genome.fa.s8094.2.7.7.80.10.50.1000.17.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: VEPZ01008094.1 Hibiscus syriacus cultivar Beakdansim tig00110610_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  9952466

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   

This is table  17  of  43  ( 5090 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)
3237448--3237571	2	62.0	2	98	0	239	50	49	0	0	1.06
3237603--3237628	2	13.0	2	100	0	52	50	0	0	50	1.00
3237628--3237692	2	32.5	2	100	0	130	0	0	49	50	1.00
3237939--3237997	18	3.1	19	83	11	84	20	20	30	28	1.97
3244262--3244322	6	10.2	6	85	0	68	27	45	16	9	1.79
3244958--3244982	12	2.1	12	100	0	50	32	16	16	36	1.90
3249385--3249426	10	4.2	10	79	11	50	66	11	0	21	1.23
3253411--3253445	18	1.9	18	88	0	52	34	2	2	60	1.26
3253769--3253807	2	20.0	2	94	5	71	51	0	0	48	1.00
3263236--3263287	24	2.2	24	86	6	70	36	34	0	28	1.58
3265169--3265197	4	7.2	4	100	0	58	75	0	0	24	0.80
3266825--3266970	72	2.1	70	96	2	265	42	4	7	45	1.51
3293148--3293200	26	2.0	26	96	0	97	28	5	26	39	1.79
3299157--3299192	18	2.0	18	100	0	72	50	0	0	50	1.00
3299181--3299220	11	3.6	11	79	0	53	45	0	0	55	0.99
3304657--3304723	16	3.9	16	73	17	55	28	4	2	64	1.28
3313993--3314083	12	7.9	12	86	9	93	28	0	1	70	0.95
3314015--3314083	3	23.0	3	94	5	122	33	0	0	66	0.92
3315417--3315466	15	3.4	14	77	22	50	34	2	2	62	1.18
3315504--3315535	4	8.2	4	93	6	57	21	0	0	78	0.76
3318731--3318810	9	9.0	9	76	17	69	72	2	0	25	0.97
3318731--3318795	3	21.7	3	81	12	80	70	1	0	27	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3323243--3323304	3	21.0	3	72	21	51	30	1	0	67	1.00
3323249--3323300	17	3.1	17	81	8	52	28	1	0	69	0.99
3323249--3323308	29	2.1	29	90	6	95	30	1	0	68	0.99
3323235--3323303	20	3.5	20	76	11	70	27	1	0	71	0.95
3323647--3323672	10	2.6	10	100	0	52	92	0	7	0	0.39
3324188--3324254	35	1.9	35	87	0	98	26	11	8	52	1.68
3326048--3326088	16	2.4	17	84	12	57	39	4	4	51	1.45
3326059--3326095	16	2.3	16	95	0	65	48	5	2	43	1.40
3339960--3339994	6	5.7	6	86	6	52	14	0	2	82	0.77
3339959--3340002	19	2.3	18	80	7	52	13	4	4	77	1.08
3345847--3345885	3	13.7	3	89	10	64	30	0	0	69	0.89
3347467--3347540	4	16.4	5	78	10	56	21	4	0	74	0.98
3347476--3347541	4	15.2	4	81	12	69	22	3	0	74	0.96
3347467--3347541	35	2.1	36	83	11	93	22	4	0	73	1.00
3347602--3347692	19	4.9	19	66	16	57	23	8	0	68	1.17
3347601--3347692	14	6.8	13	72	17	55	22	8	0	68	1.17
3348193--3348224	2	16.0	2	100	0	64	50	0	0	50	1.00
3348688--3348729	21	2.1	19	83	16	50	35	7	4	52	1.50
3349450--3349486	18	2.0	19	89	5	58	29	5	8	56	1.51
3349841--3349963	24	5.5	24	71	24	106	30	19	18	30	1.96
3349865--3349943	20	3.8	19	72	19	68	29	21	21	27	1.99
3349841--3349977	44	3.1	44	90	0	211	29	21	18	29	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3357435--3357477	22	2.0	22	90	4	70	41	6	32	18	1.77
3360589--3360619	2	15.5	2	100	0	62	51	0	0	48	1.00
3370713--3370738	2	13.0	2	100	0	52	50	0	0	50	1.00
3376053--3376158	3	36.7	3	88	7	166	30	0	0	69	0.88
3377654--3377711	4	14.0	4	77	18	57	22	3	0	74	0.97
3377654--3377711	13	4.3	13	75	16	64	22	3	0	74	0.97
3377654--3377690	17	2.2	17	100	0	74	21	0	0	78	0.75
3378527--3378586	27	2.2	27	82	11	70	26	8	1	63	1.32
3378663--3378699	18	2.0	19	89	5	58	35	5	2	56	1.36
3379079--3379157	20	3.8	19	72	19	68	27	20	22	29	1.98
3379074--3379195	44	2.8	44	91	0	199	30	20	21	27	1.98
3379099--3379177	24	3.5	24	70	19	87	30	18	20	30	1.97
3386755--3386791	18	2.0	19	89	5	58	35	5	2	56	1.36
3387145--3387244	44	2.3	44	85	0	137	32	21	17	30	1.95
