genome.fa.s9634.2.7.7.80.10.50.1000.33.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: 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  33  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)
6720733--6720846	19	5.8	20	70	16	62	52	0	0	45	1.12
6720732--6720846	30	3.9	30	87	4	146	52	0	0	46	1.12
6722694--6722722	4	7.2	4	100	0	58	75	0	0	24	0.80
6724217--6725059	135	6.3	134	80	6	852	29	19	14	35	1.92
6724300--6725059	263	2.9	261	83	5	868	29	19	14	36	1.91
6728397--6728421	11	2.3	11	100	0	50	16	0	0	84	0.63
6728516--6728554	20	2.0	20	89	0	60	10	10	2	76	1.10
6730369--6730399	4	7.8	4	92	0	53	74	0	3	22	0.96
6730648--6730703	29	1.9	29	88	0	85	50	5	17	26	1.68
6730650--6730711	29	2.1	29	82	5	72	53	3	16	27	1.58
6732253--6732367	60	1.9	60	83	3	151	33	21	4	40	1.73
6732977--6733057	17	5.4	17	67	27	74	29	11	3	55	1.52
6732978--6733067	29	3.1	29	98	1	171	27	10	3	58	1.46
6735549--6735591	15	2.9	15	80	13	54	27	6	2	62	1.33
6736326--6736381	28	2.0	28	89	6	87	39	5	8	46	1.58
6739846--6739875	2	15.0	2	92	0	51	50	46	0	3	1.18
6740936--6741318	132	2.9	131	82	3	430	30	17	22	29	1.97
6748496--6748526	15	2.1	15	93	0	53	41	12	3	41	1.59
6748494--6748545	17	3.2	17	81	10	63	50	13	1	34	1.53
6754967--6755007	11	3.8	10	87	9	55	41	0	2	56	1.13
6755003--6755063	3	20.3	3	93	0	86	59	0	6	34	1.24
6755062--6755087	3	8.7	3	100	0	52	34	0	0	65	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6755450--6756088	113	5.6	113	87	2	915	27	19	14	39	1.90
6755450--6756082	339	1.9	339	90	2	1009	27	19	13	39	1.90
6758122--6758171	13	3.8	14	80	20	63	0	12	0	88	0.53
6758123--6758174	26	2.0	26	92	3	88	0	11	0	88	0.52
6758129--6758182	12	4.2	13	84	13	69	1	11	0	87	0.63
6758123--6758171	1	49.0	1	79	0	53	0	10	0	89	0.48
6770953--6770993	11	3.8	10	87	9	55	41	0	2	56	1.13
6770989--6771056	3	22.7	3	93	0	118	64	1	0	33	1.02
6777565--6777599	2	17.0	2	94	5	61	48	0	2	48	1.16
6792129--6792312	60	3.1	59	76	9	185	30	24	7	37	1.82
6792452--6792606	60	2.6	60	82	4	179	38	5	23	32	1.77
6795315--6795355	21	2.0	21	85	0	55	26	24	21	26	2.00
6794987--6795389	207	1.9	207	94	0	707	32	21	14	31	1.93
6795408--6795450	19	2.2	18	84	12	50	60	20	6	11	1.54
6798941--6798977	17	2.1	18	90	5	58	48	2	18	29	1.62
6799790--6799827	21	2.0	20	85	15	53	52	7	5	34	1.53
6811998--6812036	21	1.9	21	84	5	53	28	15	20	35	1.93
6814895--6814930	3	12.0	3	93	0	63	36	0	30	33	1.58
6814929--6815035	6	17.8	6	95	0	115	56	0	0	42	1.05
6815615--6816387	240	3.2	241	88	2	1090	34	17	17	31	1.93
6816585--6816719	59	2.3	58	84	2	171	41	14	8	34	1.78
6822117--6822163	3	15.7	3	100	0	94	65	0	0	34	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6827255--6827292	3	12.7	3	100	0	76	68	0	0	31	0.90
6827801--6827872	35	2.1	35	91	0	117	41	18	8	31	1.80
6828884--6829097	38	5.8	38	80	12	241	43	3	7	45	1.48
6828972--6829123	71	2.1	68	83	12	191	44	4	5	45	1.46
6830192--6830257	28	2.3	29	81	2	71	18	10	7	63	1.49
6830345--6830401	25	2.2	25	81	12	62	21	3	3	71	1.15
6830560--6830591	12	2.7	12	100	0	64	31	0	0	68	0.90
6830581--6830623	9	4.8	9	79	0	50	11	0	6	81	0.87
6830616--6830660	23	2.0	23	82	8	56	17	11	4	66	1.38
6835915--6835971	30	1.9	30	96	0	105	40	19	10	29	1.85
6836325--6836502	90	2.0	90	93	0	302	36	11	7	44	1.69
6839722--6839776	9	6.2	9	77	12	51	83	0	9	7	0.81
6839722--6839770	26	1.9	26	84	12	66	83	0	8	8	0.81
6839814--6839862	23	2.2	21	79	13	55	77	6	4	12	1.09
6839831--6839907	28	2.8	28	76	9	70	72	3	2	20	1.12
