genome.fa.s8620.2.7.7.80.10.50.1000.50.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: VEPZ01008620.1 Hibiscus syriacus cultivar Beakdansim tig00111582_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  13158977

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   56   57   58   59   60   61   62   63   64   

This is table  50  of  64  ( 7674 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)
10173983--10174043	22	3.0	22	76	18	76	29	29	18	22	1.97
10174292--10174327	2	18.0	2	100	0	72	50	0	0	50	1.00
10178301--10178394	47	2.0	47	100	0	188	25	27	12	34	1.92
10181034--10181085	5	10.0	5	77	8	50	21	0	3	75	0.97
10181034--10181080	16	2.9	16	83	0	67	19	0	4	76	0.95
10181145--10181184	17	2.3	17	87	12	55	47	7	0	45	1.31
10187417--10187474	16	3.6	16	95	0	98	55	29	1	13	1.49
10188372--10188635	107	2.4	107	82	2	296	33	22	19	25	1.97
10188760--10188798	3	13.0	3	100	0	78	33	0	0	66	0.92
10190342--10190376	2	17.5	2	87	0	52	51	0	2	45	1.16
10190807--10190846	17	2.3	17	87	12	55	45	10	0	45	1.37
10193339--10193400	24	2.4	27	75	17	69	43	3	1	51	1.27
10193346--10193413	24	2.8	24	78	17	68	47	4	4	44	1.43
10196201--10196236	18	2.1	17	89	5	54	58	8	11	22	1.59
10195983--10196444	178	2.6	179	86	4	641	42	13	16	27	1.86
10196371--10196408	20	1.9	20	100	0	76	52	13	15	18	1.74
10198579--10198644	21	3.1	21	91	2	96	42	10	30	16	1.82
10198934--10198981	15	3.3	14	78	18	53	52	0	43	4	1.20
10200530--10200578	19	2.6	19	96	0	89	32	2	10	55	1.45
10200697--10201664	200	4.9	200	95	1	1720	36	14	17	30	1.90
10202957--10203121	83	2.0	82	98	1	321	32	19	15	32	1.93
10203210--10203284	3	25.0	3	86	0	105	34	4	33	28	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10204482--10205971	183	8.1	183	94	1	2576	35	14	16	33	1.89
10204482--10205971	733	2.0	730	94	2	2601	35	14	16	33	1.89
10208426--10208490	25	2.6	25	97	0	121	40	10	12	36	1.78
10208778--10208849	23	3.2	23	88	4	110	33	5	22	38	1.77
10209260--10209309	23	2.2	23	92	0	82	34	6	22	38	1.78
10208801--10210182	460	3.0	463	93	4	2324	40	8	11	40	1.71
10209722--10209789	23	3.0	23	93	0	118	33	5	22	38	1.78
10210970--10211052	36	2.3	36	93	4	141	18	8	27	45	1.78
10214874--10214915	21	2.0	21	100	0	84	28	19	14	38	1.90
10219422--10219453	2	16.0	2	93	0	55	46	0	0	53	1.00
10219550--10219583	12	2.7	13	86	9	52	44	8	5	41	1.60
10221959--10222028	36	1.9	36	85	5	97	20	8	21	50	1.74
10227706--10227774	33	2.2	32	84	5	86	42	5	5	46	1.52
10229533--10229693	79	2.0	80	98	1	315	44	3	4	46	1.42
10233531--10233628	6	16.5	6	83	1	90	72	0	5	22	1.04
10233584--10233628	9	5.0	9	84	10	56	73	0	0	26	0.84
10233825--10233895	28	2.5	28	93	2	115	38	8	18	35	1.81
10237932--10238059	64	2.0	64	100	0	256	40	25	9	25	1.85
10242031--10242409	196	2.0	182	91	8	616	28	18	23	29	1.98
10260322--10260390	26	2.7	26	78	13	79	2	17	1	78	0.95
10260331--10260453	14	8.2	15	68	25	66	1	18	2	77	0.97
10260326--10260469	8	16.9	8	74	15	87	1	18	2	77	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10260322--10260468	59	2.4	61	83	11	171	1	19	2	76	0.97
10260396--10260453	23	2.6	23	80	2	64	0	18	3	77	0.91
10260352--10260472	5	24.0	5	73	20	69	0	19	3	77	0.90
10263797--10263897	45	2.2	45	82	6	116	32	18	16	31	1.94
10271680--10271713	4	8.2	4	93	6	59	73	0	2	23	0.97
10271797--10271863	29	2.3	30	76	5	75	71	7	0	20	1.10
10272022--10272103	19	4.0	19	69	17	56	62	2	3	31	1.26
10272584--10272689	37	2.9	37	86	0	149	30	14	15	40	1.86
10273418--10275002	106	15.0	107	88	2	2222	23	18	23	34	1.96
10275580--10275640	24	2.5	24	91	0	95	40	3	19	36	1.68
10275832--10275908	22	3.5	22	94	0	136	20	12	27	38	1.89
10276516--10276596	20	3.9	20	79	17	85	1	12	4	81	0.91
10276516--10276597	7	11.6	7	80	11	78	1	12	4	81	0.90
10276539--10276597	31	1.9	31	86	6	84	0	15	3	81	0.82