3387147--3387225	24	3.5	24	71	13	76	34	17	16	31	1.93
3401959--3402326	73	5.0	73	94	0	610	32	19	19	27	1.96
3402985--3403038	18	2.7	20	80	16	67	37	14	12	35	1.85
3404247--3404414	74	2.3	75	86	1	230	30	22	14	32	1.94
3407878--3407937	10	6.0	10	83	11	70	0	11	3	85	0.72
3407885--3407942	9	6.1	9	82	15	64	0	12	3	84	0.74
3407886--3407928	19	2.3	19	91	0	68	0	11	2	86	0.67
3413393--3413428	2	18.0	2	100	0	72	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)
3413897--3413930	16	2.1	16	89	10	52	64	0	5	29	1.17
3415186--3415242	3	20.0	3	78	10	57	59	1	1	36	1.18
3415183--3415242	20	3.0	20	85	4	68	58	1	1	38	1.18
3415181--3415242	23	2.7	23	87	5	81	58	1	1	38	1.18
3417228--3417271	21	2.1	21	86	0	61	36	9	29	25	1.86
3429533--3429612	38	2.1	38	86	4	108	23	17	10	48	1.77
3435395--3435455	30	2.1	28	87	6	86	32	9	16	40	1.81
3436406--3436436	2	16.0	2	93	6	55	48	0	0	51	1.00
3441166--3441190	5	5.0	5	100	0	50	80	0	20	0	0.72
3443426--3443506	21	4.2	20	74	17	57	51	3	1	43	1.27
3445186--3445266	30	2.7	28	81	12	90	41	12	7	38	1.71
3450064--3450106	19	2.3	19	84	4	52	41	0	0	58	0.98
3456865--3456903	20	2.0	20	94	0	69	23	15	33	28	1.95
3457710--3457895	21	8.7	21	73	5	113	23	15	24	37	1.93
3457789--3457905	23	5.4	22	76	9	96	21	13	26	38	1.91
3457813--3457872	20	3.0	20	85	2	75	23	11	28	36	1.90
3457813--3457895	41	2.0	41	83	9	105	20	14	27	37	1.92
3458104--3458163	23	2.6	23	89	0	84	38	0	25	36	1.56
3458104--3458172	23	3.0	22	79	8	75	34	1	23	40	1.64
3464352--3464442	42	2.2	42	85	0	128	24	15	20	39	1.91
3464363--3464442	21	3.8	21	76	12	74	27	13	17	41	1.87
3488552--3488636	44	2.0	44	86	4	120	18	18	27	35	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3488548--3488637	21	4.1	22	83	8	112	18	18	25	36	1.94
3488853--3488918	23	2.9	23	86	0	87	34	1	24	39	1.65
3489476--3489517	22	1.9	22	90	0	66	52	2	9	35	1.47
3491336--3491376	22	1.9	21	90	5	64	70	4	0	24	1.06
3492628--3492708	37	2.2	37	82	4	101	39	23	13	23	1.90
3496096--3496123	11	2.5	11	100	0	56	35	0	0	64	0.94
3496137--3496184	23	2.1	23	88	7	71	39	0	4	56	1.19
3496253--3496283	2	16.0	2	93	6	55	48	0	0	51	1.00
3496205--3496325	58	2.2	54	82	7	136	44	2	4	47	1.38
3496301--3496349	23	2.1	24	85	11	66	42	0	4	53	1.20
3496309--3496382	29	2.4	31	82	10	82	47	0	4	48	1.20
3496399--3496443	18	2.8	16	90	10	65	33	4	0	62	1.15
3497791--3497861	15	4.5	15	77	11	63	23	7	0	69	1.13
3500038--3500192	84	1.9	83	95	1	283	50	15	4	29	1.64
3502190--3502294	29	3.6	29	98	0	192	35	13	0	51	1.41
3502816--3502875	2	30.0	2	100	0	120	50	0	0	50	1.00
3507862--3507900	20	2.0	20	94	0	69	17	20	17	43	1.88
3508968--3509010	2	21.5	2	95	0	77	46	0	0	53	1.00
3509278--3509322	22	2.0	22	86	0	63	71	0	24	4	1.05
3518169--3518193	12	2.1	12	100	0	50	56	24	8	12	1.62
3522244--3522269	2	13.0	2	100	0	52	50	0	0	50	1.00
3527704--3527754	2	25.5	2	95	0	93	49	0	1	49	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3528172--3528206	2	17.5	2	100	0	70	48	0	0	51	1.00
3529066--3529229	76	2.2	75	84	5	206	29	1	11	56	1.45
3529252--3529295	19	2.2	19	88	8	61	31	0	13	54	1.39
3529856--3529923	19	3.4	19	78	15	66	23	5	1	69	1.19
3537917--3537965	4	13.0	4	79	16	52	20	2	0	77	0.87
3537918--3537960	23	1.9	22	90	4	68	18	2	0	79	0.85
3537917--3537966	15	3.3	15	81	15	59	20	2	0	78	0.86
3537913--3537967	23	2.4	23	81	6	67	21	1	0	76	0.88
3537917--3537965	18	2.5	20	78	15	59	20	2	0	77	0.87
3537993--3538043	14	3.4	14	80	17	50	29	1	0	68	1.00

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