genome.fa.s7984.2.7.7.80.10.50.1000.32.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: VEPZ01007984.1 Hibiscus syriacus cultivar Beakdansim tig00110429_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12923621

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   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   

This is table  32  of  65  ( 7696 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)
6461799--6461848	24	2.1	24	85	7	66	80	4	4	12	1.00
6471682--6471748	33	2.0	33	100	0	134	35	26	10	26	1.89
6474388--6474424	19	1.9	19	100	0	74	37	5	29	27	1.79
6488379--6488475	44	2.1	48	86	7	139	28	11	19	40	1.86
6498201--6498247	21	2.3	20	82	10	60	68	2	25	4	1.19
6498184--6498264	27	3.2	27	73	21	77	71	1	23	3	1.09
6499402--6499811	51	8.0	51	95	1	685	28	15	27	28	1.96
6499416--6499918	51	9.6	56	91	2	246	29	15	25	29	1.96
6499722--6499920	55	3.6	55	82	8	217	29	16	23	31	1.96
6499723--6499945	55	4.0	55	81	6	186	29	16	22	32	1.95
6516679--6516754	32	2.4	32	100	0	152	15	13	18	52	1.74
6517576--6517614	19	2.1	19	90	0	60	2	12	15	69	1.30
6523529--6523641	41	2.8	41	84	8	124	38	24	17	19	1.93
6523551--6523673	61	2.0	61	89	7	187	39	22	17	19	1.92
6523551--6523721	20	8.4	20	78	9	150	38	21	18	21	1.93
6523551--6523721	40	4.2	41	81	3	186	38	21	18	21	1.93
6524285--6524360	20	3.8	20	76	1	80	53	17	15	13	1.72
6524340--6524420	33	2.5	33	89	0	117	48	20	19	11	1.79
6524416--6524561	19	8.1	19	71	17	114	12	21	19	45	1.83
6524438--6524533	33	2.9	33	88	1	138	11	20	23	43	1.85
6524421--6524559	20	7.7	20	68	22	67	12	20	20	46	1.82
6526258--6526637	94	4.1	94	94	1	638	21	12	18	47	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6526728--6526804	19	4.3	19	79	15	92	44	22	23	10	1.83
6526760--6526818	14	3.9	14	74	20	55	49	22	20	8	1.75
6526745--6526823	33	2.4	33	93	0	131	46	21	21	10	1.80
6526830--6526912	19	4.6	19	78	14	104	12	22	20	44	1.84
6530327--6530380	24	2.2	24	90	0	81	40	18	18	22	1.91
6531121--6531450	20	16.5	19	84	7	338	20	18	21	39	1.93
6531121--6531450	40	8.2	40	91	3	414	20	18	21	39	1.93
6531121--6531450	60	5.5	60	86	3	414	20	18	21	39	1.93
6531181--6531491	40	7.7	41	88	4	152	20	18	22	38	1.94
6531478--6531532	20	2.8	20	91	5	85	12	18	23	45	1.83
6531567--6531620	20	2.7	19	75	8	63	16	18	31	33	1.93
6533357--6533412	18	3.2	18	79	2	60	53	12	21	12	1.71
6533405--6533433	14	2.0	15	93	6	51	55	6	27	10	1.59
6534330--6534386	21	2.7	21	94	0	105	36	14	15	33	1.88
6534845--6535144	54	5.6	54	95	0	528	33	12	16	38	1.86
6536297--6536861	116	4.9	116	82	3	649	40	15	21	23	1.91
6536297--6536861	232	2.4	231	84	3	726	40	15	21	23	1.91
6538618--6538642	2	12.5	2	100	0	50	52	0	0	48	1.00
6540460--6540517	21	2.8	21	78	17	59	37	13	13	34	1.85
6542480--6542538	30	2.0	29	83	3	73	35	8	22	33	1.84
6542737--6542835	46	2.2	46	82	8	114	19	23	23	34	1.97
6542767--6542835	23	3.0	23	80	0	93	18	24	24	31	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6543216--6543264	2	24.5	2	100	0	98	48	0	0	51	1.00
6544510--6544589	21	3.9	21	73	6	83	20	37	26	16	1.93
6544941--6545010	34	2.1	32	84	10	88	32	15	28	22	1.95
6545982--6546025	15	3.0	14	83	6	52	61	2	34	2	1.21
6547967--6548027	21	2.9	21	87	0	86	21	37	26	14	1.92
6548381--6548450	34	2.1	32	84	10	88	32	15	28	22	1.95
6552246--6552304	30	2.0	29	83	3	73	35	8	22	33	1.84
6552535--6552602	23	3.0	23	82	0	91	19	25	25	30	1.98
6557789--6557833	23	2.0	23	86	0	63	26	26	26	20	1.99
6566722--6567098	75	5.0	74	81	10	374	44	3	7	44	1.50
6566724--6567118	37	10.7	37	81	9	391	44	3	7	44	1.49
6566724--6567118	112	3.6	110	81	9	430	44	3	7	44	1.49
6568456--6568512	26	2.2	26	84	6	71	31	5	1	61	1.28
