genome.fa.s9605.2.7.7.80.10.50.1000.19.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: VEPZ01009605.1 Hibiscus syriacus cultivar Beakdansim tig00116989_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  9158330

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   

This is table  19  of  35  ( 4090 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)
4368229--4368314	41	2.1	42	86	2	120	34	20	16	27	1.94
4370614--4370677	32	2.0	32	96	0	119	32	12	26	28	1.93
4370563--4370736	91	1.9	92	92	2	296	35	12	20	32	1.90
4370646--4370825	59	3.1	59	88	2	274	33	12	18	35	1.88
4373890--4373930	17	2.4	17	84	8	57	53	0	4	41	1.22
4374192--4374241	2	25.0	2	100	0	100	50	0	0	50	1.00
4378287--4378353	30	2.2	30	94	0	116	40	8	17	32	1.81
4378483--4378530	22	2.1	23	92	3	80	31	20	10	37	1.87
4379265--4379326	3	20.7	3	100	0	124	32	0	0	67	0.91
4379769--4379846	39	2.0	38	90	2	120	15	28	21	34	1.94
4381750--4381929	62	2.9	62	83	1	236	35	18	7	38	1.80
4385025--4385204	95	1.9	95	84	2	245	41	18	13	27	1.87
4387200--4387234	17	2.1	17	94	0	61	42	8	0	48	1.33
4387234--4387259	13	2.0	13	100	0	52	38	23	23	15	1.92
4389525--4389646	21	5.7	22	76	12	105	34	27	17	21	1.95
4389519--4389647	44	3.0	44	83	7	149	33	26	17	22	1.96
4389856--4389926	31	2.3	31	97	0	133	26	18	8	46	1.77
4395337--4395458	21	5.7	21	80	12	124	36	28	13	20	1.91
4395330--4395460	44	3.0	44	83	7	171	36	27	14	21	1.92
4396428--4396474	21	2.2	21	100	0	94	40	14	8	36	1.77
4397608--4397699	42	2.2	41	88	7	132	18	17	17	46	1.84
4398163--4398331	82	2.1	80	80	12	186	50	4	0	44	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4398532--4398590	14	4.1	14	80	4	64	37	20	3	38	1.69
4398518--4398556	20	2.0	20	84	0	51	33	17	7	41	1.79
4398531--4398587	29	2.0	29	92	0	96	35	21	1	42	1.63
4401085--4401160	35	2.1	36	83	9	102	35	13	25	26	1.92
4401941--4402072	21	6.2	21	69	6	95	22	17	24	35	1.95
4405485--4405897	59	7.0	59	93	0	675	32	20	13	33	1.91
4407662--4407746	42	2.0	42	88	0	125	25	17	23	32	1.97
4407665--4407759	42	2.3	42	84	0	118	26	16	23	33	1.96
4407664--4407828	21	7.7	21	71	4	105	24	16	24	34	1.95
4407766--4407851	44	2.0	44	86	4	120	24	17	24	33	1.96
4409508--4409554	2	23.5	2	100	0	94	48	0	0	51	1.00
4414823--4414953	43	3.0	44	78	6	142	51	7	16	24	1.71
4418654--4419014	113	3.2	113	93	1	618	32	11	12	43	1.79
4419270--4419319	23	2.2	23	92	0	82	34	18	10	38	1.84
4419254--4419453	87	2.3	87	92	0	328	32	14	10	43	1.78
4419799--4419991	90	2.1	90	91	0	314	31	12	12	43	1.80
4419889--4420127	113	2.1	113	89	3	376	33	11	12	43	1.78
4420531--4420574	23	1.9	23	90	0	70	34	13	9	43	1.76
4420539--4420590	23	2.3	23	82	0	68	36	9	9	44	1.70
4420353--4420609	86	3.0	87	86	2	342	31	13	10	44	1.77
4420531--4420593	23	2.6	24	78	12	67	34	11	7	46	1.69
4421701--4421726	2	13.0	2	100	0	52	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4421808--4422028	25	8.7	25	78	4	167	44	18	11	25	1.83
4421920--4422076	76	2.1	76	85	2	208	43	20	8	27	1.81
4423557--4424263	371	1.9	365	89	1	1081	35	16	15	32	1.91
4427858--4427996	35	3.9	35	74	10	122	34	19	18	27	1.95
4427858--4427995	71	1.9	71	85	2	188	34	19	18	27	1.96
4429737--4429775	18	2.2	18	85	0	51	33	20	25	20	1.97
4437075--4437240	45	3.7	45	85	1	190	37	10	12	39	1.77
4437075--4437265	90	2.1	91	84	2	242	38	9	12	39	1.76
4437440--4437779	58	5.9	57	83	7	337	37	6	12	43	1.69
4437449--4437779	116	2.9	114	81	7	371	37	6	12	43	1.68
4437781--4437943	58	2.8	60	78	3	188	41	4	11	42	1.62
4437681--4438073	217	1.8	215	85	6	562	40	5	10	43	1.62
4437781--4437981	58	3.5	57	74	10	174	40	4	10	43	1.62
