genome.fa.s9634.2.7.7.80.10.50.1000.55.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  55  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)
10899982--10900183	66	3.1	65	86	3	280	28	21	11	38	1.89
10900066--10900185	36	3.5	36	66	13	108	27	22	11	38	1.89
10900205--10900446	131	1.8	131	84	3	335	27	30	16	25	1.96
10902009--10902037	14	2.0	15	93	6	51	17	0	13	68	1.20
10904020--10904048	6	4.8	6	100	0	58	17	0	51	31	1.45
10909375--10909405	2	16.0	2	93	6	55	48	0	0	51	1.00
10918593--10918654	30	2.1	30	84	6	81	33	14	16	35	1.89
10922314--10922342	3	9.7	3	100	0	58	34	0	0	65	0.93
10922853--10922891	18	2.2	18	90	0	60	74	5	20	0	1.01
10925904--10925952	19	2.7	17	84	9	53	26	18	30	24	1.98
10926030--10926087	19	3.1	19	92	0	98	25	15	36	22	1.94
10925904--10926065	64	2.5	61	78	9	164	28	17	25	29	1.97
10926113--10926152	21	1.9	21	94	0	71	22	15	30	32	1.94
10928702--10928824	44	2.8	42	71	12	104	23	20	29	26	1.99
10934539--10934587	19	2.7	17	84	9	53	26	18	30	24	1.98
10934558--10934662	45	2.3	44	85	6	140	29	16	22	31	1.96
10934648--10934684	19	1.9	19	88	0	56	24	13	37	24	1.91
10934710--10934749	21	1.9	21	94	0	71	22	15	30	32	1.94
10941452--10941514	30	2.1	29	82	8	74	26	15	20	36	1.93
10941466--10941653	68	2.8	66	82	6	225	29	20	17	32	1.95
10941874--10942022	42	3.4	42	71	12	138	32	18	23	24	1.97
10941671--10943617	355	5.5	352	82	4	2180	30	18	20	30	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10941671--10943557	444	4.2	443	83	4	2210	30	17	20	31	1.96
10941671--10943600	89	21.7	89	83	3	2149	30	18	20	31	1.96
10943616--10943881	109	2.4	109	83	3	329	28	23	19	28	1.98
10943586--10943907	55	5.9	54	81	4	351	29	22	19	28	1.98
10944724--10944759	14	2.6	14	91	8	56	55	2	11	30	1.49
10946109--10946293	80	2.3	81	85	5	234	27	18	15	38	1.91
10946189--10946492	118	2.6	115	88	2	446	25	19	15	39	1.91
10946564--10946603	3	13.3	3	100	0	80	0	35	0	65	0.93
10946735--10946799	17	3.6	17	70	21	53	20	26	7	46	1.77
10946609--10946911	119	2.5	120	83	8	348	26	23	13	37	1.92
10946841--10947342	139	3.7	139	90	4	779	26	22	17	33	1.96
10946841--10947342	274	1.8	274	90	4	805	26	22	17	33	1.96
10949203--10949269	10	6.6	10	75	5	55	4	17	0	77	0.93
10949203--10949268	22	3.0	21	75	18	55	4	18	0	77	0.94
10949205--10949269	21	3.2	18	75	25	58	4	16	0	78	0.91
10949244--10949297	10	5.5	10	81	14	60	9	11	0	79	0.93
10956701--10956737	16	2.3	16	85	0	56	45	5	10	37	1.62
10963835--10963871	14	2.6	14	95	0	65	24	29	5	40	1.77
10965152--10965243	46	2.0	46	95	0	166	28	14	7	50	1.70
10977072--10977199	43	3.0	44	76	8	129	27	28	17	26	1.98
10988848--10989077	16	14.5	17	74	18	153	40	0	3	55	1.24
10988848--10989017	2	90.5	2	73	20	136	41	0	4	54	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10988852--10989072	64	3.5	64	76	16	185	39	0	4	55	1.22
10988847--10989079	20	12.0	19	74	16	160	39	0	3	55	1.24
10989102--10989221	38	3.2	38	96	0	222	26	33	29	10	1.90
10990419--10990450	17	1.9	16	93	6	55	28	3	0	68	1.04
10991488--10991521	12	2.8	12	86	0	50	20	2	2	73	1.09
10995121--10995643	201	2.6	198	81	3	584	33	17	19	29	1.95
10996068--10996307	2	127.5	2	69	23	150	41	0	4	52	1.27
10996068--10996307	20	12.5	19	75	18	196	41	0	4	52	1.27
10996067--10996341	25	10.3	27	71	23	126	40	1	4	53	1.30
10996118--10996333	46	4.5	47	76	17	160	39	1	4	55	1.28
10996070--10996307	68	3.5	68	76	16	201	41	0	4	52	1.28
10996067--10996319	66	3.9	65	72	16	218	40	0	4	54	1.26
10996068--10996364	55	5.5	55	73	19	168	39	1	4	55	1.27
10996341--10996365	4	6.2	4	100	0	50	24	0	0	76	0.80
10996321--10996365	16	2.9	16	84	12	51	31	4	0	64	1.13
