genome.fa.s8356.2.7.7.80.10.50.1000.27.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: VEPZ01008356.1 Hibiscus syriacus cultivar Beakdansim tig00111095_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12862612

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   

This is table  27  of  56  ( 6656 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)
5608473--5608498	2	13.0	2	100	0	52	50	0	0	50	1.00
5608906--5609032	63	2.0	64	95	1	229	37	16	21	25	1.94
5610290--5610959	105	6.4	105	99	0	1295	23	19	24	31	1.98
5611697--5611840	77	1.9	78	80	1	173	11	25	11	52	1.70
5621223--5621266	20	2.2	20	88	8	63	72	2	6	18	1.17
5622425--5622459	10	3.5	10	84	0	52	48	5	2	42	1.41
5622481--5622730	120	2.0	124	95	3	454	57	3	8	30	1.46
5622530--5622738	60	3.5	60	71	22	204	56	2	8	32	1.43
5622481--5622777	122	2.4	120	85	7	343	58	4	8	29	1.45
5622811--5622849	15	2.4	16	83	12	53	76	5	5	12	1.11
5623075--5623201	63	2.0	64	95	1	229	38	16	19	25	1.92
5624856--5624896	16	2.6	16	88	3	57	36	12	21	29	1.90
5625141--5625169	15	1.9	15	100	0	58	58	20	0	20	1.39
5628033--5628087	16	3.4	16	94	0	92	45	18	12	23	1.83
5627968--5628199	128	1.8	128	96	0	428	45	15	11	27	1.81
5628161--5628199	16	2.4	16	91	0	60	46	17	12	23	1.83
5628049--5628255	112	1.8	112	97	0	396	45	16	10	27	1.80
5628593--5628637	19	2.3	20	85	11	58	26	40	20	13	1.89
5632394--5632481	45	2.0	45	93	0	149	28	18	26	27	1.98
5633025--5633049	13	1.9	13	100	0	50	44	16	0	40	1.47
5640893--5640945	19	2.6	21	72	16	58	32	33	18	15	1.92
5649641--5649728	45	2.0	45	95	0	158	27	18	27	27	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5654286--5654330	2	23.0	2	90	4	74	48	0	2	48	1.13
5654777--5655321	105	5.2	105	95	0	964	24	18	24	32	1.97
5655266--5655364	43	2.3	43	94	0	171	20	18	25	36	1.95
5655060--5655574	253	2.0	253	96	0	958	23	18	24	33	1.97
5655161--5655469	148	2.1	148	96	0	573	22	18	25	33	1.97
5655309--5657847	105	24.2	105	97	0	4783	23	18	25	32	1.97
5654951--5655679	358	2.0	358	96	0	1350	23	18	24	32	1.97
5654846--5655784	463	2.0	463	97	0	1779	23	18	25	32	1.97
5662744--5662768	13	1.9	13	100	0	50	48	0	4	48	1.20
5664079--5664157	23	3.5	23	72	18	67	26	25	22	25	2.00
5669931--5669979	19	2.7	17	81	9	53	28	18	30	22	1.97
5671324--5671368	23	2.0	23	90	0	72	42	0	26	31	1.56
5672834--5673223	54	7.2	54	87	1	559	32	12	18	36	1.88
5672834--5673223	161	2.4	162	86	0	566	32	12	18	36	1.88
5679707--5680129	54	7.8	54	92	1	688	30	13	20	35	1.91
5681577--5681641	31	2.1	31	97	0	121	32	13	18	35	1.90
5682274--5682314	17	2.4	17	87	0	55	46	2	2	48	1.28
5683451--5683496	14	3.2	14	85	11	58	58	2	0	39	1.10
5684099--5684152	2	27.0	2	100	0	108	50	0	0	50	1.00
5684958--5685027	20	3.5	20	78	9	72	41	14	15	28	1.86
5687446--5687487	12	3.5	12	83	0	57	57	0	30	11	1.35
5691895--5695174	199	16.5	198	83	3	3865	39	13	12	35	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5692854--5692891	20	1.9	20	88	0	58	31	7	13	47	1.71
5693255--5693309	20	2.8	20	88	0	83	32	9	5	52	1.56
5694812--5695512	359	2.0	359	87	2	1023	39	13	12	34	1.82
5695171--5695686	199	2.6	199	87	3	743	39	12	12	35	1.81
5696147--5696240	18	5.2	18	88	0	125	24	30	9	35	1.87
5696545--5696580	2	18.0	2	88	0	54	50	0	2	47	1.15
5698798--5699047	124	2.0	124	99	0	491	41	9	11	38	1.73
5699067--5699230	76	2.2	76	87	4	244	40	12	14	32	1.84
5699557--5699590	16	2.1	16	94	0	59	38	11	11	38	1.79
5699315--5699643	128	2.6	127	82	4	380	42	12	13	32	1.80
5699641--5700386	226	3.4	225	85	4	934	31	15	13	39	1.85
5700375--5700431	20	2.8	20	86	0	78	42	15	14	28	1.86
5707051--5707129	29	2.8	29	96	1	142	53	12	15	18	1.73
