genome.fa.s9634.2.7.7.80.10.50.1000.51.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: VEPZ01009634.1 Hibiscus syriacus cultivar Beakdansim tig00117034_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  17174986

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   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   

This is table  51  of  78  ( 9351 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)
10108094--10108165	36	2.0	36	84	10	94	29	22	16	31	1.96
10108130--10108168	20	2.0	20	90	10	62	25	25	15	33	1.95
10111500--10111524	13	1.9	13	100	0	50	0	12	0	88	0.53
10112359--10112499	76	1.9	76	80	5	169	25	31	14	28	1.95
10114500--10114579	2	40.0	2	100	0	160	50	0	0	50	1.00
10117400--10117443	13	3.3	13	76	17	54	15	20	11	52	1.74
10118714--10118795	8	10.0	8	70	15	51	76	2	18	2	1.00
10118709--10118802	15	5.9	16	77	15	72	75	3	19	2	1.04
10118714--10118802	40	2.3	39	80	5	99	76	2	19	2	1.00
10120018--10120103	36	2.4	37	82	9	106	30	18	12	38	1.88
10120191--10120446	67	3.9	67	79	9	269	25	20	14	40	1.90
10120996--10121030	3	11.7	3	87	0	52	31	2	2	62	1.24
10129150--10129174	13	1.9	13	100	0	50	64	24	8	4	1.38
10130599--10130686	45	2.0	45	90	0	140	27	18	27	27	1.98
10131198--10131252	2	27.5	2	100	0	110	49	0	0	50	1.00
10131390--10131425	2	18.0	2	100	0	72	50	0	0	50	1.00
10131472--10131500	14	2.0	15	93	6	51	62	27	3	6	1.37
10133404--10133483	22	3.6	22	79	5	99	23	25	26	25	2.00
10133382--10133502	43	2.8	42	77	11	129	22	22	28	27	1.99
10133408--10133502	21	4.4	21	77	9	86	24	22	26	27	2.00
10135500--10135532	12	2.8	12	90	0	57	30	27	12	30	1.92
10139334--10139466	45	3.0	45	90	0	203	27	18	26	27	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10139357--10139439	26	3.5	26	67	21	81	28	20	24	26	1.99
10146984--10147031	21	2.3	21	100	0	96	35	20	14	29	1.93
10150716--10150796	41	2.0	42	95	2	146	25	14	19	39	1.90
10151841--10151866	4	6.5	4	100	0	52	76	0	0	23	0.78
10152748--10152794	22	2.1	22	88	0	67	19	38	14	27	1.91
10163361--10163395	17	2.0	17	88	5	52	34	0	0	65	0.93
10163362--10163404	14	3.0	15	86	6	54	37	0	0	62	0.95
10163975--10164047	34	2.1	35	87	10	105	47	1	5	45	1.34
10165479--10165619	30	4.7	30	78	6	124	18	13	13	54	1.71
10171440--10171484	19	2.4	19	85	7	56	35	20	13	31	1.91
10171499--10171565	34	1.9	34	85	8	91	32	23	10	32	1.89
10171725--10171851	64	2.0	64	81	6	150	28	29	13	29	1.94
10171795--10171911	48	2.4	48	97	0	225	31	34	10	23	1.89
10171822--10171900	26	3.2	26	62	20	69	31	35	7	25	1.84
10171893--10171998	43	2.6	40	79	10	108	23	37	18	19	1.94
10172295--10172323	3	9.7	3	100	0	58	34	0	0	65	0.93
10173621--10173661	17	2.3	18	80	16	50	17	0	17	65	1.27
10173730--10173877	60	2.4	61	80	3	174	18	16	10	53	1.72
10173731--10173869	30	4.6	30	81	6	147	19	16	10	53	1.72
10178763--10178856	39	2.4	39	96	1	170	37	18	4	40	1.70
10178787--10178853	22	3.3	22	68	20	72	34	16	4	44	1.68
10179042--10179083	21	2.0	21	86	9	59	28	30	16	23	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10186596--10187047	220	2.0	224	90	5	718	30	18	16	34	1.93
10188453--10188605	75	2.0	76	96	1	281	40	24	16	18	1.91
10192363--10192410	3	16.3	3	95	4	89	68	0	0	31	0.90
10194523--10194818	45	6.6	45	90	2	427	30	22	10	37	1.88
10195242--10195451	96	2.2	97	87	3	300	28	23	16	31	1.96
10195419--10195472	20	2.6	22	86	11	71	27	22	18	31	1.97
10200809--10200834	3	8.7	3	100	0	52	65	0	0	34	0.93
10201426--10201721	45	6.6	45	85	1	344	29	21	9	39	1.85
10201422--10201721	135	2.2	135	86	1	404	29	21	9	39	1.85
10202155--10202207	22	2.4	22	90	0	79	28	24	15	32	1.95
10202171--10202333	75	2.2	76	84	3	204	27	20	17	34	1.95
10203300--10203368	34	2.0	34	100	0	138	28	23	17	30	1.97
10213619--10214071	134	3.4	134	83	3	545	29	16	20	34	1.94
