genome.fa.s9624.2.7.7.80.10.50.1000.24.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: VEPZ01009624.1 Hibiscus syriacus cultivar Beakdansim tig00117016_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8249038

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   

This is table  24  of  38  ( 4514 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)
4531244--4531290	12	3.5	13	83	13	60	46	17	19	17	1.84
4533585--4533624	21	1.9	21	94	0	71	30	15	7	47	1.72
4533619--4533717	33	3.0	33	94	1	164	32	7	15	45	1.73
4534172--4534205	18	1.9	18	94	5	61	41	11	5	41	1.66
4534153--4534209	15	3.7	15	76	17	62	36	12	7	43	1.69
4534298--4534329	16	2.0	17	88	11	50	43	21	21	12	1.86
4534450--4534480	16	1.9	16	93	0	53	29	32	0	38	1.57
4534889--4534933	19	2.4	19	92	0	81	46	17	24	11	1.81
4540840--4540934	11	8.5	11	68	16	52	71	0	23	5	1.06
4540846--4540878	15	2.1	16	88	5	50	81	0	18	0	0.68
4543470--4543543	36	2.0	37	86	2	105	36	18	21	22	1.95
4543577--4543857	132	2.1	133	88	1	422	34	12	18	34	1.89
4543861--4543941	42	1.9	42	92	0	135	25	17	20	35	1.95
4544555--4544585	16	1.9	16	93	0	53	29	32	0	38	1.57
4553256--4553454	35	5.8	35	71	13	135	41	5	4	48	1.47
4553338--4553477	66	2.1	63	79	15	158	42	5	2	50	1.39
4553462--4553494	17	2.0	17	94	5	59	48	6	3	42	1.43
4564491--4565031	272	2.0	268	97	2	1030	30	20	15	34	1.93
4564876--4565082	111	1.9	111	91	0	342	34	19	14	31	1.91
4568764--4568841	15	5.4	15	74	21	53	51	1	0	47	1.09
4568797--4568837	19	2.1	20	90	4	66	56	0	0	43	0.99
4568789--4568870	31	2.7	30	78	10	78	57	1	0	41	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4581466--4581545	8	10.1	8	70	24	55	48	3	0	47	1.19
4581504--4581547	17	2.6	17	83	16	56	50	2	0	47	1.13
4582876--4582931	18	3.2	18	75	5	53	51	0	1	46	1.11
4585390--4585414	12	2.1	12	100	0	50	16	28	0	56	1.41
4585872--4585905	12	2.9	12	86	4	52	35	0	38	26	1.57
4595733--4595829	31	3.1	31	76	5	88	39	7	14	39	1.74
4597559--4597584	13	2.0	13	100	0	52	46	0	0	53	1.00
4602385--4602440	21	2.7	21	94	0	94	32	16	19	32	1.94
4602971--4603323	44	8.0	44	86	0	438	41	11	21	25	1.86
4602971--4603323	132	2.7	132	87	0	492	41	11	21	25	1.86
4607881--4608189	44	7.0	44	87	1	431	41	13	20	24	1.88
4609914--4609940	13	2.1	13	100	0	54	37	7	11	44	1.68
4613478--4613518	21	2.0	21	95	0	73	41	4	0	53	1.22
4613610--4613653	23	2.0	23	95	4	81	52	4	4	38	1.42
4620868--4620896	15	1.9	15	100	0	58	27	6	13	51	1.66
4620975--4621684	54	12.9	53	84	7	785	34	16	19	30	1.93
4621147--4621178	16	2.0	16	100	0	64	37	12	18	31	1.88
4621093--4621232	70	2.0	70	97	0	262	36	15	18	30	1.91
4627171--4627500	111	3.0	111	88	0	489	35	20	8	36	1.82
4628022--4628070	24	2.0	24	96	0	89	44	10	12	32	1.75
4639705--4639779	10	6.9	10	73	16	60	58	18	9	13	1.61
4639704--4639774	33	2.2	33	89	0	106	59	18	9	12	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4639712--4639770	13	5.1	12	74	17	54	59	20	8	11	1.58
4639784--4639840	23	2.5	23	76	0	69	63	15	7	14	1.51
4647012--4647091	42	1.9	42	89	0	124	26	2	20	51	1.60
4648073--4648098	3	8.7	3	100	0	52	34	0	30	34	1.58
4648208--4648274	28	2.4	28	97	0	125	37	1	16	44	1.57
4651574--4651994	148	2.9	147	81	2	488	38	21	12	27	1.90
4652926--4652965	2	20.0	2	100	0	80	50	0	0	50	1.00
4653404--4653439	17	2.1	17	94	0	63	55	30	5	8	1.52
4654034--4654091	23	2.5	23	94	0	98	34	32	10	22	1.88
4655418--4655466	3	16.0	3	81	12	55	59	0	2	38	1.09
4655416--4655476	20	3.1	19	88	4	77	55	0	1	42	1.09
4655421--4655466	17	2.7	17	86	6	58	58	0	2	39	1.10
4655418--4655475	23	2.5	23	83	5	64	56	0	1	41	1.09
