genome.fa.s8087.2.7.7.80.10.50.1000.33.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: VEPZ01008087.1 Hibiscus syriacus cultivar Beakdansim tig00110597_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8279816

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   

This is table  33  of  37  ( 4336 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)
7354580--7354683	37	2.8	38	83	2	122	44	11	12	31	1.78
7355249--7355339	42	2.3	37	83	9	101	29	4	3	62	1.30
7355281--7355376	42	2.3	44	79	16	98	30	2	1	66	1.10
7355317--7355377	25	2.5	24	82	10	70	29	1	0	68	0.99
7355281--7355380	34	2.9	33	79	13	87	29	2	1	68	1.08
7359026--7359050	13	1.9	13	100	0	50	56	0	16	28	1.41
7359124--7359246	62	2.0	62	90	3	194	19	18	22	39	1.93
7359124--7359232	31	3.5	31	94	0	191	18	19	22	40	1.92
7359952--7360010	21	2.8	21	97	0	109	22	23	28	25	1.99
7360037--7360078	21	2.0	21	95	0	75	26	23	26	23	2.00
7360078--7360133	22	2.4	23	77	14	62	25	16	14	44	1.84
7361971--7362036	28	2.4	27	82	10	71	62	0	6	31	1.20
7364997--7365053	25	2.3	25	96	0	105	35	12	12	40	1.80
7369474--7369691	103	2.1	103	95	0	393	23	12	20	43	1.86
7372436--7372468	15	2.2	15	94	0	57	54	0	0	45	0.99
7379437--7379641	104	2.0	104	93	0	347	28	10	7	53	1.62
7383354--7383413	29	2.1	29	96	0	111	25	28	28	18	1.98
7383506--7383584	32	2.5	32	95	0	149	27	27	34	10	1.89
7383571--7383665	29	3.3	29	95	0	163	13	30	32	23	1.93
7383700--7383797	50	2.0	49	97	2	187	18	38	19	23	1.93
7383973--7384023	16	3.2	16	76	13	61	60	0	37	1	1.08
7384029--7384067	16	2.3	18	86	8	55	38	0	5	56	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7384172--7384262	45	2.0	47	85	12	127	40	0	10	48	1.38
7384303--7384379	34	2.3	33	82	10	95	41	0	11	46	1.40
7384425--7384471	16	3.0	16	84	9	53	29	0	10	59	1.31
7384446--7384476	15	2.1	14	94	5	53	38	0	6	54	1.26
7386625--7386657	17	1.9	17	93	0	57	45	12	6	36	1.66
7386867--7386906	14	2.9	14	88	3	55	47	5	2	45	1.38
7386849--7386958	13	8.9	12	75	14	73	49	4	2	43	1.37
7386865--7387092	26	9.2	26	72	12	165	46	8	2	42	1.49
7386881--7387150	124	2.2	123	91	2	436	45	9	2	42	1.48
7389994--7390054	26	2.4	24	76	15	59	42	1	6	49	1.38
7390290--7390352	18	3.4	18	73	4	72	50	11	0	38	1.38
7390422--7390448	14	1.9	14	100	0	54	74	14	3	7	1.18
7390419--7390451	17	1.9	17	88	11	50	72	15	3	9	1.21
7390847--7390895	21	2.3	21	82	3	62	51	18	0	30	1.47
7391327--7391394	35	1.9	35	93	0	118	25	16	30	27	1.96
7391434--7391458	12	2.1	12	100	0	50	24	60	0	16	1.36
7391452--7391522	29	2.4	29	97	0	133	19	33	25	21	1.97
7391708--7391759	22	2.4	22	96	3	97	38	34	26	0	1.57
7391767--7391852	29	3.0	29	100	0	172	19	27	38	13	1.90
7397556--7397588	17	2.0	17	88	5	50	51	0	0	48	1.00
7402948--7403063	4	29.5	4	72	16	64	72	0	7	19	1.09
7404244--7404861	84	7.4	84	79	5	637	25	20	23	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7404241--7404861	164	3.7	165	84	4	827	25	19	23	30	1.98
7408884--7408953	22	3.4	22	67	25	62	72	0	11	15	1.11
7408904--7408970	23	2.8	24	82	6	75	76	0	7	16	1.01
7408892--7408975	39	2.1	40	91	6	136	76	0	8	15	1.01
7414512--7414574	31	2.1	31	84	3	83	25	7	33	33	1.85
7414968--7415019	21	2.5	21	84	6	61	44	11	11	32	1.77
7414988--7415048	21	2.9	22	80	4	63	39	11	16	32	1.84
7415008--7415104	21	4.7	21	79	12	85	32	11	18	37	1.87
7415035--7415105	21	3.4	21	86	3	99	30	9	22	36	1.87
7417288--7417351	23	2.8	23	74	9	76	31	25	25	18	1.98
7417367--7417584	103	2.1	103	97	0	409	36	23	13	25	1.92
7421931--7422036	39	2.7	39	80	0	104	31	27	16	25	1.96
7423647--7423722	24	3.2	24	63	20	59	40	3	10	44	1.57
7423634--7423735	48	2.1	48	98	0	195	43	3	11	41	1.60
