genome.fa.s8620.2.7.7.80.10.50.1000.32.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: VEPZ01008620.1 Hibiscus syriacus cultivar Beakdansim tig00111582_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  13158977

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   57   58   59   60   61   62   63   64   

This is table  32  of  64  ( 7674 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)
6380051--6380107	30	1.9	30	100	0	114	24	36	24	14	1.92
6380051--6380115	30	2.2	30	94	0	112	26	36	23	13	1.92
6380120--6380189	30	2.3	30	85	9	106	28	34	22	14	1.93
6380044--6380191	74	2.0	74	95	0	269	27	35	21	14	1.93
6385105--6385171	18	3.8	17	86	9	73	43	13	5	37	1.69
6385121--6385174	17	3.1	17	92	5	90	42	11	7	38	1.68
6385129--6385184	18	3.2	17	82	5	67	42	12	5	39	1.65
6392465--6392597	44	3.0	44	91	0	203	24	21	12	42	1.87
6408529--6408694	44	3.8	44	89	1	253	27	19	10	42	1.84
6408529--6408694	88	1.9	88	93	2	289	27	19	10	42	1.84
6409375--6409421	20	2.3	20	96	0	85	14	19	10	55	1.68
6410991--6411445	81	5.6	81	90	3	686	29	21	12	36	1.90
6410967--6411443	242	2.0	243	90	2	753	29	21	12	36	1.90
6411395--6411651	68	3.8	68	95	0	424	29	24	14	31	1.95
6412016--6412179	59	2.8	59	81	3	172	35	20	11	32	1.88
6412005--6412179	58	3.0	58	79	4	192	34	21	12	32	1.90
6412597--6412655	22	2.8	20	75	12	64	25	27	15	32	1.95
6412537--6412725	95	2.0	95	85	4	256	26	21	16	34	1.95
6414526--6414570	2	22.5	2	100	0	90	51	0	0	48	1.00
6415945--6415998	15	3.7	15	85	7	58	18	12	3	64	1.41
6424019--6424635	262	2.4	261	84	2	767	32	14	16	35	1.90
6424793--6424853	29	2.1	30	84	3	79	37	8	11	42	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6432502--6432531	2	15.0	2	100	0	60	50	0	0	50	1.00
6432806--6432934	51	2.6	49	91	7	217	34	0	17	48	1.47
6434746--6434770	2	12.5	2	100	0	50	0	0	48	52	1.00
6435624--6435713	42	2.1	42	100	0	180	42	11	24	22	1.86
6445501--6445629	35	3.6	36	79	9	165	27	20	17	34	1.95
6445486--6445629	36	4.0	38	76	9	158	26	20	18	34	1.95
6445486--6445629	72	2.0	72	94	0	252	26	20	18	34	1.95
6446784--6446819	2	18.0	2	100	0	72	50	0	0	50	1.00
6447543--6447670	60	2.1	60	82	0	157	36	16	17	28	1.92
6448878--6449991	280	4.0	281	96	0	2004	32	17	12	37	1.87
6452465--6452504	16	2.3	18	79	16	57	37	7	25	30	1.83
6452471--6452506	16	2.2	16	95	0	63	41	5	25	27	1.77
6453170--6453248	33	2.7	28	75	20	81	51	29	5	13	1.62
6453179--6453255	33	2.3	33	88	2	118	46	32	6	14	1.70
6455756--6455796	20	2.0	21	86	13	59	43	26	12	17	1.84
6462257--6462532	43	6.7	42	79	9	250	22	18	19	39	1.92
6462257--6462397	74	1.9	76	82	5	180	25	17	20	36	1.95
6462324--6462530	43	4.9	43	85	2	258	23	19	16	40	1.91
6465257--6465296	19	2.1	19	100	0	80	42	17	0	40	1.49
6475137--6475171	18	2.0	18	88	5	54	31	11	2	54	1.51
6475475--6475543	30	2.3	29	90	5	111	53	0	18	27	1.45
6475816--6475846	15	2.1	15	100	0	62	41	12	0	45	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6480234--6480274	21	1.9	22	90	5	66	39	17	19	24	1.92
6487551--6487610	25	2.3	26	94	2	104	15	3	20	61	1.47
6487563--6487617	25	2.2	25	90	3	83	20	3	16	60	1.51
6487602--6487660	30	2.0	30	89	0	91	18	6	16	57	1.61
6496289--6496324	18	2.0	18	94	0	63	38	16	2	41	1.63
6497986--6498014	4	7.2	4	100	0	58	24	0	0	75	0.80
6502918--6503004	35	2.5	34	77	18	90	55	8	8	28	1.58
6503015--6503072	23	2.6	21	77	17	55	60	15	3	20	1.49
6503093--6503125	13	2.4	14	85	10	50	69	9	6	15	1.34
6503534--6503597	33	1.9	33	87	6	94	21	21	42	14	1.88
6505331--6505385	16	3.2	18	80	12	71	67	1	0	30	1.01
6505338--6505386	25	1.9	26	83	4	64	65	2	0	32	1.04
6506938--6506993	25	2.2	25	80	0	67	30	14	25	30	1.95