4657475--4657516	21	2.0	21	90	0	66	7	19	23	50	1.72
4657521--4657607	3	26.7	3	76	23	79	65	0	1	33	1.00
4657521--4657626	20	5.3	20	79	15	114	63	1	0	33	1.12
4657521--4657607	40	2.2	39	93	4	149	65	0	1	33	1.00
4657521--4657626	40	2.7	40	88	7	146	63	1	0	33	1.12
4657646--4657735	34	2.6	35	77	12	87	43	8	6	41	1.62
4657763--4657868	39	2.7	37	77	8	113	41	5	2	50	1.41
4657763--4657861	38	2.6	39	85	1	137	40	6	3	50	1.42
4679650--4679713	13	4.9	13	74	12	60	62	3	0	34	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4679644--4679712	20	3.5	20	75	16	72	62	2	0	34	1.10
4679639--4679731	40	2.3	40	81	7	109	61	4	0	34	1.16
4679746--4679851	34	3.0	33	73	16	97	41	8	6	43	1.61
4679740--4679979	38	6.4	36	72	18	163	38	8	5	47	1.58
4679830--4679979	40	3.9	38	75	15	130	37	8	4	50	1.52
4681409--4681496	14	5.9	14	72	17	70	77	2	6	13	1.07
4681496--4681551	2	28.5	2	82	10	71	55	0	1	42	1.10
4681495--4681593	39	2.5	38	82	12	103	57	2	2	38	1.22
4682687--4684152	106	13.9	106	90	1	2243	23	18	24	33	1.96
4684446--4684482	18	2.0	19	89	5	58	43	29	5	21	1.75
4684895--4684971	22	3.5	22	94	0	136	20	14	27	37	1.91
4685569--4685609	21	2.0	21	85	9	57	2	14	9	73	1.19
4685576--4685664	44	2.0	45	84	6	117	4	15	10	69	1.32
4688710--4688765	2	28.5	2	78	10	62	57	0	1	41	1.09
4688681--4688819	38	3.3	42	72	20	114	64	1	2	32	1.15
4688685--4688753	29	2.4	29	81	9	81	65	0	2	31	1.08
4688705--4688773	35	1.9	36	88	8	106	59	0	1	39	1.06
4688684--4688828	41	3.5	40	74	13	132	63	2	2	32	1.17
4688784--4688841	23	2.5	22	81	8	62	65	3	3	27	1.25
4688785--4688835	23	2.2	23	85	3	66	66	3	1	27	1.20
4689905--4689940	17	2.1	17	89	0	54	50	5	2	41	1.40
4690017--4690164	62	2.4	62	81	3	181	43	11	4	40	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4691569--4691606	16	2.4	16	86	4	51	47	2	0	50	1.15
4692743--4692804	32	1.9	31	84	12	81	35	1	40	22	1.64
4693507--4693551	22	2.0	22	83	8	56	44	4	0	51	1.21
4700881--4700929	17	2.8	18	75	9	57	46	0	2	51	1.12
4700919--4700951	15	2.3	15	94	5	59	36	0	0	63	0.95
4704927--4704957	5	6.2	5	96	0	53	61	0	0	38	0.96
4707440--4707740	41	7.3	42	76	5	249	29	17	17	34	1.94
4707448--4707741	83	3.6	82	82	2	313	29	18	17	34	1.94
4711853--4712032	43	4.2	42	77	3	189	25	22	18	33	1.97
4711874--4712061	43	4.4	42	74	7	146	22	23	19	34	1.97
4712824--4712870	24	2.0	23	83	4	58	44	2	8	44	1.46
4714232--4714275	19	2.4	17	79	17	52	0	15	6	77	0.97
4714783--4714849	3	22.3	3	71	17	50	64	0	2	32	1.09
4714785--4714844	19	3.0	20	82	7	68	61	0	3	35	1.12
4728618--4728670	21	2.8	18	82	17	72	47	9	16	26	1.77
4728630--4728685	21	2.7	21	97	0	103	41	10	17	30	1.84
4728801--4728849	20	2.5	20	96	0	89	30	14	30	24	1.94
4729387--4729546	65	2.5	64	91	3	250	30	23	19	26	1.98
4729518--4729566	19	2.6	19	84	9	57	24	30	18	26	1.98
4738080--4738117	20	1.9	20	94	0	67	31	31	15	21	1.94
4738515--4738556	18	2.3	18	84	8	50	28	16	2	52	1.56
4743971--4744156	53	3.5	53	87	0	273	27	14	18	39	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4750784--4750870	43	2.0	43	84	0	111	28	20	10	40	1.85
4751751--4751794	3	14.7	3	100	0	88	65	0	0	34	0.93
4764923--4764955	14	2.4	14	95	5	59	69	6	9	15	1.34
4764939--4764972	17	1.9	18	88	5	52	73	2	2	20	1.09
4767631--4767718	30	3.2	30	60	21	73	28	14	19	37	1.91
4767617--4767826	53	4.0	53	93	0	357	27	16	18	37	1.92
4768381--4768411	2	15.5	2	100	0	62	0	0	48	51	1.00
4770928--4770970	20	2.3	19	84	11	61	25	30	6	37	1.82
4771476--4771615	60	2.3	60	88	2	201	41	9	12	37	1.75
4772361--4772400	3	13.7	3	89	5	64	37	0	0	62	0.95

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