genome.fa.s8242.2.7.7.80.10.50.1000.60.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: 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  60  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)
13827027--13827096	21	3.7	20	67	21	51	38	11	22	27	1.89
13826782--13827121	172	2.0	175	89	2	535	38	13	20	27	1.90
13827027--13827151	36	3.5	34	81	9	117	37	13	20	28	1.91
13828841--13828935	11	8.8	11	73	12	65	1	16	4	77	0.98
13828845--13828921	21	3.7	21	71	23	65	1	14	5	79	0.97
13828841--13828901	23	2.7	23	82	2	70	1	13	3	81	0.88
13828840--13828914	29	2.6	29	81	12	82	1	13	5	80	0.95
13828855--13828936	41	2.0	41	83	4	103	1	17	6	75	1.06
13828904--13828941	15	2.6	15	83	4	51	0	21	5	73	1.02
13830687--13830722	16	2.2	17	95	5	65	75	5	16	2	1.12
13831797--13831854	3	19.7	3	92	3	100	67	0	1	31	1.01
13832556--13832596	3	14.3	3	80	19	52	70	0	0	29	0.87
13835410--13835471	30	2.1	30	93	0	106	8	19	38	33	1.81
13836005--13836036	17	1.9	17	93	6	57	75	3	0	21	0.95
13835996--13836042	25	1.9	24	82	4	58	72	4	0	23	1.02
13836060--13836156	50	2.0	50	84	8	128	70	5	10	14	1.32
13836147--13836171	2	12.5	2	100	0	50	52	0	0	48	1.00
13839165--13839195	12	2.5	13	89	10	55	0	22	0	77	0.77
13839235--13839266	7	4.6	7	100	0	64	0	12	0	87	0.54
13849805--13849843	17	2.4	16	95	4	69	74	7	0	17	1.05
13849945--13849970	2	13.0	2	100	0	52	50	0	0	50	1.00
13850056--13850101	2	23.0	2	100	0	92	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13857983--13858018	19	1.9	18	88	5	54	38	16	5	38	1.72
13858325--13858357	2	16.5	2	100	0	66	48	0	0	51	1.00
13860686--13860756	37	1.9	37	100	0	142	49	14	9	26	1.74
13861680--13861726	3	16.0	3	91	4	78	34	0	0	65	0.93
13861679--13861733	9	5.8	10	89	8	64	34	0	0	65	0.93
13862545--13862591	22	2.1	23	84	11	62	14	2	31	51	1.55
13862722--13862748	2	13.5	2	100	0	54	51	0	48	0	1.00
13870743--13870803	23	2.7	23	92	0	95	29	26	24	19	1.99
13871025--13871084	31	2.0	30	83	9	77	36	25	1	36	1.66
13871127--13871188	25	2.5	24	82	10	70	43	9	11	35	1.73
13871425--13871477	20	2.7	20	100	0	106	30	35	16	16	1.92
13873351--13873408	23	2.5	23	83	5	73	36	22	24	17	1.95
13873608--13873662	24	2.3	24	100	0	110	50	7	3	38	1.48
13881324--13881437	20	5.6	20	71	8	95	26	21	22	29	1.99
13881303--13881437	21	6.6	21	70	4	78	25	20	22	31	1.98
13881302--13881437	41	3.3	41	88	0	200	25	20	22	30	1.98
13888176--13888247	20	3.5	20	79	3	72	26	19	20	33	1.97
13888269--13888324	21	2.7	21	82	0	67	23	23	21	32	1.98
13893295--13893330	17	2.0	18	89	10	56	52	0	0	47	1.00
13893601--13893646	23	2.0	23	86	4	65	36	6	0	56	1.25
13893596--13893650	24	2.3	25	81	9	69	41	5	0	52	1.24
13900779--13900876	23	4.5	22	76	13	87	25	21	25	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13903636--13903691	30	1.9	30	82	7	71	53	25	7	14	1.66
13920510--13920552	16	2.7	16	82	7	52	27	2	6	62	1.33
13924201--13924265	34	1.9	34	87	6	96	21	15	44	18	1.86
13925994--13926026	16	1.9	17	88	11	50	60	3	0	36	1.12
13925981--13926054	24	3.3	23	73	25	61	67	1	0	31	0.99
13925988--13926046	17	3.8	16	72	18	52	64	1	0	33	1.04
13927008--13927058	25	2.0	25	96	0	93	15	21	15	47	1.83
13933756--13933791	19	1.9	18	88	5	54	66	11	0	22	1.22
13935555--13935592	3	12.7	3	88	0	58	39	0	60	0	0.97
13935555--13935598	9	4.9	9	91	0	61	43	0	56	0	0.99
13938640--13938666	14	1.9	14	100	0	54	7	25	7	59	1.51
13953934--13953986	2	26.5	2	100	0	106	49	0	0	50	1.00
13973419--13973476	30	2.0	27	83	9	71	41	1	0	56	1.09
13973507--13973551	22	2.0	22	83	8	56	46	4	0	48	1.22
13973555--13973611	25	2.3	25	80	20	66	43	0	3	52	1.18
13973626--13973679	18	3.0	18	72	20	58	40	3	0	55	1.17