7429529--7429596	35	2.0	34	83	13	86	52	1	0	45	1.09
7432116--7432145	15	2.0	15	100	0	60	46	13	20	20	1.83
7452437--7452489	26	2.0	28	85	14	76	13	9	5	71	1.29
7454102--7454148	24	2.0	24	84	8	62	36	0	2	61	1.08
7454273--7454331	25	2.5	24	83	5	66	32	0	5	62	1.17
7455962--7456030	21	3.3	21	90	8	113	18	31	26	23	1.97
7456543--7456649	34	3.1	34	90	0	169	54	4	4	36	1.42
7457072--7457703	127	5.0	127	93	0	1077	34	20	23	21	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7457072--7457703	253	2.5	254	93	0	1086	34	20	23	21	1.97
7462495--7462547	21	2.5	21	81	0	61	22	24	18	33	1.97
7462539--7462610	20	3.5	20	76	10	83	37	18	20	23	1.94
7462787--7462848	18	3.0	22	72	18	69	25	38	16	19	1.92
7463218--7463267	20	2.5	20	90	0	73	12	12	24	52	1.72
7463232--7463275	20	2.2	20	83	0	52	13	11	20	54	1.69
7465159--7465242	20	4.5	20	74	17	99	42	21	17	17	1.89
7465159--7465264	54	2.0	53	92	1	176	45	19	17	16	1.86
7465289--7465335	20	2.3	20	88	0	67	21	19	23	36	1.95
7465309--7465405	33	2.9	34	81	3	133	12	18	22	46	1.82
7467346--7467398	14	3.9	13	76	9	52	33	0	18	47	1.49
7467486--7467581	33	2.8	33	87	3	129	41	20	22	14	1.89
7467587--7467653	33	2.0	34	91	2	109	14	23	16	44	1.85
7467593--7467672	33	2.4	33	85	4	99	15	23	20	41	1.89
7467647--7467732	20	4.3	20	84	10	115	18	19	24	37	1.94
7467645--7467751	40	2.8	39	84	12	136	18	21	24	35	1.96
7470014--7470065	24	2.2	24	82	0	59	36	21	19	23	1.95
7470884--7470930	20	2.3	20	88	0	67	23	21	23	31	1.98
7470893--7470934	20	2.1	20	95	0	75	23	26	19	30	1.98
7470924--7470969	20	2.3	20	96	0	83	23	21	21	32	1.98
7470957--7471032	21	3.6	21	92	0	116	34	18	26	21	1.96
7475852--7475913	24	2.6	24	76	5	63	51	11	6	30	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7480313--7480358	20	2.3	20	96	0	83	26	6	30	36	1.82
7481272--7481409	36	4.0	34	83	4	161	40	18	21	19	1.92
7481541--7481590	20	2.5	20	87	3	75	28	6	28	38	1.80
7482500--7482631	36	3.8	34	83	3	165	36	18	24	20	1.95
7494022--7494053	2	16.0	2	93	0	55	50	3	0	46	1.17
7494185--7494217	16	2.0	17	88	5	50	33	6	0	60	1.21
7494870--7494935	29	2.2	29	83	5	78	39	13	13	33	1.84
7496068--7496125	26	2.2	26	100	0	116	27	34	17	20	1.95
7496156--7496216	22	2.6	25	79	10	83	42	22	0	34	1.54
7499898--7499981	26	3.5	23	71	20	73	72	2	3	21	1.11
7499891--7500042	49	3.1	48	77	15	118	67	1	3	26	1.16
7500445--7500589	37	3.9	37	90	0	236	34	11	13	41	1.79
7501350--7501717	190	1.9	190	94	0	655	25	17	26	30	1.97
7501920--7502314	110	3.7	110	85	8	562	25	16	23	34	1.95
7502079--7502283	100	2.0	100	92	1	340	21	17	23	37	1.94
7507063--7507123	31	1.9	32	87	9	90	72	1	6	19	1.16
7507160--7507324	4	41.5	4	69	19	69	71	1	1	25	1.03
7507207--7507299	34	2.7	34	84	12	86	68	1	2	27	1.07
7507158--7507269	49	2.3	49	86	8	158	73	0	1	25	0.93
7507160--7507278	52	2.3	52	84	13	156	73	0	1	23	0.97
7507223--7507299	34	2.3	34	86	13	106	66	1	2	29	1.13
7507221--7507336	38	3.0	40	72	17	100	67	2	1	28	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7507171--7507338	42	4.0	40	77	12	160	69	1	1	27	1.09
7507246--7507365	44	2.9	42	77	13	115	63	3	2	30	1.24
7507360--7507405	24	2.0	23	83	12	58	67	2	8	21	1.29
7510895--7510927	6	5.3	6	96	3	57	33	18	33	15	1.92
7513818--7513930	60	1.9	60	83	7	149	38	11	12	37	1.79
7515176--7515209	17	1.9	18	88	5	52	26	32	26	14	1.95
7522911--7523023	59	1.9	60	94	1	201	43	17	23	15	1.87
7523062--7523178	43	2.7	43	84	2	137	27	18	24	29	1.98
7523211--7523339	44	3.0	43	80	6	145	29	17	23	29	1.97
7523211--7523404	86	2.2	87	78	8	198	29	17	22	29	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