genome.fa.s9175.2.7.7.80.10.50.1000.33.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: VEPZ01009175.1 Hibiscus syriacus cultivar Beakdansim tig00112738_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10629029

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   

This is table  33  of  51  ( 6037 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)
6643078--6643146	30	2.3	30	100	0	138	30	8	5	55	1.54
6646047--6646086	21	1.9	21	89	0	62	27	2	35	35	1.71
6646578--6646616	20	2.0	20	84	0	51	23	5	23	48	1.70
6646767--6646846	21	3.8	20	76	14	72	16	25	35	23	1.95
6646765--6646848	20	4.0	21	73	11	73	16	25	33	25	1.96
6653791--6653913	37	3.4	36	78	7	126	39	12	19	28	1.88
6653931--6653981	18	2.8	19	74	11	54	39	5	21	33	1.78
6655931--6656090	64	2.5	63	82	6	189	35	18	20	26	1.95
6656693--6656784	31	3.0	31	75	3	96	27	17	20	34	1.95
6660124--6660283	64	2.5	63	86	6	207	35	20	20	25	1.96
6660939--6661011	30	2.4	30	81	2	83	20	17	26	35	1.95
6661952--6662137	95	2.0	94	85	5	250	32	17	17	33	1.93
6666300--6666344	18	2.4	18	81	7	54	71	2	2	24	1.09
6670511--6670865	178	2.0	178	92	1	595	29	23	11	35	1.90
6671621--6671773	31	4.9	31	82	0	171	28	29	27	15	1.96
6671622--6671773	62	2.5	62	88	0	214	28	29	27	14	1.95
6671622--6671790	62	2.7	62	86	0	203	28	28	27	14	1.95
6676789--6676830	5	8.4	5	100	0	84	40	19	0	40	1.51
6682183--6682221	6	6.5	6	96	0	69	12	17	48	20	1.80
6682500--6682554	22	2.5	22	75	0	56	29	9	23	38	1.85
6688038--6688086	5	9.8	5	84	0	62	6	40	34	18	1.75
6688045--6688086	15	2.8	15	96	0	75	7	40	38	14	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6688084--6688114	6	5.2	6	92	0	53	0	12	48	38	1.42
6688385--6688439	22	2.5	22	75	0	56	29	9	23	38	1.85
6691749--6691790	20	2.2	19	87	12	59	42	0	0	57	0.99
6694399--6694483	2	42.5	2	97	0	161	49	0	0	50	1.00
6696243--6696277	18	1.9	18	88	0	52	28	2	0	68	1.04
6696340--6696419	22	3.7	23	67	21	66	51	3	1	43	1.27
6696413--6696459	24	2.0	23	84	15	62	63	2	0	34	1.06
6696561--6696632	21	3.7	19	78	17	76	55	1	1	41	1.17
6697076--6697106	15	2.1	15	93	0	53	32	12	29	25	1.93
6697416--6697449	14	2.4	15	85	14	54	47	11	11	29	1.76
6698348--6698378	15	2.1	15	100	0	62	35	6	32	25	1.82
6706414--6706448	2	17.5	2	100	0	70	48	0	0	51	1.00
6713517--6713688	57	3.0	57	92	0	272	34	31	20	13	1.92
6716231--6716260	10	3.0	10	95	0	51	23	20	20	36	1.95
6718260--6718431	57	3.0	57	93	0	281	36	31	19	13	1.90
6722021--6722177	60	2.7	58	79	5	174	35	5	23	35	1.77
6722429--6722489	29	2.1	28	82	8	70	57	4	0	37	1.20
6724660--6724699	2	20.0	2	100	0	80	50	0	0	50	1.00
6725160--6725195	2	18.0	2	100	0	72	50	0	0	50	1.00
6726120--6726154	3	11.7	3	93	0	61	65	0	2	31	1.07
6731076--6731134	31	1.9	31	100	0	118	42	28	11	16	1.84
6732927--6733055	8	17.6	7	72	20	63	44	1	3	49	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6732936--6733055	14	9.7	12	72	20	56	45	1	4	48	1.31
6732982--6733054	2	37.5	2	84	15	100	49	0	2	47	1.15
6734681--6734793	23	4.6	23	71	20	70	48	2	2	46	1.30
6734724--6734810	2	45.0	2	78	15	76	49	1	3	45	1.26
6734723--6734766	7	6.0	7	82	10	52	50	0	2	47	1.13
6734730--6734820	44	2.1	45	78	13	111	49	1	3	46	1.25
6734724--6734810	21	4.2	22	71	18	87	49	1	3	45	1.26
6734726--6734849	23	5.7	21	71	21	69	47	1	4	46	1.31
6734972--6735005	17	2.0	17	100	0	68	41	0	5	52	1.25
6736644--6736700	20	2.8	20	94	0	96	31	17	10	40	1.84
6739507--6739531	13	1.9	13	100	0	50	16	20	16	48	1.82
6742366--6742685	43	7.4	43	76	4	277	31	21	20	26	1.98
6742366--6742747	86	4.4	86	74	4	295	31	21	21	24	1.98
6742366--6742745	129	2.9	130	78	6	362	32	21	21	24	1.98
