genome.fa.s8356.2.7.7.80.10.50.1000.38.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: VEPZ01008356.1 Hibiscus syriacus cultivar Beakdansim tig00111095_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12862612

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   

This is table  38  of  56  ( 6656 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)
8533357--8533683	165	2.0	165	89	1	503	37	13	13	35	1.83
8534187--8534241	22	2.5	22	93	0	101	40	14	10	34	1.81
8538458--8538509	16	3.2	16	81	10	54	5	15	0	78	0.92
8538441--8538509	34	2.0	34	83	5	86	5	18	0	75	1.00
8543776--8543819	22	1.9	24	90	9	74	72	0	0	27	0.85
8543777--8543819	11	4.1	10	79	8	50	72	0	0	27	0.85
8543776--8543831	21	2.5	22	82	8	69	73	0	1	25	0.93
8544292--8544347	22	2.5	22	74	5	60	48	0	3	48	1.19
8545637--8545681	3	15.3	3	90	4	74	33	2	0	64	1.06
8545641--8545678	20	1.9	20	100	0	76	31	2	0	65	1.06
8545638--8545681	23	1.9	23	100	0	88	31	2	0	65	1.05
8546357--8546381	10	2.5	10	100	0	50	32	32	0	36	1.58
8553049--8553113	3	21.7	3	87	0	76	60	3	6	30	1.37
8553112--8553146	3	11.7	3	100	0	70	34	0	0	65	0.93
8568395--8568434	21	1.9	21	89	0	62	10	15	2	72	1.21
8570460--8570514	20	2.6	21	78	16	60	23	16	27	32	1.96
8571025--8571073	21	2.3	21	89	6	73	38	12	18	30	1.87
8571208--8571299	21	4.4	21	68	15	55	23	13	26	36	1.91
8596912--8596963	20	2.6	20	84	6	70	34	0	26	38	1.57
8598182--8598224	22	2.0	22	85	0	59	39	6	13	39	1.72
8603473--8603575	44	2.4	44	87	8	140	29	28	8	33	1.87
8603491--8603578	44	2.0	45	97	2	169	31	25	11	31	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8634566--8634628	30	2.1	30	87	0	90	39	6	17	36	1.75
8637982--8638009	2	14.0	2	100	0	56	50	0	0	50	1.00
8638704--8638746	22	2.0	22	95	0	77	39	6	13	39	1.72
8641948--8642036	45	2.0	45	84	10	119	28	16	6	48	1.72
8642475--8642875	59	6.8	59	86	3	445	31	20	13	33	1.92
8648056--8648536	59	8.2	59	86	0	660	31	22	12	34	1.90
8653026--8653113	46	1.9	46	81	9	108	31	17	6	44	1.75
8653588--8654225	59	10.9	58	85	3	728	31	21	11	35	1.89
8653648--8654225	235	2.5	234	88	3	831	30	21	11	36	1.89
8667334--8667381	12	4.0	12	77	0	60	16	14	18	50	1.79
8676388--8676489	24	4.2	24	79	7	109	20	12	17	49	1.79
8676394--8676487	48	2.0	48	85	4	127	21	13	18	46	1.83
8681162--8681209	12	4.0	12	75	0	51	16	12	18	52	1.75
8685844--8685904	24	2.5	24	94	0	104	27	18	16	37	1.92
8695139--8695186	12	4.0	12	75	0	51	16	16	18	47	1.82
8699863--8699910	12	4.0	12	88	0	78	16	16	16	50	1.79
8703317--8703822	256	2.0	256	99	0	1003	39	16	16	26	1.90
8704706--8704753	12	4.0	12	73	10	53	18	16	14	50	1.79
8709483--8709530	12	4.0	12	80	0	60	16	14	18	50	1.79
8714258--8714305	12	4.0	12	78	10	53	18	14	18	47	1.82
8715384--8715430	24	2.0	24	86	0	67	14	10	19	55	1.68
8715380--8715427	12	4.0	12	76	10	53	16	12	18	52	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8718770--8718842	24	3.0	23	76	4	74	20	13	17	47	1.81
8718832--8718857	12	2.2	12	100	0	52	7	7	26	57	1.54
8722691--8722738	12	4.0	12	77	0	51	16	16	18	47	1.82
8730889--8731342	59	7.8	59	86	3	555	31	21	12	34	1.90
8730949--8731342	176	2.2	176	87	2	553	31	21	12	35	1.90
8730886--8731342	235	2.0	232	87	3	659	32	21	12	34	1.90
8741794--8741862	35	2.0	35	91	0	111	26	33	11	28	1.91
8753712--8753757	20	2.4	18	82	7	56	39	2	19	39	1.64
8754262--8754286	2	12.5	2	100	0	50	0	0	48	52	1.00
8757882--8757916	18	1.9	18	88	0	52	40	0	40	20	1.52
8762368--8762405	13	2.9	13	92	0	67	31	10	23	34	1.89
8770953--8771074	44	2.8	43	81	5	145	32	19	27	19	1.96
8771172--8771233	24	2.6	24	78	0	70	54	17	14	12	1.70
