genome.fa.s8094.2.7.7.80.10.50.1000.16.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: VEPZ01008094.1 Hibiscus syriacus cultivar Beakdansim tig00110610_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  9952466

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   

This is table  16  of  43  ( 5090 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)
3052138--3052182	20	2.3	19	84	3	54	60	0	2	37	1.09
3053633--3053688	27	2.1	27	100	0	112	28	17	14	39	1.89
3057088--3057155	21	3.3	21	84	12	95	22	19	27	30	1.97
3060153--3060311	82	2.0	81	82	3	194	33	15	20	31	1.93
3064616--3064691	13	5.3	13	77	17	71	15	44	22	17	1.86
3064594--3064670	18	4.6	18	81	15	110	16	50	20	11	1.76
3064598--3064676	31	2.5	31	95	0	149	16	48	21	13	1.81
3064652--3064698	8	6.5	8	77	22	59	14	38	25	21	1.92
3064668--3064699	7	4.4	7	92	7	55	12	34	28	25	1.92
3064652--3064698	15	3.3	15	91	5	71	14	38	25	21	1.92
3067185--3067284	24	4.2	24	74	5	94	22	14	17	47	1.82
3069441--3069516	13	5.3	13	77	17	71	15	44	22	17	1.86
3069419--3069495	18	4.6	18	81	15	110	16	50	20	11	1.76
3069423--3069501	31	2.5	31	95	0	149	16	48	21	13	1.81
3069477--3069523	8	6.5	8	77	22	59	14	38	25	21	1.92
3069493--3069524	7	4.4	7	92	7	55	12	34	28	25	1.92
3069477--3069523	15	3.3	15	91	5	71	14	38	25	21	1.92
3072018--3072112	24	4.0	24	75	5	93	22	14	16	46	1.84
3073004--3073166	43	3.8	42	86	4	218	24	25	19	30	1.98
3073004--3073166	85	1.9	86	84	3	222	24	25	19	30	1.98
3080912--3080962	3	17.7	3	88	8	79	66	0	0	33	0.92
3080912--3080962	23	2.2	23	92	0	84	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)
3081118--3081149	2	16.0	2	100	0	64	50	0	0	50	1.00
3081667--3081718	2	26.0	2	100	0	104	50	0	0	50	1.00
3083540--3083628	31	2.9	31	88	3	117	46	7	2	43	1.45
3085748--3085876	16	8.1	16	82	0	96	48	27	11	12	1.76
3085821--3085914	48	2.0	48	82	4	118	44	30	9	14	1.78
3085763--3085955	32	6.0	31	77	7	111	45	29	11	13	1.79
3086643--3086696	16	3.4	16	75	12	58	29	38	12	18	1.88
3086635--3086776	32	4.5	31	80	7	135	38	29	12	19	1.89
3087434--3087480	23	2.0	23	84	8	60	59	29	8	2	1.39
3090069--3090133	31	2.1	31	85	0	85	50	3	13	32	1.57
3091966--3092057	18	5.3	18	72	17	70	19	47	18	14	1.82
3091970--3092048	31	2.5	31	87	0	113	20	48	17	13	1.81
3092025--3092077	8	7.2	8	80	20	71	15	37	24	22	1.92
3092040--3092077	7	5.1	7	93	6	58	13	34	26	26	1.93
3092025--3092077	15	3.7	15	85	11	67	15	37	24	22	1.92
3094497--3094628	48	2.8	48	76	13	137	21	16	18	42	1.89
3094514--3094628	24	4.8	24	88	6	162	22	17	19	40	1.91
3094565--3094638	24	3.1	24	86	3	78	21	16	18	43	1.88
3096822--3096901	13	6.2	13	77	11	76	17	47	18	16	1.83
3096800--3096881	18	4.6	18	74	17	80	18	53	17	10	1.72
3096818--3096887	36	1.9	36	91	0	113	18	52	15	12	1.74
3096863--3096901	8	5.4	8	77	22	50	15	38	25	20	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3096863--3096909	15	3.3	15	88	5	62	14	36	25	23	1.93
3099342--3099456	24	4.8	24	88	6	162	22	17	19	40	1.91
3099393--3099466	24	3.1	24	86	3	78	21	16	18	43	1.88
3101655--3101730	13	5.3	13	76	17	62	17	46	19	17	1.85
3101633--3101709	18	4.6	18	76	15	92	18	51	18	11	1.75
3101637--3101715	31	2.5	31	91	0	131	17	49	18	13	1.80
3101691--3101730	8	5.5	8	77	22	52	15	40	25	20	1.90
3104182--3104244	12	5.2	12	70	21	51	25	14	22	38	1.92
3104163--3104281	48	2.5	48	86	8	170	23	15	19	41	1.90
3104167--3104281	24	4.8	24	86	6	153	23	16	19	40	1.90
3104218--3104291	24	3.1	24	84	3	87	22	14	18	43	1.87
3106034--3106070	18	2.1	18	89	0	56	24	16	21	37	1.93
3108036--3108108	30	2.4	30	95	0	128	31	23	19	26	1.98
