genome.fa.s8527.2.7.7.80.10.50.1000.23.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: VEPZ01008527.1 Hibiscus syriacus cultivar Beakdansim tig00111402_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  9057482

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   

This is table  23  of  37  ( 4336 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)
5471086--5471111	8	3.2	8	100	0	52	11	11	0	76	1.01
5471114--5471139	1	26.0	1	100	0	52	0	0	0	100	0.00
5482772--5482805	15	2.2	16	89	5	52	76	5	0	17	0.98
5484399--5484547	25	6.0	25	97	0	264	31	14	20	33	1.93
5484677--5484740	3	22.0	3	84	12	89	67	0	1	31	1.00
5491774--5491806	16	2.1	16	94	0	57	36	9	18	36	1.82
5491780--5491814	16	2.2	16	89	0	52	31	11	22	34	1.90
5491964--5492013	22	2.3	22	92	0	82	32	20	20	28	1.97
5504948--5504982	2	17.5	2	100	0	70	48	0	0	51	1.00
5510203--5510244	22	1.9	22	85	9	59	42	2	14	40	1.58
5516454--5516486	15	2.2	15	94	0	57	9	69	15	6	1.34
5517724--5517783	20	3.0	20	92	2	102	21	5	26	46	1.72
5520875--5520912	20	1.9	20	89	10	60	52	0	0	47	1.00
5526706--5526743	2	19.0	2	100	0	76	50	0	50	0	1.00
5527991--5528036	3	15.3	3	86	0	65	26	6	0	67	1.15
5529434--5529463	14	2.1	14	100	0	60	10	30	6	53	1.60
5531451--5531481	14	2.3	14	94	5	55	64	6	9	19	1.45
5540174--5540228	20	2.6	23	80	13	64	54	0	3	41	1.18
5542029--5542062	2	16.5	2	93	6	59	47	2	0	50	1.16
5542240--5542292	20	2.7	20	90	0	79	24	5	3	66	1.31
5542672--5542728	22	2.5	24	77	11	66	36	1	1	59	1.18
5542696--5542739	14	3.0	14	90	6	61	38	0	0	61	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5573266--5573412	73	2.0	73	97	0	276	34	17	8	40	1.79
5574655--5574712	4	14.5	4	88	0	80	20	0	29	50	1.49
5574632--5574707	22	3.3	24	66	14	61	25	0	25	50	1.50
5574651--5574712	20	3.1	20	95	0	106	19	0	30	50	1.48
5574737--5575041	143	2.1	144	85	3	418	38	11	12	38	1.79
5583773--5583805	2	17.0	2	87	6	50	54	0	0	45	0.99
5590548--5590628	32	2.5	31	78	9	83	38	27	17	17	1.92
5590950--5590996	14	3.7	14	71	26	50	44	0	4	51	1.21
5590949--5590998	23	2.1	24	96	3	93	48	0	4	48	1.20
5594083--5594413	102	3.3	102	88	2	488	51	18	9	20	1.74
5596704--5597033	102	3.3	102	88	4	481	20	9	18	51	1.74
5600143--5600189	23	2.0	24	95	4	87	46	4	0	48	1.21
5600429--5600504	32	2.4	32	88	0	107	48	10	18	22	1.78
5600429--5600504	16	4.8	16	82	6	82	48	10	18	22	1.78
5600941--5601037	39	2.5	39	98	0	185	27	25	12	34	1.92
5604279--5604311	16	2.1	16	88	5	50	72	12	6	9	1.26
5605110--5605137	3	9.3	3	100	0	56	64	0	35	0	0.94
5608927--5608955	12	2.4	12	100	0	58	10	34	34	20	1.87
5608994--5609063	29	2.4	29	85	0	86	18	41	27	12	1.87
5615256--5615456	96	2.0	100	85	5	277	41	7	21	29	1.81
5619033--5619091	30	1.9	32	86	6	86	18	5	1	74	1.09
5619102--5619149	21	2.3	20	79	13	53	27	10	4	58	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5624375--5625953	789	2.0	789	99	0	3149	37	17	20	24	1.93
5627248--5627288	18	2.3	18	100	0	82	34	36	14	14	1.87
5635256--5635290	18	1.9	18	94	0	61	40	14	2	42	1.60
5641977--5642086	53	2.0	54	94	3	195	31	14	24	29	1.95
5643515--5643567	23	2.3	23	90	0	79	18	26	26	28	1.98
5648791--5648837	23	2.0	23	87	0	67	23	25	23	27	2.00
5648801--5648845	23	2.0	23	86	0	63	20	24	24	31	1.98
5651811--5651856	18	2.6	18	96	0	83	36	13	13	36	1.83
5664987--5665046	30	2.0	30	96	0	111	35	6	35	23	1.81
5666495--5666527	17	2.0	17	88	5	50	66	0	24	9	1.20
5672688--5672778	45	2.0	45	100	0	182	10	13	13	62	1.54
5674710--5674754	3	15.0	3	95	0	54	33	0	8	57	1.30
5681716--5681823	24	4.5	24	74	4	74	19	14	15	50	1.79
5681753--5681822	12	5.8	12	72	12	54	15	14	15	54	1.72