6840262--6840304	23	1.9	23	85	4	61	23	37	4	34	1.76
6841138--6841177	9	4.3	9	87	12	55	80	0	0	20	0.72
6841192--6841231	20	2.0	21	85	5	55	52	15	0	32	1.43
6841211--6841278	34	2.0	35	82	8	86	50	8	1	39	1.43
6841273--6841605	36	9.4	37	76	19	295	44	5	4	45	1.47
6841224--6841605	72	5.3	73	82	12	366	44	5	4	45	1.47
6841450--6841508	24	2.4	24	97	2	109	45	5	5	44	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6841375--6841580	97	2.1	98	95	3	371	45	5	4	45	1.46
6842083--6843135	80	13.0	80	86	2	1334	23	19	23	33	1.97
6844277--6844528	95	2.6	94	83	6	292	32	16	16	34	1.91
6844845--6844883	19	2.1	19	100	0	78	10	15	28	46	1.78
6848071--6848225	4	37.8	4	66	19	61	72	4	1	20	1.11
6848107--6848174	31	2.4	29	80	17	81	75	1	2	20	1.02
6848071--6848153	21	3.9	21	75	20	59	73	1	2	22	1.02
6848195--6848219	13	1.9	13	100	0	50	80	4	0	16	0.87
6848910--6848936	13	2.1	13	100	0	54	44	22	0	33	1.53
6849524--6849586	12	5.1	13	76	21	57	79	4	1	14	0.97
6849511--6849567	22	2.6	22	84	10	73	82	1	3	12	0.87
6849511--6849579	27	2.6	27	84	11	81	81	2	2	13	0.92
6849631--6850004	34	10.6	35	77	15	289	45	4	3	45	1.41
6849647--6849721	33	2.3	32	83	4	87	48	5	1	45	1.33
6849795--6849859	29	2.3	29	89	2	96	50	3	3	43	1.33
6849770--6849962	66	2.9	64	76	17	196	47	4	3	44	1.41
6849640--6850004	76	5.2	69	78	16	342	46	4	3	45	1.40
6850031--6850068	2	19.5	2	94	5	69	50	0	0	50	1.00
6851518--6851546	2	14.5	2	100	0	58	48	0	0	51	1.00
6854427--6854769	133	2.6	128	82	3	398	26	17	32	23	1.97
6854872--6855054	63	2.9	62	88	4	251	43	15	14	25	1.85
6855136--6855237	33	3.1	33	91	0	168	29	20	17	32	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6860978--6861104	30	4.3	30	69	12	93	55	9	14	20	1.67
6860913--6861125	88	2.4	88	74	12	209	54	8	14	23	1.66
6862552--6862618	3	23.3	3	77	11	61	62	2	0	34	1.10
6862565--6862599	13	2.5	14	90	9	54	71	2	0	25	1.00
6862562--6862593	16	2.0	16	93	0	55	75	3	0	21	0.95
6863320--6863374	16	3.4	16	71	0	56	12	10	30	45	1.77
6863312--6863383	32	2.2	32	85	0	99	11	12	26	50	1.73
6864167--6864266	34	2.9	34	80	7	105	20	25	5	50	1.68
6864222--6864266	17	2.6	18	77	19	51	13	26	8	51	1.70
6864434--6864780	65	5.4	65	83	4	438	32	20	15	31	1.94
6864434--6864780	124	2.7	128	84	5	443	32	20	15	31	1.94
6864434--6864783	189	1.8	190	85	1	497	32	20	15	31	1.94
6877962--6878010	25	2.0	25	100	0	98	32	4	12	51	1.58
6882198--6882298	50	2.0	50	90	0	157	28	16	20	33	1.95
6888329--6888362	3	11.3	3	87	0	50	35	2	0	61	1.11
6891955--6892015	32	1.9	32	89	0	95	19	13	9	57	1.63
6894200--6894239	21	2.0	20	85	5	53	20	17	15	47	1.83
6899203--6899298	40	2.3	41	84	8	115	26	28	15	30	1.96
6905619--6905680	2	31.0	2	100	0	124	50	0	0	50	1.00
6906393--6906430	15	2.5	15	95	0	67	34	23	18	23	1.96
6909664--6909703	21	1.9	21	89	0	62	45	15	25	15	1.84
6913852--6913883	9	3.8	9	84	16	50	25	28	0	46	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6913842--6913881	16	2.5	16	95	0	71	27	22	0	50	1.50
6917701--6917760	23	2.7	23	87	7	79	20	26	26	26	1.99
6927645--6927764	20	5.9	20	75	9	73	42	11	16	29	1.84
6927688--6927747	20	3.1	19	85	7	75	40	11	20	28	1.87
6930553--6930623	36	1.9	37	91	8	119	28	25	9	36	1.88
6931134--6931158	2	12.5	2	100	0	50	48	0	0	52	1.00
6931628--6931694	29	2.3	29	77	10	82	40	2	22	34	1.69
6931624--6931765	70	2.0	72	91	2	234	38	4	23	34	1.74
6933559--6933608	22	2.3	22	96	0	91	44	20	18	18	1.88
6933787--6933827	18	2.3	18	91	0	64	12	19	26	41	1.87

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