genome.fa.s9624.2.7.7.80.10.50.1000.31.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: 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  31  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)
6087912--6088792	81	10.9	81	88	0	1203	34	10	22	32	1.88
6089832--6090011	65	2.8	63	77	15	190	28	17	24	29	1.97
6089856--6090011	65	2.4	64	84	9	194	28	17	23	30	1.97
6090325--6090397	34	2.2	34	97	2	139	43	2	9	43	1.51
6092273--6092297	13	1.9	13	100	0	50	52	8	8	32	1.60
6092724--6092802	23	3.5	22	77	8	88	24	22	27	25	2.00
6092724--6092786	21	2.9	22	80	4	74	22	25	25	26	2.00
6098249--6098409	65	2.5	65	82	7	186	27	16	24	31	1.97
6098378--6098482	45	2.3	45	93	0	183	24	15	22	37	1.93
6101626--6101682	29	2.0	29	89	0	87	56	22	5	15	1.60
6105692--6105818	40	3.2	40	85	1	166	23	18	29	28	1.98
6116906--6119020	953	2.2	953	97	0	3948	35	11	17	35	1.86
6118966--6119099	40	3.4	40	87	3	173	22	20	26	31	1.98
6121203--6121748	81	6.7	81	87	0	734	29	21	10	37	1.88
6125722--6126423	81	8.7	81	89	1	994	29	21	12	36	1.90
6131892--6132015	40	3.1	40	82	3	162	22	19	25	32	1.97
6132761--6132818	29	2.0	29	89	0	89	25	13	20	39	1.90
6141566--6141613	23	2.1	22	84	3	60	31	0	0	68	0.90
6146772--6146832	21	3.2	21	65	26	62	31	4	16	47	1.68
6146771--6146850	36	2.2	36	93	2	135	31	5	18	45	1.71
6147256--6147296	16	2.6	16	100	0	82	31	4	26	36	1.78
6155453--6155484	16	2.0	16	100	0	64	31	12	12	43	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6155726--6155807	42	2.0	42	92	0	137	19	7	21	51	1.71
6156234--6156297	29	2.2	29	97	0	119	43	21	6	28	1.77
6156240--6156291	17	3.4	17	65	25	51	46	19	3	30	1.68
6157042--6157080	3	13.0	3	100	0	78	66	0	0	33	0.92
6157760--6157955	106	1.8	107	83	1	259	37	16	11	34	1.85
6160790--6160826	19	1.9	19	88	0	56	40	8	16	35	1.78
6168293--6168376	22	3.9	22	84	4	109	20	20	17	41	1.90
6168293--6168376	42	2.0	44	85	4	118	20	20	17	41	1.90
6170985--6171044	21	2.6	24	73	19	65	26	13	18	41	1.87
6175202--6175324	62	2.0	63	82	4	151	28	26	26	17	1.98
6175209--6175324	31	3.7	31	73	5	92	27	27	28	16	1.97
6184084--6184118	18	1.9	18	88	0	52	2	48	0	48	1.16
6184086--6184135	24	2.1	24	88	0	73	2	48	2	48	1.24
6184097--6184158	24	2.6	24	78	16	67	0	46	4	48	1.23
6184448--6184754	155	2.0	155	98	0	596	22	18	29	28	1.98
6185349--6185730	191	2.0	192	95	0	685	28	16	21	32	1.95
6199064--6199106	21	2.0	21	100	0	86	23	9	30	37	1.86
6199737--6199785	21	2.4	20	86	10	64	30	6	26	36	1.81
6203176--6203221	19	2.4	19	100	0	92	30	30	23	15	1.95
6209194--6209237	3	14.7	3	100	0	88	0	31	0	68	0.90
6209776--6209824	21	2.4	20	86	10	64	30	10	26	32	1.89
6210273--6210316	11	4.0	11	100	0	88	54	0	18	27	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6212372--6212441	30	2.3	30	97	0	131	45	12	5	35	1.66
6217612--6217646	13	2.7	13	100	0	70	11	17	0	71	1.14
6220851--6220903	19	2.8	19	80	5	54	32	15	11	41	1.82
6220915--6220961	20	2.4	20	78	3	51	34	19	12	34	1.89
6225069--6225093	5	5.0	5	100	0	50	40	20	0	40	1.52
6228029--6228058	3	10.3	3	92	7	53	30	0	0	70	0.88
6228848--6228888	17	2.4	18	80	12	50	56	2	36	4	1.34
6244823--6244893	36	2.0	36	88	0	106	30	14	14	40	1.85
6244850--6244992	49	2.9	49	89	4	200	24	16	18	40	1.90
6244947--6245141	36	5.4	36	85	1	239	29	12	17	39	1.87
6246298--6246396	42	2.4	42	78	10	112	25	17	7	50	1.71
6260139--6260166	11	2.5	11	100	0	56	67	7	0	25	1.15
6264718--6264769	20	2.6	20	100	0	104	25	15	13	46	1.82
6269240--6269265	2	13.0	2	100	0	52	50	0	50	0	1.00
6271678--6271799	50	2.4	50	83	5	138	18	28	27	25	1.98
