genome.fa.s1129.2.7.7.80.10.50.1000.46.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: VEPZ01001129.1 Hibiscus syriacus cultivar Beakdansim tig00002237_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  21326069

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   79   80   
          81   82   83   84   85   86   87   88   89   

This is table  46  of  89  ( 10573 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)
10186149--10186186	20	1.9	20	94	0	67	18	15	34	31	1.92
10194254--10194310	20	2.7	21	78	8	62	21	21	31	26	1.98
10194564--10194910	137	2.5	136	85	1	435	28	15	28	27	1.96
10194908--10195155	36	7.4	35	60	18	96	37	14	18	29	1.90
10194916--10195169	67	3.8	67	89	3	361	39	14	17	28	1.89
10194916--10195169	132	1.9	134	87	3	379	39	14	17	28	1.89
10197776--10197816	17	2.4	17	88	12	57	0	19	9	70	1.14
10201849--10202108	127	2.0	129	90	2	409	45	12	16	24	1.83
10209030--10209065	18	2.1	16	90	10	54	11	36	0	52	1.37
10210240--10210384	47	3.2	46	86	4	181	31	23	6	38	1.80
10210261--10210406	44	3.2	45	80	8	156	33	21	7	36	1.82
10210514--10210595	40	2.0	40	97	0	155	32	25	18	23	1.97
10211768--10211830	29	2.2	30	80	8	76	34	23	4	36	1.76
10214316--10214518	104	2.0	105	87	3	295	40	10	8	39	1.70
10223763--10223810	17	2.8	17	93	0	87	56	6	33	4	1.44
10230428--10230507	26	3.1	26	88	0	115	22	15	26	36	1.93
10251648--10251686	15	2.6	15	88	8	53	61	0	7	30	1.24
10252113--10252146	16	2.2	15	89	5	50	58	0	0	41	0.98
10253499--10253890	55	7.6	52	70	18	198	31	18	19	29	1.96
10253563--10254142	55	11.5	47	69	17	274	32	18	20	28	1.96
10253505--10254191	102	6.7	102	85	3	839	32	19	19	29	1.96
10253661--10253835	46	3.6	46	77	14	181	33	20	19	26	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10253505--10254161	305	2.2	306	89	3	975	32	18	19	29	1.96
10254212--10254372	47	3.6	42	70	14	117	25	21	19	32	1.97
10254186--10254695	90	5.7	90	84	2	612	30	20	19	30	1.97
10254186--10254675	181	2.7	181	84	3	648	30	20	18	30	1.97
10254651--10254742	47	2.0	47	88	0	139	36	15	20	27	1.92
10254559--10254828	137	2.0	137	85	2	373	33	18	19	28	1.96
10254696--10255141	90	5.0	89	83	3	520	31	18	17	32	1.94
10254470--10254894	226	1.9	226	85	2	586	32	18	18	29	1.95
10254696--10255141	178	2.5	178	83	4	551	31	18	17	32	1.94
10255380--10255732	62	5.7	62	84	2	397	36	13	23	26	1.92
10255279--10255472	100	1.9	100	85	2	264	35	12	23	28	1.91
10255598--10255704	33	3.4	32	73	19	107	38	14	22	25	1.91
10255379--10255732	123	2.9	123	82	4	390	36	13	23	26	1.92
10255688--10256053	38	9.5	38	78	3	349	39	16	16	27	1.90
10255688--10256053	77	4.8	76	76	5	295	39	16	16	27	1.90
10255690--10256053	115	3.2	115	83	3	473	39	16	16	28	1.90
10268523--10268575	25	2.2	24	89	3	79	32	20	9	37	1.85
10270180--10270272	45	2.1	45	89	4	143	37	13	21	26	1.91
10276327--10276604	138	2.0	137	85	2	378	39	15	15	29	1.88
10283225--10283478	138	1.8	138	85	1	357	40	16	12	29	1.86
10291735--10291897	65	2.5	64	84	3	220	26	15	26	30	1.96
10291845--10291895	19	2.7	19	85	8	70	25	15	35	23	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10292966--10293009	21	2.1	21	86	0	61	40	15	34	9	1.79
10293793--10293856	21	3.0	21	77	4	67	29	6	42	21	1.78
10304093--10304537	109	4.1	109	94	0	791	33	26	18	21	1.97
10304990--10305061	35	2.1	35	97	0	135	38	11	22	27	1.88
10311480--10311531	26	2.0	25	85	3	68	7	1	15	75	1.12
10311482--10311533	13	4.1	13	78	11	54	7	1	13	76	1.07
10317449--10317583	35	3.9	35	78	0	135	36	11	20	31	1.88
10325212--10325251	21	1.9	21	84	0	53	45	0	22	32	1.53
10326735--10326763	15	1.9	15	100	0	58	48	27	6	17	1.72
10326926--10326968	16	2.9	15	86	6	52	58	0	0	41	0.98
10326888--10327273	183	2.1	184	92	3	638	43	2	7	46	1.46
10329096--10329139	17	2.5	18	88	3	63	45	9	15	29	1.77
10329942--10330230	68	4.2	68	77	8	192	29	18	21	30	1.97
