genome.fa.s9643.2.7.7.80.10.50.1000.31.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: VEPZ01009643.1 Hibiscus syriacus cultivar Beakdansim tig00117056_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8859806

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   

This is table  31  of  41  ( 4862 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)
6583566--6583638	33	2.2	34	82	7	87	13	21	26	38	1.91
6583613--6583658	20	2.3	20	88	0	65	19	17	26	36	1.94
6583626--6583680	20	2.8	20	88	0	74	12	16	21	49	1.79
6583645--6583688	20	2.2	20	83	0	52	15	13	18	52	1.75
6585566--6585603	20	1.9	20	94	0	67	44	21	15	18	1.86
6585643--6585749	20	5.3	20	88	0	151	38	19	18	23	1.93
6585555--6585787	40	6.4	37	73	14	139	41	19	19	19	1.90
6585796--6585892	20	4.8	20	88	0	122	20	17	19	42	1.90
6585816--6585899	20	4.2	20	90	0	132	16	20	20	42	1.89
6586386--6586483	21	4.7	20	69	10	63	22	34	19	23	1.96
6586411--6586493	42	2.0	42	81	9	98	22	37	18	21	1.94
6588015--6588108	33	2.8	34	90	6	147	44	19	22	13	1.85
6588123--6588218	33	2.9	34	87	3	131	13	23	19	42	1.87
6588190--6588283	20	4.7	20	92	2	154	18	22	25	34	1.96
6590499--6590540	3	14.0	3	100	0	84	0	33	0	66	0.92
6590742--6590793	24	2.2	24	82	0	59	34	19	21	25	1.96
6591621--6591674	20	2.7	20	88	0	90	25	18	24	31	1.97
6591620--6591687	20	3.4	20	83	0	82	25	19	23	32	1.97
6591674--6591767	20	4.7	20	84	2	134	21	21	20	37	1.95
6591674--6591789	41	2.9	41	81	1	144	25	19	20	34	1.96
6591662--6591808	61	2.4	60	80	7	179	25	19	23	32	1.97
6602364--6602399	2	18.0	2	100	0	72	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)
6603845--6603962	43	2.7	43	84	2	157	27	14	23	33	1.94
6603949--6604066	43	2.8	43	78	8	120	30	16	20	33	1.94
6604385--6604435	21	2.4	21	86	0	66	1	41	15	41	1.58
6604402--6604442	21	2.0	21	90	0	64	0	43	17	39	1.49
6610221--6610324	45	2.3	46	94	3	183	29	8	21	40	1.83
6618052--6618205	31	5.0	31	93	1	256	37	20	20	22	1.95
6619072--6619116	21	2.1	21	87	0	63	15	24	28	31	1.96
6622076--6622228	31	5.0	31	91	3	247	37	20	20	21	1.95
6622076--6622228	61	2.5	61	91	4	236	37	20	20	21	1.95
6623091--6623135	21	2.1	21	87	0	63	15	24	28	31	1.96
6626452--6626528	7	10.4	7	70	20	50	76	0	15	7	1.00
6626479--6626531	16	3.6	14	82	17	63	73	0	20	5	1.03
6626493--6626572	41	1.9	42	85	7	110	71	1	21	6	1.15
6626479--6626584	18	6.5	16	71	23	71	70	0	21	6	1.15
6626479--6626570	29	3.5	25	72	25	66	72	1	20	5	1.10
6626492--6626581	41	2.2	41	80	9	103	72	1	21	5	1.12
6626577--6626634	18	3.2	18	79	13	50	81	5	6	6	1.00
6628002--6628246	55	4.5	54	82	7	293	30	15	25	28	1.96
6628002--6628246	106	2.3	108	85	7	320	30	15	25	28	1.96
6627982--6628305	161	2.0	162	86	3	456	30	15	23	30	1.95
6628002--6628349	55	6.4	55	77	11	292	30	14	22	31	1.95
6629536--6629579	16	2.8	16	96	0	79	50	4	4	40	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6636986--6637140	83	1.9	83	82	8	199	27	19	20	32	1.97
6638649--6638746	42	2.3	42	85	0	124	23	17	22	36	1.94
6641614--6641745	60	2.2	59	80	9	144	32	13	17	36	1.89
6667568--6667626	21	3.0	21	87	7	79	25	30	18	25	1.98
6670169--6670194	6	4.3	6	100	0	52	84	15	0	0	0.62
6679445--6679473	14	2.1	14	100	0	58	48	6	17	27	1.72
6708413--6708491	39	2.0	39	97	0	149	36	10	7	45	1.66
6710923--6710958	16	2.2	17	90	5	56	33	5	11	50	1.61
6712322--6712368	22	2.1	22	100	0	94	53	12	4	29	1.58
6715424--6715558	20	6.7	20	80	7	121	33	24	17	24	1.96
6715421--6715558	61	2.3	61	85	0	195	34	23	17	23	1.96
6715728--6715770	22	2.0	22	95	0	77	20	41	16	20	1.90
6716229--6716283	25	2.2	24	78	15	58	20	9	18	52	1.71
6717412--6717456	18	2.5	18	88	0	72	26	44	15	13	1.83
