genome.fa.s8242.2.7.7.80.10.50.1000.39.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  39  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)
9468722--9468780	13	4.4	13	80	8	57	79	5	13	1	0.97
9468722--9468781	26	2.2	28	82	8	79	78	5	15	1	1.00
9470391--9471653	106	11.9	106	91	0	1936	33	23	18	23	1.96
9472369--9472473	37	2.8	37	85	0	138	40	15	13	31	1.85
9472974--9473015	17	2.4	18	76	7	52	16	7	4	71	1.26
9473107--9473163	13	4.2	13	79	18	55	26	1	0	71	0.95
9473120--9473233	19	5.8	18	71	20	79	28	2	0	69	1.02
9473110--9473244	21	6.4	21	66	22	79	27	3	0	68	1.06
9473118--9473244	51	2.5	51	76	15	136	28	3	0	67	1.08
9473170--9473233	14	4.3	15	82	11	71	26	1	0	71	0.94
9473082--9473242	30	5.3	30	72	18	104	28	3	0	67	1.10
9473110--9473241	60	2.3	57	74	14	128	27	3	0	68	1.06
9473324--9473379	19	2.9	19	75	19	62	23	8	1	66	1.30
9475782--9475814	16	2.1	16	100	0	66	51	18	6	24	1.68
9478474--9478735	58	4.6	58	74	11	229	44	14	7	34	1.72
9479543--9479592	19	2.5	20	93	3	84	52	16	4	28	1.61
9484237--9484287	14	3.6	14	78	0	57	27	17	27	27	1.98
9485787--9485923	60	2.3	60	87	6	197	33	10	16	40	1.82
9491224--9491329	45	2.3	46	88	4	162	28	19	18	33	1.96
9497103--9497159	24	2.6	21	76	15	69	28	22	19	29	1.98
9497103--9497200	45	2.2	44	84	15	123	27	22	20	29	1.98
9499866--9499989	64	1.9	65	91	4	207	29	22	18	29	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9500049--9500125	21	3.7	21	98	0	145	28	23	19	28	1.98
9513077--9513127	19	2.7	18	76	8	57	37	0	3	58	1.16
9513075--9513139	30	2.4	27	76	16	71	44	0	3	52	1.16
9513118--9513182	26	2.6	25	71	9	60	46	1	0	52	1.10
9513150--9513202	12	4.3	12	76	9	54	49	0	0	50	1.00
9513184--9513248	23	2.7	23	77	13	60	50	4	1	43	1.32
9513603--9513644	23	1.9	21	90	9	66	47	0	2	50	1.14
9524899--9525253	149	2.5	139	84	6	444	29	13	20	36	1.91
9525299--9525325	14	1.9	14	100	0	54	37	33	0	29	1.58
9527302--9527354	21	2.5	22	96	3	99	28	35	26	9	1.87
9544640--9544701	28	2.2	28	100	0	124	46	16	0	37	1.47
9546572--9546601	3	10.0	3	92	0	51	66	3	30	0	1.07
9551916--9551956	20	2.1	20	90	4	66	51	0	2	46	1.14
9551916--9551968	20	2.7	20	83	13	65	52	0	1	45	1.11
9557680--9557735	29	1.9	29	92	0	94	60	5	5	28	1.41
9561043--9561092	20	2.5	20	78	12	59	40	24	0	36	1.55
9562248--9562290	20	2.2	20	82	0	50	20	13	41	23	1.88
9563651--9563961	154	2.0	154	100	0	622	28	22	27	21	1.99
9569528--9569636	23	4.7	23	77	0	110	35	16	26	21	1.94
9569523--9569636	46	2.5	46	84	2	131	34	16	26	22	1.95
9569825--9569910	45	1.9	45	80	4	102	37	19	8	34	1.82
9572717--9572761	13	3.5	13	93	0	72	31	22	15	31	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9572726--9572768	13	3.3	13	90	0	59	27	23	13	34	1.93
9572740--9572899	85	1.9	84	87	3	232	31	19	18	30	1.96
9577563--9577619	30	1.9	30	96	0	105	29	5	17	47	1.70
9585112--9585141	13	2.3	13	94	0	51	30	10	13	46	1.75
9588910--9589299	131	3.0	132	87	3	549	39	16	11	32	1.85
9589706--9589844	62	2.2	62	77	11	151	59	7	10	21	1.56
9591298--9591344	24	1.9	25	82	4	60	68	4	4	23	1.26
9591422--9591491	30	2.4	29	90	2	104	58	0	7	34	1.25
9591430--9591539	22	4.6	23	69	23	66	57	0	6	36	1.24
9591461--9591522	23	2.8	22	88	11	92	50	0	6	43	1.28
9591455--9591538	22	3.8	21	77	6	69	57	0	5	36	1.23
9591506--9591574	30	2.3	30	85	7	88	65	0	5	28	1.16
9591600--9591660	28	2.1	29	81	3	70	57	1	4	36	1.30
9591594--9591666	29	2.4	32	75	15	82	57	1	5	35	1.30
9591484--9591676	87	2.2	87	78	8	198	56	1	5	36	1.30
9597942--9597984	17	2.6	16	82	7	52	37	2	20	39	1.66
