genome.fa.s8620.2.7.7.80.10.50.1000.17.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: VEPZ01008620.1 Hibiscus syriacus cultivar Beakdansim tig00111582_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  13158977

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   

This is table  17  of  64  ( 7674 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)
3313963--3314004	20	2.2	20	91	4	68	35	0	0	64	0.94
3314145--3314228	21	4.0	21	77	0	78	40	22	5	30	1.78
3319249--3319281	8	4.2	8	88	7	50	48	0	0	51	1.00
3319929--3319959	6	5.2	6	100	0	62	35	48	16	0	1.46
3320988--3321028	21	2.1	19	86	9	55	34	7	2	56	1.40
3320971--3321223	136	1.9	133	81	4	310	37	11	9	40	1.75
3326359--3326501	21	6.8	21	86	8	145	39	22	20	17	1.92
3331262--3331450	36	5.2	36	87	4	229	37	23	19	20	1.95
3331820--3332186	51	7.1	51	83	5	421	34	18	23	23	1.96
3332162--3332730	161	3.5	161	89	4	803	30	14	28	27	1.95
3332183--3332715	108	5.0	109	89	3	789	29	14	28	27	1.95
3332200--3332766	268	2.1	271	90	4	898	29	14	27	27	1.95
3332187--3332763	53	10.7	54	83	7	658	29	14	27	28	1.95
3337541--3337566	2	13.0	2	100	0	52	50	0	0	50	1.00
3337770--3337812	23	1.9	22	86	13	61	55	2	4	37	1.33
3337879--3337923	21	2.1	22	84	15	60	66	4	0	28	1.11
3337940--3338017	37	2.1	37	95	0	138	21	23	8	46	1.79
3338208--3338248	17	2.5	17	92	4	66	56	17	19	7	1.64
3340471--3340509	16	2.4	16	82	0	51	17	15	2	64	1.41
3340868--3340916	16	3.1	16	90	0	80	59	20	12	8	1.58
3340864--3340916	26	2.0	26	82	7	63	60	18	11	9	1.57
3340925--3341005	31	2.6	31	100	0	162	22	13	18	45	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3341012--3341086	10	7.7	10	69	21	61	57	21	12	9	1.62
3341016--3341080	16	4.1	16	95	0	121	56	23	12	7	1.61
3342547--3342618	37	1.9	37	91	0	117	34	8	18	38	1.80
3345109--3345145	19	1.9	19	94	0	65	40	5	13	40	1.67
3348595--3348660	32	2.1	31	85	2	87	18	21	13	46	1.83
3348884--3348908	13	1.9	13	100	0	50	52	0	0	48	1.00
3349361--3349429	29	2.4	29	95	0	120	40	15	7	36	1.76
3349361--3349437	29	2.7	29	89	0	82	41	15	7	35	1.76
3352745--3352789	13	3.5	13	90	0	72	24	20	24	31	1.98
3352768--3353066	85	3.5	85	91	1	476	29	21	17	31	1.96
3353335--3353506	86	2.0	86	95	4	312	34	19	6	38	1.79
3362663--3362738	35	2.2	35	82	0	98	47	18	0	34	1.49
3364803--3364851	17	2.9	17	76	17	57	36	0	0	63	0.95
3364817--3364846	15	2.1	15	93	6	53	30	0	0	70	0.88
3366090--3366118	14	2.0	15	93	6	51	72	0	0	27	0.85
3367879--3367921	16	2.7	15	82	10	50	18	0	18	62	1.32
3371041--3371103	4	16.8	4	74	12	53	50	23	0	25	1.49
3371045--3371099	10	5.1	10	75	16	56	50	23	0	25	1.49
3371053--3371106	12	4.3	12	79	9	63	50	22	0	27	1.50
3371045--3371099	22	2.5	22	96	0	101	50	23	0	25	1.49
3371041--3371105	24	2.7	24	82	17	98	50	23	0	26	1.49
3375272--3375305	17	2.0	17	88	0	50	73	2	0	23	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3375923--3376106	85	2.2	82	85	4	235	54	12	1	31	1.47
3377023--3377074	26	2.0	25	88	3	77	28	9	15	46	1.77
3378026--3378052	14	1.9	14	100	0	54	25	7	0	66	1.17
3378213--3378288	29	2.7	28	81	2	89	25	23	13	38	1.91
3378459--3378535	13	5.6	13	72	15	66	75	3	2	18	1.07
3382484--3382533	21	2.4	21	86	0	64	20	18	20	42	1.90
3384054--3384087	17	2.0	17	88	0	50	73	2	0	23	0.97
3384717--3384887	85	2.0	83	85	6	229	56	11	1	30	1.45
3386182--3386238	24	2.4	24	82	5	62	24	15	19	40	1.90
3387447--3389387	973	2.0	974	98	0	3731	33	14	17	33	1.91
3391165--3391225	14	4.6	14	73	16	51	77	0	21	1	0.86
3391206--3391247	22	1.9	22	85	9	59	76	0	19	4	0.96
3397154--3397614	256	1.8	255	90	1	744	32	23	24	19	1.98
3397435--3398177	71	10.5	70	75	7	495	33	26	21	18	1.96