5709846--5709878	16	2.1	16	94	0	57	60	18	12	9	1.57
5709950--5709992	16	2.7	16	92	0	68	53	18	16	11	1.72
5710464--5710495	14	2.3	14	100	0	64	50	28	15	6	1.68
5710883--5710930	21	2.4	19	86	6	60	12	6	8	72	1.26
5710883--5710931	19	2.5	20	86	6	64	12	6	8	73	1.24
5710937--5711004	23	2.9	24	78	4	77	13	20	14	51	1.76
5718251--5718329	38	2.1	38	97	0	149	27	16	12	43	1.84
5727287--5727344	20	2.9	20	97	0	107	25	18	15	39	1.91
5728281--5728334	19	2.8	19	85	0	81	31	16	9	42	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5728388--5728478	34	2.7	34	84	0	101	42	23	14	19	1.88
5730529--5730585	25	2.3	25	96	0	105	40	28	3	28	1.73
5732909--5733402	171	2.9	169	76	8	374	35	14	17	31	1.91
5733118--5733520	170	2.4	168	79	7	454	34	14	18	32	1.91
5734195--5734383	102	1.9	102	81	0	234	39	21	12	26	1.88
5736629--5736663	18	1.9	18	94	0	61	17	51	17	14	1.77
5736677--5736868	29	6.6	29	89	0	267	35	5	17	41	1.72
5736677--5736868	87	2.2	87	90	1	296	35	5	17	41	1.72
5737820--5738111	117	2.5	117	88	2	408	18	16	32	32	1.93
5744177--5744332	29	5.4	29	90	0	231	32	5	20	42	1.74
5745255--5745465	117	1.8	117	83	4	282	20	13	33	32	1.91
5746557--5746613	30	1.9	30	96	0	105	24	1	10	63	1.36
5746533--5746602	15	4.7	14	77	11	68	22	4	11	61	1.47
5753833--5754271	54	8.1	54	86	1	504	31	15	20	32	1.94
5753833--5754294	162	2.9	162	84	1	568	31	16	20	32	1.94
5757546--5757606	2	30.5	2	100	0	122	49	0	0	50	1.00
5759794--5760449	54	12.2	54	88	0	684	30	16	19	33	1.94
5759895--5760092	27	7.3	28	64	19	98	28	15	22	33	1.94
5760077--5760159	26	3.1	26	65	19	71	28	20	22	27	1.99
5764825--5765197	37	9.8	37	78	12	348	43	3	6	46	1.47
5764992--5765016	11	2.3	11	100	0	50	40	8	8	44	1.63
5766430--5766479	18	2.9	17	74	17	50	20	2	6	72	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5766522--5766736	10	19.8	10	65	17	56	20	5	2	72	1.15
5766552--5766664	16	7.2	16	72	21	62	23	4	0	70	1.11
5766501--5766639	66	2.2	63	78	11	147	23	5	0	69	1.14
5766554--5766636	23	3.9	22	72	22	61	24	4	0	71	1.06
5766546--5766642	35	2.8	36	71	16	87	25	4	0	70	1.05
5766578--5766669	25	3.5	26	77	12	80	22	3	1	72	1.05
5766606--5766664	24	2.4	25	83	10	70	25	3	1	69	1.13
5766686--5766740	12	4.8	12	76	17	53	14	5	1	78	1.02
5766708--5766755	22	2.2	22	81	7	53	16	8	2	72	1.18
5768208--5768253	18	2.4	20	82	7	60	26	23	17	32	1.97
5771597--5771677	43	1.9	41	85	5	108	48	2	18	30	1.61
5771923--5771982	21	2.9	21	97	0	111	28	20	23	28	1.99
5774510--5774566	23	2.5	23	83	11	64	57	0	21	21	1.40
5775751--5775781	16	1.9	16	100	0	62	64	0	19	16	1.29
5777925--5777956	16	2.0	16	93	0	55	43	9	12	34	1.75
5778115--5778202	21	4.2	21	92	0	140	25	20	28	26	1.99
5779045--5779095	22	2.3	22	83	6	59	21	13	17	47	1.82
5780599--5780634	2	18.0	2	94	0	63	47	0	2	50	1.15
5784328--5784426	21	4.7	21	84	0	126	29	20	23	27	1.99
5788070--5788100	16	1.9	16	100	0	62	64	0	19	16	1.29
5789265--5789305	21	2.0	21	100	0	82	39	0	26	34	1.57
5790145--5790225	43	1.9	41	82	5	99	48	3	17	30	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5791138--5791195	23	2.5	23	94	0	98	31	6	17	44	1.75
5791293--5791387	21	4.5	21	91	0	154	20	22	28	29	1.98
5791421--5791467	14	3.9	12	83	10	53	25	14	14	44	1.84
5793359--5793398	21	1.9	21	89	0	62	47	0	0	52	1.00
5799876--5799908	15	2.1	15	94	5	57	78	0	21	0	0.75
5801027--5801082	29	1.9	30	85	3	78	30	19	5	44	1.73
5801129--5801425	120	2.5	120	94	0	531	23	19	16	40	1.91
5801457--5801510	25	2.2	24	86	3	81	24	12	3	59	1.50
5801568--5801619	5	10.6	5	82	10	63	19	0	3	76	0.93
5801568--5801619	25	2.1	25	100	0	104	19	0	3	76	0.93

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