3108094--3108217	31	4.1	31	68	17	89	34	20	17	27	1.95
3109676--3109720	21	2.1	21	87	0	63	15	24	28	31	1.96
3116138--3116202	22	3.0	22	88	0	94	40	12	20	27	1.88
3119161--3119344	92	2.0	92	97	0	350	22	30	16	29	1.96
3120313--3120354	16	2.6	17	81	7	52	59	0	0	40	0.97
3120792--3120849	30	2.0	29	83	10	73	56	10	12	20	1.64
3121925--3121953	3	9.7	3	100	0	58	65	0	0	34	0.93
3125942--3125976	16	2.1	17	89	5	54	54	0	0	45	0.99
3125957--3125991	18	1.9	18	88	0	52	57	2	0	40	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3126351--3126416	30	2.1	33	86	11	93	33	7	9	50	1.62
3126351--3126416	33	2.1	34	83	11	86	33	7	9	50	1.62
3128075--3128100	13	2.0	13	100	0	52	46	0	0	53	1.00
3131430--3131493	26	2.3	27	86	7	85	12	14	4	68	1.35
3133033--3133057	13	1.9	13	100	0	50	80	0	4	16	0.87
3143263--3143309	25	1.9	25	86	4	69	70	4	2	23	1.16
3144825--3144948	52	2.4	52	90	0	185	29	20	14	34	1.93
3144877--3145172	91	3.3	91	95	0	511	22	23	16	36	1.94
3150252--3150318	21	3.0	23	81	12	70	68	2	1	26	1.12
3150253--3150302	18	2.6	19	84	15	59	70	2	0	28	0.99
3150672--3151116	123	3.7	120	86	7	556	26	19	15	38	1.91
3150914--3151134	112	2.0	111	91	4	365	27	19	15	37	1.93
3151417--3151513	22	4.4	22	86	2	131	39	12	14	34	1.83
3152139--3152182	18	2.3	19	92	7	72	56	4	9	29	1.50
3152538--3152574	10	3.6	10	96	3	65	8	8	0	83	0.80
3152531--3152574	11	4.1	11	91	5	72	6	9	0	84	0.79
3163369--3163447	18	4.6	16	73	20	54	74	1	15	8	1.12
3163405--3163479	9	8.7	9	83	16	88	80	0	14	5	0.89
3163405--3163476	17	4.2	16	83	13	74	80	0	13	5	0.88
3163364--3163500	43	3.2	41	82	14	127	75	0	17	6	1.06
3163364--3163476	51	2.2	51	81	6	131	76	0	15	7	1.03
3163386--3163502	25	4.7	23	77	13	81	76	0	17	5	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3163387--3163500	43	2.6	42	83	8	131	76	0	17	5	1.02
3164939--3165244	39	7.9	39	83	4	334	29	18	16	34	1.93
3164934--3165242	78	4.0	78	86	2	376	29	18	16	34	1.93
3165534--3166117	91	6.4	90	81	5	656	37	16	21	24	1.94
3165534--3166117	182	3.2	182	88	1	852	37	16	21	24	1.94
3165541--3166117	273	2.1	273	83	5	729	37	16	22	24	1.94
3165955--3166220	143	1.9	143	87	3	392	34	15	22	26	1.94
3167360--3167396	14	2.6	14	100	0	74	16	27	37	18	1.92
3167762--3167817	29	1.9	29	96	0	103	32	14	3	50	1.60
3168092--3168147	25	2.3	25	84	9	71	28	12	1	57	1.46
3168356--3168410	8	6.5	8	80	12	65	14	3	1	80	0.94
3168332--3168406	35	2.1	35	80	4	80	17	4	4	74	1.12
3168356--3168410	18	3.2	17	82	7	76	14	3	1	80	0.94
3188347--3188530	53	3.4	54	88	2	271	30	16	18	33	1.94
3189157--3189181	2	12.5	2	100	0	50	0	0	52	48	1.00
3194849--3194902	26	2.1	26	89	0	81	24	12	27	35	1.92
3198821--3198871	20	2.5	22	84	12	65	29	23	11	35	1.90
3200368--3200451	10	8.1	10	77	7	87	59	20	11	8	1.58
3201547--3201578	14	2.1	16	88	11	50	50	15	15	18	1.79
3203056--3203105	25	2.0	25	92	0	82	26	28	40	6	1.79
3205914--3206002	27	3.2	27	65	20	74	42	23	12	21	1.86
3205889--3206004	57	2.0	57	98	0	223	43	22	12	21	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3209646--3209719	35	2.1	35	87	0	103	29	29	29	10	1.91
3209800--3209914	24	4.8	24	89	4	169	40	20	14	25	1.90
3209776--3209931	48	3.2	49	80	3	165	44	19	11	24	1.84
3209776--3209931	72	2.2	72	80	4	190	44	19	11	24	1.84
3219921--3219959	18	2.2	18	90	9	62	20	0	0	79	0.73
3219927--3220825	446	2.0	446	98	0	1717	28	12	12	47	1.77
3220859--3220899	19	2.1	20	86	13	59	39	0	0	60	0.96
3224905--3225396	246	2.0	245	98	1	959	31	11	16	40	1.84
3230880--3230919	21	1.9	21	90	10	64	20	22	30	27	1.98
3230878--3230928	21	2.6	19	82	17	61	17	21	29	31	1.96

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