genome.fa.s1129.2.7.7.80.10.50.1000.30.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  30  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)
6550332--6550400	22	3.2	22	78	8	72	46	1	47	4	1.31
6551332--6551366	17	2.1	17	89	5	54	22	0	5	71	1.07
6551321--6551372	24	2.2	24	86	6	70	26	0	5	67	1.13
6551330--6551367	15	2.4	16	82	4	51	26	0	5	68	1.11
6555406--6555489	22	3.8	22	91	0	123	27	25	25	22	2.00
6555693--6555742	17	2.9	17	80	13	50	46	0	18	36	1.49
6555712--6555759	17	2.8	17	81	12	53	41	0	25	33	1.55
6568215--6568296	41	2.0	41	97	0	155	28	2	23	46	1.65
6569290--6569362	18	3.9	18	92	3	119	49	10	21	17	1.78
6570976--6571057	41	2.0	41	92	0	137	30	2	20	46	1.64
6572690--6572738	23	2.1	23	88	7	73	44	4	2	48	1.33
6576161--6576200	18	2.2	18	86	8	55	50	2	5	42	1.37
6580639--6580679	11	3.8	11	93	6	75	80	0	9	9	0.91
6580642--6580679	10	3.7	10	96	3	67	84	0	7	7	0.79
6582560--6582660	32	3.1	32	88	2	148	31	14	21	31	1.94
6582999--6583325	75	4.4	75	81	7	355	31	16	12	39	1.86
6582999--6583316	76	4.3	74	80	9	319	31	15	12	39	1.86
6583052--6583242	36	5.2	36	68	15	147	31	15	11	41	1.82
6583009--6583281	36	7.3	36	68	15	126	31	15	12	40	1.84
6583292--6583378	36	2.4	36	96	0	156	22	25	12	39	1.90
6583316--6583435	57	2.1	57	96	0	222	25	25	11	37	1.90
6583292--6583564	93	2.9	93	97	0	510	25	24	12	37	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6583373--6583471	36	2.8	36	96	0	180	24	26	12	37	1.90
6583409--6583530	57	2.1	57	93	0	217	26	24	12	36	1.91
6583466--6583694	36	6.4	36	93	0	377	24	24	14	35	1.93
6583292--6583638	129	2.7	129	81	10	490	25	24	13	36	1.92
6583628--6583734	51	2.0	53	85	5	146	25	22	16	35	1.95
6583680--6583756	39	2.0	39	81	0	91	29	20	14	35	1.92
6583755--6583990	43	5.2	43	77	13	240	27	13	27	31	1.94
6583785--6584026	43	4.9	55	76	17	203	26	14	28	30	1.95
6584037--6584447	90	4.6	90	92	1	671	25	19	20	35	1.96
6584037--6584447	179	2.3	181	92	1	691	25	19	20	35	1.96
6586400--6586439	18	2.2	18	86	8	55	50	2	5	42	1.37
6587181--6587219	11	3.5	11	85	0	60	48	0	0	51	1.00
6587682--6587778	41	2.4	39	81	5	122	54	8	7	29	1.57
6587676--6587778	40	2.6	39	81	4	125	53	7	6	32	1.56
6589268--6589583	20	15.6	20	79	5	296	37	26	18	18	1.93
6589268--6589580	40	7.8	40	85	4	378	37	26	17	18	1.93
6590131--6590181	20	2.5	20	90	0	75	50	21	13	13	1.76
6590154--6590209	21	2.7	21	91	8	89	44	21	21	12	1.85
6590195--6590299	33	3.2	33	90	0	156	46	21	20	10	1.81
6590241--6590299	19	3.4	18	75	22	63	47	25	18	8	1.77
6590295--6590378	19	4.7	19	81	14	115	10	22	21	45	1.82
6590295--6590432	52	2.6	52	88	2	186	11	23	21	42	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6590376--6590431	20	2.8	20	77	20	71	14	25	21	39	1.91
6590300--6590440	19	7.8	19	73	20	106	11	23	20	44	1.84
6591703--6591747	18	2.5	18	100	0	90	26	51	8	13	1.70
6591912--6592085	84	2.1	84	98	0	339	19	17	35	27	1.94
6592232--6592704	94	5.0	94	97	0	851	20	12	19	47	1.81
6592792--6592923	19	7.7	19	69	23	105	46	25	21	7	1.77
6592810--6592866	14	3.7	14	77	20	60	43	22	24	8	1.81
6592792--6592918	33	3.8	33	88	0	191	45	25	21	7	1.78
6592930--6593012	19	4.6	19	73	14	86	10	22	21	44	1.83
6593490--6593556	21	3.2	21	66	6	55	23	35	20	19	1.95
6594905--6594941	14	2.6	14	82	0	56	35	0	18	45	1.50
6595048--6595106	19	3.4	19	71	22	65	47	18	20	13	1.82
6595048--6595127	33	2.4	33	91	0	124	47	21	20	11	1.80
6595133--6595328	19	11.3	19	69	22	135	13	23	19	43	1.86
6595158--6595212	14	3.6	14	73	21	56	9	23	21	45	1.80