6571781--6571815	2	17.5	2	100	0	70	48	0	0	51	1.00
6571807--6572005	95	2.1	95	86	0	272	33	15	17	33	1.92
6573181--6573915	84	8.8	83	83	4	813	33	23	18	23	1.97
6574706--6575001	37	8.0	36	82	9	296	44	3	5	46	1.44
6574602--6575001	75	5.4	73	82	8	391	43	4	7	45	1.51
6574596--6574989	112	3.6	109	81	10	401	44	4	7	44	1.51
6575015--6575060	3	14.3	3	86	13	65	32	0	0	67	0.91
6575015--6575060	10	4.7	10	91	2	76	32	0	0	67	0.91
6575015--6575061	13	3.6	13	88	5	69	31	0	0	68	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6576296--6576355	30	1.9	32	87	12	90	23	3	3	70	1.18
6576403--6576461	24	2.5	24	76	15	59	22	6	0	71	1.09
6587915--6587941	3	9.0	3	100	0	54	66	0	0	33	0.92
6589388--6589430	15	2.9	14	80	19	52	41	0	2	55	1.12
6592101--6592206	31	3.4	31	88	0	149	17	26	31	24	1.97
6603523--6603640	21	5.7	21	70	6	71	34	26	17	21	1.95
6603628--6603836	20	10.4	20	85	5	235	36	26	17	20	1.94
6604527--6604573	24	2.0	24	87	8	69	25	14	21	38	1.92
6604748--6604772	12	2.1	12	100	0	50	72	0	28	0	0.86
6607054--6607252	33	5.7	34	74	17	167	46	18	22	13	1.83
6607068--6607290	53	4.2	52	95	1	367	45	17	21	14	1.85
6607068--6607281	19	12.2	19	75	20	225	46	17	21	14	1.84
6607054--6607233	86	2.1	84	86	12	242	46	18	22	13	1.83
6607121--6607281	33	4.7	33	74	17	157	45	17	22	14	1.84
6607283--6607396	53	2.2	53	98	1	221	14	23	17	44	1.85
6607299--6607396	19	5.4	19	84	13	143	14	22	17	45	1.84
6607503--6607539	14	2.6	14	91	0	65	45	21	0	32	1.52
6609512--6609567	14	3.7	14	72	25	51	46	21	21	10	1.81
6609493--6609584	32	2.8	33	91	3	159	47	20	20	10	1.80
6609456--6609589	19	7.6	19	75	18	119	46	23	19	11	1.82
6609585--6609680	19	5.3	19	79	13	103	9	15	27	47	1.76
6609728--6610010	93	3.1	93	96	0	532	46	18	12	22	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6611701--6611765	21	3.1	21	80	4	87	49	15	24	10	1.76
6611807--6611863	14	3.7	14	72	20	51	10	24	21	43	1.83
6611791--6611871	33	2.5	33	93	0	135	9	22	20	46	1.80
6611848--6611923	21	3.7	21	83	3	109	11	25	17	46	1.82
6611847--6611924	41	1.9	41	97	0	147	12	25	16	44	1.83
6612003--6612073	33	2.2	33	94	0	124	47	16	23	11	1.79
6612453--6612626	20	8.6	20	84	5	226	20	18	27	34	1.95
6612594--6612645	20	2.6	21	87	6	72	13	17	26	42	1.86
6612613--6612711	42	2.4	43	76	8	98	22	18	23	36	1.95
6612933--6612982	8	6.2	8	79	9	57	52	0	2	46	1.12
6612930--6612976	24	2.0	24	100	0	94	51	0	2	46	1.13
6621833--6621933	45	2.3	44	86	5	132	38	7	24	28	1.84
6622718--6622789	30	2.4	31	83	4	85	62	23	11	2	1.41
6623066--6623109	22	2.0	22	100	0	88	36	18	4	40	1.71
6623112--6623187	28	2.7	27	80	13	91	35	7	17	39	1.78
6623224--6623280	22	2.6	22	97	0	105	29	14	15	40	1.87
6625803--6625831	12	2.3	13	94	5	51	0	10	6	82	0.83
6625849--6625909	23	2.7	23	84	0	77	6	24	24	44	1.77
6627257--6627314	20	2.9	20	75	10	73	37	32	10	18	1.85
6630710--6630761	20	2.6	20	96	0	95	42	5	21	30	1.76
6634893--6635108	76	2.9	75	86	3	272	32	0	9	56	1.38
6635782--6635831	19	2.5	20	81	18	61	22	8	0	70	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6644199--6644233	13	2.7	13	86	0	52	11	25	0	62	1.28
6646804--6646846	20	2.2	20	86	0	59	30	13	20	34	1.92
6650499--6650553	26	2.1	26	93	6	94	30	12	30	25	1.93
6651675--6651738	23	2.8	23	90	0	110	34	26	23	15	1.95
6657088--6657125	20	1.9	20	88	0	58	39	18	18	23	1.92
6657231--6657289	30	2.0	29	83	3	73	33	22	6	37	1.80
6669647--6669701	25	2.3	25	78	15	62	1	30	1	65	1.13
6678681--6678736	11	5.4	11	72	20	57	39	1	0	58	1.08
6678698--6678733	17	2.2	16	90	5	54	38	2	0	58	1.13
6678684--6678739	20	2.7	21	77	5	69	37	1	0	60	1.07

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   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65