genome.fa.s8242.2.7.7.80.10.50.1000.37.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: VEPZ01008242.1 Hibiscus syriacus cultivar Beakdansim tig00110890_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  16962412

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   

This is table  37  of  73  ( 8740 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)
8966080--8966129	21	2.4	21	96	0	91	26	22	10	42	1.84
8967405--8967473	18	3.7	19	84	7	88	28	28	18	23	1.98
8968190--8968239	20	2.7	18	82	14	66	28	26	16	30	1.96
8968193--8968240	17	2.6	19	87	9	64	27	27	14	31	1.95
8975609--8976004	103	3.9	102	83	2	481	30	17	13	38	1.88
8975606--8976004	206	1.9	205	86	1	566	31	17	13	38	1.88
8976488--8976576	42	2.1	43	83	6	110	30	20	19	30	1.97
8980704--8980730	3	9.0	3	100	0	54	33	0	0	66	0.92
8986562--8986592	16	1.9	16	93	0	53	32	32	0	35	1.58
8986933--8986965	17	1.9	17	93	0	57	30	30	0	39	1.57
8991656--8991695	19	2.1	19	90	0	62	22	7	17	52	1.69
8991857--8991902	21	2.2	22	84	7	60	36	8	2	52	1.45
9011777--9011819	14	3.0	15	83	10	54	16	0	6	76	0.99
9019211--9019235	3	8.3	3	100	0	50	0	32	0	68	0.90
9027964--9028100	59	2.3	59	81	5	179	29	18	23	28	1.98
9028201--9028326	47	2.8	45	88	5	182	38	7	22	30	1.83
9035828--9035953	47	2.8	45	86	5	173	38	7	23	30	1.83
9047412--9047440	2	14.5	2	100	0	58	48	0	0	51	1.00
9047947--9048042	23	4.3	22	78	11	90	26	20	23	29	1.99
9050351--9050420	23	3.0	23	97	0	131	25	12	7	54	1.63
9051743--9051775	17	2.0	17	88	5	50	36	9	18	36	1.82
9055829--9055888	2	30.5	2	96	3	113	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9057847--9057889	16	2.9	15	86	13	54	44	11	2	41	1.53
9058300--9058356	29	2.0	29	85	0	78	24	15	5	54	1.62
9059689--9060134	225	2.0	221	90	2	696	31	15	20	32	1.94
9061332--9061379	17	3.0	15	77	14	51	56	27	2	14	1.50
9061687--9061712	12	2.2	12	100	0	52	0	38	34	26	1.57
9063388--9063425	20	1.9	20	88	0	58	13	26	34	26	1.93
9070044--9070203	65	2.5	65	84	9	195	27	18	23	30	1.97
9070720--9070802	2	41.5	2	100	0	166	50	0	0	49	1.00
9072504--9072528	13	1.9	13	100	0	50	52	8	8	32	1.60
9072942--9073020	23	3.5	22	75	8	70	22	21	27	27	1.99
9072942--9073004	21	2.9	22	80	4	65	20	25	25	28	1.99
9073014--9073062	20	2.5	20	93	0	80	26	10	24	38	1.87
9076803--9076842	21	1.9	21	85	10	55	35	10	2	52	1.48
9078929--9078984	20	2.8	20	97	0	103	16	16	37	30	1.90
9078766--9078965	65	3.1	64	78	14	214	26	18	25	31	1.97
9082649--9082708	31	1.9	31	93	0	102	40	6	10	43	1.64
9083362--9083413	21	2.4	21	81	12	61	55	1	0	42	1.10
9083401--9083498	12	8.4	12	66	13	53	60	1	0	38	1.04
9083351--9083469	55	2.2	54	86	10	163	56	1	0	41	1.15
9083382--9083459	19	4.2	19	66	22	58	57	1	0	41	1.07
9083455--9083496	22	1.9	22	85	9	59	64	2	0	33	1.07
9083712--9084115	22	18.8	22	81	6	456	40	0	10	48	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9083717--9084115	131	3.1	130	84	7	442	40	0	10	48	1.43
9084139--9084197	31	1.9	31	92	0	100	44	8	5	42	1.57
9085908--9085958	23	2.2	23	86	6	68	50	3	1	43	1.31
9087098--9087153	17	3.2	17	82	2	67	35	8	21	33	1.85
9087104--9087159	17	3.2	17	82	2	67	37	10	17	33	1.85
9087488--9087564	34	2.3	34	95	0	136	33	37	20	7	1.82
9087638--9087674	2	18.5	2	100	0	74	51	0	0	48	1.00
9087769--9087873	37	2.8	37	83	0	129	41	13	14	30	1.84
9088108--9088201	15	6.3	15	69	18	54	30	2	1	65	1.11
9088070--9088229	69	2.4	68	80	13	179	34	1	2	61	1.20
9088227--9088306	41	1.9	42	87	7	119	27	3	0	68	1.06
9088191--9088310	41	2.6	47	73	20	110	30	2	0	65	1.11
9094257--9094282	12	2.2	12	100	0	52	15	46	23	15	1.83
