genome.fa.s1129.2.7.7.80.10.50.1000.40.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  40  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)
8816655--8816691	19	1.9	19	89	10	58	43	5	13	37	1.67
8820483--8820597	52	2.2	52	98	1	223	29	1	18	50	1.57
8830650--8830694	20	2.2	20	100	0	90	48	4	28	17	1.66
8838346--8838371	5	5.2	5	100	0	52	0	19	57	23	1.40
8846834--8846886	25	2.1	26	96	3	99	52	0	22	24	1.47
8846836--8846884	15	3.6	15	69	25	54	53	0	24	22	1.47
8856410--8856571	40	4.1	40	92	3	272	24	15	26	33	1.95
8856669--8856750	25	3.5	24	63	23	57	35	8	21	34	1.84
8858394--8858451	25	2.3	25	96	0	107	20	12	32	34	1.90
8860090--8860131	16	2.6	16	92	0	66	54	28	0	16	1.42
8860389--8860530	74	1.9	74	80	11	166	30	16	11	40	1.85
8860729--8860756	5	5.6	5	100	0	56	82	17	0	0	0.68
8860749--8860848	29	3.2	29	66	17	83	33	23	13	31	1.92
8861706--8862087	81	4.7	81	86	3	552	28	24	11	35	1.90
8861706--8862088	164	2.4	162	90	3	608	28	24	11	35	1.90
8862312--8862518	57	3.6	57	86	1	281	38	18	9	32	1.84
8862313--8862518	114	1.8	114	88	2	315	38	18	9	33	1.84
8862879--8862930	19	2.5	21	84	9	63	28	21	17	32	1.96
8866528--8866636	46	2.3	46	77	4	110	23	20	11	44	1.83
8866699--8867161	243	1.9	242	88	2	696	29	25	11	34	1.90
8866684--8867161	81	5.9	81	88	1	629	29	24	11	34	1.90
8867347--8867642	57	5.2	56	88	3	396	37	16	10	35	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8868003--8868043	19	2.2	19	90	0	64	31	17	14	36	1.90
8868065--8868120	20	2.8	20	76	15	62	25	30	10	33	1.90
8871813--8871863	2	25.5	2	100	0	102	49	0	0	50	1.00
8873267--8873338	17	4.2	16	77	12	63	40	11	9	38	1.74
8878804--8878829	2	13.0	2	100	0	52	50	0	0	50	1.00
8881568--8881592	3	8.3	3	100	0	50	68	32	0	0	0.90
8886606--8886640	14	2.5	14	100	0	70	51	0	40	8	1.33
8887965--8887999	18	2.1	17	89	10	54	22	42	0	34	1.54
8890235--8890284	23	2.2	23	92	3	84	22	22	36	20	1.96
8896138--8896188	21	2.4	21	96	0	93	17	29	35	17	1.93
8901763--8901808	21	2.2	21	88	3	67	10	13	30	45	1.77
8901836--8901878	21	2.0	22	90	4	70	25	13	18	41	1.88
8902907--8902950	20	2.2	20	88	4	63	34	20	4	40	1.73
8923023--8923068	20	2.3	20	88	3	67	36	26	0	36	1.57
8923092--8923152	29	2.1	29	82	8	72	37	22	3	36	1.71
8926611--8926651	18	2.2	19	91	8	66	63	0	2	34	1.08
8929174--8929254	22	3.7	22	74	0	81	33	24	16	25	1.96
8930300--8930390	44	2.1	44	100	0	182	35	14	19	30	1.92
8943658--8943800	74	1.9	74	100	0	286	30	5	29	34	1.80
8955495--8955532	13	3.0	13	96	3	69	78	0	21	0	0.74
8955499--8955551	26	2.1	25	86	10	72	77	1	20	0	0.87
8955509--8955572	17	3.9	16	77	16	53	71	1	21	4	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8955539--8955572	16	2.1	17	88	5	52	70	0	20	8	1.13
8958232--8958465	122	1.9	122	88	3	355	34	22	14	28	1.93
8958501--8958727	66	3.4	65	83	7	255	28	18	15	37	1.91
8958585--8958686	30	3.2	30	66	22	82	29	18	11	40	1.86
8958504--8958783	131	2.1	131	80	7	302	30	17	14	37	1.89
8958755--8958822	36	1.9	34	88	5	100	35	17	10	36	1.84
8958709--8958902	101	1.9	100	83	5	246	35	15	12	36	1.86
8960864--8960911	15	3.3	14	85	2	60	16	10	8	64	1.48
8960869--8960917	15	3.3	15	88	0	71	16	14	10	59	1.61
8973685--8973714	16	1.9	15	93	6	51	66	10	0	23	1.21
8974147--8974232	42	2.0	42	88	0	127	33	19	19	26	1.96
8974150--8974353	42	4.9	41	72	12	121	32	16	17	33	1.92
8974128--8974353	125	1.8	124	86	2	328	32	16	18	33	1.93
8974143--8974422	41	6.8	41	75	10	176	29	16	18	35	1.93
8974143--8974363	83	2.7	82	75	7	212	30	16	18	34	1.93