10281120--10281146	2	13.5	2	100	0	54	51	0	0	48	1.00
10281164--10281217	21	2.8	18	81	15	56	62	3	3	29	1.29
10281168--10281218	18	2.6	19	79	11	59	62	3	3	29	1.31
10281396--10281455	20	3.2	19	77	13	61	63	0	1	35	1.05
10281984--10282086	37	2.8	37	84	0	134	30	15	11	42	1.82
10288521--10288589	34	2.1	32	86	5	93	23	28	15	31	1.95
10288938--10289019	20	4.1	20	90	7	130	13	29	37	19	1.90
10290408--10290455	20	2.5	19	83	12	62	29	12	4	54	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10291580--10291655	30	2.5	30	95	2	134	19	5	32	42	1.74
10291763--10291823	20	3.1	20	92	4	106	14	29	37	18	1.90
10293263--10293345	23	3.7	23	74	11	82	25	25	25	24	2.00
10295205--10295413	65	3.2	65	82	9	223	33	22	17	26	1.96
10295253--10295413	65	2.5	64	88	5	236	32	21	18	27	1.96
10295375--10295411	18	2.1	18	90	10	58	37	16	13	32	1.87
10295472--10295527	21	2.7	21	85	0	85	23	25	21	30	1.99
10301802--10301845	18	2.4	18	100	0	88	18	52	20	9	1.72
10301824--10301867	12	3.3	13	84	12	54	15	40	25	18	1.90
10301842--10301872	7	4.3	7	92	8	53	16	29	29	25	1.96
10301844--10301872	15	1.9	15	100	0	58	13	31	27	27	1.94
10303195--10303230	18	2.0	18	88	0	54	52	0	16	30	1.44
10304339--10304453	24	4.8	24	85	9	146	24	16	19	40	1.91
10306155--10306209	22	2.7	21	81	15	62	49	0	1	49	1.11
10306182--10306211	15	1.9	16	93	6	53	53	0	0	46	1.00
10309017--10309059	22	2.0	21	82	13	52	2	23	2	72	1.08
10310133--10310266	29	4.7	27	75	16	119	41	5	5	47	1.48
10310133--10310266	58	2.3	57	83	6	171	41	5	5	47	1.48
10310160--10310322	87	1.9	88	80	6	197	41	5	4	48	1.48
10313470--10314137	55	12.1	55	89	5	356	28	25	16	30	1.96
10313431--10314137	110	6.4	110	90	3	1079	28	25	16	30	1.96
10313431--10314137	276	2.6	275	92	2	1129	28	25	16	30	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10331706--10331755	25	2.0	25	96	0	91	42	14	12	32	1.82
10334030--10334131	41	2.4	41	83	8	107	20	7	22	49	1.75
10334056--10334142	41	2.0	44	93	6	153	20	5	25	48	1.72
10336043--10336259	107	2.0	107	99	0	425	24	15	20	39	1.91
10340223--10340311	32	2.8	32	87	0	115	29	11	29	30	1.91
10340260--10340359	32	3.1	32	82	2	112	26	13	28	33	1.93
10340341--10340419	32	2.9	26	75	22	81	31	17	25	25	1.97
10340349--10340473	32	3.9	32	87	0	178	31	17	21	29	1.96
10344293--10344350	24	2.5	24	82	2	73	22	10	15	51	1.73
10344308--10344397	24	3.8	24	80	0	90	22	10	16	51	1.74
10346996--10347030	8	4.4	8	92	0	61	14	20	0	65	1.26
10348719--10348881	65	2.5	65	78	9	172	34	19	22	23	1.96
10348869--10348926	20	2.6	22	89	10	84	31	20	22	25	1.98
10351235--10351286	23	2.3	23	77	6	54	23	17	23	36	1.95
10351442--10351469	2	14.0	2	100	0	56	50	0	0	50	1.00
10352391--10352459	23	3.0	23	80	0	84	20	23	24	31	1.98
10352489--10352522	17	2.1	17	88	5	52	32	23	5	38	1.79
10366613--10366657	20	2.2	21	88	4	65	57	2	2	37	1.23
10367475--10367506	11	2.9	11	100	0	64	0	0	9	90	0.45
10368056--10368196	3	46.7	3	88	1	210	63	0	2	33	1.14
10368516--10369980	113	13.0	113	94	1	2035	28	18	15	37	1.92
10375085--10375128	6	7.3	6	82	10	54	0	20	0	79	0.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10375085--10375128	17	2.4	19	85	7	56	0	20	0	79	0.73
10379117--10379154	15	2.8	13	88	11	51	68	2	5	23	1.23
10379884--10379928	20	2.2	21	88	4	65	57	2	2	37	1.23
10381315--10381467	3	50.7	3	85	3	209	64	0	2	32	1.12
10381496--10381600	32	3.3	32	79	11	126	25	19	23	31	1.98
10381910--10381937	2	14.0	2	100	0	56	50	50	0	0	1.00
10385322--10385370	18	2.8	17	78	6	62	38	10	14	36	1.80
10385377--10385435	17	3.5	17	85	0	82	40	13	6	38	1.71
10390539--10390622	17	4.9	17	82	0	87	39	15	5	39	1.72
10393753--10393829	31	2.5	31	75	14	77	18	20	19	41	1.90

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   56   57   58   59   60   61   62   63   64