genome.fa.s9639.2.7.7.80.10.50.1000.42.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: VEPZ01009639.1 Hibiscus syriacus cultivar Beakdansim tig00117048_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  15077257

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  42  of  62  ( 7398 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)
9074660--9074717	21	2.6	22	72	8	55	37	3	5	53	1.40
9075398--9075533	50	2.7	50	84	4	150	34	31	11	22	1.89
9075737--9075812	32	2.4	32	80	2	82	53	9	15	21	1.69
9078181--9078233	24	2.2	24	96	0	97	22	28	35	13	1.92
9078614--9078662	24	2.0	24	100	0	98	32	20	14	32	1.92
9079783--9079854	17	4.2	17	81	10	67	38	9	12	38	1.76
9079810--9079853	18	2.5	18	89	10	65	43	13	6	36	1.71
9080714--9081083	186	2.0	185	98	0	713	30	15	19	34	1.92
9081146--9081179	15	2.3	15	89	0	50	17	29	0	52	1.45
9083676--9083743	17	4.2	16	71	21	52	38	10	11	39	1.76
9083700--9083742	18	2.4	18	88	11	63	41	13	6	37	1.72
9092498--9092621	55	2.3	55	92	0	203	23	25	22	29	1.99
9093295--9093327	14	2.3	15	85	15	52	42	15	15	27	1.86
9094817--9094859	20	2.2	20	87	8	61	65	13	2	18	1.38
9095259--9095315	21	2.6	23	83	5	73	22	24	33	19	1.97
9096082--9096393	155	2.0	159	96	2	587	36	20	14	28	1.92
9096392--9096503	60	1.9	59	94	5	199	28	28	7	35	1.84
9099338--9099377	21	1.9	21	85	10	55	35	7	2	55	1.42
9108949--9108995	20	2.3	20	92	0	76	12	23	36	27	1.91
9108949--9109004	20	2.8	20	88	0	67	14	26	30	28	1.95
9108967--9109149	73	2.5	74	84	7	237	22	25	23	28	1.99
9110854--9110894	20	2.0	20	85	4	55	36	14	7	41	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9115390--9115424	15	2.4	15	90	4	54	40	0	0	60	0.97
9115576--9115613	20	1.9	20	88	0	58	21	26	10	42	1.85
9121858--9121909	3	17.3	3	100	0	104	65	0	0	34	0.93
9122539--9122580	20	2.1	20	100	0	84	64	4	19	11	1.44
9124009--9124050	2	21.0	2	100	0	84	50	0	0	50	1.00
9124311--9124362	24	2.2	24	83	10	63	46	1	0	51	1.12
9124394--9124467	17	4.5	17	70	23	61	48	0	1	50	1.09
9125493--9125524	3	10.7	3	93	0	55	62	0	3	34	1.11
9130368--9130504	9	15.3	9	72	17	67	73	1	3	21	1.06
9130368--9130499	5	26.4	5	69	15	62	73	1	3	21	1.05
9130446--9130505	11	5.4	11	84	9	68	81	0	1	16	0.77
9130446--9130495	23	2.1	24	85	10	68	82	0	0	18	0.68
9131470--9131495	4	6.5	4	100	0	52	76	0	0	23	0.78
9131543--9131649	39	2.7	39	82	7	119	42	4	2	49	1.38
9131582--9131653	38	2.0	35	91	5	92	43	5	4	47	1.46
9131625--9131727	26	3.9	26	81	9	113	51	3	0	43	1.26
9131684--9131741	2	29.0	2	100	0	116	50	0	0	50	1.00
9131725--9131831	39	2.6	42	74	12	116	45	9	3	41	1.54
9131794--9131846	27	1.9	28	92	3	90	39	9	3	47	1.54
9131822--9131905	37	2.3	37	78	13	93	38	11	7	42	1.69
9133138--9133164	10	2.7	10	100	0	54	7	0	0	92	0.38
9135412--9135467	19	3.2	19	80	12	66	83	14	1	0	0.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9135411--9135467	9	6.6	9	78	13	57	82	15	1	0	0.75
9140581--9140616	2	18.5	2	94	5	65	50	0	0	50	1.00
9141629--9141745	41	2.9	40	83	5	155	44	13	5	35	1.69
9141643--9141745	41	2.5	40	90	1	161	42	13	5	37	1.68
9141785--9141890	39	2.7	39	81	5	124	46	15	4	33	1.66
9141629--9141974	175	2.0	176	80	5	387	45	12	5	36	1.65
9141879--9142078	57	3.5	56	77	8	163	42	10	6	41	1.64
9141882--9142139	58	4.4	57	76	11	211	41	10	7	39	1.68
9142250--9142439	45	4.2	45	74	11	149	37	10	8	43	1.70
9142274--9142463	90	2.1	90	80	4	215	41	11	8	39	1.71
9142409--9142521	45	2.5	45	94	0	199	40	11	7	39	1.71
9142746--9142789	12	3.5	12	87	6	52	47	9	9	34	1.67
9169215--9169256	21	2.0	21	86	9	59	50	2	11	35	1.52
9169687--9169744	24	2.5	24	83	10	68	3	18	1	75	1.03
