genome.fa.s8242.2.7.7.80.10.50.1000.72.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  72  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)
16611447--16611504	26	2.2	26	84	6	73	62	3	0	34	1.12
16611651--16612169	137	3.8	137	89	1	772	25	15	24	34	1.94
16621920--16621953	2	17.0	2	100	0	68	50	0	0	50	1.00
16623675--16623721	14	3.5	13	83	11	60	65	4	0	29	1.11
16623664--16623721	26	2.2	26	84	6	73	62	3	0	34	1.12
16625845--16625933	3	29.7	3	100	0	178	33	0	0	66	0.92
16626326--16626982	114	5.7	113	87	3	877	38	12	19	29	1.88
16627299--16627360	3	20.7	3	96	0	115	33	1	0	64	1.03
16627356--16627385	11	2.8	11	95	5	53	56	0	0	43	0.99
16628835--16628881	14	3.5	13	80	13	51	40	2	2	55	1.24
16632650--16632720	13	5.8	12	83	15	58	81	0	15	2	0.80
16632668--16632720	1	53.0	1	76	0	52	88	0	11	0	0.51
16632652--16632720	12	5.5	13	80	14	83	84	0	14	1	0.70
16632655--16632720	25	2.7	25	86	9	91	84	0	13	1	0.68
16633868--16634759	84	10.6	84	95	1	1562	28	13	21	35	1.92
16635478--16636156	114	5.9	114	87	3	875	37	12	19	30	1.88
16636473--16636540	3	22.7	3	96	0	127	33	1	0	64	1.02
16636536--16636565	11	2.8	11	95	5	53	56	0	0	43	0.99
16638015--16638061	14	3.5	13	80	13	51	40	2	2	55	1.24
16645682--16645731	21	2.3	21	86	10	66	28	22	24	26	1.99
16648666--16648754	46	2.0	45	90	2	142	52	1	1	44	1.15
16649155--16649226	20	3.5	20	86	1	90	41	18	22	18	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16649194--16649287	41	2.3	42	77	5	102	36	23	21	19	1.95
16649215--16649329	20	5.7	20	80	6	106	31	25	19	24	1.98
16649517--16649560	22	2.0	22	91	8	72	22	45	13	18	1.84
16649517--16649568	22	2.5	21	84	12	63	23	44	11	21	1.84
16649815--16649873	20	3.0	20	87	0	73	16	18	22	42	1.89
16650989--16651033	18	2.5	18	88	0	72	26	44	15	13	1.83
16651480--16651537	20	3.0	20	82	2	73	41	20	22	15	1.90
16651510--16651606	19	5.6	19	71	22	88	47	21	18	12	1.81
16651526--16651584	14	3.9	14	76	20	64	50	23	15	10	1.74
16651510--16651601	33	2.8	33	94	0	166	48	21	17	11	1.79
16651644--16651699	20	2.8	19	86	7	76	16	25	23	35	1.94
16652065--16652152	41	2.1	41	85	2	122	21	43	14	20	1.88
16653561--16653596	14	2.6	14	90	0	54	30	0	22	47	1.52
16653729--16653793	19	3.7	19	84	15	95	46	18	21	13	1.84
16653812--16653869	20	2.9	20	97	0	107	15	22	24	37	1.93
16654185--16654322	41	3.4	41	80	7	147	22	18	24	34	1.96
16654205--16654318	20	5.7	20	83	6	131	23	19	26	30	1.98
16654245--16654340	41	2.3	41	83	3	113	20	20	22	35	1.96
16658329--16658371	21	2.1	20	86	4	59	46	23	0	30	1.52
16659219--16659264	24	1.9	24	95	0	83	43	6	8	41	1.61
16660862--16660893	14	2.3	14	94	0	55	46	18	3	31	1.65
16661023--16661065	22	1.9	23	90	4	70	48	2	0	48	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16661768--16661807	8	4.8	8	87	6	53	37	0	0	62	0.95
16667529--16667864	168	2.0	168	100	0	672	35	19	23	22	1.96
16671423--16671460	18	2.1	18	90	0	58	63	0	2	34	1.09
16676375--16676433	25	2.4	25	100	0	118	47	25	8	18	1.77
16688653--16688707	19	2.8	19	86	2	65	18	1	5	74	1.10
16688680--16688709	15	1.9	16	93	6	53	26	0	10	63	1.26
16691100--16691173	2	40.0	2	74	15	70	45	0	0	54	1.00
16691100--16691166	7	9.3	7	73	10	55	46	0	0	53	1.00
16691100--16691178	12	7.0	11	80	11	79	44	0	0	55	0.99
16692483--16692512	2	15.0	2	92	0	51	46	0	3	50	1.18
16692726--16692773	24	2.0	25	84	8	64	6	12	8	72	1.26
16692731--16692794	25	2.6	24	78	7	65	9	9	6	75	1.20
16692799--16692850	21	2.5	19	77	20	50	19	5	5	69	1.30
16692812--16692880	17	4.1	16	71	14	50	20	8	5	65	1.41
16693123--16693155	18	1.9	17	88	11	50	45	15	18	21	1.85
16704270--16704471	95	2.2	89	80	12	225	33	23	20	22	1.97
