genome.fa.s1129.2.7.7.80.10.50.1000.71.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: VEPZ01001129.1 Hibiscus syriacus cultivar Beakdansim tig00002237_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  21326069

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   79   80   
          81   82   83   84   85   86   87   88   89   

This is table  71  of  89  ( 10573 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)
16968862--16968952	42	2.2	41	86	5	130	25	21	23	29	1.99
16969298--16969327	15	1.9	16	93	6	53	46	43	6	3	1.46
16973380--16973454	24	3.6	20	75	18	64	24	26	18	30	1.98
16973424--16973470	19	2.5	19	89	6	69	19	29	19	31	1.96
16977581--16977638	20	2.6	23	86	10	77	25	25	20	27	1.99
16979033--16980000	481	2.0	483	91	2	1559	47	6	12	33	1.67
16980037--16980096	15	3.9	16	72	22	56	38	1	16	43	1.58
16980111--16980155	14	3.4	14	82	11	51	42	11	0	46	1.39
16980592--16980779	2	97.0	2	70	17	103	52	3	3	40	1.33
16980699--16980802	16	6.2	16	75	13	61	50	2	4	41	1.38
16981140--16981273	65	2.1	65	84	6	175	29	22	17	30	1.97
16981156--16981315	65	2.5	64	82	6	187	28	25	19	26	1.99
16986882--16986958	23	3.5	22	68	13	68	25	23	22	28	1.99
16989215--16989264	25	2.0	25	100	0	100	40	0	32	28	1.57
16990477--16990640	2	81.5	2	69	20	76	47	4	2	45	1.35
16990478--16990572	31	2.9	32	75	13	104	45	5	1	48	1.32
16990616--16990673	17	3.3	17	77	13	55	36	10	0	53	1.35
16990616--16990648	14	2.3	15	89	5	50	42	9	0	48	1.35
16990827--16990914	45	2.0	45	93	0	149	52	14	6	26	1.67
16991287--16991444	39	4.0	40	83	9	200	34	27	24	13	1.92
16997210--16997362	39	3.9	39	88	0	225	33	23	26	16	1.95
16998963--16999004	7	6.0	7	81	10	50	50	0	11	38	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16998961--16999005	13	3.3	13	82	11	54	51	0	11	37	1.38
16998950--16999092	22	6.6	22	78	12	102	51	1	6	41	1.36
16998933--16999035	8	13.9	8	73	20	73	51	1	8	37	1.44
16998974--16999184	28	7.4	29	67	24	96	52	1	6	39	1.39
16998991--16999073	26	3.1	28	83	11	97	54	2	2	40	1.27
16999010--16999071	2	30.0	2	87	6	88	51	1	1	45	1.20
16999012--16999159	26	6.2	23	69	16	72	50	1	6	41	1.35
17002766--17002893	22	5.6	24	71	22	80	35	7	0	57	1.32
17002791--17002872	27	3.0	26	77	19	71	39	4	0	56	1.21
17002797--17002955	49	3.3	48	76	14	166	35	6	1	55	1.35
17002865--17002898	14	2.4	14	90	0	50	35	5	0	58	1.22
17002844--17002912	36	1.9	36	85	11	97	34	7	1	56	1.36
17002841--17002957	19	6.0	20	70	19	95	35	6	1	55	1.37
17004779--17005131	2	176.0	2	65	20	96	43	3	5	47	1.43
17004825--17005131	75	4.1	77	71	15	207	43	3	4	47	1.43
17006173--17006230	27	2.1	27	93	0	98	46	3	25	24	1.68
17008646--17008725	40	2.0	40	85	0	106	38	18	12	30	1.88
17010476--17010521	20	2.3	20	92	3	76	36	23	0	39	1.55
17023476--17023510	17	2.1	17	88	0	52	51	0	2	45	1.16
17023530--17023594	25	2.7	23	77	11	67	66	3	1	29	1.16
17024879--17024927	3	16.7	3	83	12	66	65	0	2	32	1.04
17025162--17025262	39	2.6	39	91	1	175	22	22	6	47	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17025162--17025265	40	2.6	41	90	6	178	22	23	6	48	1.74
17025205--17026075	113	7.8	111	89	1	1163	29	18	13	38	1.89
17026483--17026559	22	3.5	22	89	0	118	38	11	12	36	1.80
17028616--17028662	3	17.0	3	83	16	57	68	2	0	29	1.02
17028603--17028666	13	4.9	13	75	9	51	64	1	0	34	1.03
17028618--17028665	16	3.1	15	81	3	60	68	2	0	29	1.01
17028971--17029126	54	2.9	53	92	3	258	23	21	16	37	1.93
17031184--17031403	114	1.9	114	93	0	377	30	20	15	33	1.94
17037487--17037544	13	4.5	13	79	14	59	74	0	1	24	0.92
17037487--17037547	16	4.0	15	81	12	63	73	0	1	24	0.92
17038301--17038335	17	2.1	17	88	0	52	51	0	2	45	1.16
17039704--17039767	3	21.7	3	81	9	69	60	0	1	37	1.06
17039691--17039755	30	2.3	29	82	15	82	55	0	1	43	1.09
17040251--17040416	85	2.0	84	81	3	199	30	16	19	33	1.94