10998546--10998576	2	15.5	2	100	0	62	51	0	0	48	1.00
10998504--10998615	47	2.3	50	85	8	144	46	3	4	45	1.40
10998560--10998882	36	9.0	36	80	11	355	46	3	5	44	1.45
10998564--10998882	71	4.5	72	82	13	383	46	3	5	44	1.46
10998568--10998917	103	3.3	103	80	12	315	45	4	6	44	1.48
10998892--10998936	12	3.7	12	88	5	63	48	4	2	44	1.35
10999005--10999052	13	3.7	13	83	10	53	18	2	2	77	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10999011--10999057	6	7.7	6	77	13	51	19	2	0	78	0.85
10999011--10999052	19	2.2	20	91	4	68	19	2	0	78	0.86
11000369--11000397	2	14.5	2	100	0	58	48	0	0	51	1.00
11000603--11000641	17	2.4	16	84	12	53	20	7	0	71	1.10
11000698--11000803	23	4.6	21	68	26	56	20	4	3	70	1.21
11000765--11000803	4	10.0	4	86	5	53	25	0	5	69	1.09
11001334--11001375	17	2.5	17	84	3	59	35	0	2	61	1.09
11001552--11001621	24	2.9	23	77	12	70	35	0	21	42	1.53
11002219--11002624	205	2.0	205	93	0	688	25	17	28	28	1.97
11002679--11002721	2	21.5	2	100	0	86	48	0	0	51	1.00
11002720--11002772	27	1.9	27	88	3	79	32	0	22	45	1.53
11004156--11004228	37	2.0	37	86	0	101	24	10	17	46	1.80
11004756--11004818	23	2.8	23	82	2	65	38	4	3	53	1.38
11004779--11004826	22	2.1	23	81	11	55	35	4	4	56	1.38
11004906--11004956	26	2.0	26	85	14	70	33	1	3	60	1.26
11005876--11005917	14	3.1	14	82	3	50	64	19	7	9	1.46
11006177--11006229	14	3.8	14	100	0	106	64	13	7	15	1.49
11006175--11006258	14	6.1	14	83	13	95	57	15	11	15	1.66
11010886--11010910	12	2.1	12	100	0	50	32	16	0	52	1.44
11015010--11015140	57	2.3	55	80	2	145	20	15	25	38	1.92
11015102--11015281	48	3.8	48	89	2	236	20	15	30	34	1.93
11015472--11015531	30	2.1	27	81	9	66	48	8	20	23	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11019265--11019335	3	23.0	3	82	5	79	59	2	0	38	1.12
11019466--11021015	76	20.4	76	98	0	2947	34	22	19	23	1.96
11021861--11021938	22	3.5	22	87	3	111	38	14	12	34	1.84
11024355--11024583	114	2.0	114	93	1	397	30	21	15	33	1.94
11026828--11026872	11	4.0	11	91	5	72	6	11	0	82	0.84
11026834--11026872	12	3.3	12	96	3	71	7	7	0	84	0.77
11026845--11026881	19	2.1	18	90	10	58	8	8	0	83	0.80
11026829--11026911	24	3.6	23	78	15	82	6	16	0	77	0.97
11027205--11027232	2	14.0	2	100	0	56	50	0	0	50	1.00
11029483--11029552	37	1.9	36	82	8	88	61	5	15	17	1.52
11031877--11031919	22	1.9	23	85	4	61	72	0	2	25	0.97
11034121--11034188	3	22.0	3	79	5	73	58	1	0	39	1.07
11034114--11034194	18	4.5	18	77	13	78	56	1	0	41	1.07
11035628--11035657	11	2.7	11	100	0	60	36	10	0	53	1.35
11036209--11036280	32	2.2	32	95	0	135	30	22	5	41	1.76
11037207--11037281	30	2.5	30	77	0	78	37	18	4	40	1.70
11042935--11042973	14	2.7	14	88	4	60	89	10	0	0	0.48
11043087--11043271	60	3.1	58	79	6	185	36	17	4	41	1.70
11043442--11043556	60	1.9	60	83	3	151	49	6	13	31	1.66
11043831--11043960	31	4.2	31	84	2	145	26	13	7	51	1.68
11043831--11043960	62	2.1	62	83	0	161	26	13	7	51	1.68
11044528--11044657	31	4.2	31	88	2	172	25	16	7	50	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11044519--11044657	62	2.2	62	85	2	190	25	15	7	51	1.71
11043804--11045535	698	2.5	702	91	2	2780	36	10	10	42	1.74
11045226--11045336	31	3.6	31	87	0	141	24	13	7	54	1.63
11045226--11045355	62	2.1	62	82	0	152	26	13	6	53	1.65
11047648--11047695	19	2.5	20	82	3	62	29	12	6	52	1.63
11048557--11048626	34	2.1	32	86	5	95	22	30	15	31	1.95
11052756--11052796	21	2.0	21	90	4	66	14	29	39	17	1.89
11054198--11054245	19	2.5	20	82	3	62	29	12	6	52	1.63
11055521--11055617	40	2.4	40	89	3	142	15	24	35	24	1.94
11055521--11055617	20	4.8	20	77	8	108	15	24	35	24	1.94

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