9094262--9094302	18	2.4	17	91	4	64	17	51	24	7	1.70
9094279--9094308	13	2.3	13	94	0	51	16	50	23	10	1.75
9094348--9094478	29	4.5	29	76	3	129	29	6	23	41	1.78
9094348--9094478	58	2.3	58	82	2	156	29	6	23	41	1.78
9094348--9094496	29	5.2	29	74	1	86	30	6	22	40	1.78
9101641--9101764	29	4.3	29	74	6	117	27	6	23	42	1.78
9103457--9103573	36	3.1	36	71	4	99	27	17	15	39	1.90
9103415--9103577	72	2.2	77	83	9	205	27	18	12	41	1.87
9103606--9103758	39	3.6	39	69	21	119	28	21	13	37	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9103661--9103979	105	3.1	104	90	2	491	31	20	11	36	1.88
9103879--9103954	36	2.1	36	87	0	107	22	21	14	42	1.89
9104154--9104575	105	4.0	106	87	4	581	33	25	18	22	1.96
9105117--9105221	37	2.8	37	85	0	138	41	14	14	29	1.85
9105572--9105614	18	2.5	17	85	7	61	25	4	2	67	1.22
9106099--9106127	14	2.1	14	100	0	58	41	0	6	51	1.28
9107327--9107368	19	2.3	19	87	4	59	11	9	11	66	1.44
9107392--9107432	21	2.0	21	90	0	64	56	0	2	41	1.13
9108142--9108166	12	2.1	12	100	0	50	20	0	0	80	0.72
9108822--9108872	24	2.1	24	85	0	66	37	3	0	58	1.16
9108831--9108874	18	2.5	18	85	3	54	34	0	0	65	0.93
9108832--9108897	24	2.6	25	83	9	73	37	1	1	59	1.16
9112861--9112927	20	3.4	19	87	8	89	14	17	17	49	1.80
9112861--9112918	26	2.2	26	81	6	64	15	18	18	46	1.84
9115175--9115453	76	3.7	75	91	3	420	31	16	12	39	1.86
9115419--9115578	39	4.1	39	87	4	243	33	15	15	35	1.89
9115423--9115575	78	2.0	77	94	1	270	32	15	15	36	1.89
9115186--9115538	152	2.3	149	79	11	367	32	16	13	37	1.88
9116709--9116756	17	3.0	15	77	14	51	56	27	2	14	1.50
9118348--9118450	21	4.9	21	78	5	91	15	24	34	25	1.94
9125678--9125711	17	2.0	17	88	11	52	26	23	17	32	1.97
9126996--9127030	18	1.9	18	100	0	70	51	11	17	20	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9127567--9127679	36	3.1	36	92	0	190	28	15	7	48	1.72
9128113--9128192	42	1.9	41	89	2	124	27	6	11	55	1.59
9129255--9129306	20	2.6	19	79	8	59	65	1	0	32	1.04
9129163--9129398	120	2.0	120	82	4	293	45	8	7	38	1.63
9129441--9129498	24	2.4	23	75	13	55	51	1	5	41	1.34
9129489--9129523	3	11.7	3	93	0	61	65	0	2	31	1.07
9130336--9130366	6	5.0	6	92	7	53	0	3	16	80	0.83
9130843--9130902	3	19.7	3	83	10	77	65	0	0	35	0.93
9130843--9130902	27	2.2	28	87	6	95	65	0	0	35	0.93
9131042--9131673	124	5.3	122	81	8	513	27	18	13	40	1.88
9131374--9131695	113	2.8	114	86	5	458	30	19	12	37	1.88
9132405--9132628	115	2.0	114	92	0	376	29	20	16	33	1.94
9132958--9133028	16	3.8	18	78	16	65	50	4	8	36	1.52
9133358--9133421	23	2.6	25	90	4	96	0	17	0	82	0.66
9133367--9133424	20	2.9	19	82	12	73	0	17	0	82	0.66
9133362--9133419	9	6.9	9	79	18	63	0	17	0	82	0.66
9140747--9140778	15	2.1	15	94	0	55	46	9	18	25	1.79
9144706--9144757	20	2.6	19	79	8	59	65	1	0	32	1.04
9144614--9144849	120	2.0	120	83	4	302	46	8	7	38	1.62
9144940--9144971	3	10.7	3	93	0	55	65	0	3	31	1.08
9146306--9146344	3	12.7	3	83	5	51	61	0	0	38	0.96
9146306--9146344	16	2.5	16	87	4	53	61	0	0	38	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9147518--9147565	21	2.3	21	85	7	62	66	4	6	22	1.32
9148213--9148542	137	2.4	139	83	8	390	29	14	14	41	1.86
9149447--9149477	15	2.1	15	100	0	62	25	29	12	32	1.93
9150259--9150371	56	2.0	56	100	0	226	30	18	8	42	1.81
9176860--9177057	97	2.0	101	96	3	368	41	12	6	40	1.67
9179120--9179200	11	7.1	11	77	17	60	77	2	3	16	1.01
9179123--9179200	14	5.3	14	78	17	70	76	2	3	16	1.04
9179120--9179172	26	2.1	25	82	10	63	77	1	3	16	1.01
9179249--9179277	2	14.5	2	100	0	58	51	0	0	48	1.00
9179363--9179401	3	12.7	3	94	5	69	69	0	0	30	0.89

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