genome.fa.s9634.2.7.7.80.10.50.1000.53.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  53  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)
10485788--10486002	117	1.8	117	91	0	358	31	18	11	38	1.87
10486069--10486171	36	2.8	37	94	2	190	28	22	13	35	1.92
10487967--10488013	22	2.1	22	84	0	58	21	2	6	70	1.20
10488010--10488061	10	5.4	10	86	6	63	19	15	0	65	1.27
10488010--10488061	15	3.6	15	84	5	63	19	15	0	65	1.27
10492742--10492781	21	1.9	21	89	0	62	10	25	40	25	1.86
10492764--10492812	23	2.2	23	89	10	75	20	22	38	18	1.93
10496634--10496673	21	1.9	21	85	10	55	35	7	2	55	1.42
10500017--10500069	16	3.2	18	78	21	62	22	3	0	73	0.99
10500020--10500069	19	2.5	20	84	12	68	22	4	0	74	0.99
10508830--10508862	12	2.8	12	100	0	66	27	18	36	18	1.94
10510509--10510587	30	2.7	29	80	9	88	24	17	3	54	1.59
10513705--10513729	13	1.9	13	100	0	50	44	0	0	56	0.99
10513696--10513835	46	3.3	42	74	19	137	30	2	0	65	1.12
10517032--10517073	13	3.3	13	84	15	61	78	4	14	2	1.01
10518219--10518309	32	2.8	32	88	1	128	30	10	18	39	1.85
10518873--10519226	106	3.3	106	85	2	440	32	23	20	23	1.98
10519403--10519473	37	2.0	36	88	5	108	23	18	11	46	1.81
10519411--10519495	37	2.3	37	85	4	109	27	18	12	41	1.87
10519679--10519765	37	2.4	37	82	1	95	26	20	14	37	1.92
10519713--10519868	37	4.4	37	66	15	105	30	19	11	39	1.87
10519483--10519746	87	3.1	87	92	1	433	34	18	12	35	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10519797--10519868	37	1.9	37	91	0	117	25	19	12	43	1.86
10519655--10519895	103	2.4	102	89	1	365	32	19	12	36	1.88
10519933--10520035	36	2.8	37	94	2	190	28	22	13	35	1.92
10519946--10520132	102	1.8	102	85	6	263	27	21	12	37	1.90
10520045--10520166	36	3.4	36	82	7	149	24	21	13	40	1.90
10520152--10520242	39	2.4	36	87	5	119	39	24	8	27	1.84
10521415--10521528	11	10.4	11	67	25	55	30	2	0	65	1.12
10521435--10521506	35	2.1	35	86	5	101	31	1	0	66	1.00
10521401--10521532	44	3.0	42	83	10	151	32	2	0	64	1.11
10521436--10521522	38	2.4	38	80	14	96	32	2	0	65	1.05
10521478--10521586	57	1.9	58	83	5	141	22	3	0	72	1.06
10521465--10521588	53	2.4	55	78	15	140	23	3	0	72	1.04
10526418--10526483	32	2.1	32	100	0	132	42	24	15	18	1.88
10531974--10532036	31	2.0	31	90	0	99	23	28	14	33	1.94
10533720--10533771	27	1.9	27	88	0	77	21	25	13	40	1.89
10540345--10540415	25	2.9	24	81	8	81	26	5	0	67	1.12
10540345--10540416	23	3.0	23	84	10	74	26	5	0	68	1.12
10542605--10542647	19	2.3	19	95	0	77	20	23	37	18	1.94
10543086--10543155	29	2.4	29	95	0	122	40	8	17	34	1.80
10543086--10543167	29	2.8	29	88	0	83	41	7	15	35	1.75
10550893--10551754	429	2.0	429	98	0	1670	35	18	21	24	1.95
10551919--10551958	21	1.9	21	85	10	55	45	5	17	32	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10555250--10555316	15	4.1	15	71	16	53	55	11	14	17	1.69
10557758--10557789	3	11.0	3	93	6	57	34	0	0	65	0.93
10557836--10557869	2	17.0	2	100	0	68	50	0	0	50	1.00
10559288--10559355	30	2.3	30	87	7	95	32	5	0	61	1.20
10560599--10560645	2	23.5	2	100	0	94	51	0	0	48	1.00
10561684--10561743	23	2.8	21	74	18	68	31	25	25	18	1.97
10569192--10569230	21	1.9	20	89	5	60	35	23	15	25	1.94
10580675--10580746	22	3.3	22	71	21	69	37	20	13	27	1.91
10580674--10580766	44	2.1	44	82	2	116	37	22	16	23	1.93
10598722--10598756	12	3.0	12	87	4	54	48	8	11	31	1.69
10604701--10604734	12	2.9	12	86	4	52	50	8	11	29	1.69
10608691--10608853	36	4.6	36	94	0	274	17	25	26	29	1.98
10611937--10612081	37	3.8	36	77	17	150	43	0	11	45	1.39
10612092--10612184	2	48.0	2	93	6	165	50	0	0	49	1.00
10612194--10612267	22	3.1	22	72	22	60	51	1	6	40	1.37
10612195--10612249	28	2.0	28	85	7	76	49	1	7	41	1.41
