genome.fa.s1129.2.7.7.80.10.50.1000.48.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  48  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)
10648049--10648143	30	3.2	30	78	3	111	23	26	16	33	1.96
10648055--10648131	29	2.6	29	84	10	102	23	27	15	33	1.95
10650414--10650453	20	2.1	19	86	13	55	45	0	5	50	1.23
10653416--10653467	21	2.5	21	93	0	86	32	17	15	34	1.91
10655198--10655241	22	2.1	20	83	8	52	4	18	0	77	0.94
10657097--10657148	23	2.2	24	86	10	79	34	36	13	15	1.87
10657107--10657151	23	2.0	23	100	0	90	35	37	8	17	1.81
10665390--10665424	14	2.5	14	95	0	61	0	17	0	82	0.66
10675452--10675597	77	1.9	77	81	9	181	43	4	12	39	1.63
10682136--10682191	29	1.9	29	92	0	94	23	19	10	46	1.81
10682580--10682708	47	2.7	46	85	3	150	24	20	9	46	1.79
10682611--10682698	27	3.5	27	70	20	82	20	21	11	46	1.82
10682775--10682968	34	5.1	34	70	26	129	30	23	9	36	1.86
10682681--10682968	79	3.6	79	91	1	434	31	22	8	37	1.85
10689400--10689726	68	4.8	68	88	3	424	29	24	15	29	1.95
10689384--10689726	137	2.5	135	85	3	447	30	24	14	30	1.95
10690001--10690525	59	8.9	59	87	1	748	35	19	12	33	1.89
10694699--10695112	68	6.1	68	89	1	589	29	24	14	30	1.95
10695385--10696850	59	24.8	59	90	1	2240	35	19	12	33	1.89
10697212--10697400	94	2.0	95	88	1	281	24	24	15	35	1.94
10704478--10704564	27	3.3	27	83	3	97	40	3	1	55	1.24
10704698--10704773	32	2.4	32	86	6	102	48	10	7	32	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10705096--10705123	2	14.0	2	100	0	56	50	0	0	50	1.00
10705400--10705444	20	2.2	20	100	0	90	42	8	17	31	1.80
10706550--10706658	24	4.5	24	89	0	92	40	20	11	28	1.86
10706567--10706658	48	1.9	48	90	0	148	38	19	13	29	1.89
10718354--10718397	11	4.0	11	100	0	88	54	0	18	27	1.44
10735856--10735906	21	2.4	21	90	0	75	41	5	3	49	1.45
10739933--10739976	14	3.2	14	74	6	54	31	25	18	25	1.97
10751961--10751998	20	1.9	20	89	10	60	42	10	21	26	1.85
10753566--10753637	29	2.4	30	81	9	85	41	9	18	30	1.82
10754568--10754616	24	2.0	24	100	0	98	32	12	12	42	1.79
10754901--10755028	59	2.2	59	82	2	150	28	14	24	32	1.95
10764125--10764194	27	2.6	27	86	4	88	48	4	2	44	1.37
10764146--10764196	2	26.5	2	92	7	88	49	0	0	50	1.00
10766165--10766393	118	1.9	117	85	2	316	36	13	17	32	1.88
10767656--10767705	25	2.0	25	100	0	100	24	20	20	36	1.95
10770665--10770884	46	5.0	45	81	9	265	36	8	21	33	1.84
10771162--10771186	13	1.9	13	100	0	50	36	8	8	48	1.62
10774428--10774568	66	2.2	63	78	8	156	22	40	2	34	1.69
10777054--10777645	183	3.2	182	89	0	860	27	14	12	44	1.82
10782625--10782666	21	2.0	22	90	4	68	40	16	23	19	1.91
10786845--10786887	22	1.9	23	90	4	70	41	13	2	41	1.57
10787182--10787224	18	2.4	18	100	0	86	51	6	11	30	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10792519--10792672	56	2.7	56	93	1	254	29	5	15	49	1.68
10793468--10793519	27	2.0	26	85	11	70	23	1	21	53	1.55
10798897--10798983	31	2.8	31	82	0	102	49	22	9	18	1.76
10801526--10801557	13	2.5	13	94	0	55	21	3	0	75	0.95
10801922--10801960	17	2.3	17	95	0	69	35	10	28	25	1.89
10803715--10803767	17	3.1	17	78	5	54	41	16	7	33	1.77
10809923--10810025	18	6.2	16	73	16	59	43	0	4	50	1.30
10809971--10810092	2	64.5	2	78	16	100	48	0	2	49	1.14
10815318--10815351	14	2.3	15	90	5	52	32	0	35	32	1.58
10822946--10822973	13	2.2	13	100	0	56	53	17	7	21	1.67
10830365--10830617	37	6.8	36	82	9	280	41	2	8	46	1.49
10843277--10843572	72	4.1	73	88	1	418	33	27	15	23	1.95
10844236--10844531	36	8.1	36	80	10	302	39	3	9	47	1.52
10844269--10844513	109	2.2	108	83	7	316	40	2	9	46	1.51
10844236--10844513	73	3.8	71	79	11	298	40	3	10	46	1.54
