genome.fa.s190.2.7.7.80.10.50.1000.29.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: VEPZ01000190.1 Hibiscus syriacus cultivar Beakdansim tig00000340_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  14308945

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   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   

This is table  29  of  62  ( 7381 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)
6812917--6813059	60	2.4	59	77	12	150	36	14	6	42	1.71
6812964--6813097	60	2.2	60	81	5	155	34	21	7	36	1.82
6813928--6814121	105	1.8	105	81	2	237	29	24	13	31	1.94
6816915--6816971	25	2.3	25	81	3	71	21	1	14	63	1.39
6817614--6817658	18	2.5	18	96	0	81	26	4	0	68	1.08
6823184--6823246	21	3.0	21	88	4	92	17	7	3	71	1.23
6823193--6823246	11	5.1	11	82	8	67	18	5	1	74	1.11
6823255--6823304	14	3.5	14	84	10	57	28	4	0	68	1.08
6823268--6823301	5	7.0	5	93	3	52	35	0	0	64	0.94
6823196--6823246	5	9.8	5	79	8	57	17	5	1	74	1.11
6827872--6827913	18	2.3	18	87	0	57	19	7	2	71	1.20
6827969--6828038	35	2.0	35	83	8	88	24	7	1	67	1.24
6828663--6828694	2	16.5	2	93	6	57	46	0	0	53	1.00
6831812--6831934	63	2.0	62	82	7	151	26	27	26	18	1.98
6832799--6832966	29	5.9	29	85	2	225	35	22	5	36	1.77
6832799--6832965	57	2.9	58	87	2	250	35	22	5	36	1.77
6832961--6832995	17	2.1	17	94	0	61	8	25	48	17	1.75
6838919--6839112	82	2.3	84	83	6	230	36	18	5	40	1.74
6838919--6839112	29	6.8	29	83	8	229	36	18	5	40	1.74
6842990--6843113	48	2.6	49	83	5	155	20	12	30	35	1.91
6843544--6843575	14	2.3	14	94	0	55	31	0	0	68	0.90
6845332--6845371	21	1.9	21	94	0	71	27	35	12	25	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6845327--6845378	16	3.2	16	89	5	77	26	32	15	25	1.95
6845327--6845378	12	4.6	12	76	13	56	26	32	15	25	1.95
6845390--6845433	20	2.2	20	100	0	88	36	34	15	13	1.87
6848148--6848192	23	2.0	23	100	0	90	33	8	26	31	1.87
6852670--6852744	38	2.0	38	94	5	134	40	2	13	44	1.58
6853269--6853323	28	2.0	28	88	0	83	47	1	0	50	1.11
6853285--6853323	14	2.8	14	80	11	53	43	2	0	53	1.14
6853355--6853394	21	1.9	21	89	0	62	52	5	2	40	1.37
6853370--6853436	31	2.1	32	91	2	109	41	2	2	52	1.32
6853378--6853444	31	2.2	30	86	10	91	40	2	4	52	1.37
6871538--6871569	11	2.9	11	100	0	64	75	9	0	15	1.05
6879349--6879426	26	3.0	25	77	12	95	41	17	8	32	1.81
6879352--6879438	27	3.3	27	75	12	90	43	16	9	31	1.79
6879401--6879563	64	2.5	65	83	7	215	40	14	6	38	1.71
6879608--6879816	81	2.6	81	96	0	375	37	9	15	36	1.81
6879608--6879817	26	7.9	27	70	13	139	37	10	15	36	1.81
6897150--6897442	54	5.4	54	87	0	381	39	13	13	32	1.85
6897463--6897501	20	2.1	18	86	13	53	48	0	7	43	1.31
6899220--6899359	47	3.0	47	92	0	235	36	28	15	20	1.92
6900524--6901369	359	2.3	357	83	5	1031	31	20	14	33	1.92
6901933--6902098	79	2.1	79	83	6	205	43	2	6	47	1.42
6905059--6905095	14	2.7	14	91	4	58	48	21	0	29	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6906383--6906453	33	2.1	34	82	7	83	23	2	5	67	1.25
6906549--6906597	21	2.4	19	86	10	62	28	20	0	51	1.48
6906564--6906607	14	3.1	14	83	3	52	31	22	2	43	1.66
6906727--6906792	29	2.3	27	82	7	78	21	10	6	62	1.49
6906727--6906791	14	4.6	14	76	3	51	20	10	6	63	1.48
6908087--6908170	31	2.7	31	96	0	150	28	5	35	29	1.81
6908101--6908155	19	3.3	19	67	32	61	23	5	36	34	1.78
6908585--6908683	49	2.0	49	94	0	171	40	9	26	24	1.84
6920493--6920534	19	2.2	19	86	0	57	21	23	28	26	1.99
6924208--6924388	60	3.1	58	73	11	154	35	19	4	40	1.72
6924768--6924798	3	10.3	3	100	0	62	0	35	0	64	0.94
6926145--6926375	46	5.0	46	92	0	390	44	11	25	19	1.84
6926158--6926439	66	4.2	66	73	10	255	43	9	26	20	1.83
6926250--6926452	112	1.8	111	89	1	316	44	9	25	19	1.81
