genome.fa.s9605.2.7.7.80.10.50.1000.27.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: VEPZ01009605.1 Hibiscus syriacus cultivar Beakdansim tig00116989_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  9158330

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   

This is table  27  of  35  ( 4090 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)
6428395--6428462	20	3.3	20	73	18	77	27	4	10	57	1.51
6429171--6429210	20	2.0	20	90	0	62	35	22	22	20	1.96
6430734--6430801	20	3.3	20	76	11	84	27	4	8	58	1.47
6431510--6431549	20	2.0	20	90	0	62	37	22	20	20	1.94
6433073--6433140	20	3.3	20	73	18	77	27	4	10	57	1.51
6435267--6435356	45	2.0	46	93	2	155	25	20	26	27	1.99
6443387--6443438	19	2.7	19	96	0	95	26	21	30	21	1.98
6443467--6443557	45	2.0	45	86	2	128	26	17	25	30	1.97
6444192--6444232	22	1.9	21	85	5	55	26	9	9	53	1.65
6444219--6444283	20	3.2	20	70	20	62	29	7	10	52	1.64
6449835--6449884	22	2.3	22	79	6	57	8	16	10	66	1.44
6452649--6452715	20	3.3	20	68	25	59	26	5	11	55	1.59
6455002--6455110	20	5.3	20	70	23	93	26	5	11	56	1.55
6455000--6455110	41	2.7	41	98	0	213	27	6	10	55	1.58
6455823--6455862	20	2.0	20	85	0	53	35	25	20	20	1.96
6457398--6457465	20	3.3	20	70	25	70	26	4	11	57	1.53
6458177--6458216	20	2.0	20	95	0	71	37	25	20	17	1.94
6461490--6461519	13	2.4	12	94	5	51	23	30	3	43	1.70
6467845--6467873	15	2.0	15	93	6	51	0	20	3	75	0.94
6470431--6470497	20	3.3	20	73	19	75	28	4	10	56	1.52
6471198--6471237	20	2.0	20	95	0	71	37	25	20	17	1.94
6472752--6472836	20	4.1	21	75	11	77	29	3	7	60	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6473301--6473416	40	2.8	40	85	7	162	40	19	17	22	1.91
6473291--6473417	41	3.1	40	83	8	168	40	19	18	22	1.92
6476283--6476331	20	2.3	21	93	6	66	12	26	0	61	1.31
6476292--6476331	20	2.0	20	100	0	80	10	25	0	65	1.24
6481913--6481952	20	2.0	20	95	0	71	12	22	0	65	1.26
6485794--6485833	19	2.1	19	95	0	71	30	40	0	30	1.57
6488039--6488120	23	3.7	22	81	10	96	20	25	29	24	1.99
6492670--6492733	8	8.1	8	80	16	80	84	10	4	0	0.76
6492673--6492732	7	7.9	7	79	17	66	85	10	5	0	0.75
6492670--6492732	15	4.1	16	88	11	96	84	11	4	0	0.77
6492672--6492734	32	2.1	29	91	8	99	85	9	4	0	0.72
6499675--6499708	14	2.5	14	90	4	52	85	0	14	0	0.60
6503898--6503938	15	2.7	15	96	3	73	82	7	9	0	0.83
6503914--6503952	20	2.0	20	89	0	60	79	10	10	0	0.94
6503916--6503959	10	4.4	10	80	11	54	75	13	11	0	1.06
6511171--6511233	8	7.9	8	79	13	76	0	6	9	84	0.79
6511170--6511232	15	3.9	16	84	12	85	0	7	9	82	0.84
6519424--6519524	41	2.5	41	93	0	166	39	21	18	19	1.92
6529211--6529239	15	2.0	15	93	6	51	75	3	20	0	0.94
6534514--6534602	29	3.0	29	78	16	94	37	15	24	22	1.93
6534526--6534602	29	2.6	30	84	10	97	36	15	25	22	1.93
6542612--6542704	29	3.1	29	79	17	102	34	16	26	22	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6542612--6542704	30	3.1	29	84	6	107	34	16	26	22	1.95
6544637--6544740	33	3.1	33	82	9	95	30	36	1	30	1.69
6549052--6549155	33	3.1	33	82	9	95	30	36	1	30	1.69
6561116--6561490	187	2.0	188	99	0	743	28	20	20	30	1.97
6562744--6562771	10	2.8	10	100	0	56	28	10	32	28	1.90
6564626--6564677	25	2.1	24	85	3	68	57	15	9	17	1.64
6567941--6567973	11	3.1	11	86	4	50	12	6	9	72	1.26
6571797--6571832	12	3.1	12	88	4	56	11	13	8	66	1.44
6579142--6579174	14	2.4	14	90	10	50	0	21	0	78	0.75
6587582--6587624	23	1.9	21	81	13	50	34	13	18	32	1.90
6592977--6593377	201	2.0	201	97	0	757	33	20	17	28	1.95
6601399--6601467	33	2.1	33	83	5	86	31	1	36	30	1.67
6605442--6605479	14	2.8	13	88	7	58	0	18	2	78	0.86