3397517--3398049	213	2.5	213	80	6	578	32	26	21	18	1.97
3397915--3398184	136	2.0	136	81	2	319	34	29	20	15	1.94
3398392--3399106	359	2.0	354	97	2	1353	36	22	18	22	1.95
3399159--3399203	10	4.7	10	78	10	58	48	0	0	51	1.00
3400776--3400818	2	21.5	2	95	0	68	44	0	0	55	0.99
3402787--3402821	10	3.3	10	92	8	52	28	0	0	71	0.86
3403441--3403478	2	19.5	2	94	5	69	50	0	0	50	1.00
3411289--3411370	41	2.0	41	100	0	164	29	14	21	34	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3414715--3414754	16	2.7	16	81	11	50	32	20	0	47	1.50
3415580--3415703	31	4.0	31	91	2	194	48	12	5	33	1.64
3415580--3415703	63	2.0	62	90	1	194	48	12	5	33	1.64
3417193--3417263	31	2.3	31	85	0	97	47	12	9	29	1.74
3421116--3421162	18	2.8	17	87	6	60	31	6	6	55	1.51
3423117--3423181	23	2.8	23	97	0	121	29	15	38	16	1.90
3423215--3423316	41	2.5	40	79	7	100	34	16	26	22	1.95
3423578--3423602	12	2.1	12	100	0	50	20	16	24	40	1.91
3429084--3429275	96	2.0	96	96	0	357	19	17	13	49	1.79
3432513--3432590	13	6.0	13	90	0	120	33	19	21	25	1.97
3432376--3432541	85	2.0	85	81	11	198	31	17	19	31	1.95
3433839--3434009	43	4.0	43	88	0	225	35	14	25	25	1.93
3441064--3441128	32	2.0	32	100	0	130	24	15	21	38	1.92
3443385--3443427	22	2.0	22	95	0	77	30	16	4	48	1.66
3443936--3444065	42	3.1	41	68	14	113	30	23	16	30	1.96
3443887--3444067	83	2.2	83	85	0	236	32	22	16	29	1.95
3461050--3461088	20	1.9	20	89	5	60	23	7	5	64	1.40
3469065--3469090	12	2.2	12	100	0	52	11	15	26	46	1.80
3469098--3469143	20	2.2	20	85	11	58	19	21	23	34	1.96
3469756--3469826	28	2.5	28	93	0	115	60	11	2	25	1.44
3472853--3472898	2	23.0	2	90	0	74	45	0	0	54	0.99
3478696--3478756	24	2.5	25	89	7	99	31	21	19	27	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3479551--3479646	2	48.0	2	100	0	192	50	0	0	50	1.00
3479936--3480081	9	15.2	9	81	15	145	83	1	13	2	0.80
3479963--3480070	14	8.8	13	78	19	74	85	0	12	0	0.70
3479919--3480081	56	2.8	57	81	10	181	83	1	12	2	0.81
3479998--3480065	1	68.0	1	85	0	91	92	0	7	0	0.38
3479920--3480069	37	4.3	33	76	13	149	84	1	12	2	0.80
3479936--3480080	28	5.0	28	78	16	136	83	1	13	2	0.80
3482006--3482263	54	4.7	56	77	9	208	34	8	13	43	1.74
3482081--3482258	59	3.2	53	72	16	137	33	8	15	42	1.77
3482507--3483225	145	5.0	145	85	2	946	29	26	14	29	1.95
3482507--3483225	289	2.5	289	87	2	1025	29	26	14	29	1.95
3483131--3483285	58	2.6	58	87	4	204	30	27	12	29	1.93
3482986--3483430	203	2.2	204	87	0	631	29	26	14	29	1.95
3484248--3484272	4	6.2	4	100	0	50	76	0	0	24	0.80
3485468--3485503	16	2.1	18	90	10	58	38	2	0	58	1.13
3488078--3488131	12	4.5	12	79	6	56	3	27	1	66	1.19
3492014--3492063	10	5.1	10	74	13	50	18	22	30	30	1.97
3492015--3492074	9	6.3	9	75	11	57	15	25	30	30	1.95
3492014--3492072	19	3.1	19	85	2	73	16	22	30	30	1.96
3492071--3492130	17	3.0	21	76	23	74	18	46	23	11	1.81
3492070--3492118	17	2.9	17	96	0	89	18	46	22	12	1.82
3492120--3492150	7	4.4	7	100	0	62	16	29	29	25	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3495601--3495713	25	4.3	27	79	13	112	43	1	1	53	1.21
3495601--3495712	54	2.1	53	86	4	156	43	1	1	52	1.22
3495766--3495810	14	3.1	14	84	12	56	62	2	0	35	1.08
3495813--3495869	22	2.7	21	79	15	55	38	1	0	59	1.08
3498892--3498938	19	2.5	19	85	0	67	23	12	40	23	1.89
3498942--3498980	20	2.0	20	84	0	51	15	17	28	38	1.91
3501473--3501515	19	2.3	19	87	0	59	46	16	20	16	1.84
3503171--3503200	7	4.3	7	91	0	51	43	30	13	13	1.82
3507029--3507100	2	36.0	2	97	0	135	50	1	0	48	1.09
3507438--3507465	14	2.0	14	100	0	56	50	14	0	35	1.43

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