genome.fa.s9639.2.7.7.80.10.50.1000.47.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: VEPZ01009639.1 Hibiscus syriacus cultivar Beakdansim tig00117048_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  15077257

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   

This is table  47  of  62  ( 7398 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)
10462268--10462315	21	2.2	22	88	3	71	41	4	0	54	1.20
10462688--10462747	24	2.4	25	81	15	72	35	3	0	61	1.12
10471786--10471839	8	6.5	8	79	8	54	79	0	12	7	0.92
10472121--10472282	35	4.4	34	81	10	153	42	6	3	46	1.48
10472120--10472482	38	9.6	37	81	11	391	45	6	3	44	1.47
10472192--10472316	44	2.9	44	83	12	154	44	5	3	46	1.42
10472322--10472381	12	5.0	12	73	13	52	46	6	1	45	1.39
10472120--10472470	154	2.3	151	83	9	434	45	6	3	44	1.47
10472274--10472482	75	2.8	74	86	5	282	47	6	2	42	1.44
10472453--10472547	38	2.4	38	82	6	120	45	10	4	40	1.58
10482168--10482214	20	2.4	20	86	10	62	29	12	27	29	1.93
10482279--10482318	20	2.0	20	85	0	53	30	27	15	27	1.96
10484441--10484481	14	2.9	14	92	0	64	9	12	17	60	1.57
10485402--10485476	10	7.7	10	71	21	61	10	12	21	56	1.66
10485408--10485472	16	4.1	16	91	0	112	9	12	21	56	1.63
10486595--10486627	5	6.8	5	86	6	50	39	18	0	42	1.50
10488354--10488434	3	26.3	3	87	5	108	38	0	0	61	0.96
10488371--10488443	28	2.7	27	82	15	82	39	0	0	60	0.97
10488811--10488887	29	2.7	30	76	13	90	68	9	22	0	1.17
10489776--10489844	32	2.1	33	81	7	79	47	2	1	47	1.25
10497282--10497494	114	1.9	114	96	0	399	31	16	20	31	1.94
10500830--10501098	76	3.6	76	91	2	438	22	20	22	34	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10501033--10501134	45	2.3	45	93	1	170	21	23	22	32	1.98
10500957--10501222	120	2.2	121	89	2	390	23	21	21	33	1.97
10501077--10501660	76	7.7	77	91	2	882	22	20	22	34	1.97
10501792--10501909	3	38.7	3	86	3	164	37	0	0	61	1.02
10503349--10503627	139	2.0	138	79	6	298	39	8	8	43	1.65
10508051--10508091	11	3.7	11	86	0	55	73	2	9	14	1.19
10508047--10508088	22	1.9	22	95	0	75	71	4	9	14	1.28
10508568--10508613	22	2.0	22	83	12	56	52	13	2	32	1.52
10512249--10512275	10	2.7	10	100	0	54	33	0	7	59	1.25
10512292--10512331	8	5.0	8	82	11	55	2	0	12	85	0.71
10512652--10512692	11	3.7	11	87	6	57	70	0	12	17	1.16
10520316--10520347	14	2.1	16	88	11	50	15	15	18	50	1.79
10521211--10521333	49	2.5	49	82	0	174	39	16	19	24	1.91
10533929--10533970	20	2.1	20	100	0	84	14	4	33	47	1.65
10539103--10539140	13	2.8	14	76	8	51	42	2	0	55	1.14
10539872--10540115	124	2.0	124	95	0	443	34	9	9	45	1.70
10541011--10541050	20	2.0	20	85	0	53	47	0	0	52	1.00
10541011--10541071	31	2.0	32	81	12	76	45	0	3	50	1.17
10548756--10548954	45	4.4	45	85	2	274	28	22	13	35	1.92
10548928--10549156	45	5.1	45	88	2	334	28	18	5	47	1.71
10548768--10548990	90	2.5	90	82	5	236	29	21	12	37	1.89
10548741--10549156	135	3.1	136	79	6	391	28	19	9	42	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10549170--10550136	81	12.1	81	88	2	1436	31	21	11	35	1.89
10560728--10560813	31	2.8	29	79	11	93	30	18	15	36	1.92
10565483--10565515	16	2.1	17	88	11	52	30	6	21	42	1.77
10565643--10565729	31	2.9	30	86	3	120	27	19	18	34	1.95
10570420--10570510	31	3.0	30	75	12	96	27	16	17	38	1.91
10572312--10572352	21	1.9	22	85	14	59	46	4	0	48	1.23
10573655--10573708	22	2.6	21	80	8	65	29	14	25	29	1.95
10573581--10573804	95	2.4	94	83	6	258	33	12	24	29	1.93
10574148--10574580	55	8.0	55	84	4	531	29	19	19	31	1.96
10578272--10578357	45	1.9	45	97	0	163	36	4	15	44	1.67
10590060--10590155	38	2.6	38	80	8	115	40	32	3	23	1.70
10594256--10594289	14	2.4	14	80	0	50	44	32	0	23	1.54
10602584--10602613	13	2.2	14	94	5	53	70	0	0	30	0.88
10602738--10602782	17	2.6	17	86	6	56	77	0	0	22	0.76
