genome.fa.s7960.2.7.7.80.10.50.1000.31.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: VEPZ01007960.1 Hibiscus syriacus cultivar Beakdansim tig00110387_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7905731

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   

This is table  31  of  39  ( 4646 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)
5855842--5855875	15	2.3	15	100	0	68	41	5	5	47	1.52
5855842--5855890	15	3.3	15	88	5	55	42	6	4	46	1.47
5855773--5855940	75	2.2	80	86	9	224	43	6	2	47	1.44
5855800--5855963	75	2.2	75	85	4	217	42	5	3	48	1.44
5855970--5856042	18	4.3	17	72	19	71	52	2	1	43	1.24
5855981--5856067	18	5.1	19	68	23	59	47	2	1	49	1.21
5859897--5859942	20	2.3	20	100	0	92	54	0	41	4	1.20
5865722--5865758	9	4.1	9	100	0	74	32	10	21	35	1.88
5871421--5871511	2	44.5	2	87	4	119	42	2	2	52	1.25
5883001--5883027	11	2.5	11	100	0	54	85	0	14	0	0.61
5883002--5883035	16	2.1	16	89	10	52	82	0	17	0	0.67
5882998--5883039	19	2.2	19	87	8	59	80	0	19	0	0.70
5884163--5884407	115	2.1	115	90	3	377	28	24	18	28	1.98
5884320--5884456	48	2.8	48	93	1	220	27	23	18	31	1.97
5884484--5884619	48	2.8	48	92	0	227	27	21	17	33	1.96
5884206--5884897	163	4.2	163	93	1	1145	28	22	17	31	1.96
5884647--5884782	48	2.8	48	88	0	200	27	22	16	33	1.96
5884697--5884909	115	1.9	114	91	1	354	27	23	16	32	1.96
5884811--5884909	49	2.0	49	84	3	128	28	21	17	33	1.95
5885159--5885199	12	3.6	12	81	18	52	31	0	0	68	0.90
5886928--5886973	2	23.0	2	100	0	92	50	0	0	50	1.00
5887094--5887173	2	39.5	2	81	7	81	41	2	2	53	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5890342--5890434	30	3.2	29	80	7	82	50	17	2	30	1.57
5890362--5890502	57	2.4	58	83	6	171	44	19	5	30	1.73
5890362--5890504	29	4.9	29	82	6	164	44	19	6	30	1.75
5890498--5890530	17	1.9	17	93	0	57	9	27	45	18	1.79
5895999--5896034	18	2.0	18	100	0	72	22	22	27	27	1.99
5897916--5898092	29	6.1	29	76	7	137	44	15	2	36	1.62
5900002--5900064	16	3.8	17	85	6	85	46	14	20	19	1.84
5899997--5900065	32	2.1	33	86	2	95	44	14	23	17	1.85
5913953--5913980	6	4.7	6	100	0	56	14	0	0	85	0.59
5914091--5914138	20	2.4	20	96	0	87	29	33	14	22	1.94
5914177--5914238	21	3.0	21	97	0	115	19	20	17	41	1.90
5914376--5914422	22	2.1	22	88	0	67	27	42	8	21	1.81
5914805--5914844	20	2.0	20	100	0	80	10	15	20	55	1.68
5916798--5916839	4	10.5	4	89	0	66	26	0	2	71	0.98
5916983--5917101	21	5.7	21	84	7	143	21	32	21	25	1.97
5916979--5917101	42	2.9	41	86	2	165	20	33	21	25	1.97
5918637--5918672	14	2.6	15	83	16	51	5	19	27	47	1.72
5918707--5918761	20	2.8	20	82	0	65	27	20	18	34	1.95
5921253--5921299	24	2.0	24	91	0	76	36	14	21	27	1.93
5921257--5921308	24	2.2	24	82	0	59	38	17	19	25	1.93
5922037--5922075	15	2.5	15	83	4	51	66	0	5	28	1.12
5922243--5922304	20	3.0	20	80	2	70	32	11	20	35	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5933779--5933833	21	2.6	21	82	5	67	61	1	5	30	1.29
5933782--5933833	20	2.5	21	81	6	61	59	1	5	32	1.32
5933822--5933874	22	2.5	20	75	18	54	60	1	0	37	1.08
5933900--5933944	22	2.1	21	83	4	54	55	2	2	40	1.24
5945196--5945229	16	2.1	16	89	10	52	50	0	0	50	1.00
5946087--5946124	19	2.0	20	89	5	60	47	0	0	52	1.00
5946471--5946560	24	4.2	22	68	22	57	58	2	0	38	1.10
5948100--5948187	24	4.2	22	68	22	55	59	2	0	38	1.10
5948281--5948317	19	2.0	19	94	5	67	48	5	2	43	1.40
5954669--5954703	15	2.3	15	85	0	52	54	0	2	42	1.15
5955223--5955262	2	19.5	2	94	5	71	50	0	2	47	1.14
5956053--5956090	14	2.6	15	87	8	60	73	0	0	26	0.83
5963077--5963165	24	3.7	24	95	0	160	24	21	21	32	1.98
5975383--5975448	34	1.9	34	85	11	91	39	4	7	48	1.52
