genome.fa.s9624.2.7.7.80.10.50.1000.35.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: VEPZ01009624.1 Hibiscus syriacus cultivar Beakdansim tig00117016_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8249038

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   

This is table  35  of  38  ( 4514 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)
7240237--7240294	19	3.1	19	78	9	57	60	1	1	36	1.17
7241824--7242028	110	1.9	110	87	2	304	21	18	24	34	1.96
7243033--7243063	16	1.9	16	100	0	62	6	9	6	77	1.12
7253374--7253552	16	10.7	17	67	18	58	65	2	4	26	1.25
7253360--7253486	33	3.9	32	74	11	105	70	3	3	21	1.19
7253386--7253443	14	3.8	15	72	24	50	72	6	3	17	1.21
7253448--7253524	16	4.8	16	75	23	72	66	1	1	31	1.08
7253464--7253525	31	2.0	31	87	12	92	62	1	0	35	1.05
7263409--7263438	15	2.0	15	100	0	60	26	26	20	26	1.99
7263958--7264034	6	12.8	6	74	10	59	18	12	36	32	1.89
7263966--7264051	30	2.9	30	96	0	154	19	12	34	32	1.90
7268370--7268418	23	2.2	23	96	3	91	18	24	36	20	1.94
7284038--7284319	47	6.0	47	83	3	361	20	21	11	46	1.82
7284040--7284319	94	3.0	94	93	0	452	21	21	11	46	1.82
7284153--7284286	27	5.5	27	63	28	84	20	20	12	47	1.82
7284710--7284827	22	5.6	21	71	15	93	22	26	16	34	1.95
7284711--7284826	43	2.7	42	87	7	148	23	25	16	34	1.95
7291133--7291341	47	4.4	47	86	0	301	22	23	12	41	1.88
7297432--7297675	131	1.9	131	80	5	287	34	15	18	31	1.92
7299419--7299474	2	28.0	2	89	7	87	48	0	3	48	1.19
7301951--7302268	156	2.0	160	96	3	592	41	14	17	26	1.88
7303865--7303919	20	2.8	20	88	0	74	40	10	23	25	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7309011--7309052	20	2.1	20	90	0	66	54	11	14	19	1.70
7310641--7310807	59	2.8	60	91	1	266	37	17	10	33	1.85
7311136--7311214	20	3.8	21	80	8	90	29	30	11	29	1.92
7311177--7311335	74	2.1	74	88	2	230	30	23	17	28	1.97
7311252--7311433	95	1.9	95	85	1	249	28	21	15	34	1.94
7315485--7315539	20	2.8	20	94	0	92	27	27	29	16	1.97
7323470--7323984	79	6.5	79	90	0	789	30	25	11	32	1.91
7325755--7325813	2	29.5	2	100	0	118	49	0	0	50	1.00
7327594--7327742	81	1.8	81	88	2	228	28	25	9	36	1.87
7328198--7328717	79	6.6	79	88	0	754	30	23	10	35	1.89
7330144--7330539	59	6.7	59	91	0	623	37	17	10	33	1.85
7330870--7330922	22	2.5	20	85	11	79	26	30	15	28	1.96
7330870--7331065	98	2.0	99	84	5	254	28	21	18	31	1.97
7331060--7331110	20	2.8	18	88	11	77	21	31	17	29	1.96
7331028--7331163	71	1.9	71	87	3	202	27	20	18	33	1.96
7340100--7340151	9	5.8	9	88	6	70	40	0	0	59	0.97
7340097--7340142	3	15.7	3	86	4	67	36	0	0	63	0.95
7341524--7341562	18	2.1	19	85	4	53	28	0	2	69	1.02
7341468--7341576	41	2.7	42	74	17	97	26	2	3	66	1.21
7341549--7341579	9	3.4	9	95	0	53	25	0	0	74	0.82
7341571--7341603	14	2.3	15	89	5	50	48	3	0	48	1.17
7353028--7353071	14	3.1	14	83	6	61	72	0	18	9	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7354656--7354716	17	3.3	17	71	20	59	49	8	22	19	1.75
7354624--7355182	113	4.9	112	81	9	560	38	13	19	28	1.90
7354661--7355065	225	1.8	225	88	3	627	38	13	19	28	1.89
7355526--7355609	3	28.3	3	97	2	161	32	0	0	67	0.91
7357261--7357305	18	2.5	19	85	7	58	31	2	0	66	1.04
7359973--7360619	183	3.5	181	89	2	927	42	13	15	28	1.85
7362685--7362733	18	2.7	18	77	0	53	30	6	53	10	1.59
7368169--7368201	17	1.9	17	93	0	57	36	0	33	30	1.58
7368243--7368275	16	1.9	18	88	11	52	72	0	15	12	1.12
7368484--7368523	14	2.9	14	85	10	55	0	17	2	80	0.83
7368486--7368521	17	2.1	17	90	10	56	0	19	2	77	0.88
7373697--7374839	200	5.7	200	89	2	1604	39	13	15	30	1.87
7375130--7375192	18	3.8	16	78	16	65	25	38	6	30	1.81