10331951--10332027	31	2.5	31	80	2	91	27	31	27	14	1.95
10331904--10332027	63	2.0	63	82	6	153	25	29	28	16	1.97
10332923--10332978	17	3.3	17	97	0	103	17	25	39	17	1.92
10332980--10333026	9	4.9	10	76	10	53	27	27	25	19	1.99
10332980--10333042	19	3.3	19	90	2	81	26	25	25	22	2.00
10339245--10339321	31	2.5	31	80	2	91	27	31	27	14	1.95
10340184--10340220	7	5.4	7	87	6	58	24	29	27	18	1.98
10340184--10340220	13	2.7	14	87	8	58	24	29	27	18	1.98
10340211--10340301	17	5.4	17	90	0	128	18	24	39	17	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10340299--10340347	19	2.5	19	86	3	62	26	28	24	20	1.99
10342152--10342195	18	2.4	18	96	0	79	34	18	13	34	1.90
10347858--10347954	51	1.9	51	91	0	158	48	6	19	25	1.72
10348256--10348301	24	1.9	24	86	0	65	43	6	41	8	1.61
10352226--10352379	24	6.5	24	80	4	159	26	23	33	16	1.95
10352226--10352379	72	2.2	71	86	3	211	26	23	33	16	1.95
10354565--10354589	12	2.1	12	100	0	50	24	8	8	60	1.52
10356944--10356991	2	24.0	2	82	0	60	47	6	2	43	1.40
10358180--10358240	25	2.4	25	83	0	68	27	21	29	21	1.98
10358988--10359033	17	2.6	18	80	13	60	15	28	28	28	1.96
10361326--10361412	24	3.7	24	81	3	113	29	18	18	33	1.95
10361316--10361419	24	4.4	24	79	2	75	29	15	18	36	1.91
10361484--10361769	57	5.0	57	95	0	491	13	19	32	34	1.91
10367095--10367141	2	24.0	2	95	4	87	48	0	0	51	1.00
10370077--10370183	42	2.6	41	80	2	124	33	22	19	24	1.97
10369877--10370641	257	3.0	257	89	0	1129	33	17	15	33	1.92
10385245--10385430	90	2.1	90	97	0	354	31	5	25	37	1.78
10385292--10385430	44	3.1	44	64	22	108	30	5	25	38	1.78
10386816--10386904	44	2.0	44	93	0	151	41	12	22	23	1.87
10393613--10393742	44	3.0	43	86	4	188	40	12	23	23	1.89
10395906--10395966	21	2.9	21	85	0	68	34	19	13	32	1.90
10398741--10398782	18	2.3	18	83	0	57	28	7	14	50	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10398861--10398936	20	3.7	20	70	6	53	35	25	14	25	1.93
10398998--10399046	22	2.3	22	96	3	91	36	34	14	14	1.86
10400220--10400251	12	2.7	12	95	0	55	71	0	28	0	0.86
10406841--10406879	20	2.0	20	84	0	51	23	7	23	46	1.78
10407031--10407094	23	3.0	21	86	4	65	14	25	34	26	1.94
10407053--10407137	23	3.7	23	96	0	161	21	25	31	21	1.98
10407031--10407159	23	5.9	20	83	7	62	17	25	33	23	1.96
10414312--10414351	21	1.9	21	89	0	62	10	25	40	25	1.86
10414333--10414395	21	2.9	21	83	4	72	15	25	38	20	1.92
10426393--10426462	21	3.4	21	76	4	79	22	17	25	34	1.96
10426410--10426482	20	3.6	20	77	3	83	15	20	24	39	1.91
10426385--10426485	41	2.5	41	93	0	175	20	17	23	37	1.94
10426509--10426533	13	1.9	13	100	0	50	24	20	16	40	1.91
10426620--10426664	5	8.6	5	97	2	72	24	55	20	0	1.43
10427484--10427525	22	1.9	22	85	0	57	30	9	21	38	1.85
10432932--10432991	22	2.7	22	76	0	57	30	8	23	38	1.84
10442210--10442234	3	8.3	3	100	0	50	68	0	32	0	0.90
10442648--10442751	7	14.4	7	70	16	54	76	0	18	3	0.98
10442638--10442709	26	2.8	25	78	14	74	79	0	13	6	0.93
10442692--10442726	5	7.0	5	87	12	54	80	0	17	2	0.84
10442649--10442726	15	5.4	14	73	22	56	79	0	15	5	0.90
10442636--10442724	34	2.6	35	77	20	100	78	0	15	5	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10442639--10442750	16	7.5	14	69	22	52	75	0	18	4	1.02
10444829--10445460	90	7.1	90	86	4	901	26	17	21	34	1.95
10444761--10445460	171	4.0	176	88	4	915	26	16	21	35	1.95
10445520--10445591	36	2.0	36	83	0	90	29	18	8	44	1.78
10445617--10445701	34	2.4	34	90	3	125	25	20	16	37	1.93
10445643--10445768	67	1.9	67	86	6	184	27	19	16	36	1.93
10445617--10445768	36	4.4	36	70	15	117	26	19	16	37	1.93
10446236--10446963	91	8.0	91	92	1	1201	35	16	22	25	1.94
10446879--10447224	119	2.9	118	90	2	532	34	16	24	24	1.95
10447202--10447446	127	1.9	127	90	1	393	29	19	20	30	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   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89