genome.fa.s1465.2.7.7.80.10.50.1000.29.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  29  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)
5737466--5737499	9	3.7	9	96	4	59	79	0	0	20	0.73
5738857--5739024	84	2.0	84	98	0	327	25	18	16	39	1.91
5743826--5744514	275	2.5	273	83	3	864	33	17	14	34	1.90
5745915--5745974	31	1.9	31	89	0	93	21	26	18	33	1.96
5751567--5751632	28	2.3	29	89	2	98	31	22	9	36	1.86
5751805--5751848	23	1.9	23	85	0	61	31	13	4	50	1.62
5753901--5753928	2	14.0	2	100	0	56	50	0	0	50	1.00
5767893--5768146	67	3.8	66	79	6	262	39	13	16	30	1.87
5767893--5768146	132	1.9	134	82	3	316	39	13	16	30	1.87
5768129--5768354	104	2.2	103	79	8	246	38	11	15	34	1.84
5777091--5777127	16	2.4	15	90	4	56	24	5	0	70	1.08
5788551--5788577	14	1.9	14	100	0	54	37	22	18	22	1.95
5788819--5789252	106	4.0	107	86	2	559	36	22	17	23	1.95
5788819--5789232	213	1.9	215	86	3	584	36	23	16	23	1.94
5790641--5790677	16	2.4	15	90	4	56	24	5	0	70	1.08
5790685--5790728	2	22.0	2	100	0	88	50	0	0	50	1.00
5795241--5795300	32	1.9	32	89	3	95	11	16	28	43	1.83
5798459--5798812	42	8.5	41	75	9	281	24	19	7	47	1.76
5798485--5798813	85	3.9	84	76	10	343	25	20	7	47	1.75
5798756--5798872	60	2.0	60	86	3	164	22	18	10	48	1.78
5798822--5799484	43	15.5	42	72	11	359	25	18	7	48	1.74
5799017--5799344	171	1.9	167	85	4	444	25	21	7	46	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5798482--5799504	526	2.0	512	85	6	1361	25	19	7	48	1.74
5811705--5811779	37	2.0	37	97	0	141	34	18	14	32	1.91
5815619--5815648	4	7.2	4	92	7	51	76	0	0	23	0.78
5815619--5815656	17	2.1	19	90	9	62	73	0	0	26	0.83
5819887--5819937	25	2.0	25	92	0	84	25	1	9	62	1.36
5823922--5823949	2	14.0	2	100	0	56	50	0	0	50	1.00
5824036--5824066	15	2.1	15	94	5	55	58	0	6	35	1.24
5829587--5829635	24	2.0	24	92	0	80	20	10	10	59	1.59
5831257--5831490	36	6.4	37	81	11	250	45	3	5	45	1.43
5831476--5831510	2	17.5	2	100	0	70	51	0	0	48	1.00
5831400--5831582	95	2.0	91	85	5	249	46	2	4	45	1.39
5831494--5831620	38	3.2	40	79	11	122	44	1	5	48	1.35
5831494--5831658	38	4.4	38	72	14	121	43	1	5	49	1.33
5831363--5831620	132	1.9	132	80	8	301	45	3	4	46	1.39
5831666--5831711	3	14.7	3	86	8	65	32	0	0	67	0.91
5832878--5832949	25	2.9	25	73	19	69	11	8	2	77	1.08
5832912--5832959	11	4.4	11	78	17	55	10	8	0	81	0.88
5836724--5836924	95	2.1	95	82	4	235	39	14	14	31	1.86
5838045--5838739	85	8.2	85	88	1	914	33	20	19	26	1.96
5839137--5839230	42	2.3	38	84	10	116	40	1	8	50	1.40
5839167--5839608	39	11.6	37	75	11	308	44	2	6	45	1.45
5839611--5839664	27	2.0	27	85	7	74	27	1	1	68	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5839619--5839673	14	4.2	13	78	17	51	20	3	1	74	1.06
5840874--5840933	23	2.6	21	78	17	57	16	6	1	75	1.10
5845304--5845329	5	5.2	5	100	0	52	61	0	0	38	0.96
5845354--5845421	27	2.5	27	100	0	136	48	8	4	38	1.54
5846090--5846160	20	3.5	20	78	0	88	40	18	19	21	1.91
5846070--5846181	40	2.8	40	68	21	97	37	21	17	23	1.94
5846150--5846199	21	2.5	20	90	3	82	28	28	16	28	1.97
5846171--5846398	57	4.0	57	92	0	375	35	19	15	28	1.93
5847086--5847119	17	2.0	17	88	0	50	23	2	0	73	0.97
5852613--5852752	18	7.8	18	95	1	246	16	26	34	22	1.95
5855093--5855144	2	26.0	2	100	0	104	50	0	0	50	1.00
5856948--5857015	18	3.8	18	92	0	109	17	23	32	26	1.97
5858917--5858966	19	2.6	19	87	3	64	40	26	10	24	1.86
5859528--5859567	20	2.0	20	85	0	53	35	15	22	27	1.94
5860512--5860550	17	2.3	17	91	8	62	38	23	10	28	1.87
5864162--5864271	50	2.2	50	81	3	123	17	29	28	25	1.97
