genome.fa.s7960.2.7.7.80.10.50.1000.33.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: VEPZ01007960.1 Hibiscus syriacus cultivar Beakdansim tig00110387_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7905731

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   

This is table  33  of  39  ( 4646 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)
6333631--6333659	15	1.9	15	100	0	58	27	27	24	20	1.99
6333743--6333810	29	2.4	28	81	11	77	17	22	14	45	1.85
6334185--6334341	64	2.5	63	78	10	167	27	18	19	35	1.95
6341504--6341552	19	2.6	18	81	9	62	73	0	2	24	0.94
6341502--6341556	23	2.4	22	84	6	65	72	0	1	25	0.94
6342128--6342171	19	2.2	21	84	8	56	52	13	0	34	1.41
6344330--6344365	5	7.2	5	87	12	56	80	0	2	16	0.83
6349971--6350019	19	2.6	18	81	9	62	73	0	4	22	1.00
6351296--6351346	17	3.0	17	100	0	102	23	23	11	41	1.87
6366276--6366319	22	2.0	23	86	4	63	25	25	22	27	2.00
6366850--6366897	21	2.3	21	88	0	69	27	22	22	27	1.99
6367289--6367373	2	43.5	2	92	4	147	48	0	0	51	1.00
6368147--6368196	14	3.7	14	73	5	50	52	2	0	46	1.12
6368370--6368426	7	8.9	7	73	22	54	28	0	0	71	0.86
6368369--6368426	16	3.9	15	80	15	66	29	0	0	70	0.87
6368376--6368425	13	3.6	13	80	15	55	26	0	0	74	0.83
6368383--6368431	18	2.8	17	77	20	55	24	0	2	73	0.94
6368472--6368503	16	2.0	16	93	0	55	6	0	9	84	0.78
6393852--6393890	19	2.0	19	85	5	51	15	10	2	71	1.23
6395370--6395407	17	2.2	17	100	0	76	21	0	36	42	1.53
6397710--6397779	35	2.0	35	97	0	131	35	7	8	48	1.61
6402853--6402895	22	2.0	22	86	9	61	48	9	13	27	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6409017--6409043	8	3.4	8	100	0	54	55	11	22	11	1.66
6417350--6417377	14	2.0	14	100	0	56	50	7	0	42	1.30
6420369--6420444	37	2.0	39	92	5	129	52	5	3	38	1.43
6421786--6421824	16	2.5	15	83	4	51	64	5	2	28	1.28
6423382--6423425	12	3.6	12	85	14	63	68	0	0	31	0.90
6423385--6423432	21	2.2	22	96	3	89	68	0	0	31	0.90
6423386--6423434	25	2.0	25	84	15	66	67	0	0	32	0.91
6423379--6423432	9	5.6	9	80	20	56	68	0	0	31	0.90
6424228--6424298	32	2.3	30	79	9	79	42	16	15	25	1.88
6424773--6424891	64	1.9	61	84	8	159	42	14	11	31	1.81
6425628--6425768	35	3.9	36	79	9	144	35	14	17	32	1.90
6426075--6426416	4	86.0	4	97	1	643	25	0	24	49	1.53
6426539--6426581	23	2.0	22	86	9	61	25	27	6	39	1.81
6427407--6427436	15	2.0	15	100	0	60	40	13	13	33	1.83
6427634--6427691	16	3.9	15	73	22	52	1	13	5	79	0.98
6427634--6427702	26	2.7	26	80	13	63	1	15	4	78	0.98
6428291--6428331	20	2.0	20	95	0	73	34	14	19	31	1.92
6428977--6429016	21	2.0	20	85	5	53	50	15	20	15	1.79
6430209--6430311	52	2.0	52	98	0	197	41	13	23	21	1.88
6434799--6434901	52	2.0	52	98	0	197	41	13	23	21	1.88
6436606--6436644	16	2.5	15	91	4	60	66	5	0	28	1.12
6438200--6438243	3	14.7	3	86	13	56	65	0	0	34	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6438200--6438246	14	3.2	14	82	17	60	65	0	0	34	0.93
6438202--6438246	11	4.4	11	86	13	69	66	0	0	33	0.92
6438839--6438893	16	3.4	16	92	0	92	58	21	10	9	1.60
6440406--6440460	24	2.3	24	87	0	74	56	18	9	16	1.66
6442123--6442170	18	2.7	18	100	0	96	25	12	29	33	1.92
6442672--6442823	46	3.3	46	85	1	189	40	13	21	25	1.89
6448598--6448635	14	2.5	15	83	16	51	57	0	2	39	1.12
6448661--6448713	2	26.5	2	100	0	106	49	0	0	50	1.00
6448802--6448866	23	2.8	23	72	11	69	47	1	3	47	1.27
6448810--6448866	24	2.4	23	81	16	64	49	1	3	45	1.29
6449751--6449797	22	2.2	22	85	11	62	0	31	17	51	1.46
6450265--6450339	3	25.0	3	91	5	116	64	0	0	36	0.94
6450243--6450334	39	2.3	40	85	12	127	58	0	0	41	0.98
6450479--6450533	20	2.8	20	91	5	85	20	21	29	29	1.98
