genome.fa.s7927.2.7.7.80.10.50.1000.3.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: VEPZ01007927.1 Hibiscus syriacus cultivar Beakdansim tig00110333_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  706544

Tables:   1   2   3   4   

This is table  3  of  4  ( 369 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)
491252--491329	27	2.9	27	94	0	129	25	42	20	11	1.86
493167--493194	2	14.0	2	100	0	56	50	0	0	50	1.00
496703--496735	13	2.5	13	90	0	57	21	48	15	15	1.81
496769--496829	24	2.5	26	77	17	69	55	0	0	44	0.99
496787--496826	19	2.1	19	85	0	53	55	0	0	45	0.99
496847--496880	12	2.9	12	95	4	61	32	50	8	8	1.64
498280--498324	18	2.5	18	92	0	81	31	26	6	35	1.82
500406--500465	15	3.8	15	72	16	50	48	1	3	46	1.28
506202--506248	20	2.5	19	80	10	60	14	12	21	51	1.76
507620--507664	23	1.9	24	86	4	65	53	11	17	17	1.72
509095--509145	25	2.0	25	100	0	102	27	7	19	45	1.78
510605--510914	158	2.0	158	96	0	566	28	13	21	35	1.92
512483--512558	13	5.3	13	75	17	62	15	42	22	19	1.89
512461--512537	18	4.6	18	76	15	92	16	48	20	14	1.81
512465--512543	31	2.5	31	87	0	131	16	45	21	16	1.85
512519--512558	8	5.5	8	77	22	52	15	40	25	20	1.90
512519--512565	15	3.3	14	88	5	60	17	38	23	21	1.93
513848--513882	18	1.9	18	88	0	52	54	0	17	28	1.43
516660--516717	13	4.3	13	88	4	80	15	43	22	18	1.88
516678--516717	8	5.5	8	77	22	52	15	40	25	20	1.90
516638--516683	18	2.6	18	96	0	83	17	52	19	10	1.74
516665--516724	13	4.3	14	89	4	61	16	40	21	21	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
518015--518049	18	1.9	18	88	0	52	54	0	17	28	1.43
521132--521170	19	2.1	19	90	4	62	53	0	2	43	1.14
523135--523159	12	2.1	12	100	0	50	16	44	8	32	1.76
524903--524938	18	2.0	18	100	0	72	16	33	16	33	1.92
526889--526964	35	2.2	35	90	0	116	38	25	1	35	1.64
527362--527609	130	1.9	130	91	0	406	36	15	12	35	1.86
527536--527582	23	2.1	21	84	7	58	36	14	14	34	1.88
527376--527640	130	2.0	129	80	4	291	39	13	13	33	1.83
527936--527995	28	2.1	28	84	6	75	46	1	3	48	1.28
533393--533467	36	2.1	36	100	0	150	42	13	8	36	1.73
534643--534799	20	7.8	20	73	6	93	38	25	17	19	1.93
534643--534799	41	3.9	41	70	11	126	38	25	17	19	1.93
534766--534975	20	10.5	20	79	6	192	37	24	18	19	1.94
535657--535703	24	2.0	24	87	8	69	25	14	21	38	1.92
535877--535901	12	2.1	12	100	0	50	72	0	28	0	0.86
538182--538379	33	5.8	33	81	13	192	46	18	21	13	1.82
538210--538398	19	10.7	19	80	16	237	46	16	22	13	1.83
538268--538420	33	4.5	33	74	16	159	45	17	22	13	1.84
538210--538420	52	4.0	52	99	0	413	45	17	23	13	1.83
538427--538542	53	2.2	53	98	1	225	13	24	18	43	1.86
538445--538542	19	5.4	19	84	13	143	14	22	17	45	1.84
540590--540718	19	7.3	19	76	17	116	47	24	17	10	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
540646--540702	14	3.7	14	77	20	60	45	22	21	10	1.82
540627--540718	33	2.8	33	94	0	166	46	21	20	10	1.81
540720--540816	19	5.3	19	78	13	105	9	16	27	46	1.77
540864--541328	91	5.1	93	97	2	877	46	19	12	21	1.83
540864--541328	184	2.5	184	97	1	873	46	19	12	21	1.83
543026--543115	14	5.7	14	70	23	63	44	23	23	8	1.81
543018--543132	33	3.5	33	96	0	212	46	20	22	9	1.79
543040--543137	19	5.7	19	69	22	81	44	22	22	10	1.82
543149--543205	14	3.7	14	75	20	60	10	24	21	43	1.83
543146--543210	33	2.0	33	96	0	121	10	24	20	44	1.83
543189--543266	41	1.9	41	97	0	147	12	25	16	44	1.83
543190--543265	21	3.7	21	83	3	109	11	25	17	46	1.82
543345--543415	33	2.2	33	94	0	124	47	16	23	11	1.79
