genome.fa.s7999.2.7.7.80.10.50.1000.42.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: VEPZ01007999.1 Hibiscus syriacus cultivar Beakdansim tig00110450_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  11700749

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   

This is table  42  of  50  ( 5918 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)
9915494--9915526	2	16.5	2	100	0	66	51	0	0	48	1.00
9916412--9916485	27	2.8	27	95	2	132	35	14	2	47	1.59
9916860--9916984	64	1.9	65	85	7	175	31	22	18	28	1.97
9920978--9921002	13	1.9	13	100	0	50	32	8	8	52	1.60
9927659--9927740	38	2.2	38	97	0	155	30	13	25	30	1.94
9932843--9932876	12	2.8	12	90	0	50	47	17	14	20	1.83
9933655--9933725	31	2.3	31	90	0	106	40	19	16	22	1.91
9938766--9939201	221	2.0	220	93	1	748	39	5	16	39	1.70
9941543--9941611	32	2.2	32	97	0	129	24	17	26	31	1.97
9944460--9944494	18	1.9	18	88	0	52	45	0	0	54	0.99
9944566--9944625	2	30.0	2	100	0	120	50	0	0	50	1.00
9945030--9945093	26	2.5	26	87	5	85	39	18	1	40	1.60
9947778--9947812	14	2.6	14	90	4	54	54	2	8	34	1.46
9948245--9948327	23	3.8	21	80	13	96	21	22	28	26	1.99
9948245--9948326	22	3.7	22	78	9	87	21	23	29	25	1.99
9952048--9952087	21	1.9	21	89	0	62	30	7	7	55	1.56
9954889--9954930	22	1.9	22	90	0	66	45	2	0	52	1.13
9954879--9954977	31	3.3	30	76	10	94	47	2	1	49	1.19
9954896--9954961	8	8.6	8	74	15	50	54	1	0	43	1.09
9954920--9954973	23	2.3	23	78	6	56	57	1	1	38	1.20
9955436--9955464	12	2.3	13	94	5	51	68	0	0	31	0.89
9958405--9958879	85	5.6	85	82	1	522	28	16	19	35	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9958761--9959017	139	1.9	137	82	1	325	28	16	20	34	1.94
9960605--9960821	95	2.4	85	78	14	256	28	21	18	31	1.97
9960642--9960828	95	2.0	95	91	0	302	28	20	17	33	1.95
9964767--9964852	20	4.2	20	70	16	52	70	1	8	19	1.18
9970154--9970192	2	19.5	2	100	0	78	51	0	0	48	1.00
9971495--9971593	35	2.8	35	81	4	110	22	20	15	42	1.89
9971528--9971654	35	3.8	35	72	10	129	22	18	14	44	1.87
9979660--9979698	16	2.4	17	86	4	53	17	10	7	64	1.48
9985422--9985753	168	2.0	168	92	1	558	19	27	9	43	1.83
10008684--10008718	17	2.0	18	94	5	63	42	28	5	22	1.76
10011610--10011647	20	1.9	20	88	0	58	36	10	18	34	1.85
10011773--10011886	35	3.3	35	87	2	149	20	23	20	35	1.95
10012515--10012541	13	2.1	13	100	0	54	40	7	22	29	1.81
10013354--10013394	14	2.9	14	92	0	64	34	17	14	34	1.90
10015344--10015448	54	1.9	56	92	3	178	22	13	18	45	1.84
10021267--10021350	41	2.0	41	95	0	150	41	20	11	26	1.86
10021967--10021995	14	2.0	15	93	6	51	62	0	0	37	0.96
10023046--10023090	13	3.5	13	81	3	56	66	0	4	28	1.11
10026622--10026649	13	2.2	13	100	0	56	46	14	7	32	1.71
10037853--10037912	28	2.2	26	82	11	68	20	3	18	58	1.53
10038271--10038308	11	3.5	11	92	3	60	39	0	0	60	0.97
10044119--10044428	151	2.0	153	91	1	507	40	6	8	45	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10045862--10045913	2	26.0	2	100	0	104	50	0	0	50	1.00
10050643--10050681	11	3.7	10	83	10	51	79	7	12	0	0.93
10050638--10050686	21	2.3	21	86	6	73	79	6	14	0	0.91
10050636--10050692	21	2.5	22	80	13	71	78	7	14	0	0.94
10050630--10050681	16	3.3	15	82	12	61	78	7	13	0	0.94
10050638--10050699	21	2.9	22	78	9	65	77	8	12	1	1.06
10050636--10050693	19	3.1	19	76	14	75	79	6	13	0	0.93
10050629--10050699	37	1.9	37	94	0	124	76	9	12	1	1.09
10052478--10052548	37	1.9	37	82	0	88	28	21	11	39	1.87
10053166--10053416	98	2.6	98	81	2	301	37	22	19	20	1.95
10055682--10055760	2	39.5	2	100	0	158	49	0	0	50	1.00
10058024--10058053	14	2.1	14	93	0	51	23	53	0	23	1.46
10059771--10059929	64	2.5	63	85	9	191	30	24	19	25	1.98
10059771--10059949	64	2.8	61	79	15	168	29	25	19	25	1.98