6595137--6595331	33	5.7	33	83	8	228	13	23	19	43	1.87
6595170--6595270	20	5.5	19	78	14	95	13	22	22	40	1.90
6595262--6595322	14	4.0	14	76	19	68	16	21	18	44	1.87
6595135--6595331	106	1.9	105	88	1	295	13	23	19	43	1.87
6597909--6597942	12	2.8	12	90	0	50	14	0	29	55	1.40
6598473--6598510	17	2.2	17	100	0	76	26	5	36	31	1.79
6598470--6598520	17	2.6	20	76	23	63	25	5	39	29	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6598618--6599011	20	19.4	20	83	2	455	19	19	23	38	1.93
6598618--6599011	40	9.7	40	88	2	509	19	19	23	38	1.93
6599016--6599135	21	5.8	21	70	10	77	25	17	25	31	1.97
6599777--6599820	22	2.0	22	86	8	63	38	2	2	56	1.24
6599801--6599835	17	2.1	17	89	10	54	48	0	0	51	1.00
6599810--6599850	22	1.9	21	85	5	55	51	0	0	48	1.00
6600896--6601012	21	5.7	20	72	14	80	47	2	0	49	1.21
6600912--6601022	41	2.7	41	79	8	127	49	1	0	47	1.18
6602705--6602747	13	3.4	13	90	6	70	16	39	23	20	1.92
6602757--6602976	29	7.6	28	80	9	192	31	5	16	46	1.70
6602757--6602976	88	2.5	86	81	6	221	31	5	16	46	1.70
6610114--6610160	17	2.8	17	100	0	94	21	46	19	12	1.82
6610193--6610413	29	7.6	29	84	3	228	28	4	19	47	1.71
6610193--6610413	88	2.5	87	83	0	253	28	4	19	47	1.71
6610193--6610413	58	3.8	58	86	4	275	28	4	19	47	1.71
6614878--6615013	59	2.3	60	79	7	152	38	19	11	30	1.88
6617806--6617850	13	3.0	16	78	18	60	64	0	13	22	1.28
6617816--6617850	13	2.6	13	95	4	61	65	0	11	22	1.24
6621960--6621996	13	2.9	13	80	19	51	64	0	8	27	1.21
6621956--6622013	27	2.1	27	83	0	71	63	0	13	22	1.29
6623087--6623155	26	2.8	24	80	6	75	37	4	0	57	1.18
6623344--6623402	7	8.0	7	74	22	50	55	0	0	44	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6623353--6623405	24	2.1	26	86	6	74	54	0	0	45	0.99
6623775--6623819	23	2.0	23	86	8	65	37	2	2	57	1.23
6623800--6623834	17	2.1	17	89	10	54	48	0	0	51	1.00
6623809--6623849	22	1.9	21	85	5	55	51	0	0	48	1.00
6624904--6625031	21	6.0	21	70	11	84	48	1	1	48	1.20
6624912--6625031	41	2.8	42	79	9	129	50	1	1	46	1.21
6626273--6626323	22	2.4	21	87	6	75	39	13	23	23	1.91
6626326--6626366	21	2.0	21	95	0	73	24	21	24	29	1.99
6627147--6627235	30	3.0	29	79	8	90	33	25	22	17	1.96
6627207--6627329	31	3.9	32	75	14	121	31	19	18	30	1.96
6627205--6627328	62	2.0	62	87	7	180	31	20	18	29	1.96
6629716--6629788	31	2.4	31	88	0	119	32	13	13	39	1.84
6632973--6633131	60	2.7	58	81	11	164	40	6	21	31	1.78
6633297--6633329	3	11.0	3	100	0	66	33	0	0	66	0.92
6637170--6637222	2	26.5	2	100	0	106	49	0	0	50	1.00
6640033--6640077	19	2.3	20	96	3	83	46	15	0	37	1.46
6655216--6655254	20	2.0	20	89	0	60	53	2	2	41	1.28
6655216--6655257	19	2.2	20	86	4	59	57	2	2	38	1.25
6655277--6655333	8	8.0	7	83	12	64	54	0	0	45	0.99
6656638--6656700	26	2.5	26	84	5	85	22	14	26	36	1.92
6663871--6663912	17	2.5	17	96	0	75	35	33	11	19	1.88
6668851--6668979	59	2.2	59	85	0	168	27	17	25	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6669038--6669074	20	1.9	20	94	5	67	13	10	21	54	1.69
6669108--6669322	45	4.8	45	91	1	335	41	7	20	30	1.80
6672302--6672437	55	2.5	55	87	1	202	36	11	21	30	1.89
6672656--6672911	68	3.8	68	90	0	395	32	14	24	28	1.95
6672862--6673425	242	2.3	242	90	0	858	37	12	22	27	1.90
6672862--6673425	81	7.0	81	90	0	833	37	12	22	27	1.90
6673560--6673623	2	32.0	2	100	0	128	50	0	0	50	1.00
6676728--6676877	40	3.8	40	97	0	273	22	16	28	32	1.96
6676982--6677095	46	2.5	46	92	5	189	38	7	22	31	1.81
6677632--6677674	22	2.0	22	95	0	77	18	20	18	41	1.90

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