8978765--8978936	42	4.0	42	87	3	238	24	23	19	31	1.98
8978765--8978936	83	2.0	87	87	4	253	24	23	19	31	1.98
8983294--8983355	2	32.0	2	90	6	101	48	1	0	50	1.10
8983520--8983574	27	2.1	26	87	12	78	52	0	10	36	1.37
8995088--8995144	26	2.2	26	87	6	80	28	14	21	36	1.92
8995080--8995144	13	5.0	13	77	7	60	29	15	20	35	1.93
9001638--9001672	14	2.6	14	90	4	54	42	2	0	54	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9003257--9003308	21	2.4	22	84	9	63	42	0	1	55	1.10
9004084--9004171	45	1.9	46	82	11	110	37	12	21	28	1.90
9009939--9010018	20	4.0	20	83	0	106	26	15	21	37	1.92
9010156--9010444	88	3.3	87	83	3	321	38	17	16	27	1.92
9010116--9010440	176	1.8	177	81	5	408	38	17	15	28	1.91
9010636--9010685	3	17.3	3	85	8	68	34	4	0	62	1.14
9015467--9015500	17	2.0	17	88	0	50	23	0	2	73	0.97
9021733--9021766	18	1.9	18	88	5	52	29	35	14	20	1.93
9034910--9034940	2	16.0	2	93	6	55	51	0	0	48	1.00
9035430--9035472	2	21.5	2	100	0	86	51	0	0	48	1.00
9039474--9039866	187	2.1	186	93	1	673	45	8	3	42	1.49
9039775--9039870	40	2.4	38	75	11	93	43	1	1	54	1.14
9045677--9045706	14	2.1	14	100	0	60	43	0	13	43	1.43
9047443--9047656	43	5.1	41	76	6	171	30	21	21	26	1.98
9047466--9047660	84	2.3	85	84	3	252	31	21	20	27	1.98
9047443--9047629	43	4.4	43	79	3	200	30	20	21	27	1.98
9049020--9049072	17	3.1	17	73	10	54	39	5	16	37	1.73
9049064--9049104	18	2.4	17	87	4	55	46	12	12	29	1.77
9050631--9050682	16	3.2	16	89	5	86	5	26	5	61	1.42
9050631--9050688	17	3.4	17	90	7	82	5	27	5	62	1.38
9057182--9057573	186	2.1	186	95	1	698	42	3	8	45	1.51
9061329--9061369	2	20.5	2	100	0	82	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9062320--9062672	36	9.9	36	76	11	270	46	4	5	43	1.46
9062335--9062613	74	3.8	72	82	7	298	46	5	5	43	1.47
9062335--9062623	36	7.9	38	78	8	289	47	4	4	43	1.46
9062335--9062651	37	8.8	37	75	9	228	46	4	4	43	1.45
9062693--9062755	14	4.5	13	79	15	63	25	1	0	73	0.93
9062693--9062755	19	3.5	18	77	16	60	25	1	0	73	0.93
9062701--9062755	14	3.9	14	85	2	74	23	1	0	74	0.91
9062695--9062755	5	12.4	5	84	8	72	24	1	0	73	0.92
9063866--9063917	7	7.3	7	83	16	63	13	1	0	84	0.70
9063867--9063904	8	4.8	8	90	9	60	10	0	0	89	0.49
9063874--9063905	9	3.7	9	95	4	57	9	0	0	90	0.45
9067566--9067766	95	2.1	95	88	2	305	35	16	16	31	1.92
9068609--9069734	80	14.0	80	86	3	1341	34	22	18	24	1.96
9070309--9070726	36	11.8	34	72	14	233	44	4	5	45	1.45
9070424--9070463	2	20.0	2	100	0	80	50	0	0	50	1.00
9070318--9070662	38	9.6	37	75	11	247	45	4	5	44	1.47
9070475--9070660	75	2.6	68	81	13	189	46	5	3	44	1.45
9070749--9070809	5	12.6	5	81	11	74	22	1	0	75	0.89
9070749--9070797	19	2.5	19	90	3	71	24	2	0	73	0.94
9070749--9070815	34	2.0	34	88	11	102	22	2	1	73	1.06
9070755--9070809	19	2.9	19	86	5	76	21	1	0	76	0.88
9071888--9071936	5	9.8	5	86	8	73	18	0	0	81	0.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9071888--9071992	10	10.2	10	70	13	61	15	5	0	78	0.99
9071888--9072088	12	17.2	11	66	13	55	17	3	3	74	1.13
9071975--9072085	4	27.5	4	68	15	52	19	1	6	72	1.16
9072030--9072085	23	2.5	24	85	8	64	23	0	5	71	1.06
9074176--9074202	12	2.2	12	100	0	54	55	11	25	7	1.61
9075284--9075366	3	27.0	3	80	11	80	36	2	1	60	1.18
9076636--9076678	21	2.0	22	86	4	61	41	9	0	48	1.35
9083213--9083283	22	3.2	22	93	0	124	32	12	15	39	1.85
9083820--9083884	20	3.2	20	76	8	76	23	21	18	36	1.95
9084385--9084453	3	23.0	3	74	11	61	36	4	1	57	1.27

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