10602797--10602826	10	2.9	10	95	5	51	80	0	0	20	0.72
10604174--10604226	19	2.8	20	83	13	67	56	3	0	39	1.17
10604173--10604227	22	2.5	22	85	8	67	56	3	0	40	1.17
10604284--10604348	33	2.0	32	90	3	103	43	3	9	44	1.51
10604276--10604499	38	6.0	38	78	12	225	41	6	6	45	1.56
10604276--10604479	75	2.7	75	80	12	226	43	5	5	44	1.52
10605085--10605707	84	7.6	81	84	5	659	25	20	22	31	1.98
10606667--10606906	100	2.4	99	86	5	319	32	17	17	33	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10610207--10610360	8	18.2	8	73	15	73	77	1	4	16	1.03
10610222--10610314	22	4.0	23	74	16	77	76	1	3	19	0.99
10610176--10610314	59	2.3	59	80	16	153	74	1	3	20	1.05
10610372--10610410	14	2.7	14	96	4	69	79	0	10	10	0.94
10611711--10611772	3	20.3	3	75	15	56	59	3	1	35	1.23
10611727--10611758	16	1.9	17	93	6	57	59	3	0	37	1.13
10611723--10611777	22	2.5	21	85	14	67	56	3	0	40	1.17
10611827--10612039	37	5.6	36	76	15	173	44	8	3	43	1.52
10611827--10612034	38	5.5	38	77	8	183	45	8	3	42	1.52
10614334--10614376	16	2.7	16	85	0	59	32	9	25	32	1.88
10615481--10615525	15	3.0	15	81	9	56	37	17	4	40	1.70
10634926--10635228	55	5.5	55	83	1	349	30	17	16	34	1.93
10640460--10640846	55	7.1	55	86	2	476	32	16	16	35	1.91
10640463--10640923	163	2.8	163	79	7	431	31	16	16	34	1.92
10646145--10646553	55	7.5	55	85	3	531	31	15	16	36	1.90
10646148--10646553	163	2.5	164	87	3	588	31	16	16	36	1.90
10646148--10646651	163	3.1	162	80	6	545	31	16	16	35	1.91
10656315--10656343	10	2.7	11	89	10	51	62	10	10	17	1.54
10657796--10657879	27	3.0	27	79	11	98	65	1	21	11	1.32
10658147--10658199	6	9.2	6	82	10	58	66	1	3	28	1.20
10658147--10658198	17	3.1	17	75	13	54	67	1	3	26	1.18
10658148--10658198	23	2.2	23	86	6	68	68	1	3	25	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10682510--10682557	20	2.4	20	96	0	87	20	18	0	60	1.36
10684542--10684888	44	8.0	43	81	6	344	27	19	11	42	1.85
10684546--10684888	88	3.9	87	82	5	390	27	18	11	42	1.85
10684553--10684888	132	2.6	131	82	6	414	28	18	11	41	1.85
10684740--10684807	19	3.0	25	63	24	67	27	20	10	41	1.85
10691289--10691320	16	2.0	16	93	0	55	28	43	0	28	1.55
10693936--10693979	17	2.6	17	92	0	70	27	11	25	36	1.90
10709267--10709310	23	2.0	20	83	12	52	34	6	15	43	1.74
10708704--10709456	391	1.9	390	89	1	1159	35	13	16	35	1.87
10709679--10709727	24	2.0	24	88	0	71	34	14	14	36	1.86
10710109--10710151	18	2.4	18	80	3	52	44	4	13	37	1.65
10711648--10711912	44	6.0	44	84	3	354	40	11	22	25	1.87
10711730--10711803	25	3.2	24	63	21	59	39	12	25	22	1.89
10711648--10711912	132	2.0	132	88	2	399	40	11	22	25	1.87
10717750--10717956	44	4.7	44	85	4	265	41	12	20	25	1.87
10717750--10717956	89	2.4	88	86	3	283	41	12	20	25	1.87
10717938--10717986	9	5.3	10	72	18	52	26	12	28	32	1.92
10717939--10717986	18	2.7	18	100	0	96	27	12	29	31	1.93
10741484--10741558	3	25.0	3	78	10	73	42	0	0	57	0.98
10742087--10742125	20	2.0	20	89	0	60	30	0	23	46	1.53
10743503--10743544	15	2.7	15	85	10	50	35	0	16	47	1.47
10768950--10769000	12	4.4	11	80	9	57	29	1	1	66	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10768990--10769059	26	2.7	28	81	12	80	45	0	1	52	1.09
10769013--10769103	14	6.9	14	68	22	54	43	0	1	54	1.07
10768958--10769063	12	8.7	12	69	20	60	38	0	1	58	1.15
10768961--10769160	64	3.1	64	84	6	235	43	1	1	54	1.16
10769627--10769686	31	1.9	31	89	0	93	43	10	5	41	1.60
10772827--10772866	21	2.0	21	85	9	57	40	10	17	32	1.83
10773404--10773540	46	3.0	45	88	3	202	40	15	22	21	1.90
10774986--10775036	5	9.8	5	81	14	50	82	0	11	5	0.83
10774980--10775037	19	3.1	19	76	16	59	82	0	12	5	0.82
10774980--10775053	25	2.9	25	88	6	87	79	1	10	8	0.99

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