genome.fa.s9639.2.7.7.80.10.50.1000.14.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: VEPZ01009639.1 Hibiscus syriacus cultivar Beakdansim tig00117048_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  15077257

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   

This is table  14  of  62  ( 7398 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)
3158622--3158647	13	2.0	13	100	0	52	23	23	15	38	1.92
3160617--3160665	2	24.5	2	100	0	98	48	0	0	51	1.00
3163694--3163728	15	2.3	15	95	0	61	17	8	11	62	1.52
3164117--3164149	17	1.9	17	93	0	57	9	30	18	42	1.81
3164934--3165705	55	14.1	55	86	2	991	29	24	14	31	1.94
3170332--3170370	13	3.0	13	84	0	51	46	10	17	25	1.80
3170719--3170859	55	2.6	54	88	1	192	21	24	12	41	1.87
3172797--3172959	17	10.0	16	66	19	52	52	2	1	43	1.22
3172868--3172996	29	4.7	29	67	16	80	51	3	0	45	1.17
3172869--3172969	33	3.1	32	78	13	100	49	3	0	46	1.20
3172897--3172996	31	3.2	31	83	8	96	52	3	0	45	1.16
3172985--3173017	15	2.2	15	94	0	57	57	6	6	30	1.47
3173412--3173635	40	5.5	40	69	13	109	25	19	21	34	1.96
3173408--3173763	125	2.9	125	83	3	396	26	19	20	33	1.96
3176112--3176147	18	2.1	17	94	5	63	50	11	13	25	1.75
3177632--3177692	21	2.9	21	77	0	68	29	29	9	31	1.89
3180776--3180829	20	2.7	20	94	0	90	29	35	14	20	1.93
3181123--3181171	22	2.2	22	96	0	89	36	26	4	32	1.75
3181711--3181743	3	11.0	3	87	12	50	66	0	33	0	0.92
3181711--3181751	12	3.5	11	87	12	55	65	0	31	2	1.05
3183908--3183964	25	2.3	25	96	3	107	14	21	10	54	1.69
3189036--3189066	2	15.5	2	100	0	62	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)
3191327--3191379	21	2.6	21	96	3	99	20	16	33	28	1.95
3191410--3191460	20	2.5	20	83	0	66	37	19	25	17	1.94
3191449--3191562	20	5.7	20	77	6	86	31	22	18	27	1.97
3192124--3192174	19	2.7	19	96	0	93	11	21	21	45	1.84
3192157--3192244	33	2.6	33	90	1	140	12	26	21	39	1.89
3193913--3194093	90	2.0	87	85	10	240	21	11	18	48	1.80
3194312--3194482	42	4.1	42	78	5	186	21	36	16	24	1.94
3194309--3194482	83	2.1	83	95	2	314	21	36	17	24	1.94
3194377--3194492	21	5.5	21	64	8	56	22	33	20	23	1.97
3194312--3194512	42	4.8	41	72	10	138	21	36	17	23	1.95
3195845--3195880	14	2.6	14	95	0	63	30	0	25	44	1.54
3195993--3196031	19	2.1	19	100	0	78	46	20	23	10	1.81
3196060--3196184	32	3.8	33	87	3	191	15	23	20	41	1.89
3196059--3196183	65	1.9	64	96	1	232	15	23	20	40	1.90
3198634--3198686	24	2.3	23	86	3	70	41	18	16	22	1.90
3199499--3199577	20	3.9	20	75	9	61	35	21	18	24	1.96
3199863--3199910	19	2.6	19	96	3	89	14	20	16	47	1.82
3201503--3201562	21	2.9	20	73	11	59	20	13	45	21	1.85
3201992--3202049	14	3.9	14	79	16	71	48	24	17	10	1.78
3201943--3202054	33	3.4	33	90	1	163	47	19	19	13	1.82
3202061--3202142	18	4.6	19	79	14	104	13	20	20	45	1.85
3202127--3202169	19	2.3	19	83	0	59	18	25	20	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3202648--3202692	18	2.5	18	88	0	72	13	15	44	26	1.83
3203993--3204033	19	2.2	19	86	0	55	46	21	19	12	1.82
3204002--3204047	19	2.4	19	88	3	65	36	26	17	19	1.94
3204310--3204353	22	2.0	22	90	0	70	18	13	45	22	1.84
3204536--3204647	20	5.6	20	78	6	82	25	18	23	32	1.97
3204516--3204653	61	2.3	61	81	0	168	26	17	21	34	1.95
3206526--3206582	27	2.0	27	83	12	71	61	1	0	36	1.07
3206843--3207437	54	11.1	55	82	7	661	29	23	14	32	1.94
3206843--3207437	109	5.5	111	81	8	662	29	23	14	32	1.94
3206843--3207435	163	3.7	163	82	7	680	29	23	14	32	1.94
3212545--3212569	13	1.9	13	100	0	50	48	8	16	28	1.74
3212932--3213072	55	2.6	55	88	1	194	21	24	12	41	1.87
3215058--3215125	20	3.6	19	72	23	54	52	2	0	44	1.16
