genome.fa.s1547.2.7.7.80.10.50.1000.36.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: VEPZ01001547.1 Hibiscus syriacus cultivar Beakdansim tig00003041_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10425128

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   

This is table  36  of  51  ( 6083 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)
7010702--7010767	18	3.6	18	69	15	55	50	10	1	37	1.47
7010713--7010762	17	2.8	18	76	11	50	46	12	0	42	1.41
7011160--7011256	50	2.1	49	84	11	132	49	8	0	42	1.32
7011223--7011340	28	4.1	28	93	2	200	55	12	0	31	1.37
7011591--7011640	23	2.2	23	82	3	57	38	10	20	32	1.85
7011767--7011819	23	2.5	20	78	18	63	24	22	26	26	2.00
7011778--7011821	23	1.9	23	100	0	88	27	27	22	22	1.99
7014632--7014658	8	3.4	8	100	0	54	62	22	14	0	1.31
7016077--7016155	29	2.7	28	92	3	122	40	0	5	54	1.22
7016406--7016449	15	2.9	15	93	3	70	36	4	31	27	1.77
7017902--7017942	21	2.0	21	90	0	64	31	4	2	60	1.30
7018051--7018176	51	2.5	51	86	2	173	18	34	30	16	1.93
7018200--7018310	51	2.2	51	88	6	165	24	25	21	28	1.99
7018188--7018310	49	2.5	49	84	5	167	24	24	22	28	2.00
7022414--7022449	18	2.0	18	100	0	72	22	22	27	27	1.99
7023961--7024181	110	2.0	111	92	0	372	46	9	8	35	1.67
7025011--7025090	15	5.4	15	87	3	117	38	7	18	35	1.79
7025004--7025090	45	2.0	44	90	2	138	41	6	18	33	1.77
7025011--7025090	30	2.7	30	94	1	135	38	7	18	35	1.79
7025073--7025142	20	3.5	20	92	0	122	40	8	14	37	1.76
7025309--7025373	28	2.3	27	82	15	78	50	1	1	46	1.20
7025309--7025406	31	3.2	32	76	15	84	51	2	1	45	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7025395--7025452	17	3.2	17	77	22	64	43	0	1	55	1.10
7025385--7025466	40	2.0	38	84	11	101	45	1	1	52	1.16
7025646--7025765	42	2.9	42	88	5	188	48	18	16	16	1.82
7036637--7036938	111	2.7	111	80	1	354	23	16	19	40	1.91
7037576--7037741	66	2.5	66	95	0	296	21	14	21	43	1.87
7037530--7037794	66	4.0	66	83	5	263	21	16	20	40	1.91
7045416--7045462	23	2.1	23	84	7	62	51	0	0	48	1.00
7045467--7045568	40	2.5	40	76	13	100	46	0	1	50	1.19
7048509--7048540	16	1.9	17	93	6	57	53	0	0	46	1.00
7049643--7049981	177	1.9	177	82	1	419	31	20	16	31	1.95
7054714--7054765	18	2.8	18	76	21	54	17	13	1	67	1.32
7054750--7054785	18	2.0	18	88	0	54	22	19	0	58	1.40
7061370--7061422	26	2.0	26	85	0	70	30	18	20	30	1.97
7062261--7062313	19	2.8	20	77	11	58	18	11	1	67	1.30
7063389--7063421	2	16.5	2	100	0	66	51	0	0	48	1.00
7064192--7064284	38	2.5	38	89	5	145	10	10	38	39	1.75
7064621--7064667	18	2.7	18	90	3	69	29	31	6	31	1.83
7068897--7068995	49	2.0	49	98	0	189	23	27	23	26	2.00
7071579--7071630	18	2.8	18	76	21	54	17	13	1	67	1.32
7071615--7071650	18	2.0	18	88	0	54	22	19	0	58	1.40
7078240--7078292	26	2.0	26	85	0	70	30	18	20	30	1.97
7079166--7079202	18	2.1	18	89	0	56	24	24	0	51	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7081055--7081147	38	2.5	38	92	5	154	10	11	38	38	1.77
7081481--7081527	18	2.7	17	86	3	67	27	29	8	34	1.87
7083420--7083758	177	1.9	177	82	1	419	31	20	16	31	1.95
7092021--7092067	22	2.1	22	88	0	67	48	17	8	25	1.74
7095409--7095678	37	7.6	36	76	12	179	43	3	7	45	1.48
7095554--7095678	34	3.7	33	74	17	121	45	4	4	46	1.40
7095522--7095678	71	2.2	68	80	14	169	44	3	4	47	1.41
7096036--7096375	168	2.0	170	98	1	657	42	27	15	14	1.86
7097184--7097224	18	2.2	18	86	4	55	17	0	4	78	0.93
7097196--7097257	17	3.6	18	73	20	51	12	3	3	80	0.95
7097196--7097233	18	2.1	18	85	9	51	7	5	5	81	0.98
7097203--7097259	8	6.9	8	80	7	60	14	3	1	80	0.92
7097230--7097264	16	2.1	16	89	5	52	20	0	2	77	0.90
7100945--7101189	98	2.5	97	93	2	402	31	18	18	31	1.95
