genome.fa.s7984.2.7.7.80.10.50.1000.60.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: VEPZ01007984.1 Hibiscus syriacus cultivar Beakdansim tig00110429_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12923621

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   

This is table  60  of  65  ( 7696 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)
11801070--11801129	29	2.1	29	100	0	120	31	25	13	30	1.93
11809778--11809816	2	19.5	2	100	0	78	48	0	0	51	1.00
11810177--11810228	26	2.0	26	81	7	61	59	1	0	38	1.08
11813461--11813491	16	2.0	16	93	6	55	19	0	19	61	1.35
11819055--11819093	21	1.9	19	90	10	60	46	0	0	53	1.00
11819506--11819539	17	2.0	17	88	11	52	52	0	0	47	1.00
11825079--11825109	2	15.5	2	100	0	62	48	0	0	51	1.00
11829437--11829490	19	2.7	19	81	15	65	83	5	11	0	0.80
11829426--11829472	12	3.8	12	80	8	58	78	6	14	0	0.93
11830517--11830590	32	2.3	32	85	0	94	35	12	22	29	1.91
11831210--11831333	43	2.9	44	80	6	146	29	29	19	21	1.98
11830820--11831517	335	2.1	335	92	0	1164	33	24	18	23	1.97
11831545--11831674	42	3.1	42	85	0	179	23	20	20	35	1.96
11831560--11831694	42	3.2	41	84	2	162	24	21	20	33	1.97
11831640--11831726	42	2.1	41	80	6	95	21	29	19	28	1.98
11831714--11831785	37	1.9	37	100	0	144	40	20	16	22	1.91
11831796--11832391	113	5.3	113	89	3	786	30	24	17	28	1.97
11834535--11834562	2	14.0	2	100	0	56	50	50	0	0	1.00
11834562--11834613	2	26.0	2	100	0	104	50	0	0	50	1.00
11838431--11838523	21	4.6	20	78	4	96	38	18	24	18	1.92
11838428--11838523	41	2.3	41	98	0	183	39	17	23	18	1.92
11838431--11838523	20	4.6	20	78	4	96	38	18	24	18	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11838450--11838584	41	3.3	41	81	6	123	37	20	21	20	1.94
11838512--11838605	20	4.7	20	80	2	89	34	24	18	23	1.96
11839163--11839207	19	2.4	19	92	0	72	48	26	15	8	1.74
11839203--11839292	19	4.7	19	91	5	137	13	20	21	45	1.84
11839275--11839362	33	2.6	33	90	1	131	12	23	25	38	1.90
11839330--11839387	20	2.9	20	80	10	64	13	24	18	43	1.87
11841388--11841510	42	2.9	42	80	4	106	21	36	18	22	1.95
11841450--11841510	21	3.0	20	71	7	59	22	37	19	19	1.94
11842869--11842904	14	2.6	14	95	0	63	30	0	25	44	1.54
11843083--11843180	19	5.7	19	69	22	90	12	24	19	43	1.85
11843087--11843180	33	2.8	33	98	0	179	12	24	19	43	1.85
11845475--11845499	12	2.1	12	100	0	50	0	28	0	72	0.86
11846977--11847013	14	2.6	14	86	0	56	48	21	0	29	1.50
11847360--11847410	20	2.5	20	96	0	93	33	21	23	21	1.97
11847440--11847512	14	4.5	15	74	22	60	13	20	19	46	1.83
11847436--11847502	18	3.8	19	83	16	92	13	22	17	46	1.83
11847619--11847655	14	2.6	14	86	0	56	48	21	0	29	1.50
11849523--11849578	20	2.9	19	86	5	85	35	23	25	16	1.94
11849578--11849635	14	3.9	14	77	16	62	48	27	17	6	1.72
11849562--11849640	32	2.4	33	93	2	133	46	25	18	8	1.78
11849652--11849780	20	7.3	19	71	19	75	12	20	24	43	1.86
11849652--11849741	32	2.8	33	91	6	157	11	18	23	46	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11850247--11850291	18	2.5	18	88	0	72	15	13	42	28	1.85
11851603--11851640	20	1.9	20	88	0	58	50	21	15	13	1.78
11852135--11852228	20	4.7	20	80	2	89	23	18	24	34	1.96
11852155--11852290	41	3.3	42	78	5	118	20	20	20	38	1.94
11852115--11852229	20	5.7	20	78	5	88	23	17	23	35	1.95
11852218--11852310	21	4.6	20	79	4	105	18	23	18	39	1.92
11852218--11852313	41	2.3	41	96	0	174	18	22	17	40	1.91
11858026--11858070	21	2.1	21	87	0	63	31	28	24	15	1.96
11859571--11859874	149	2.0	149	98	0	581	27	17	19	35	1.94
11859853--11859897	23	2.0	23	86	0	63	20	24	28	26	1.99
11862979--11863023	21	2.1	21	87	0	63	31	28	24	15	1.96
11864522--11864825	149	2.0	149	98	0	581	27	17	19	35	1.94
11864804--11864848	23	2.0	23	86	0	63	20	24	28	26	1.99