5681716--5681826	48	2.3	48	81	6	127	19	14	15	50	1.78
5681759--5681809	17	2.8	18	72	22	52	15	15	13	54	1.71
5684136--5684306	30	5.7	30	78	7	150	17	10	9	61	1.54
5684136--5684288	30	5.1	31	80	7	154	16	9	9	64	1.49
5684143--5684307	61	2.7	60	81	2	179	18	10	9	61	1.56
5687467--5687494	12	2.3	12	100	0	56	17	7	7	67	1.37
5691444--5691503	21	2.8	24	73	21	60	58	0	1	40	1.08
5698236--5698269	18	1.9	18	88	5	52	50	0	20	29	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5703692--5703716	2	12.5	2	100	0	50	52	0	0	48	1.00
5707808--5708606	397	2.0	398	89	1	1237	38	12	12	36	1.82
5709382--5709415	17	2.0	17	88	0	50	41	17	5	35	1.74
5711936--5711977	20	2.0	21	86	13	61	78	14	0	7	0.95
5714197--5714259	2	31.5	2	100	0	126	50	0	0	49	1.00
5714560--5714589	2	15.0	2	92	0	51	50	3	0	46	1.18
5718256--5718289	15	2.3	15	89	0	50	0	26	2	70	1.01
5723259--5723288	2	15.0	2	100	0	60	50	0	0	50	1.00
5723395--5723505	57	1.9	57	98	0	213	33	10	6	49	1.63
5723824--5723881	30	1.9	30	82	6	73	37	3	5	53	1.40
5724933--5724970	18	2.0	20	85	10	53	60	7	7	23	1.51
5726613--5726646	16	2.2	16	89	5	52	67	0	5	26	1.13
5727807--5727831	3	8.3	3	100	0	50	68	32	0	0	0.90
5729259--5729309	26	2.0	26	96	0	93	9	27	19	43	1.82
5732897--5732939	21	2.0	21	90	0	68	32	27	23	16	1.96
5733824--5733865	2	21.0	2	100	0	84	50	0	0	50	1.00
5733942--5733973	13	2.3	15	89	10	50	40	0	18	40	1.51
5734560--5734777	103	2.1	103	93	0	382	26	13	23	37	1.91
5734787--5734861	23	3.3	23	87	3	100	24	20	24	32	1.98
5742861--5742900	21	1.9	21	100	0	80	37	15	20	27	1.92
5744156--5744286	60	2.2	60	78	13	144	34	20	6	38	1.79
5744429--5744586	60	2.6	59	81	4	176	38	3	22	34	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5745137--5745173	14	2.6	15	83	12	51	62	0	0	37	0.96
5745172--5745208	14	2.6	15	87	8	51	37	2	2	56	1.28
5749741--5749821	40	2.0	40	85	0	108	41	18	7	32	1.78
5750676--5750868	30	6.2	30	88	8	289	47	0	2	50	1.12
5750813--5750935	22	5.5	22	73	9	104	39	0	10	50	1.37
5750676--5750868	15	12.5	15	84	8	253	47	0	2	50	1.12
5750902--5750999	32	2.9	34	90	6	123	36	1	11	51	1.45
5750915--5750999	32	2.7	32	98	0	161	34	1	12	51	1.48
5750862--5750962	22	5.4	18	66	25	57	34	0	13	51	1.42
5751026--5751132	32	3.7	31	71	26	108	35	0	13	51	1.41
5750893--5751132	80	2.9	80	83	12	288	35	0	13	50	1.45
5751059--5751101	22	2.0	22	90	0	68	34	0	13	51	1.42
5750919--5751266	112	3.2	111	75	13	264	34	0	13	51	1.43
5750947--5751234	133	2.2	134	96	1	535	34	0	13	51	1.45
5751157--5751207	14	3.1	17	70	18	54	33	0	11	54	1.37
5751192--5751256	22	3.0	22	97	0	121	36	0	12	50	1.40
5751059--5751266	79	2.7	75	85	6	308	35	0	12	51	1.40
5751281--5751339	31	1.9	31	92	0	100	42	10	6	40	1.65
5751341--5751383	19	2.3	19	95	0	77	44	4	6	44	1.52
5755307--5755348	21	1.9	22	85	9	59	40	14	2	42	1.58
5756923--5757265	172	2.0	171	91	0	560	18	12	32	36	1.88
5758337--5758370	9	3.7	9	84	7	50	50	20	0	29	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5758326--5758374	19	2.5	19	96	3	89	44	20	0	34	1.52
5758691--5758815	31	4.0	31	87	5	173	40	21	17	20	1.91
5779893--5779940	25	2.0	25	87	4	71	31	4	0	64	1.12
5780979--5781008	5	6.0	5	100	0	60	20	0	40	40	1.52
5791884--5791918	14	2.5	14	90	0	52	37	2	8	51	1.47
5791853--5791919	35	1.9	34	82	8	82	37	4	10	47	1.58
5792050--5792088	19	2.0	20	90	5	62	41	0	0	58	0.98
5792208--5792285	23	3.1	24	77	12	77	48	0	1	50	1.09
5800326--5800400	29	2.6	29	87	10	116	22	36	26	14	1.93
5800390--5800424	17	2.1	17	100	0	70	22	34	20	22	1.97

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