6450664--6450834	74	2.3	75	88	2	263	30	21	18	30	1.96
6450814--6450876	21	2.9	23	70	15	71	17	22	23	36	1.95
6450740--6451072	116	2.9	116	93	0	549	27	20	20	31	1.98
6452108--6452215	54	2.0	54	83	3	137	25	24	14	35	1.94
6453166--6453278	41	2.8	39	72	16	99	29	24	13	32	1.93
6454654--6454788	72	1.9	72	92	0	225	33	19	22	25	1.97
6460460--6460490	15	2.1	15	93	0	53	12	9	25	51	1.70
6461145--6461217	23	3.2	23	69	9	60	50	1	1	46	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6461159--6461227	24	2.9	23	72	16	59	46	2	1	49	1.25
6462522--6462571	17	3.0	17	80	8	50	66	0	2	32	1.03
6462527--6462564	20	1.9	20	88	0	58	65	0	0	34	0.93
6464134--6464176	22	2.0	21	81	4	50	46	2	0	51	1.13
6464254--6464661	181	2.3	182	91	1	651	29	14	12	43	1.82
6464532--6464995	112	4.1	112	89	1	669	26	14	12	46	1.80
6468799--6468856	29	2.0	29	83	12	75	62	5	1	31	1.27
6474229--6474279	20	2.5	20	100	0	102	45	11	23	19	1.83
6484016--6484056	21	2.0	21	85	9	57	34	2	12	51	1.52
6485610--6485640	12	2.6	12	100	0	62	19	48	22	9	1.78
6486395--6486444	23	2.2	23	85	0	64	36	16	10	38	1.82
6487001--6487061	28	2.2	28	81	0	68	31	6	9	52	1.60
6487996--6488038	7	6.0	7	81	5	50	79	0	0	20	0.74
6488225--6488278	18	3.1	18	78	7	58	79	0	1	18	0.82
6488377--6488457	39	2.0	40	97	2	155	54	9	2	33	1.47
6494735--6494820	40	2.2	40	93	2	147	29	32	15	23	1.95
6495736--6496156	2	213.0	2	65	20	140	46	3	4	45	1.40
6495736--6496156	9	46.4	9	64	23	111	46	3	4	45	1.40
6495736--6496156	13	34.8	13	66	22	99	46	3	4	45	1.40
6496051--6496199	11	12.7	11	68	24	56	42	1	6	48	1.37
6496086--6496186	48	2.1	49	83	9	127	45	0	4	48	1.30
6496202--6496321	11	11.4	11	69	21	62	51	6	3	38	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6496202--6496312	13	8.3	13	69	18	59	52	6	2	38	1.41
6496202--6496290	21	4.1	22	72	15	78	52	6	2	38	1.40
6496268--6496310	9	4.7	9	82	11	52	53	6	2	37	1.41
6496279--6496358	31	2.6	32	77	13	80	47	5	3	43	1.43
6496765--6496813	17	2.9	17	82	11	64	81	2	8	8	0.94
6496849--6496891	5	8.2	5	90	10	68	79	0	2	18	0.85
6497982--6498039	26	2.3	25	82	11	66	56	3	1	37	1.26
6498617--6498673	30	1.9	30	85	7	80	33	8	17	40	1.81
6498658--6498743	36	2.4	36	86	3	111	41	12	19	25	1.87
6498634--6499137	205	2.5	205	88	5	752	38	12	18	30	1.88
6498963--6499049	37	2.4	36	88	1	120	40	13	20	25	1.89
6498634--6499127	102	4.8	102	89	3	728	37	12	18	30	1.89
6499135--6499272	36	3.8	36	69	7	109	42	15	15	27	1.86
6500357--6500583	95	2.6	87	81	14	284	31	19	19	28	1.97
6500415--6500595	95	1.9	95	94	0	317	29	19	19	31	1.97
6504682--6504730	17	2.9	17	76	11	55	79	2	8	10	1.01
6504765--6504813	5	9.2	5	82	12	62	77	2	2	18	0.96
6504765--6504813	11	4.5	11	80	10	57	77	2	2	18	0.96
6504765--6504811	17	2.9	16	87	6	76	78	2	2	17	0.94
6505921--6505978	26	2.3	25	82	11	66	56	3	1	37	1.26
6506026--6506124	22	4.7	21	69	14	69	46	8	4	41	1.52
6506064--6506179	13	8.6	13	72	10	63	48	6	3	41	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6506019--6506138	11	11.0	11	67	18	54	48	8	4	39	1.53
6506035--6506179	56	2.5	58	70	18	131	47	7	3	41	1.49
6506055--6506179	56	2.2	56	76	16	134	48	7	3	41	1.47
6506131--6506210	37	2.2	37	82	8	94	46	5	3	45	1.43
6506245--6506424	2	93.0	2	67	20	89	53	0	5	40	1.29
6506865--6506947	42	1.9	42	82	4	103	36	13	7	43	1.71
6507496--6507536	20	2.0	20	86	9	57	12	7	7	73	1.25
6507692--6507767	31	2.5	31	81	10	102	15	0	6	77	0.96
6507678--6507754	17	4.6	17	70	18	63	18	0	7	74	1.06
6507758--6507858	31	3.2	31	77	8	98	14	4	6	73	1.22

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