6717938--6718004	20	3.4	20	81	2	73	38	23	22	14	1.92
6717993--6718050	14	3.9	14	79	16	71	48	24	17	10	1.78
6717977--6718067	32	2.8	33	94	3	166	47	21	18	12	1.81
6718095--6718169	39	1.9	39	83	5	98	16	24	21	38	1.92
6718079--6718188	20	5.7	19	83	4	105	14	20	22	41	1.89
6720039--6720074	14	2.6	14	90	0	54	30	0	22	47	1.52
6720157--6720195	20	2.0	20	94	0	69	46	30	10	12	1.75
6720201--6720265	19	3.7	19	84	15	95	46	18	21	13	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6720291--6720340	20	2.5	20	93	3	84	18	24	26	32	1.97
6720817--6720893	19	4.3	18	76	18	81	46	20	18	14	1.83
6720804--6720878	33	2.3	33	93	4	125	45	20	21	13	1.84
6720893--6721020	33	3.8	33	85	3	159	13	21	18	46	1.83
6721035--6721085	20	2.5	20	100	0	102	19	31	19	29	1.97
6721830--6721883	24	2.2	24	90	0	81	22	16	20	40	1.91
6722058--6722082	12	2.1	12	100	0	50	72	0	28	0	0.86
6724363--6724487	33	3.8	33	88	4	198	43	19	22	15	1.88
6724364--6724496	66	2.0	66	95	0	239	41	18	22	17	1.90
6724363--6724493	19	7.7	19	66	23	103	42	19	22	15	1.88
6724504--6724560	14	3.7	14	75	20	60	8	24	22	43	1.81
6724488--6724578	33	2.8	33	94	0	155	13	21	20	43	1.86
6724518--6724578	19	3.5	19	72	21	69	11	22	21	44	1.84
6724685--6724721	14	2.6	14	91	0	65	45	24	0	29	1.53
6726097--6726212	21	5.5	21	68	8	65	23	21	32	22	1.98
6726077--6726282	42	4.9	41	73	9	164	23	18	36	21	1.95
6726107--6726282	84	2.1	84	98	0	343	23	17	37	21	1.94
6726501--6726685	91	2.0	90	91	6	300	47	18	12	21	1.82
6728371--6728511	19	7.8	19	71	20	97	43	20	23	12	1.85
6728396--6728494	33	3.0	33	89	1	153	40	23	25	11	1.87
6729093--6729206	20	5.7	20	84	6	122	23	19	25	31	1.98
6729093--6729209	61	1.9	61	87	0	171	23	18	24	33	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6729093--6729227	61	2.2	61	82	2	164	22	20	24	32	1.98
6736235--6736285	4	13.0	4	80	12	61	27	1	0	70	0.98
6747330--6747656	112	2.9	112	86	7	452	37	14	20	27	1.92
6747701--6747964	112	2.4	111	89	1	395	36	15	20	28	1.92
6747394--6748034	307	2.1	308	85	5	861	37	15	19	27	1.92
6747701--6748083	123	3.3	111	82	9	380	39	15	18	26	1.91
6749562--6749607	4	12.0	4	82	13	53	28	0	0	71	0.86
6749944--6749973	7	4.3	7	95	0	51	30	0	3	66	1.07
6754768--6755284	55	9.6	55	81	9	493	29	24	16	29	1.96
6754835--6755292	161	2.9	158	80	11	506	30	24	16	29	1.96
6754768--6755284	216	2.4	217	86	5	703	29	24	16	29	1.96
6755299--6755370	37	2.0	36	88	2	108	23	22	19	34	1.96
6756672--6756785	48	2.4	47	81	7	124	6	19	0	73	1.09
6756664--6756831	55	3.1	53	78	14	171	7	17	0	73	1.10
6756685--6756799	31	4.0	28	71	23	80	6	19	0	73	1.08
6756662--6756815	45	3.5	44	77	14	129	7	17	0	74	1.10
6766489--6766622	45	2.9	45	92	2	205	39	22	8	29	1.84
6772603--6772643	21	2.0	21	90	0	64	26	39	4	29	1.77
6778134--6778166	15	2.1	16	88	5	50	9	24	15	51	1.72
6778909--6778939	15	2.1	15	93	0	53	29	29	6	35	1.82
6781696--6781851	21	7.5	21	69	7	68	25	21	17	34	1.96
6781736--6781851	41	2.8	41	76	8	103	28	20	18	32	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6781841--6781952	20	5.6	20	79	4	118	37	18	21	22	1.94
6781759--6781873	41	2.8	41	75	7	110	26	22	18	32	1.97
6781841--6781934	41	2.3	41	85	1	118	39	17	22	21	1.92
6782472--6782542	19	3.7	19	81	9	81	46	22	18	12	1.82
6782554--6782636	33	2.5	33	94	2	139	13	22	22	40	1.89
6782618--6782664	20	2.3	20	82	13	69	12	23	14	48	1.78
6783920--6783992	21	3.7	20	72	15	62	28	41	15	15	1.87
6786225--6786260	14	2.6	14	95	0	63	30	0	25	44	1.54
6786367--6786442	19	4.3	18	77	16	70	44	23	17	14	1.85
6786442--6786568	33	3.8	33	89	0	182	14	22	17	45	1.84

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