genome.fa.s1465.2.7.7.80.10.50.1000.30.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: VEPZ01001465.1 Hibiscus syriacus cultivar Beakdansim tig00002840_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  11160956

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   

This is table  30  of  55  ( 6520 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)
6002029--6002059	7	4.4	7	91	0	53	29	29	25	16	1.96
6002051--6002125	17	4.3	17	85	6	105	14	24	42	18	1.88
6002096--6002123	14	2.0	14	100	0	56	7	21	50	21	1.72
6002119--6002170	20	2.7	19	81	3	59	26	30	25	17	1.97
6003237--6003401	81	2.0	81	98	0	321	35	21	20	22	1.96
6004227--6004295	25	2.8	25	100	0	138	40	17	7	34	1.77
6007351--6007388	2	20.0	2	89	10	62	50	0	0	50	1.00
6007556--6007580	2	12.5	2	100	0	50	48	0	0	52	1.00
6008167--6008204	16	2.3	17	81	4	51	26	5	7	60	1.46
6009182--6009243	32	1.9	32	90	6	99	19	14	9	56	1.65
6011169--6011237	32	2.2	32	89	0	102	20	26	33	20	1.97
6011181--6011237	15	3.7	15	75	9	60	19	26	35	19	1.95
6015795--6015850	28	2.0	28	92	0	94	25	12	19	42	1.86
6015798--6015858	28	2.2	28	85	5	79	24	8	21	45	1.78
6017741--6017807	34	2.0	34	87	0	98	34	19	10	35	1.86
6017959--6018116	33	4.9	32	73	10	108	31	18	11	38	1.87
6017925--6018082	66	2.4	66	72	14	146	31	16	11	41	1.84
6018092--6018221	36	3.7	35	73	10	131	29	16	12	41	1.85
6018059--6018250	69	2.8	69	87	7	266	30	18	11	39	1.86
6017988--6018184	102	2.0	99	81	7	227	30	19	11	38	1.86
6018128--6018233	33	3.1	33	70	12	90	32	16	12	38	1.86
6018312--6018416	33	3.3	31	76	16	83	34	20	12	33	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6020688--6020791	29	3.6	29	88	2	120	19	33	33	13	1.90
6020815--6020879	22	3.0	22	93	0	103	7	49	18	24	1.74
6020865--6020894	15	2.0	15	100	0	60	13	40	20	26	1.89
6021383--6021440	30	1.9	31	89	3	91	39	1	10	48	1.48
6021492--6021525	15	2.2	16	94	5	61	38	0	5	55	1.24
6023638--6024148	119	4.5	120	71	19	452	44	11	2	41	1.52
6023705--6023882	60	3.0	60	98	0	340	44	12	0	42	1.42
6023956--6024003	14	3.6	14	78	16	57	50	14	0	35	1.44
6023975--6024097	48	2.6	48	89	6	180	47	9	0	42	1.36
6023971--6024490	108	4.8	108	80	12	494	46	10	0	42	1.44
6024083--6024245	48	3.4	48	94	2	276	47	10	0	41	1.42
6023975--6024316	156	2.2	157	95	1	605	47	10	0	41	1.40
6024180--6024330	60	2.5	60	92	4	241	45	12	0	41	1.42
6024284--6024516	14	17.4	14	73	17	142	42	9	2	45	1.49
6024286--6024382	26	3.7	26	88	4	133	42	9	2	46	1.47
6024256--6024543	134	2.2	132	88	5	434	44	10	1	43	1.48
6024284--6024601	26	12.4	25	72	22	127	42	10	1	45	1.48
6024538--6024575	12	3.2	12	96	3	69	42	7	0	50	1.31
6027720--6027773	28	1.9	28	96	0	99	57	12	0	29	1.36
6027716--6027780	28	2.3	28	84	10	96	55	10	0	33	1.35
6027750--6027798	21	2.3	21	85	3	71	53	16	0	30	1.43
6028462--6028521	29	2.1	29	96	0	111	13	35	33	18	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6029093--6029125	16	1.9	18	88	11	52	36	9	3	51	1.49
6032276--6032435	43	3.7	43	97	0	302	36	5	18	40	1.74
6033601--6033971	111	3.3	110	90	1	546	32	10	11	45	1.76
6034407--6034861	112	4.1	112	90	1	689	31	10	11	45	1.75
6035329--6035799	111	4.2	111	87	1	649	32	11	10	45	1.74
6035317--6035799	223	2.2	222	88	2	718	32	11	10	45	1.74
6033600--6035906	912	2.5	914	91	2	3788	35	9	11	43	1.74
6036194--6036243	23	2.2	23	92	0	82	38	18	8	36	1.80
6036279--6036336	23	2.5	23	97	0	107	37	15	10	36	1.82
6036194--6036423	110	2.1	110	92	0	379	33	14	11	40	1.82
6036380--6036430	23	2.2	23	82	0	66	31	19	11	37	1.88
6042370--6042398	15	1.9	15	100	0	58	27	31	6	34	1.83
6049490--6049529	14	3.1	13	85	7	55	50	7	10	32	1.64
