genome.fa.s8495.2.7.7.80.10.50.1000.15.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: VEPZ01008495.1 Hibiscus syriacus cultivar Beakdansim tig00111338_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5120959

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   

This is table  15  of  21  ( 2505 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)
3444616--3444672	28	2.1	28	83	6	73	47	10	15	26	1.78
3447087--3447126	21	1.9	21	94	0	71	30	15	7	47	1.72
3447121--3447219	33	3.0	33	94	1	164	32	7	15	45	1.73
3447205--3447259	13	4.2	13	75	13	58	34	3	12	49	1.59
3447455--3447511	21	2.7	21	91	0	96	19	26	26	28	1.99
3447823--3447854	16	2.0	17	88	11	50	43	21	21	12	1.86
3448565--3448607	22	2.0	22	86	9	61	51	2	4	41	1.35
3449975--3450033	17	3.4	17	86	6	66	15	11	5	67	1.38
3450008--3450058	17	3.0	17	85	5	59	23	7	0	68	1.15
3454513--3454539	5	5.4	5	100	0	54	40	18	0	40	1.51
3462773--3462832	27	2.2	27	84	0	75	38	16	23	21	1.93
3478572--3478620	24	2.0	24	84	7	64	26	24	8	40	1.83
3481722--3481877	65	2.4	65	87	4	217	27	20	20	31	1.97
3485954--3485984	15	2.1	15	100	0	62	32	6	22	38	1.80
3487686--3487765	23	3.6	22	79	6	99	25	23	23	27	2.00
3489679--3489708	16	1.9	15	93	6	51	16	0	30	53	1.44
3490479--3490578	46	2.2	46	87	0	137	27	21	19	33	1.97
3491300--3491344	21	2.1	22	83	4	56	37	8	11	42	1.72
3493245--3493278	15	2.2	16	89	5	52	58	0	5	35	1.22
3497590--3497630	20	2.0	20	95	0	73	26	19	21	31	1.97
3498633--3498689	22	2.5	22	78	13	55	26	10	19	43	1.83
3499254--3499293	18	2.2	19	86	8	57	52	10	5	32	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3505751--3505870	22	5.8	22	80	16	141	21	31	25	20	1.98
3505771--3505870	39	2.4	41	88	9	141	21	32	26	21	1.98
3515759--3515815	21	2.7	21	72	2	51	8	15	7	68	1.37
3517118--3517228	34	3.3	34	82	5	136	18	9	29	42	1.82
3518878--3518917	20	2.0	21	85	14	57	42	5	7	45	1.54
3519171--3519297	64	2.0	65	92	1	211	30	25	16	27	1.97
3527306--3527337	16	2.0	16	100	0	64	43	6	18	31	1.75
3527483--3527522	20	2.0	21	85	14	57	42	5	7	45	1.54
3527693--3527897	65	3.2	63	82	7	216	30	24	17	28	1.97
3527740--3527918	65	2.8	63	82	7	189	29	25	17	27	1.97
3529436--3529542	48	2.1	48	80	10	108	23	11	16	48	1.78
3529577--3529684	54	2.0	54	89	3	164	41	17	10	30	1.83
3533170--3533210	14	2.9	14	81	0	55	7	4	19	68	1.32
3533989--3534296	162	1.9	157	88	3	454	41	13	15	28	1.85
3534279--3534326	20	2.4	19	76	13	51	56	10	14	18	1.66
3535225--3535288	32	2.0	32	100	0	128	46	6	9	37	1.61
3536347--3536411	21	3.1	21	90	0	94	41	9	30	18	1.82
3536445--3536510	33	2.0	33	90	0	105	28	0	48	22	1.51
3538300--3538348	19	2.6	19	96	0	89	32	2	10	55	1.45
3538582--3539345	200	3.8	200	94	1	1316	36	14	18	30	1.91
3540788--3540881	6	15.7	6	86	0	89	38	6	32	22	1.79
3540788--3540881	12	7.8	12	89	0	98	38	6	32	22	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3540788--3540881	18	5.2	18	90	0	98	38	6	32	22	1.79
3540823--3540882	3	20.0	3	85	0	84	36	3	33	26	1.73
3542089--3542672	183	3.2	183	97	0	1071	34	15	16	33	1.90
3542550--3542796	120	2.1	120	93	0	422	32	13	15	38	1.87
3542367--3542961	303	2.0	303	94	0	1055	34	14	15	34	1.89
3546120--3546369	87	2.9	87	98	0	473	32	15	10	42	1.80
3546204--3546248	23	2.0	23	86	0	63	37	15	8	37	1.79
3546291--3546335	23	2.0	23	86	0	63	37	15	8	37	1.79
3549613--3549659	12	3.9	12	83	8	60	8	17	12	61	1.55
3549721--3549846	65	1.9	65	90	3	200	19	21	24	34	1.96
3549744--3549846	31	3.2	31	69	17	93	20	19	23	36	1.95
3556601--3556640	3	13.3	3	100	0	80	32	0	0	67	0.91
3557354--3557394	2	20.5	2	100	0	82	51	0	0	48	1.00
