genome.fa.s9634.2.7.7.80.10.50.1000.77.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: VEPZ01009634.1 Hibiscus syriacus cultivar Beakdansim tig00117034_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  17174986

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   74   75   76   77   78   

This is table  77  of  78  ( 9351 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)
16583327--16583378	21	2.6	21	90	6	81	32	13	7	46	1.72
16584105--16584155	13	3.6	14	80	12	52	76	3	15	3	1.08
16584093--16584160	19	3.9	19	71	21	60	76	4	16	2	1.07
16584101--16584173	34	2.2	32	90	9	112	75	4	15	5	1.14
16584095--16584159	14	4.6	14	70	16	53	76	3	16	3	1.03
16584112--16584173	19	3.5	19	67	28	55	75	3	14	6	1.12
16587430--16587476	19	2.3	21	89	7	71	34	12	8	44	1.73
16587430--16587480	21	2.6	19	90	6	75	31	13	7	47	1.72
16595521--16595565	23	2.0	23	90	0	72	24	22	17	35	1.95
16595857--16595929	35	2.0	37	92	5	123	30	4	34	31	1.77
16602735--16602774	21	1.9	21	84	0	53	35	22	7	35	1.82
16606946--16606986	22	1.9	21	85	5	55	43	34	2	19	1.64
16612015--16612053	15	2.6	15	100	0	78	30	33	12	23	1.92
16619969--16620018	24	2.1	23	92	3	82	16	4	12	68	1.35
16622300--16622348	24	2.0	25	92	4	82	12	14	14	59	1.62
16624630--16624668	18	2.2	18	100	0	78	38	0	0	61	0.96
16624636--16624715	27	3.0	27	89	7	119	40	0	1	58	1.06
16624636--16624704	3	23.0	3	81	11	79	37	0	1	60	1.06
16633788--16634072	93	3.1	93	92	2	457	28	14	20	35	1.93
16633975--16634292	115	2.8	115	91	0	487	31	14	20	33	1.93
16636427--16636547	54	2.3	54	86	1	163	41	15	19	23	1.90
16636910--16636964	22	2.5	22	90	0	92	34	12	14	38	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16637643--16638781	76	15.0	76	96	0	2050	21	21	21	35	1.96
16638727--16638810	31	2.8	31	94	3	145	21	19	23	35	1.96
16638651--16638846	107	1.8	107	96	0	365	21	20	21	36	1.95
16638965--16639003	18	2.2	18	95	0	69	38	2	0	58	1.12
16638971--16639027	21	2.7	21	89	5	80	38	1	1	57	1.19
16638997--16639044	14	3.5	14	81	13	64	43	0	2	54	1.12
16638971--16639033	3	21.0	3	76	12	58	38	1	1	58	1.17
16643367--16643422	11	4.8	11	77	12	58	82	0	14	3	0.81
16644770--16644821	21	2.6	21	90	6	81	34	13	5	46	1.67
16645546--16645604	19	3.0	20	79	20	70	76	1	20	1	0.96
16648913--16648964	21	2.6	21	90	6	81	34	13	5	46	1.67
16662974--16663075	36	2.9	36	94	1	170	31	35	3	29	1.76
16667528--16667552	13	1.9	13	100	0	50	24	44	0	32	1.54
16667531--16667645	36	3.2	36	93	1	196	30	37	3	28	1.74
16667544--16667628	11	7.2	11	72	22	66	31	36	3	28	1.74
16669093--16669135	14	3.1	14	86	3	52	27	39	0	32	1.57
16669769--16669807	16	2.4	16	86	0	51	15	20	0	64	1.30
16672770--16672848	35	2.2	37	90	4	126	27	3	37	30	1.75
16676675--16676754	35	2.2	35	86	4	106	28	3	35	32	1.75
16680596--16680675	35	2.2	37	88	4	119	28	3	36	31	1.75
16683154--16683193	19	2.0	20	86	13	57	22	12	2	62	1.42
16683448--16683516	19	3.7	18	81	14	68	73	4	15	5	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16688374--16688425	24	2.2	24	82	6	61	30	17	21	30	1.96
16694902--16694931	13	2.4	13	94	5	53	26	30	0	43	1.55
16712332--16712432	36	2.8	36	90	1	150	32	34	3	28	1.76
16716375--16716443	36	1.9	36	96	0	129	31	33	4	30	1.77
16716410--16716463	22	2.4	23	90	3	83	31	37	3	27	1.75
16717834--16718598	378	2.0	382	83	6	976	29	24	11	35	1.90
16718980--16719023	21	2.1	21	91	0	70	61	4	9	25	1.45
16719962--16719990	2	14.5	2	100	0	58	51	0	0	48	1.00
16729147--16729203	26	2.3	26	85	8	75	75	3	14	7	1.14
16735120--16735154	6	5.7	6	86	6	52	2	17	0	80	0.84
16735976--16736027	19	2.6	21	90	6	81	46	7	13	32	1.72
16739340--16739404	19	3.2	20	77	18	71	3	18	1	76	0.99
16739664--16739704	19	2.1	20	86	13	59	73	0	7	19	1.07