543597--543651	22	2.5	22	75	0	65	20	16	38	25	1.92
543798--543971	20	8.6	20	82	5	208	19	20	25	34	1.96
543800--543971	60	2.8	60	83	0	236	19	19	25	34	1.96
543939--543992	20	2.7	19	85	5	63	11	16	25	46	1.80
543798--543991	60	3.2	60	82	0	235	19	19	25	36	1.95
553191--553252	31	2.0	31	83	0	79	45	14	16	24	1.84
559391--559440	21	2.4	21	96	0	91	26	20	18	36	1.95
568938--569006	33	2.0	34	91	5	113	36	14	2	46	1.60
572158--572190	2	17.0	2	93	6	59	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
574463--574685	114	1.9	117	83	5	292	30	12	4	52	1.58
577211--577256	2	23.0	2	100	0	92	50	0	0	50	1.00
577899--577924	12	2.2	12	100	0	52	42	0	11	46	1.40
579134--579194	31	2.0	31	90	6	97	40	8	16	34	1.78
579166--579338	39	4.5	39	81	4	206	43	14	11	30	1.81
579166--579326	19	8.3	19	67	15	71	44	14	11	29	1.81
591962--592010	15	3.3	15	84	15	66	51	2	6	40	1.38
594364--594395	2	16.0	2	100	0	64	0	50	0	50	1.00
594395--594430	2	18.0	2	100	0	72	50	0	0	50	1.00
597157--597186	2	15.0	2	100	0	60	0	50	0	50	1.00
597672--597725	28	1.9	28	96	0	99	33	18	7	40	1.78
605470--605494	12	2.1	12	100	0	50	40	24	16	20	1.91
610103--610127	12	2.1	12	100	0	50	40	24	16	20	1.91
616103--616167	30	2.3	27	76	10	67	44	3	0	52	1.16
616353--616451	39	2.7	34	77	17	92	45	2	1	51	1.19
616417--616470	24	2.2	25	87	9	76	42	0	0	57	0.98
631209--631234	3	8.7	3	100	0	52	30	0	0	69	0.89
645214--645255	19	2.2	19	79	12	50	59	0	35	4	1.19
650802--650846	23	2.0	23	81	0	54	28	26	24	20	1.99
652035--652076	19	2.2	19	79	12	50	59	0	35	4	1.19
653203--653231	2	15.0	2	92	7	51	48	0	0	51	1.00
653253--653287	12	2.8	12	86	4	52	11	20	45	22	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
653254--653293	13	3.2	13	85	3	55	17	17	42	22	1.89
662212--662251	20	2.0	20	90	0	62	55	2	5	37	1.35
663527--663582	3	19.0	3	85	10	80	33	0	0	66	0.92
663527--663589	16	4.0	16	86	8	76	34	1	0	63	1.04
663527--663589	33	1.9	33	83	6	83	34	1	0	63	1.04
663655--663703	25	2.0	25	100	0	98	36	22	16	24	1.94
667127--667188	32	2.0	32	96	3	117	14	14	9	61	1.57
669621--669698	26	3.2	25	66	22	67	25	23	8	42	1.83
672027--672096	36	2.0	34	83	5	86	32	15	10	41	1.81
671887--672277	196	2.0	197	89	4	603	31	15	11	41	1.82
672222--672341	35	3.3	36	79	12	120	35	16	11	36	1.85
672444--672525	36	2.3	36	77	8	87	36	18	13	31	1.89
673049--673155	29	3.8	29	85	6	141	25	10	14	49	1.75
673148--673269	37	3.5	36	72	19	123	31	13	10	44	1.77
673132--673287	67	2.3	67	94	0	267	30	12	10	45	1.77
673630--673696	28	2.4	28	92	2	107	35	8	13	41	1.76
673747--673821	35	2.1	36	85	7	100	36	18	10	34	1.86
674090--674143	28	1.9	28	85	7	74	22	16	16	44	1.86
674207--674539	43	7.7	43	73	11	184	25	30	19	24	1.98
674155--674497	129	2.7	129	93	1	589	25	29	20	24	1.99
674697--674742	3	16.0	3	86	8	69	34	0	0	65	0.93
674815--674863	25	2.0	25	100	0	98	36	22	16	24	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
679499--679545	18	2.8	17	78	18	53	31	42	10	14	1.80
681390--681453	33	1.9	33	84	6	85	21	28	18	31	1.97
681498--681622	27	4.4	27	75	13	99	24	35	12	28	1.91
681672--681727	27	2.1	27	93	0	94	32	16	28	23	1.96
683426--683459	16	2.1	17	88	5	52	35	0	0	64	0.94
683573--683613	19	2.3	19	87	8	59	75	0	7	17	1.02
689077--689115	20	2.0	20	90	5	62	58	5	0	35	1.20
690429--690549	3	41.0	3	85	1	156	66	0	2	31	1.05
690462--690564	12	8.9	11	78	14	59	64	0	4	31	1.15
690799--691325	119	4.5	116	93	3	841	28	20	13	37	1.90

Tables:   1   2   3   4