16704301--16704485	95	1.9	95	86	2	264	33	23	21	22	1.97
16705302--16705371	2	38.0	2	81	16	89	45	0	0	54	0.99
16706478--16706514	2	18.5	2	100	0	74	48	0	0	51	1.00
16706892--16706956	25	2.6	24	80	7	67	9	10	4	75	1.18
16706913--16707032	27	4.4	26	68	21	68	15	10	4	69	1.33
16706972--16707040	17	4.1	16	71	14	50	20	8	5	65	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16708900--16708937	19	2.0	19	89	0	58	18	23	28	28	1.98
16708950--16708997	22	2.2	22	92	0	78	20	47	20	10	1.79
16711630--16711806	29	6.4	28	79	7	148	49	17	3	29	1.63
16711659--16711733	26	2.8	26	81	6	69	52	10	4	33	1.55
16713092--16713142	9	5.8	9	80	13	61	74	1	0	23	0.92
16724744--16724820	23	3.4	22	83	7	100	28	23	29	18	1.97
16724731--16724820	46	2.0	46	88	0	135	28	24	27	18	1.98
16724897--16725011	45	2.6	44	83	4	122	36	22	9	31	1.86
16724925--16725028	45	2.3	45	88	0	154	36	21	8	33	1.84
16740993--16741038	23	2.1	22	84	8	58	30	21	26	21	1.99
16741002--16741048	23	2.0	23	87	0	67	29	21	27	21	1.98
16741117--16741245	45	3.1	39	81	6	114	36	20	7	34	1.82
16743018--16743065	20	2.3	21	82	3	62	70	2	4	22	1.15
16743919--16744000	23	3.7	23	81	3	96	34	24	24	17	1.96
16744108--16744190	30	2.7	30	79	5	87	36	22	12	28	1.90
16744168--16744196	15	1.9	15	100	0	58	34	20	10	34	1.87
16747169--16747267	47	2.1	47	100	0	198	33	18	0	48	1.48
16748191--16748223	2	16.5	2	93	0	57	54	0	0	45	0.99
16749004--16749083	3	26.7	3	89	0	124	33	3	0	62	1.13
16750470--16750508	21	1.9	20	89	5	60	43	2	0	53	1.14
16750669--16750721	17	3.1	18	72	10	56	54	0	5	39	1.24
16761820--16761853	7	5.0	7	92	7	61	88	0	11	0	0.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16761820--16761853	13	2.5	14	90	9	61	88	0	11	0	0.52
16762192--16762227	18	2.0	18	94	0	63	30	5	8	55	1.52
16763118--16763309	50	3.8	50	99	0	375	25	13	21	39	1.90
16762966--16763208	131	1.9	131	100	0	486	29	13	20	35	1.92
16763873--16764409	113	4.8	112	92	1	783	39	12	19	28	1.88
16764135--16764179	24	1.9	23	82	13	56	51	6	24	17	1.70
16764664--16764755	3	30.7	3	86	4	132	34	3	0	61	1.12
16766327--16766379	17	3.1	18	72	10	56	54	0	5	39	1.24
16774798--16774855	25	2.3	25	78	0	62	58	8	6	25	1.53
16779126--16779191	31	2.1	31	88	0	96	33	12	30	24	1.91
16779828--16779890	31	2.1	30	87	3	90	25	23	12	38	1.90
16780662--16780691	14	2.1	14	93	0	51	20	13	26	40	1.89
16782441--16782613	65	2.7	65	86	1	231	31	21	13	33	1.92
16784464--16784494	15	2.1	15	93	0	53	41	6	16	35	1.74
16786009--16786793	413	1.9	418	87	4	1165	44	7	8	39	1.64
16786618--16787098	180	2.7	177	78	8	452	40	10	8	39	1.72
16786715--16787048	179	1.9	182	84	6	457	38	10	9	41	1.72
16786757--16787145	181	2.2	178	80	5	417	38	12	9	40	1.76
16788001--16788038	17	2.2	18	85	4	51	28	0	2	68	1.03
16789531--16789639	4	27.2	4	68	25	54	74	0	7	18	1.04
16789513--16789608	27	3.4	29	77	21	98	72	0	8	18	1.08
16789511--16789639	22	5.4	25	72	25	84	72	0	8	18	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16789556--16789609	17	3.2	17	78	21	60	77	0	3	18	0.91
16789542--16789624	23	3.4	25	69	21	68	77	0	6	16	0.97
16789513--16789620	9	11.7	9	69	18	53	74	0	8	17	1.06
16789542--16789661	37	3.2	36	76	18	106	75	0	7	15	1.06
16789759--16789821	9	6.7	9	74	15	56	71	0	3	25	1.01
16789750--16789830	26	3.1	25	74	13	74	71	0	3	24	1.02
16789869--16789898	14	2.2	13	94	5	51	76	0	13	10	1.01
16791016--16791109	2	48.0	2	91	4	156	50	0	2	47	1.13
16791740--16791819	40	2.0	40	95	0	142	47	7	13	31	1.71
16791817--16792311	36	14.2	36	69	13	304	40	13	19	26	1.88

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