17042465--17042559	45	2.1	44	92	1	154	38	17	10	32	1.84
17042465--17042572	44	2.4	45	87	1	128	38	17	11	32	1.85
17046939--17047011	18	3.9	18	84	7	101	19	21	30	28	1.98
17046939--17047012	38	1.9	38	91	0	121	20	21	29	28	1.98
17050414--17050478	24	2.9	23	75	8	64	29	18	27	24	1.98
17051821--17051864	23	1.9	23	90	0	70	15	27	27	29	1.96
17051946--17052018	18	3.9	18	82	7	92	21	21	28	27	1.99
17051946--17052019	38	1.9	38	88	0	112	22	21	28	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17062778--17062827	21	2.4	21	100	0	100	22	18	22	38	1.94
17064083--17064199	20	5.8	20	71	13	87	41	19	18	19	1.90
17064083--17064218	20	6.8	19	73	14	80	41	20	18	19	1.91
17064105--17064220	62	1.9	61	80	7	137	38	20	18	22	1.93
17064166--17064320	20	7.6	21	74	11	108	37	25	17	19	1.93
17066556--17066711	82	1.9	81	93	1	267	25	14	16	44	1.85
17066668--17066793	63	2.0	63	92	3	209	21	11	17	50	1.77
17066903--17066967	14	4.3	14	75	17	67	47	20	21	10	1.80
17066889--17066980	33	2.8	33	91	1	139	48	20	20	9	1.77
17066950--17066987	20	1.9	20	88	0	58	50	23	15	10	1.75
17066981--17067018	19	2.0	19	89	0	58	47	26	15	10	1.78
17066885--17067012	67	1.9	66	82	1	157	47	21	19	10	1.80
17067035--17067098	33	1.9	33	90	0	101	9	17	25	48	1.76
17067030--17067187	19	8.7	19	74	15	111	11	18	22	47	1.80
17067030--17067171	52	2.7	52	85	2	194	10	19	21	48	1.78
17069120--17069155	14	2.6	14	95	0	63	33	0	22	44	1.53
17069292--17069569	33	8.2	33	93	3	439	13	22	18	45	1.84
17069402--17069587	19	10.5	19	65	18	105	14	22	18	44	1.86
17072094--17072153	24	2.5	24	83	0	84	38	18	18	25	1.93
17072273--17072306	12	2.8	12	90	0	50	14	0	29	55	1.40
17072968--17073200	20	11.5	19	73	14	155	20	18	24	36	1.94
17072968--17073261	41	7.2	41	79	9	289	21	18	23	36	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17072968--17073198	61	3.8	60	78	7	252	20	18	24	36	1.95
17072987--17073261	82	3.4	81	86	4	331	21	18	23	36	1.95
17073021--17073261	20	11.9	20	74	10	168	21	18	23	36	1.95
17080124--17080165	20	2.1	20	86	8	59	38	0	30	30	1.58
17080996--17081041	19	2.4	19	81	0	56	21	26	30	21	1.99
17081048--17081075	13	2.2	13	100	0	56	17	42	25	14	1.87
17081021--17081071	18	2.7	19	82	11	61	17	43	25	13	1.86
17082398--17082436	19	2.1	19	86	13	55	30	5	5	58	1.41
17088202--17088227	13	2.0	13	100	0	52	15	46	23	15	1.83
17090590--17090750	65	2.5	65	86	5	211	26	19	24	29	1.99
17090590--17090799	65	3.3	63	79	11	187	25	19	25	30	1.98
17091722--17091856	58	2.3	60	78	13	149	25	10	22	41	1.85
17092539--17092576	10	3.9	10	83	16	53	42	7	0	50	1.31
17092538--17092629	8	11.8	8	72	17	61	38	9	3	48	1.52
17092783--17092824	2	21.5	2	95	4	77	50	0	0	50	1.00
17093104--17093156	23	2.3	23	96	0	97	16	24	11	47	1.80
17107306--17107344	21	1.9	20	84	5	51	30	12	23	33	1.92
17116303--17116399	39	2.5	39	89	0	158	46	7	23	22	1.77
17116219--17116652	156	2.8	153	81	6	471	42	12	20	25	1.87
17119288--17119316	2	15.0	2	92	7	51	48	0	0	51	1.00
17119262--17119326	32	2.0	32	82	11	80	44	1	4	49	1.32
17127765--17127909	68	2.1	68	97	0	272	44	1	16	37	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17134107--17134139	2	16.5	2	100	0	66	51	0	0	48	1.00
17138266--17138296	15	2.1	15	93	0	53	45	0	0	54	0.99
17138456--17138534	20	4.0	20	86	5	106	24	16	6	53	1.66
17138452--17138542	40	2.3	40	88	3	130	23	17	8	50	1.74
17139068--17139103	2	18.0	2	100	0	72	50	0	0	50	1.00
17146959--17147243	46	6.2	45	86	4	365	42	13	20	24	1.88
17146959--17147248	139	2.1	138	85	3	386	42	13	20	23	1.88
17151555--17151585	16	1.9	16	93	0	53	35	0	12	51	1.40
17160522--17160614	45	2.1	45	91	4	152	36	6	24	32	1.81
17161106--17161148	23	1.9	22	85	4	59	18	20	20	39	1.93

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   79   80   
          81   82   83   84   85   86   87   88   89