3557701--3557749	3	16.7	3	91	4	82	67	2	0	30	1.02
3560225--3560272	24	2.0	24	95	0	87	35	4	10	50	1.56
3560228--3560280	24	2.2	24	89	0	79	39	3	7	49	1.49
3562152--3562485	2	172.0	2	62	23	56	47	2	5	44	1.39
3562159--3562292	13	10.5	13	70	16	75	45	2	5	46	1.40
3562257--3562304	13	3.5	13	88	5	69	50	8	4	37	1.52
3562310--3562413	24	4.5	24	74	10	92	47	0	4	47	1.30
3562277--3562438	84	1.9	84	92	2	272	48	1	4	45	1.35
3562693--3562751	16	3.5	16	70	28	50	38	8	11	40	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3562692--3562761	35	2.0	35	88	0	104	40	8	11	40	1.72
3562749--3562810	20	3.2	20	81	4	63	48	6	9	35	1.62
3562886--3562931	21	2.2	21	88	7	67	56	21	0	21	1.42
3562880--3562966	14	6.3	14	74	12	65	49	31	0	19	1.49
3563036--3563140	20	5.2	21	76	19	100	42	6	7	42	1.59
3563015--3563137	59	2.0	61	86	6	171	42	7	7	43	1.60
3563043--3563133	44	2.3	37	81	12	101	43	7	5	42	1.56
3563180--3563232	21	2.5	21	84	0	70	39	7	3	49	1.49
3563227--3563628	15	24.1	16	65	24	101	42	4	3	49	1.39
3563249--3563600	65	5.5	64	74	17	248	42	5	3	48	1.41
3563273--3563375	22	4.8	21	73	17	79	41	3	4	49	1.42
3563314--3563423	53	2.1	53	92	0	184	40	4	4	50	1.43
3563163--3563487	118	2.8	118	89	3	464	40	5	4	49	1.47
3563271--3563501	43	5.8	40	71	18	146	42	5	4	47	1.46
3563391--3563494	21	4.9	21	70	12	77	45	5	2	46	1.42
3563163--3563533	118	3.2	117	85	7	386	40	5	4	49	1.47
3563491--3563586	38	2.7	35	82	6	104	43	5	2	48	1.36
3563545--3563631	43	2.0	43	84	8	115	48	2	0	49	1.13
3563575--3563643	28	2.4	27	88	9	102	47	0	1	50	1.09
3563568--3563643	15	5.3	15	83	10	97	47	0	1	51	1.09
3563652--3563692	21	2.0	21	85	0	55	48	0	17	34	1.47
3564378--3564464	6	14.7	6	81	6	61	42	44	2	10	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3564389--3564457	18	3.8	18	83	7	95	42	43	1	13	1.52
3564389--3564466	18	4.3	18	82	6	86	43	42	2	11	1.54
3564773--3565148	120	3.1	120	92	0	637	19	11	18	50	1.76
3568266--3568312	14	3.7	14	71	26	50	51	4	0	44	1.21
3568264--3568313	23	2.1	24	96	3	93	48	4	0	48	1.20
3568577--3568609	16	2.0	17	88	5	50	42	15	27	15	1.86
3580916--3580979	31	2.1	30	88	2	92	56	12	7	23	1.62
3581213--3581247	18	1.9	18	88	0	52	65	5	0	28	1.15
3583871--3583920	14	3.9	13	78	21	61	10	12	24	54	1.67
3583880--3583927	10	4.4	10	78	19	51	10	12	22	54	1.68
3583872--3583940	24	2.9	24	89	4	104	13	11	18	56	1.66
3585039--3585073	16	2.4	14	90	9	52	14	8	14	62	1.53
3593558--3593600	19	2.1	21	87	8	63	27	11	16	44	1.82
3601831--3601868	20	1.9	20	88	0	58	42	28	15	13	1.85
3608509--3608768	135	1.9	138	82	8	336	28	13	17	41	1.86
3624057--3624099	19	2.3	19	88	8	61	48	4	13	32	1.63
3624079--3624328	125	2.0	125	100	0	500	42	6	16	34	1.74
3625151--3625177	11	2.5	11	100	0	54	74	0	0	25	0.83
3626291--3626529	119	2.0	119	98	0	460	5	22	22	50	1.69
3626741--3626818	39	2.0	39	87	0	111	17	15	41	25	1.89
3627435--3627640	112	1.8	112	87	2	306	26	20	15	37	1.92
3627690--3627985	113	2.6	113	88	2	418	28	18	14	39	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3627059--3627983	375	2.5	368	89	4	1400	27	18	14	39	1.90
3629145--3629616	75	6.3	76	89	2	596	31	20	15	31	1.94
3629184--3629616	76	5.7	75	88	4	579	31	20	15	32	1.94
3629145--3629616	151	3.1	152	86	3	623	31	20	15	31	1.94
3636047--3636085	15	2.7	15	88	4	53	51	12	15	20	1.76
3636343--3636428	43	2.0	43	86	0	118	34	23	9	32	1.87
3637787--3637844	28	2.2	26	84	6	71	60	1	5	32	1.29
3638430--3638454	13	1.9	13	100	0	50	60	0	0	40	0.97
3639854--3639930	39	2.0	39	92	0	127	18	19	41	20	1.90
3644675--3644714	21	1.9	21	85	10	55	75	0	5	20	0.99

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21