9169689--9169811	17	6.7	18	71	23	64	4	18	4	73	1.16
9169711--9169762	21	2.5	22	84	9	72	5	19	3	71	1.22
9169688--9169764	21	3.6	21	81	10	68	5	20	2	71	1.18
9169731--9169797	18	3.9	17	77	11	66	5	17	4	71	1.23
9169732--9169814	17	4.7	18	76	8	82	3	18	4	73	1.16
9170903--9170939	6	6.2	6	100	0	74	32	35	16	16	1.91
9171953--9171997	21	2.1	21	95	0	81	42	22	2	33	1.66
9172002--9172961	486	2.0	469	89	4	1476	38	14	11	35	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9173145--9173277	47	2.9	46	83	6	146	32	21	7	38	1.82
9180742--9180785	21	2.1	21	82	0	52	9	43	15	31	1.79
9181956--9182062	45	2.4	44	85	7	135	28	21	19	29	1.98
9182032--9182080	19	2.6	19	84	9	57	24	28	20	26	1.99
9184293--9184406	53	2.2	53	93	0	192	34	20	17	28	1.95
9187526--9187596	20	3.5	20	76	3	70	35	22	19	22	1.96
9187626--9187682	21	2.8	21	76	12	64	36	28	15	19	1.92
9187625--9187712	42	2.1	41	82	2	104	36	25	15	22	1.94
9191730--9191785	15	3.7	15	97	0	103	26	8	14	50	1.72
9192014--9192059	7	6.7	7	80	11	51	39	0	13	47	1.42
9192020--9192064	21	2.1	21	91	0	72	40	0	13	46	1.43
9192437--9192512	30	2.5	31	84	2	100	36	11	23	27	1.90
9194512--9194586	31	2.4	31	84	0	96	26	24	12	37	1.90
9206333--9206404	17	4.2	17	78	5	65	37	12	9	40	1.76
9215934--9216027	29	3.1	28	72	11	71	41	6	18	34	1.76
9217930--9217972	22	2.0	21	86	8	61	41	9	9	39	1.69
9218138--9218299	30	5.3	30	73	10	103	27	12	27	32	1.93
9218199--9218300	30	3.4	31	82	5	111	25	13	29	31	1.94
9237544--9237573	15	2.0	15	93	0	51	3	6	10	80	1.01
9242919--9242948	3	10.0	3	100	0	60	33	0	0	66	0.92
9245375--9245413	19	2.1	19	85	9	53	41	0	5	53	1.23
9259341--9260054	54	13.3	54	89	1	1083	28	19	19	32	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9278487--9278666	65	2.8	64	80	7	195	29	23	18	28	1.98
9287115--9287274	65	2.5	63	84	6	196	30	23	18	27	1.98
9287066--9287274	64	3.3	63	77	15	214	30	24	18	26	1.98
9287246--9287311	17	3.7	17	74	9	69	27	27	18	27	1.98
9287269--9287330	19	3.4	19	73	8	74	27	29	16	27	1.97
9287255--9287330	36	2.1	36	97	0	143	26	28	17	27	1.97
9290631--9290711	40	2.0	40	87	0	117	49	8	9	32	1.66
9290925--9290986	31	2.0	31	84	3	81	33	4	9	51	1.56
9290947--9291322	200	1.9	197	86	6	535	37	6	8	47	1.59
9291313--9291357	23	2.0	23	90	0	72	33	4	2	60	1.29
9291402--9291444	22	2.0	22	95	0	77	46	4	6	41	1.51
9295503--9295545	19	2.3	19	91	0	68	25	9	13	51	1.71
9296138--9296175	14	2.7	14	95	0	67	26	7	13	52	1.67
9296133--9296166	14	2.5	13	86	9	50	20	5	14	58	1.57
9301590--9301637	25	2.0	24	84	12	62	43	0	2	54	1.12
9303910--9303935	12	2.2	12	100	0	52	0	38	34	26	1.57
9304839--9304878	21	1.9	21	84	0	53	30	2	35	32	1.71
9305602--9305640	20	2.0	19	90	5	60	17	25	28	28	1.98
9309659--9310160	269	1.9	266	97	2	807	27	17	15	38	1.91
9321770--9321843	20	3.6	20	78	7	76	41	16	16	25	1.88
9321770--9321824	22	2.6	21	88	5	76	45	16	14	23	1.84
9330208--9330285	29	2.9	27	83	9	88	76	1	16	5	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9330238--9330285	14	3.4	14	86	8	62	79	2	12	6	1.01
9331359--9331699	77	4.4	77	83	3	409	34	15	18	31	1.92
9332693--9332790	42	2.3	42	87	6	137	23	18	26	31	1.97
9332694--9332790	21	4.6	21	75	2	88	23	18	25	31	1.97
9338088--9338139	20	2.5	20	84	3	68	25	11	28	34	1.91
9340157--9340227	20	3.2	20	67	24	52	18	25	12	43	1.85
9340135--9340232	47	2.1	47	94	0	169	19	21	13	45	1.84
9340257--9340298	20	2.0	22	86	9	61	28	26	4	40	1.76
9341533--9341985	45	10.3	45	78	9	434	28	21	10	39	1.86
9341603--9342057	214	2.1	214	95	0	802	28	21	10	38	1.88

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