genome.fa.s1465.2.7.7.80.10.50.1000.51.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: VEPZ01001465.1 Hibiscus syriacus cultivar Beakdansim tig00002840_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  11160956

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   

This is table  51  of  55  ( 6520 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)
10167742--10167849	38	2.8	38	83	2	110	40	33	8	17	1.80
10167842--10167907	29	2.3	29	86	5	89	33	25	10	30	1.90
10167926--10167986	28	2.2	28	87	0	86	37	26	9	26	1.87
10167806--10167988	91	2.0	93	84	7	246	38	27	9	25	1.86
10169713--10169794	38	2.1	38	80	14	89	40	2	4	52	1.36
10174140--10174473	31	10.8	31	94	1	546	36	11	12	38	1.80
10179797--10180161	31	11.8	31	90	2	531	36	11	12	39	1.80
10180541--10180601	29	2.1	29	93	0	104	31	1	14	52	1.52
10181337--10181386	4	12.8	4	85	4	66	50	20	2	28	1.59
10184263--10184292	14	2.1	14	93	0	51	50	6	0	43	1.28
10184297--10184334	19	2.0	20	84	5	51	55	2	0	42	1.14
10184374--10184419	14	3.3	14	82	11	58	19	0	30	50	1.48
10184644--10185094	225	2.0	225	96	0	839	33	16	27	23	1.95
10185718--10185760	12	3.7	12	78	6	52	18	18	27	34	1.95
10185708--10185839	23	6.0	23	82	10	141	22	21	26	28	1.99
10185732--10185770	11	3.5	11	79	6	51	23	12	25	38	1.90
10185708--10185821	41	2.6	42	79	8	122	21	23	27	27	1.99
10186709--10186749	21	2.0	21	85	0	55	48	2	0	48	1.14
10195256--10195293	2	19.0	2	100	0	76	50	0	0	50	1.00
10195389--10195598	38	6.1	34	71	19	127	42	8	5	43	1.57
10195434--10195458	13	1.9	13	100	0	50	44	0	8	48	1.32
10195411--10195547	60	2.3	59	85	2	184	40	7	5	46	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10195411--10195547	59	2.3	59	86	5	186	40	7	5	46	1.56
10195498--10195615	34	3.3	34	83	4	119	45	9	2	42	1.49
10210404--10210483	23	3.7	22	82	8	85	22	32	26	18	1.97
10210404--10210465	23	2.7	23	90	2	90	20	32	25	20	1.98
10213018--10213061	23	2.0	23	82	13	56	52	6	2	38	1.41
10232408--10232452	18	2.5	18	96	0	81	13	11	22	53	1.71
10237743--10237800	20	2.7	20	86	10	71	22	22	22	32	1.98
10241780--10241839	20	2.7	22	85	10	79	23	25	20	31	1.98
10245815--10245866	3	17.3	3	79	0	59	63	3	1	30	1.23
10247162--10247206	21	2.1	21	87	0	63	31	28	24	15	1.96
10248013--10248137	31	4.0	31	92	2	198	20	18	23	38	1.93
10255750--10255775	3	8.7	3	100	0	52	69	30	0	0	0.89
10260021--10260081	21	2.9	21	97	0	113	50	24	4	19	1.67
10262225--10262269	21	2.1	21	87	0	63	31	28	24	15	1.96
10262851--10262885	18	1.9	18	88	11	54	54	5	17	22	1.64
10263778--10264094	151	2.1	149	92	3	521	26	17	21	34	1.96
10264062--10264106	23	2.0	23	90	0	72	22	26	26	24	2.00
10267363--10267407	21	2.1	21	87	0	63	31	28	24	15	1.96
10267989--10268023	18	1.9	18	88	11	54	54	5	17	22	1.64
10268922--10269236	149	2.1	149	94	2	544	26	18	21	33	1.96
10269204--10269248	23	2.0	23	90	0	72	22	26	26	24	2.00
10273579--10273613	16	2.2	16	100	0	70	22	28	14	34	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10274378--10274402	10	2.5	10	100	0	50	20	8	8	64	1.46
10279289--10279342	26	2.1	26	100	0	108	22	14	25	37	1.93
10281036--10281068	16	2.1	16	100	0	66	36	27	6	30	1.81
10283644--10283747	53	2.0	53	94	0	181	47	12	18	22	1.82
10285830--10286284	83	5.5	82	71	8	251	32	16	14	35	1.90
10289655--10289695	16	2.6	16	92	0	64	7	65	12	14	1.45
10292988--10293080	3	31.0	3	93	4	161	34	1	0	64	1.01
10294359--10294403	22	2.1	22	88	12	67	28	0	4	66	1.11
10294573--10294826	129	2.0	129	94	0	445	34	6	8	50	1.59
10294880--10294929	23	2.1	24	81	3	57	48	2	2	48	1.24
10295470--10295504	2	17.5	2	100	0	70	48	0	0	51	1.00
10299884--10299915	2	16.0	2	93	0	55	46	0	0	53	1.00
10302551--10302577	12	2.2	12	100	0	54	14	18	37	29	1.91