8771184--8771232	12	4.0	13	74	12	50	55	20	14	10	1.68
8775720--8775950	73	3.2	73	79	7	227	35	21	22	21	1.96
8775899--8776278	72	5.3	71	80	5	365	35	22	19	22	1.96
8775924--8776291	144	2.6	144	80	3	411	35	22	18	23	1.96
8777412--8777459	2	24.0	2	100	0	96	50	0	0	50	1.00
8777432--8777649	58	3.9	55	73	16	180	42	1	6	48	1.40
8777507--8777610	24	4.2	24	72	16	77	40	1	9	48	1.47
8777441--8777639	110	1.8	111	85	5	287	42	2	7	48	1.43
8777664--8777705	5	8.0	5	87	10	57	40	0	2	57	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8777443--8777695	110	2.3	110	80	6	266	43	1	7	47	1.40
8778786--8779016	44	5.2	44	91	0	363	20	21	12	44	1.85
8782877--8782909	16	2.1	16	88	11	50	15	6	0	78	0.93
8785825--8786154	165	2.0	165	100	0	660	36	10	11	40	1.77
8795051--8795562	254	2.0	254	98	0	979	29	16	19	33	1.94
8800857--8800890	15	2.2	16	89	5	52	76	5	0	17	0.98
8801486--8801533	21	2.2	21	85	10	62	31	29	18	20	1.97
8801792--8801869	31	2.5	31	85	4	95	25	25	12	35	1.92
8803833--8803899	31	2.2	31	94	0	116	37	11	28	22	1.90
8804121--8804150	5	6.0	5	92	0	51	0	56	0	43	0.99
8805397--8805439	22	1.9	22	90	4	68	60	0	0	39	0.97
8805797--8805832	18	1.9	19	88	5	56	22	5	13	58	1.56
8805843--8805870	2	14.0	2	100	0	56	50	0	0	50	1.00
8805969--8806020	28	2.0	25	85	14	70	55	17	15	11	1.68
8807728--8807803	36	2.1	36	97	0	143	31	10	14	43	1.79
8817204--8817275	29	2.4	29	80	13	83	40	9	18	31	1.83
8817259--8817322	30	2.1	30	85	5	85	40	7	20	31	1.81
8824270--8824414	44	3.3	43	78	4	146	31	20	28	20	1.97
8824496--8824573	24	3.2	24	78	7	95	55	16	12	15	1.70
8824503--8824569	12	5.6	12	68	19	50	53	16	14	14	1.73
8828905--8828995	42	2.2	42	83	0	110	27	25	21	25	2.00
8829029--8829259	73	3.1	74	78	4	218	34	20	23	20	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8829244--8829617	72	5.2	72	81	2	378	34	22	20	22	1.97
8829233--8829617	144	2.7	143	79	6	438	34	22	20	22	1.97
8829685--8830242	201	2.8	200	79	6	545	34	21	16	27	1.95
8830723--8830756	2	17.0	2	100	0	68	50	0	0	50	1.00
8830679--8831004	58	5.4	58	71	17	200	43	2	6	48	1.40
8830804--8830865	28	2.4	24	84	10	70	37	1	11	50	1.48
8830845--8830883	17	2.2	19	86	13	57	30	0	7	61	1.24
8830725--8831011	126	2.3	125	77	13	307	43	2	5	48	1.39
8832103--8832333	44	5.2	44	89	2	329	21	21	12	45	1.84
8840758--8840802	19	2.4	19	85	7	56	35	8	20	35	1.84
8843371--8843882	254	2.0	254	97	0	970	29	16	20	33	1.95
8845392--8845436	21	2.1	21	84	8	56	57	0	26	15	1.38
8858573--8858703	36	3.6	36	89	0	190	45	19	19	16	1.85
8860154--8860215	2	31.0	2	100	0	124	50	0	0	50	1.00
8861855--8861884	13	2.3	13	94	0	51	73	16	6	3	1.18
8863291--8863339	21	2.3	22	75	7	55	48	8	2	40	1.44
8863559--8863618	2	30.0	2	100	0	120	50	0	0	50	1.00
8868035--8868077	6	7.2	6	100	0	86	0	16	48	34	1.46
8873975--8874023	6	8.2	6	95	0	80	4	16	48	30	1.64
8877480--8877658	5	36.2	5	96	2	326	59	1	0	39	1.05
8877483--8877660	8	23.0	8	68	30	97	58	1	0	39	1.05
8882723--8882897	66	2.6	66	88	8	214	28	2	17	52	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8882754--8882897	66	2.2	64	93	2	243	29	2	18	49	1.59
8883349--8883384	18	2.0	18	88	0	54	19	2	25	52	1.59
8886628--8886693	18	3.5	18	79	8	69	34	13	19	31	1.91
8886644--8886771	19	6.5	19	81	8	123	28	13	21	36	1.91
8886647--8886757	19	5.7	19	86	4	125	30	12	21	35	1.91
8886640--8886757	39	3.0	40	85	7	145	32	12	20	34	1.90
8886647--8886790	40	3.7	40	82	8	120	27	13	22	36	1.92
8886765--8886848	20	4.2	20	73	3	87	22	19	22	35	1.96
8889200--8889248	21	2.3	21	92	0	80	30	16	18	34	1.93
8891853--8891913	25	2.5	24	72	2	59	75	3	3	18	1.08

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