6605835--6605904	34	2.1	33	83	2	86	31	1	35	31	1.67
6613097--6613138	11	3.6	12	81	12	52	0	9	7	83	0.81
6625387--6625438	19	2.6	21	84	6	72	48	5	13	32	1.66
6628811--6628839	5	5.8	5	100	0	58	0	17	0	82	0.66
6628808--6628858	15	3.1	16	81	16	59	1	19	1	76	0.98
6629555--6629605	20	2.6	20	87	3	77	49	5	13	31	1.66
6630512--6630568	30	1.9	30	85	0	78	59	8	5	26	1.48
6631829--6631881	26	2.1	25	89	10	81	22	39	3	33	1.72
6632168--6632578	205	2.0	205	96	2	756	33	18	16	31	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6633581--6633628	19	2.5	20	83	10	64	47	6	12	33	1.66
6651285--6651314	13	2.4	13	94	5	53	43	0	30	26	1.55
6654130--6654242	36	3.2	36	92	1	174	32	36	3	27	1.74
6654130--6654228	13	8.3	11	71	23	67	31	36	3	29	1.73
6654142--6654281	36	4.1	33	83	9	97	30	36	2	30	1.72
6657119--6657163	24	2.0	23	82	8	56	37	22	20	20	1.94
6658656--6658768	36	3.2	36	92	1	174	32	36	3	27	1.74
6658656--6658754	13	8.3	11	71	23	67	31	36	3	29	1.73
6658668--6658807	36	4.1	33	83	9	97	30	36	2	30	1.72
6661436--6661490	14	4.0	14	90	2	85	34	0	40	25	1.56
6661436--6661490	28	2.0	27	96	3	101	34	0	40	25	1.56
6666596--6666631	10	3.6	10	100	0	72	0	27	0	72	0.85
6670599--6670636	11	3.5	11	79	13	51	28	5	34	31	1.80
6670593--6670645	22	2.3	23	93	3	90	26	5	37	30	1.79
6674194--6674233	20	2.0	20	95	0	71	65	0	22	12	1.26
6674390--6674490	36	2.8	35	89	1	139	28	4	36	29	1.78
6676123--6676173	19	2.6	20	87	3	68	45	5	15	33	1.71
6677961--6678035	24	3.1	24	75	5	62	34	17	16	32	1.92
6679366--6679464	13	8.3	11	71	24	67	29	3	37	30	1.72
6679349--6679464	36	3.2	36	93	1	198	29	3	37	30	1.74
6679806--6679848	19	2.2	20	87	4	61	48	6	9	34	1.62
6683171--6683206	15	2.4	15	90	0	54	55	0	25	19	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6683365--6683463	13	8.3	11	71	24	67	29	3	37	30	1.72
6683348--6683463	36	3.2	36	93	1	198	29	3	37	30	1.74
6683805--6683847	19	2.2	20	87	4	61	48	6	9	34	1.62
6685541--6685581	16	2.5	17	80	11	50	68	7	9	14	1.39
6689852--6689902	20	2.7	19	87	6	68	0	7	11	80	0.90
6694073--6694160	9	9.3	9	77	9	86	17	27	29	26	1.97
6694072--6694153	10	8.7	9	72	9	65	18	26	29	25	1.98
6694072--6694144	19	3.8	19	98	0	137	17	26	30	26	1.98
6694154--6694194	17	2.4	17	91	0	64	17	39	24	19	1.92
6694184--6694214	7	4.4	7	91	0	53	16	25	29	29	1.96
6701406--6701458	10	5.5	10	80	8	65	16	22	32	28	1.96
6701394--6701460	10	7.0	9	77	11	62	16	23	31	28	1.96
6701394--6701460	19	3.5	19	91	2	98	16	23	31	28	1.96
6701454--6701494	17	2.4	17	91	0	64	17	39	24	19	1.92
6705661--6705701	19	2.1	20	86	13	59	19	7	0	73	1.07
6705928--6705980	2	26.5	2	100	0	106	50	0	0	49	1.00
6707589--6707635	25	2.0	23	87	8	67	6	19	4	70	1.26
6715451--6715797	172	2.0	174	98	1	680	29	17	21	30	1.96
6719253--6719301	24	2.1	24	88	3	73	6	16	6	71	1.27
6719330--6719379	6	8.2	6	84	8	66	0	18	4	78	0.91
6723888--6723945	28	2.1	27	83	3	71	8	15	15	60	1.58
6725836--6726215	201	1.9	201	98	0	733	28	17	20	33	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6728324--6728378	24	2.3	24	70	14	60	7	14	10	67	1.41
6740748--6740793	24	1.9	24	82	8	58	28	19	19	32	1.96
6741088--6741147	30	2.0	31	83	3	77	26	8	10	55	1.61
6742001--6742051	19	2.6	20	96	3	95	35	15	5	43	1.71
6743077--6743744	332	2.0	336	98	1	1308	34	14	21	29	1.92
6745462--6745521	30	2.0	31	83	3	77	26	8	10	55	1.61
6745578--6746059	237	2.0	237	97	0	921	27	21	11	39	1.88
6746652--6746702	20	2.6	20	90	3	77	35	15	5	43	1.71
6746741--6746916	88	2.0	88	100	0	352	32	19	11	36	1.87
6748582--6748641	23	2.5	26	82	15	76	11	18	8	61	1.54

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