10067621--10067658	19	2.0	19	94	0	67	42	2	21	34	1.67
10068032--10068077	19	2.3	20	92	3	76	28	34	19	17	1.94
10068045--10068187	65	2.2	64	90	6	218	29	25	20	25	1.99
10068159--10068207	19	2.6	19	84	9	57	24	28	20	26	1.99
10073480--10073731	91	2.8	91	96	0	468	24	19	14	41	1.89
10073773--10074166	136	2.9	135	86	1	535	27	21	17	33	1.96
10074180--10074430	90	2.9	83	87	8	385	33	22	19	24	1.97
10074258--10074453	90	2.2	90	90	2	313	34	21	18	25	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10076366--10076418	2	27.0	2	96	3	99	49	0	0	50	1.00
10082102--10082140	15	2.6	15	95	0	69	25	5	43	25	1.75
10082210--10082351	45	3.2	45	69	7	126	32	1	33	32	1.67
10082129--10082360	90	2.6	90	88	1	313	31	2	34	31	1.70
10087306--10087396	39	2.3	39	86	0	119	21	26	17	34	1.96
10088731--10088853	41	3.0	41	87	0	174	21	20	20	37	1.95
10095668--10095747	24	3.4	24	72	16	60	62	5	1	31	1.24
10095686--10095765	23	3.5	22	75	16	65	62	6	0	31	1.20
10095754--10095794	22	2.0	19	86	13	55	60	4	0	34	1.18
10100129--10100286	21	7.8	20	72	7	86	39	24	17	18	1.92
10100253--10100523	20	13.5	20	84	2	292	39	24	16	19	1.92
10100272--10100523	101	2.5	101	83	7	282	38	25	16	19	1.92
10101206--10101252	24	2.0	24	87	8	69	25	14	21	38	1.92
10103732--10103882	33	4.4	34	74	20	143	45	17	23	13	1.84
10103746--10103934	19	10.7	19	78	17	219	44	17	22	14	1.85
10103732--10103934	52	3.9	52	98	0	379	44	17	23	14	1.85
10103765--10103928	33	4.8	33	75	16	163	45	17	22	14	1.84
10103943--10104040	19	5.4	19	84	13	143	14	22	17	45	1.84
10103924--10104040	53	2.2	53	96	1	218	13	24	17	43	1.86
10104147--10104183	14	2.6	14	91	0	65	45	21	0	32	1.52
10105336--10105425	14	5.7	14	72	23	72	44	22	24	8	1.81
10105328--10105442	33	3.5	33	100	0	230	46	20	23	9	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10105350--10105447	19	5.7	19	71	22	99	44	21	23	10	1.82
10105459--10105515	14	3.7	14	75	20	60	8	24	22	43	1.81
10105443--10105523	33	2.5	33	95	0	144	8	22	22	46	1.78
10105500--10105575	21	3.7	21	83	3	109	11	25	17	46	1.82
10105499--10105576	41	1.9	41	97	0	147	12	25	16	44	1.83
10105655--10105725	33	2.2	33	92	0	115	47	18	22	11	1.80
10105907--10105961	22	2.5	22	75	0	56	23	16	36	23	1.94
10106108--10106261	20	7.7	20	81	7	168	18	18	26	37	1.93
10106107--10106261	40	3.8	40	82	4	186	18	18	26	37	1.93
10106248--10106330	21	4.0	21	73	6	78	25	16	24	33	1.96
10106228--10106326	42	2.4	43	77	11	100	21	18	23	37	1.94
10112030--10112080	22	2.4	21	80	6	57	52	1	3	41	1.31
10112283--10112342	18	3.3	18	71	0	66	36	6	3	53	1.44
10112281--10112351	36	2.0	36	100	0	142	33	5	2	57	1.37
10114772--10114826	16	3.4	16	87	0	83	9	18	21	50	1.74
10124151--10124175	11	2.3	11	100	0	50	56	28	0	16	1.41
10136118--10136161	19	2.3	19	88	7	63	47	0	2	50	1.13
10138149--10138192	16	2.8	16	100	0	88	47	0	0	52	1.00
10139126--10139197	27	2.5	29	75	8	67	63	1	0	34	1.03
10139126--10139200	30	2.6	27	75	19	71	64	1	0	34	1.02
10140698--10140739	21	2.0	20	86	4	57	26	0	28	45	1.54
10141034--10141429	158	2.5	158	83	5	467	45	5	19	29	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10146775--10146854	38	2.1	38	88	4	117	47	10	18	23	1.79
10149193--10149219	14	1.9	14	100	0	54	18	22	22	37	1.95
10149838--10149871	14	2.4	14	100	0	68	0	50	0	50	1.00
10151555--10151679	32	3.9	32	88	4	173	33	17	21	27	1.96
10151573--10151713	64	2.2	64	82	3	167	31	17	24	26	1.97
10153357--10153407	23	2.2	23	82	6	68	27	27	25	19	1.99
10153423--10153640	103	2.1	103	95	0	391	37	23	13	25	1.92
10154089--10154216	64	2.0	67	90	7	210	26	19	19	34	1.96
10154101--10154243	64	2.2	64	84	8	175	27	20	16	35	1.94
10160351--10160404	23	2.3	23	81	6	65	33	25	22	18	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