5864393--5864433	10	4.1	10	84	12	57	31	29	0	39	1.57
5864557--5864778	111	2.0	111	92	3	376	36	8	10	45	1.68
5866641--5866693	3	17.7	3	80	0	52	32	22	35	9	1.86
5866644--5866693	9	5.6	9	87	0	73	32	22	36	10	1.87
5866644--5866697	18	3.0	18	88	0	81	31	20	35	12	1.90
5870475--5870584	50	2.2	50	88	0	157	19	30	36	14	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5871531--5871582	27	1.9	27	84	7	70	26	1	9	61	1.38
5878498--5878541	16	2.5	18	85	10	56	47	0	0	52	1.00
5879243--5879291	23	2.1	23	100	0	98	30	14	20	34	1.92
5880202--5880244	18	2.4	18	88	0	59	74	0	6	18	1.04
5880477--5880522	19	2.4	19	92	0	74	41	26	2	30	1.68
5881478--5881538	32	2.0	31	87	6	88	34	26	16	22	1.95
5881462--5881546	30	2.8	30	81	3	98	32	23	18	24	1.97
5883072--5883104	13	2.5	13	100	0	66	42	21	0	36	1.53
5885577--5885616	19	2.1	19	100	0	80	47	20	5	27	1.70
5886561--5886651	32	2.9	30	85	6	119	30	20	21	26	1.98
5890722--5890765	5	9.0	5	90	5	72	77	0	2	20	0.88
5897592--5897621	2	15.0	2	100	0	60	50	50	0	0	1.00
5897644--5897696	6	9.2	6	83	8	65	32	22	0	45	1.53
5897646--5897698	16	3.2	16	84	10	70	32	24	0	43	1.55
5898027--5898113	45	1.9	45	88	4	131	29	19	11	39	1.87
5898065--5898178	37	3.1	37	92	0	183	28	20	14	36	1.91
5898299--5898364	32	2.1	32	100	0	132	46	18	3	31	1.64
5898748--5898788	20	2.1	20	86	4	57	39	14	12	34	1.84
5902574--5902608	13	2.7	13	90	0	52	40	20	25	14	1.90
5902669--5902693	12	2.1	12	100	0	50	32	24	16	28	1.96
5907835--5907880	19	2.4	19	92	0	74	15	34	17	32	1.91
5908936--5909009	37	2.0	37	100	0	148	29	21	10	37	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5910918--5911040	43	2.9	43	87	0	174	30	15	25	29	1.96
5911022--5911056	16	2.2	16	100	0	70	22	11	25	40	1.88
5911038--5911272	42	5.5	43	78	5	217	20	17	24	37	1.93
5917154--5917208	2	29.0	2	89	10	89	52	0	0	47	1.00
5920765--5921155	41	9.4	41	81	3	408	34	17	19	28	1.95
5920765--5921154	125	3.1	124	80	6	421	34	17	19	28	1.95
5920765--5921154	166	2.4	166	85	3	520	34	17	19	28	1.95
5921573--5921747	41	4.3	40	77	9	156	30	16	17	36	1.92
5921589--5921748	82	2.0	81	81	6	189	30	16	16	36	1.91
5926003--5926032	15	2.0	15	93	0	51	30	6	0	63	1.20
5937041--5937101	31	2.0	31	96	0	113	36	16	14	32	1.89
5943769--5943807	17	2.4	17	95	4	71	51	5	0	43	1.24
5950910--5950957	25	1.9	25	83	8	62	12	14	8	64	1.49
5961664--5961691	2	14.0	2	100	0	56	50	0	0	50	1.00
5969489--5969566	33	2.4	32	83	12	88	42	0	0	57	0.98
5969468--5969589	32	4.0	30	75	14	90	39	0	0	59	1.03
5971266--5971370	42	2.5	42	82	0	120	21	36	19	22	1.95
5971916--5972014	34	2.9	34	90	0	162	51	5	5	38	1.46
5972445--5973077	127	5.0	126	91	1	1025	33	20	24	22	1.97
5972445--5973077	253	2.5	254	91	0	1061	33	20	24	22	1.97
5977178--5977218	2	20.5	2	100	0	82	48	0	0	51	1.00
5980384--5980433	19	2.7	18	78	6	64	42	36	10	12	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5984696--5984772	31	2.5	30	78	6	82	29	31	24	14	1.94
5984649--5984772	63	2.0	63	81	12	148	27	29	26	16	1.97
5985641--5985671	7	4.4	7	91	0	53	29	29	25	16	1.96
5985663--5985737	17	4.3	17	81	6	96	16	24	41	18	1.90
5985708--5985735	14	2.0	14	100	0	56	7	21	50	21	1.72
5985731--5985782	20	2.7	19	81	3	59	26	30	25	17	1.97
5990405--5990487	21	3.8	21	74	16	62	16	24	37	21	1.94
5990427--5990488	22	2.8	22	82	9	72	19	24	35	20	1.96
6001036--6001160	31	4.0	31	71	6	92	28	28	26	16	1.97
6001037--6001160	63	2.0	63	82	9	155	27	29	26	16	1.97

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