6926918--6927052	68	2.0	68	80	2	155	34	16	22	27	1.95
6927271--6928086	420	1.9	421	93	0	1393	42	10	17	28	1.83
6930409--6930453	15	2.9	15	86	3	54	28	13	28	28	1.94
6934033--6934062	12	2.5	12	94	0	51	66	6	3	23	1.30
6934825--6934868	20	2.2	20	87	0	61	63	4	6	25	1.38
6937647--6937692	21	2.2	21	100	0	92	23	8	19	47	1.77
6938025--6938075	21	2.5	21	83	3	77	29	29	11	29	1.92
6947756--6947839	41	2.0	41	100	0	168	32	14	14	39	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6951897--6952338	54	8.2	54	90	0	641	37	15	16	31	1.89
6954897--6954963	22	3.0	22	91	0	107	29	22	19	28	1.98
6956440--6957141	365	1.9	365	85	2	955	32	20	12	34	1.90
6959711--6959781	24	3.0	24	87	0	97	23	21	18	36	1.95
6963157--6970769	257	29.2	259	77	7	6625	33	13	17	35	1.89
6963157--6970762	775	9.7	770	85	5	9056	33	13	17	35	1.89
6967171--6967250	41	1.9	41	82	7	99	27	16	20	36	1.93
6967702--6967799	41	2.4	41	92	1	160	24	20	19	35	1.95
6968476--6968555	42	1.9	42	86	0	115	23	16	22	37	1.93
6969286--6969383	41	2.4	41	92	1	160	24	20	19	35	1.95
6970059--6970138	42	1.9	42	86	0	115	23	16	22	37	1.93
6970836--6970883	14	3.6	13	78	13	53	79	0	16	4	0.89
6970764--6970886	28	4.6	26	70	19	83	76	0	16	7	1.00
6978189--6978275	29	3.0	29	100	0	174	17	13	24	44	1.85
6978729--6978762	18	1.9	17	88	5	50	55	0	2	41	1.15
6978795--6978823	12	2.3	13	94	5	51	65	6	0	27	1.18
6980159--6980273	6	19.2	6	94	3	196	32	48	16	2	1.60
6980271--6980324	5	10.8	5	93	0	63	14	37	40	7	1.74
6986193--6986241	6	8.2	6	100	0	98	34	48	16	0	1.46
6986239--6986292	5	10.8	5	93	0	72	16	37	40	5	1.72
6997551--6997639	31	2.9	31	83	3	99	14	26	30	28	1.95
6998996--6999148	60	2.5	60	77	9	168	33	21	4	39	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7000626--7000681	20	2.8	19	81	7	67	30	19	30	19	1.97
7001178--7001362	46	4.0	46	97	0	334	44	10	24	20	1.83
7001178--7001408	20	10.0	25	72	20	161	44	10	24	20	1.82
7001191--7001428	66	3.5	62	80	13	201	42	10	26	20	1.83
7001237--7001440	112	1.8	112	94	0	363	43	9	25	21	1.83
7001351--7001440	46	2.0	46	93	0	153	43	7	24	24	1.80
7001191--7001382	92	2.2	89	90	5	300	43	10	26	19	1.83
7001606--7001746	56	2.5	54	80	10	142	39	11	15	34	1.83
7001907--7002043	68	2.0	68	84	0	175	30	16	26	27	1.96
7004733--7004928	100	2.0	100	83	7	254	38	15	20	25	1.92
7006785--7007221	222	2.0	222	92	0	732	39	16	13	30	1.87
7007008--7008178	241	4.6	242	67	21	716	38	16	14	30	1.88
7007330--7007474	64	2.3	64	100	0	290	42	11	11	34	1.77
7007394--7008178	242	3.3	240	88	3	1081	38	16	14	30	1.89
7008434--7008595	58	2.8	55	81	7	164	38	18	9	33	1.83
7008604--7008982	55	6.9	55	84	0	438	43	14	10	32	1.79
7008614--7008937	109	3.0	109	87	0	450	42	13	10	32	1.79
7008604--7008928	164	2.0	165	87	4	469	42	14	10	32	1.80
7009635--7009664	15	2.0	15	93	0	51	36	13	0	50	1.42
7010555--7010655	35	2.9	35	96	0	193	31	28	30	8	1.88
7010739--7010832	24	4.0	24	85	2	127	40	20	13	25	1.89
7010742--7010832	47	1.9	48	88	2	139	39	19	14	26	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7013124--7013181	18	3.3	18	97	2	109	10	22	50	17	1.76
7014705--7014738	13	2.5	13	90	4	50	2	17	2	76	1.04
7014720--7014771	17	2.9	17	85	5	59	3	19	1	75	1.06
7014710--7014771	8	7.2	8	74	13	52	3	19	1	75	1.02
7020451--7020480	12	2.5	12	94	0	51	66	6	3	23	1.30
7020730--7020772	20	2.2	20	87	8	61	74	4	2	18	1.10
7021246--7021289	20	2.2	20	87	0	61	65	4	9	20	1.38
7025137--7025523	54	7.2	53	87	2	531	39	15	13	31	1.86
7027223--7027926	356	2.0	356	84	3	918	33	19	11	34	1.88
7032690--7032815	47	2.8	45	85	8	166	30	22	7	39	1.81

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   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62