13975670--13975704	13	2.7	13	86	0	52	28	0	31	40	1.57
13978646--13979301	324	2.0	322	94	0	1132	28	17	24	29	1.97
13984794--13984826	17	1.9	17	88	11	50	36	27	9	27	1.87
13991122--13991465	163	2.1	165	97	1	647	29	14	11	44	1.81
13992300--13992373	31	2.3	32	86	2	105	55	10	9	24	1.64
13992656--13992682	14	1.9	14	100	0	54	29	14	7	48	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14001158--14001235	39	2.0	39	90	2	122	53	5	0	41	1.23
14001174--14001234	18	3.2	18	69	13	59	55	3	0	40	1.16
14001173--14001235	21	3.1	21	68	13	69	53	3	0	42	1.16
14001382--14001445	30	2.1	30	94	0	110	45	3	9	42	1.52
14010978--14011926	325	2.9	323	90	2	1446	32	17	15	34	1.91
14027494--14027522	2	14.5	2	100	0	58	48	0	0	51	1.00
14028471--14028517	25	2.0	24	87	8	69	70	2	4	23	1.16
14034164--14034287	42	3.0	42	87	0	176	15	28	35	20	1.93
14034164--14034289	21	6.0	21	80	0	144	15	27	36	20	1.93
14040911--14040998	24	3.7	24	83	6	79	36	19	19	25	1.95
14042129--14042163	18	1.9	18	88	0	52	28	17	0	54	1.43
14046980--14047031	27	2.0	26	88	3	77	28	23	19	28	1.98
14051994--14052038	3	15.3	3	95	4	83	31	0	0	68	0.89
14055713--14055764	19	2.7	19	87	0	77	32	21	15	30	1.94
14055732--14055869	65	2.1	65	81	7	156	29	21	18	30	1.97
14056920--14057358	219	2.0	220	99	0	871	37	16	18	26	1.92
14057793--14057830	19	2.0	19	100	0	76	31	15	21	31	1.94
14057798--14057839	19	2.4	17	84	11	50	38	19	14	28	1.90
14059580--14059685	45	2.3	45	85	4	133	29	19	20	30	1.97
14059626--14059771	65	2.3	63	81	11	163	25	18	23	32	1.97
14060200--14060250	2	25.5	2	95	0	93	49	1	0	49	1.12
14062336--14062440	43	2.4	44	82	9	142	30	23	23	21	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14066272--14066314	21	2.0	21	82	13	52	34	13	2	48	1.56
14068257--14068440	65	2.8	63	80	12	187	28	17	21	32	1.96
14071558--14071638	23	3.6	22	78	8	92	24	25	24	24	2.00
14072116--14072152	2	19.0	2	94	5	67	48	0	0	51	1.00
14073595--14073649	28	1.9	28	82	10	67	18	3	23	54	1.59
14073946--14074021	37	2.1	37	95	2	136	36	0	35	27	1.57
14074027--14074061	17	2.1	17	94	0	61	54	0	2	42	1.15
14077780--14077819	17	2.4	17	86	0	53	32	15	12	40	1.84
14077826--14077884	17	3.5	17	68	13	50	30	13	8	47	1.73
14077875--14077920	18	2.6	18	92	0	74	32	6	13	47	1.68
14091340--14091371	15	2.1	16	94	5	57	6	25	18	50	1.70
14092122--14092155	16	2.1	16	94	0	59	32	26	8	32	1.87
14093149--14093443	36	8.2	36	88	0	419	33	22	24	19	1.97
14095729--14095810	29	2.8	29	94	1	137	32	14	9	42	1.79
14100492--14100573	29	2.8	29	94	1	137	32	14	9	42	1.79
14101558--14101635	36	2.2	36	97	0	147	19	23	28	29	1.98
14102698--14102759	32	1.9	33	90	3	99	33	16	12	37	1.87
14107542--14107570	12	2.4	12	100	0	58	51	0	0	48	1.00
14108049--14108424	105	3.6	105	98	0	716	23	17	25	34	1.96
14119884--14119923	20	1.9	20	90	10	62	55	10	2	32	1.47
14120631--14120663	16	2.1	16	100	0	66	57	24	12	6	1.57
14120733--14120793	16	3.8	16	95	0	113	55	22	13	8	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14121782--14121856	24	3.1	24	92	0	114	54	21	12	12	1.69
14121802--14121857	14	4.3	14	82	17	75	51	25	14	8	1.70
14121795--14121842	10	4.4	10	78	19	51	54	22	12	10	1.68
14122564--14122592	12	2.4	12	100	0	58	51	0	0	48	1.00
14126115--14126147	16	2.1	16	94	0	57	57	21	12	9	1.62
14126220--14126281	16	3.9	16	93	0	106	59	22	9	8	1.55
14127267--14127317	24	2.1	24	85	7	68	56	19	11	11	1.65
14127287--14127332	14	3.3	14	96	0	83	50	26	15	8	1.73
14127774--14127828	24	2.3	24	96	0	101	20	21	29	29	1.98
14128063--14128089	14	1.9	14	100	0	54	59	0	0	40	0.98

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