7375496--7375521	2	13.0	2	100	0	52	50	0	0	50	1.00
7376324--7376359	12	3.0	12	91	0	54	44	8	27	19	1.79
7376326--7376365	18	2.2	18	86	0	53	45	5	30	20	1.72
7376338--7376381	3	14.7	3	80	0	52	38	2	29	29	1.69
7376338--7376377	18	2.2	18	90	0	62	40	2	30	27	1.70
7378826--7378859	17	2.1	16	88	5	50	76	0	8	14	1.01
7390873--7391498	200	3.1	200	89	1	950	37	13	16	32	1.88
7392165--7392205	15	2.7	15	96	0	73	43	2	26	26	1.67
7393268--7393293	2	13.0	2	100	0	52	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7393917--7393966	23	2.2	23	88	0	73	32	16	10	42	1.81
7393792--7394166	158	2.4	158	90	0	579	33	11	12	42	1.79
7394065--7394124	23	2.6	23	86	0	75	33	11	8	46	1.70
7398468--7398537	17	4.2	16	78	12	70	37	14	8	40	1.76
7407631--7407668	14	2.6	15	95	4	69	52	0	0	47	1.00
7407693--7407748	2	28.5	2	96	3	105	51	0	0	48	1.00
7408675--7408931	75	3.4	75	85	0	318	38	12	14	34	1.84
7408906--7408999	23	4.1	23	90	2	127	35	17	13	34	1.89
7408914--7408999	45	1.9	45	90	0	136	33	17	12	36	1.88
7409286--7409321	17	2.1	17	100	0	72	47	5	5	41	1.50
7409578--7410027	108	4.1	108	74	11	331	33	14	14	37	1.87
7413091--7413174	22	3.8	22	95	1	141	27	22	20	29	1.98
7420002--7420057	22	2.5	22	97	2	103	21	23	23	32	1.98
7420958--7421028	3	23.7	3	94	0	124	33	2	0	63	1.09
7422999--7423055	30	1.9	30	92	0	96	40	7	7	45	1.58
7423069--7423918	54	15.8	54	71	18	484	52	12	0	34	1.41
7423081--7423129	22	2.2	22	85	3	62	55	12	0	32	1.37
7423084--7423399	80	3.9	80	91	3	499	53	13	0	32	1.43
7423217--7423290	22	3.2	22	70	16	60	55	17	0	27	1.42
7423325--7423367	22	2.0	22	100	0	86	51	13	0	34	1.42
7423327--7423375	22	2.2	22	88	3	71	55	14	0	30	1.40
7423379--7423421	22	2.0	22	95	0	77	51	11	0	37	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7423381--7423429	22	2.2	22	85	3	62	55	12	0	32	1.37
7423384--7423846	80	5.8	80	81	8	523	53	12	0	33	1.42
7423517--7423590	22	3.2	22	68	20	60	58	14	0	27	1.37
7423595--7423669	22	3.2	22	71	14	69	56	17	0	26	1.42
7423729--7423777	22	2.2	22	85	3	62	55	12	2	30	1.48
7423084--7423801	380	1.9	378	87	5	1072	53	13	0	33	1.43
7423781--7423918	22	6.5	22	69	15	92	50	7	0	42	1.32
7423826--7424010	15	11.5	15	77	15	183	50	2	0	47	1.13
7423800--7423995	37	4.3	46	71	20	135	49	4	0	46	1.20
7426797--7426837	9	4.6	9	93	6	66	90	9	0	0	0.46
7426789--7426837	1	49.0	1	79	0	53	89	8	2	0	0.55
7432129--7432231	25	4.1	25	81	7	102	39	16	0	43	1.48
7434998--7435032	2	17.5	2	100	0	70	51	0	0	48	1.00
7437604--7437678	3	24.0	3	78	8	69	42	0	0	57	0.98
7437598--7437651	15	3.6	15	84	0	63	42	0	0	57	0.98
7438503--7438866	139	2.6	139	93	1	606	37	7	8	45	1.63
7441751--7441791	7	5.9	7	83	11	57	14	17	9	58	1.62
7446778--7447118	115	3.0	115	96	1	607	34	14	20	31	1.93
7449487--7449563	22	3.5	22	92	0	136	35	11	14	38	1.82
7450078--7450401	165	2.0	167	90	2	519	35	13	12	38	1.83
7450407--7451122	75	9.6	75	95	1	1251	21	20	22	35	1.96
7450407--7451122	298	2.4	300	95	1	1262	21	20	22	35	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7451056--7451157	45	2.3	45	92	0	168	23	20	19	36	1.95
7451294--7451368	3	24.0	3	81	8	78	41	0	0	58	0.98
7451288--7451336	15	3.3	15	82	8	64	40	0	0	59	0.98
7452595--7452633	20	2.0	20	85	10	53	23	2	5	69	1.21
7452771--7453134	134	2.7	136	89	5	558	36	8	8	46	1.64
7455444--7455487	17	2.6	17	77	0	52	59	0	0	40	0.98
7455594--7455618	7	3.6	7	100	0	50	12	0	24	64	1.27
7457005--7457055	24	2.1	25	82	13	63	58	0	5	35	1.22
7457163--7457211	19	2.8	17	77	14	55	57	0	2	40	1.10
7457163--7457232	37	1.9	37	88	5	108	57	0	1	41	1.08

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