7102069--7103842	84	21.1	84	84	2	2077	34	22	17	25	1.96
7102069--7103842	251	7.0	252	84	3	2077	34	22	17	25	1.96
7104640--7104874	37	6.6	37	78	11	210	45	4	6	43	1.51
7104700--7104849	71	2.0	75	86	8	211	42	4	6	46	1.51
7104713--7104903	71	2.7	70	77	16	205	46	3	5	45	1.41
7104876--7104934	31	1.9	30	86	10	84	42	0	3	54	1.17
7106120--7106244	5	24.0	5	69	23	55	20	4	3	72	1.14
7106131--7106188	22	2.6	23	83	8	84	13	3	5	77	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7106204--7106247	18	2.4	20	82	17	60	29	0	0	70	0.88
7106120--7106225	46	2.3	44	79	7	115	17	4	3	73	1.16
7106208--7106249	14	3.1	13	81	18	50	26	0	0	73	0.83
7106384--7106428	2	22.5	2	100	0	90	48	0	0	51	1.00
7107478--7107540	3	21.0	3	78	12	67	33	0	1	65	1.03
7107475--7107539	21	3.1	20	82	8	76	30	0	1	67	1.00
7109107--7109149	20	2.2	20	86	0	59	32	0	2	65	1.06
7109002--7109240	121	2.0	116	81	5	273	35	7	8	48	1.62
7111304--7111345	7	6.0	7	81	8	50	14	16	14	54	1.71
7111304--7111345	15	3.0	14	83	10	50	14	16	14	54	1.71
7111404--7111431	12	2.3	12	100	0	56	25	14	7	53	1.66
7113404--7113447	14	3.1	14	93	6	72	84	0	13	2	0.73
7113407--7113453	13	3.5	13	86	11	60	87	0	10	2	0.63
7115745--7115968	114	2.0	114	92	0	376	33	16	20	30	1.94
7118537--7118616	22	3.6	22	89	0	115	32	15	13	38	1.86
7119353--7120115	113	6.8	113	91	1	1163	37	15	20	27	1.92
7120455--7120514	3	20.0	3	78	13	61	36	0	1	61	1.06
7120448--7120510	30	2.1	30	82	5	74	33	0	1	65	1.03
7122075--7122116	20	2.2	19	86	4	57	33	0	2	64	1.07
7121971--7122207	120	2.0	117	83	4	298	38	6	8	46	1.61
7124245--7124954	353	2.0	353	100	0	1420	35	19	16	28	1.94
7126609--7127094	241	2.0	241	99	0	963	33	18	24	23	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7136857--7136887	16	1.9	16	100	0	62	19	38	9	32	1.84
7141044--7141083	21	1.9	21	89	0	62	32	2	2	62	1.22
7141053--7141096	21	2.1	21	82	0	52	38	4	2	54	1.33
7149085--7149230	78	1.9	78	95	0	265	23	13	21	41	1.88
7153597--7153642	22	2.1	22	95	0	83	10	30	23	34	1.89
7154400--7154609	105	2.0	105	98	0	402	22	25	22	30	1.99
7164693--7164757	32	2.0	32	90	0	103	29	26	15	29	1.96
7167021--7167060	16	2.6	16	88	4	55	42	12	15	30	1.83
7167021--7167072	16	3.3	16	81	7	54	40	11	19	28	1.86
7167110--7167203	27	3.5	27	86	0	125	29	17	15	37	1.91
7167316--7167355	16	2.5	16	87	0	53	37	12	20	30	1.89
7167393--7167486	27	3.5	27	89	0	134	29	17	14	38	1.89
7167025--7167590	283	2.0	282	99	0	1114	32	15	16	34	1.91
7174733--7174785	24	2.2	24	89	0	79	20	18	18	41	1.91
7174733--7174791	24	2.5	24	85	0	64	20	16	20	42	1.89
7177129--7177394	140	1.9	140	96	0	487	28	13	15	43	1.84
7177369--7177533	20	8.9	20	72	15	129	33	21	18	26	1.96
7177369--7177513	54	2.7	54	87	0	218	35	21	17	25	1.95
7177415--7177582	74	2.3	74	77	5	171	35	21	18	24	1.95
7177582--7177629	20	2.4	20	82	6	62	12	16	29	41	1.85
7177704--7177808	36	3.2	36	67	23	111	52	16	3	27	1.61
7177681--7177916	63	3.5	63	86	10	276	50	16	3	30	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7178651--7178714	23	2.8	22	80	4	74	26	25	26	21	2.00
7178730--7179050	103	3.1	103	96	0	588	37	24	13	25	1.92
7179532--7179568	19	1.9	19	88	0	56	10	29	35	24	1.89
7179596--7179638	21	2.0	21	90	0	68	16	23	27	32	1.96
7181471--7181540	21	3.3	20	70	7	59	20	20	35	24	1.96
7181471--7181564	42	2.2	42	83	3	109	22	19	35	23	1.96
7182053--7182095	20	2.2	20	91	0	68	39	23	20	16	1.92
7182118--7182174	18	3.0	19	79	7	71	49	24	15	10	1.76
7182118--7182179	19	3.3	19	82	8	74	45	25	16	12	1.83
7184185--7184287	20	5.2	20	79	2	118	38	25	17	18	1.92

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