genome.fa.s7984.2.7.7.80.10.50.1000.57.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: VEPZ01007984.1 Hibiscus syriacus cultivar Beakdansim tig00110429_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12923621

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   

This is table  57  of  65  ( 7696 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)
11318379--11318424	18	2.6	18	86	3	58	17	21	41	19	1.90
11323583--11323729	31	5.1	29	83	8	167	38	21	5	35	1.76
11323551--11323704	29	5.3	29	81	8	161	39	20	5	34	1.75
11323551--11323729	58	3.1	57	77	12	193	39	20	5	34	1.75
11325327--11325356	14	2.1	15	93	6	53	26	6	10	56	1.57
11327482--11327519	2	19.0	2	100	0	76	50	0	0	50	1.00
11328469--11328536	3	22.7	3	96	0	127	32	1	0	66	1.01
11331426--11331530	37	2.8	37	86	0	147	40	15	14	29	1.86
11331887--11331925	14	2.8	13	88	11	51	23	2	2	71	1.10
11331885--11331927	18	2.5	17	81	7	52	25	2	2	69	1.12
11331925--11331957	2	16.5	2	93	0	57	45	0	3	51	1.16
11332340--11332376	2	18.5	2	100	0	74	48	0	0	51	1.00
11332428--11332465	9	4.3	9	90	6	60	21	2	0	76	0.91
11332428--11332493	13	5.0	13	74	17	55	18	7	1	72	1.15
11334979--11335017	8	5.0	8	84	6	53	10	17	12	58	1.61
11336126--11336206	7	10.3	7	75	19	63	79	6	14	0	0.92
11336150--11336174	10	2.5	10	100	0	50	84	8	8	0	0.79
11336126--11336201	24	3.5	22	72	18	61	77	6	15	0	0.96
11336126--11336208	33	2.6	32	76	17	82	79	6	14	0	0.91
11336126--11336211	44	2.0	45	82	10	110	79	6	13	0	0.93
11336857--11336911	22	2.5	22	100	0	110	36	27	12	23	1.91
11337327--11337362	18	2.0	18	88	0	54	19	8	30	41	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11337857--11338119	36	7.4	36	78	9	272	26	19	13	40	1.89
11337899--11338083	102	1.8	102	90	2	300	28	17	14	40	1.88
11337791--11338182	138	2.8	138	85	1	509	28	19	12	39	1.88
11338077--11338251	65	2.6	65	84	4	224	33	21	9	36	1.85
11338855--11339409	105	5.3	105	93	1	877	32	26	18	22	1.97
11339569--11339746	85	2.1	83	86	4	241	33	24	18	23	1.97
11340212--11340316	37	2.8	37	85	2	140	41	15	13	29	1.85
11340673--11340711	14	2.8	13	88	11	51	23	2	2	71	1.10
11340671--11340713	18	2.5	17	81	7	52	25	2	2	69	1.12
11340711--11340747	2	18.5	2	94	0	65	45	0	2	51	1.15
11341210--11341247	9	4.3	9	90	6	60	21	2	0	76	0.91
11341210--11341275	13	5.0	13	74	17	55	18	7	1	72	1.15
11342377--11342418	21	2.0	21	95	0	75	50	14	0	35	1.43
11347665--11347745	27	2.9	28	81	5	92	19	18	12	49	1.79
11347710--11347739	8	3.9	8	95	4	53	13	20	13	53	1.72
11347683--11347745	15	4.5	15	74	18	55	17	19	12	50	1.77
11348900--11349014	13	8.5	13	75	20	94	78	2	15	3	1.00
11348913--11349003	30	3.1	28	77	17	96	80	2	14	3	0.94
11348914--11349004	37	2.3	39	85	9	105	79	2	15	3	0.97
11348900--11349004	8	12.2	8	67	22	54	78	2	16	2	1.00
11348905--11349014	40	2.8	39	79	14	120	79	1	15	3	0.96
11348900--11349009	55	1.9	57	82	15	140	77	2	16	3	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11350037--11350199	32	5.1	32	90	3	247	29	14	25	30	1.95
11350299--11350423	34	3.7	33	87	6	171	36	18	10	34	1.85
11350309--11350502	68	2.8	67	80	7	208	28	21	12	36	1.91
11350400--11350565	36	4.6	36	95	0	296	24	24	14	37	1.92
11350332--11350570	72	3.4	72	87	2	297	28	22	12	35	1.91
11350400--11350622	57	4.0	57	72	19	227	24	23	13	37	1.92
11350465--11350658	93	2.1	93	92	0	316	24	24	12	38	1.90
11350558--11350832	36	7.9	36	78	9	255	26	20	14	37	1.92
11350429--11350694	129	2.1	129	94	0	460	24	24	13	37	1.92
11350400--11350712	165	1.9	165	93	0	545	25	23	14	37	1.92
11350761--11350819	29	2.0	30	90	6	95	28	11	16	42	1.84
11351216--11351521	136	2.3	134	87	3	468	33	18	21	25	1.96
11351500--11351556	16	3.4	16	69	21	53	43	8	26	21	1.81
11352701--11352758	2	29.0	2	100	0	116	50	0	0	50	1.00
