genome.fa.s9634.2.7.7.80.10.50.1000.32.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: VEPZ01009634.1 Hibiscus syriacus cultivar Beakdansim tig00117034_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  17174986

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   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   

This is table  32  of  78  ( 9351 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)
6559746--6559774	2	14.5	2	100	0	58	51	0	48	0	1.00
6560741--6560775	15	2.3	15	95	0	61	5	17	68	8	1.35
6562344--6562388	22	2.0	22	86	4	63	48	2	2	46	1.26
6564184--6564216	16	2.1	16	94	0	57	27	12	12	48	1.76
6564373--6564418	19	2.5	19	85	3	58	30	8	2	58	1.40
6565027--6565119	23	4.1	23	94	1	152	38	25	9	25	1.86
6565206--6565283	20	4.0	20	76	3	77	56	12	11	19	1.66
6567959--6568196	119	1.9	120	82	7	291	33	7	28	30	1.86
6568073--6568297	103	2.2	103	87	4	317	32	6	29	31	1.83
6568441--6568465	13	1.9	13	100	0	50	0	0	44	56	0.99
6568551--6568631	28	2.9	28	96	0	144	28	13	9	48	1.74
6568679--6568748	25	2.8	25	93	4	115	45	0	5	48	1.26
6568710--6568844	51	2.6	50	79	9	146	42	4	6	46	1.50
6568813--6568853	18	2.3	18	95	0	73	41	7	4	46	1.53
6568922--6568983	18	3.3	18	77	18	56	43	8	8	40	1.64
6568922--6568961	18	2.1	20	86	9	57	45	7	7	40	1.61
6569047--6569081	15	2.4	15	95	4	63	48	0	5	45	1.26
6569050--6569307	27	9.7	27	74	11	192	44	3	7	44	1.50
6569048--6569254	7	30.9	7	66	21	54	43	3	7	44	1.49
6569048--6569141	20	4.7	20	72	15	61	50	3	6	40	1.44
6569221--6569544	20	15.4	20	67	20	110	44	4	6	44	1.50
6569242--6569495	27	9.4	28	69	22	113	44	5	6	43	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6569316--6569378	24	2.6	24	78	14	67	46	6	6	41	1.55
6569390--6569776	29	12.8	29	70	19	115	42	5	8	44	1.57
6569479--6569606	42	3.1	42	75	5	109	42	3	7	46	1.49
6569633--6569677	17	2.6	17	89	3	63	42	4	4	48	1.43
6569692--6569785	9	9.7	9	68	26	50	39	3	10	46	1.54
6569728--6569787	11	5.7	11	74	18	56	38	1	10	50	1.46
6569673--6569738	29	2.3	29	97	0	123	40	6	12	40	1.67
6569814--6569995	20	8.9	20	70	17	97	45	3	3	47	1.39
6569814--6569992	22	8.7	21	72	14	106	44	3	3	47	1.40
6569874--6569970	9	9.5	10	68	25	53	45	3	3	48	1.33
6569917--6569974	11	5.5	11	76	17	61	44	3	1	50	1.29
6578191--6578294	42	2.5	42	84	6	131	24	21	22	32	1.98
6578236--6578294	22	2.8	20	70	7	55	25	18	22	33	1.96
6577770--6578904	237	4.5	251	81	9	1213	32	15	16	35	1.90
6578446--6578532	42	2.1	42	80	6	97	29	17	20	32	1.95
6577924--6579617	498	3.5	495	79	9	1931	31	16	16	34	1.92
6578181--6579748	237	6.6	236	79	9	1482	31	16	17	34	1.92
6578903--6578994	42	2.2	42	80	7	98	27	22	19	30	1.98
6578681--6579125	220	2.0	219	86	3	626	33	17	14	34	1.90
6579169--6579254	42	2.0	43	80	8	97	25	20	23	30	1.99
6580363--6580409	17	2.7	18	83	12	62	76	4	0	19	0.95
6581620--6581644	12	2.1	12	100	0	50	44	0	16	40	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6587390--6587459	2	35.0	2	100	0	140	50	0	0	50	1.00
6587766--6587808	21	2.0	22	86	13	63	34	27	23	13	1.93
6588777--6588843	35	1.9	35	84	6	91	31	20	14	32	1.93
6593719--6593801	43	2.0	42	85	7	114	31	14	24	30	1.94
6601686--6601749	34	1.9	34	87	6	96	57	18	9	14	1.63
6607586--6607653	21	3.2	21	81	8	66	66	2	1	29	1.15
6607600--6607686	44	2.0	44	81	4	104	68	3	2	25	1.16
6607600--6607684	8	11.5	8	70	23	62	69	3	2	24	1.16
6607600--6607686	22	4.0	22	82	8	88	68	3	2	25	1.16
6607594--6607689	15	6.5	15	72	12	65	66	3	2	28	1.18
6612240--6612290	11	4.6	11	78	7	50	0	31	1	66	1.03
6614211--6614282	30	2.4	30	83	4	92	18	12	12	56	1.66
6614255--6614303	21	2.3	21	92	0	80	18	10	10	61	1.55