16740110--16740161	19	2.6	21	84	6	72	46	7	11	34	1.69
16745596--16745639	6	7.2	6	82	12	54	79	2	18	0	0.83
16745682--16745714	16	2.0	17	88	5	50	51	6	24	18	1.68
16745829--16745877	16	2.9	16	84	6	53	16	22	0	61	1.34
16758508--16758560	24	2.2	24	93	0	88	9	13	13	64	1.50
16775392--16775423	14	2.3	15	89	10	50	75	9	12	3	1.16
16781391--16781419	13	2.2	13	100	0	58	86	0	6	6	0.72
16781379--16781429	23	2.2	23	86	13	70	84	0	7	7	0.78
16781386--16781423	19	2.1	18	90	5	58	84	0	7	7	0.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16788259--16788363	36	2.9	36	87	6	151	30	36	3	29	1.75
16792283--16792350	35	1.9	36	90	3	111	30	38	2	27	1.72
16796747--16796799	17	3.1	17	86	0	79	41	13	5	39	1.68
16805414--16805453	19	2.0	20	86	13	57	67	0	10	22	1.20
16806769--16806799	2	15.5	2	100	0	62	48	0	0	51	1.00
16807358--16807410	17	3.1	17	86	0	79	41	13	5	39	1.68
16818489--16818545	6	9.5	6	74	14	55	80	1	15	1	0.87
16833613--16833655	24	1.9	21	81	13	50	37	13	13	34	1.85
16834877--16834933	27	2.1	27	83	6	71	12	14	12	61	1.57
16840736--16840777	20	2.1	20	95	0	75	14	33	11	40	1.82
16844274--16844327	23	2.3	24	83	3	74	68	7	14	9	1.38
16853353--16853402	19	2.5	20	87	3	66	46	6	16	32	1.71
16854736--16854790	24	2.3	25	81	6	60	29	21	16	32	1.95
16855899--16856597	232	3.0	232	97	0	1317	38	13	23	23	1.91
16856721--16856770	19	2.5	20	87	3	66	46	6	16	32	1.71
16860621--16860718	36	2.8	36	92	1	153	28	4	35	31	1.76
16864685--16864770	13	7.2	12	72	22	58	29	3	37	30	1.74
16864667--16864771	36	2.9	36	94	1	176	27	4	37	30	1.77
16869378--16869407	13	2.3	13	100	0	60	46	0	23	30	1.52
16870144--16870198	24	2.3	25	81	6	60	29	21	16	32	1.95
16872190--16872240	19	2.6	20	90	3	77	47	5	13	33	1.67
16877772--16877823	25	2.1	25	88	0	77	32	19	13	34	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16878229--16878300	17	4.2	16	77	10	63	36	6	16	40	1.76
16878256--16878299	18	2.5	18	85	10	56	43	11	9	36	1.72
16882371--16882537	90	1.9	90	93	0	289	46	6	11	35	1.66
16882895--16882970	25	3.0	25	98	0	143	26	17	21	35	1.95
16883377--16883447	17	4.1	17	82	10	74	39	8	12	39	1.74
16883404--16883447	18	2.5	18	85	10	56	43	11	9	36	1.72
16883380--16883482	52	2.0	52	82	3	127	39	9	13	36	1.78
16890431--16890474	20	2.2	20	84	8	54	40	13	25	20	1.89
16897032--16897068	15	2.4	16	90	4	58	70	5	10	13	1.32
16897374--16897429	12	4.7	12	82	6	51	0	5	12	82	0.83
16897394--16897427	1	34.0	1	87	0	50	0	0	5	94	0.32
16897383--16897427	12	3.6	12	93	6	72	0	4	6	88	0.61
16898965--16899021	19	2.9	18	75	19	53	33	12	1	52	1.49
16899078--16899144	20	3.3	20	71	24	61	32	1	5	59	1.31
16900134--16900190	25	2.3	25	84	6	71	28	29	12	29	1.93
16910178--16910232	10	5.9	9	76	20	51	54	0	3	41	1.18
16911079--16911105	13	2.1	13	100	0	54	37	29	0	33	1.58
16911367--16911397	12	2.6	12	100	0	62	64	0	16	19	1.29
16912564--16912798	49	4.8	49	90	0	355	38	16	20	24	1.93
16922567--16922613	18	2.6	18	86	0	67	38	44	2	14	1.58
16927122--16927178	27	2.2	26	81	9	62	24	17	0	57	1.39
16927419--16927460	18	2.4	18	88	11	61	76	4	16	2	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16933286--16933345	30	2.0	31	86	3	86	28	8	10	53	1.63
16934001--16934054	22	2.5	22	100	0	108	18	24	22	35	1.96
16934222--16934293	20	3.6	20	94	3	119	34	12	5	47	1.65
16934988--16935049	21	3.0	20	76	4	70	38	17	19	24	1.93
16934990--16935069	41	1.9	42	84	2	108	36	21	16	26	1.94
16937021--16937189	53	3.2	53	92	0	275	36	18	16	28	1.93
16952925--16953027	53	1.9	53	94	0	179	38	16	14	30	1.89
16966278--16966317	22	1.9	19	85	14	53	40	5	5	50	1.46
16970863--16970894	12	2.7	12	100	0	64	31	18	0	50	1.48
16978395--16978501	55	1.9	55	90	0	169	37	14	9	39	1.78

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   74   75   76   77   78