genome.fa.s190.2.7.7.80.10.50.1000.32.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: VEPZ01000190.1 Hibiscus syriacus cultivar Beakdansim tig00000340_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  14308945

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  32  of  62  ( 7381 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)
7575664--7575704	21	2.0	21	90	0	64	60	7	9	21	1.52
7577114--7577144	14	2.2	14	100	0	62	29	0	0	70	0.87
7577511--7577553	12	3.7	11	85	11	59	65	0	2	32	1.06
7583332--7583536	111	1.9	110	90	1	329	33	15	17	33	1.91
7584356--7584409	20	2.8	19	72	10	56	24	18	18	38	1.93
7584567--7584618	20	2.5	21	87	12	81	30	17	23	28	1.97
7586068--7586111	20	2.2	20	87	0	61	45	18	13	22	1.84
7591702--7591741	20	2.0	21	95	5	73	37	20	20	22	1.94
7594874--7594912	19	2.0	20	90	5	62	46	10	5	38	1.60
7595148--7595187	20	2.0	21	95	5	73	37	20	20	22	1.94
7598371--7598412	21	2.0	21	100	0	84	23	19	9	47	1.78
7598506--7598546	18	2.3	18	100	0	82	41	21	14	21	1.89
7600132--7600169	19	2.0	19	94	0	67	34	28	5	31	1.80
7600197--7600252	21	2.7	21	100	0	112	17	19	25	37	1.94
7611009--7611064	2	29.5	2	89	10	91	50	0	0	50	1.00
7611411--7611470	21	2.5	24	82	15	72	61	5	0	33	1.17
7612958--7613007	3	18.0	3	80	15	54	68	2	0	30	1.01
7612958--7613015	22	2.7	22	81	5	75	68	1	0	29	0.99
7612968--7613026	29	2.0	29	84	12	77	71	3	1	23	1.11
7613445--7613902	123	3.9	117	78	11	445	27	17	15	39	1.89
7613699--7613918	112	2.0	111	89	4	336	27	20	15	36	1.92
7614193--7614243	22	2.3	22	89	0	75	35	13	13	37	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7614204--7614256	22	2.4	22	83	3	70	41	7	16	33	1.77
7614844--7614881	18	2.1	18	95	0	67	52	5	7	34	1.53
7626390--7626423	2	18.0	2	88	11	54	50	0	0	50	1.00
7626817--7626907	6	12.7	7	71	22	50	64	4	2	28	1.24
7626805--7626849	22	2.1	22	88	12	67	66	4	0	28	1.11
7626808--7626859	21	2.3	23	80	16	63	67	1	0	30	1.02
7628308--7628357	3	18.0	3	80	15	54	68	2	0	30	1.01
7628308--7628365	22	2.7	22	81	5	75	68	1	0	29	0.99
7628318--7628376	29	2.0	29	84	12	77	71	3	1	23	1.11
7632057--7632144	44	2.0	44	90	0	140	28	10	23	37	1.88
7648535--7648691	84	1.9	81	83	10	201	44	6	10	38	1.64
7655403--7655562	87	1.8	86	88	6	243	46	6	11	36	1.65
7657670--7657699	13	2.3	13	94	0	51	16	0	26	56	1.40
7659851--7659919	26	2.7	26	93	0	120	49	14	5	30	1.67
7660948--7661076	29	4.6	29	81	9	158	37	21	3	37	1.72
7661083--7661114	12	2.5	13	90	10	57	12	25	46	15	1.81
7662388--7662517	60	2.2	58	82	6	163	34	13	14	37	1.85
7662684--7662738	28	2.0	28	88	0	83	29	20	20	30	1.97
7663361--7663393	5	6.6	5	100	0	66	0	60	0	39	0.97
7666751--7666783	15	2.1	17	88	11	52	60	6	9	24	1.49
7684814--7684870	28	2.0	28	86	0	78	29	10	21	38	1.87
7687183--7687271	47	1.9	46	88	2	133	21	15	41	21	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7687496--7687535	19	2.2	18	86	4	53	12	25	5	57	1.55
7688467--7688521	24	2.3	24	87	0	74	41	20	21	16	1.90
7689251--7689289	18	2.2	18	90	0	60	33	5	23	38	1.77
7690418--7690478	21	2.9	21	95	0	104	26	29	19	24	1.99
7692376--7692623	123	2.0	125	98	1	482	25	25	10	38	1.88
7697469--7697531	21	3.0	21	88	0	90	28	28	19	23	1.98
7703204--7703247	22	2.0	21	86	4	61	45	2	0	52	1.13
7703298--7703323	2	13.0	2	100	0	52	50	0	0	50	1.00
7703345--7703415	30	2.4	29	79	11	74	52	1	8	38	1.41
7703478--7703536	24	2.5	24	97	2	111	57	3	0	38	1.15
7705426--7705745	160	2.0	160	100	0	640	36	10	16	36	1.83
7712424--7712505	40	2.0	40	92	0	137	32	25	15	25	1.96
7716287--7716337	14	3.6	14	74	10	50	31	25	19	23	1.98