6271876--6271900	10	2.5	10	100	0	50	36	28	0	36	1.58
6272992--6273016	12	2.1	12	100	0	50	72	0	28	0	0.86
6275286--6275501	19	12.4	19	77	20	240	46	18	21	13	1.83
6275286--6275501	33	6.2	34	81	15	216	46	18	21	13	1.83
6275371--6275523	33	4.5	33	74	16	159	45	17	22	13	1.84
6275313--6275523	52	4.0	52	99	0	413	45	17	23	13	1.83
6275530--6275647	33	3.4	33	83	14	164	13	24	17	44	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6275530--6275665	73	1.9	71	96	3	254	13	24	17	44	1.85
6275548--6275665	19	6.4	19	87	10	174	14	22	16	45	1.84
6275770--6275806	14	2.6	14	91	0	65	45	21	0	32	1.52
6275872--6275907	12	3.0	12	83	0	54	63	16	0	19	1.30
6276693--6276722	14	2.1	14	100	0	60	56	16	20	6	1.62
6277953--6278009	14	3.7	14	77	20	60	45	22	21	10	1.82
6277934--6278026	33	2.8	33	93	0	159	48	21	19	10	1.79
6277897--6278031	19	7.6	19	75	16	119	46	23	18	11	1.81
6278027--6278155	19	7.3	19	71	17	107	9	16	27	46	1.77
6278027--6278118	33	2.8	33	88	6	125	8	17	27	46	1.77
6278203--6278576	93	4.1	93	97	1	718	45	19	12	22	1.84
6278983--6279030	18	2.7	18	100	0	96	14	12	43	29	1.82
6280301--6280390	14	5.7	14	72	23	72	44	22	24	8	1.81
6280293--6280407	33	3.5	33	100	0	230	46	20	23	9	1.79
6280315--6280412	19	5.7	19	71	22	99	44	21	23	10	1.82
6280424--6280480	14	3.7	14	75	20	60	10	24	21	43	1.83
6280421--6280539	40	3.3	33	84	10	121	11	25	19	43	1.84
6280465--6280539	21	3.7	21	80	7	100	12	25	17	45	1.82
6280433--6280539	21	5.7	19	69	16	80	12	25	17	44	1.83
6280619--6280689	33	2.2	33	94	0	124	47	16	23	11	1.79
6280869--6280923	22	2.5	22	75	0	65	20	16	38	25	1.92
6281070--6281263	20	9.6	20	78	5	194	20	20	24	35	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6281070--6281263	60	3.2	60	84	0	253	20	20	24	35	1.96
6281230--6281327	20	4.8	20	77	3	79	21	18	22	37	1.94
6281230--6281387	61	2.6	60	78	7	169	18	17	24	39	1.92
6281230--6281386	41	3.9	41	70	14	110	19	17	24	38	1.92
6281493--6281533	18	2.3	18	87	4	57	29	7	2	60	1.36
6283212--6283247	18	2.0	18	94	0	63	25	27	22	25	2.00
6283698--6283769	26	3.0	24	68	27	62	26	6	4	62	1.39
6283798--6283884	35	2.5	34	80	12	97	26	8	9	56	1.58
6286769--6286802	12	2.8	12	90	4	50	64	5	2	26	1.30
6289930--6290510	307	1.9	307	84	5	791	37	13	13	35	1.84
6292439--6292490	16	3.3	15	75	17	52	0	15	5	78	0.92
6292456--6292512	25	2.3	24	85	11	71	3	14	3	78	1.01
6292471--6292517	12	4.0	11	81	13	58	4	17	0	78	0.90
6292471--6292535	22	3.0	21	80	6	69	3	21	0	75	0.94
6292498--6292540	17	2.5	17	78	14	52	0	27	0	72	0.85
6295277--6295344	28	2.4	28	97	0	127	25	20	22	32	1.98
6295992--6296166	89	2.0	89	88	0	260	44	6	10	38	1.65
6296849--6296887	20	2.0	20	100	0	78	38	10	15	35	1.81
6309702--6309785	3	28.0	3	95	4	152	66	0	0	33	0.92
6314313--6314700	190	2.0	191	97	1	742	28	15	20	36	1.93
6315446--6315675	112	2.1	112	83	2	284	32	16	16	34	1.92
6317834--6318358	54	9.7	54	86	0	681	28	19	20	31	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6317975--6318060	27	3.2	27	62	28	65	31	16	20	31	1.95
6318664--6318721	22	2.6	22	100	0	116	27	17	15	39	1.90
6322473--6322524	13	3.8	13	76	16	52	46	9	7	36	1.66
6322633--6322665	12	2.8	12	100	0	66	24	36	21	18	1.95
6323459--6323512	24	2.2	24	90	3	81	18	12	14	53	1.72
6332600--6332647	20	2.4	19	89	6	69	77	0	14	8	0.99
6332601--6332648	14	3.3	14	78	16	53	75	0	16	8	1.04
6333753--6333786	2	16.5	2	87	6	50	47	2	2	47	1.32
6334105--6334131	10	2.7	10	100	0	54	18	29	0	51	1.46
6335642--6335698	30	1.9	30	100	0	114	45	3	5	45	1.43

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