5978764--5978884	64	1.9	64	84	6	165	42	7	5	43	1.56
5981047--5981206	59	2.7	60	77	1	151	45	5	15	33	1.70
5981100--5981223	60	2.1	59	83	3	151	49	4	12	33	1.60
5990072--5990211	68	2.1	68	100	0	280	32	11	19	36	1.87
5995143--5995215	2	38.0	2	83	8	98	52	0	0	47	1.00
6002864--6002906	15	2.9	15	82	0	50	37	2	6	53	1.41
6008124--6008162	2	19.5	2	89	10	62	48	2	48	0	1.15
6012515--6012572	23	2.5	25	72	16	61	63	3	6	25	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6014557--6014586	2	15.0	2	100	0	60	50	0	0	50	1.00
6019394--6019461	21	3.3	20	72	10	57	45	17	19	17	1.86
6019456--6019508	20	2.7	20	82	11	72	30	28	16	24	1.97
6021338--6021382	18	2.5	18	85	0	63	26	42	15	15	1.87
6021855--6021921	20	3.4	20	81	2	73	38	23	22	14	1.92
6021894--6022004	32	3.4	32	92	1	186	45	25	19	9	1.79
6021910--6022000	14	5.9	14	70	18	65	46	27	18	7	1.76
6023614--6023792	33	4.9	38	81	10	171	43	22	21	12	1.86
6023614--6023792	19	9.8	19	76	15	171	43	22	21	12	1.86
6023788--6023838	19	2.7	19	96	0	93	11	21	21	45	1.84
6024391--6024485	20	4.7	20	77	2	82	23	16	24	35	1.95
6024474--6024569	41	2.3	41	96	0	138	18	22	17	40	1.91
6024474--6024566	20	4.6	20	75	4	87	18	23	18	39	1.92
6026101--6026129	2	14.5	2	100	0	58	48	0	0	51	1.00
6029725--6029782	20	2.9	20	89	0	98	24	25	10	39	1.87
6030235--6030353	3	39.7	3	100	0	238	66	0	0	33	0.92
6033112--6033146	14	2.5	14	100	0	70	5	22	5	65	1.36
6033618--6033681	18	3.6	18	73	23	62	53	28	14	4	1.60
6033899--6033930	15	2.1	15	100	0	64	37	21	12	28	1.90
6035484--6035522	12	3.2	12	88	0	60	35	28	23	12	1.91
6035584--6035628	21	2.1	21	95	0	81	24	26	24	24	2.00
6036093--6036165	24	3.1	24	75	16	80	31	23	26	19	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6036097--6036167	23	3.0	23	75	17	74	30	23	26	18	1.97
6036423--6036485	30	2.1	30	96	0	117	33	23	4	38	1.76
6042623--6042666	21	2.1	21	91	0	70	25	25	22	27	2.00
6043130--6043200	24	3.0	24	71	20	60	30	21	25	22	1.98
6043446--6043517	30	2.4	30	90	2	108	38	19	2	38	1.66
6047247--6047298	19	2.7	19	96	0	95	25	15	34	25	1.95
6047349--6047405	20	2.6	21	83	13	71	28	22	22	26	1.99
6056509--6056545	3	12.3	3	100	0	74	67	0	32	0	0.91
6058702--6058895	88	2.2	88	88	1	291	37	19	16	27	1.93
6058744--6058895	46	3.4	45	66	17	118	36	18	17	28	1.93
6059122--6059157	3	11.7	3	94	5	63	36	0	0	63	0.94
6060293--6060318	2	13.0	2	100	0	52	50	0	0	50	1.00
6068541--6068577	13	2.8	13	87	0	56	56	0	5	37	1.22
6073454--6073514	30	2.0	30	96	0	113	31	19	8	40	1.81
6074182--6074266	2	43.0	2	97	2	163	50	0	0	49	1.00
6074899--6074988	31	2.8	33	79	5	112	20	21	7	51	1.72
6076929--6076987	21	2.8	21	85	10	75	50	18	3	27	1.62
6076929--6076987	22	2.7	22	82	7	68	50	18	3	27	1.62
6078763--6078842	28	2.9	28	94	0	133	27	31	20	21	1.98
6079026--6079067	21	2.0	21	85	0	57	47	7	21	23	1.75
6079175--6079218	21	2.1	21	95	0	79	27	0	15	56	1.40
6084632--6084717	30	2.7	33	73	10	90	40	9	22	27	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6084928--6085047	31	3.8	31	80	5	125	30	16	20	32	1.95
6086656--6086699	21	2.1	21	95	0	79	56	15	0	27	1.40
6086804--6086844	20	2.0	21	85	4	57	24	21	7	46	1.77
6090023--6090072	22	2.3	22	82	6	57	72	4	8	16	1.24
6091723--6091851	67	1.9	67	85	6	181	44	6	3	46	1.44
6091534--6091798	79	3.4	77	77	12	240	47	5	2	45	1.38
6091758--6091823	28	2.4	28	82	5	89	42	6	1	50	1.36
6091534--6091862	39	8.8	37	75	15	241	46	6	2	44	1.41
6091894--6091930	2	19.0	2	84	15	51	48	2	0	48	1.15
6101915--6102132	103	2.1	103	93	0	373	25	13	23	36	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