genome.fa.s761.2.7.7.80.10.50.1000.14.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: VEPZ01000761.1 Hibiscus syriacus cultivar Beakdansim tig00001478_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5609167

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   

This is table  14  of  23  ( 2686 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)
3471322--3471400	20	3.9	21	86	5	94	51	16	18	12	1.75
3471385--3471441	14	3.7	14	75	20	60	43	22	24	8	1.81
3471377--3471457	33	2.5	33	95	0	144	46	22	22	8	1.78
3471459--3471545	19	4.8	19	77	16	103	11	21	18	48	1.79
3471482--3471543	20	3.2	20	88	4	99	12	20	16	50	1.78
3473201--3473580	94	4.1	94	93	1	620	21	11	19	48	1.80
3473668--3473785	33	3.4	33	77	11	119	47	22	20	10	1.79
3473681--3473785	19	5.8	19	83	10	121	48	21	19	10	1.78
3473668--3473785	52	2.3	51	82	5	121	47	22	20	10	1.79
3473698--3473795	19	5.4	19	81	14	102	46	24	17	11	1.80
3473844--3473916	20	3.7	20	100	0	146	19	20	20	39	1.92
3473835--3473916	40	2.0	40	95	0	146	23	19	19	37	1.94
3475825--3475860	14	2.6	14	90	0	54	30	0	22	47	1.52
3475962--3476037	33	2.3	34	93	2	127	44	19	22	13	1.85
3476046--3476133	19	4.8	19	77	16	105	14	21	17	46	1.83
3476310--3476499	20	9.4	20	80	6	161	19	16	22	41	1.90
3476305--3476559	40	6.3	40	81	4	235	19	17	23	39	1.92
3476406--3476541	61	2.2	60	79	6	157	18	18	26	36	1.94
3476305--3476518	40	5.3	41	85	0	254	19	17	22	40	1.92
3476608--3476662	20	2.8	20	77	5	67	21	16	27	34	1.95
3476763--3476807	13	3.5	13	96	3	83	37	15	0	46	1.46
3485327--3485394	35	1.9	35	93	0	118	38	19	10	32	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3492236--3492278	21	2.0	22	86	4	61	48	4	6	39	1.51
3492876--3492982	57	1.9	56	84	5	144	40	11	5	42	1.64
3493433--3493490	18	3.1	18	83	13	80	27	12	10	50	1.72
3494225--3494295	33	2.1	34	86	2	99	33	15	28	22	1.95
3498569--3498656	15	5.9	15	67	17	51	48	3	1	46	1.26
3498581--3498671	31	3.0	30	79	19	107	49	3	2	45	1.30
3498611--3498669	18	3.3	18	79	11	68	47	3	1	47	1.29
3498575--3498745	13	13.3	13	71	14	97	47	4	4	44	1.41
3498747--3498798	25	2.1	25	92	0	86	55	5	5	32	1.47
3498779--3498834	29	1.9	29	82	7	69	46	1	3	48	1.30
3498907--3499013	19	5.8	19	77	14	100	47	0	24	28	1.52
3498905--3498986	27	3.0	27	89	3	119	50	0	21	28	1.49
3498909--3499014	46	2.3	47	80	14	130	48	0	25	26	1.52
3498907--3499046	19	7.5	19	70	15	87	47	0	25	27	1.52
3499250--3499284	2	18.0	2	94	5	63	48	0	0	51	1.00
3499417--3499466	20	2.6	19	84	6	64	48	6	6	40	1.52
3499542--3499572	14	2.2	14	94	0	53	51	16	0	32	1.44
3499546--3499580	14	2.5	14	85	0	52	45	25	0	28	1.54
3499881--3499938	22	2.5	22	78	18	64	41	3	0	55	1.17
3499962--3500006	13	3.3	13	82	11	63	51	8	0	40	1.33
3499931--3499980	20	2.4	20	80	6	55	46	8	8	38	1.63
3499957--3500006	15	3.4	15	81	13	68	50	8	2	40	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3500094--3500124	7	4.4	7	95	0	53	48	29	0	22	1.51
3500094--3500165	14	5.1	14	75	9	58	50	26	0	23	1.50
3500098--3500165	21	3.2	21	76	12	68	48	27	0	23	1.51
3500165--3500204	16	2.5	16	88	8	55	37	7	12	42	1.71
3500916--3500967	20	2.6	20	90	0	86	36	26	15	21	1.93
3501023--3501075	20	2.7	20	85	5	72	45	24	16	13	1.83
3501084--3501256	20	8.6	20	76	4	159	36	22	19	21	1.95
3501023--3501254	81	2.9	80	79	5	218	38	22	18	20	1.93
3501084--3501254	40	4.2	40	87	1	225	37	22	18	21	1.94
3501832--3501927	33	2.6	36	77	17	108	48	20	19	10	1.78
3501817--3501938	20	6.5	19	77	13	101	49	22	18	10	1.77
3501934--3502079	19	8.1	19	70	17	78	13	22	18	45	1.85
3501939--3502030	33	2.8	33	94	0	157	14	20	19	45	1.85