6614223--6614324	51	2.0	51	88	0	150	17	11	11	58	1.62
6614274--6614374	30	3.4	30	88	2	141	16	9	11	61	1.56
6614270--6614405	60	2.3	60	84	3	177	14	11	13	60	1.59
6614207--6614361	81	1.9	81	89	0	238	18	10	12	58	1.62
6614274--6614410	30	4.6	29	83	1	139	16	11	13	59	1.62
6615383--6615454	18	4.2	18	85	8	105	43	15	13	27	1.85
6616746--6616771	1	26.0	1	100	0	52	100	0	0	0	0.00
6617528--6617590	24	2.6	24	94	0	108	30	0	17	52	1.45
6618233--6618266	17	2.0	17	88	0	50	23	0	2	73	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6623953--6624063	5	22.0	5	75	9	64	21	8	2	67	1.29
6624017--6624062	14	3.2	14	87	6	65	21	2	2	73	1.04
6626161--6626344	85	2.2	82	83	6	219	31	2	10	54	1.49
6626584--6626617	18	1.9	17	88	5	50	47	14	5	32	1.69
6626898--6626931	17	2.0	17	88	0	50	23	0	2	73	0.97
6634603--6634657	21	2.6	21	80	8	58	60	0	3	36	1.15
6635821--6635863	19	2.3	19	88	8	61	51	2	0	46	1.13
6640570--6640624	27	2.0	27	82	6	67	69	7	5	18	1.32
6640738--6640785	19	2.5	19	79	3	60	77	2	0	20	0.88
6641844--6641896	23	2.3	23	76	0	61	0	18	43	37	1.51
6641915--6641957	20	2.2	20	87	8	61	11	0	32	55	1.36
6641958--6642010	3	16.3	3	81	11	52	60	0	0	39	0.97
6641951--6642005	27	2.1	25	90	6	83	54	0	1	43	1.10
6641960--6642010	22	2.2	24	86	6	70	60	0	0	39	0.97
6642893--6642930	17	2.3	17	86	4	51	13	13	5	68	1.37
6642971--6643008	9	4.4	9	87	9	53	2	13	0	84	0.73
6642971--6643009	17	2.3	17	87	12	62	2	12	0	84	0.72
6643280--6643396	41	2.8	42	81	5	157	28	17	23	30	1.97
6643357--6644058	244	2.9	241	85	3	939	34	16	16	32	1.91
6644114--6644212	51	1.9	51	89	4	155	37	17	12	33	1.86
6644165--6644326	59	2.8	58	83	7	193	39	18	9	32	1.83
6647322--6647356	2	17.5	2	100	0	70	51	48	0	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6647356--6647397	2	21.0	2	100	0	84	50	0	0	50	1.00
6649146--6649207	22	2.8	21	87	4	70	9	8	0	82	0.85
6649186--6649225	5	7.8	5	83	5	53	0	27	0	72	0.85
6651412--6651457	23	2.0	23	86	4	65	73	6	0	19	1.04
6652538--6652595	23	2.5	23	76	15	66	6	12	46	34	1.68
6655026--6655057	15	2.1	16	88	11	50	34	0	0	65	0.93
6655041--6655094	23	2.3	24	78	15	60	27	1	3	66	1.19
6657612--6657668	25	2.3	25	87	6	80	68	10	14	7	1.38
6661669--6661731	26	2.4	26	78	7	65	20	15	6	57	1.61
6665985--6666067	42	2.0	42	83	4	105	27	19	18	34	1.95
6677829--6677937	25	4.4	25	97	2	202	18	37	7	36	1.79
6683191--6683250	3	19.0	3	77	16	59	30	0	3	66	1.07
6683191--6683228	10	3.8	10	93	6	60	36	0	2	60	1.11
6683191--6683250	10	6.3	9	83	11	59	30	0	3	66	1.07
6683223--6683295	6	12.2	6	84	5	85	17	2	1	78	0.95
6684276--6684322	18	2.7	17	80	3	58	34	6	29	29	1.82
6692201--6692254	20	2.7	21	94	5	87	24	24	16	35	1.95
6692221--6693362	483	2.4	476	84	3	1410	32	16	15	35	1.91
6692221--6693362	240	4.7	238	84	3	1324	32	16	15	35	1.91
6692946--6693052	42	2.6	42	80	7	121	28	19	19	32	1.96
6693632--6694361	134	5.5	133	83	4	812	30	21	18	29	1.97
6700249--6700328	23	3.5	23	82	3	99	21	21	22	35	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6700318--6700402	24	3.5	24	88	3	118	25	24	22	27	2.00
6703182--6703763	162	3.6	162	91	1	880	35	19	18	25	1.95
6703183--6703763	54	10.8	54	87	2	792	35	19	18	25	1.95
6708518--6708555	19	2.0	20	89	5	60	36	2	10	50	1.51
6709518--6709569	23	2.3	23	96	0	95	23	21	25	30	1.99
6710352--6710392	20	2.0	20	85	0	55	24	29	31	14	1.95
6711154--6711379	103	2.2	103	94	1	400	26	13	23	36	1.92
6711411--6711455	23	2.0	23	95	0	81	22	20	26	31	1.98
6720733--6720819	10	8.7	10	71	17	65	51	1	1	45	1.16
6720768--6720846	11	7.7	10	75	22	67	55	0	0	44	0.99

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   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78