7718269--7718300	16	2.0	16	93	0	55	15	18	9	56	1.66
7721266--7721299	13	2.6	13	85	0	50	41	11	2	44	1.56
7725237--7725289	19	2.8	19	88	5	63	18	26	18	35	1.95
7725742--7725767	10	2.6	10	100	0	52	26	7	0	65	1.20
7734257--7734395	41	3.4	41	73	15	133	30	15	21	32	1.94
7734126--7734477	82	4.3	82	81	2	339	32	15	18	32	1.93
7734106--7734477	165	2.3	164	82	1	431	32	15	18	33	1.92
7735467--7735863	43	9.2	43	84	4	462	32	20	24	22	1.98
7735958--7735993	19	1.9	19	88	5	56	58	13	0	27	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7738557--7738897	41	8.2	41	76	3	297	34	19	19	27	1.96
7738719--7738959	82	2.9	82	81	3	290	30	18	19	30	1.96
7738555--7738959	125	3.3	122	76	6	311	34	19	19	27	1.95
7740484--7740552	18	3.7	19	75	16	65	56	2	0	40	1.14
7740465--7740526	20	3.1	19	77	15	63	59	1	0	38	1.07
7740456--7740554	38	2.6	39	80	13	107	55	2	1	41	1.18
7740484--7740553	21	3.5	21	77	16	60	57	2	0	40	1.14
7744251--7744295	22	2.0	22	86	8	63	57	0	0	42	0.98
7744559--7744613	28	2.0	26	86	6	74	52	5	0	41	1.24
7745799--7745830	15	2.1	15	100	0	64	53	0	0	46	1.00
7745747--7745827	12	6.3	12	70	13	54	46	0	0	53	1.00
7745755--7745832	18	4.1	18	80	11	84	51	0	0	48	1.00
7745993--7746266	124	2.3	118	85	5	343	24	18	16	41	1.90
7746248--7746304	17	3.2	17	69	26	55	19	22	8	49	1.76
7746213--7746304	36	2.6	36	94	0	157	19	20	10	48	1.78
7746248--7746553	113	2.7	111	89	6	458	28	18	14	37	1.91
7747355--7747738	93	4.1	93	96	0	705	34	20	15	29	1.93
7748735--7748813	7	11.4	7	74	6	72	1	20	0	78	0.82
7752330--7752366	18	2.0	19	89	5	58	62	0	13	24	1.31
7756149--7756180	15	2.1	15	94	0	55	46	6	18	28	1.73
7760117--7760161	22	2.0	22	86	8	63	57	0	0	42	0.98
7760424--7760478	28	2.0	26	86	6	74	52	5	0	41	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7761640--7761690	3	17.0	3	91	0	57	56	0	0	43	0.99
7761608--7761690	44	1.9	44	83	9	109	49	0	0	50	1.00
7761666--7761698	15	2.3	15	89	5	50	66	0	0	33	0.92
7761863--7761910	24	2.0	24	95	0	87	60	10	4	25	1.47
7762745--7762820	31	2.5	31	91	0	125	39	18	3	38	1.69
7770072--7770111	2	21.5	2	85	14	59	47	0	0	52	1.00
7771296--7771356	7	9.1	7	81	13	67	26	0	0	73	0.83
7771294--7771354	23	2.5	23	82	15	70	24	0	0	75	0.80
7771370--7771423	12	4.2	13	78	17	51	33	5	0	61	1.19
7771502--7771583	9	9.4	9	75	10	55	14	10	2	71	1.23
7771545--7771589	19	2.4	18	82	10	54	8	13	2	75	1.13
7771545--7771607	20	3.1	20	80	13	58	11	9	4	74	1.20
7782081--7782124	12	3.8	12	79	14	56	75	6	15	2	1.12
7782090--7782135	23	2.0	24	91	4	76	73	4	19	2	1.10
7782177--7782223	7	6.6	7	81	18	53	80	4	14	0	0.85
7782762--7782845	42	2.0	42	97	0	159	40	10	23	25	1.87
7785752--7785819	29	2.3	29	82	0	100	42	23	4	29	1.73
7788423--7788456	17	2.1	16	88	5	50	14	8	0	76	1.01
7794797--7794865	23	2.8	23	77	14	68	11	17	2	68	1.32
7798675--7798708	17	2.1	16	88	5	50	14	8	0	76	1.01
7804989--7805059	29	2.5	28	86	6	81	45	19	7	28	1.76
7816633--7817051	110	3.8	110	89	1	635	36	23	16	23	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7819096--7819165	14	5.1	14	73	22	58	22	0	1	75	0.88
7819097--7819165	17	4.1	16	74	10	66	23	0	1	75	0.89
7819097--7819159	20	3.1	19	77	11	63	23	0	1	74	0.90
7819179--7819231	25	2.1	25	83	13	65	32	5	0	62	1.19
7819179--7819230	13	4.1	13	78	9	54	30	5	0	63	1.18
7825203--7825256	23	2.3	23	83	0	63	33	24	16	25	1.96
7831223--7831278	23	2.5	23	80	8	62	50	0	0	50	1.00
7831239--7831344	31	3.4	30	70	16	83	49	0	0	49	1.14
7831394--7831462	19	3.6	19	72	14	61	49	1	2	46	1.25
7831457--7831504	23	2.1	23	88	0	69	56	0	2	41	1.11

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