3215075--3215131	24	2.4	23	73	26	57	56	3	0	40	1.17
3215129--3215165	15	2.5	15	87	12	51	62	5	5	27	1.39
3215554--3215777	40	5.5	40	71	9	139	25	18	21	33	1.96
3215550--3215901	125	2.9	123	82	4	361	26	19	20	33	1.96
3215701--3215898	40	4.9	40	72	14	122	28	20	19	31	1.97
3217265--3217291	13	2.1	13	100	0	54	51	14	0	33	1.43
3220736--3220784	22	2.2	22	100	0	98	36	28	4	30	1.76
3224771--3224858	41	2.0	41	83	14	106	50	12	5	31	1.64
3226621--3226646	13	2.0	13	100	0	52	23	23	15	38	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3226716--3226757	19	2.2	19	91	0	66	42	16	4	35	1.69
3226992--3228175	638	1.9	639	96	3	2192	29	18	16	36	1.93
3228841--3228907	23	2.9	22	72	14	64	47	19	20	11	1.81
3229193--3229223	2	15.5	2	100	0	62	48	0	0	51	1.00
3232176--3232210	15	2.3	15	95	0	61	17	8	11	62	1.52
3233098--3233154	3	19.7	3	81	13	66	59	1	0	38	1.08
3233098--3233154	11	5.2	11	79	12	64	59	1	0	38	1.08
3233426--3234198	55	14.1	55	87	2	991	29	23	14	32	1.94
3237700--3237770	35	2.0	35	100	0	142	25	9	25	39	1.86
3239878--3240037	55	3.0	55	86	2	218	23	24	10	41	1.85
3241999--3242045	21	2.4	18	86	10	58	55	0	0	44	0.99
3242019--3242093	17	4.6	17	70	12	59	50	5	0	44	1.24
3242024--3242096	31	2.4	31	85	0	92	47	5	0	46	1.25
3242098--3242136	20	2.0	19	85	5	51	66	2	2	28	1.18
3242141--3242180	15	2.5	17	84	11	50	65	2	0	32	1.06
3242538--3242893	125	2.9	124	83	1	381	26	19	19	33	1.96
3242542--3242765	40	5.5	40	70	11	141	25	19	21	33	1.97
3246347--3246406	23	2.7	23	81	2	68	20	23	30	26	1.98
3247676--3247708	15	2.2	15	89	10	50	48	12	18	21	1.80
3248453--3248577	29	4.3	29	79	6	103	40	21	4	32	1.74
3248498--3248607	29	3.8	28	77	11	98	39	25	5	30	1.78
3255540--3255718	29	6.2	29	86	2	175	40	20	3	35	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3255557--3255715	87	1.8	87	82	5	205	38	21	3	35	1.71
3255540--3255724	58	3.2	58	78	9	198	39	21	4	34	1.73
3255733--3255757	13	1.9	13	100	0	50	16	16	44	24	1.86
3262495--3262528	18	1.9	17	88	5	50	17	23	29	29	1.97
3278540--3278640	50	2.0	50	100	0	202	34	15	23	25	1.95
3282144--3282237	48	2.0	48	82	4	118	23	12	14	48	1.78
3282137--3282235	24	4.1	24	76	2	92	23	12	16	48	1.79
3286919--3286990	24	3.0	24	76	8	65	18	9	16	55	1.67
3291736--3291820	24	3.5	24	83	3	109	17	14	17	50	1.78
3291735--3291820	12	7.2	12	70	7	50	18	13	17	50	1.79
3292747--3292799	24	2.2	24	96	0	97	20	28	16	33	1.95
3293596--3294051	225	2.0	228	98	1	882	38	11	12	37	1.79
3301241--3301294	20	2.7	20	73	21	58	31	35	0	33	1.58
3303068--3303198	61	2.1	61	87	0	190	25	15	29	29	1.96
3303664--3303708	19	2.6	16	78	18	54	57	0	4	37	1.19
3303672--3303715	19	2.3	19	100	0	88	54	0	6	38	1.27
3309257--3309607	174	2.0	175	98	1	686	32	9	22	36	1.85
3311563--3311623	32	1.9	32	89	0	95	27	21	16	34	1.95
3314903--3314931	15	1.9	15	100	0	58	48	27	6	17	1.72
3315039--3315077	16	2.5	15	84	8	51	43	0	2	53	1.14
3315213--3315257	23	2.0	23	100	0	90	48	20	8	22	1.76
3319086--3319123	18	2.1	18	100	0	76	36	0	18	44	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3321689--3321722	18	1.9	18	88	5	52	41	8	5	44	1.60
3324569--3324646	27	2.8	27	90	3	120	35	2	38	23	1.68
3340768--3340805	16	2.4	16	91	4	60	39	0	0	60	0.97
3341983--3342017	17	2.1	17	94	0	61	40	34	20	5	1.76
3343831--3343865	17	2.1	17	100	0	70	11	22	48	17	1.79
3346760--3346873	12	9.5	12	75	3	86	6	9	42	42	1.62
3346760--3346873	6	19.0	6	74	0	66	6	9	42	42	1.62
3347648--3347713	18	3.7	18	70	11	55	39	4	6	50	1.48
3347619--3347705	33	2.6	33	83	5	104	40	5	5	48	1.51
3347682--3347720	13	2.9	13	80	3	51	43	0	5	51	1.24

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