10215293--10215345	19	2.9	18	83	10	72	13	9	0	77	0.99
10215336--10215367	6	5.2	6	92	7	55	0	15	0	84	0.63
10215336--10215367	13	2.5	13	95	5	57	0	15	0	84	0.63
10216807--10216850	18	2.4	18	96	0	79	34	31	4	29	1.78
10224811--10224870	21	2.9	21	92	0	102	25	21	26	26	2.00
10227523--10227547	11	2.3	11	100	0	50	92	8	0	0	0.40
10229188--10229229	18	2.3	18	100	0	84	57	9	0	33	1.31
10229694--10229744	17	2.9	17	85	2	66	1	19	1	76	0.98
10230317--10230352	3	12.0	3	100	0	72	66	0	0	33	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10231173--10231218	24	1.9	24	100	0	92	8	13	23	54	1.66
10231181--10231211	14	2.2	14	94	0	53	6	12	25	54	1.62
10231176--10231231	24	2.3	24	90	0	85	12	10	19	57	1.64
10232248--10232338	10	8.7	10	69	17	60	8	10	21	58	1.59
10232254--10232334	16	5.1	16	93	0	144	7	11	23	58	1.58
10232404--10232434	16	1.9	16	100	0	62	6	12	22	58	1.58
10232641--10232677	19	1.9	19	89	10	58	64	0	0	35	0.94
10236383--10236775	133	3.0	133	82	3	416	30	16	20	33	1.94
10236607--10237151	244	2.3	245	83	3	658	27	15	20	36	1.93
10241300--10241834	89	6.0	89	80	3	553	30	19	17	32	1.95
10241303--10241833	267	2.0	265	88	1	776	30	19	18	32	1.95
10242092--10242185	40	2.4	38	80	7	100	44	9	15	29	1.79
10244090--10244304	97	2.2	97	90	2	333	32	18	15	34	1.92
10249184--10249223	11	3.3	12	86	10	55	60	0	0	40	0.97
10249183--10249228	13	3.6	13	85	11	60	60	0	2	36	1.09
10249540--10249595	29	2.0	28	82	10	69	51	1	12	33	1.50
10250799--10250848	19	2.6	19	100	0	100	30	18	26	26	1.98
10251069--10251105	3	13.0	3	88	11	60	64	0	0	35	0.94
10251069--10251105	14	2.6	14	91	8	58	64	0	0	35	0.94
10251069--10251105	17	2.2	17	100	0	74	64	0	0	35	0.94
10254204--10254245	22	2.0	22	90	4	68	7	14	2	76	1.10
10258420--10258490	35	2.0	35	88	0	106	21	21	4	53	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10262848--10263078	123	1.9	124	90	2	376	38	21	13	26	1.90
10263777--10263874	44	2.3	43	85	5	135	33	7	11	47	1.66
10264980--10265030	24	2.2	23	82	10	59	13	3	3	78	1.03
10268471--10268557	45	1.9	45	92	0	147	24	14	13	47	1.81
10269781--10270176	82	4.8	83	78	4	356	33	17	18	31	1.94
10271054--10271091	15	2.5	15	91	0	67	18	39	28	13	1.88
10271100--10271133	18	1.9	18	94	5	61	20	38	23	17	1.93
10271130--10271163	17	1.9	18	88	5	52	20	20	23	35	1.96
10273627--10273702	31	2.4	31	80	2	89	14	23	31	30	1.94
10283996--10284298	85	3.6	85	81	1	304	26	22	18	33	1.97
10283995--10284298	42	7.1	42	78	3	286	25	22	18	32	1.97
10286157--10286263	38	2.8	38	84	2	135	47	12	15	24	1.80
10287929--10288023	5	18.2	5	76	15	52	73	1	3	22	1.03
10287938--10287987	6	8.5	6	76	10	50	78	2	4	16	1.00
10287933--10288142	23	9.1	22	65	14	75	71	2	5	20	1.17
10287970--10288023	13	4.1	13	78	9	56	74	0	1	24	0.92
10288110--10288137	8	3.5	8	100	0	56	75	0	0	25	0.81
10288386--10288415	5	6.0	5	100	0	60	80	0	0	20	0.72
10288487--10288526	4	9.8	4	83	5	53	72	0	0	27	0.85
10288559--10288594	2	18.0	2	94	0	63	50	2	0	47	1.15
10288633--10288740	44	2.4	45	79	11	107	63	1	2	31	1.19
10289816--10289853	19	2.0	20	84	5	51	39	2	7	50	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10290597--10290921	161	2.0	161	89	0	488	25	20	23	30	1.98
10290431--10290921	80	6.0	80	78	4	439	25	20	22	31	1.98
10290918--10291036	33	3.5	34	90	5	188	29	8	20	42	1.81
10290990--10291140	67	2.2	70	83	10	188	34	13	22	29	1.92
10291091--10291177	37	2.4	37	88	9	133	41	13	19	25	1.88
10291110--10291295	58	3.1	58	74	9	167	41	13	18	26	1.88
10291251--10291327	36	2.1	36	92	0	127	37	12	22	27	1.91
10291769--10291855	32	2.6	36	78	10	103	22	20	27	28	1.99
10291768--10291854	35	2.6	31	78	8	93	21	20	27	29	1.98
10292970--10293152	95	1.9	94	87	3	269	30	15	19	34	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   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78