0	16	1.37
3590900--3591153	128	2.0	128	96	1	474	34	17	17	30	1.93
3591165--3591193	12	2.3	13	94	5	51	31	3	0	65	1.09
3591503--3591533	2	15.5	2	100	0	62	51	0	0	48	1.00
3593192--3593239	13	3.6	13	86	13	71	75	2	0	22	0.91
3593253--3593309	5	11.0	5	74	7	51	73	7	1	17	1.14
3593443--3593489	17	2.7	18	77	9	53	78	4	6	10	1.06
3593446--3593506	18	3.5	16	78	14	59	78	3	4	13	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3602156--3602186	11	2.8	11	95	0	53	0	48	0	51	1.00
3605236--3605371	63	2.2	63	82	5	159	33	19	24	22	1.97
3605359--3605415	24	2.4	24	93	0	105	33	15	24	26	1.95
3606063--3606112	23	2.1	25	88	7	77	26	16	24	34	1.95
3608208--3608253	24	1.9	24	86	8	67	28	6	30	34	1.82
3609167--3609264	24	4.1	24	84	5	99	39	21	14	24	1.90
3610845--3610885	17	2.3	19	87	8	59	36	14	4	43	1.67
3611727--3611783	18	3.2	18	84	0	87	14	21	45	19	1.85
3615135--3615184	23	2.1	23	85	7	64	24	18	24	34	1.96
3618843--3619159	158	2.0	159	97	0	600	31	22	13	32	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