6507261--6507622	57	6.4	57	93	0	584	11	18	22	47	1.80
6509285--6509335	13	3.9	13	72	10	50	33	3	17	45	1.67
6509328--6509404	29	2.7	29	95	0	136	33	5	12	48	1.64
6509473--6509535	4	15.5	4	82	9	74	28	3	19	49	1.63
6510172--6510261	33	2.7	33	91	0	144	44	22	1	32	1.60
6509888--6510500	320	1.9	318	83	5	783	33	15	6	43	1.73
6511278--6511550	5	54.6	5	99	0	519	40	0	1	58	1.05
6511801--6511841	21	2.0	21	85	0	55	34	4	19	41	1.73
6514707--6514739	16	2.1	16	100	0	66	57	24	12	6	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6514806--6514860	16	3.4	16	92	0	92	54	23	12	9	1.66
6516844--6516895	25	2.1	25	96	0	95	32	25	0	42	1.55
6516847--6516922	25	3.0	25	86	0	89	31	19	2	46	1.64
6519046--6519070	4	6.2	4	100	0	50	24	0	0	76	0.80
6527675--6527737	24	2.7	23	82	4	72	30	23	25	20	1.99
6528781--6528818	20	1.9	20	94	0	67	21	34	31	13	1.91
6533491--6533571	24	3.4	23	75	1	72	33	19	22	24	1.97
6534608--6534644	19	1.9	19	94	0	65	21	32	32	13	1.92
6535454--6535720	96	2.7	96	88	5	358	36	15	11	35	1.85
6535934--6536479	139	3.9	139	76	3	411	32	27	15	24	1.96
6536499--6536893	122	3.2	121	82	3	454	35	22	14	28	1.93
6537335--6537366	13	2.5	13	94	0	55	18	9	34	37	1.83
6540622--6540902	2	146.0	2	67	23	142	41	0	5	52	1.27
6540622--6540918	7	43.0	7	70	22	145	41	0	5	52	1.26
6540629--6540902	16	16.6	16	74	15	177	41	0	5	52	1.27
6540660--6540914	41	6.2	40	71	15	141	41	0	5	52	1.26
6540633--6540917	69	4.2	68	77	13	216	41	0	5	52	1.27
6540866--6540918	3	17.3	3	78	18	56	37	0	0	62	0.96
6545817--6545875	2	29.5	2	100	0	118	49	0	0	50	1.00
6550166--6550198	2	16.5	2	100	0	66	51	0	0	48	1.00
6554229--6554270	21	2.0	21	95	0	75	33	16	23	26	1.96
6558703--6558803	37	2.7	37	84	0	112	40	9	14	34	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6559358--6559465	22	4.9	23	72	21	88	27	5	0	65	1.21
6559485--6559525	11	3.6	11	87	6	55	24	4	4	65	1.32
6559534--6559562	2	14.5	2	100	0	58	48	0	0	51	1.00
6560127--6560189	20	3.2	19	76	15	56	17	11	3	68	1.33
6566171--6566210	18	2.2	18	100	0	80	30	22	0	47	1.52
6566465--6568269	106	17.0	106	92	0	2894	34	25	17	22	1.96
6568953--6569057	37	2.8	37	88	0	156	40	14	15	30	1.87
6569614--6569657	15	3.1	15	78	15	58	29	4	0	65	1.12
6569780--6569815	2	18.0	2	100	0	72	50	0	0	50	1.00
6569923--6569985	31	2.0	31	82	11	76	25	4	1	68	1.18
6570014--6570058	2	22.5	2	100	0	90	48	0	0	51	1.00
6570288--6570342	27	2.1	25	86	6	74	34	1	0	63	1.05
6570352--6570435	15	5.9	15	74	14	56	17	4	1	76	1.03
6574182--6574368	57	3.3	56	69	6	153	10	20	23	44	1.83
6575703--6575742	6	6.7	6	94	0	53	42	30	10	17	1.82
6575703--6575742	12	3.3	12	89	0	62	42	30	10	17	1.82
6579238--6579419	90	2.0	91	89	1	276	21	28	21	28	1.99
6584981--6585023	22	2.0	22	95	0	77	46	18	9	25	1.79
6585543--6585567	2	12.5	2	100	0	50	52	0	0	48	1.00
6586265--6586323	24	2.5	25	78	10	70	23	15	25	35	1.94
6590314--6590363	23	2.2	23	96	0	91	34	10	10	46	1.71
6607173--6607261	13	6.7	13	74	5	79	32	16	20	30	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6607166--6607233	26	2.6	26	86	4	93	33	16	22	27	1.95
6607225--6607285	28	2.2	28	93	0	104	31	18	18	32	1.94
6610446--6610483	20	2.0	19	90	10	60	73	7	18	0	1.06
6611217--6611253	15	2.4	16	90	4	58	29	13	24	32	1.93
6615075--6615284	65	3.3	63	80	11	230	30	24	19	26	1.98
6615256--6615304	19	2.6	19	87	9	66	24	26	20	28	1.99
6615125--6615304	65	2.8	63	81	13	197	28	23	20	27	1.99
6620971--6621070	23	4.7	21	76	10	80	30	23	22	25	1.99
6620990--6621068	23	3.6	22	79	5	97	26	22	25	25	2.00
6620971--6621070	44	2.3	42	85	8	130	30	23	22	25	1.99

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   57   58   59   60   61   62   63   64