10613767--10613815	24	2.1	24	85	11	66	24	4	4	67	1.26
10614099--10614140	15	2.6	16	82	17	52	30	4	0	64	1.14
10615370--10615693	55	5.9	55	90	1	497	29	21	20	29	1.98
10615358--10615751	110	3.6	109	86	3	540	29	20	20	29	1.98
10615358--10615736	165	2.3	165	87	1	546	29	20	20	29	1.98
10620954--10621400	55	8.2	54	83	5	510	31	21	17	29	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10620954--10621385	163	2.6	163	86	5	579	31	20	17	29	1.96
10620982--10621385	109	3.7	108	87	4	523	31	20	17	30	1.96
10628327--10628376	2	25.5	2	95	4	93	48	0	0	52	1.00
10628376--10628422	2	23.5	2	100	0	94	0	0	48	51	1.00
10631885--10631957	2	37.5	2	94	5	132	50	0	0	49	1.00
10633066--10633563	89	5.6	89	84	1	588	29	17	18	34	1.93
10634027--10634080	27	2.1	26	86	6	74	59	0	3	37	1.15
10634031--10634220	39	4.6	42	76	17	154	47	0	8	44	1.33
10635455--10635484	14	2.1	14	100	0	60	43	0	0	56	0.99
10635190--10635768	298	1.9	298	96	0	1077	29	10	10	49	1.70
10636162--10636203	15	2.6	16	82	17	52	30	4	0	64	1.14
10637229--10637371	75	1.9	75	88	0	214	52	16	3	27	1.60
10637240--10637394	75	2.1	75	79	4	161	53	15	3	27	1.59
10644872--10644911	21	1.9	21	89	0	62	47	7	10	35	1.65
10645619--10645700	42	1.9	43	85	2	112	40	14	9	35	1.79
10645619--10645683	21	3.0	21	95	2	112	41	10	9	38	1.72
10645692--10645762	21	3.4	21	90	1	99	43	9	16	29	1.80
10647359--10647389	16	1.9	16	100	0	62	25	12	3	58	1.50
10647740--10647788	18	2.7	18	96	0	89	40	16	20	22	1.91
10648780--10648832	21	2.5	21	100	0	106	33	18	15	32	1.92
10648839--10649015	95	1.9	95	82	4	223	33	16	23	25	1.96
10649769--10650051	68	4.2	68	87	0	397	31	16	23	28	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10649766--10650107	136	2.5	136	82	4	379	33	15	23	28	1.95
10650039--10650819	81	9.6	81	88	1	1100	36	12	22	28	1.91
10654561--10654783	94	2.4	94	84	4	270	35	15	20	27	1.93
10655432--10655715	68	4.2	68	89	0	406	29	14	25	30	1.94
10655432--10655753	68	4.7	68	85	3	380	31	13	25	30	1.94
10655717--10655845	64	2.0	64	90	3	206	40	10	22	27	1.86
10655781--10656385	81	7.5	80	86	3	818	35	13	21	28	1.92
10655781--10656385	243	2.5	242	89	1	908	35	13	21	28	1.92
10679592--10680116	55	9.6	54	80	4	376	30	19	20	28	1.97
10679592--10680128	110	4.9	110	79	5	521	31	19	21	28	1.97
10679600--10680145	165	3.3	165	78	5	482	31	19	20	28	1.97
10682792--10682816	3	8.3	3	100	0	50	32	0	0	68	0.90
10683514--10683596	28	2.9	28	87	1	103	16	37	28	16	1.91
10683802--10683853	19	2.7	19	85	11	70	61	0	38	0	0.96
10683974--10684017	21	2.1	21	91	0	70	29	0	15	54	1.42
10683991--10684094	50	2.2	50	83	8	128	39	0	9	50	1.42
10684691--10684780	21	4.2	21	64	19	51	47	10	3	38	1.53
10684681--10684826	65	2.3	65	82	10	167	47	7	4	41	1.51
10686426--10686467	11	3.8	11	78	12	50	28	4	0	66	1.12
10687025--10687069	21	2.1	22	84	12	58	37	2	8	51	1.46
10687060--10687153	24	3.9	24	76	14	77	47	3	9	39	1.52
10686985--10687126	59	2.4	59	80	10	148	42	2	9	45	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10687203--10687246	22	2.0	22	95	0	79	38	6	9	45	1.63
10687186--10687225	16	2.5	16	91	0	62	42	5	10	42	1.60
10689880--10689977	39	2.6	38	87	6	144	50	8	0	41	1.32
10689988--10690027	21	1.9	21	100	0	80	57	15	0	27	1.38
10690079--10690112	17	1.9	18	94	5	61	61	2	0	35	1.11
10695194--10695254	11	5.3	11	74	21	54	34	1	4	59	1.29
10695956--10696006	18	2.8	18	96	0	93	25	9	64	0	1.24
10696040--10696109	18	4.0	17	73	16	63	65	0	31	2	1.07
10696049--10696111	15	4.3	15	76	10	58	65	0	31	3	1.09
10696036--10696106	28	2.6	26	86	10	90	66	0	30	2	1.06

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