4437944--4438025	40	2.0	41	90	2	130	36	4	9	48	1.58
4437887--4438116	98	2.4	96	80	7	257	37	6	10	45	1.64
4438043--4438154	39	2.9	39	82	5	145	39	5	10	44	1.62
4437944--4438199	136	1.9	137	84	2	345	38	6	10	44	1.65
4443388--4443457	20	3.3	22	77	14	67	34	25	17	22	1.96
4445098--4445293	97	2.0	98	92	4	326	42	15	4	37	1.67
4450281--4450336	24	2.3	24	84	6	69	57	14	12	16	1.66
4451834--4451876	20	2.2	20	91	0	68	16	20	51	11	1.75
4455062--4455114	2	26.5	2	100	0	106	50	0	0	49	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4469830--4470009	73	2.4	74	81	5	195	27	6	17	48	1.70
4471237--4471313	33	2.3	33	86	0	100	40	25	28	5	1.77
4475062--4475120	11	5.2	11	76	19	59	66	1	3	28	1.18
4475064--4475120	23	2.5	22	78	15	62	66	1	3	28	1.18
4475114--4475147	16	2.1	16	89	10	52	64	0	5	29	1.17
4476653--4476790	3	47.0	3	81	8	160	60	0	1	37	1.06
4476659--4476790	23	5.4	24	76	15	92	60	0	1	37	1.06
4482927--4482980	11	5.4	10	75	20	51	0	18	1	79	0.82
4482927--4482981	19	2.8	19	82	17	69	0	18	3	78	0.90
4490140--4490416	43	6.4	43	80	8	237	27	17	24	30	1.97
4490353--4490448	42	2.2	44	78	7	108	26	20	23	29	1.99
4492307--4492489	98	1.9	98	82	7	237	44	6	7	40	1.59
4497055--4497099	23	2.0	23	90	0	72	28	24	22	24	1.99
4509456--4509501	24	1.9	24	86	0	65	19	13	13	54	1.71
4515078--4515334	128	2.0	128	96	0	478	36	11	17	33	1.87
4515710--4515759	21	2.4	21	93	0	91	26	22	18	34	1.96
4524547--4524581	12	2.8	12	91	4	52	37	11	5	45	1.64
4524780--4524826	23	2.0	23	100	0	94	40	34	8	17	1.79
4527568--4527693	47	2.8	46	83	8	152	30	23	7	38	1.83
4527798--4527959	40	4.1	40	98	0	306	33	27	16	23	1.95
4537177--4537217	21	1.9	22	85	5	57	31	2	24	41	1.68
4548940--4548994	20	2.8	20	97	0	101	29	14	18	38	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4549065--4549120	20	2.8	20	97	2	105	30	14	23	32	1.94
4552347--4552386	21	1.9	21	89	0	62	22	30	25	22	1.99
4552426--4552500	20	4.0	19	77	13	66	26	17	26	29	1.97
4552430--4552499	36	1.9	36	82	5	88	27	17	25	30	1.97
4552814--4552867	21	2.8	19	81	13	65	50	11	9	29	1.69
4555880--4555919	21	1.9	21	89	0	62	25	27	22	25	2.00
4556755--4556793	20	1.9	21	89	5	62	15	15	28	41	1.87
4558999--4559084	39	2.2	39	97	0	163	29	29	19	22	1.98
4562957--4563217	85	3.1	85	91	2	400	29	19	16	33	1.95
4562957--4563251	85	3.5	84	85	5	344	31	20	15	32	1.94
4563279--4563367	2	45.5	2	86	4	128	55	0	0	44	0.99
4565312--4565400	26	3.5	25	68	10	81	2	39	7	50	1.44
4569194--4569246	15	3.5	15	81	2	61	11	18	11	58	1.62
4574777--4574801	2	12.5	2	100	0	50	48	0	0	52	1.00
4575375--4575439	2	32.5	2	90	0	103	3	0	46	50	1.17
4575896--4576207	45	6.9	45	84	2	329	30	19	8	40	1.83
4575895--4576207	135	2.3	136	82	1	369	30	20	8	40	1.83
4582992--4583034	14	3.1	13	86	10	50	44	9	6	39	1.64
4588718--4588756	21	1.9	20	84	5	51	35	20	15	28	1.93
4593499--4593543	23	2.0	23	86	0	63	35	6	6	51	1.55
4595372--4595453	26	3.2	24	63	24	58	54	6	3	35	1.43
4595363--4595472	54	2.0	55	98	1	213	52	5	3	38	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4596156--4596220	21	3.1	21	91	6	98	27	0	4	67	1.10
4596424--4596950	181	2.9	181	83	5	631	40	12	8	38	1.74
4600163--4600236	32	2.3	32	80	0	85	35	18	9	36	1.84
4600558--4600626	36	1.9	36	88	5	104	14	24	27	33	1.94
4604428--4604454	12	2.2	12	100	0	54	37	29	0	33	1.58
4618361--4618412	18	2.8	18	79	2	59	38	1	17	42	1.60
4620651--4620713	19	3.3	19	97	0	117	34	7	33	23	1.84
4623314--4623353	2	20.0	2	100	0	80	50	0	0	50	1.00
4624008--4624040	14	2.5	13	90	9	50	33	9	27	30	1.88
4633791--4633828	2	19.0	2	100	0	76	50	0	0	50	1.00

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