10302670--10302769	40	2.5	40	79	6	96	36	17	24	23	1.95
10303684--10303845	54	3.0	53	85	3	207	35	14	22	27	1.93
10304213--10304295	22	3.8	22	88	0	112	37	10	13	38	1.79
10304211--10304295	44	1.9	44	87	0	125	36	11	12	38	1.81
10305171--10305267	45	2.2	45	90	0	149	30	22	17	28	1.97
10304952--10305332	119	3.2	119	89	3	617	28	21	20	29	1.98
10305312--10305354	22	2.0	22	90	0	68	39	18	20	20	1.93
10305237--10305439	96	2.1	96	91	3	327	30	18	20	30	1.96
10305333--10305577	118	2.1	118	94	0	427	30	20	20	28	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10305721--10305798	3	26.0	3	84	7	79	37	1	1	60	1.13
10305719--10305798	13	5.8	14	69	12	58	36	1	1	61	1.12
10305719--10305750	16	2.0	16	100	0	64	25	0	0	75	0.81
10305721--10305798	25	3.1	25	77	0	93	37	1	1	60	1.13
10305721--10305811	47	2.0	44	87	10	130	42	2	1	53	1.20
10307262--10307330	23	3.0	23	91	0	111	28	26	24	20	1.99
10307441--10307476	18	2.0	18	100	0	72	33	33	22	11	1.89
10307337--10307700	121	3.0	121	95	0	656	35	24	14	25	1.93
10307367--10307683	62	5.2	62	64	23	172	36	23	14	24	1.93
10307562--10307597	18	2.0	18	100	0	72	33	33	22	11	1.89
10308978--10309021	21	2.1	21	86	0	61	15	27	27	29	1.96
10310330--10310374	22	2.1	22	88	12	67	28	0	4	66	1.11
10310541--10310799	129	2.0	129	96	0	482	35	6	8	49	1.61
10314184--10314234	20	2.5	20	76	17	52	45	0	3	50	1.20
10315682--10315738	29	2.0	29	100	0	114	28	21	38	12	1.89
10315856--10315895	3	13.7	3	84	5	55	62	0	0	37	0.95
10316902--10317051	79	1.9	80	80	4	178	36	5	6	52	1.49
10326005--10326243	120	2.0	119	97	0	451	39	11	18	30	1.86
10329088--10329138	16	2.9	16	80	13	57	1	29	3	64	1.22
10332690--10332742	25	2.1	25	89	0	79	37	32	22	7	1.82
10332921--10332983	31	2.0	32	84	6	85	28	9	9	52	1.65
10344639--10344722	39	2.2	37	91	6	134	59	0	0	40	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10348759--10348784	13	2.0	13	100	0	52	69	0	0	30	0.89
10353641--10353710	26	3.2	20	68	25	52	67	1	1	30	1.08
10354072--10354119	17	2.9	16	84	12	53	56	0	0	43	0.99
10354072--10354104	16	2.0	17	88	5	50	54	0	0	45	0.99
10355952--10355995	20	2.2	20	84	8	54	29	13	25	31	1.94
10359478--10359528	18	2.9	18	79	2	50	35	25	5	33	1.80
10389151--10389365	106	2.0	106	100	0	430	24	13	32	30	1.93
10389292--10389436	71	2.0	73	97	2	276	17	13	37	31	1.89
10392850--10392951	51	2.0	51	96	0	186	30	6	10	51	1.62
10394113--10394693	291	2.0	290	99	0	1144	31	17	18	31	1.94
10398905--10398941	16	2.4	16	95	4	67	21	5	27	45	1.73
10411283--10411419	62	2.2	62	88	3	197	48	7	6	37	1.57
10413201--10413251	23	2.2	23	85	0	66	39	17	5	37	1.74
10414609--10414661	27	2.0	27	88	0	79	45	24	9	20	1.81
10418704--10418849	60	2.4	61	77	8	149	47	5	14	32	1.67
10425644--10425858	114	1.9	114	86	0	304	43	15	8	32	1.77
10428463--10428511	21	2.4	21	96	3	91	55	4	0	40	1.19
10428486--10428889	215	1.9	222	89	3	651	41	16	11	30	1.84
10437908--10437937	15	2.0	15	100	0	60	13	46	26	13	1.80
10440482--10440574	33	2.8	33	71	20	77	54	0	0	45	0.99
10440502--10440575	8	9.0	8	70	16	53	58	0	0	41	0.98
10440511--10440601	26	3.8	24	70	12	71	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10440513--10440579	15	4.3	14	74	22	62	52	0	0	47	1.00
10440494--10440575	33	2.5	32	83	14	114	57	0	0	42	0.98
10440483--10440606	49	2.8	43	75	17	121	51	0	0	48	1.00
10451079--10451127	25	2.0	25	91	0	80	44	22	12	20	1.84
10454142--10454176	2	17.5	2	100	0	70	51	0	48	0	1.00
10462664--10462700	20	1.9	19	89	10	58	45	10	24	18	1.81
10463488--10463549	12	5.3	11	81	14	63	29	0	0	70	0.87
10463485--10463548	3	20.3	3	82	17	53	29	0	0	70	0.88
10463489--10463549	31	2.0	31	87	12	90	29	0	0	70	0.88
10466630--10466890	95	2.7	94	85	5	355	32	17	18	32	1.94

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