6742980--6743139	2	85.0	2	70	18	76	51	1	2	44	1.26
6742960--6743141	18	10.8	17	67	19	80	50	2	2	45	1.26
6743141--6743212	37	2.0	37	87	12	107	31	0	8	59	1.27
6749298--6750238	201	4.7	201	95	0	1686	35	14	18	31	1.91
6750526--6750568	15	2.6	17	82	14	54	25	39	0	34	1.56
6752029--6752093	14	4.6	14	94	1	112	44	13	12	29	1.81
6755282--6755331	23	2.2	23	100	0	100	34	24	8	34	1.84
6755206--6755368	87	1.9	87	97	0	308	33	16	11	38	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6757780--6757809	2	15.0	2	100	0	60	50	0	0	50	1.00
6757826--6757909	45	1.9	45	87	4	127	40	11	20	27	1.87
6770252--6770290	20	2.0	20	90	10	62	15	30	30	23	1.95
6770767--6770847	43	1.9	41	82	9	101	46	4	18	29	1.70
6771058--6771117	21	3.0	21	83	11	81	23	23	28	25	2.00
6774530--6774652	60	2.0	60	98	0	237	34	24	18	21	1.96
6777941--6777965	8	3.1	8	100	0	50	12	52	0	36	1.39
6778715--6778779	27	2.4	27	79	5	69	67	1	3	27	1.14
6778796--6778854	25	2.4	25	82	5	66	42	10	1	45	1.48
6778819--6778918	38	2.6	39	87	9	152	44	11	1	44	1.46
6780700--6780724	5	5.0	5	100	0	50	80	20	0	0	0.72
6782092--6782124	16	2.1	16	100	0	66	60	0	0	39	0.97
6782146--6782197	20	2.6	20	80	16	63	63	1	11	23	1.37
6782146--6782212	18	3.5	18	77	15	62	64	2	8	23	1.37
6782985--6783098	58	1.9	60	84	7	153	37	2	1	57	1.23
6784793--6784980	65	2.9	64	83	7	213	28	21	17	31	1.96
6784821--6784999	65	2.8	65	83	5	168	29	23	17	29	1.97
6786922--6786961	21	1.9	21	90	10	64	57	7	5	30	1.48
6790759--6790815	24	2.6	21	74	15	60	31	22	19	26	1.98
6790758--6790833	21	3.5	22	75	16	68	32	22	19	25	1.97
6790759--6790853	45	2.1	44	84	9	122	29	24	20	26	1.99
6790779--6790859	23	3.6	22	74	14	76	27	24	20	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6793338--6793525	65	2.9	64	82	7	204	27	22	17	31	1.97
6793366--6793544	65	2.8	65	82	5	159	28	24	17	29	1.97
6793793--6793846	27	2.0	27	100	0	108	37	25	14	22	1.93
6794764--6794820	24	2.4	24	93	0	96	29	22	22	24	1.99
6794830--6794862	17	1.9	17	93	0	57	30	30	12	27	1.92
6799366--6799410	7	6.4	7	81	0	54	42	33	0	24	1.55
6799367--6799407	21	2.0	21	95	0	73	43	31	0	24	1.54
6799860--6799922	11	5.9	11	69	14	51	39	3	1	55	1.25
6810192--6810259	31	2.2	31	84	5	84	27	22	14	35	1.93
6810202--6810268	31	2.2	31	91	5	109	22	23	16	37	1.94
6812183--6812248	31	2.1	31	91	0	105	36	15	28	19	1.92
6814239--6814300	23	2.8	22	75	4	54	43	24	11	20	1.85
6816481--6816545	30	2.3	27	76	10	67	44	3	1	50	1.26
6825027--6825146	35	3.3	36	88	6	172	43	19	5	32	1.72
6825075--6825138	20	3.4	20	66	29	59	45	18	4	31	1.70
6829208--6829240	16	2.1	16	94	0	57	33	27	6	33	1.81
6829650--6829769	35	3.3	37	84	6	156	42	18	5	33	1.74
6835443--6835468	6	4.3	6	100	0	52	34	46	19	0	1.50
6835465--6835501	5	7.6	5	96	3	67	37	21	40	0	1.54
6836228--6836500	42	6.5	42	93	0	474	35	23	19	20	1.96
6836232--6836569	42	8.2	38	89	3	127	36	22	19	21	1.96
6836565--6836617	21	2.5	21	93	0	88	16	20	32	30	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6842836--6842867	3	10.7	3	100	0	64	0	31	0	68	0.90
6842810--6842923	56	2.0	56	100	0	228	12	22	15	49	1.78
6842892--6842933	3	14.0	3	100	0	84	0	33	0	66	0.92
6842967--6843000	3	11.3	3	100	0	68	0	35	0	64	0.94
6842900--6843069	67	2.5	67	93	3	279	19	24	1	54	1.51
6843029--6845140	3	712.0	3	82	11	1880	5	28	2	63	1.30
6845902--6845946	23	2.0	23	86	0	63	37	20	11	31	1.87
6846687--6846720	13	2.5	14	90	4	52	58	2	5	32	1.37
6848644--6849094	117	3.9	116	79	8	474	25	22	14	37	1.92
6848644--6849059	228	1.8	228	85	2	593	25	23	14	37	1.93

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