9598170--9598215	19	2.4	19	96	0	83	23	15	17	43	1.87
9599309--9599397	27	3.3	27	90	1	124	24	11	15	48	1.78
9602648--9603014	191	1.9	191	100	0	734	17	26	27	28	1.98
9603311--9603348	19	2.0	20	89	5	60	50	15	21	13	1.78
9604244--9604270	10	2.7	10	100	0	54	51	0	7	40	1.30
9605086--9605710	265	2.4	264	90	7	958	26	13	20	40	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9606015--9606061	18	2.7	17	86	3	67	29	29	8	31	1.87
9606546--9606588	22	2.0	22	86	9	61	34	2	0	62	1.08
9615906--9616148	83	2.9	82	76	8	210	39	16	13	30	1.88
9630992--9631086	44	2.2	44	87	7	133	27	26	22	24	2.00
9630992--9631086	23	4.4	21	77	9	86	27	26	22	24	2.00
9631011--9631091	23	3.7	23	77	8	96	25	25	24	23	2.00
9631010--9631109	43	2.3	42	80	8	112	27	26	25	22	2.00
9632643--9632686	21	2.1	21	86	0	61	9	43	15	31	1.79
9632988--9633059	34	2.1	35	82	17	89	16	6	22	54	1.66
9634209--9634251	18	2.4	18	80	3	52	27	16	4	51	1.64
9637200--9637239	21	2.0	21	85	14	57	25	15	17	42	1.88
9647337--9647376	21	2.0	20	85	5	53	42	0	17	40	1.49
9660411--9660733	161	2.0	161	100	0	646	34	13	18	33	1.90
9661717--9661840	55	2.3	53	79	9	133	40	8	18	32	1.82
9667937--9667976	21	1.9	21	89	0	62	25	40	25	10	1.86
9671373--9671638	55	4.9	55	91	1	383	34	11	18	35	1.87
9672943--9673003	30	2.0	30	96	0	113	31	13	13	42	1.82
9676313--9676390	20	3.6	20	71	18	75	42	8	25	23	1.83
9676297--9676585	46	6.3	45	78	7	287	44	10	21	23	1.83
9676297--9676586	92	3.2	92	81	3	343	44	10	21	23	1.83
9676376--9676459	26	3.5	26	71	18	81	45	10	22	21	1.82
9676297--9676586	138	2.1	138	83	1	348	44	10	21	23	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9697891--9697940	19	2.5	21	75	12	52	36	16	24	24	1.94
9697963--9698016	22	2.7	19	78	18	56	35	16	18	29	1.93
9698443--9698865	26	15.2	26	66	25	112	44	9	24	21	1.82
9698453--9698892	46	9.6	46	91	1	695	44	10	24	21	1.83
9698774--9698867	13	7.8	12	68	17	52	43	10	26	19	1.83
9704169--9704300	28	4.8	28	76	14	141	22	5	20	51	1.67
9704169--9704360	81	2.3	82	86	7	255	22	5	19	52	1.67
9704269--9704419	52	2.8	53	85	8	184	22	5	19	51	1.68
9704268--9704419	55	2.8	55	86	6	188	22	5	20	51	1.69
9704336--9704417	25	3.2	24	73	18	85	21	7	20	50	1.73
9704433--9704519	26	3.3	25	69	23	70	27	3	27	41	1.72
9704425--9704557	24	5.2	25	68	20	78	30	2	24	42	1.67
9704491--9704565	24	3.1	24	69	17	66	28	0	29	42	1.56
9706485--9706540	15	3.7	15	82	2	67	62	12	16	8	1.53
9707561--9707598	18	2.1	18	100	0	76	31	15	5	47	1.68
9712587--9712611	2	12.5	2	100	0	50	52	0	0	48	1.00
9712552--9712974	209	2.0	212	96	3	791	34	15	15	35	1.88
9712981--9713030	13	3.8	13	81	0	64	36	12	18	34	1.87
9712975--9713031	26	2.2	26	87	0	78	36	14	17	31	1.89
9712983--9713032	26	1.9	26	91	0	82	36	14	18	32	1.90
9712982--9713039	13	4.5	13	82	0	62	34	15	18	31	1.93
9712982--9713039	26	2.2	26	84	0	80	34	15	18	31	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9713681--9713722	21	2.0	21	95	0	75	30	14	21	33	1.93
9723650--9723708	30	2.0	30	96	0	109	25	11	13	49	1.76
9726528--9728066	768	2.0	768	99	0	3060	34	15	14	35	1.88
9730779--9731118	169	2.0	169	100	0	680	25	20	18	36	1.94
9731657--9731701	20	2.2	21	88	4	65	35	0	0	64	0.94
9731956--9732004	25	2.0	25	91	0	80	30	26	18	24	1.98
9739833--9739870	20	1.9	20	94	0	67	23	21	21	34	1.97
9743133--9743189	15	3.6	16	73	7	53	49	1	1	47	1.22
9743937--9744099	81	2.0	81	93	0	281	36	33	9	21	1.85
9748046--9748102	22	2.7	21	83	2	69	29	8	35	26	1.87

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