genome.fa.s8027.2.7.7.80.10.50.1000.28.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: VEPZ01008027.1 Hibiscus syriacus cultivar Beakdansim tig00110503_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7662336

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  28  of  38  ( 4505 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)
5739250--5739362	41	2.8	41	90	5	149	19	23	18	38	1.93
5739270--5739362	20	4.5	21	81	4	109	18	24	17	39	1.91
5753042--5753239	96	2.1	96	99	0	387	22	24	17	35	1.95
5754930--5754998	33	2.1	33	97	0	129	34	5	27	31	1.81
5755159--5755234	39	1.9	38	87	10	109	22	10	13	53	1.69
5755416--5755459	19	2.3	19	88	7	63	63	0	0	36	0.95
5766519--5766652	67	2.0	67	82	2	162	38	26	9	25	1.87
5768227--5768318	32	2.9	32	90	1	141	21	19	8	50	1.75
5769386--5769548	76	2.1	77	85	3	222	32	9	28	28	1.89
5770896--5770953	16	3.6	16	72	4	53	72	5	0	22	1.04
5772806--5772967	76	2.1	76	93	0	270	25	29	11	33	1.91
5773007--5773071	27	2.7	23	83	9	76	32	26	29	12	1.92
5774347--5774385	13	2.8	13	88	7	51	53	2	0	43	1.14
5774620--5774734	3	38.3	3	100	0	230	66	0	33	0	0.92
5776286--5776341	29	1.9	29	82	7	69	42	7	23	26	1.79
5777465--5777503	19	2.1	19	100	0	78	53	10	10	25	1.66
5783972--5784035	2	32.0	2	100	0	128	50	0	0	50	1.00
5792379--5792412	18	1.9	17	88	5	50	29	0	5	64	1.17
5799735--5799761	2	13.5	2	100	0	54	48	0	0	51	1.00
5812725--5812771	23	2.0	24	83	4	60	44	4	2	48	1.34
5814097--5814172	29	2.6	29	91	0	116	25	22	21	31	1.98
5814100--5814191	29	3.1	29	81	7	96	29	21	18	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5815567--5815713	29	4.9	29	70	14	111	45	4	18	31	1.68
5815567--5815759	60	3.2	60	91	2	309	45	3	18	32	1.66
5815684--5815777	29	3.2	29	69	18	70	50	3	13	32	1.58
5822718--5822797	42	1.9	42	89	5	108	33	15	22	28	1.94
5823425--5823520	42	2.3	42	80	5	113	29	7	22	40	1.81
5825000--5825042	22	2.0	22	95	0	77	44	4	16	34	1.68
5828502--5828553	24	2.1	25	96	3	97	36	19	9	34	1.84
5831953--5832264	43	7.4	43	77	6	246	33	22	15	28	1.95
5831953--5832264	86	3.7	84	81	5	328	33	22	15	28	1.95
5832014--5832270	128	2.0	126	89	1	388	33	21	15	30	1.94
5834348--5834378	3	10.7	3	93	6	55	0	35	0	64	0.94
5835871--5835977	23	4.8	22	71	14	60	17	27	23	31	1.97
5837786--5837838	19	2.9	19	88	5	83	52	1	0	45	1.11
5838383--5838412	11	2.6	12	89	10	53	26	13	0	60	1.34
5839282--5839393	28	3.8	28	72	17	100	20	8	28	41	1.82
5839564--5839613	21	2.4	21	96	0	91	42	0	6	52	1.26
5840047--5840082	16	2.2	16	90	0	54	22	27	5	44	1.75
5841141--5841182	11	3.7	11	81	15	50	61	0	2	35	1.09
5842637--5842687	19	2.6	19	73	11	50	54	0	1	43	1.11
5848033--5848075	20	2.2	20	100	0	86	37	4	16	41	1.69
5848328--5848405	24	3.3	24	92	3	131	30	14	20	34	1.92
5849911--5849997	26	3.2	26	78	15	88	72	0	9	18	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5849911--5849988	26	2.9	27	80	12	90	73	0	8	17	1.09
5850333--5850370	3	12.3	3	84	15	51	68	0	0	31	0.90
5850341--5850395	25	2.3	23	84	12	67	60	3	0	36	1.15
5851530--5851577	18	2.8	17	81	12	53	58	2	2	37	1.22
5852404--5852595	106	1.8	106	93	0	330	20	18	26	34	1.96
5856441--5856484	23	2.0	23	81	4	54	50	11	2	36	1.51
5862389--5862449	20	3.1	19	77	11	68	27	36	24	11	1.90
5873529--5873655	4	30.8	4	71	16	50	69	2	6	22	1.23
5873529--5873594	9	7.2	9	75	21	50	71	0	7	21	1.11
5873683--5873723	21	1.9	22	90	5	66	75	0	12	12	1.05
5873992--5874046	2	27.5	2	100	0	110	50	0	0	49	1.00
5874134--5874167	9	3.8	9	88	11	52	73	0	0	26	0.83
5881255--5881296	22	2.0	21	86	13	59	35	0	7	57	1.26
5881656--5881808	60	2.6	59	77	9	134	34	17	4	43	1.70