10844897--10844949	21	2.5	21	81	3	52	49	18	20	11	1.78
10857830--10857863	17	2.1	17	94	5	61	35	0	5	58	1.22
10858099--10858300	4	50.0	4	97	2	377	25	0	24	49	1.54
10866120--10866200	21	3.8	22	77	7	69	23	38	24	13	1.91
10870772--10870838	23	2.9	23	90	0	116	13	19	47	19	1.82
10878661--10878699	19	2.1	19	90	4	62	41	0	0	58	0.98
10879382--10879446	20	3.2	20	86	0	94	56	20	10	12	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10880332--10880905	81	7.1	81	85	0	711	32	20	11	35	1.89
10887426--10887917	81	6.1	81	86	1	632	31	20	11	36	1.88
10888486--10888539	21	2.6	21	93	0	90	20	14	14	50	1.78
10891318--10891386	2	34.5	2	100	0	138	50	0	0	49	1.00
10891607--10891662	6	9.3	6	78	0	58	17	5	30	46	1.71
10891595--10891698	42	2.5	42	88	0	145	20	7	27	44	1.79
10891610--10891662	12	4.4	12	80	0	70	18	5	32	43	1.74
10891595--10891668	18	4.1	18	80	3	69	18	6	29	44	1.76
10891653--10891687	18	1.9	18	88	0	52	28	14	20	37	1.91
10891685--10891733	17	2.8	18	82	11	66	8	8	36	46	1.63
10891685--10891729	19	2.5	17	89	7	63	6	8	37	46	1.61
10891736--10891781	12	3.7	13	74	11	51	21	4	32	41	1.73
10891719--10891795	24	3.2	24	84	1	91	14	3	35	46	1.63
10891751--10891808	18	3.2	18	78	9	55	10	1	37	50	1.47
10891958--10891990	16	2.0	17	88	5	50	12	0	36	51	1.39
10892058--10892316	101	2.5	104	81	6	287	32	4	29	33	1.78
10892344--10892386	18	2.2	20	84	8	54	44	4	32	18	1.71
10892527--10892663	61	2.2	61	89	5	222	36	10	5	46	1.63
10892695--10892754	26	2.3	26	83	11	70	46	3	5	45	1.41
10892720--10892803	33	2.6	32	85	7	100	40	5	5	47	1.52
10892775--10892808	13	2.6	13	90	0	50	35	2	5	55	1.39
10892930--10893046	27	4.4	27	82	2	121	47	5	5	41	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10892930--10893046	54	2.2	54	83	3	139	47	5	5	41	1.47
10892949--10893059	27	4.2	25	83	4	87	45	5	5	44	1.49
10893011--10893116	47	2.3	46	77	12	108	40	2	7	49	1.46
10893161--10893226	24	2.6	24	79	13	71	45	9	4	40	1.56
10893280--10893374	27	3.7	26	78	7	88	44	3	5	47	1.41
10893316--10893399	2	40.0	2	73	17	64	42	3	5	47	1.45
10893280--10893384	52	2.1	50	80	10	115	42	2	5	48	1.41
10893433--10893474	20	2.1	20	90	0	66	40	9	9	40	1.70
10893389--10893558	92	1.8	92	80	7	202	41	7	7	43	1.60
10893502--10893570	13	5.1	13	71	10	57	40	5	7	46	1.55
10893672--10893696	2	12.5	2	100	0	50	52	0	0	48	1.00
10893666--10893760	33	2.8	33	75	9	93	46	3	2	48	1.30
10893803--10893847	20	2.1	22	88	8	67	48	6	0	44	1.29
10893684--10893857	92	1.9	92	81	7	210	47	4	3	44	1.40
10893910--10894028	2	58.0	2	68	17	66	45	2	3	48	1.32
10893911--10893968	23	2.6	22	81	5	55	50	1	3	44	1.29
10893921--10894028	42	2.7	40	78	16	114	46	2	2	48	1.31
10893911--10894028	20	6.2	20	71	21	78	45	2	3	48	1.32
10893955--10894023	22	3.2	21	80	15	88	44	4	2	47	1.37
10893921--10893999	28	2.5	33	72	17	78	46	2	2	48	1.29
10893910--10894028	11	11.2	11	69	16	65	45	2	3	48	1.32
10894797--10894846	26	2.0	25	84	4	64	26	28	16	30	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10899058--10899144	35	2.5	34	78	12	88	55	10	6	27	1.59
10899675--10899744	27	2.6	27	86	0	77	21	20	44	14	1.86
10901425--10901468	16	2.7	16	85	3	52	65	2	2	29	1.16
10901458--10901491	11	3.1	11	86	0	50	67	2	0	29	1.05
10908082--10908207	32	4.0	32	82	3	130	23	30	26	19	1.98
10908088--10908217	63	2.1	63	81	5	147	23	31	25	20	1.98
10914770--10914813	21	2.0	23	86	8	65	38	20	15	25	1.92
10920620--10920672	23	2.3	25	75	15	60	43	24	5	26	1.76
10925291--10925430	22	6.2	22	72	15	124	32	7	12	47	1.70
10927070--10927108	21	1.9	21	89	5	62	33	23	15	28	1.95

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