11870441--11870478	20	1.9	20	88	0	58	26	34	26	13	1.93
11882464--11882537	30	2.4	31	84	2	96	54	5	8	32	1.53
11884837--11884889	3	17.7	3	77	14	56	62	0	0	37	0.96
11884839--11884886	10	4.9	10	82	12	64	62	0	0	37	0.95
11884842--11884892	25	2.0	25	85	7	68	60	0	0	39	0.97
11885143--11885901	236	3.2	235	84	8	977	27	19	14	38	1.91
11885333--11886014	121	5.7	119	81	11	619	27	18	14	39	1.89
11885699--11886035	113	3.0	112	87	3	464	29	18	14	37	1.90
11887180--11887243	18	3.7	18	87	6	89	57	6	4	31	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11887603--11887636	9	3.7	9	92	4	50	5	5	0	88	0.64
11894979--11895010	15	2.1	15	94	0	55	46	9	18	25	1.79
11898316--11898373	28	2.2	26	84	6	71	60	1	5	32	1.29
11899001--11899076	27	2.6	29	81	16	93	50	1	2	46	1.24
11899001--11899077	28	2.5	33	72	23	78	49	1	2	46	1.23
11899082--11899173	13	6.8	13	70	22	50	64	3	0	32	1.10
11899131--11899177	24	2.0	23	88	12	69	68	0	0	31	0.90
11899102--11899173	19	3.8	19	76	20	64	65	2	0	31	1.07
11899122--11899173	18	2.7	19	77	22	63	67	1	0	30	1.02
11900316--11900386	3	25.0	3	75	11	69	64	1	0	33	1.02
11900332--11900368	11	3.4	11	92	0	56	62	0	0	37	0.96
11903482--11903531	3	17.0	3	95	4	93	66	0	0	34	0.92
11904575--11904602	14	2.0	14	100	0	56	50	7	0	42	1.30
11905518--11905598	35	2.3	36	87	6	114	49	0	0	50	1.00
11909103--11909175	35	2.2	33	85	5	92	43	21	0	34	1.53
11909171--11909247	35	2.2	35	83	0	100	40	0	18	41	1.50
11911357--11911419	23	2.8	23	70	27	62	50	11	19	19	1.76
11921354--11921438	38	2.2	39	91	4	136	22	21	30	25	1.98
11921683--11921717	16	2.1	17	89	5	54	42	22	0	34	1.54
11936432--11936471	3	13.0	3	89	5	53	60	2	0	37	1.11
11936648--11937262	45	13.8	45	92	1	977	34	20	22	23	1.97
11936772--11936847	26	3.2	26	63	24	67	31	19	23	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11937963--11938042	22	3.6	22	91	6	135	41	13	12	32	1.82
11938411--11938568	54	2.9	54	81	3	174	28	22	13	35	1.92
11943060--11943095	19	1.9	18	88	5	54	33	19	0	47	1.50
11944093--11944145	21	2.6	21	82	8	65	60	7	13	18	1.56
11944087--11944157	21	3.1	21	70	11	52	63	5	12	18	1.48
11947139--11947180	17	2.5	16	78	21	50	59	0	2	38	1.10
11947371--11947451	2	40.5	2	97	0	153	49	0	0	50	1.00
11947726--11947767	15	2.9	15	80	13	52	61	4	4	28	1.36
11948926--11948958	3	10.7	3	93	6	57	66	0	0	33	0.92
11948927--11948957	16	1.9	16	100	0	62	64	0	0	35	0.94
11967438--11967463	13	2.0	13	100	0	52	46	23	7	23	1.78
11976148--11976187	19	2.0	20	90	4	64	30	5	17	47	1.69
11976493--11976747	93	2.7	93	98	0	492	37	9	10	41	1.73
11976521--11976664	46	3.1	46	61	20	109	39	9	12	38	1.75
11981469--11981503	17	2.1	17	100	0	70	40	31	5	22	1.78
11984194--11984224	16	2.0	16	93	6	55	25	41	0	32	1.56
11984359--11984396	2	19.0	2	100	0	76	50	0	0	50	1.00
11991701--11991739	14	2.6	15	92	8	62	71	0	12	15	1.14
11996038--11996072	18	1.9	18	94	0	61	25	34	20	20	1.96
11996665--11996786	64	1.9	64	84	3	165	27	18	20	33	1.96
12007531--12007588	10	5.8	10	78	13	66	58	0	0	41	0.98
12007536--12007586	21	2.5	22	81	12	72	60	0	0	39	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12013667--12013710	22	2.0	23	86	4	63	45	0	0	54	0.99
12013663--12013739	31	2.4	32	79	16	88	48	1	0	50	1.09
12013830--12013874	23	2.0	23	86	0	63	53	2	2	42	1.25
12013942--12014037	21	4.5	21	71	14	79	53	0	0	46	1.00
12013969--12014060	17	5.6	16	69	15	64	57	0	0	42	0.98
12013964--12014065	30	3.2	30	70	22	100	56	0	0	43	0.99
12013942--12014067	65	1.9	65	100	0	252	53	0	0	46	1.00
12014976--12015008	3	11.0	3	93	0	57	36	0	30	33	1.58
12018337--12018384	22	2.0	22	84	11	60	2	64	4	29	1.23
12023851--12023875	2	12.5	2	100	0	50	52	0	0	48	1.00

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