5883270--5883315	22	2.1	22	87	0	65	36	2	8	52	1.45
5883504--5883621	61	1.9	61	84	0	155	28	19	24	27	1.99
5884503--5884532	16	1.9	16	93	6	53	46	0	20	33	1.51
5889860--5889905	22	2.1	22	87	0	65	36	4	10	47	1.58
5893557--5893608	21	2.5	21	90	6	79	40	7	25	26	1.82
5893741--5893821	21	3.8	21	68	18	58	20	16	27	35	1.94
5894232--5894293	26	2.4	26	94	0	106	32	11	9	46	1.72
5896537--5896578	22	1.9	22	90	0	66	59	9	9	21	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5897072--5897118	25	2.0	23	91	8	76	53	0	6	40	1.27
5897092--5897138	17	2.8	17	76	23	55	57	0	2	40	1.11
5897112--5897149	19	2.0	19	89	0	58	63	0	0	36	0.95
5897393--5897455	28	2.2	28	86	8	92	46	9	6	38	1.62
5897392--5897464	28	2.5	28	82	6	83	46	8	6	38	1.60
5897485--5897560	30	2.5	30	89	0	116	39	9	14	36	1.78
5897993--5898051	24	2.4	25	77	8	77	40	0	3	55	1.16
5897966--5898061	39	2.4	41	76	15	103	45	1	2	51	1.20
5904367--5904417	21	2.4	21	80	0	66	25	1	31	41	1.67
5905803--5905861	11	5.3	11	78	15	59	28	16	23	30	1.97
5905778--5905864	34	2.6	34	83	7	113	29	19	21	28	1.98
5905809--5905852	23	1.9	23	100	0	88	29	20	22	27	1.99
5905810--5905869	11	5.3	11	75	16	52	30	20	18	31	1.96
5906776--5906800	11	2.3	11	100	0	50	76	0	8	16	1.02
5914261--5914307	22	2.1	22	96	0	85	25	12	42	19	1.86
5914850--5915656	216	3.8	210	91	4	1202	50	7	12	29	1.67
5915681--5915792	18	6.4	17	72	13	68	48	3	4	43	1.40
5915681--5915746	2	32.5	2	76	14	64	48	3	3	45	1.33
5915732--5915822	27	3.2	28	80	7	87	46	6	5	41	1.53
5915776--5915821	20	2.3	21	85	11	69	47	10	6	34	1.64
5915927--5915983	26	2.2	25	81	9	62	40	0	7	52	1.28
5916080--5916155	24	3.2	24	68	20	68	36	9	9	44	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5916104--5916219	22	5.3	21	67	16	67	39	8	5	46	1.57
5916080--5916219	44	3.1	43	83	12	142	38	9	6	45	1.62
5916147--5916200	9	6.1	9	76	20	60	40	9	1	48	1.46
5916148--5916198	18	2.9	18	88	2	77	41	5	1	50	1.37
5916291--5916475	51	3.5	52	82	14	220	44	7	7	41	1.60
5916246--5916385	71	2.0	69	86	5	192	45	7	5	41	1.55
5916270--5916417	18	8.4	18	71	11	119	44	7	6	41	1.59
5916450--5916480	14	2.1	15	94	5	55	48	6	6	38	1.55
5916535--5916669	61	2.2	61	88	5	193	50	5	9	34	1.57
5917987--5918274	42	6.8	41	91	3	391	19	18	25	36	1.94
5917998--5918274	126	2.2	126	90	3	448	19	18	25	37	1.94
5917945--5918277	21	15.8	21	74	15	276	20	18	24	36	1.95
5919000--5919034	5	7.4	5	87	12	56	0	40	22	37	1.55
5919144--5919428	19	13.9	19	69	13	156	37	20	19	22	1.94
5919151--5919448	42	7.2	41	88	3	395	37	21	19	21	1.94
5919145--5919448	122	2.5	124	90	2	468	37	21	19	22	1.95
5919145--5919448	82	3.7	84	88	2	449	37	21	19	22	1.95
5919488--5919534	21	2.2	21	92	0	76	21	21	31	25	1.98
5921576--5921662	16	5.4	16	88	0	129	36	16	27	19	1.93
5922641--5922702	30	2.1	31	84	6	83	56	9	8	25	1.59
5924443--5924473	14	2.1	15	94	5	55	32	0	0	67	0.91
5924440--5924477	14	2.4	16	79	20	53	34	0	0	65	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5924913--5924944	15	2.1	15	100	0	64	34	12	6	46	1.67
5933582--5933653	35	2.1	35	97	0	135	40	12	20	26	1.88
5934219--5934268	16	3.2	16	78	13	59	20	2	0	78	0.86
5934235--5934282	25	2.0	25	88	8	73	27	4	0	68	1.07
5934223--5934294	31	2.3	31	85	2	90	25	4	0	70	1.04
5942369--5942425	22	2.6	22	86	10	89	42	14	28	15	1.86
5943112--5943328	106	2.0	106	89	0	326	34	25	18	20	1.96
5943815--5943884	35	2.0	35	97	0	131	40	11	18	30	1.86
5944456--5944511	24	2.4	25	85	8	73	26	7	0	66	1.18
5944535--5944577	2	21.5	2	100	0	86	48	0	0	51	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   36   37   38