3502003--3502079	20	3.9	20	81	6	86	14	23	16	45	1.84
3502003--3502079	40	1.9	39	86	2	109	14	23	16	45	1.84
3504103--3504169	21	3.2	21	66	6	55	23	35	20	19	1.95
3504060--3504169	42	2.6	42	81	7	116	23	32	20	23	1.98
3505510--3505545	14	2.6	14	95	0	63	33	0	22	44	1.53
3505652--3505702	14	3.1	17	72	21	54	45	17	23	13	1.84
3505652--3505745	33	2.8	33	95	0	161	45	19	22	12	1.83
3505652--3505710	19	3.4	19	73	22	74	45	18	22	13	1.84
3505755--3505785	14	2.3	13	94	5	53	6	12	25	54	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3505776--3505859	19	4.6	19	72	15	79	15	21	19	44	1.87
3505762--3505834	33	2.2	33	92	0	119	13	19	20	46	1.83
3505759--3505928	86	2.0	87	84	1	225	15	18	21	44	1.87
3509260--3509466	20	10.2	20	83	5	202	21	19	22	36	1.95
3509260--3509460	60	3.3	60	81	4	242	22	19	21	35	1.96
3509258--3509492	40	5.8	41	85	3	185	21	19	22	36	1.95
3509479--3509531	20	2.7	20	85	5	72	15	18	22	43	1.87
3509315--3509531	81	2.7	81	80	6	201	22	18	22	36	1.95
3509477--3509594	21	5.8	20	71	14	71	22	18	21	37	1.94
3511713--3511836	14	8.7	14	75	16	87	52	0	11	36	1.37
3511712--3511837	57	2.2	58	80	9	161	52	0	11	36	1.37
3513037--3513136	29	3.4	29	92	0	164	49	7	15	29	1.70
3525794--3525824	15	2.0	16	93	6	55	90	6	3	0	0.55
3525818--3525849	15	2.3	15	89	10	50	75	12	12	0	1.06
3534104--3534345	83	3.0	82	89	4	350	40	4	11	43	1.62
3535038--3535071	14	2.4	14	90	0	50	20	8	0	70	1.13
3535550--3535589	20	2.0	20	85	9	55	42	25	17	15	1.88
3536067--3536118	20	2.6	19	79	8	59	17	15	19	48	1.82
3537803--3537848	21	2.2	21	84	0	56	17	15	28	39	1.90
3538262--3538374	21	5.4	20	70	16	77	21	34	22	22	1.97
3539745--3539879	66	2.1	65	87	5	193	29	1	17	51	1.54
3539985--3540029	20	2.2	20	84	0	63	37	26	17	17	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3540037--3540079	20	2.2	20	91	0	68	16	16	23	44	1.86
3540255--3540341	39	2.2	39	95	0	156	18	14	19	47	1.83
3541507--3541542	18	2.0	18	94	0	63	16	2	25	55	1.55
3543794--3543872	24	3.2	24	80	7	104	49	11	5	34	1.61
3543933--3543971	15	2.5	15	83	4	51	66	0	5	28	1.12
3544129--3544213	39	2.2	40	95	2	154	16	15	25	42	1.87
3544129--3544213	20	4.3	20	83	3	109	16	15	25	42	1.87
3544203--3544313	20	5.6	20	95	0	177	23	20	25	30	1.99
3544301--3544404	41	2.5	41	89	3	156	30	13	23	32	1.93
3544383--3544436	20	2.7	19	75	8	63	24	14	33	27	1.94
3545501--3545560	30	2.0	31	81	12	72	40	10	21	28	1.85
3552767--3552791	6	4.2	6	100	0	50	0	36	0	64	0.94
3564828--3564858	14	2.1	15	94	5	55	25	29	6	38	1.81
3565242--3565367	54	2.3	54	87	2	173	29	21	18	30	1.97
3569654--3569694	6	6.8	6	97	0	73	12	51	0	36	1.40
3576114--3576160	20	2.3	20	85	7	60	53	8	21	17	1.70
3581519--3581599	27	2.8	28	83	16	96	69	3	20	6	1.26
3585572--3585610	20	2.0	20	89	0	60	33	10	23	33	1.88
3586427--3586465	21	1.9	20	89	5	60	12	0	20	66	1.24
3587088--3587131	22	2.1	22	87	8	65	27	31	2	38	1.69
3591640--3591671	2	16.0	2	93	0	55	50	3	0	46	1.17
3592186--3592210	4	6.2	4	100	0	50	24	0	24	52	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3608605--3608725	43	2.8	43	89	1	179	33	16	23	25	1.96
3611244--3611422	45	4.0	45	93	1	286	33	21	5	39	1.77
3611244--3611442	45	4.4	45	90	3	276	33	22	6	38	1.78
3611244--3611442	91	2.2	90	87	2	283	33	22	6	38	1.78
3611543--3611671	59	2.2	59	82	0	159	30	26	16	27	1.97
3614412--3614681	42	6.5	42	79	3	251	29	22	17	31	1.96
3615407--3615455	21	2.3	21	89	3	71	28	30	6	34	1.82
3617128--3617153	6	4.3	6	100	0	52	50	0	0	50	1.00
3622858--3623128	42	6.5	42	80	2	260	29	22	17	30	1.97
3623085--3623226	73	1.9	73	90	2	223	25	21	21	31	1.98

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23