6049490--6049528	13	3.1	12	82	10	51	48	7	10	33	1.66
6053055--6053088	12	2.8	12	86	0	50	26	17	17	38	1.92
6056676--6056701	13	2.0	13	100	0	52	38	15	15	30	1.88
6059176--6059213	20	1.9	20	94	0	67	26	21	28	23	1.99
6059179--6059245	33	2.0	34	88	5	100	25	20	29	23	1.99
6061633--6061698	23	3.0	22	86	4	96	28	19	22	28	1.98
6065966--6066003	20	1.9	20	84	10	51	44	7	5	42	1.56
6066054--6066097	2	22.0	2	100	0	88	50	0	0	50	1.00
6066408--6066453	19	2.4	20	85	10	69	23	23	15	36	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6069037--6069075	16	2.4	17	91	4	62	79	0	15	5	0.90
6072490--6072529	14	2.9	14	84	0	53	22	12	32	32	1.91
6072891--6072991	45	2.2	45	91	3	159	32	9	16	40	1.82
6073193--6073336	57	2.5	56	90	3	216	35	6	15	41	1.75
6073287--6073382	51	1.9	50	86	2	138	38	6	14	40	1.71
6073372--6073520	59	2.5	57	75	10	131	37	6	12	44	1.66
6074627--6074674	25	1.9	25	95	0	87	35	12	16	35	1.87
6077385--6077409	13	1.9	13	100	0	50	40	0	0	60	0.97
6084068--6084100	16	2.1	16	100	0	66	45	6	18	30	1.73
6085043--6085174	71	1.9	71	88	0	201	54	16	9	18	1.69
6090824--6090872	24	2.0	25	84	11	66	40	2	4	53	1.32
6091292--6091764	181	2.6	182	87	1	671	43	12	17	26	1.85
6094053--6094115	33	1.9	33	93	0	108	30	1	47	20	1.60
6096022--6097407	182	7.6	182	95	0	2406	42	13	16	27	1.86
6097543--6097705	87	1.9	87	96	0	299	33	14	11	41	1.80
6097617--6097677	23	2.7	23	84	0	68	32	13	8	45	1.72
6098415--6098445	13	2.4	13	94	0	53	29	0	0	70	0.87
6102260--6102308	20	2.5	20	77	12	55	53	2	2	42	1.24
6101755--6102669	457	2.0	457	95	1	1647	39	7	10	42	1.68
6109152--6109195	21	2.1	21	82	0	52	36	15	38	9	1.80
6110729--6110781	23	2.3	23	96	0	97	22	26	28	22	1.99
6114643--6114682	21	1.9	21	85	10	55	35	10	2	52	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6116622--6116718	50	1.9	50	97	0	185	29	16	22	30	1.96
6116617--6116739	50	2.6	47	85	12	171	30	17	21	29	1.97
6118680--6118783	9	11.6	9	87	0	136	31	60	2	4	1.32
6118680--6118783	6	17.3	6	88	0	136	31	60	2	4	1.32
6118680--6118783	15	6.9	15	86	0	136	31	60	2	4	1.32
6132733--6132780	23	2.1	23	100	0	96	37	4	27	31	1.76
6132917--6133049	68	2.0	68	93	0	230	44	12	15	27	1.83
6137131--6137167	2	18.5	2	100	0	74	48	0	0	51	1.00
6138589--6138649	2	30.0	2	80	9	70	45	1	4	47	1.34
6140726--6140866	60	2.4	59	80	8	151	34	24	3	38	1.73
6141193--6141222	14	2.1	15	93	6	53	60	26	0	13	1.34
6141419--6141480	24	2.6	24	82	2	81	14	8	17	59	1.58
6142322--6142424	54	1.9	54	89	0	161	42	26	14	16	1.86
6145059--6145107	19	2.7	17	84	9	53	26	18	30	24	1.98
6145059--6145238	64	2.8	62	79	9	186	27	15	27	30	1.96
6145185--6145223	19	2.1	19	95	0	69	25	15	38	20	1.92
6145249--6145288	21	1.9	21	94	0	71	22	15	30	32	1.94
6153483--6153531	19	2.7	17	84	9	53	26	18	30	24	1.98
6153483--6153659	64	2.8	62	78	8	180	27	16	27	27	1.97
6153609--6153660	19	2.8	19	85	8	72	25	17	34	23	1.96
6153673--6153712	21	1.9	21	94	0	71	22	15	30	32	1.94
6154882--6154964	18	4.8	17	89	5	130	40	12	14	32	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6154882--6154964	35	2.4	35	91	4	132	40	12	14	32	1.83
6156488--6156531	23	2.0	22	86	8	63	40	20	0	38	1.53
6157255--6157312	21	2.7	22	84	5	75	15	24	22	37	1.93
6158961--6158994	2	17.0	2	100	0	68	50	0	0	50	1.00
6161173--6161204	3	10.7	3	100	0	64	31	0	0	68	0.90
6162236--6162275	20	2.0	21	95	5	73	47	0	7	45	1.31
6163149--6163183	17	2.1	17	88	0	52	48	2	0	48	1.16
6163247--6163283	9	4.3	9	83	13	51	59	0	0	40	0.97
6163963--6164004	3	14.0	3	94	0	75	30	0	2	66	1.04
6164191--6164233	19	2.3	19	91	0	68	23	53	6	16	1.67

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