11353022--11353062	19	2.2	19	86	8	57	53	4	2	39	1.35
11356082--11356120	20	2.0	20	85	10	53	25	38	20	15	1.92
11356179--11356311	29	4.7	29	87	6	175	34	2	16	46	1.60
11356178--11356311	57	2.4	56	88	3	198	35	2	16	46	1.60
11364026--11364081	27	2.1	27	100	0	112	32	21	17	28	1.96
11365290--11365364	20	3.8	20	76	11	66	44	18	12	25	1.84
11369238--11369268	14	2.2	14	100	0	62	22	6	25	45	1.76
11370696--11370737	20	2.1	20	86	0	57	42	9	9	38	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11371641--11371728	43	2.0	43	95	0	158	38	2	27	31	1.69
11373033--11373124	47	2.0	45	93	4	157	25	9	23	41	1.85
11373180--11373207	14	2.0	14	100	0	56	28	7	14	50	1.69
11375345--11375384	20	2.0	20	100	0	80	45	10	0	45	1.37
11377145--11377186	16	2.6	16	96	0	75	38	14	19	28	1.90
11378493--11378569	34	2.3	34	95	0	136	28	15	19	36	1.92
11380759--11380793	16	2.2	16	89	0	52	40	2	0	57	1.14
11383495--11383542	20	2.4	20	85	0	69	66	0	29	4	1.10
11383870--11383912	21	2.1	20	82	4	50	41	0	2	55	1.12
11388525--11388559	3	11.7	3	88	11	54	37	0	0	62	0.95
11388984--11389012	15	2.0	15	93	6	51	75	6	17	0	1.01
11397118--11397186	7	8.8	8	76	19	58	73	0	13	13	1.09
11397118--11397171	24	2.3	24	90	6	85	72	0	12	14	1.13
11397150--11397222	17	4.2	17	77	14	53	79	1	13	5	0.97
11397154--11397199	20	2.4	19	85	3	56	78	0	15	6	0.95
11397175--11397231	11	4.9	11	79	8	51	85	1	8	3	0.77
11397181--11397217	14	2.6	14	91	0	65	86	0	13	0	0.57
11398511--11398790	55	5.1	55	88	1	438	28	14	28	28	1.95
11398511--11398793	108	2.6	110	90	2	471	28	14	28	28	1.95
11398812--11398944	24	5.2	24	62	13	68	29	14	28	27	1.95
11398786--11399078	52	5.6	52	95	0	532	28	16	25	29	1.97
11399348--11399382	3	11.7	3	88	11	54	37	0	0	62	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11401865--11401972	55	2.0	53	85	3	144	22	22	19	36	1.95
11401948--11402240	52	5.6	52	94	0	514	29	24	16	29	1.97
11402082--11402214	24	5.2	24	60	13	59	27	27	14	30	1.95
11402236--11402515	55	5.1	55	91	1	465	27	28	15	28	1.96
11402236--11402515	108	2.6	109	92	2	472	27	28	15	28	1.96
11403799--11403882	11	7.4	11	71	11	62	4	11	1	82	0.88
11403808--11403851	14	3.4	13	87	9	63	2	11	0	86	0.66
11403824--11403915	31	2.9	30	85	9	105	8	11	0	79	0.94
11403820--11403918	39	2.6	38	82	7	119	8	12	0	79	0.92
11403838--11403915	8	9.8	8	82	15	83	10	11	0	78	0.97
11403837--11403916	9	9.8	9	79	15	77	10	11	0	78	0.96
11405039--11405070	3	10.3	3	93	6	55	3	34	0	62	1.11
11415953--11416002	20	2.6	19	78	6	55	36	8	20	36	1.82
11418552--11418643	21	4.4	20	72	20	55	34	8	5	51	1.56
11418595--11418640	21	2.2	21	92	3	76	39	6	4	50	1.48
11424265--11424302	16	2.3	16	95	4	67	26	7	28	36	1.84
11434217--11434288	12	6.4	11	74	16	67	77	0	13	8	0.98
11434206--11434288	33	2.5	33	81	9	89	77	0	13	9	1.00
11435291--11435967	55	12.3	55	91	0	1030	30	14	26	28	1.95
11435979--11436114	51	2.6	52	80	11	163	32	22	25	20	1.98
11440923--11440985	2	31.5	2	100	0	126	50	0	0	49	1.00
11442261--11442438	95	1.9	95	85	2	250	37	16	16	29	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11444382--11444451	35	2.0	35	94	0	122	44	24	0	31	1.54
11444953--11445026	35	2.1	35	89	0	112	32	0	24	43	1.55
11448338--11448385	21	2.3	21	100	0	96	41	4	25	29	1.74
11451949--11452078	39	3.3	39	89	2	181	33	23	25	16	1.96
11457737--11457777	2	20.0	2	95	5	73	48	2	0	48	1.14
11466895--11467030	34	3.9	34	83	7	159	35	22	20	21	1.96
11466895--11467030	68	2.0	69	85	5	186	35	22	20	21	1.96
11467034--11468120	218	5.0	216	94	0	1739	34	14	19	31	1.92
11468031--11468154	41	3.0	42	79	2	169	29	20	19	31	1.97
11468019--11468172	83	1.9	83	91	0	254	27	20	20	31	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   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